pax_global_header00006660000000000000000000000064131331423420014506gustar00rootroot0000000000000052 comment=2c9381a69a96b2837490c8823018dd5e816e6400 adapterremoval-2.2.2/000077500000000000000000000000001313314234200145175ustar00rootroot00000000000000adapterremoval-2.2.2/.gitignore000066400000000000000000000000351313314234200165050ustar00rootroot00000000000000build googletest-release* *~ adapterremoval-2.2.2/.travis.yml000066400000000000000000000006611313314234200166330ustar00rootroot00000000000000language: cpp dist: trusty compiler: - clang - gcc os: - linux - osx addons: apt: packages: - zlib1g-dev - libbz2-dev before_install: - pip install --user cpp-coveralls install: true script: - make - make test COVERAGE=yes - make validate - PATH=$PATH:$PWD/build/ make -C examples after_success: - coveralls --exclude tests --exclude googletest-release-1.8.0 --gcov-options '\-lp' adapterremoval-2.2.2/AdapterRemoval.pod000066400000000000000000000756561313314234200201540ustar00rootroot00000000000000#!/usr/bin/perl -w =head1 NAME AdapterRemoval - Remove adapters from sequences in either single end or paired end experiments =head1 SYNOPSIS B --file1 filenames [--file2 filenames] [--interleaved] [--interleaved-input] [--interleaved-output] [--combined-output] [--basename filename] [--identify-adapters] [--trimns] [--maxns max] [--trimqualities] [--trimwindows length] [--minquality minimum] [--collapse] [--version] [--mm mismatchrate] [--minlength len] [--minalignmentlength len] [--qualitybase base] [--qualitybase-output base] [--shift num] [--adapter1 sequence] [--adapter2 sequence] [--adapter-list filename] [--barcode-list filename] [--barcode-mm num] [--barcode-mm-r1 num] [--barcode-mm-r2 num] [--demultiplex-only] [--output1 filename] [--output2 filename] [--singleton filename] [--outputcollapsed filename] [--outputcollapsedtruncated filename] [--discarded filename] [--settings filename] [--seed seed] [--gzip] [--gzip-level level] [--threads num] [--version] [--help] =head1 DESCRIPTION B reads either one FASTQ file (single ended mode) or two FASTQ files (paired ended mode). It removes the residual adapter sequence from the reads and optionally trims Ns from the reads, and low qualities bases using the quality string, and collapses overlapping paired ended mates into one read. Reads are discarded if the remaining genomic part is too short, or if the read contains more than an (user specified) amount of amigious nucleotides ('N'). These operations may be combined with simultaneous demultiplexing. Alternatively, B may attempt to reconstruct a consensus adapter sequences from paired-ended data, in order to allow the identification of the adapter sequences originally used, and thereby ensure proper trimming of these reads. The reads and adapters are transformed to upper case for comparison. It is assumed that the letter 'N' is used for an unknown nucleotide, but in case the program encounters a '.' in the sequence, they will be treated as (and translated into) Ns. The program tries to check for invalid input and / or nonsensical combinations of parameters but please report strange behaviour, bugs and such to MikkelSch@gmail.com If you use this program, please cite the paper: Schubert, Lindgreen, and Orlando (2016). AdapterRemoval v2: rapid adapter trimming, identification, and read merging. BMC Research Notes, 12;9(1):88 http://bmcresnotes.biomedcentral.com/articles/10.1186/s13104-016-1900-2 =head1 OPTIONS =over 9 =item B<--file1> I [...] Read FASTQ reads from one or more files. This contains either the single ended (SE) reads or, if paired ended, the mate 1 reads. If running in paired end mode, both I<--file1> and I<--file2> must be set. The files may optionally be gzip or bzip2 compressed. =item B<--file2> I [...] Read one or more FASTQ files containing mate 2 reads for a paired end run. If specified, --file1 must also be set. The files may optionally be gzip or bzip2 compressed. =item B<--interleaved> Enables I<--interleaved-input> and I<--interleaved-output>. =item B<--interleaved-input> If set, input is expected to be a single FASTQ file specified using I<--file1>, in which pairs of paired-end reads are listed one after each other (read1/1, read1/2, read2/1, read2/2, etc.). =item B<--interleaved-ouput> If set, and AdapterRemoval is processing paired-end reads, retained pairs of reads are written to a single FASTQ file, one pair after each other (read1/1, read1/2, read2/1, read2/2, etc.). By default, this file is named I, but this may be changed using the I<--output1> option. =item B<--combined-output> If set, all reads are written to the same file(s), specified by --output1 and --output2. Each read is further marked by either a "PASSED" or a "FAILED" flag, and any read that has been FAILED (including the mate for collapsed reads) are replaced with a single 'N' with Phred score 0. This option can be combined with --interleaved / --interleaved-output to write all reads to a single output file specified with --output1. =item B<--basename> I Determines the default filename for output files, unless overridden using the specific output file settings. For single-ended mode, the following filenames are used: I, I, and I. In paired end mode, the following filenames are used: I, I, I, I, and I. If collapsing of reads is enabled for paired ended mode, the following filenames are also used: I, and I. The default basename is I. If gzip compression is enabled, the extension ".gz" is added to all files but the I file, while the extension ".bz2" is used if bzip2 compression is enabled. =item B<--identify-adapters> For paired ended reads only. In this mode, AdapterRemoval will attempt to reconstruct the adapter sequences used for a set of paired ended reads, by locating fully overlapping read-pairs, and generating a consensus sequence from the bases identified as adapter sequence. The minimum overlap is controlled by I. The values passed to the --adapter1 and --adapter2 command-line options are used for visual comparison with the consensus sequence, but otherwise not used in the consensus building. =item B<--trimns> Remove stretches of Ns from the output reads in both the 5' and 3' end. If quality trimming is also enabled, stretches of mixed low-quality bases and/or Ns are trimmed. =item B<--maxns> I If a read has more than I Ns after trimming, it is discarded (default is not to use). =item B<--trimqualities> Remove consecutive stretches of low quality bases (threshold set by I) from both the 5' and 3' end of the reads. All bases with I or lower are trimmed. If trimming of Ns is also enabled, stretches of mixed low-quality bases and/or Ns are trimmed. =item B<--trimwindows> I Remove low quality bases using a sliding window bases approach inspired by B: B<1.> The new 5' is determined by locating the first window where both the average quality and the quality of the first base in the window is greater than I. B<2.> The new 3' is located by sliding the first window right, until the average quality becomes less than or equal to I. The new 3' is placed at the last base in that window where the quality is greater than or equal to I. B<3.> If no 5' position could be determined, the read is discarded. The value of I may be a number greater than or equal to 1, in which case that number (rounded down to the nearest whole number) is used as the window length, or it may be a value greater than or equal to zero. In the latter case, that number is multipled by the lenght of each read, to determine the window length. For example, a I value of 0.1 and a read length of 100 would result in 10 bp windows. If the resulting window length is zero or is greater than the current read length, then the read length is used instead. =item B<--minquality> I Set the threshold for trimming low quality bases. Default is 2. The minimum can be set with or without the Phred quality base. =item B<--collapse> In paired-end mode, if the two mates overlap, collapse the two reads into one read by merging the two and recalculating the quality scores. In single-end mode, this instead attempts to identify templates for which the entire sequence is available. In both cases, complete "collapsed" reads are written with a 'M_' name prefix, and "collapsed" reads which are trimmed due to quality settings are written with a 'MT_' name prefix. The overlap needs to be at least I nucleotides, with a maximum number of mismatches determined by I. =item B<--mm> I The allowed fraction of mismatches allowed in the aligned region. If 0 < I < 1, the rate is used directly. If I > 1, the rate is set to 1/I. The default setting is 3, corresponding to a maximum mismatch rate of 1/3. =item B<--minlength> I The minimum length required after trimming and adapter removal. Reads shorter than I are discarded. Default is 15 nucleotides. =item B<--minalignmentlength> I The minimum overlap between mate 1 and mate 2 before the reads are collapsed into one, when collapsing paired end reads, or when attempting to identify complete template sequences in single-end mode. Default is 11 nucleotides. =item B<--qualitybase> I The base of the quality score - either '64' for Phred+Phred (i.e., Illumina 1.3+ and 1.5+) or '33' for Phred+33 (Illumina 1.8+). In addition, the value 'solexa' may be used to specify reads with Solexa encoded scores. Default is 33. =item B<--qualitybase-output> I The base of the quality score for reads written by AdapterRemoval - either '64' for Phred+Phred (i.e., Illumina 1.3+ and 1.5+) or '33' for Phred+33 (Illumina 1.8+). In addition, the value 'solexa' may be used to specify reads with Solexa encoded scores. However, note that quality scores are represented using PHRED scores internally, and conversion to and from Solexa scores therefore result in a loss of information. The default corresponds to the value given for --qualitybase. =item B<--shift> I To allow for missing bases in the 5' end of the read, the program can let the alignment slip I bases in the 5' end. This corresponds to starting the alignment maximum I nucleotides in read2 (for paired end) or the adapter (for single end). The default shift valule is 2. =item B<--adapter1> I =item B<--adapter2> I Specify the adapter sequences that you wish to trim. The Adapter #2 sequence is only used when trimming paired-ended data. The Adapter #1 and Adapter #2 sequences are expected to be found in the mate 1 and the mate 2 reads respectively, while ignoring any difference in case and treating Ns as wildcards. The default sequences are Adapter #1: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter #2: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT Assuming these were the adapters used to generate our data, we should therefore see these in the FASTQ files: $ grep -i "AGATCGGAAGAGCACACGTCTGAACTCCAGTCAC......ATCTCGTATGCCGTCTTCTGCTTG" file1.fq BAAAAAAAAACAAGAAT CTGGAGTTCBAAAAAAA GGBCAAATTGAAAACAC ... $ grep -i "AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT" file2.fq CBCAAAAAAAGAAAAACATCTTG GAACTCCAGBCAAAAAAAATAGA GAACTBCAAAAACATAAGACCTA ... Note that --adapter1 and --adapter2 replaces the --pcr[12] options of B v1.x, for which the --pcr2 sequence was expected to be reverse complemented compared --adaper2. Using the --pcr[12] options is not recommended! =item B<--adapter-list> I Read one or more PCR sequences from a table. The first two columns (separated by whitespace) of each line in the file are expected to correspond to values passed to --adapter1 and --adapter2. In single ended mode, only column one is required. Lines starting with '#' are ignored. When multiple PCR sequences or sequence pairs are specified, AdapterRemoval will try each adapter (pair) listed in the table, and select the best aligning adapters for each read processed. =item B<--barcode-list> I Read a table of one or two fixed-length barcodes and perform demultiplexing of single or double indexed reads. The table is expected to contain 2 or 3 columns, the first of which represent the name of a given sample, and the second and third of which represent the mate 1 and (optionally) the mate 2 barcode sequence: $ cat barcodes.txt sample_1 ATGCGGA TGAATCT sample_2 ATGGATT ATAGTGA sample_7 CAAAACT TCGCTGC Results are written to ${basename}.${sample_name}.*, using the default names for other output files. A setting file with statistics is written for each sample at ${basename}.${sample_name}.settings, as is a setting file containing the demultiplexing statistics, at ${basename}.settings. When demultiplexing is used, the barcode identified for a given read is automatically added to the adapter sequence, in order to ensure that overlapping reads are correctly trimmed. The .settings file represents this by showing the reverse complemented) barcode sequence added to the --adapter1 and --adapter2 sequences, followed by an underscore (shown here for barcodes pair ATGCGGA / TGAATCT): [Adapter sequences] Adapter1[0]: AGATTCA_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[0]: TCCGCAT_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT Note that the sequence added to each adapter is the reverse complement of the barcode sequence of the other mate, as this sequence is expected to be found immediately before the adapter sequence. =item B<--barcode-mm> I The maximum number of mismatches allowed for barcodes, when counting mismatches in I the mate 1 and mate 2 barcodes. In conjunction with the --barcode-mm-r1 and --barcode-mm-r2, this allows fine-grained control over the barcode comparisons. If not set, this value is set to the sum of --barcode-mm-r1 and --barcode-mm-r2. For example, to allow one mismatch in either the mate 1 or the mate 2 barcode, one might specify --barcode-mm 1; to allow a mismatch in the mate 1 and / or the mate 2 barcode, one might specify --barcode-mm 2 --barcode-mm-r1 1 --barcode-mm-r2 1, and so on. =item B<--barcode-mm-r1> I The maximum number of mismatches allowed in the mate 1 barcode; if not set, this number is equal to the value of --barcode-mm. This number cannot exceed the value specified for --barcode-mm. =item B<--barcode-mm-r2> I The maximum number of mismatches allowed in the mate 1 barcode; if not set, this number is equal to the value of --barcode-mm. This number cannot exceed the value specified for --barcode-mm. =item B<--demultiplex-only> I Only carry out demultiplexing, using the list of barcodes supplied using --barcode-list. Note that trimming and filtering options do not apply to this mode of operation. =item B<--output1> I =item B<--output2> I =item B<--singleton> I =item B<--outputcollapsed> I =item B<--outputcollapsedtruncated> I =item B<--discarded> I =item B<--settings> I Instead of using the default behaviour where the program automatically generates the files needed, you can specify where each type of output is directed. This can be files, pipes etc. thus making it possible to easily zip the output on the fly. Default files are still generated if nothing else is specified. The types of output in single end mode are: I contains the trimmed reads. The types of output in paired end mode are: I contains trimmed mate1 reads. I contains trimmed mate2 reads. I contains all reads where the other mate in a pair is discarded. I Contains pairs that overlap and are collapsed into a single read (if I<--collapse> is used). The reads are renamed with an @M_ prefix. I Contains pairs that overlap and are collapsed into a single read (if I<--collapse> is used) and have further been trimmed due to Ns and/or low quality nucleotides in the 5' or 3' end. The reads are renamed with an @MT_ prefix. The types of output in both single end and paired end mode are: I contains all reads that are discarded by the program. I contains information on the parameters used in the run as well as overall statistics on the reads after trimming such as average length. =item B<--seed> I When collaping reads at positions where the two reads differ, and the quality of the bases are identical, AdapterRemoval will select a random base. This option specifies the seed used for the random number generator used by AdapterRemoval. This value is also written to the settings file. Note that setting the seed is not reliable in multithreaded mode, since the order of operations is non-deterministic. =item B<--gzip> If set, all FASTQ files written by AdapterRemoval will be gzip compressed using the compression level specified using I<--gzip-level>. The extension ".gz" is added to files for which no filename was given on the commandline. =item B<--gzip-level> Determines the compression level used when gzip'ing FASTQ files. Must be a value in the range 0 to 9, with 0 disabling compression and 9 being the best compression. Defaults to 6. =item B<--bzip2> If set, all FASTQ files written by AdapterRemoval will be bzip2 compressed using the compression level specified using I<--bzip2-level>. The extension ".bz2" is added to files for which no filename was given on the commandline. =item B<--bzip2-level> Determines the compression level used when bzip2'ing FASTQ files. Must be a value in the range 1 to 9, with 9 being the best compression. Defaults to 9. =item B<--threads> Maximum number of threads to use for current run; note that file IO is single-threaded, regardless of the number of threads specified. =item B<--version> Output the version of the program. =item B<--help> Output the summary of available command-line options, including default values and/or values specified on the command-line. =back =head1 EXAMPLE: Single end experiment The following command removes adapters from the file I trims both Ns and low quality bases from the reads, and gzip compresses the resulting files. The --basename option is used to specify the prefix for output files. $ AdapterRemoval --file1 reads_1.fq --basename output_single --trimns --trimqualities --gzip Since --gzip and --basename is specified, the trimmed FASTQ reads are written to I, the dicarded FASTQ reads are written to I, and settings and summary statistics are written to I. Note that by default, AdapterRemoval does not require a minimum number of bases overlapping with the adapter sequence, before reads are trimmed. This may result in an excess of very short (1 - 3 bp) 3' fragments being falsely identified as adapter sequences, and trimmed. This behavior may be changed using the --minadapteroverlap option, which allows the specification of a minimum number of bases (excluding Ns) that must be aligned to carry trimming. For example, use --minadapteroverlap 3 to require an overlap of at least 3 bp. =head1 EXAMPLE: Paired end experiment. The following command removes adapters from a paired-end reads, where the mate 1 and mate 2 reads are kept in files I and I, respectively. The reads are trimmed for both Ns and low quality bases, and overlapping reads (at least 11 nucleotides, per default) are merged (collapsed): $ AdapterRemoval --file1 reads_1.fq --file2 reads_2.fq --basename output_paired --trimns --trimqualities --collapse This command generates the files I and I, which contain trimmed pairs of reads which were not collapsed, I containing reads where one mate was discarded, I containing merged reads, and I containing merged reads that have been trimmed due to the --trimns or --trimqualities options. Finally, the I and I files correspond to those of the single-end run. =head1 EXAMPLE: Interleaved FASTQ reads. AdapterRemoval is able to read and write paired-end reads stored in a single, so-called interleaved FASTQ file (one pair at a time, first mate 1, then mate 2). This is accomplished by specifying the location of the file using I<--file1> and *also* setting the I<--interleaved> command-line option: $ AdapterRemoval --interleaved --file1 interleaved.fq --basename output_interleaved Other than taking just a single input file, this mode operates almost exactly like paired end trimming (as described above); the mode differs only in that paired reads are not written to a 'pair1' and a 'pair2' file, but instead these are instead written to a single, interleaved file, named 'paired'. The location of this file is controlled using the I<--output1> option. Enabling either reading or writing of interleaved FASTQ files, both not both, can be accomplished by specifying the either of the I<--interleaved-input> and I<--interleaved-output> options, both of which are enabled by the I<--interleaved> option. =head1 EXAMPLE: Different quality score encodings. By default, AdapterRemoval expects the quality scores in FASTQ reads to be Phred+33 encoded, meaning that the error probabilities are encoded as (char)('!' - 10 * log10(p)). Most data will be encoded using Phred+33, but Phred+64 and 'Solexa' encoded quality scores are also supported. These are selected by specifying the I<--qualitybase> command-line option (specifying either '33', '64', or 'solexa'):: $ AdapterRemoval --qualitybase 64 --file1 reads_q64.fq --basename phred_64_encoded By default, reads are written using the *same* encoding as the input. If a different encoding is desired, this may be accomplished using the I<--qualitybase-output> option: $ AdapterRemoval --qualitybase 64 --qualitybase-output 33 --file1 reads_q64.fq --basename phred_33_encoded Note furthermore that AdapterRemoval by default only expects quality scores in the range 0 - 41 (or -5 to 41 in the case of Solexa encoded scores). If input data using a different maximum quality score is to be processed, or if the desired maximum quality score of collapsed reads is greater than 41, then this limit may be increased using the I<--qualitymax> option: $ AdapterRemoval --qualitymax 50 --file1 reads_1.fq --file2 reads_2.fq --collapsed --basename collapsed_q50 For a detailed overview of Phred encoding schemes currently and previously in use, see e.g. the Wikipedia article on the subject: https://en.wikipedia.org/wiki/FASTQ_format#Encoding =head1 EXAMPLE: Paired end reads containing multiple, distinct adapter pairs. It is possible to trim data that contains multiple adapter pairs, by providing a one or two-column table containing possible adapter combinations (for single-end and paired-end trimming, respectively; see e.g. I): $ cat adapters.txt AGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTG AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT AAACTTGCTCTGTGCCCGCTCCGTATGTCACAACAGTGCGTGTATCACCTCAATGCAGGACTCA GATCGGGAGTAATTTGGAGGCAGTAGTTCGTCGAAACTCGGAGCGTCTTTAGCAGGAG CTAATTTGCCGTAGCGACGTACTTCAGCCTCCAGGAATTGGACCCTTACGCACACGCATTCATG TACCGTGAAAGGTGCGCTTAGTGGCATATGCGTTAAGAGCTAGGTAACGGTCTGGAGG GTTCATACGACGACGACCAATGGCACACTTATCCGGTACTTGCGTTTCAATGCGCATGCCCCAT TAAGAAACTCGGAGTTTGGCCTGCGAGGTAGCTTGGGTGTTATGAAGAACGGCATGCG CCATGCCCCGAAGATTCCTATACCCTTAAGGTCGCAATTGTTCGAGTAAGCTGTACGCGCCCAT GTTGCATTGACCCGAAGGGCTCGATGTTTAGGGAGGTCAGAAGTTGAGCGGGTTCAAA This table is then specified using the I<--adapter-list> option: $ AdapterRemoval --file1 reads_1.fq --file2 reads_2.fq --basename output_multi --trimns --trimqualities --collapse --adapter-list adapters.txt The resulting .summary file contains an overview of how frequently each adapter (pair) was used. Note that in the case of paired-end adapters, AdapterRemoval considers only the combinations of adapters specified in the table, one combination per row. For single-end trimming, only the first column of the table file is required, and the list may therefore take the form of a file containing one sequence per line. =head1 EXAMPLE: Identifying adapter sequences from paired-ended reads If we did not know the adapter sequences for paired-end reads, AdapterRemoval may be used to generate a consensus adapter sequence based on fragments identified as belonging to the adapters through pairwise alignments of the reads, provided that the data set contains only a single adpater sequence (not counting differences in index sequences). In the following example, the identified adapters corresponds to the default adapter sequences with a poly-A tail resulting from sequencing past the end of the insert + templates. It is not necessary to specify this tail when using the I<--adapter1> or I<--adapter2> command-line options. The characters shown under each of the consensus sequences represented the phred-encoded fraction of bases identical to the consensus base, with adapter 1 containing the index CACCTA: $ AdapterRemoval --identify-adapters --file1 reads_1.fq --file2 reads_2.fq Attemping to identify adapter sequences ... Processed a total of 1,000 reads in 0.0s; 129,000 reads per second on average ... Found 394 overlapping pairs ... Of which 119 contained adapter sequence(s) ... Printing adapter sequences, including poly-A tails: --adapter1: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG ||||||||||||||||||||||||||||||||||******|||||||||||||||||||||||| Consensus: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAA Quality: 55200522544444/4411330333330222222/1.1.1.1111100-00000///..+....--*-)),,+++++++**(('%%%$ Top 5 most common 9-bp 5'-kmers: 1: AGATCGGAA = 96.00% (96) 2: AGATGGGAA = 1.00% (1) 3: AGCTCGGAA = 1.00% (1) 4: AGAGCGAAA = 1.00% (1) 5: AGATCGGGA = 1.00% (1) --adapter2: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT |||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Consensus: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA Quality: 525555555144141441430333303.2/22-2/-1..11111110--00000///..+....--*-),,,+++++++**(%'%%%$ Top 5 most common 9-bp 5'-kmers: 1: AGATCGGAA = 100.00% (100) No files are generated from running the adapter identification step. The consensus sequences inferred are compared to those specified using the I<--adapter1> and I<--adapter2> command-line options, or with the default values for these if no values have been given (as in this case). Pipes (|) indicate matches between the provided sequences and the consensus sequence, and "*" indicate the presence of unspecified bases (Ns). =head1 EXAMPLE: Demultiplexing of paired end reads As of version 2.1, AdapterRemoval supports simultanious demultiplexing and adapter trimming; demultiplexing is carried out using a simple comparison between the specified barcode sequences and the first N bases of the reads, corresponding to the length of the barcodes. Reads identified as containing a specific barcode or pair of barcodes are then trimmed using adapter sequences including these barcodes. Demultiplexing is enabled by creating a table of barcodes, the first column of which species the sample name (using characters [a-zA-Z0-9_]) and the second and (optional) third columns specifies the mate 1 and mate 2 barcode sequences. For example, a table of barcodes from a double-indexed run might be as follows (see I): $ cat barcodes.txt sample_1 ATGCGGA TGAATCT sample_2 ATGGATT ATAGTGA sample_7 CAAAACT TCGCTGC In the case of single-read reads, only the first two columns are required. AdapterRemoval is invoked with the I<--barcode-list> option, specifying the path to this table: $ AdapterRemoval --file1 demux_1.fq --file2 demux_2.fq --basename output_dumux --barcode-list barcodes.txt This generates a set of output files for each sample specified in the barcode table, using the basename (I<--basename>) as the prefix, followed by a dot and the sample name, followed by a dot and the default name for a given file type. For example, the output files for sample_2 would be output_demux.sample_2.discarded output_demux.sample_2.pair1.truncated output_demux.sample_2.pair2.truncated output_demux.sample_2.settings output_demux.sample_2.singleton.truncated The settings files generated for each sample summarizes the reads for that sample only; in addition, a basename.settings file is generated which summarizes the number and proportion of reads identified as belonging to each sample. The maximum number of mismatches allowed when comparing barocdes is controlled using the options I<--barcode-mmI>, I<--barcode-mm-r1>, and I<--barcode-mm-r2>, which specify the maximum number of mismatches total, and the maximum number of mismatches for the mate 1 and mate 2 barcodes respectively. Thus, if mm_1(i) and mm_2(i) represents the number of mismatches observed for barcode-pair i for a given pair of reads, these options require that 1. mm_1(i) <= --barcode-mm-r1 2. mm_2(i) <= --barcode-mm-r2 3. mm_1(i) + mm_2(i) <= --barcode-mm As of version 2.2, AdapterRemoval can furthermore be used to demultiplex reads without carrying out other forms of read trimming. This is accomplished by specifying the I<--demultiplex-only> option: $ AdapterRemoval --file1 demux_1.fq --file2 demux_2.fq --basename output_only_demux --barcode-list barcodes.txt --demultiplex-only Trimming and filtering related options to not apply to this mode ("TRIMMING SETTINGS" when viewing 'AdapterRemoval --help'), but compression (I<--gzip>, I<--bzip2>), multi-threading (I<--threads>), interleaving (I<--interleaved>, etc.) and other such options may be used in conjunction with --demultiplex-only. =head1 EXIT STATUS 0 if everything worked as planned, a non-zero value otherwise. =head1 REPORTING BUGS Report bugs to Mikkel Schubert . Your bugreport should always include: =over 2 =item * The output of B. If you are not running the latest released version you should specify why you believe the problem is not fixed in that version. =item * A complete example that others can run that shows the problem. =back =head1 AUTHOR Copyright (C) 2011 Stinus Lindgreen . Parts of the manual was written by Ole Tange . Parts of the manual was written by Mikkel Schubert . =head1 LICENSE Copyright (C) 2011 Stinus Lindgreen . Copyright (C) 2014 Mikkel Schubert . This program is free software; you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation; either version 3 of the License, or at your option any later version. This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details. You should have received a copy of the GNU General Public License along with this program. If not, see . =head1 SEE ALSO =cut adapterremoval-2.2.2/CHANGES.md000066400000000000000000000377601313314234200161260ustar00rootroot00000000000000 ### Version 2.2.2 - 2017-07-17 * Made gzip and bzip2 support mandatory. * Added support for Intel compilers, courtesy of Kevin Murray (kdmurray91). ### Version 2.2.1a - 2017-05-17 * Fixed compilation on OSX. ### Version 2.2.1 - 2017-05-15 * Numerous spelling errors fixed courtesy of Andreas Tille. * Added support for specifying multiple filenames after --file1 and --file2, in which case the files are treated as if they were concatenated. This is supported for all operations. Special thanks to Stephen Clayton. * Added additional run-time checks to catch race-conditions. * Progress messages written to STDERR no longer cause subsequent error messages to be written to the same line. * Implemented quality trimming using a sliding window approach inspired by sickle (https://github.com/najoshi/sickle). Special thanks to Kevin Murray. * Fixed miscounting of the total number of retained nucleotides, where mate 1 reads were being counted twice instead of counting both mate 1 and mate 2. ### Version 2.2.0 - 2016-10-27 * AdapterRemoval now requires a C++11 compliant compiler; furthermore, multithreading is no longer an optional feature, as this is now implemented using the C++11 instead of directly calling pthreads. * Add explicit message not to use the results after failed runs. * Minor changes to .settings: Adapter numbers now 1-based; the 'Number of reads with adapters' is changed to 'Number of read pairs with adapters' when trimming PE reads; the 'Average read length of trimmed reads' is changed to 'Average read length of retained reads' for clarity. * Dropped the undocumented 'poor' classification for alignments; for statistical purposes, reads are either counted as aligned or not aligned. This ony changes how results are presented in the .settings files. * Rework selection of nucleotides at overlapping positions with the same quality, in order to prevent potential data-races during tie-breaking, when running in multi-threaded mode. * Added support for reading FASTQ files using Windows-style newlines (\r\n). * AdapterRemoval will not print a warning to STDERR if the same command-line option is specified multiple times. * Reworked handling of barcodes to avoid unnecessary memory allocations, which would cause problems when using long barcodes. * Added support for combining output files; this is enabled using the --combined-output option, and ensures that all reads are written to the same file, or pair of files (for non-interleaved PE reads). The sequence of reads that fail are replaced with a single 'N' with quality score 0. * Fixed bug in the counting of singleton reads used in '.settings' files. * Fixed mis-placement of underscore when pretty printing adapter sequences that included barcodes. * Fixed misprinting of mate 2 adapter sequences in the .settings file; these would be printed in the reverse complemented orientation, relative to how they were specified on the command-line. ### Version 2.1.7 - 2016-03-11 * The mate number is now stripped from collapsed reads, where previously this would always be '\1' (if set). However, if meta-data is present in the reads, that found in the mate 1 read is retained. * The value used for --mate-separator is now written to the 'settings' file. * Improved 'make install'. This command now makes use of a PREFIX value to determine the installation destination (defaults to /usr/local), and includes the 'README.md' file and 'examples' folder in the installation. * Improved 'make test'. This command now attempts to download the required testing library automatically, using either wget or curl if available. ### Version 2.1.6 - 2016-03-03 * Added support for reading / writing interleaved FASTQ files; this is enabled by the options --interleaved-input and --interleaved-output, respectively, or by setting --interleaved option which implies both of the former options. See the README for an example. * Fixed bug in a sanity check meant to detect if the mate 1 and mate 2 files were of unequal length. This is now correctly detected in all cases. * Expanded README with information about reading / writing FASTQ files with different PHRED encodings / maximum quality scores. ### Version 2.1.5 - 2016-02-19 * Added the --mate-separator option, which specifies the character separating the mate number; by default this is '/', and AdapterRemoval will therefore identify mate numbers if read-names end with "/1" or "/2". * Fixed race condition which could result in premature termination when using --gzip or --bzip2 together with the --threads options. * Improved checks during compression and sanity checks following processing. ### Version 2.1.4 - 2016-02-09 * Fixed bug which could occasionally result in failure when bzip2 compression was enabled, by attempting to compress empty buffer. * The following was contributed by Hannes Pétur Eggertsson: * Wrapped code in 'ar' namespace, and made it possible to compile AdapterRemoval as a static library (via the command 'make static'), allowing it to be used as part of other projects. * Updated instructions for installing GTest library using new repository. * Fixed typos. ### Version 2.1.3 - 2015-12-25 * Added option --minadapteroverlap, which sets a minimum alignment length when carrying out trimming of single-end reads. The default (0) may result in an excess of false postiives around (1 - 2 bp long), which may be mitigated by running AdapterRemoval with '--minadapteroverlap 3'. * Greatly expanded README.md, adding several examples with test data included in the 'examples' folder, demonstrating common usage of the program. * Updated man-page with missing information and rewrote several parts. * Updated the help-text for several command-line options. * Avoid writing information to stdout, so that (SE) trimming can be piped. This can be accomplished by using the option --output1 /dev/stdout. * Fixed the --seed option, which was not properly applied during runtime. ### Version 2.1.2 - 2015-10-08 * Changed the way "full-length" and "truncated collapsed" reads are counted in the .settings file; previously, all collapsed reads were counted, even if these were subsequently discarded (due to the length). Now only retained reads are counted, matching the behavior of AdapterRemoval v1.x. * Added setup instructions when running 'make test' for the first time. ### Version 2.1.1 - 2015-09-14 * Fixed broken assert preventing the use of --adapter-list. * Fixed bug using --qualitybase-output for both input and output. ### Version 2.1.0 - 2015-09-08 Major changes: * Support for (transparently) reading and writing bzip2 files. * Parallelization of adapter trimming and identification using pthreads; the number of threads used is specified using --threads. Note that only one thread is allowed to perform IO (reads / writes) at a time, to prevent clobbering the disk, but compression (if enabled) is performed in parallel. * Support for combined demultiplexing and adapter-removal using the --barcode-list command-line option; when demultiplexing, the barcodes identified for a given read is added to the adapter sequence, in ordre to ensure correct trimming of the reads. * Features depending on external libraries (gzip, bzip2, and threading support) can be disabled in the Makefile on systems lacking these libraries. Other changes / bug-fixes: * Display currently specified --adapter1 / adapter2 sequences for comparison when attempting to infer adapter sequences. Only the first pair is used, if multiple adapter pairs are specified. * Sites with no majority-base during adapter-identification are set to N. * Fixed failure to read of barcode sequences (--5prime / --5prime-list). * Progress report now shows total number of reads processes, for both single ended and pair ended analyses. * FASTQ reads with Solexa scores are now output as Solexa scores by default, rather than Phred+64. Note that the program represents quality scores using Phred scores internally, resulting in a lossy conversion. It is therefore recommended to convert to Phred scores rather than use Solexa scores. ### Version 2.0.0 - 2014-03-10 Version 2.0.0 of AdapterRemoval is a near complete rewrite, with the goal of improved safety, increased speed, fixing a number of minor issues with previous versions of AdapterRemoval, and adding a few new features: Compatibility changes: * Command-line arguments --pcr1 and --pcr2 have been deprecated in favor of --adapter1 and --adapter2. While --pcr1 and --adapter1 are equivalent, --adapter2 expects the adapter sequence which may be observed in raw mate 2 reads, unlike --pcr2 which expected the sequence which could be observed in the reverse complement of mate 2 reads (cf. the README). * The use of --file1 and (optionally) --file2 is now required; reads will not be read from STDIN, nor written to STDOUT by default. To approximate the previous behavior, the following command may be used: $ AdapterRemoval --file1 /dev/stdin --output1 /dev/stdout * Per-read statistics of adapter / low-quality base trimming using --stats is no longer supported. Major changes: * Strict validation of input FASTQ records, to ensure that records are well formed, that quality scores fall within the expected range given the specified format/offset, and more. * Limited support for Solexa quality scores; these are converted to and saved as Phred+33 or Phred+64 encoded scores. * Improved handling of asymmetric read-pairs, in which the length of the mate 1 read differs from the length of the mate 2 read. * Significant improvements in performance, resulting in a ~5x increase in the rate of adapter trimming in basic version, and a ~20x increase in the rate of adapter trimming in the SSE enabled version (the default). * Support for multiple adapter sequences as well as multiple barcode sequences; AdapterRemoval will favor the highest scoring alignment, favoring longer alignments over shorter alignments with the same score, and favoring alignments with the fewest ambiguous bases (N) involved if the score and length is identical. * If --collapse is set in single-ended mode, "collapsed" reads will be identified using the same criteria as for paired-ended mode, i.e. requiring that at least --minalignmentlen bases overlap, and written to .collapsed and .collapsed.truncated. This allows for the identification of reads that are complete inserts. * Added the ability to identify adapter sequences for paired-ended reads, by identifying reads which extends past the ends of the template sequence, and extracting the adapters from these. * Added support for reading / writing gzipped compressed FASTQ files; if enabled (using the --gzip flag), the ".gz" extension is added to filenames, unless the filenames are explicitly specified by the user. * Length distributions are now calculated per read-type post-trimming (mate 1, mate 2, collapsed, etc.) and written to the .settings file. Other improvements / bug-fixes: * Barcodes may now contain Ns. * Fixed underestimation of error-probabilities during sequence collapse. * Fixed (futher) underestimation of error-probabilities of bases during collapsing, for conflicting base-calls with the same Phred score. * Fixed the maximum number of mismatches for alignments in the range of 6 .. 9 bases always being 1, even if --mm was set to 0. * Fixed the maximum number of mismatches for alignments being calculated based on the length of the alignment including ambiguous bases (N), thereby inflating the number of mismatches allowed for poor alignments. * Replaced use of lower bits of rand() calls with random(), as the former generates low entropy bits in that range on some (non-Linux) platforms. * Fixed well-aligned reads being discarded due to the minimum-length requirement after trimming not being counted as well-aligned, resulting in the total number of alignments not matching the total number of reads. * Fixed bug in shifts for PE reads, which was causing some alignments to be missed for adapter-only (i.e. no insert sequence) sequences. * Improved input validation and sanity checks for command-line parameters. * It is now possible to explicitly specify the RNG seed, to allow individual runs to be reproduced; the seed is also written to the .settings file. * Seed is now initialized using a mix of seconds and microseconds, instead of the current time in seconds, to reduce the risk of multiple instances spawed within a short timespan from using the same seed. * An (optional) progress report is printed during usage, incidating the run-time and number of reads processed. ### Version 1.5.4 - 2014-04-23 * Fixed bug in which collapsed reads would not be considered truncated if bases were trimmed from the 5' end. * Fixed bug in which the quality bases used for mate 2 during collapsing of overlapping read pairs made use of quality scores with a wrong orientation. * Reduced the amount of IO operations during trimming. ### Version 1.5.2 - 2013-10-22 Two changes to the program: * I have added a reference to the paper to both the man page and the help text. * I fixed a minor bug in the collapse code where two very low quality bases might give rise to a third low quality base being called. For example, a C with quality " and a T with quality ! would result in an A with quality #. This has been fixed so that the the result is now C with quality ". ### Version 1.5.0 - 2013-04-29 Small update: Due to user feedback, the program now outputs collapsed pairs in two files: One contains full-length collapsed pairs constituting the full insert, the other contains collapsed pairs that have been truncated due to low qualities or Ns in the reads. ### Version 1.4.0 - 2013-03-24 I have made some fixes to the program: * The program can now handle the use of '.' instead of 'N' to encode undefined nucleotides. * There was a typo in the adapter sequence used for PCR2! * Some minor changes to output etc. ### Version 1.3.0 - 2013-02-10 I have updated AdapterRemoval and released version 1.3. These changes are based on feedback from users of the program that had some very specific and well- founded suggestions. Some of these changes are minor, others will have more dramatic effects on the use of the program so please read these notes carefully: Minor changes: * I fixed an occasional segmentation fault. * Collapsed reads are now names "@M_...". * Collapsed reads are put in a separate file with extension ".collapsed". Important changes: * The sequences PCR1 and PCR2 are now used as-is without reverse- complementation. You have to make sure that the sequences you search for are correct. * The default PCR1 and PCR2 sequences are now: PCR1: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG PCR2: AATGATACGGCGACCACCGAGATCACACTCTTTCCCTACACGACGCTCTTCCGATCT * I have changed the way PCR1 and PCR2 are used to make the program consistent. Now, you always search for the sequence PCR1 in READ1 (whether single end or paired end), and you search for PCR2 in READ2. In single end mode, this corresponds to having an empty READ2 and ignore PCR2 as illustrated below: * For paired end data, PCR2-READ1 aligned to READ2-PCR1. * For single end data, READ1 aligned to PCR1. As always, please contact me with any questions or comments. Stinus ### Version 1.1.0 - 2012-05-01 * It is now possible to look for adapter in the 5' end of reads using the --5prime parameter. * Updated trimming of qualities. * Added option for discarding reads with too many gaps using --maxns max. * The programs handles lower vs upper case issues by translating all sequences to upper case. * The program now checks for inconsistent parameters. * Fixed some typographical issues with output. adapterremoval-2.2.2/LICENSE000066400000000000000000001045131313314234200155300ustar00rootroot00000000000000 GNU GENERAL PUBLIC LICENSE Version 3, 29 June 2007 Copyright (C) 2007 Free Software Foundation, Inc. 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But first, please read . adapterremoval-2.2.2/Makefile000066400000000000000000000177771313314234200162020ustar00rootroot00000000000000############################################################################### # Makefile options: Edit / comment / uncomment to change build behavior # # Installation destinations PREFIX := /usr/local # Default compilation flags CXXFLAGS := ${CXXFLAGS} -std=c++11 -O3 ## Optional features; comment out or set to value other than 'yes' to disable # Hide individual commands during build; only shows summaries instead. QUIET_BUILD := yes # Use of colored output during build COLOR_BUILD := yes # Debug build; adds warnings and debugging symbols DEBUG_BUILD := no # Include coverage instrumentation in build COVERAGE := no ############################################################################### # Makefile internals. Normally you do not need to touch these. # Libraries required by AdapterRemoval LIBRARIES := -pthread -lz -lbz2 # Build directory; modified depending on build options BDIR := build/main ifeq ($(strip ${QUIET_BUILD}),yes) QUIET := @ endif ifeq ($(strip ${COLOR_BUILD}),yes) COLOR_YELLOW := "\033[0;33m" COLOR_GREEN := "\033[0;32m" COLOR_CYAN := "\033[0;36m" COLOR_END := "\033[0m" endif ifeq ($(strip ${COVERAGE}), yes) $(info Building AdapterRemoval with coverage instrumentation: yes) CXXFLAGS := ${CXXFLAGS} --coverage DEBUG_BUILD := yes else $(info Building AdapterRemoval with coverage instrumentation: no) endif ifeq ($(strip ${DEBUG_BUILD}), yes) $(info Building AdapterRemoval with debug information: yes) CXXFLAGS := ${CXXFLAGS} -g -pedantic -Wall -Wextra -Wcast-align -Wcast-qual \ -Wctor-dtor-privacy -Wdisabled-optimization -Wformat=2 -Winit-self \ -Wold-style-cast -Woverloaded-virtual -Wredundant-decls -Wsign-promo \ -Wstrict-overflow=2 -Wswitch-default -Wundef -Weffc++ -Wdeprecated else $(info Building AdapterRemoval with debug information: no) endif PROG := AdapterRemoval LIBNAME := libadapterremoval LIBOBJS := $(BDIR)/adapterset.o \ $(BDIR)/alignment.o \ $(BDIR)/argparse.o \ $(BDIR)/debug.o \ $(BDIR)/demultiplex.o \ $(BDIR)/fastq.o \ $(BDIR)/fastq_enc.o \ $(BDIR)/fastq_io.o \ $(BDIR)/linereader.o \ $(BDIR)/linereader_joined.o \ $(BDIR)/main_adapter_id.o \ $(BDIR)/main_adapter_rm.o \ $(BDIR)/main_demultiplex.o \ $(BDIR)/scheduler.o \ $(BDIR)/strutils.o \ $(BDIR)/threads.o \ $(BDIR)/timer.o \ $(BDIR)/trimmed_reads.o \ $(BDIR)/userconfig.o OBJS := ${LIBOBJS} $(BDIR)/main.o DFILES := $(OBJS:.o=.deps) .PHONY: all install clean test clean_tests static validate validation all: build/$(PROG) build/$(PROG).1 everything: all static test validation # Clean clean: clean_tests @echo $(COLOR_GREEN)"Cleaning ..."$(COLOR_END) $(QUIET) rm -f build/$(PROG) build/$(PROG).1 build/$(LIBNAME).a $(QUIET) rm -rvf build/validation $(QUIET) rm -rvf $(BDIR) # Install install: build/$(PROG) build/$(PROG).1 @echo $(COLOR_GREEN)"Installing AdapterRemoval .."$(COLOR_END) @echo $(COLOR_GREEN)" .. binary into ${PREFIX}/bin/"$(COLOR_END) $(QUIET) mkdir -p ${PREFIX}/bin/ $(QUIET) mv -f build/$(PROG) ${PREFIX}/bin/ $(QUIET) chmod a+x ${PREFIX}/bin/$(PROG) @echo $(COLOR_GREEN)" .. man-page into ${PREFIX}/share/man/man1/"$(COLOR_END) $(QUIET) mkdir -p ${PREFIX}/share/man/man1/ $(QUIET) mv -f build/$(PROG).1 ${PREFIX}/share/man/man1/ $(QUIET) chmod a+r ${PREFIX}/share/man/man1/$(PROG).1 @echo $(COLOR_GREEN)" .. README into ${PREFIX}/share/adapterremoval/"$(COLOR_END) $(QUIET) mkdir -p ${PREFIX}/share/adapterremoval/ $(QUIET) cp -a README.md ${PREFIX}/share/adapterremoval/ $(QUIET) chmod a+r ${PREFIX}/share/adapterremoval/README.md @echo $(COLOR_GREEN)" .. examples into ${PREFIX}/share/adapterremoval/examples/"$(COLOR_END) $(QUIET) mkdir -p ${PREFIX}/share/adapterremoval/examples/ $(QUIET) cp -a examples/*.* ${PREFIX}/share/adapterremoval/examples/ $(QUIET) chmod a+r ${PREFIX}/share/adapterremoval/examples/*.* static: build/$(LIBNAME).a # Object files $(BDIR)/%.o: src/%.cpp @echo $(COLOR_CYAN)"Building $@ from $<"$(COLOR_END) $(QUIET) mkdir -p $(BDIR) $(QUIET) $(CXX) $(CXXFLAGS) -pthread -c -o $@ $< $(QUIET) $(CXX) $(CXXFLAGS) -w -MM -MT $@ -MF $(@:.o=.deps) $< # Executable build/$(PROG): $(OBJS) @echo $(COLOR_GREEN)"Linking executable $@"$(COLOR_END) $(QUIET) $(CXX) $(CXXFLAGS) ${LDFLAGS} $^ ${LIBRARIES} -o $@ # Static library build/$(LIBNAME).a: $(LIBOBJS) @echo $(COLOR_GREEN)"Linking static library $@"$(COLOR_END) $(AR) rcs build/$(LIBNAME).a $(LIBOBJS) build/%.1: %.pod @echo $(COLOR_GREEN)"Constructing man-page $@ from $<"$(COLOR_END) $(QUIET) mkdir -p $(BDIR) $(QUIET) pod2man $< > $@ # Automatic header depencencies -include $(DFILES) # # Unit testing # TEST_DIR := build/tests TEST_OBJS := $(TEST_DIR)/alignment.o \ $(TEST_DIR)/alignment_test.o \ $(TEST_DIR)/argparse.o \ $(TEST_DIR)/argparse_test.o \ $(TEST_DIR)/debug.o \ $(TEST_DIR)/fastq.o \ $(TEST_DIR)/fastq_test.o \ $(TEST_DIR)/fastq_enc.o \ $(TEST_DIR)/fastq_enc_test.o \ $(TEST_DIR)/strutils.o \ $(TEST_DIR)/strutils_test.o TEST_DEPS := $(TEST_OBJS:.o=.deps) GTEST_DIR := googletest-release-1.8.0/googletest GTEST_OBJS := $(TEST_DIR)/gtest-all.o $(TEST_DIR)/gtest_main.o GTEST_LIB := $(TEST_DIR)/libgtest.a TEST_CXXFLAGS := -isystem $(GTEST_DIR)/include -I$(GTEST_DIR) -Isrc -DAR_TEST_BUILD -g GTEST_CXXFLAGS := $(TEST_CXXFLAGS) test: $(TEST_DIR)/main @echo $(COLOR_GREEN)"Running tests"$(COLOR_END) $(QUIET) $< --gtest_print_time=0 --gtest_shuffle clean_tests: @echo $(COLOR_GREEN)"Cleaning tests ..."$(COLOR_END) $(QUIET) rm -rvf $(TEST_DIR) $(TEST_DIR)/main: $(GTEST_LIB) $(TEST_OBJS) @echo $(COLOR_GREEN)"Linking executable $@"$(COLOR_END) $(QUIET) $(CXX) $(CXXFLAGS) ${LIBRARIES} $^ -o $@ $(TEST_DIR)/libgtest.a: $(GTEST_OBJS) @echo $(COLOR_GREEN)"Linking GTest library $@"$(COLOR_END) $(QUIET) ar -rv $@ $^ $(TEST_DIR)/%.o: tests/%.cpp @echo $(COLOR_CYAN)"Building $@ from $<"$(COLOR_END) $(QUIET) mkdir -p $(TEST_DIR) $(QUIET) $(CXX) $(CXXFLAGS) $(TEST_CXXFLAGS) -c -o $@ $< $(QUIET) $(CXX) $(CXXFLAGS) $(TEST_CXXFLAGS) -w -MM -MT $@ -MF $(@:.o=.deps) $< $(TEST_DIR)/%.o: src/%.cpp @echo $(COLOR_CYAN)"Building $@ from $<"$(COLOR_END) $(QUIET) mkdir -p $(TEST_DIR) $(QUIET) $(CXX) $(CXXFLAGS) $(TEST_CXXFLAGS) -c -o $@ $< $(QUIET) $(CXX) $(CXXFLAGS) $(TEST_CXXFLAGS) -w -MM -MT $@ -MF $(@:.o=.deps) $< $(TEST_DIR)/gtest%.o: $(GTEST_DIR)/src/gtest%.cc @echo $(COLOR_CYAN)"Building $@ from $<"$(COLOR_END) $(QUIET) mkdir -p $(TEST_DIR) $(QUIET) $(CXX) $(GTEST_CXXFLAGS) -c $< -o $@ .PRECIOUS: $(GTEST_DIR)/src/gtest%.cc $(GTEST_DIR)/src/gtest%.cc: googletest-release-1.8.0.zip $(QUIET) if ! test -e "$@"; \ then \ echo $(COLOR_CYAN)"Unpacking Google Test library"$(COLOR_END); \ unzip -qo googletest-release-1.8.0.zip; \ fi googletest-release-1.8.0.zip: ifneq ("$(shell which wget)", "") @echo $(COLOR_CYAN)"Fetching Google Test library using wget"$(COLOR_END) $(QUIET) wget -q https://github.com/google/googletest/archive/release-1.8.0.zip -O googletest-release-1.8.0.zip else ifneq ("$(shell which curl)", "") @echo $(COLOR_CYAN)"Fetching Google Test library using curl"$(COLOR_END) $(QUIET) curl -L https://github.com/google/googletest/archive/release-1.8.0.zip -o googletest-release-1.8.0.zip else @echo $(COLOR_YELLOW)"To run tests, first download and unpack GoogleTest 1.8.0 in this folder:"$(COLOR_END) @echo $(COLOR_YELLOW)" $$ wget https://github.com/google/googletest/archive/release-1.8.0.zip -O googletest-release-1.8.0.zip"$(COLOR_END) @echo $(COLOR_YELLOW)" $$ unzip googletest-release-1.8.0.zip"$(COLOR_END) @exit 1 endif # # Validation # VALIDATION_BDIR=build/validation VALIDATION_SDIR=validation validate: build/$(PROG) @echo $(COLOR_CYAN)"Validating AdapterRemoval results"$(COLOR_END) @mkdir -p $(VALIDATION_BDIR) @./validation/run $(VALIDATION_BDIR) $(VALIDATION_SDIR) validation: validate # Automatic header dependencies for tests -include $(TEST_DEPS) adapterremoval-2.2.2/README.md000066400000000000000000000473501313314234200160070ustar00rootroot00000000000000# AdapterRemoval [![Travis](https://img.shields.io/travis/MikkelSchubert/adapterremoval/master.svg)](https://travis-ci.org/MikkelSchubert/adapterremoval) [![Coveralls](https://img.shields.io/coveralls/MikkelSchubert/adapterremoval.svg)](https://coveralls.io/github/MikkelSchubert/adapterremoval) This program searches for and removes remnant adapter sequences from High-Throughput Sequencing (HTS) data and (optionally) trims low quality bases from the 3' end of reads following adapter removal. AdapterRemoval can analyze both single end and paired end data, and can be used to merge overlapping paired-ended reads into (longer) consensus sequences. Additionally, the AdapterRemoval may be used to recover a consensus adapter sequence for paired-ended data, for which this information is not available. For comments, suggestions and feedback please contact Mikkel Schubert (MikkelSch@gmail.com) and Stinus Lindgreen (stinus@binf.ku.dk). If you use AdapterRemoval v2, then please cite the paper: Schubert, Lindgreen, and Orlando (2016). AdapterRemoval v2: rapid adapter trimming, identification, and read merging. BMC Research Notes, 12;9(1):88 http://bmcresnotes.biomedcentral.com/articles/10.1186/s13104-016-1900-2 AdapterRemoval was originally published in Lindgreen 2012: Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation Sequencing Reads, BMC Research Notes, 5:337 http://www.biomedcentral.com/1756-0500/5/337/ ## Overview of major features - Trimming of adapters sequences from single-end and paired-end FASTQ reads. - Trimming of multiple, different adapters or adapter pairs. - Demultiplexing of single or double indexed reads, with or without trimming of adapter sequences. - Reconstruction of adapter sequences from paired-end reads, by the pairwise alignment of reads in the absence of a known adapter sequence. - Merging of overlapping read-pairs into higher-quality consensus sequences. - Multi-threading of all operations for increased throughput. - Reading and writing of gzip and bzip2 compressed files. - Reading and writing of interleaved FASTQ files. ## Installation To install, first download and unpack the newest release from GitHub: $ wget -O adapterremoval-2.1.7.tar.gz https://github.com/MikkelSchubert/adapterremoval/archive/v2.1.7.tar.gz $ tar xvzf adapterremoval-2.1.7.tar.gz $ cd adapterremoval-2.1.7 or $ git clone https://github.com/MikkelSchubert/adapterremoval.git $ cd adapterremoval To compile, run $ make The resulting binary and man page is located in the "build" folder. To install, run $ sudo make install It is also possible to compile AdapterRemoval as a static library: $ sudo make static Note that AdapterRemoval requires that the zlib library and headers (www.zlib.net) are installed, that the bzlib2 library and headers are installed, and that the compiler used supports c++11. Please refer to your operating system documentation for installation instructions. ## Documentation For detailed program usage, please refer to the manual page. If AdapterRemoval has been installed, this may be accessed using the command "man AdapterRemoval". If AdapterRemoval has not been installed, the manual page may be read using the command "man build/AdapterRemoval.1" in the source folder once "make" has been run. Alternatively, the manual may be read online: https://github.com/MikkelSchubert/adapterremoval/blob/master/AdapterRemoval.pod ## Examples The following examples make use of the data included in the 'examples' folder: ### Trimming single-end reads The following command removes adapters from the file 'reads\_1.fq' trims both Ns and low quality bases from the reads, and gzip compresses the resulting files. The --basename option is used to specify the prefix for output files. $ AdapterRemoval --file1 reads_1.fq --basename output_single --trimns --trimqualities --gzip Since --gzip and --basename is specified, the trimmed FASTQ reads are written to 'output_single.truncated.gz', the discarded FASTQ reads are written to 'output_single.discarded.gz', and settings and summary statistics are written to 'output_single.settings'. Note that by default, AdapterRemoval does not require a minimum number of bases overlapping with the adapter sequence, before reads are trimmed. This may result in an excess of very short (1 - 3 bp) 3' fragments being falsely identified as adapter sequences, and trimmed. This behavior may be changed using the --minadapteroverlap option, which allows the specification of a minimum number of bases (excluding Ns) that must be aligned to carry trimming. For example, use --minadapteroverlap 3 to require an overlap of at least 3 bp. ### Trimming paired-end reads The following command removes adapters from a paired-end reads, where the mate 1 and mate 2 reads are kept in files 'reads\_1.fq' and 'reads\_2.fq', respectively. The reads are trimmed for both Ns and low quality bases, and overlapping reads (at least 11 nucleotides, per default) are merged (collapsed): $ AdapterRemoval --file1 reads_1.fq --file2 reads_2.fq --basename output_paired --trimns --trimqualities --collapse This command generates the files 'output_paired.pair1.truncated' and 'output_paired.pair2.truncated', which contain trimmed pairs of reads which were not collapsed, 'output_paired.singleton.truncated' containing reads where one mate was discarded, 'output_paired.collapsed' containing merged reads, and 'output_paired.collapsed.truncated' containing merged reads that have been trimmed due to the --trimns or --trimqualities options. Finally, the 'output_paired.discarded' and 'output_paired.settings' files correspond to those of the single-end run. ### Multiple input FASTQ files More than one input file may be specified for mate 1 and mate 2 reads. This is accomplished simply by listing more than one file after the --file1 and the --file2 options. For single-end reads: $ AdapterRemoval --file1 reads_1a.fq reads_1b.fq reads_1c.fq And for paired-end reads: $ AdapterRemoval --file1 reads_1a.fq reads_1b.fq reads_1c.fq --file2 reads_2a.fq reads_2b.fq reads_2c.fq AdapterRemoval will process these files as if they had been concatenated into a single file or pair of files prior to invoking AdapterRemoval. For paired reads, the files must be specified in the same order for --file1 and --file2. ### Interleaved FASTQ reads AdapterRemoval is able to read and write paired-end reads stored in a single, so-called interleaved FASTQ file (one pair at a time, first mate 1, then mate 2). This is accomplished by specifying the location of the file using --file1 and *also* setting the --interleaved command-line option: $ AdapterRemoval --interleaved --file1 interleaved.fq --basename output_interleaved Other than taking just a single input file, this mode operates almost exactly like paired end trimming (as described above); the mode differs only in that paired reads are not written to a 'pair1' and a 'pair2' file, but instead these are instead written to a single, interleaved file, named 'paired'. The location of this file is controlled using the --output1 option. Enabling either reading or writing of interleaved FASTQ files, both not both, can be accomplished by specifying the either of the --interleaved-input and --interleaved-output options, both of which are enabled by the --interleaved option. ### Combining FASTQ output By default, AdapterRemoval will create one output file for each mate, one file for discarded reads, and (in PE mode) one file paired reads where one mate has been discarded, and (optionally) two files for collapsed reads. Alternatively, these files may be combined using the --combined-output, in which case all output is directed to the mate 1 and (in PE mode) to the mate 2 file. In cases where reads are discarded due to trimming to due to being collapsed into a single sequence, the sequence and quality scores of the discarded read is replaced with a single 'N' with base-quality 0. This option may be combined with --interleaved / --interleaved-output, to write a single, interleaved file in paired-end mode. ### Different quality score encodings By default, AdapterRemoval expects the quality scores in FASTQ reads to be Phred+33 encoded, meaning that the error probabilities are encoded as (char)('!' - 10 * log10(p)). Most data will be encoded using Phred+33, but Phred+64 and 'Solexa' encoded quality scores are also supported. These are selected by specifying the --qualitybase command-line option (specifying either '33', '64', or 'solexa'): $ AdapterRemoval --qualitybase 64 --file1 reads_q64.fq --basename output_phred_64 By default, reads are written using the *same* encoding as the input. If a different encoding is desired, this may be accomplished using the --qualitybase-output option:: $ AdapterRemoval --qualitybase 64 --qualitybase-output 33 --file1 reads_q64.fq --basename output_phred_33 Note furthermore that AdapterRemoval by default only expects quality scores in the range 0 - 41 (or -5 to 41 in the case of Solexa encoded scores). If input data using a different maximum quality score is to be processed, or if the desired maximum quality score of collapsed reads is greater than 41, then this limit may be increased using the --qualitymax option:: $ AdapterRemoval --qualitymax 50 --file1 reads_1.fq --file2 reads_2.fq --collapse --basename output_collapsed_q50 For a detailed overview of Phred encoding schemes currently and previously in use, see e.g. the Wikipedia article on the subject: https://en.wikipedia.org/wiki/FASTQ_format#Encoding ### Trimming paired-end reads with multiple adapter pairs It is possible to trim data that contains multiple adapter pairs, by providing a one or two-column table containing possible adapter combinations (for single-end and paired-end trimming, respectively; see e.g. examples/adapters.txt): $ cat adapters.txt AGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTG AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT AAACTTGCTCTGTGCCCGCTCCGTATGTCACAACAGTGCGTGTATCACCTCAATGCAGGACTCA GATCGGGAGTAATTTGGAGGCAGTAGTTCGTCGAAACTCGGAGCGTCTTTAGCAGGAG CTAATTTGCCGTAGCGACGTACTTCAGCCTCCAGGAATTGGACCCTTACGCACACGCATTCATG TACCGTGAAAGGTGCGCTTAGTGGCATATGCGTTAAGAGCTAGGTAACGGTCTGGAGG GTTCATACGACGACGACCAATGGCACACTTATCCGGTACTTGCGTTTCAATGCGCATGCCCCAT TAAGAAACTCGGAGTTTGGCCTGCGAGGTAGCTTGGGTGTTATGAAGAACGGCATGCG CCATGCCCCGAAGATTCCTATACCCTTAAGGTCGCAATTGTTCGAGTAAGCTGTACGCGCCCAT GTTGCATTGACCCGAAGGGCTCGATGTTTAGGGAGGTCAGAAGTTGAGCGGGTTCAAA This table is then specified using the --adapter-list option: $ AdapterRemoval --file1 reads_1.fq --file2 reads_2.fq --basename output_multi --trimns --trimqualities --collapse --adapter-list adapters.txt The resulting .summary file contains an overview of how frequently each adapter (pair) was used. Note that in the case of paired-end adapters, AdapterRemoval considers only the combinations of adapters specified in the table, one combination per row. For single-end trimming, only the first column of the table file is required, and the list may therefore take the form of a file containing one sequence per line. ### Identifying adapter sequences from paired-ended reads If we did not know the adapter sequences for the 'reads\_*.fq' files, AdapterRemoval may be used to generate a consensus adapter sequence based on fragments identified as belonging to the adapters through pairwise alignments of the reads, provided that the data set contains only a single adapter sequence (not counting differences in index sequences). In the following example, the identified adapters corresponds to the default adapter sequences with a poly-A tail resulting from sequencing past the end of the insert + templates. It is not necessary to specify this tail when using the --adapter1 or --adapter2 command-line options. The characters shown under each of the consensus sequences represented the phred-encoded fraction of bases identical to the consensus base, with adapter 1 containing the index CACCTA: $ AdapterRemoval --identify-adapters --file1 reads_1.fq --file2 reads_2.fq Attemping to identify adapter sequences ... Processed a total of 1,000 reads in 0.0s; 129,000 reads per second on average ... Found 394 overlapping pairs ... Of which 119 contained adapter sequence(s) ... Printing adapter sequences, including poly-A tails: --adapter1: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG ||||||||||||||||||||||||||||||||||******|||||||||||||||||||||||| Consensus: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAA Quality: 55200522544444/4411330333330222222/1.1.1.1111100-00000///..+....--*-)),,+++++++**(('%%%$ Top 5 most common 9-bp 5'-kmers: 1: AGATCGGAA = 96.00% (96) 2: AGATGGGAA = 1.00% (1) 3: AGCTCGGAA = 1.00% (1) 4: AGAGCGAAA = 1.00% (1) 5: AGATCGGGA = 1.00% (1) --adapter2: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT |||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Consensus: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA Quality: 525555555144141441430333303.2/22-2/-1..11111110--00000///..+....--*-),,,+++++++**(%'%%%$ Top 5 most common 9-bp 5'-kmers: 1: AGATCGGAA = 100.00% (100) No files are generated from running the adapter identification step. The consensus sequences inferred are compared to those specified using the --adapter1 and --adapter2 command-line options, or with the default values for these if no values have been given (as in this case). Pipes (|) indicate matches between the provided sequences and the consensus sequence, and "*" indicate the presence of unspecified bases (Ns). ### Demultiplexing and adapter-trimming As of version 2.1, AdapterRemoval supports simultaneous demultiplexing and adapter trimming; demultiplexing is carried out using a simple comparison between the specified barcode (a sequence of A, C, G, and T) and the first N bases of the mate 1 read, where N is the length of the barcode. Demultiplexing of double-indexed sequences is also supported, in which case two barcodes must be specified for each sample. The first barcode is then compared to first N_1 bases of the mate 1 read, and the second barcode is compared to the first N_2 bases of the mate 2 read. By default, this comparison requires a perfect match. Reads identified as containing a specific barcode(s) are then trimmed using adapter sequences including the barcode(s) as necessary. Reads for which no (pair of) barcodes matched are written to a separate file or pair of files (for paired end reads). Demultiplexing is enabled by creating a table of barcodes, the first column of which species the sample name (using characters [a-zA-Z0-9_]) and the second and (optional) third columns specifies the barcode sequences expected at the 5' termini of mate 1 and mate 2 reads, respectively. For example, a table of barcodes from a double-indexed run might be as follows (see examples/barcodes.txt): $ cat barcodes.txt sample_1 ATGCGGA TGAATCT sample_2 ATGGATT ATAGTGA sample_7 CAAAACT TCGCTGC In the case of single-read reads, only the first two columns are required. AdapterRemoval is invoked with the --barcode-list option, specifying the path to this table: $ AdapterRemoval --file1 demux_1.fq --file2 demux_2.fq --basename output_demux --barcode-list barcodes.txt This generates a set of output files for each sample specified in the barcode table, using the basename (--basename) as the prefix, followed by a dot and the sample name, followed by a dot and the default name for a given file type. For example, the output files for sample_2 would be output_demux.sample_2.discarded output_demux.sample_2.pair1.truncated output_demux.sample_2.pair2.truncated output_demux.sample_2.settings output_demux.sample_2.singleton.truncated The settings files generated for each sample summarizes the reads for that sample only; in addition, a basename.settings file is generated which summarizes the number and proportion of reads identified as belonging to each sample. The maximum number of mismatches allowed when comparing barocdes is controlled using the options --barcode-mm, --barcode-mm-r1, and --barcode-mm-r2, which specify the maximum number of mismatches total, and the maximum number of mismatches for the mate 1 and mate 2 barcodes respectively. Thus, if mm_1(i) and mm_2(i) represents the number of mismatches observed for barcode-pair i for a given pair of reads, these options require that 1. mm_1(i) <= --barcode-mm-r1 2. mm_2(i) <= --barcode-mm-r2 3. mm_1(i) + mm_2(i) <= --barcode-mm ### Demultiplexing mode As of version 2.2, AdapterRemoval can furthermore be used to demultiplex reads, without carrying out other forms of adapter trimming. This is accomplished by specifying the --demultiplex-only option: $ AdapterRemoval --file1 demux_1.fq --file2 demux_2.fq --basename output_only_demux --barcode-list barcodes.txt --demultiplex-only Options listed under "TRIMMING SETTINGS" (see 'AdapterRemoval --help') do not apply to this mode, but compression (--gzip, --bzip2), multi-threading (--threads), interleaving (--interleaved, etc.) and other such options may be used in conjunction with --demultiplex-only. AdapterRemoval will generate a '.settings' file for each sample listed in the --barcode-list file, along with the adapter-sequences that should be used when trimming reads for a given sample. These adapters correspond to the adapters that were specified when running AdapterRemoval in demultiplexing mode, with the barcode prefixed as appropriate. An underscore is used to demarcate the location at which the barcode ends and the adapter beings. It is important to use these, updated, adapter sequences when trimming the demultiplexed reads, to avoid the inclusion of barcode sequences in reads extending past the 3' termini of the DNA template sequence. ## A note on specifying adapter sequences Please note that the --pcr1 and --pcr2 options used with AdapterRemoval v1.x have been deprecated in favor of options --adapter1 and --adapter2. For both --adapter1 and --adapter2 the adapter sequence are expected to be observed in the raw mate 1 and mate 2 reads respectively, exactly as specified on the command-line, which corresponds to the behavior of most adapter trimming programs. Default adapter #1: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Default adapter #2: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT Assuming these were the adapters used to generate our data, we should therefore see these in the FASTQ files (assuming that the read lengths are sufficiently long and that insert sizes are sufficently short), typically followed by a low-quality A-tail, when ignoring any difference in case and treating Ns as wildcards: $ grep -i "AGATCGGAAGAGCACACGTCTGAACTCCAGTCAC......ATCTCGTATGCCGTCTTCTGCTTG" file1.fq AGATCGGAAGAGCACACGTCTGAACTCCAGTCACCGATGAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAACAAGAAT CTGGAGTTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCGATGAATCTCGTATGCCGTCTTCTGCTTGAAAAAAA GGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCGATGAATCTCGTATGCCGTCTTCTGCTTGCAAATTGAAAACAC ... $ grep -i "AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT" file2.fq CAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTCAAAAAAAGAAAAACATCTTG GAACTCCAGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTCAAAAAAAATAGA GAACTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTCAAAAACATAAGACCTA ... The options --pcr1 and --adapter1 are functionally equivalent, while the option --pcr2 expects the reverse complement of the --adapter2 sequence. Thus, the default for --pcr2 is AATGATACGGCGACCACCGAGATCTACACTCTTTCCCTACACGACGCTCTTCCGATCT, the reverse complement of the default for --adapter2. adapterremoval-2.2.2/benchmark/000077500000000000000000000000001313314234200164515ustar00rootroot00000000000000adapterremoval-2.2.2/benchmark/README.md000066400000000000000000000050161313314234200177320ustar00rootroot00000000000000=========================== AdapterRemoval - Benchmarks =========================== Running the 'benchmark.sh' script from the 'benchmarks' folder will execute one or more sets of analyses, after checking that all required software is available in the ./bin/ folder. The following software is expected: - AdapterRemoval v1.5.4, located at 'bin/AdapterRemoval-1.5.4' - AdapterRemoval v2.1.0, located at 'bin/AdapterRemoval-2.1.0' Source: https://github.com/MikkelSchubert/adapterremoval - leeHom rev. dfca9e6, located at 'bin/leeHom_patched' Source: https://github.com/grenaud/leeHom Apply patches/leeHom.patch - Skewer v0.1.127, located at 'bin/skewer' Source: https://github.com/relipmoc/skewer - AlienTrimmer v0.4.0, located at 'bin/AlienTrimmer' Source: ftp://ftp.pasteur.fr/pub/GenSoft/projects/AlienTrimmer/ Note: Compile AlienTrimmer using GCJ! - Scythe 0.991, located at 'bin/scythe' Source: https://github.com/vsbuffalo/scythe - Cutadapt 1.8.3, located at 'bin/cutadapt' Source: https://code.google.com/p/cutadapt/ - FASTQ-MCF v1.1.2, located at 'bin/fastq-mcf' Source: https://code.google.com/p/ea-utils/ - Flexbar v2.5, located at 'bin/flexbar' Source: http://sourceforge.net/projects/flexbar/ - pIRS v1.1.1, located at 'bin/pirs_patched' Source: ftp://ftp.genomics.org.cn/pub/pIRS/ Apply patches/pIRS_111.patch - Trimmomatic v0.33, located at 'bin/trimmomatic-0.33.jar' Source: http://www.usadellab.org/cms/?page=trimmomatic - PEAT rev. 4e9ebf3, located at './bin/PEAT' Source: https://github.com/jhhung/PEAT - PEAR 0.9.6, located at 'bin/pear_patched' Source: http://sco.h-its.org/exelixis/web/software/pear/ Apply patches/pear.patch - Minion (from Kraken), located at 'bin/minion' Source: http://www.ebi.ac.uk/research/enright/software/kraken Additionally, the script expects a Java JRE ('bin/java') and the GNU 'time' command (located in PATH). As noted above, patches are supplied for the following programs: - leeHom: Disable gzip-compression and mark merged reads with "M_", to simplify analysis. - PEAR: Marks merged reads with "M_", to simplify processing. - pIRS: Adds support for user supplied adapter sequences and barcodes, allow zero length inserts. To process results generated by 'benchmark.sh', use the following scripts: - scripts/tabulate.py, call with arguments 'basic' or 'throughput' on the tables written to 'results/', for MCC and other statistics, and for data- processing throughput, respectively. adapterremoval-2.2.2/benchmark/adapters/000077500000000000000000000000001313314234200202545ustar00rootroot00000000000000adapterremoval-2.2.2/benchmark/adapters/adapter_1.fasta000066400000000000000000000001201313314234200231250ustar00rootroot00000000000000>mate1_adapter AGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTG adapterremoval-2.2.2/benchmark/adapters/adapter_1.pairs000066400000000000000000000001031313314234200231460ustar00rootroot00000000000000N AGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTG adapterremoval-2.2.2/benchmark/adapters/adapter_1.txt000066400000000000000000000001011313314234200226450ustar00rootroot00000000000000AGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTG adapterremoval-2.2.2/benchmark/adapters/adapter_2.fasta000066400000000000000000000001111313314234200231260ustar00rootroot00000000000000>mate2_adapter AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTadapterremoval-2.2.2/benchmark/adapters/adapter_2.txt000066400000000000000000000000731313314234200226560ustar00rootroot00000000000000AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT adapterremoval-2.2.2/benchmark/adapters/adapters.fasta000066400000000000000000000002221313314234200230730ustar00rootroot00000000000000>adapter/1 AGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTG >adapter/2 AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT adapterremoval-2.2.2/benchmark/adapters/mixed.fasta000066400000000000000000000014241313314234200224030ustar00rootroot00000000000000>adapter_orig/1 AGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTG >adapter_orig/2 AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT >adapter_rng_1/1 AAACTTGCTCTGTGCCCGCTCCGTATGTCACAACAGTGCGTGTATCACCTCAATGCAGGACTCA >adapter_rng_1/2 GATCGGGAGTAATTTGGAGGCAGTAGTTCGTCGAAACTCGGAGCGTCTTTAGCAGGAG >adapter_rng_2/1 CTAATTTGCCGTAGCGACGTACTTCAGCCTCCAGGAATTGGACCCTTACGCACACGCATTCATG >adapter_rng_2/2 TACCGTGAAAGGTGCGCTTAGTGGCATATGCGTTAAGAGCTAGGTAACGGTCTGGAGG >adapter_rng_3/1 GTTCATACGACGACGACCAATGGCACACTTATCCGGTACTTGCGTTTCAATGCGCATGCCCCAT >adapter_rng_3/2 TAAGAAACTCGGAGTTTGGCCTGCGAGGTAGCTTGGGTGTTATGAAGAACGGCATGCG >adapter_rng_4/1 CCATGCCCCGAAGATTCCTATACCCTTAAGGTCGCAATTGTTCGAGTAAGCTGTACGCGCCCAT >adapter_rng_4/2 GTTGCATTGACCCGAAGGGCTCGATGTTTAGGGAGGTCAGAAGTTGAGCGGGTTCAAA adapterremoval-2.2.2/benchmark/adapters/mixed.table000066400000000000000000000011541313314234200223740ustar00rootroot00000000000000AGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTG AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT AAACTTGCTCTGTGCCCGCTCCGTATGTCACAACAGTGCGTGTATCACCTCAATGCAGGACTCA GATCGGGAGTAATTTGGAGGCAGTAGTTCGTCGAAACTCGGAGCGTCTTTAGCAGGAG CTAATTTGCCGTAGCGACGTACTTCAGCCTCCAGGAATTGGACCCTTACGCACACGCATTCATG TACCGTGAAAGGTGCGCTTAGTGGCATATGCGTTAAGAGCTAGGTAACGGTCTGGAGG GTTCATACGACGACGACCAATGGCACACTTATCCGGTACTTGCGTTTCAATGCGCATGCCCCAT TAAGAAACTCGGAGTTTGGCCTGCGAGGTAGCTTGGGTGTTATGAAGAACGGCATGCG CCATGCCCCGAAGATTCCTATACCCTTAAGGTCGCAATTGTTCGAGTAAGCTGTACGCGCCCAT GTTGCATTGACCCGAAGGGCTCGATGTTTAGGGAGGTCAGAAGTTGAGCGGGTTCAAA adapterremoval-2.2.2/benchmark/adapters/mixed_1.fasta000066400000000000000000000006311313314234200226220ustar00rootroot00000000000000>adapter_orig/1 AGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTG >adapter_rng_1/1 AAACTTGCTCTGTGCCCGCTCCGTATGTCACAACAGTGCGTGTATCACCTCAATGCAGGACTCA >adapter_rng_2/1 CTAATTTGCCGTAGCGACGTACTTCAGCCTCCAGGAATTGGACCCTTACGCACACGCATTCATG >adapter_rng_3/1 GTTCATACGACGACGACCAATGGCACACTTATCCGGTACTTGCGTTTCAATGCGCATGCCCCAT >adapter_rng_4/1 CCATGCCCCGAAGATTCCTATACCCTTAAGGTCGCAATTGTTCGAGTAAGCTGTACGCGCCCAT adapterremoval-2.2.2/benchmark/adapters/mixed_1.txt000066400000000000000000000005051313314234200223430ustar00rootroot00000000000000AGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTG AAACTTGCTCTGTGCCCGCTCCGTATGTCACAACAGTGCGTGTATCACCTCAATGCAGGACTCA CTAATTTGCCGTAGCGACGTACTTCAGCCTCCAGGAATTGGACCCTTACGCACACGCATTCATG GTTCATACGACGACGACCAATGGCACACTTATCCGGTACTTGCGTTTCAATGCGCATGCCCCAT CCATGCCCCGAAGATTCCTATACCCTTAAGGTCGCAATTGTTCGAGTAAGCTGTACGCGCCCAT adapterremoval-2.2.2/benchmark/adapters/mixed_2.txt000066400000000000000000000004471313314234200223510ustar00rootroot00000000000000AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT GATCGGGAGTAATTTGGAGGCAGTAGTTCGTCGAAACTCGGAGCGTCTTTAGCAGGAG TACCGTGAAAGGTGCGCTTAGTGGCATATGCGTTAAGAGCTAGGTAACGGTCTGGAGG TAAGAAACTCGGAGTTTGGCCTGCGAGGTAGCTTGGGTGTTATGAAGAACGGCATGCG GTTGCATTGACCCGAAGGGCTCGATGTTTAGGGAGGTCAGAAGTTGAGCGGGTTCAAA adapterremoval-2.2.2/benchmark/benchmark.sh000066400000000000000000001141641313314234200207460ustar00rootroot00000000000000#!/bin/bash # # Copyright (c) 2015 Mikkel Schubert # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE # SOFTWARE. set -o nounset # Fail on unset variables set -o errexit # Fail on uncaught non-zero returncodes set -o pipefail # Fail is a command in a chain of pipes fails ############################################################################### ## BENCHMARK PARAMETERS # Number of replicates per test NUM_REPLICATES=10 # Read lengths to examine # Lengths > 100 use an interpolated profile, and should therefore not be used # to estimate anything other than runtime (see 'simulate_reads'). READ_LENGTHS=(100 200) # Insert sizes of reads to simulate for adapter ID ADAPTER_ID_INSERT_SIZES=($(seq 250 5 350)) # Maximum number of threads to use (testing 1 .. max) where supported MAX_THREADS=4 # Number of read (pairs) to simulate using pIRS for each replicate SIMULATED_NREADS=1000000 REFSEQ="results/reference.fasta" SIMULATED_PREFIX="results/simulated/reads" SIMULATED_MIXED_PREFIX="results/simulated/mixed" SIMULATED_ADAPTER_ID_PREFIX="results/simulated/adapter_id" ############################################################################### ## PRE-BENCHMARK CHECKS function check_for_executable() { echo -n "Checking for $1 executable '$2': " > /dev/stderr if [ -x "$2" ]; then echo -e "OK" > /dev/stderr elif which "$2" &> /dev/null; then echo -e "'$(which "$2" | head -n1)'" > /dev/stderr else echo -e "ERROR, NOT FOUND!" > /dev/stderr exit 1; fi } function check_for_jar() { echo -n "Checking for $1 jar at '$2': " > /dev/stderr if [ -e "$2" ]; then echo -e "OK" > /dev/stderr else echo -e "ERROR, NOT FOUND!" > /dev/stderr exit 1; fi } EXEC_ADAPTERREMOVAL1x="bin/AdapterRemoval-1.5.4" check_for_executable "AdapterRemoval v1.x" "${EXEC_ADAPTERREMOVAL1x}" # https://github.com/slindgreen/AdapterRemoval/raw/master/AdapterRemoval-1.5.4.tar.gz EXEC_ADAPTERREMOVAL2x="bin/AdapterRemoval-2.1.3" check_for_executable "AdapterRemoval v2.x" "${EXEC_ADAPTERREMOVAL2x}" # https://github.com/MikkelSchubert/adapterremoval EXEC_LEEHOM="bin/leeHom_patched" check_for_executable "leeHom" "${EXEC_LEEHOM}" # https://github.com/grenaud/leeHom # -- Apply patches/leeHom.patch EXEC_SKEWER="bin/skewer" check_for_executable "Skewer" "${EXEC_SKEWER}" # https://github.com/relipmoc/skewer EXEC_ALIENTRIMMER="bin/AlienTrimmer" check_for_executable "AlienTrimmer" "${EXEC_ALIENTRIMMER}" # ftp://ftp.pasteur.fr/pub/GenSoft/projects/AlienTrimmer/ EXEC_SCYTHE="bin/scythe" check_for_executable "Scythe" "${EXEC_SCYTHE}" # https://github.com/vsbuffalo/scythe EXEC_CUTADAPT="bin/cutadapt" check_for_executable "Cutadapt" "${EXEC_CUTADAPT}" # https://code.google.com/p/cutadapt/ EXEC_FLEXBAR="bin/flexbar" check_for_executable "Flexbar" "${EXEC_FLEXBAR}" # http://sourceforge.net/projects/flexbar/ EXEC_PIRS="bin/pirs_patched" check_for_executable "pIRS (with adapters)" "${EXEC_PIRS}" # ftp://ftp.genomics.org.cn/pub/pIRS/ # -- Apply patches/pirs.patch JAR_TRIMMOMATIC="bin/trimmomatic-0.33.jar" check_for_jar "Trimmomatic" ${JAR_TRIMMOMATIC} # http://www.usadellab.org/cms/?page=trimmomatic EXEC_PEAT="./bin/PEAT" check_for_executable "PEAT" ${EXEC_PEAT} # https://github.com/jhhung/PEAT EXEC_PEAR="bin/pear_patched" check_for_executable "PEAR" ${EXEC_PEAR} # http://sco.h-its.org/exelixis/web/software/pear/ # -- Apply patches/pear.patch EXEC_MINION="bin/minion" check_for_executable "minion (kraken)" ${EXEC_MINION} # http://www.ebi.ac.uk/research/enright/software/kraken EXEC_FASTQ_MCF="bin/fastq-mcf" check_for_executable "fastq-mcf" ${EXEC_FASTQ_MCF} # https://code.google.com/p/ea-utils/ EXEC_TIME=/usr/bin/time check_for_executable "GNU time" ${EXEC_TIME} # Needed for time / RAM usage EXEC_JAVA="bin/java" check_for_executable "Java JRE" ${EXEC_JAVA} # Needed for Trimmomatic # Script for evaluating trimming / collapsing RESULTS SCRIPT_EVALUATE="./scripts/evaluate.py" check_for_executable "Evaluation script for read trimming / merging" ${SCRIPT_EVALUATE} # Script for evaluating trimming / collapsing RESULTS SCRIPT_EVALUATE_ID="./scripts/evaluate_id.py" check_for_executable "Evaluation script for adapter identification" ${SCRIPT_EVALUATE_ID} # Script for merging tables generated by ${SCRIPT_EVALUATE} SCRIPT_MERGE="./scripts/merge_tables.py" check_for_executable "Table merging script" ${SCRIPT_MERGE} ############################################################################### function shuffle_and_run() { echo > /dev/stderr echo "Shuffling batch ..." > /dev/stderr python -c "import sys, random lines = sys.stdin.readlines() random.shuffle(lines) sys.stdout.write(''.join(lines))" | while read command; do ${command}; done } function do_run_piped() { DST=$1 DST_TIME=$2 DST_STDOUT=$3 DST_STDERR=$4 shift 4 if [ -e "${DST}.table" ]; then echo "Skipping ${DST}.table" > /dev/stderr else echo "Building ${DST}.table" > /dev/stderr rm -rf "${DST:?}/" mkdir -p "${DST}/" if ! ${EXEC_TIME} --verbose --output "${DST_TIME}" "$@" \ > "${DST_STDOUT}" 2> "${DST_STDERR}"; then echo "Error running command!" > /dev/stderr exit 1 fi fi } function do_run() { DST=$1 shift 1 do_run_piped "${DST}" "${DST}/time" "${DST}/stdout.txt" "${DST}/stderr.txt" "$@" } function do_evaluate() { DST=$1 if [ ! -e "${DST}.table" ]; then ${SCRIPT_EVALUATE} "$@" fi } ############################################################################### function fetch_reference() { echo "------------------------------------------------------------" > /dev/stderr echo "Fetching reference sequence ..." > /dev/stderr if [ -e "results/reference.fasta" ]; then echo "Reference sequence found; skipping ..." > /dev/stderr echo "" > /dev/stderr else echo "" > /dev/stderr wget -O results/reference.fasta.gz http://hgdownload.soe.ucsc.edu/goldenPath/hg38/chromosomes/chr1.fa.gz gunzip results/reference.fasta.gz fi } function simulate_reads() { echo "------------------------------------------------------------" > /dev/stderr echo "Simulating reads ..." > /dev/stderr echo "" > /dev/stderr for readlen in ${READ_LENGTHS[*]}; do INSERT_MEAN=$(((${readlen} * 3) / 2)) INSERT_SD=$((${INSERT_MEAN} / 2)) if [ "${readlen}" -gt 100 ]; then # Use fake profiles, built using scripts/extend_profile.py PROFILE_CLI="-b profiles/phixv2.InDel.matrix -s profiles/humNew.PE100.matrix.gz" else PROFILE_CLI= fi for run_n in ${REPLICATES}; do DST="${SIMULATED_PREFIX}_${run_n}_${readlen}" if [ -e "${DST}.read.info" ]; then echo " Skipping ${DST}.*" > /dev/stderr else echo " Simulating reads run=${run_n}, l=${readlen}, m=${INSERT_MEAN}, v=${INSERT_SD} ..." > /dev/stderr rm -rf "${DST:?}/" mkdir -p "${DST}/" # -c 0 = uncompressed output if ! ${EXEC_PIRS} simulate ${PROFILE_CLI} -x "${SIMULATED_NREADS}" -l "${readlen}" -i "${REFSEQ}" -c 0 -m "${INSERT_MEAN}" -v "${INSERT_SD}" -Q 33 -o "${DST}/reads" \ > "${DST}/reads.stdout" 2> "${DST}/reads.stderr"; then echo "Error simulated reads ..." > /dev/stderr exit 1 fi gunzip "${DST}/reads_${readlen}_${INSERT_MEAN}.read.info.gz" ln -sf "$(basename "${DST}")/reads_${readlen}_${INSERT_MEAN}_1.fq" "${DST}_1.fq" ln -sf "$(basename "${DST}")/reads_${readlen}_${INSERT_MEAN}_2.fq" "${DST}_2.fq" ln -sf "$(basename "${DST}")/reads_${readlen}_${INSERT_MEAN}.read.info" "${DST}.read.info" fi done done echo > /dev/stderr } function simulate_mixed_reads() { # Random adapter pairs generated as follows: # # $ scripts/shuffle_fasta.py adapters/adapter_1.fasta # Seed = 209548449294681565 # Seq = AGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTG # New = AAACTTGCTCTGTGCCCGCTCCGTATGTCACAACAGTGCGTGTATCACCTCAATGCAGGACTCA # New = CTAATTTGCCGTAGCGACGTACTTCAGCCTCCAGGAATTGGACCCTTACGCACACGCATTCATG # New = GTTCATACGACGACGACCAATGGCACACTTATCCGGTACTTGCGTTTCAATGCGCATGCCCCAT # New = CCATGCCCCGAAGATTCCTATACCCTTAAGGTCGCAATTGTTCGAGTAAGCTGTACGCGCCCAT # # $ scripts/shuffle_fasta.py adapters/adapter_2.fasta # Seed = 1852992042931739018 # Seq = AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT # New = GATCGGGAGTAATTTGGAGGCAGTAGTTCGTCGAAACTCGGAGCGTCTTTAGCAGGAG # New = TACCGTGAAAGGTGCGCTTAGTGGCATATGCGTTAAGAGCTAGGTAACGGTCTGGAGG # New = TAAGAAACTCGGAGTTTGGCCTGCGAGGTAGCTTGGGTGTTATGAAGAACGGCATGCG # New = GTTGCATTGACCCGAAGGGCTCGATGTTTAGGGAGGTCAGAAGTTGAGCGGGTTCAAA echo "------------------------------------------------------------" > /dev/stderr echo "Simulating mixed reads ..." > /dev/stderr echo "" > /dev/stderr for readlen in ${READ_LENGTHS[*]}; do INSERT_MEAN=$(((${readlen} * 3) / 2)) INSERT_SD=$((${INSERT_MEAN} / 2)) if [ "${readlen}" -gt 100 ]; then # Use fake profiles, built using scripts/extend_profile.py PROFILE_CLI="-b profiles/phixv2.InDel.matrix -s profiles/humNew.PE100.matrix.gz" else PROFILE_CLI= fi for run_n in ${REPLICATES}; do DST="${SIMULATED_MIXED_PREFIX}_${run_n}_${readlen}" if [ -e "${DST}.read.info" ]; then echo " Skipping ${DST}.*" > /dev/stderr else echo " Simulating mixed reads run=${run_n}, l=${readlen}, m=${INSERT_MEAN}, v=${INSERT_SD} ..." > /dev/stderr rm -rf "${DST:?}/" mkdir -p "${DST}/" # -c 0 = uncompressed output # -x ${NREADS} if ! ${EXEC_PIRS} simulate ${PROFILE_CLI} \ -x "${SIMULATED_NREADS}" -l "${readlen}" -i "${REFSEQ}" \ -c 0 -m "${INSERT_MEAN}" -v "${INSERT_SD}" -Q 33 \ -o "${DST}/reads" \ -1 AGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTG \ -1 AAACTTGCTCTGTGCCCGCTCCGTATGTCACAACAGTGCGTGTATCACCTCAATGCAGGACTCA \ -1 CTAATTTGCCGTAGCGACGTACTTCAGCCTCCAGGAATTGGACCCTTACGCACACGCATTCATG \ -1 GTTCATACGACGACGACCAATGGCACACTTATCCGGTACTTGCGTTTCAATGCGCATGCCCCAT \ -1 CCATGCCCCGAAGATTCCTATACCCTTAAGGTCGCAATTGTTCGAGTAAGCTGTACGCGCCCAT \ -2 AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT \ -2 GATCGGGAGTAATTTGGAGGCAGTAGTTCGTCGAAACTCGGAGCGTCTTTAGCAGGAG \ -2 TACCGTGAAAGGTGCGCTTAGTGGCATATGCGTTAAGAGCTAGGTAACGGTCTGGAGG \ -2 TAAGAAACTCGGAGTTTGGCCTGCGAGGTAGCTTGGGTGTTATGAAGAACGGCATGCG \ -2 GTTGCATTGACCCGAAGGGCTCGATGTTTAGGGAGGTCAGAAGTTGAGCGGGTTCAAA \ > "${DST}/stdout.txt" 2> "${DST}/stderr.txt"; then echo "Error simulated reads ..." > /dev/stderr exit 1 fi gunzip "${DST}/reads_${readlen}_${INSERT_MEAN}.read.info.gz" ln -sf "$(basename "${DST}")/reads_${readlen}_${INSERT_MEAN}_1.fq" "${DST}_1.fq" ln -sf "$(basename "${DST}")/reads_${readlen}_${INSERT_MEAN}_2.fq" "${DST}_2.fq" ln -sf "$(basename "${DST}")/reads_${readlen}_${INSERT_MEAN}.read.info" "${DST}.read.info" fi done done echo > /dev/stderr } function simulate_adapter_id_reads() { echo "------------------------------------------------------------" > /dev/stderr echo "Simulating reads for adapter identification ..." > /dev/stderr echo "" > /dev/stderr readlen=100 for INSERT_MEAN in ${ADAPTER_ID_INSERT_SIZES[*]}; do for run_n in ${REPLICATES}; do DST="${SIMULATED_ADAPTER_ID_PREFIX}_${run_n}_${readlen}_${INSERT_MEAN}" if [ -e "${DST}.read.info" ]; then echo " Skipping ${DST}.*" > /dev/stderr else echo " Simulating reads run=${run_n}, l=${readlen}, m=${INSERT_MEAN}, v=75 ..." > /dev/stderr rm -rf "${DST:?}/" mkdir -p "${DST}/" if ! ${EXEC_TIME} --verbose --output "${DST}/time" ${EXEC_PIRS} simulate -x "${SIMULATED_NREADS}" -l "${readlen}" -i "${REFSEQ}" -c 0 -m "${INSERT_MEAN}" -v 75 -Q 33 -o "${DST}/reads" \ > "${DST}/reads.stdout" 2> "${DST}/reads.stderr"; then echo "Error simulated reads ..." > /dev/stderr exit 1 fi gunzip "${DST}/reads_${readlen}_${INSERT_MEAN}.read.info.gz" ln -sf "$(basename "${DST}")/reads_${readlen}_${INSERT_MEAN}_1.fq" "${DST}_1.fq" ln -sf "$(basename "${DST}")/reads_${readlen}_${INSERT_MEAN}_2.fq" "${DST}_2.fq" ln -sf "$(basename "${DST}")/reads_${readlen}_${INSERT_MEAN}.read.info" "${DST}.read.info" fi done done echo > /dev/stderr } ############################################################################### function run_pear() { NTHREADS=$1 DST=$2 FQ_INFO=$3 FQ_MATE1=$4 FQ_MATE2=$5 shift 5 do_run "${DST}" ${EXEC_PEAR} paired -j "${NTHREADS}" -t 0 \ -f "${FQ_MATE1}" -r "${FQ_MATE2}" \ -o "${DST}/reads" "$@" do_evaluate "${DST}" "${FQ_INFO}" --read-mode PE --collapsed } function run_adapterremoval() { MODE=$1 EXECUTABLE=$2 NTHREADS=$3 DST=$4 FQ_INFO=$5 shift 5 if [ "$NTHREADS" -eq 1 ]; then NTHREADS_CLI="" else NTHREADS_CLI="--threads ${NTHREADS}" fi if [ "${MODE}" = "COLLAPSE" ]; then MODE="PE" COLLAPSE_CLI="--collapsed" else COLLAPSE_CLI="" fi do_run "${DST}" "${EXECUTABLE}" --basename "${DST}/reads" ${NTHREADS_CLI} "$@" do_evaluate "${DST}" "${FQ_INFO}" --read-mode "${MODE}" ${COLLAPSE_CLI} } function run_peat_se() { NTHREADS=$1 DST=$2 FQ_INFO=$3 FQ_MATE1=$4 shift 4 do_run "${DST}" ${EXEC_PEAT} single -q SANGER -n "${NTHREADS}" \ -a "$(cat adapters/adapter_1.txt)" \ -i "${FQ_MATE1}" -o "${DST}/reads.fastq" "$@" do_evaluate "${DST}" "${FQ_INFO}" --read-mode SE } function run_peat_pe() { NTHREADS=$1 DST=$2 FQ_INFO=$3 FQ_MATE1=$4 FQ_MATE2=$5 shift 5 do_run "${DST}" ${EXEC_PEAT} paired -n "${NTHREADS}" \ -1 "${FQ_MATE1}" -2 "${FQ_MATE2}" \ -o "${DST}/reads" "$@" do_evaluate "${DST}" "${FQ_INFO}" --read-mode PE } function run_trimmomatic_se() { MODE=$1 NTHREADS=$2 DST=$3 FQ_INFO=$4 FQ_MATE1=$5 FQ_EXT=$6 shift 6 if [ "${MODE}" = "MIXED" ]; then ADAPTERS="adapters/mixed.fasta" else ADAPTERS="adapters/adapters.fasta" fi do_run "${DST}" ${EXEC_JAVA} -jar ${JAR_TRIMMOMATIC} SE -phred33 -threads "${NTHREADS}" \ "${FQ_MATE1}" "${DST}/reads${FQ_EXT}" "$@" \ "ILLUMINACLIP:${ADAPTERS}:2:7:10" do_evaluate "${DST}" "${FQ_INFO}" --read-mode SE \ --dimers-are-discarded } function run_trimmomatic_pe() { MODE=$1 NTHREADS=$2 DST=$3 FQ_INFO=$4 FQ_MATE1=$5 FQ_MATE2=$6 FQ_EXT=$7 shift 7 if [ "${MODE}" = "MIXED" ]; then ADAPTERS="adapters/mixed.fasta" else ADAPTERS="adapters/adapters.fasta" fi do_run "${DST}" ${EXEC_JAVA} -jar ${JAR_TRIMMOMATIC} PE \ -threads "${NTHREADS}" -phred33 \ "${FQ_MATE1}" "${FQ_MATE2}" \ "${DST}/reads.1${FQ_EXT}" "${DST}/reads.1.singletons.${FQ_EXT}" \ "${DST}/reads.2${FQ_EXT}" "${DST}/reads.2.singletons.${FQ_EXT}" \ "ILLUMINACLIP:${ADAPTERS}:2:30:7:1:true" "$@" do_evaluate "${DST}" "${FQ_INFO}" --read-mode PE \ --dimers-are-discarded } function run_flexbar() { MODE=$1 NTHREADS=$2 DST=$3 FQ_INFO=$4 shift 4 do_run "${DST}" ${EXEC_FLEXBAR} -m 0 -t "${DST}/reads" -n "${NTHREADS}" "$@" do_evaluate "${DST}" "${FQ_INFO}" --read-mode "${MODE}" } function run_skewer() { MODE=$1 NTHREADS=$2 DST=$3 FQ_INFO=$4 shift 4 do_run "${DST}" ${EXEC_SKEWER} -o "${DST}/reads" -l 0 -t "${NTHREADS}" "$@" \ do_evaluate "${DST}" "${FQ_INFO}" --read-mode "${MODE}" } function run_scythe() { DST=$1 FQ_INFO=$2 FQ_MATE1=$3 shift 3 do_run "${DST}" ${EXEC_SCYTHE} -M 0 "$@" \ -a "adapters/adapter_1.fasta" \ -o "${DST}/reads.trimmed" \ "${FQ_MATE1}" do_evaluate "${DST}" "${FQ_INFO}" --read-mode SE } function run_alientrimmer_se() { DST=$1 FQ_INFO=$2 FQ_MATE1=$3 shift 3 do_run "${DST}" ${EXEC_ALIENTRIMMER} -l 0 "$@" \ -i "${FQ_MATE1}" \ -o "${DST}/reads.trimmed" do_evaluate "${DST}" "${FQ_INFO}" --read-mode SE } function run_alientrimmer_pe() { DST=$1 FQ_INFO=$2 FQ_MATE1=$3 FQ_MATE2=$4 shift 4 do_run "${DST}" ${EXEC_ALIENTRIMMER} -l 0 "$@" \ -if "${FQ_MATE1}" \ -ir "${FQ_MATE2}" \ -os "${DST}/reads.trimmed" \ -or "${DST}/reads.trimmed.mate1" \ -of "${DST}/reads.trimmed.mate2" do_evaluate "${DST}" "${FQ_INFO}" --read-mode PE } function run_cutadapt_se() { DST=$1 FQ_INFO=$2 FQ_MATE1=$3 shift 3 do_run "${DST}" ${EXEC_CUTADAPT} "$@" \ -o "${DST}/reads.trimmed" \ "${FQ_MATE1}" do_evaluate "${DST}" "${FQ_INFO}" --read-mode SE } function run_cutadapt_pe() { DST=$1 FQ_INFO=$2 FQ_MATE1=$3 FQ_MATE2=$4 shift 4 do_run "${DST}" ${EXEC_CUTADAPT} "$@" \ -o "${DST}/reads.trimmed.1" \ -p "${DST}/reads.trimmed.2" \ "${FQ_MATE1}" \ "${FQ_MATE2}" do_evaluate "${DST}" "${FQ_INFO}" --read-mode PE } function run_leeHom() { MODE=$1 DST=$2 FQ_INFO=$3 shift 3 if [ "${MODE}" = "COLLAPSE" ]; then MODE="PE" COLLAPSE_CLI="--collapsed" else COLLAPSE_CLI="" fi do_run "${DST}" "${EXEC_LEEHOM}" "$@" -fqo "${DST}/reads" do_evaluate "${DST}" "${FQ_INFO}" --read-mode "${MODE}" ${COLLAPSE_CLI} } function run_fastq_mcf_se() { DST=$1 FQ_INFO=$2 ADAPTERS=$3 FQ_MATE1=$4 shift 4 # -0 to disable quality trimming do_run "${DST}" ${EXEC_FASTQ_MCF} -0 \ "${ADAPTERS}" \ "${FQ_MATE1}" \ -o "${DST}/reads.trimmed" "$@" do_evaluate "${DST}" "${FQ_INFO}" --read-mode SE \ --dimers-are-discarded } function run_fastq_mcf_pe() { DST=$1 FQ_INFO=$2 ADAPTERS=$3 FQ_MATE1=$4 FQ_MATE2=$5 shift 5 # -0 to disable quality trimming do_run "${DST}" ${EXEC_FASTQ_MCF} -0 \ "${ADAPTERS}" \ "${FQ_MATE1}" \ "${FQ_MATE2}" \ -o "${DST}/reads.trimmed.mate1" \ -o "${DST}/reads.trimmed.mate2" \ "$@" do_evaluate "${DST}" "${FQ_INFO}" --read-mode PE \ --dimers-are-discarded } ############################################################################### function run_minion() { DST=$1 FQ_MATE1=$2 FQ_MATE2=$3 shift 3 if [ ! -e "${DST}/DONE" ]; then echo "Runing ${DST} ..." > /dev/stderr rm -rf "${DST:?}/" mkdir -p "${DST}/" ${EXEC_MINION} search-adapter -show 5 -i "${FQ_MATE1}" \ > "${DST}/mate1.txt" ${EXEC_MINION} search-adapter -show 5 -i "${FQ_MATE2}" \ > "${DST}/mate2.txt" touch "${DST}/DONE" fi } function run_adapterremoval_id() { DST=$1 FQ_MATE1=$2 FQ_MATE2=$3 shift 3 if [ ! -e "${DST}/DONE" ]; then echo "Runing ${DST} ..." > /dev/stderr rm -rf "${DST:?}/" mkdir -p "${DST}/" ${EXEC_ADAPTERREMOVAL2x} --identify-adapters \ --file1 "${FQ_MATE1}" --file2 "${FQ_MATE2}" \ > "${DST}/mates.txt" touch "${DST}/DONE" fi } ############################################################################### # Common replicates strings REPLICATES=$(printf "%03i\n" $(seq 1 ${NUM_REPLICATES})) function benchmark_se() { simulate_reads echo "------------------------------------------------------------" > /dev/stderr echo "Running SE benchmarks ..." > /dev/stderr echo "" > /dev/stderr for readlen in ${READ_LENGTHS[*]}; do for run_n in ${REPLICATES}; do { # Shuffle each individual run SIMULATED_MATE1="${SIMULATED_PREFIX}_${run_n}_${readlen}_1.fq" SIMULATED_MATE2="${SIMULATED_PREFIX}_${run_n}_${readlen}_2.fq" SIMULATED_INFO="${SIMULATED_PREFIX}_${run_n}_${readlen}.read.info" RESULTS="results/se/${readlen}_${run_n}" # -mm 3 corresponds to AR 2.x defaults echo run_adapterremoval SE ${EXEC_ADAPTERREMOVAL1x} 1 \ "${RESULTS}/adapterremoval1x_mm3" \ "${SIMULATED_INFO}" \ --file1 "${SIMULATED_MATE1}" \ --mm 3 # -mm 3 --minadapteroverlap 3 (test) echo run_adapterremoval SE ${EXEC_ADAPTERREMOVAL2x} 1 \ "${RESULTS}/adapterremoval2x_min3_mm3" \ "${SIMULATED_INFO}" \ --file1 "${SIMULATED_MATE1}" \ --minadapteroverlap 3 --mm 3 # -mm 5 --minadapteroverlap 3 (test) echo run_adapterremoval SE ${EXEC_ADAPTERREMOVAL2x} 1 \ "${RESULTS}/adapterremoval2x_min3_mm5" \ "${SIMULATED_INFO}" \ --file1 "${SIMULATED_MATE1}" \ --minadapteroverlap 3 --mm 5 for nthreads in $(seq 1 ${MAX_THREADS}); do AR_PREFIX="${RESULTS}/adapterremoval2x" echo run_adapterremoval SE ${EXEC_ADAPTERREMOVAL2x} "${nthreads}" \ "${AR_PREFIX}_t${nthreads}" \ "${SIMULATED_INFO}" \ --file1 "${SIMULATED_MATE1}" \ echo run_skewer SE "${nthreads}" \ "${RESULTS}/skewer_t${nthreads}" \ "${SIMULATED_INFO}" \ "${SIMULATED_MATE1}" echo run_flexbar SE "${nthreads}" \ "${RESULTS}/flexbar_t${nthreads}" \ "${SIMULATED_INFO}" \ -a "./adapters/adapter_1.fasta" \ -r "${SIMULATED_MATE1}" echo run_trimmomatic_se SE "${nthreads}" \ "${RESULTS}/trimmomatic_t${nthreads}" \ "${SIMULATED_INFO}" \ "${SIMULATED_MATE1}" \ ".fastq" echo run_peat_se "${nthreads}" \ "${RESULTS}/peat_t${nthreads}" \ "${SIMULATED_INFO}" \ "${SIMULATED_MATE1}" done echo run_cutadapt_se "${RESULTS}/cutadapt" \ "${SIMULATED_INFO}" \ "${SIMULATED_MATE1}" \ -a "$(cat adapters/adapter_1.txt)" echo run_scythe "${RESULTS}/scythe" \ "${SIMULATED_INFO}" \ "${SIMULATED_MATE1}" echo run_alientrimmer_se "${RESULTS}/alientrimmer_q00" \ "${SIMULATED_INFO}" \ "${SIMULATED_MATE1}" \ -c "adapters/adapter_1.txt" \ -q 0 echo run_leeHom SE \ "${RESULTS}/leeHom" \ "${SIMULATED_INFO}" \ -fq1 "${SIMULATED_MATE1}" echo run_leeHom SE \ "${RESULTS}/leeHom_ancient" \ "${SIMULATED_INFO}" \ -fq1 "${SIMULATED_MATE1}" \ --ancientdna echo run_fastq_mcf_se "${RESULTS}/fastq_mcf" \ "${SIMULATED_INFO}" \ "./adapters/adapter_1.fasta" \ "${SIMULATED_MATE1}" } | shuffle_and_run done done ${SCRIPT_MERGE} results/se > results/se.table } function benchmark_pe() { simulate_reads echo "------------------------------------------------------------" > /dev/stderr echo "Running PE benchmarks ..." > /dev/stderr echo "" > /dev/stderr for readlen in ${READ_LENGTHS[*]}; do for run_n in ${REPLICATES}; do { # Shuffle each individual run SIMULATED_MATE1="${SIMULATED_PREFIX}_${run_n}_${readlen}_1.fq" SIMULATED_MATE2="${SIMULATED_PREFIX}_${run_n}_${readlen}_2.fq" SIMULATED_INFO="${SIMULATED_PREFIX}_${run_n}_${readlen}.read.info" RESULTS="results/pe/${readlen}_${run_n}" DEFAULT_ARGS=("${SIMULATED_INFO}" "${SIMULATED_MATE1}" "${SIMULATED_MATE2}") # -mm 3 corresponds to AR 2.x defaults echo run_adapterremoval PE ${EXEC_ADAPTERREMOVAL1x} 1 \ "${RESULTS}/adapterremoval1x_mm3" \ "${SIMULATED_INFO}" \ --file1 "${SIMULATED_MATE1}" \ --file2 "${SIMULATED_MATE2}" \ --mm 3 for nthreads in $(seq 1 ${MAX_THREADS}); do AR_PREFIX="${RESULTS}/adapterremoval2x" echo run_adapterremoval PE ${EXEC_ADAPTERREMOVAL2x} "${nthreads}" \ "${AR_PREFIX}_t${nthreads}" \ "${SIMULATED_INFO}" \ --file1 "${SIMULATED_MATE1}" \ --file2 "${SIMULATED_MATE2}" \ echo run_skewer PE "${nthreads}" \ "${RESULTS}/skewer_t${nthreads}" \ "${DEFAULT_ARGS[*]}" echo run_flexbar PE "${nthreads}" \ "${RESULTS}/flexbar_t${nthreads}" \ "${SIMULATED_INFO}" \ -a "./adapters/adapters.fasta" \ -r "${SIMULATED_MATE1}" \ -p "${SIMULATED_MATE2}" echo run_trimmomatic_pe PE "${nthreads}" \ "${RESULTS}/trimmomatic_t${nthreads}" \ "${DEFAULT_ARGS[*]}" \ ".fastq" echo run_peat_pe "${nthreads}" \ "${RESULTS}/peat_t${nthreads}" \ "${DEFAULT_ARGS[*]}" done echo run_cutadapt_pe "${RESULTS}/cutadapt" \ "${DEFAULT_ARGS[*]}" \ -a "$(cat adapters/adapter_1.txt)" \ -A "$(cat adapters/adapter_2.txt)" echo run_alientrimmer_pe "${RESULTS}/alientrimmer_q00" \ "${DEFAULT_ARGS[*]}" \ -cf "adapters/adapter_1.txt" \ -cr "adapters/adapter_2.txt" \ -q 0 echo run_leeHom PE \ "${RESULTS}/leeHom" \ "${SIMULATED_INFO}" \ -fq1 "${SIMULATED_MATE1}" \ -fq2 "${SIMULATED_MATE2}" echo run_leeHom PE \ "${RESULTS}/leeHom_ancient" \ "${SIMULATED_INFO}" \ -fq1 "${SIMULATED_MATE1}" \ -fq2 "${SIMULATED_MATE2}" \ --ancientdna echo run_fastq_mcf_pe "${RESULTS}/fastq_mcf" \ "${SIMULATED_INFO}" \ "./adapters/adapters.fasta" \ "${SIMULATED_MATE1}" \ "${SIMULATED_MATE2}" } | shuffle_and_run done done ${SCRIPT_MERGE} results/pe > results/pe.table } function benchmark_collapse() { simulate_reads echo "------------------------------------------------------------" > /dev/stderr echo "Running collapsing benchmarks ..." > /dev/stderr echo "" > /dev/stderr for readlen in ${READ_LENGTHS[*]}; do for run_n in ${REPLICATES}; do { # Shuffle each individual run SIMULATED_MATE1="${SIMULATED_PREFIX}_${run_n}_${readlen}_1.fq" SIMULATED_MATE2="${SIMULATED_PREFIX}_${run_n}_${readlen}_2.fq" SIMULATED_INFO="${SIMULATED_PREFIX}_${run_n}_${readlen}.read.info" RESULTS="results/collapse/${readlen}_${run_n}" DEFAULT_ARGS=("${SIMULATED_INFO}" "${SIMULATED_MATE1}" "${SIMULATED_MATE2}") # -mm 3 corresponds to AR 2.x defaults echo run_adapterremoval COLLAPSE ${EXEC_ADAPTERREMOVAL1x} 1 \ "${RESULTS}/adapterremoval1x_mm3" \ "${SIMULATED_INFO}" \ --file1 "${SIMULATED_MATE1}" \ --file2 "${SIMULATED_MATE2}" \ --mm 3 --collapse for nthreads in $(seq 1 ${MAX_THREADS}); do AR_PREFIX="${RESULTS}/adapterremoval2x" echo run_adapterremoval COLLAPSE ${EXEC_ADAPTERREMOVAL2x} "${nthreads}" \ "${AR_PREFIX}_t${nthreads}" \ "${SIMULATED_INFO}" \ --file1 "${SIMULATED_MATE1}" \ --file2 "${SIMULATED_MATE2}" \ --collapse echo run_pear "${nthreads}" \ "${RESULTS}/pear_t${nthreads}" \ "${SIMULATED_INFO}" \ "${SIMULATED_MATE1}" \ "${SIMULATED_MATE2}" done echo run_leeHom COLLAPSE \ "${RESULTS}/leeHom" \ "${SIMULATED_INFO}" \ -fq1 "${SIMULATED_MATE1}" \ -fq2 "${SIMULATED_MATE2}" echo run_leeHom COLLAPSE \ "${RESULTS}/leeHom_ancient" \ "${SIMULATED_INFO}" \ -fq1 "${SIMULATED_MATE1}" \ -fq2 "${SIMULATED_MATE2}" \ --ancientdna } | shuffle_and_run done done ${SCRIPT_MERGE} results/collapse > results/collapse.table } function benchmark_mixed_se { simulate_mixed_reads echo "------------------------------------------------------------" > /dev/stderr echo "Running mixed se adapters benchmarks ..." > /dev/stderr echo "" > /dev/stderr for readlen in ${READ_LENGTHS[*]}; do for run_n in ${REPLICATES}; do { # Shuffle each individual run SIMULATED_MATE1="${SIMULATED_MIXED_PREFIX}_${run_n}_${readlen}_1.fq" SIMULATED_MATE2="${SIMULATED_MIXED_PREFIX}_${run_n}_${readlen}_2.fq" SIMULATED_INFO="${SIMULATED_MIXED_PREFIX}_${run_n}_${readlen}.read.info" RESULTS="results/mixed_se/${readlen}_${run_n}" DEFAULT_ARGS=("${SIMULATED_INFO}" "${SIMULATED_MATE1}" "${SIMULATED_MATE2}") AR_PREFIX="${RESULTS}/adapterremoval2x" # -mm 3 --minadapteroverlap 3 (test) echo run_adapterremoval SE ${EXEC_ADAPTERREMOVAL2x} 1 \ "${AR_PREFIX}_min3_mm3" \ "${SIMULATED_INFO}" \ --file1 "${SIMULATED_MATE1}" \ --adapter-list ./adapters/mixed.table \ --minadapteroverlap 3 --mm 3 # -mm 5 --minadapteroverlap 3 (test) echo run_adapterremoval SE ${EXEC_ADAPTERREMOVAL2x} 1 \ "${AR_PREFIX}_min3_mm5" \ "${SIMULATED_INFO}" \ --file1 "${SIMULATED_MATE1}" \ --adapter-list ./adapters/mixed.table \ --minadapteroverlap 3 --mm 5 for nthreads in $(seq 1 ${MAX_THREADS}); do echo run_adapterremoval SE ${EXEC_ADAPTERREMOVAL2x} "${nthreads}" \ "${AR_PREFIX}_t${nthreads}" \ "${SIMULATED_INFO}" \ --file1 "${SIMULATED_MATE1}" \ --adapter-list ./adapters/mixed.table echo run_trimmomatic_se MIXED "${nthreads}" \ "${RESULTS}/trimmomatic_t${nthreads}" \ "${SIMULATED_INFO}" \ "${SIMULATED_MATE1}" \ ".fastq" done echo run_alientrimmer_se "${RESULTS}/alientrimmer_q00" \ "${SIMULATED_INFO}" \ "${SIMULATED_MATE1}" \ -c "adapters/mixed_1.txt" \ -q 0 echo run_cutadapt_se "${RESULTS}/cutadapt" \ "${SIMULATED_INFO}" \ "${SIMULATED_MATE1}" \ $(for seq in $(cat adapters/mixed_1.txt); do echo "-a ${seq}";done) echo run_fastq_mcf_se "${RESULTS}/fastq_mcf" \ "${SIMULATED_INFO}" \ "./adapters/mixed_1.fasta" \ "${SIMULATED_MATE1}" } | shuffle_and_run done done ${SCRIPT_MERGE} results/mixed_se > results/mixed_se.table } function benchmark_mixed_pe { simulate_mixed_reads echo "------------------------------------------------------------" > /dev/stderr echo "Running mixed pe adapters benchmarks ..." > /dev/stderr echo "" > /dev/stderr for readlen in ${READ_LENGTHS[*]}; do for run_n in ${REPLICATES}; do { # Shuffle each individual run SIMULATED_MATE1="${SIMULATED_MIXED_PREFIX}_${run_n}_${readlen}_1.fq" SIMULATED_MATE2="${SIMULATED_MIXED_PREFIX}_${run_n}_${readlen}_2.fq" SIMULATED_INFO="${SIMULATED_MIXED_PREFIX}_${run_n}_${readlen}.read.info" RESULTS="results/mixed_pe/${readlen}_${run_n}" DEFAULT_ARGS=("${SIMULATED_INFO}" "${SIMULATED_MATE1}" "${SIMULATED_MATE2}") for nthreads in $(seq 1 ${MAX_THREADS}); do AR_PREFIX="${RESULTS}/adapterremoval2x" echo run_adapterremoval PE ${EXEC_ADAPTERREMOVAL2x} "${nthreads}" \ "${AR_PREFIX}_t${nthreads}" \ "${SIMULATED_INFO}" \ --file1 "${SIMULATED_MATE1}" \ --file2 "${SIMULATED_MATE2}" \ --adapter-list ./adapters/mixed.table echo run_peat_pe "${nthreads}" \ "${RESULTS}/peat_t${nthreads}" \ "${DEFAULT_ARGS[*]}" echo run_trimmomatic_pe MIXED "${nthreads}" \ "${RESULTS}/trimmomatic_t${nthreads}" \ "${DEFAULT_ARGS[*]}" \ ".fastq" done echo run_alientrimmer_pe "${RESULTS}/alientrimmer_q00" \ "${DEFAULT_ARGS[*]}" \ -cf "adapters/mixed_1.txt" \ -cr "adapters/mixed_2.txt" \ -q 0 echo run_cutadapt_pe "${RESULTS}/cutadapt" \ "${DEFAULT_ARGS[*]}" \ $(for seq in $(cat adapters/mixed_1.txt); do echo "-a ${seq}";done) \ $(for seq in $(cat adapters/mixed_2.txt); do echo "-A ${seq}";done) echo run_fastq_mcf_pe "${RESULTS}/fastq_mcf" \ "${SIMULATED_INFO}" \ "./adapters/mixed.fasta" \ "${SIMULATED_MATE1}" \ "${SIMULATED_MATE2}" } | shuffle_and_run done done ${SCRIPT_MERGE} results/mixed_pe > results/mixed_pe.table } function benchmark_adapter_id { simulate_adapter_id_reads echo "------------------------------------------------------------" > /dev/stderr echo "Running adapter id benchmarks ..." > /dev/stderr echo "" > /dev/stderr readlen=100 for INSERT_MEAN in ${ADAPTER_ID_INSERT_SIZES[*]}; do for run_n in ${REPLICATES}; do SIMULATED_MATE1="${SIMULATED_ADAPTER_ID_PREFIX}_${run_n}_${readlen}_${INSERT_MEAN}_1.fq" SIMULATED_MATE2="${SIMULATED_ADAPTER_ID_PREFIX}_${run_n}_${readlen}_${INSERT_MEAN}_2.fq" SIMULATED_INFO="${SIMULATED_ADAPTER_ID_PREFIX}_${run_n}_${readlen}_${INSERT_MEAN}.read.info" RESULTS="results/adapter_id/${readlen}_${INSERT_MEAN}_${run_n}" run_minion "${RESULTS}/minion" \ "${SIMULATED_MATE1}" \ "${SIMULATED_MATE2}" run_adapterremoval_id "${RESULTS}/adapterremovalv2" \ "${SIMULATED_MATE1}" \ "${SIMULATED_MATE2}" done done ${SCRIPT_EVALUATE_ID} results/adapter_id > results/adapter_id.table } cd "$(dirname "$0")" mkdir -p results fetch_reference echo > /dev/stderr if [ "$* " = "all " ]; then benchmark_se benchmark_pe benchmark_collapse benchmark_adapter_id benchmark_mixed_pe benchmark_mixed_se elif [ "$* " = "se " ]; then benchmark_se elif [ "$* " = "pe " ]; then benchmark_pe elif [ "$* " = "collapse " ]; then benchmark_collapse elif [ "$* " = "adapter_id " ]; then benchmark_adapter_id elif [ "$* " = "mixed " ]; then benchmark_mixed_pe benchmark_mixed_se else echo "Usage: benchmark.sh " > /dev/stderr echo "Commands: all se pe collapse mixed adapter_id" > /dev/stderr fi adapterremoval-2.2.2/benchmark/patches/000077500000000000000000000000001313314234200201005ustar00rootroot00000000000000adapterremoval-2.2.2/benchmark/patches/leeHom.patch000066400000000000000000000022261313314234200223340ustar00rootroot00000000000000diff --git a/src/leeHom.cpp b/src/leeHom.cpp index 14ff31d..ae83533 100644 --- a/src/leeHom.cpp +++ b/src/leeHom.cpp @@ -449,7 +449,7 @@ int main (int argc, char *argv[]) { }else{ if(result.sequence != ""){ //new sequence - onereadgroup.single<<"@"< max(fo1->getSeq()->length(),fo2->getSeq()->length()) ){ mtr.incrementCountmergedoverlap(); diff --git a/libgab/gzstream/gzstream.C b/libgab/gzstream/gzstream.C index 8cb4590..4de5c09 100644 --- a/libgab/gzstream/gzstream.C +++ b/libgab/gzstream/gzstream.C @@ -54,8 +54,10 @@ gzstreambuf* gzstreambuf::open( const char* name, int open_mode) { char* fmodeptr = fmode; if ( mode & std::ios::in) *fmodeptr++ = 'r'; - else if ( mode & std::ios::out) + else if ( mode & std::ios::out) { *fmodeptr++ = 'w'; + *fmodeptr++ = '0'; + } *fmodeptr++ = 'b'; *fmodeptr = '\0'; file = gzopen( name, fmode); adapterremoval-2.2.2/benchmark/patches/pIRS_111.patch000066400000000000000000000401641313314234200223250ustar00rootroot00000000000000diff -rwu pIRS_111_original/src/pirs/src/global.h pIRS_111/src/pirs/src/global.h --- pIRS_111_original/src/pirs/src/global.h 2013-09-26 14:52:51.000000000 +0200 +++ pIRS_111/src/pirs/src/global.h 2015-09-30 15:39:16.000000000 +0200 @@ -4,6 +4,8 @@ using namespace std; using namespace boost; +#include + typedef struct{ int Read_length; @@ -17,7 +19,7 @@ int Q_shift; int Mask_quality_mode; int Output_type; - double Coverage; + int NPairs; double Error_rate; string Input_ref1; string Input_ref2; @@ -25,6 +27,10 @@ string GC_depth_profile; string InDel_error_profile; string Output_prefix; + vector adapter_1; + vector adapter_2; + vector barcode_1; + vector barcode_2; }PARAMETER; #endif diff -rwu pIRS_111_original/src/pirs/src/simulate_Illumina_reads.cpp pIRS_111/src/pirs/src/simulate_Illumina_reads.cpp --- pIRS_111_original/src/pirs/src/simulate_Illumina_reads.cpp 2013-09-26 14:52:52.000000000 +0200 +++ pIRS_111/src/pirs/src/simulate_Illumina_reads.cpp 2015-09-30 15:39:16.000000000 +0200 @@ -15,6 +15,30 @@ using namespace std; + +// Barcode: +// NNNNNN +const std::string ADAPTER_1 = "AGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTG"; +const std::string ADAPTER_2 = "AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT"; + + +void add_adapter(const std::string& adapter, int length, std::string& dst) +{ + if (dst.size() < length) { + dst.reserve(length); + + for (int pos = 0; dst.size() < length; ++pos) { + if (pos < adapter.size()) { + dst.push_back(adapter.at(pos)); + } else { + dst.push_back('A'); + } + } + } +} + + + /*parameter variable: int Read_length; @@ -28,7 +52,7 @@ int Q_shift; int Mask_quality_mode; int Output_type; - double Coverage; + int NPairs; double Error_rate; string Input_ref1; string Input_ref2; @@ -37,7 +61,7 @@ string InDel_error_profile; string Output_prefix; */ -PARAMETER InputParameter ={100,500,-1,1,0,1,1,1,64,0,1,5,-1,"","","","","","Illumina"}; +PARAMETER InputParameter ={100,500,-1,1,0,1,1,1,64,0,1,10000,-1,"","","","","","Illumina"}; int Ref_Base_num = 0; //ATCG: 4 int Statistical_Cycle_num = 0; //the cycle number in Base-calling profile @@ -94,13 +118,19 @@ cout<<"you can get another diploid genome sequence by the command \"pirs diploid\", but remember that heterozygosis SNP rate and heterozygosis Indel rate only exist in diploid. \n"; cout< Adapter sequence appended to mate 1 reads,default:"< Adapter sequence appended to mate 2 reads,default:"< Barcode sequence appended to mate 1 reads"< Barcode sequence appended to mate 2 reads"< input_ref1, input reference genome sequence *.fa/*.fa.gz, no default vaule"< input_ref2, for diploid genome, input another reference genome sequence which was generated by command \"pirs diploid\""< Base-calling profile, input Base-calling profile for simulating substitution-error and quality score,default: (exe_path)"< GC content-coverage profile, input GC content-coverage file for simulating GC bias, the default profile are determined based on the twice of read length"< InDel-error profile, input InDel-error profile for simulating InDel-error of reads, default:(exe_path)"< read_len, set length of read, read1 and read2 have the same length,default:"< coverage, set the sequencing coverage(sometimes called depth),default:"< number of reads-pairs to generate,default:"< insertsize_mean, set the average value of insert size,default:"< insertsize_sd, set the standard deviation of insert sizes, default:insertsize_mean/20"< substitution-error rate, set the average substitution-error rate(0 or 0.0001~0.63) over all cycles, default=average substitution-error rate of Base-calling profile"< 0.63 ){cerr<<"Error: error_rate should be set 0 or between 0.0001 and 0.63, you can also set -1 to simulate default error rate according with error profile, please check option -e !"<seqlen){pair_count--;continue;} - //get insert seq - string sub_str=seq.substr(pos,insertsize); - map > indel1; map > indel2; int r1_slen = 0; @@ -714,27 +750,36 @@ if(InputParameter.Is_simulate_InDel) { get_reads_indel(InputParameter.Read_length, indel1, indel2, r1_slen, r2_slen, InDel_max_len, InDel_error_matrix, InDel_num); - //fixed in v1.1.1 - if(InputParameter.Read_length-r1_slen > sub_str.size() || InputParameter.Read_length-r2_slen > sub_str.size()) - { - pair_count--;continue; - } } string ref_read1, ref_read2; int selection=int(rand()%2); //0 or 1, for selecting output file randomly and deciding read +/- int read1_pos, read2_pos; + + const int barcode_idx = rand() / (RAND_MAX / InputParameter.barcode_1.size() + 1); + const std::string barcode_1 = InputParameter.barcode_1.at(barcode_idx); + const std::string barcode_2 = InputParameter.barcode_2.at(barcode_idx); + + //get insert seq if(selection == 0) { + const string sub_str = barcode_1 + seq.substr(pos,insertsize) + reversecomplementary(barcode_2); + const string sub_str_rev(sub_str.rbegin(), sub_str.rend()); + ref_read1 = sub_str.substr(0, InputParameter.Read_length-r1_slen); - ref_read2 = sub_str.substr(insertsize-InputParameter.Read_length+r2_slen, InputParameter.Read_length-r2_slen); + ref_read2 = sub_str_rev.substr(0, InputParameter.Read_length-r2_slen); + ref_read2 = std::string(ref_read2.rbegin(), ref_read2.rend()); read1_pos = pos+1; - read2_pos = pos+insertsize-InputParameter.Read_length-r2_slen+1; + read2_pos = pos+ref_read2.size()+1; }else{ - ref_read1 = sub_str.substr(insertsize-InputParameter.Read_length+r1_slen, InputParameter.Read_length-r1_slen); + const string sub_str = barcode_2 + seq.substr(pos,insertsize) + reversecomplementary(barcode_1); + const string sub_str_rev(sub_str.rbegin(), sub_str.rend()); + + ref_read1 = sub_str_rev.substr(0, InputParameter.Read_length-r1_slen); + ref_read1 = std::string(ref_read1.rbegin(), ref_read1.rend()); ref_read2 = sub_str.substr(0, InputParameter.Read_length-r2_slen); - read1_pos = pos+insertsize-InputParameter.Read_length-r1_slen+1; + read1_pos = pos+ref_read1.size()+1; read2_pos = pos+1; } @@ -747,8 +792,10 @@ //simulate GC bias if(InputParameter.Is_simulate_GC_bias){ string check_seq = ref_read1+ref_read2; + if (!check_seq.empty()) { if(simulate_GC_bias(check_seq,GC_bias_abundance)){pair_count--;continue;} } + } //insertsize statistics if(InsertSize_distr[insertsize]>0) @@ -790,6 +837,10 @@ exit(-1); } + int adapter_idx = rand() / (RAND_MAX / InputParameter.adapter_1.size() + 1); + add_adapter(InputParameter.adapter_1.at(adapter_idx), InputParameter.Read_length - r1_slen, ref_read1); + add_adapter(InputParameter.adapter_2.at(adapter_idx), InputParameter.Read_length - r2_slen, ref_read2); + bool* Is_insertion_pos1; bool* Is_insertion_pos2; Is_insertion_pos1 = new bool[InputParameter.Read_length]; @@ -1234,7 +1285,9 @@ } } - Infor_outfile<data); - fprintf (fd[0], "%s\n", fwd[i]->header); + fprintf (fd[0], "@M_%s\n", fwd[i]->header + 1); if (!bothOut) { fprintf (fd[0], "%s\n", fwd[i]->data); adapterremoval-2.2.2/benchmark/profiles/000077500000000000000000000000001313314234200202745ustar00rootroot00000000000000adapterremoval-2.2.2/benchmark/profiles/humNew.PE100.matrix.gz000066400000000000000000042340761313314234200241500ustar00rootroot00000000000000/UhumNew.PE100.matrix[${v^'?@$;(%5@6e6 [~zIwl5MBTDheīW7qZq;mGhOh}BLhOOxqiڎ9yר rNS~ƁT0qj6'Qp#kϯ[q8G؜{xkWcN"~I~_#]|썰WWGvW s"g8&N]8ųId߸Pp&GWx5/8礬trܟ}8Χ8;rrۺf/Q }_8q~8cdWku/~+Y9/wMGxzYZeOdW)c.3{uyy|̱ktm{D^ܻq5\%zue5zＢQ^=S0؍3tGFp{#cZ-bjYű4"L.T#W#Br#|IDoǍH4GDWa<Y} CHs>0}nǩjGE')" b8[YqD"um.*bDɢ0z?(8E|+Biţ<ݩ%GgxJ}Ңxk4_+Gt7:( K+߻v1O+a/M JZTASR@p@G]Th8P!~C0FjQ"#^IV7?}-uF n u.\DAL hP)u /C6"yr5G[`!?0rvY1efz>#: 9*8CgRs 6Yq99&E۷ͷ=/+CuV|/)T+L7bY0xOh1 j|hz$9YC-'}3'CiVLt{@Ju8˷GE1$S}c#mHDq ܰ*.NwNsMwÐ|buT;աo,8\̨Sg0%bQp| /WqBv5c3~(\ H8z''ʓC~Mu Det`6{~45}tb}^e'^ߩ聈8Z|b~A)>fѭEQQ .C8׫ј/MһD0LJDxeiTC%:9zz8RAqyWHf[\{q}{MX,v&>y%.8a4W]UO\ŋXS6Yn1nw<oEen>}N WG-Ju\3M$Fq/.`a 'zD0m^qУM8oQ@cľ8~j9:0\u,.Rq* O.ז,ڪ!BUܣ%˱Nܥ xh9sQy#hx6'_47mϠMVhJaHJ9vF|V".'F'.ês>jٜ3T9h; 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(tn_.M΃07{7#mE/8RclXL2<%l=//OINGpSq^czi|HcǤ,(Q7 щ;>3Ikʧds '9Ώ - |{D [^\񺡀:9:_=':a$G :tp!8vG/ZQ'żHBc m:S#ig9e FdEH&.Rbw_!˗®Q<| iG距Đ@_ U?}~6۟[lWCȥAVtbn;skLkΌս\u?ۑ;[-p#E&g%I" QdOIdXb;00s0K=oHdoK%a'd~"/a/aa/d/KaIYz> M|ɰddK!|_2l= {0_Ɨ ]|ɰ$|#Ä~H"2} !Iadapterremoval-2.2.2/benchmark/profiles/phixv2.InDel.matrix000066400000000000000000000242701313314234200237410ustar00rootroot00000000000000[Info] File = 110416_I327_FCB008GACXX_L1_PHIXCONTROLv2.sam.gz Read_Length = 200 Read_1_Count = 147091454 Read_2_Count = 145785569 MaxInDel_Length = 3 < # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE # SOFTWARE. import os import sys import bz2 import math import gzip import argparse import itertools import collections def open_ro(filename): """Opens a file for reading, transparently handling GZip and BZip2 compressed files. Returns a file handle.""" handle = open(filename) try: header = handle.read(2) if header == "\x1f\x8b": handle.close() # TODO: Re-use handle (fileobj) handle = gzip.open(filename) elif header == "BZ": handle.close() handle = bz2.BZ2File(filename) else: handle.seek(0) return handle except: handle.close() raise def parse_timelog(filename): if not os.path.exists(filename): return float("nan"), float("nan") total_time, total_ram = 0.0, 0.0 with open(filename) as handle: for line in handle: key, value = line.lower().strip().split(": ") if "(wall clock)" in key: mult = 1.0 for field in reversed(value.split(":")): total_time += float(field) * mult mult *= 60.0 elif key == "maximum resident set size (kbytes)": total_ram += float(value) return total_time, total_ram class Summary(object): def __init__(self): self.true_pos = 0 self.false_pos = 0 self.true_neg = 0 self.false_neg = 0 self.cpu_time = 0.0 self.max_ram = 0.0 @property def total(self): return self.true_pos + self.false_pos \ + self.true_neg + self.false_neg def print_summary(self, args, stattype, header=True): stat = self _summary_stats = [ ("Reads", args.read_mode, None), ("Metric", stattype, None), ("Name", args.name, None), ("Threads", args.threads, None), ("Total", stat.total, None), ("TP", stat.true_pos, None), ("FP", stat.false_pos, None), ("TN", stat.true_neg, None), ("FN", stat.false_neg, None), ("SEN", stat.true_pos, stat.true_pos + stat.false_neg), ("SPC", stat.true_neg, stat.true_neg + stat.false_pos), ("PPV", stat.true_pos, stat.true_pos + stat.false_pos), ("NPV", stat.true_neg, stat.true_neg + stat.false_neg), ("MCC", (stat.true_pos * stat.true_neg - stat.false_pos * stat.false_neg), math.sqrt((stat.true_pos + stat.false_pos) * (stat.true_pos + stat.false_neg) * (stat.true_neg + stat.false_pos) * (stat.true_neg + stat.false_neg))), ("WallTime", "%.3f" % (stat.cpu_time,), None), ("MaxRAM", "%.3f" % (stat.max_ram / (2.0 ** 10),), None), ("Rate", ("%.1f" % ((stat.total / (stat.cpu_time or float("nan"))) / 1e3)).rjust(6), None) ] row = [] if header: args.out.write("\t".join(name for (name, _, _) in _summary_stats) + "\n") for (_, numerator, denominator) in _summary_stats: if denominator is None: value = str(numerator) elif not denominator: value = "NA" else: value = "%.4f" % (float(numerator) / float(denominator),) row.append(value) args.out.write("\t".join(row) + "\n") def missing_reads(expectations, se_mode): if se_mode: reads = [(key, [pair[0], None]) for key, pair in expectations.iteritems() if pair[0] is not None] else: reads = [(key, pair) for key, pair in expectations.iteritems() if pair != [None, None]] max_errors = 0 for name, mates in reads: for mate, record in enumerate(mates, start=1): if record is not None: if max_errors > 4: sys.stderr.write(" ...\n") return True sys.stderr.write(" Read not found: %s/%i\n" % (name, mate)) max_errors += 1 return bool(reads) def pop_expected_read(expectations, record): is_collapsed = False name = record["name"] if name.startswith("M_") or name.startswith("MT_"): name = name.split("_", 1)[1] is_collapsed = True expected = expectations[name] if is_collapsed: expectations[name] = [None, None] return expected[0] or expected[1], True mate = expected[record["mate"] - 1] expected[record["mate"] - 1] = None return mate, False def _perf_trimming(args, expectations, stat, record): ins_length, collapsed = pop_expected_read(expectations, record) obs_length = record["obs_len"] if args.barcode_len and obs_length == args.read_len: # Barcode not correctly identified / trimmed stat.false_neg += 1 return read_len = args.read_len - args.barcode_len if not collapsed: if ins_length >= read_len: if obs_length != read_len: stat.false_pos += 1 else: stat.true_neg += 1 elif obs_length == ins_length: stat.true_pos += 1 elif obs_length < ins_length: stat.false_pos += 1 elif obs_length > ins_length: stat.false_neg += 1 else: assert False, record else: # If collapsed, the read accounts for 2 sequences if obs_length == ins_length: # Merged reads containing adapters are considered positives if ins_length >= read_len: stat.true_neg += 2 else: stat.true_pos += 2 else: stat.false_pos += 2 def _perf_collapsed(args, expectations, stat, record): ins_length, collapsed = pop_expected_read(expectations, record) obs_length = record["obs_len"] if ins_length and ins_length < args.read_len * 2: if collapsed: if obs_length == ins_length: stat.true_pos += 2 else: stat.false_pos += 2 else: stat.false_neg += 1 elif collapsed: stat.false_pos += 2 else: stat.true_neg += 1 return collapsed def evaluate(args, expectations, trimmed_reads): stat = Summary() if args.collapsed: eval_func = _perf_collapsed eval_title = "Collapsed" else: eval_func = _perf_trimming eval_title = "Trimmed" for record in trimmed_reads: eval_func(args, expectations, stat, record) if args.dimers_are_discarded: for key, pair in expectations.items(): if args.read_mode in ("SE", "MIXED_SE"): pair[1] = None for mate, read in enumerate(pair, start=1): if read is not None: record = {"name": key, "mate": mate, "obs_len": 0} eval_func(args, expectations, stat, record) cpu_time, max_ram = parse_timelog(args.time) stat.cpu_time += cpu_time stat.max_ram += max_ram stat.print_summary(args, eval_title) return not missing_reads(expectations, args.read_mode in ("SE", "MIXED_SE")) def find_fastq_files(root): results = [] for filename in os.listdir(root): fpath = os.path.join(root, filename) if os.path.isfile(fpath): with open_ro(fpath) as handle: header = handle.readline() handle.readline() seperator = handle.readline() if header.startswith("@") and seperator.startswith("+"): results.append(fpath) return results def read_fastq(filename): if not os.path.exists(filename): sys.stderr.write(" Skipping %r ...\n" % (filename,)) return counter = 0 sys.stderr.write(" Reading %r ...\n" % (filename,)) with open_ro(filename) as handle: while True: header = handle.readline() sequence = handle.readline() _ = handle.readline() # Seperator _ = handle.readline() # Qualities if not header: break fields = header.split(None, 1) result = {} # Split is needed for ARv1x discarded name = fields[0].split("__")[0] if name[-2] == "/" and not name.startswith("M_"): result["name"] = name[1:-2] result["mate"] = int(name[-1]) assert result["mate"] in (1, 2), result["mate"] else: result["name"] = name[1:] result["mate"] = None result["obs_len"] = len(sequence.rstrip()) yield result counter += 1 sys.stderr.write(" Read %i records\n" % (counter,)) def read_expected_lengths(args): header = None results = collections.defaultdict(lambda: [None, None]) for line in open_ro(args.read_info): if line.startswith("@"): record = dict(zip(header, line.rstrip().split('\t'))) name = record["readId"][1:] name, mate = name.split("/") results[name][int(mate) - 1] = int(record["insertSize"]) elif line.startswith("#read length: "): args.read_len = int(line[14:]) elif line.startswith("#readId"): header = line[1:].rstrip().split('\t') return dict(results) def parse_args(argv): parser = argparse.ArgumentParser() parser.add_argument('root') parser.add_argument('read_info') parser.add_argument('--read-mode', default="PE", choices=("SE", "PE", "MIXED_SE", "MIXED_PE")) parser.add_argument('--time', default=None) parser.add_argument('--name', default="NA") parser.add_argument('--collapsed', default=False, action="store_true") parser.add_argument('--threads', default=1, type=int) parser.add_argument("--dimers-are-discarded", default=False, action="store_true") parser.add_argument("--keep", default=False, action="store_true") parser.add_argument("--barcode-len", default=0, type=int) return parser.parse_args(argv) def main(argv): args = parse_args(argv) args.name = args.root.rstrip("/").rsplit("/", 1)[-1] name = args.name.rsplit("_", 1) if name[-1].startswith("t") and name[-1][1:].isdigit(): args.name = name[0] args.threads = int(name[1][1:]) if args.time is None: args.time = os.path.join(args.root, "time") args.out = open(os.path.join(args.root, "table"), "w") expected = read_expected_lengths(args) fastq_files = find_fastq_files(args.root) trimmed_reads = [] for filename in fastq_files: trimmed_reads.append(read_fastq(filename)) if not evaluate(args, expected, itertools.chain(*trimmed_reads)): return 1 args.out.close() os.rename(os.path.join(args.root, "table"), args.root + ".table") if not args.keep: for fpath in fastq_files: os.remove(fpath) return 0 if __name__ == '__main__': sys.exit(main(sys.argv[1:])) adapterremoval-2.2.2/benchmark/scripts/evaluate_dmux.py000077500000000000000000000064031313314234200233630ustar00rootroot00000000000000#!/usr/bin/python # -*- coding: utf-8 -*- # Copyright (c) 2014 Mikkel Schubert # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE # SOFTWARE. import argparse import bz2 import gzip import os import sys def open_ro(filename): """Opens a file for reading, transparently handling GZip and BZip2 compressed files. Returns a file handle.""" handle = open(filename) try: header = handle.read(2) if header == "\x1f\x8b": handle.close() # TODO: Re-use handle (fileobj) handle = gzip.open(filename) elif header == "BZ": handle.close() handle = bz2.BZ2File(filename) else: handle.seek(0) return handle except: handle.close() raise def read_barcodes(filename): header = None results = {} for line in open_ro(filename): if line.startswith("@"): record = dict(zip(header, line.rstrip().split('\t'))) name = record["readId"].split("/")[0] results[name] = "_".join((record["barcode_1"], record["barcode_2"])) elif line.startswith("#readId"): header = line[1:].rstrip().split('\t') return dict(results) def parse_args(argv): parser = argparse.ArgumentParser() parser.add_argument('info') parser.add_argument('files', nargs="+") return parser.parse_args(argv) def main(argv): args = parse_args(argv) expectations = read_barcodes(args.info) total = 0 correct = 0 for filename in args.files: basename = os.path.basename(filename) # Implicitly handle unidentified, will be "unidentified_1", etc. barcode = basename.split(".")[1] with open_ro(filename) as handle: header = handle.readline() while header: name = header.split(None, 1)[0].split("/")[0] if expectations[name] == barcode: correct += 1 else: print expectations[name], barcode total += 1 handle.readline() handle.readline() handle.readline() header = handle.readline() print total, correct return 0 if __name__ == '__main__': sys.exit(main(sys.argv[1:])) adapterremoval-2.2.2/benchmark/scripts/evaluate_id.py000077500000000000000000000132401313314234200227770ustar00rootroot00000000000000#!/usr/bin/python # -*- coding: utf-8 -*- # Copyright (c) 2014 Mikkel Schubert # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE # SOFTWARE. import os import sys import argparse import collections import numpy def parse_args(argv): parser = argparse.ArgumentParser() parser.add_argument('root') parser.add_argument('--adapter1', default="AGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTG") parser.add_argument('--adapter2', default="AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT") return parser.parse_args(argv) def cmp_pcr(obs, ref): ncorrect = 0 for ref_nt, obs_nt in zip(ref, obs): if ref_nt == obs_nt: ncorrect += 1 else: break return ncorrect class evalulate_minion(object): def __init__(self, pcr1, pcr2): self._pcr1 = pcr1 self._pcr2 = pcr2 self._results = collections.defaultdict(dict) def __call__(self, readlen, insert_mean, replicate, fpath): prefix = os.path.join(fpath, "mate") for method, result in self._parse_report_minion(prefix).items(): self._results[(readlen, insert_mean, method)][replicate] = result def finalize(self): return dict(self._results) def _parse_report_minion(self, prefix): results = collections.defaultdict(dict) for result in self._parse_report_minion_part(prefix + "1.txt"): key = "minion:%s" % (result["criterion"],) results[key]["PCR1"] = max(results[key].get("PCR1", 0), cmp_pcr(result["sequence"], self._pcr1)) for result in self._parse_report_minion_part(prefix + "2.txt"): key = "minion:%s" % (result["criterion"],) results[key]["PCR2"] = max(results[key].get("PCR2", 0), cmp_pcr(result["sequence"], self._pcr2)) return dict(results) @classmethod def _parse_report_minion_part(cls, filename): results = [] with open(filename) as handle: result = {} for line in handle: line = line.strip() if not line: if result: results.append(result) result = {} else: key, value = map(str.strip, line.split("=", 1)) result[key] = value if result: results.append(result) return results class evalulate_adapterrm(object): def __init__(self, pcr1, pcr2): self._pcr = [pcr1, pcr2] self._results = collections.defaultdict(dict) def __call__(self, readlen, insert_mean, replicate, fpath): prefix = os.path.join(fpath, "mates.txt") self._results[(readlen, insert_mean, "adapterremovalv2")][replicate] \ = self._parse_report(prefix) def finalize(self): return dict(self._results) def _parse_report(self, fpath): result = {} with open(fpath) as handle: key = "Consensus:" counter = 1 for line in handle: line = line.strip() if line.startswith(key): adapter = line[line.index(key) + len(key):].strip() result["PCR%i" % (counter,)] \ = cmp_pcr(adapter, self._pcr[counter - 1]) counter += 1 if counter > 2: break return result def print_rows(program, results): rows = [] for (readlen, insert_mean, method), replicates in sorted(results.items()): mean_pcr1 = numpy.mean([repl["PCR1"] for repl in replicates.values()]) mean_pcr2 = numpy.mean([repl["PCR2"] for repl in replicates.values()]) rows.append((method, readlen, insert_mean, mean_pcr1, mean_pcr2)) for row in sorted(rows): print "\t".join(map(str, row)) def main(argv): args = parse_args(argv) eval_funcs = { "minion": evalulate_minion(args.adapter1, args.adapter2), "adapterremovalv2": evalulate_adapterrm(args.adapter1, args.adapter2), } for run in os.listdir(args.root): readlen, insert_mean, replicate = map(int, run.split("_")) for program in os.listdir(os.path.join(args.root, run)): if program in eval_funcs: fpath = os.path.join(args.root, run, program) eval_funcs[program](readlen, insert_mean, replicate, fpath) print "\t".join(("Method", "ReadLen", "InsertMean", "PCR1", "PCR2")) for program, func in sorted(eval_funcs.items()): print_rows(program, func.finalize()) return 0 if __name__ == '__main__': sys.exit(main(sys.argv[1:])) adapterremoval-2.2.2/benchmark/scripts/extend_profile.py000077500000000000000000000070351313314234200235310ustar00rootroot00000000000000#!/usr/bin/python # -*- coding: utf-8 -*- # Copyright (c) 2014 Mikkel Schubert # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE # SOFTWARE. import sys import bz2 import gzip import argparse def open_ro(filename): """Opens a file for reading, transparently handling GZip and BZip2 compressed files. Returns a file handle.""" handle = open(filename) try: header = handle.read(2) if header == "\x1f\x8b": handle.close() # TODO: Re-use handle (fileobj) handle = gzip.open(filename) elif header == "BZ": handle.close() handle = bz2.BZ2File(filename) else: handle.seek(0) return handle except: handle.close() raise def parse_args(argv): parser = argparse.ArgumentParser() parser.add_argument('file') return parser.parse_args(argv) def try_cast(value): try: return int(value) except ValueError: return value def main(argv): args = parse_args(argv) rows = [] in_table = False in_table_header = None with open_ro(args.file) as file_in: for line in file_in: line_s = line.rstrip() if in_table: if not in_table_header: in_table_header = line_s.split('\t') if line_s.startswith("#"): in_table_header[0] = in_table_header[0][1:] if "Cycle" not in in_table_header: in_table = False in_table_header = None elif not line_s or line_s.startswith("#") or line_s == "< # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE # SOFTWARE. import os import sys import argparse def parse_args(argv): parser = argparse.ArgumentParser() parser.add_argument('root') return parser.parse_args(argv) def main(argv): args = parse_args(argv) keys = [] rows = [] for run_info in os.listdir(args.root): readlen, replicate = run_info.split("_") for filename in os.listdir(os.path.join(args.root, run_info)): if not filename.endswith(".table"): continue fpath = os.path.join(args.root, run_info, filename) with open(fpath) as handle: line = handle.readline() header = line.rstrip().split('\t') if keys is None: keys = header elif header != keys: if set(header).issubset(keys): pass # Fewer keys elif set(keys).issubset(header): keys = header # More keys else: assert False, fpath for line in handle: rows.append(dict(zip(header, line.rstrip().split('\t')))) rows[-1]["Nth"] = str(int(replicate)) # Strip leading zeros rows[-1]["ReadLen"] = readlen keys.insert(0, "Nth") keys.insert(0, "ReadLen") print "\t".join(keys) rows = ["\t".join(row.get(key, "NA") for key in keys) for row in rows] rows.sort() for row in rows: print row return 0 if __name__ == '__main__': sys.exit(main(sys.argv[1:])) adapterremoval-2.2.2/benchmark/scripts/shuffle_fasta.py000077500000000000000000000043351313314234200233340ustar00rootroot00000000000000#!/usr/bin/python # -*- coding: utf-8 -*- # Copyright (c) 2014 Mikkel Schubert # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE # SOFTWARE. import sys import random import argparse def parse_args(argv): parser = argparse.ArgumentParser() parser.add_argument('file') parser.add_argument('--seed', default=None, type=int) parser.add_argument('--replicates', default=5, type=int) return parser.parse_args(argv) def read_fasta(fpath): with open(fpath) as handle: header = handle.readline().rstrip() sequence = handle.readline().rstrip() assert not handle.readline() assert header.startswith(">") header = header.split("/", 1)[0].split(None, 1)[0] return header, sequence def shuffle(rng, seq): seq = list(seq) rng.shuffle(seq) return "".join(seq) def main(argv): args = parse_args(argv) if args.seed is None: args.seed = random.randint(0, sys.maxint) rng = random.Random(args.seed) name, sequence = read_fasta(args.file) print "Seed =", args.seed print "Seq =", sequence for _ in xrange(args.replicates - 1): print "New =", shuffle(rng, sequence) return 0 if __name__ == '__main__': sys.exit(main(sys.argv[1:])) adapterremoval-2.2.2/benchmark/scripts/tabulate.py000077500000000000000000000134421313314234200223220ustar00rootroot00000000000000#!/usr/bin/python # -*- coding: utf-8 -*- # Copyright (c) 2014 Mikkel Schubert # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE # SOFTWARE. import sys import argparse import collections import numpy def parse_args(argv): parser = argparse.ArgumentParser() parser.add_argument('filter', choices=("basic", "throughput"), type=str.lower, help="TODO") parser.add_argument('table', help="Benchmarking results", nargs="+") return parser.parse_args(argv) def read_table(fpath, filter_func): results = [] with open(fpath) as handle: header = handle.readline().rstrip().split("\t") for line in handle: fields = line.rstrip().split("\t") assert len(fields) == len(header), (header, fields) row = dict(zip(header, fields)) name = row["Name"] if name.endswith("_gz") or name.endswith("_bz2"): row["Name"], row["Compression"] = name.rsplit("_", 1) else: row["Compression"] = "NA" if filter_func(row): results.append(row) return results def _filter_basic(row): return int(row["ReadLen"]) == 100 \ and int(row["Threads"]) == 1 def _filter_throughput(row): return int(row["ReadLen"]) >= 100 \ and int(row["Threads"]) >= 1 _FILTERS = { "basic": _filter_basic, "throughput": _filter_throughput } def _collapse_basic(rows): max_nth = 0 keys = ("Name", "ReadLen", "Reads", "Metric", "Compression") results = collections.defaultdict(dict) for row in rows: key_row = tuple(row[key] for key in keys) key_nth = int(row["Nth"]) max_nth = max(max_nth, key_nth) subdd = results[key_row] assert key_nth >= 1, (row, subdd) assert key_nth not in subdd, (key_nth, subdd) subdd[key_nth] = row for key, values in results.iteritems(): assert len(values) == max_nth and max(values) == max_nth, values collapsed_rows = [] value_keys = ("SEN", "SPC", "PPV", "NPV", "MCC", "Rate") for rows in results.itervalues(): result = {} for key in value_keys: if any((key in row) for row in rows.itervalues()): values = tuple(float(row[key]) for row in rows.itervalues()) result[key] = "%.3f" % (numpy.mean(values),) for key in keys: result[key] = rows[1][key] collapsed_rows.append(result) return ("ReadLen", "Reads", "Name", "Metric", "Compression") + value_keys, \ collapsed_rows def _collapse_throughput(rows): max_nth = 0 keys = ("Name", "Reads", "Metric", "Compression") rate_keys = set() results = collections.defaultdict(dict) for row in rows: key_row = tuple(row[key] for key in keys) key_nth = int(row["Nth"]) assert key_nth >= 1, (row, key_row) max_nth = max(max_nth, key_nth) subdd = results[key_row] subdd.setdefault(key_nth, {}) subdd = subdd[key_nth] if int(row["Threads"]) == 1 and int(row["ReadLen"]) == 100: subdd.update(row) key = "%03i/%i" % (int(row["ReadLen"]), int(row["Threads"])) rate_keys.add(key) subdd[key] = row["Rate"] for key, values in results.iteritems(): assert len(values) == max_nth and max(values) == max_nth, values collapsed_rows = [] value_keys = tuple(sorted(rate_keys)) for rows in results.itervalues(): result = {} for key in value_keys: if any((key in row) for row in rows.itervalues()): values = tuple(float(row[key]) for row in rows.itervalues()) result[key] = "%.1f" % (numpy.mean(values),) for key in keys: result[key] = rows[1][key] collapsed_rows.append(result) return ("Name", "Metric", "Compression") + value_keys, \ collapsed_rows _COLLAPSERS = { "basic": _collapse_basic, "throughput": _collapse_throughput, } def get_output_keys(rows): keys = ["Name", "ReadLen", "Reads", "Metric", "Compression", "SEN", "SPC", "PPV", "NPV", "MCC"] max_threads = 1 for row in rows: rate_key = "Rate(%i)" % (max_threads,) if rate_key in row: keys.append(rate_key) max_threads += 1 return tuple(keys) def main(argv): args = parse_args(argv) rows = [] for fpath in args.table: rows.extend(read_table(fpath, _FILTERS[args.filter])) keys, rows = _COLLAPSERS[args.filter](rows) output_rows = [] for row in sorted(rows): output_rows.append(tuple(str(row.get(key, "NA")) for key in keys)) print "\t".join(keys) for row in sorted(output_rows): print "\t".join(row) return 0 if __name__ == '__main__': sys.exit(main(sys.argv[1:])) adapterremoval-2.2.2/examples/000077500000000000000000000000001313314234200163355ustar00rootroot00000000000000adapterremoval-2.2.2/examples/Makefile000066400000000000000000000033331313314234200177770ustar00rootroot00000000000000 TARGETS := single_end paired_end phred_64_encoded phred_33_encoded \ collapsed_q50 multiple_adapters identify_adapters \ interleaved_input interleaved_output interleaved_input_and_output \ demultiplexing demultiplexing_only .PHONY: all ${TARGETS} all: ${TARGETS} single_end: AdapterRemoval --file1 reads_1.fq --basename output_single --trimns --trimqualities --gzip paired_end: AdapterRemoval --file1 reads_1.fq --file2 reads_2.fq --basename output_paired --trimns --trimqualities --collapse interleaved_input: AdapterRemoval --interleaved-input --file1 interleaved.fq --basename output_interleaved_input interleaved_output: AdapterRemoval --interleaved-output --file1 reads_1.fq --file2 reads_2.fq --basename output_interleaved_output interleaved_input_and_output: AdapterRemoval --interleaved --file1 interleaved.fq --basename output_interleaved_both phred_64_encoded: AdapterRemoval --qualitybase 64 --file1 reads_q64.fq --basename output_phred_64 phred_33_encoded: AdapterRemoval --qualitybase 64 --qualitybase-output 33 --file1 reads_q64.fq --basename output_phred_33 collapsed_q50: AdapterRemoval --qualitymax 50 --file1 reads_1.fq --file2 reads_2.fq --collapse --basename output_collapsed_q50 multiple_adapters: AdapterRemoval --file1 reads_1.fq --file2 reads_2.fq --basename output_multi --trimns --trimqualities --collapse --adapter-list adapters.txt identify_adapters: AdapterRemoval --identify-adapters --file1 reads_1.fq --file2 reads_2.fq demultiplexing: AdapterRemoval --file1 demux_1.fq --file2 demux_2.fq --basename output_demux --barcode-list barcodes.txt demultiplexing_only: AdapterRemoval --file1 demux_1.fq --file2 demux_2.fq --basename output_only_demux --barcode-list barcodes.txt --demultiplex-only adapterremoval-2.2.2/examples/adapters.txt000066400000000000000000000011541313314234200207020ustar00rootroot00000000000000AGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTG AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT AAACTTGCTCTGTGCCCGCTCCGTATGTCACAACAGTGCGTGTATCACCTCAATGCAGGACTCA GATCGGGAGTAATTTGGAGGCAGTAGTTCGTCGAAACTCGGAGCGTCTTTAGCAGGAG CTAATTTGCCGTAGCGACGTACTTCAGCCTCCAGGAATTGGACCCTTACGCACACGCATTCATG TACCGTGAAAGGTGCGCTTAGTGGCATATGCGTTAAGAGCTAGGTAACGGTCTGGAGG GTTCATACGACGACGACCAATGGCACACTTATCCGGTACTTGCGTTTCAATGCGCATGCCCCAT TAAGAAACTCGGAGTTTGGCCTGCGAGGTAGCTTGGGTGTTATGAAGAACGGCATGCG CCATGCCCCGAAGATTCCTATACCCTTAAGGTCGCAATTGTTCGAGTAAGCTGTACGCGCCCAT GTTGCATTGACCCGAAGGGCTCGATGTTTAGGGAGGTCAGAAGTTGAGCGGGTTCAAA adapterremoval-2.2.2/examples/barcodes.txt000066400000000000000000000001131313314234200206530ustar00rootroot00000000000000sample_1 ATGCGGA TGAATCT sample_2 ATGGATT ATAGTGA sample_7 CAAAACT TCGCTGC adapterremoval-2.2.2/examples/demux_1.fq000066400000000000000000003265041313314234200202410ustar00rootroot00000000000000@read_150_1/1 ATGGATTTTTGCATTCAAATTTCTATCCATCTGGAATTGATTTTTGTGTTATTCCGAGTTGGGGATTTGATCTTTTTCCCACGTGGATAACCAGTTGTTG + GGGGGGFHHHHHGGG?FEEHGHHHGFF@EEAFFEEGGFGHHHF=FFHHHFHHHHHEEFHHFE?BHFHHHHEHHFBEEE?CEHHHHHHFFGEHHHHEE?@E @read_150_2/1 ATGGATTGGTACTTGGGAAGCATTTAGTTCTTGTTGAAAGAATGAATGAGTGGATGAATGAATGAATGAGATGGCCCTTGAGCTGAGTCGTATCACTATA + HHGGGGGHHHHHHHHHHHHHHHHHHFGGFD@2CFGHHHHHHHHHE@FHH<=4@ABA3=4(,'-321+7D0/25<8%''%9DA @read_150_5/1 CAAAACTAGGGCCCGTGGACTGAGCCAGGGAGAGAGGCACCAGGAAATACAGGGCTGCACGTTTCCTTGTGGGCCACTGTGTGTTTGCTATCTGCACTGC + HHHHHHHHEFGHHHHHHHHHEEHHHD>GBEGBFHHHEEEEHHHHHFHHHHHFEEHHHHHHFHFB=@FBB?%04:8DBC<>B2EG5<5CD5*<5EBGGGGF @read_150_6/1 ATGGATTAAAAAAAACAAAAAAACTAAACAAAAAAACAAAAGAAAAGAAAAAAGAAGGTACACGGATAATTTTTTTTCTTTCTTCTGAGGTTTTTCTCTT + HHHHHHHHHHHHHHHHHHHGGGGGHFGHFHFHHHGHHHHFEEHHHGCGFHF@+73B:BBFHHHBHHFFHFHHFED1/;EGHHGHEFFFHHHHFFECDBCC @read_150_7/1 ATGGATTCAGGCGCGGTGGCTCAAGCCTGTAATCCCAGCACTTTGGGAGGCTGAGGCCGGTGGATCACTTGAAGTCAGGAGTTCGAGACCAGCCTGGCCA + HHHHHHHHHHHHHHHHGGFHHGHHHHHHHHHGDABCEEGHHHHHHHHGEEFB@:FB>-@DE86?DHFF:4D@4/97@:9-15<5GF7/36ACCFHHHHH= @read_150_8/1 CAAAACTAGCTAGGATTTGAATCTAGATCTGCCTGACTCCAAGACTACTGCACTTTTAAGAGGCAAAAGGAAAAAGTGTTGATAAAATATAGAATGAGAG + HHHHHHHHHHHHHHHHHHHHEEGHHHHFHFHHHHHFBGF98DBDEBDFFFFHHHHHGFHE7EGHHCFFF9/--;14-/EFHHHHHHHHHHHFFEHHHHFFHHHHHHHHHHHDHDHCFBEEA5>A>?HHHHHHHHHHFFEBBFHHHHEHEFEE: @read_150_12/1 ATGCGGACTAGCTGTTGCTTCTGCTGCTGGCCTGAGGCCTATACTTTAAGAACCTTTGGACTCGATGATGTTTAAGCTCCCATCCAGAACCAACATTCTG + HHHHHGGHHHHHHHCE@FEGGHHHHHFHHHFCCD(6*1CGGBFF?G@FHHHFHHHHE7DGFFGGHHHFFFED @read_150_13/1 ATGGATTTATTATGTTAGGCTTGAGAAAATTTAAGAAAGGAAATATAAGAATAGACATTTCTAGGTACTTTGGTCTAAATTCAATACCAATCCTTAAAGG + HHHHHHHHHGHHHFGDEBFFFEEDHGBDFGGHEEEFFFDEFFFEHHHHFEEDFBHFFFGHC?DDFHFFBFFDCFFFHFH6*;4,(7A1.:FEBCDHHHFH @read_150_14/1 CAAAACTCAAATCAGAGTGAACTGGAGAAGAGGGTGAGGACATTATAGAGGTAAGCATCGCAGCGAAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC + HGGFFHFCBHHHGEFEEEFGEF?E7@<;FDF;FHHHHHF=FHHFDCA@DBCFEHHHHHHHHEE??45;><9<53D==81/8?0DA>>@<<@CCD;@EEGF @read_150_15/1 ATGGATTCTCCAGGCCCTCGGGACGCGGCTTCAGCGTCCCTCGCTTTCCTCTCCCTGGCTCCGCTCCGGCCTTCGGGCCTCCTGTCTGCTCCTGGAGACT + FFDHHHHHHHHHHHGHHHHHHHHHHDEGGEF<@GGHHHHHHHHHHHHFGGFHHHFCEGDFFGE@DGEF=EHGFHHHHHHHHHHHHHHFFIGGEGEGGEFF @read_150_16/1 ATGCGGATCTCTCATCTGATATGATCCTACTTGCAGGGGGCAAGGGAAACTACATTAAGTATAGTACACCTGTTCTGAAATGACTTTGCCTCCCAATAAT + HHHHHHHHG.><:@@@GGHHEAHHHHHHHHHGFFHHEFFHGGFFFGFHGGHH:*,CFHHHHHFHHHFEGH?DHHFGHHHHHHHDA@FGHHHHHHGHGH@1 @read_150_17/1 ATGGATTCATTTTACTAGTCAATTTTTCTAAGTGCTTGAAGGGGGAACAAAAATATTTGGTTTCTGGCAATAATAACTATGACAGTAGCATAGAGTTTTA + C@CDHHHHEGGGGHHHHHHHGEFHGHFFGFHHHHHDADHHFHFHHHHHHHHHHHHHHHHHC90-<066BBGGGGGGGHHGG@FHGHHEFFFHHFDFHHE96.BEHHHHHGFHHF;EGHHHHHHFFGFEE @read_150_19/1 ATGGATTATAGATTGCAGTGAAAATAAAGCAGGGGGACCAAGCCCTTACCTGAGTGTCAATGCCTCCCTGGTGAGAGCTTTGCTCCATCACATTCAAAGA + GFGGFG?BGGHHHHG-@DF?FE.<>FHFHHDGFD@?@=@GEEEFFEEB@CFHHHHHFHHHFHHF=EFC@B75>.A@@AD?EEGGB@=EED6*735<7?DDFHHFF @read_150_21/1 ATGGATTGGAGGCTGAGGCAGGAGAATCGCTTGAACCTGGGAGGTGGAGGTTGCAGTGAGCCGAGATCACGCCATTGCATTCCAGCCTGGGCGACAGAGT + HHHHHHHHHHHHHHHHHHHHHFGHGHHHEFHHHHGHHGBFFGEHFHHHHFHHHHHFFB86EHHHHFFEFFHHHHHHHHHFHHDHHEHGGGBHHHHHB.*+ @read_150_22/1 ATGCGGATGTTCTAAAAGGTACATTTCAGCGATTGGGTAGAAAAGGGATTGTATGGAGAAATAGGCTGACTGGTCAGGTGAACAGGGCAATCTGGGAAAG + HHHHHHHHHHHHHHHHHGCCFHFHFFFFHHGB?BFFHHHGB9<7=>7C<;1130 @read_150_23/1 ATGGATTTGAGTTGGAAAATAAATAAATGAATGAATATAAATAATTGTAAAATAAAAATTCATAAGGTATACAGTAATCATACAGATGCACAACAATGAA + HHHHHHHHHHHGG==GEGHHHHHHGGGGEEEFHHHHHHHHHHHHHDFHHHFBGHHHHFEED5:ADFFFFHF@>EEBDEG@FFBDCH:E>A9?7.56/=BE @read_150_24/1 ATGCGGACCTTTCTTTTCATAGAGCAGTTAGGAAACACTCTGTTTGTAAAGTCTGCAAGTGGATATTCAGACCTCCTTGAGGCCTTCGTTGGAAACGGGA + FEGFGHFEEEB4@C=EEEFHHHHHFBCDHHHHHHHHHHHHBGG93?AABDFHHHECGGHFHHHFFFBHFFB<3:.6>AC>DGFFGHHFFHHHDFF@EDDD @read_150_25/1 ATGGATTTCTCAATCTCCCCACAGAGTGAGAGCCTGGCCTCCGTTGCTCTCAGTACATCAGAAGACACAATGACTCTGGTGCCCAGGTCCCAACCTACCA + GGGGGGGHHHHHHHHFHHHGDE=HHHHE=B=FF?5;BBEFDHHHHHHHHHHGHHHHHFFF5:FCDE6*6?DEHHDEEEF?-.&;=?DE;CE>EEEEHHBF @read_150_26/1 ATGGATTCTGTATTCTTTTGGCCCCGGTGATTGGTCCAGGGATAGGCCTGTGAGTTAATAAGATCCTTCATATTTATTATATGGACATTAGAGGAAAGAC + HHHHHHHHHGBEGHHHHHFGDCGGE;?C5GHEBEDHGGGEFFEEGDCD>E:.909CEEEFFCC@DEFGHHFFHFGGGGGHHEFGEFFGBFHFBCEEEDDF @read_150_27/1 ATGCGGAGTGCCTAACATGAACTAGTTTAAGAAACTTGAGGAATCCACATAACTATCCTTGGTTCCAATTTTTTAATTAAAAAGTTTAGACTAGAGCAGT + HHHHHGHHHHHHHHHHHHHHHFHG@=GFGHHFFFEFFHHHHGHHEE:?BFHHHHEEAEFFHHHHHHDDGGFDD?AHHHHHHHHHHHHGHHFFFEHGEE8= @read_150_28/1 ATGGATTGTTGGGCACGGTCGCGGGTGCCTGTAATTCCAGCTACTCAGGAAGCTAAGGCAGAAGAATTGCTTGAACCCAGGAGATGGAGGTTGCAGTGAG + DCCDFHHHHHHHHHHHHHFFFFGHHHHGGFGGGGHHHHHEDFFHHHHHHHHHHHHHHHHHHFHHHEDHFEFHHFFDB8>7C @read_150_30/1 ATGCGGAAAGGACACTTATATACAAACAGGAAGAGGTTCCCTGCTCTGAGCAGGTGCAGCCCCCATGATGTTTTAGTGCAAAGAAAAAGACTCCCTTTAT + E6BEDGEFGGFFCFFEBE=EHHHHHHDE78>=BGHHHHHHHHHHHFHHH:EDGHHHHHHHH=FHBCBDBHHHFFCGGGGFHHGDFFHHHHCEFGE7;7,* @read_150_31/1 ATGGATTAGATTATAAGTGATCTGATTGTATGCTCTAATCTTCCAAGTTGTTTTGAGAAAGATCTTCAAAGTTGTTTTAAAAGATCATTCTCATAGGAGA + @=EEEHHHHHGGFHHHHHHHHHHHHHHHHCFFHHHHHHHHHGGGGHFHFCFHHHHDHHHEFDFEEDFHBEBEFHFHGGFHHEBHHHFGEDHHDDF?:ACE @read_150_32/1 ATGGATTTATATGTCATAACCTCAAATGTCAGGAAAAGGAGATGGAAACTCACTATAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCT + EEEFFFFD5CECCCD9>BHHHHHHHGGGEBEE=@B@???,;>EB>ECCF?FFEHHFEDFHHHHFHGEHHHHFFFFHHHHEEEEGG @read_150_33/1 ATGGATTAACAAGTTATCAGAGGAAAAACATGTGGGAAAAGATTGAGAACAGAAGTAACATCTAGCTATCCAATACGAGAGAGAGAAGCCACTGAAAGTA + GGHHGFHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHE=EFBFHGHHHFHHHFFHHHFFF>AHHHHE66AGFHHABHHHHHHHHHHHGGGDCDDCGGGAB @read_150_34/1 CAAAACTACCATGCCAAAGGCACCGCCTCACCGAAAGGGATGATTAAGCATCTTTCCGAAAGAAAAACTAACCTCCACATGTTTTCTGTTTCTGCAGCGA + FFFFDFFHHGG?FHHHHHHHGGHHFD>77GHHHHFEHHHHHHEHHHFBH?HHHHFEFFHHGG?5ADFFFFFFEEEGGHHHHFBEBECEGFHABEGFB@>> @read_150_35/1 CAAAACTTTTAAAGGAGTAGAAAATAATAAGACTGATGATGAAATGGTGCCATATTATGAGATTTTAGAATGGTTTGCTGAGAATTGGTTTCAGCCATTG + HHHHHHHGGGGGGHHHGGFHHFEHHGFGFHHHHHGHHHHHHHHHHHF;:EGFHFFHHFACEDHHHFFHHH;;;@AFFFHHGFFD,BE;EEFFEBHHFHHH @read_150_36/1 ATGGATTTTGTTTCCACTTTTTGGCTATTATGAACAGTGTTGCTACAAACATGTATGTAGAAGTATATGTGTGGACATATGTTTTCATTTCTCTCAGGTA + HHHHHHHHHHHHHHHHHHHHHHHHHGFHHHFFE=GD?AEGHEEFGGGHHHEFHHHFFF;D2DDAAEEFFGF>:CCGGGGGHFHGFEA@DHHEGGGEHHHH @read_150_37/1 ATGGATTAAGCCAGTTCTCTCTGTGAAATATTTCTAAGCAGCCCTCAACCACCAGGTCTATGAGGGTCCCTGTTGTCCCTCAGCCAAGGCTGCTCTCTCC + AADDDEEHHHHHHE6EGHHHHHGB>@DAFHDCC @read_150_39/1 ATGGATTATCCTCCCACCTTGGCCTCCCAAAGTGCTGGGATTACAAGTATGAGCAGCTGCGCCTGGCCTGAAAGGTTTTGCACAATGATTTTGTTTCTTA + E=CDFHHHGEFFHHHHGHHGGD>CCBGGEGHHHHHHHHHHFFHHHHHHHHHHGGGFHHHHFFBGHFGGFFHDDDFFEHHD?@DFGG<@@EFFFEHE=>9: @read_150_40/1 CAAAACTTTGAACTATTCATATAATTGAAATAGAAGTGGTTTTCTTGGCCTAAATTGTCAAGAAACTCTCAGTTCTCCATTTCACTTGCTTCCCCAGGGA + GHHHHHHHHHHHHHH8=3DE>>><3=9<:DGGGFHHHHHHHHDEHHFAA:517D5CHHHHFBGHHHFHHHEHHF?HHGHHEEABDFBHHEGFHFEEE99/ @read_150_41/1 ATGCGGAACTGGAAGACTTAATATTGTTAAGGTGTCAATACTGCCCAAAGTGATCTGTAGATTCAATGAAATCCTTATGACATTTCAATGTCAATGAAAA + FBGGGFFFE=EFGGGHEHHHHHHHHHHHGHHDDDEFFGHHHHHHHHHHE;DDEEEFFFFHFHHDDHHBFHHHHE>FEGFHHHHHGBEEHHHHBBHADGHH @read_150_42/1 ATGCGGATGTGTATTGTGTATCACCCACGATACATACCACGTTCCCAATTCCTGCCTTGAGAAAAAACAAAACAGGGATTGTGAGTGGGGTTTCATGGAG + GHHHHHHHHHHHHHHHHHGHHHFEDFHHHHGFFFFFFHHHHHGFGBEEE @read_150_43/1 ATGCGGACTCAGGTGCAGGAGACCCCGGGCCATGCATCCTTCCGGGCAGGAAAATGTCAGCCAGCGCTCGCCGGCCGCTTTCAGATTCAAGATCGGAAGA + HGGEGGGHHHHHHHGHHHHHHGGGAEHHHHHHHHFHHHFFHFC=DFFGGHHHHHHAFFHHHHHHHEBBHE:>B@D9FHHHHFDHFC95DHHHG?BCHFHDBFFBFGFFFGEFHBBHFFEEEEEEDAEHGHHHFFHHG@EE?DD @read_150_48/1 ATGGATTAAAAATCACTGGTAGAGGATAAGAAAGTGAGACAGGGAGAGAAAGAAGCCAACAATGGGTGTATTACCAAGCAACTTACACCAGAGGTAACTG + HGGHHHHHHHHHHHHHHHHHHHDHHHHFHHHHHHHHHFFDCEEFDGFGFHFHHHHHHHEEFFEHHHHHHEEB?AEGGDDE1,56669EEFFGGHGB;=28 @read_150_49/1 ATGCGGATAATTGAAACAACTCAATTCTTGCTTTTTTTTTTTTTTTTTAGATGGAGTCTCACTCTGTCGCCCAGGTTGGAGTGCAGTGGCACAATCTTGG + HHHHHHHHHGGGHEFHHHHHHHGGGGGE@GGEFGGFFFEDDB;C>DD=EHHGGHHHHHHHHDFBHHHFDDEFHFFHHHHHHGGEFFGGGF@EBBA@@A@F @read_150_50/1 ATGGATTTCTTTTTCTTCTTTACGTTAATGCTGAATCTTTGGTTTTATGGTGATGTGTGTAATTCCAGTATAGAAGTTGGAACATTATAAATGGCTTTTA + EE;=@F?:?FEHHHHHGHHHHHHHHHGDHHHFHEHHGFHHHHHHBEHHHHCFCGGBFFHFFDAEE>DEHFCCFD?>4;><.:/2@CDEEHHHFCFEDGDD @read_150_51/1 CAAAACTGCAGCGAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHFEGHHHHHEEFHHHHHHH@DDGHFGHHHHHHHFHHHHHHHFFFEBEFHHEFDEDHHHHHHHHHHFFHFGBGFFHHH?5=FDCGGFDFBHHFDD @read_150_52/1 ATGCGGAATCATCACAAAGCAGTTTCTGAGAATGCTTCCATGTAGCTTTTAGGAGAAGATATTTCCTTTTCCACCCCAGGCCTCGAAGCCCTCCAAATGT + HHHHHHHHHHHHHFEGEEHHHHEEE@CCBADBDDEGB>E @read_150_53/1 CAAAACTGTAGAGATGGGGTTTTGGCATGTTGGCCAGGGTAGTCTTGAACTCCTGACTTCAGGTGATCTGCCAGCCTCGGCCTCCCAAAGTGCTGGGATT + HHHHHHHGHHHHHHHHHHHHHHCBA??CEHHFG@E:<46EGGFFHHHEHFGEEBBFF;-19'6DCFEFHHHHFCFGHHHHHHGHGHF@D=FBAFFDAEBG @read_150_54/1 ATGCGGACAAGGCGGACAGATCATGAGGTCAAGAGATCGAGACCATACCAGCCAACATTGTGACACCCTGTCTCTACTAAAGATTCAAGATCGGAAGAGC + HHHHHHHHHHHFFC7*4BHHHHHHHGFEHHGFGDEFHHHHHHHEEHHHHHHHHHHEGEHHFFAFHHHHHHHFFAEFHHGGGHHHHHHH?GHHDFFEHHHE @read_150_55/1 ATGCGGATCTACCAATTTTTTTTTTTAATTTAGCCAAGCGTGGTGGCGCGTGCCTGTTGTCACAGCTATTTAGGAGGCCGAGGTGCGAGGAGCGCTTGGG + FHHHHHHHHHFGFFHHHHEEHHHHGHGGHHHHHHHHHHHHHFHHHHHHFHHHFBEHFGEBGGFF9;>ECDD>50GHHHHGDF8FH?HHEEA4D=>=FGBH @read_150_56/1 ATGCGGACCATCTCATCCTCCATCCAGTTCTGCACCCTTGCTGGAGAACTGTTGTTAACATTTGGAGAAGATGGACTCTGGCCTTTTGAGTTTTCAGCAT + GHHHHHHHHHHHHHHHFGHHHHHHGHHHHHFHEHHHGFFFDHEEHHGFFEHDGGHHHHHHHEHHHDFHHHHB@ADFHFDHFFGFHHGEHHFACE@;::DH @read_150_57/1 ATGGATTCATTTGAATTGCACATTTAACATATTGAAAGATATTAAGAATTTTAAGGTGGAAAACAAGAAAATATATAGTCCATATGTAATGAGGAATACT + FFHHEHHHHHGHGHHHCCEGFFG=?EF@HHHHFFFB@EEFHHHGGEE?FDDFHHHEFHHHHHHHHHHHHHH;AEDGGEEECB8DBC@C=(BC@E?CC@>?@?>DFCDC(>DEHEFHGCFHFFG?D=3+ @read_150_59/1 ATGGATTGGTTTATTTTCTATTTTTAAACATTTCTGCTTCACTATAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGCC + HHHHHGGHHHHHEFHFFEGHHHHHHHCEHHGGDHHEAFA@ABFGFHHFGGEEDDHAHHHGFFFFFFFFDB@@AAACA8&*38;FHHHHHFHECBCF7>,7 @read_150_60/1 CAAAACTACTTTTATGGAAAAGCATAGGAGTAAATTTTGTGGACCAGTGATTTGGTGAACACATTTTAGACATAATGCCAAAGGCTTGATCCATAAAAGG + HHHHHHHHGGGFGE?CDDGHBE?BGFEGGFHHHHFC@@BHHEHHHHFHHHHHHHHHHE<.B;BG9AC:FHHFE@EEFHHHHHHHHHHEEEGEFFHHGHC@ @read_150_61/1 ATGGATTGGTAACTGTTGACATGTTTCCTCCAAGTCCATACCAATGCATTTGTTAGTAATATATTCACTATAGATCGGAAGAGCACACGTCTGAACTCCA + HHHHHHHHHFFFBHHHHHHFGHHHHHHHHHFGCCHHHHHHEHHHHFFFHDEBFHHDFFFHHHHHHHFHFFDECA9EGFHHHHHHEFDCECFHHHFGGB@F @read_150_62/1 ATGCGGAAACTTACTTCAACATTTCTAAACATAAAGTTTTGACAAAACAAAGCATTTAGAAATAGGTATCACTCAAATAGTGACAATACAATGTCACATG + HHHHHHHHGGGFHHHHHHHHHHHHHEGGFBGGDEEGBCB@HHHHFGGGFHEFHHHHHFFCFHFCBCCBFFCHHHHHGE@HHHHHHHHHHHHHHHHHHHHHHHHBAA=.29<9@705::>9<>.FEDEGEFFHHHHG @read_150_66/1 ATGCGGAACAGAGAGAGAACAGATATTCTTGCACAACTTACAAGAATTGGTGGCCTAGTGGATGAGAAGAATAAAGGAGAGGGAGGAATCTGTTTCTTTT + >9735B@?,;ABBEEDHHEHHHHFGFGBGGEEEFHGGGDHHHHHHHHHHFHDA@EEDCCDEGFHHHBE?+6CABFHHHHFG=8>EDGHHFFEEF?EFHHH @read_150_67/1 CAAAACTCTTGCCAGTCAAATGTTCTAGTTGCCATATTGCAAGTAGAGACAGGGAAACATAGAGCTCAAGTAACTGGATCAATTAGTGCAACAGGCATGA + HHHHHHHHHHHHHBD@CHHHGGHHFHHHHGHHHEDAFCDDEEHFEGC?DFHFHHHFDHEBFGHFFHHHHD>C==6.C.5.>FHHHFHFEHHHDDF;5>DD @read_150_68/1 CAAAACTCCAGTAATTAGAAAAGGGCAAATTACTCTGAGTCAATTGTGAATTGAGATGGTTCAAGTCAGTTTCAGGTTTATATGAGTTGGTTAATTTCTA + HHHHHHHFHDHHHHHHFHHHHHHHHHHHHHHHHHHHHHHHHHHHHD+2,8>?AAEEFEGGE @read_150_69/1 ATGGATTTGGCCGCTGCCTGCCTCACCAGCCTCATCTCAGGCCACTCAAGCCCTCATGCTCTGTGCTGCAGAGGCCCCAGGCCTCTTTCTGCTCAGGTAG + HHHHHHHHFBFFFFHHHHHHHHHHGGHHDDGFDGGFHGFFHDBFHHHHHF;FGGFHDEGBFGGDAEFHDEBDHHHGFFDBEGEBGFEHHHHHHHHHFFHH @read_150_70/1 ATGGATTCCTCTGTCCTTTTCCTCCTCTTCTCTTCATTTCCCCTGTGAGTGCTCTTTTACATTCTCTTCCTTCTTCATCTGTCTCTCATATTTTCTGTCT + HHHHDDDDFFFB@;AFADFHHHHHHHHEEBBDDA=@@6ADHHHHEAHHFFHHHHHHHHHHHHHHHHHHHHHHFFDHGHGHHHHFGHGGABGHF;>EF?A@ @read_150_71/1 ATGCGGAAGGGTAGGGAACAGCCCTTTCATTATGGCCACGTTTAAGTGTGGAATATAAGGAATAAAGAAACTCTATTTGAAGTTGGCCTTTCCAAAAATT + GHHHHHHHHHHHHHHHHHHHHGGFGHGEGHHHHHHEAEBEE5/.;GGGGHHHHHH?EBCEHEEHFHHHFHHHFDDGGGGGFGHHHHGGE@;>F?A.:CED @read_150_72/1 ATGGATTATGTTAATTTTAAGATGGCAGCATTTGGGGACATTTCATTATTTCCCATTAGGACACTGAAAGAGCATCAAGTATTTTAATCTGGGGGACTGA + HFFD@@FFHHHHHHGBFGGGHGCCHGHHHFHHHHHHCDBEHHHEFGHHHHHHGGFHHHFHHHHFHFHHHDHHEHHHHHHHHHHHHHHHHHEHFF?GGGD9 @read_150_73/1 ATGCGGATCTTTGTGCAAAATGGGTCCCACAGCTTCCTTCATTATAACTGCTCTTCACTGCTTGTTAGCGGCCTGTGAAAATTTGATTGAATTAATTCAA + HHHHHHHHHHG8ED@AB>?CGGHGGHHHHHHFFFFEEFBGHHHHHHFHHHHHHGHHFDD>HHHHFFCFHHDBFHDGGFFEFEHCAFEHHB:@CA?CFFHH @read_150_74/1 CAAAACTTGAGTGAGAACATGCGGTGTTTGGTTTTTTGTCCTTGCAATAGTTTACTGAGAATGATGATTTCCAATTTCATCCATGTACCTACAAAGGACA + HHHHHGGDCHHHHHHHHHHHHHHHHHHHHGEF6CHHHHHF@DEHHHHGCFFHHHHFHHHH@A?EHEHFEEHHHHHHHHGGHHHHFB//2,>?=EHE<766 @read_150_75/1 ATGCGGAATTGGCTGGGCTTCTGCATTCCTGTTCTTCTAGTTCCTATTTCATTTTCAAGTTAAGTTAAATGTCAAAGGGAAAGATTCAAGATCGGAAGAG + EBBGEHHHHHHHHHHGHHHHHHHHHHEHHHGGABC868+BHHFFD@99DHFHHHHHFGE?'>CDEEAD6><< @read_150_77/1 ATGGATTCAAAAAATATGTTTAAATAATGAATGAATGAATGTAAAGGACTGAGCCATAAGAATTCAGCACAAATCAAAAGGGCCACAGAGCTCAATATAG + HHHHHHHHHGGHHHEFHHHHHHHFBEHHHGGEFHF=CEBFGEHHHHDDHHBCFBEHHHHFHHHHHFCDGHHBFFDFGFFFEGHHHHHFHHHHGDDF?EHH @read_150_78/1 CAAAACTTCCCTGGGACAGTAAGAGGGAGGAGAGAGAGAGAGAGAGAGAAGAGAGAGGAGAGAGAGAATGTGTGAACGTGTAGCAAGATGATTTATTCTC + GHHHHHHHHHHHHHHHHFF4>@BEEGGHDHHHHHHHHHHHFHHHFHHEBEFDHHEE@;;><878?EEHHHHHFHD848);<@CFHFHHHHHHGHFHHHHH @read_150_79/1 ATGCGGAATGTTTCATATATTTTGAGTTAATTTTGATATTTGGTGAAAGGTAGGATTCCAGCTTCAATTTTCTGCATATGGCTAGCCAGTCATTCCAGCA + =BC@58DGHH5>6@@GHHGGFGGHHHHHHHHHHHGHHHHHHHHHHHHHC@A+)7EHHGFHHHHHF=A?A(2,4DDHHHHFHHHHHGHEHHFGHHDCEF6+ @read_150_80/1 ATGGATTGCATGTGATAAAACGTTTCTGTGAAAGATTTATGTCTGCATAATATTTCATCATATGAATGTACCAAGGTTTATTTAACCATTCCTATTCTGC + HHHHHHHHGHHEEGGDDEGGHFHHHHHHHHHHHHEFHBBFGEFHFFHHEEFFFHHHHHHEFEHFH?FBB7DFFDCHHHHHHHEGHHHHHDGBDDE=:EAD @read_150_81/1 ATGGATTCTCTTCCATTACAGTATAATGCTTTATCTACCTTCAATCATAACTCAGTCTAATCCAATATGCTTTGATTGTTATACTCTCTGCATTTCCAGT + HH@BEGHHHHHEE8DEDDBFGHFEHGGB?G<@7<80842.:=79BF9CEEEGEGHFGGGEHHA;=>?2)7*7?;>DEEFFFGEHHHEHFGFDEB7<.9<= @read_150_82/1 ATGGATTGATTGATGGACTGGTTTCTCAGTTAGGAGAGCGAATTGAGAAGTTGTGGAAACGAGATGAAGGAGGCACAGGAAAATATCCTCCTGCTAGTCT + GGGHHGDG@DFGHHD=EGGHEHHCFHHFFHHEGACD=@CFFHHFFFEC778EFHHHGHHHHEEEEHFEB@GBDDDGGGGGHHHEFHFEFDEHHBE02'>@ @read_150_83/1 ATGGATTCCAGTTATTGTTTACCAGAAACAAAACATGCTTCACTTCTCCCCACACTCTCCATTTGAATTATCATTTATACAACTAACACATAACATCTTT + HHHHHHHHGHHGGGHHHGGGHHHHHHHHHHGGHHHHHHGFFHHBFHHHHHHHHHHFFHHHHHHHHHHHHHFFHHHHFHGHHFH@BGDECFHFHHHHG?;FDEFCEFHHHHHHHFD?EEDGGGHHHHHHHHHFFFFHHHHHHFF>,:CFHFHFFHEE<4DCECCFGEEBDD?7DFF;DB:4DD>;;7.1 @read_150_85/1 CAAAACTATCCTCTGGGTGGGGCTGACTGCGCGGCACCAGCACAGTCCGCAGTCCTTCCCACGCAGGACCTTCATTTTTCCCAGTCCAGTCATTCAGCTA + HHHHHHHHHHHHBBBDGGGHHEEDFHHHGFEECGGGBB?DHFFFFGADFFF<9>EH?CHHFHFFHDFFFB@B:?EGGFEDBGHHDGGEEFGGGGEHHEEE @read_150_86/1 ATGGATTCTACTTTGAAGACATACTCTTAAGCAATCTGGATCTTAAATTTATGTGAATACATTTTTAGAAAATGATAAAGAAAAATGGAATTACTTCAAA + CCA8>-?@@DDEEGGGGDDCGDHHHHF2/*((19:GHHHHHHEHHFEFHHHDBGFH;:=>HHHHHHFHHFCEEHHFEHEG5CCBHHHHHHCFFGGE<:>4=,>>;6 @read_150_88/1 CAAAACTAATGCATTTAAAGTTGGGAGGAAAACAAAACACTACAGCAAGAAGAAAAAGGAGAAAATGCAGAGATGGAAATATGGAGGCCCACCTCTTCTA + HHHHHHHGHHHHHHFE@HE>E8DDDHHHGHHHHBHHGGEF?FFFFHHHHEC;>;>DEGHHGGFBHHEHCD;8/*3EDFEEHHHHHHHHCC9=HF-7?FBH @read_150_89/1 ATGCGGAGACAGATCAACGAGACAGAAAGTTAAAGATTCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTG + HHHGHHHHHHGHHHCFHHHHHHHHFBFFFFHHHHHHHHGFHHHHHDCFHHHEHHEBHF=:<7)3;:11C(;9DAHHHHHHHHFEEH@1CA2*=:1<497F @read_150_90/1 ATGGATTATAGCAAAGACCAGGAACCAACCCAAATGTCTATCAGTGATAGACTGGATTAAGAAAATTCACTATAGATCGGAAGAGCACACGTCTGAACTC + HHHHHHFGHHGGC@@8>=FHHHHHHGGHHFGGGFCFFHHFHHHHHHHHHHHHFHHGEEHHHHEGGHHECEBDD?9<:8@>ADCCFFFHHFGEFFHGF @read_150_91/1 CAAAACTGCAAAGCCACTGTAGCCAGACTGCCTCTCTAGATTCCTCCTTTTTGGCCAGGGCATCTCTGAAAAAAAGGCAGCAGCCTGTAGTCCCAGCTCC + HHHHHHHHHHHHHHHHHHHHHHHHHHHEEHHHFEHHHHHHHHHHHG8-.8DEGHFGGDCFBFGCCBFHHHECBD>CD?ACCHHHHHHHBEBFFFF><-&' @read_150_92/1 ATGCGGACCCATCAAAGTCAAGGAGCATCTGTATCTTCATAACAGTATATTTTATAATAAAATGGGATAGATTCAAGATCGGAAGAGCACACGTCTGAAC + GFFFGGGGGHHHHHHHHHHHEEFGHHGGHHHHEFHFFHHF9<47ADDCDHHHFFFFCDFDEEBDFHHHHEAFEHHHHFBBFHHHHHFBFHDA?AD?@@HH @read_150_93/1 ATGCGGAACACTGGGGCCTGTCAACGGGTGGGGGGCAAGGGGAGGAATAGCATTAGAAGAAATACCTAATGTAGGTGATGGGTTGATGGGTGCAGCAAAC + FFFGGEEEEFHHHHHHHHHHHFEEEGHHHHH?FHHHC6DFHHFHF?FHFHFHHHGGHHHFFHHHGFFFFBDE48+077(/DGGGGFHHG2@GGHHD1AAF @read_150_94/1 ATGGATTGCAAAGGTTGCAGTGAGCTGAGATCACACCACTGCATTTCAGTCTGGGTGACCGATCGTGACTCTGTCTAAAAAAATAAGAAAGGAAAAAAAA + EEFFHHHHHHHHHHHHHHHHHEGGHHHE@D;AGHHHHHHHHHHHHHBHHHHHHHHF;9A?EEGGAEABBAEHFEFEFHHHHHHHHHHEED9EEEHGFF=/ @read_150_95/1 CAAAACTGGAAGCCCCTGAGTCCCCCTGGTTGGGCATTGGCACAGAATGGGGTGGGTACCCAGCCTCTGTCCCTGCCATCCCCTCGTTGTGACACCTGCC + GGHGGFGHHHHHHHHHHGEEEEFHHHHFEGHHHHHHHHHHHHHHFEFDGGCF?@@=;EHHHHFDBFCCFGEDDFFDABAB>B@@>(43?DHHH@>FFGHG @read_150_96/1 ATGCGGACTGCAGGGCCCAGCACTGTGGAATAATAGTGCTGTGTGCCTCAACTCTTCCCCATCCTGGTGGCAAAGAGGAAACAAGGGAGAAGGATATGGT + HHHHHHGEFHHHHGDHHHHE@EEEABGFGGGFGGCFFHHFGHHHHHHHHHHHHD?FEDBFFE9EFEFHFE?CEFFHHHHHFGGGHFGFEBD.=EHHFHG'.:>@D55?AEDBEDFHFDC4ADAF@FDEHHEFDGEEFFHHHHHHHHHHHHFFEFFFHHFFHCH @read_150_99/1 CAAAACTCTAGCTATTCACTTACTGGTATGATGGTTATTTTTACCTGTCAAGTTCACTGGGCCATGGGGTCCCCAAATTAAATATTATCCTGGATGTGTC + HHHHHHHHHGGGHHHEDFEHHEHHHHHHHHGGEFHFEFFHHHHHHHGFDDGHHHHGFECFHHHHHHHFEHHHHHF@=FFCFFHG=DBB4DC??CEHFFHH @read_150_100/1 CAAAACTATAATAAATCTATTTTTGTATGCCTACCTTGCTAGACATTCTACCCTTTTTGCTGCGCAGCGAAGATCGGAAGAGCACACGTCTGAACTCCAG + GGHHHHHHHGHHHHHHHHHHGHCHEHHHHHGC:BFGHHHHGGHHHHHDDCFFEEFHFEFGHHHHHHHHHHHGGFHHHHHFHFFBE;7,,: @read_150_104/1 ATGCGGAGCGTTGTTAGGTGCCTAGGGAAACAAAGACAAATCATTGCTTCCTGTCTCCAAAAAGTTCCCCATTGAGCAAGCAGGTGAGCTACAATAAAAG + HHHHFGHHHHHHHFHHHHHHHHGFHHHHGFHHHHFGGHF<@FHHHHFHFFEFHFHHHFHHH=E;AD>E;>BHD>49>>>@DDFHHHHFHHHHFBGEHFFE @read_150_105/1 CAAAACTTGCAGCTGACATGATCGTGGCTCACTGCAGCCTCAGCCTTGCAGCGAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCG + DFGGGHHHHHHE867++GDE?FFHHHGGGGHEGGEEEFHH?HFHHHFFHHHFFFHHHHHEFFHFFE?C?A5338AHFFGGHGHHHHHDHEEHHGFEGHHF @read_150_106/1 ATGCGGAAAGCCATGGCTTACTTTCTTCCTATAGACAGTCCAGGGCACATGCTAGCCATGGACTTTAGCTGCTGACACCCAGGTATGAAACTAAAATGAA + HHHHHHHHHHGGFFGEGGGGFGGFGGHHHHHHFF@<,5*0+(38FEA7C904)1>DBFEC;EBFHHHHFHFFFHGF>D9FFHHHHHHFFHHHBICE94+21031,-.EEECFHHHGHFFGFDGBFF5ACCCC @read_150_109/1 ATGGATTTGACATTATACCTCCCCTTCTGGCCATTATGCTAGTGTTGTCATGTAATTTGATTTTAGACATGTTACAAACCCCAGAATCCATTATTATTGC + HHHHHHGHHHHHHHHHHHGGEFHHHDHHHHGGGHHHHHHHGGFBHFHEGHGG?@EGHFFFDA??EGGFEBD@EEHHGHFFHHHH?FFBGHGG=6>85EEEHHFHHBHFFG?5EFEFHHFDAB=6:8+39EFGEBCDFFHHHFHHFHHHHHHFF9B @read_150_111/1 CAAAACTCAGGCTGGTCTCAAACTCTTGGCCTCAAGTGATCCACTCGCCTCAGCCTCCCAAAGTGCTGGGATTCCAGGTATAAGCCACCGTGCCCGGCCA + GGGE=/BA>@><>268BECCGGF=;=EHHHHH=G @read_150_112/1 CAAAACTAATACACACACACCCCCCATGTACACACACTACACACACACTCCCCACATGTACACAAACACTACACACACACACGCCCCCCCACATGTACAC + HHHHHHHHHHHGHHHHHHHGHHHHHGGFEEHHHHHHHHHHHHFGHHHHGGHC:>BEHHHFEFCHHFHHE>;>AFHHEFECFHEHHF?;DFEHHF?DCD?>@>AEBHD>*8)6DFFFEBBCFDBEEGGHHHGHHHHGFHHHHEA;+0 @read_150_114/1 CAAAACTAAGGACTACTATAACAACTTACCACAAACTTGGTATCTTAAAAACAACAGAAATGTATTCTGTCAAAGTTCTAGAGGCCAGAAGTCTGAAATC + HHHHGGE@DDEC4BGHHHEDHC9EFHCCHHHHGFB @read_150_118/1 CAAAACTAGATTCTCGTTCTATATCTCATCACAGTGCCAGCCCTGTTTTTAGCCGGAAAGGATTCAGGAGAAACATTATTATGCATTCTGAACTGGATGC + GGGBDBBGGEHHHHHGGFFFHHHHHHHHGFB9>7)1;D@FFHFFHHHFHHHHGHFD:@68DFHHHHHHHFFDBBFHHGGE@ACFFGHHEFGHHFEHH?@5 @read_150_119/1 ATGCGGAGCAATTTGGGAGGCCGAGGTGGGCGGATTGCCTGGGGTCAGGAGTTCAAGACCAGCCTGGCCAACATGGTGAACCTCTGTCTCTACTAAAAAC + GGHHHHHHHHHHHHGFGEHHHHHHHHHHHHGGB79FFHHHEHHFHHHGGHHHDDEAEFHH6*/-:&7CDCEFHHEFFGHHHHHGFDGFHHHHFE@CCEED @read_150_120/1 CAAAACTATTATAGGACTTCTAATTAATGTTCGAATCCTTGGTTCACAATCCGGTTTTGACACTCCCTAGGTACTATTGCATTTGGCTTCACTTTCCTCA + HHHHHHHHHGHHGGECC@GGGGEHHHHHHHGHHHFHHHHHEGGHHFHHHHC5;)4>@FBCEEHFFGBDDEFBE.=?@>72CEEEAC9CGG<>ACEDBEFH @read_150_121/1 ATGCGGAGAATGACCAGTTGTATTTGGGTGGGATGTTGCTCAGAAAGGTTTTGTAACAATAAATGATGCTTGAGGAAAGTCTTCATTAGGTATTATAAAG + HHHHHHHHHHHHHHHDEFCCCBEFGE@EGHHHHHHHHHHHHGHHDBEDAAFBEDHDD6@EFH @read_150_123/1 ATGGATTTATAAAATTAAAAGAGAAGGCAGGCTAGGGTAAACCCTGAAAAACATCAGCATTTAAAGACAACCTGAGGAGGAGGAGGAGCCAGCCAGCAGA + HHHHHHHHGHHHHHGHHHHHHHHHHHHHHHHHHHHGEFGH>-1DDCGFHEGC?FA?C@@HFFFH>*@;BEGFEHHGHHEDHFFFEHHHHHFHFF?EE4A: @read_150_124/1 CAAAACTAAGATAAGTAGGTTTTGCTCTTTGCCTCAGTGGTCTTTGACGGACTCTGGGTACTAAAGCTAAGATGGAATTGAGGGAAGCTCCTAATGCCTC + GHHGHHHHHHHHHHHHHHHFEGHHHHFGGGBCDBEBCFBDEHEHFFFFGFFGHECDDC?EEB@CD7FHBFFFBBFFGHFHHHHHEHHHF8EEHG?DDHHH @read_150_125/1 ATGCGGACATAAGCCAAAGTCCTATTGCACACTAGTACAAGAGAAGAACCTTCTGAATAAGCTAGTTCAAAAAACCCAATATTCTGAGGTCATTATATGG + CCDFHHHHHHFFGGHHEFEEGGHHHGFGGFFHHHHHHHHH>EEFHHHHHHHHHHFEE?AAFHBGEHF?7>)(><<>ACACHHHEEEFBEEHHHHHFFFEG @read_150_126/1 CAAAACTTGTTTGTTTTTTAAAGCAACATATAGTTGTTTACCAGCTGCATACTATTACTAGATTCCAGCCTCTTTGCTTTTACATCTCTAGGTTTGGTCA + HHHGEGFFF=DDFFEFFHHHHHHHHGFHHHHHFFHGHHHHHHHHHHEFHHHHHHHGFCCFBFEEHHEE=BEEEEBEC?<43%/@@>.2?>4FFAB<8HHDGFBBFGDGFHHHHHHDHHEHHHHHHHHFEFFGHFHHGE>EED:9EHGFEEBBCF?DCED8).@EEFBAEGHHHGBEGHFFHHHFEHH @read_150_128/1 ATGGATTAGTGGTTGGTGCCTCGGCTCTCCTGAAGTTGAAGCCAAAAGTGAACCCAAACGCCTACGCTGCACTCCATCTCCTCCCAGCTGAAAGCCCCAC + HHHHHHHHHHHHHHHHHEFG@HGFHEAGGHFB-CHHHEFEHHFDCFGFFFHHHE=@@73@@5>9,7>87?4@:CEEE90DHHFGFFGHHHFFHHFGIGCC @read_150_129/1 ATGCGGATAAAATGTTTAGAGATTTGTCTCTATATTTTATTTTCACTTGGACAGTATGAAGTATTCACCAAACACACTTACTTATCAGGATGATGATCAG + HHEHHHHHHHFEEEFBE@C4DFHGEHFFFEFFEFDFHHEEGHFFFHFGGFFFAHHHHFFE?;D=BG?:%.446CCGGDCEDBEGHEHHHHHHEEFBFF== @read_150_130/1 CAAAACTTAAACAGAATACAAATTGTGTACACAGATGGGTGTGTCACTATTGCACTGTCACTTATGTAAGTGCAGTTTAGCATTTCTTCTTTCCTTTTAA + HHHHHGGFDAECCGCDHHHHHHHHHHHGHHGGGHHHHHHHHHHFHHGHHBFGGHHHCEHFFHFHHEEHHHDEADBFDACDGGEGHHFFHHFHHHHHHBFA @read_150_131/1 ATGGATTAGCCCAGCAGAAGCTGTGTTGCTTTGTATGATGTAGTCTTAGAAGTCACCTGGTATCATTCTGTCACATTCTGTTGGTCAAGACAGTTACAAA + HG;AADBDHHHHHHHHHGFABEGGFFGFGGGFGGFHFGD=FHHHHHHHHE??DFF?<<(12=?FEBEGEFHHHHEBAEFHHHHGGHE8)4EEE=DDBD41 @read_150_132/1 ATGCGGATCCCAAAGATTCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAA + HHHHHHHHGGHHHHHHGHHGGGF@DCGHHHHHHHHHHHHFE>CHHFBHHHFBDFBFHHHHHHHEFHHHDCE@EHHGHHHHGEHGGH@*@EE:>HE8ACC?HHEAFFHHHHADBEAHHHFHHFHHEEBDEEGHFHECDDDADFB=;8>F?78FHFEE@GHHH @read_150_134/1 ATGCGGAATTTACAGATTCAATGCTATTCCCATCAAGCTACCAGTGACTTTCCTCACAGAATTAGAAAAAATTACTTTAAATTTTACATGGAACCAAAAA + GHHHHGGHHHHHHHHHHHEGFFEHFGGHGGEGGGECDD@57ADBFDHHHHDHHFFBBE<@D783@BC5DE @read_150_136/1 CAAAACTTATATTATTTTTCTTTGTCTTATTATATTTTCAAACATTAAACCATCCTTGCATTTTAAGAATAATATTTAATGATGTGTCGGGAGACAATTC + HHHHHHHHHHHHHFFHHHHGGHHHHHHHHHHHFHHGHHHHHHFHHGHHHHFHHHHHHHFEHHHHHHFFEEEFFEGGFFHHHHFGHHHGGHHHHHEGECB? @read_150_137/1 CAAAACTTGGAAGGCCCCTACCCACCATTCCAAGGCCTTTCAATCTTACTCGGACCCAGTGTCTCCAAATCTTAGCCATGAAGTTCCTCCTCACATCAAA + HHHHHHHFHFBDABE>>C>EEGHHFHGGHHHHHHHHFFHFFFHHHFHHHHHHGBCAFEECB8CFFDFFEHHFDDFFB/72DFFFHHHHHEHFCFHHHH?E @read_150_139/1 ATGCGGAAGGGTGGAAAGACTGAGGCCCAGAGCAGTTAATCAACTTGCCTAAGGTCACACAGTTAATACATGGCACAGGTAGAATCTGAACTCAGCCCTT + HHHHHHHHHHHHHHHHHHHHGGHHHHHHHHGFHHFFGDBFFGBGDFBCFEEBFGFHHHHHHCECEHHHHHFFFHEHHEGHHHHGGHHFG&1AA@+>=GGHHHHHFBFH=EHGGCBHDDD74CD4 @read_150_142/1 ATGCGGAAGAGTAAATGAAGTGGGAATGAAAGAATAATTCATAGGTGGATGGATGGAAAGATAGATAGATAGATGGATAGATAGATAGATAGATAGATAG + HHHHHHHHHHHHHHHGHHHHHGHHHHHHGGHHHHHHHHFFHEHHFHHHHFFFGFHEGFHFFHHHHHGHHHHHFFHFFFGD?@B?EHFFHFGDFGGGGHGG @read_150_143/1 ATGGATTCACAAATGATGTCAAATATCTATGCAGATTAGAGATCATAGATGAAAAGATACAAAAGTAGACAAAAGTTTGGGTAAGAGAATTAAAGCTCTA + FFGGGGHHHFHHHHHHHHHEGHHHHHHHHHHHHHHHHFHHHHHEC?@=E2DFEEHHHHHFFHHEE9ABDCBFBG=?BBEHFGDFB=)&16>BBEG?E51A @read_150_144/1 CAAAACTTGCTCTATGAAAAGCAAGGTTAAAGTCTGGGAGTTGAACACATGCCTCACAAAGAAGTTTCTGAGAAGGCATCTGTTTACTCTTTAAGTGAAG + HHHHHHHHHHHHHHG;BF8=HHGGED9BABCC=>=>FHHHHHHHEHHHHHFFFHHHHHGGGDDFFHHHGFHHGGFHGGHFFCBFGAFEBDFGHHHHHDEF @read_150_145/1 CAAAACTCAAACCAAGTTTTGAATAAGTCAACTTGTTTATAATTATATATTCCTTGACAAAAAAAGCAATGTATTATAAAGTGAATTCAATTACACTCCT + HHHHHHHHFHHHHHFFGGGDGGHHGGC>DGHHHHHEBFHHHHHHHHHHHFB?DB<9?DHHHHFHHFEFHBGFDEDGCC<4DECBEEDFGGFGD(-:-20/ @read_150_146/1 CAAAACTGTACCATATACACCGATTCTGAGGATTAGGAGGGAGACACCTTCGGGGGACCATGATTCTTCCTACCATACTCTGGATATTAGCAGGAGGGGT + HHHHEFFGGDDDDEHHHHHHHFHHHHGHFFDGHHHHHHFHHG?DDAEE5BBEGHH=CCCA8;GEBBGFHHHHFECGGFFHHGFEGFHHHHHHGHBGHHFDHFFGDHHFH@6?A.DGEEBBCBDCCBD;;DGHHHHFFCBH @read_150_148/1 ATGGATTTTTTCCTCCCTATTCCCTTATCCCAGCTTTCGTGAATTTCCACCAGTGCCTTCGGACTACAGCTGTGTCGCACTTCCTGCTGAATATTTCCTT + HGGHHHHHHHHHHHFHHHFFGBHHHHHHHFFHFHHHHHHHHHHHGEFFHHHHHHHFHHHHHHHHDADDABCFEHFEA@AAGHHFGHHHHHHHHFHHFB>? @read_150_149/1 CAAAACTATGTCATCCCTGTGACTAGGAGTCTAATCTTTGGGCCAGCAGCAAAACAGGGGAGCTAGCAGCGAAGATCGGAAGAGCACACGTCTGAACTCC + G8EEDFHHHHHHHHG?BDC/)>:?FEEGGE>AA?FHHHHHEFBBFEEBEBFHHDFHFBHFFD?8=CEB?5>>.GFBHHHHHDHFFHHHHFHHHHHHFFF@7.DHHHHHHGG @read_150_151/1 CAAAACTATTTTCTCCCCCAAATCAGACCTATGACTAGCAGTGTTGTTGCAAGACACCACACTAGATAGTATCACCACACTAGATACCGCAGCGAAGATC + HHHHGGGHHHHHEBFFFFFGHHHHHHEEHHHHHHHHHDDDBHHHHHDGGHFB>-*5@>A2+DEHFHHHFFGA6FBFHHHHHHHEFCC=<B5?8<> @read_150_152/1 ATGCGGAACTATTTTTTCCCAGTGAATTGTCTTTGCACCTTTATCAAAAATCAGTTGTCTCTATGTGTGGGTCTATTTCTAGACTCGCTTCTGTTCCTTT + HHHHHHHHGFFEEGFHHHHHGHHGGHHHHABDC@GGF@BEB=GGDFHHGGGFHHEA?DF @read_150_156/1 ATGGATTCCTTTCTGATAGTAGGACATTCTGACAACAATGACTTTGCAGGAGGTTTGTTTCAAATACTTACACCAGTAAGAAGGTATTTTGCATTTCCTA + HHHHHHHHHFGGEFFHEHHHHHHHHHHFFEGEEGHHFBGHHHHH>>DBF@BA@BFGGHHHHHHHHGGFGFHHHHE.<@:9D>?EBEED==:74?GFB?E8 @read_150_157/1 CAAAACTCTTGCCACTGCCCAGGATGCGGTCACCGCTCTGCATTACTCAGGAGAAGGACCAGAGAGTGGAGAGTAGAAATGGGAAGGAGGAAGAGGATCA + HHHHHHHFFE@GEEFHHEGGHHHHHGHHHHHHGHHHHFHHHHHHHHHHHFGGGHHHHFFFHHHHHHEEADFCBE@E;4?EGHFGGHHHHHGCBGGHFHFF @read_150_158/1 ATGGATTGAGAGCAAGGAAGTCGGCAGAGGCGGCGACCCTGGCGAGGAAACTTCCCAGTAGCTTTGTTCAGCGGTAAGGACCGGATCCCTGAGAGACAAA + HHHHHHHHHHHHHHHHHHGGBE@FFHHFHHGGGGGHHHFCDDA?5//-=GHHHFHFFHHFFDAAFHFFHHFCC?EHFGGGHHHHHFBB<EEFHHHHHHHHHHGGHHDHFHFHHHFHHFC/>:=EEHHCBFFFHFE?>ACE @read_150_160/1 ATGCGGAACTCTTTCCCTTTTCCGAAAACTTGATATCTTTTCTGCAAGCTTAAGCTCATCTTCTTAGCTCCCCCTTGGACTTTGCCTTATTTTTCCCCAA + HGGFFFHHHHHHHGHHHHHHHHHHHHHHBD:DDAGHHFHHEDEFHHHHHHHHEHHHHGEHHHHHHHFFB?HFHFEHHHDGHHC27AFFDH@/C0/=<:78 @read_150_161/1 CAAAACTGTCAGTAGTACTACCCACCTACCCCTACTCCCAAACTTTTTTTTTAAAGACAGGGTCTCACTCTGTCACCCAAACTGGAGTGCAATGGCACAA + HHHHHHHHHHHFHHHHHHHHD:2AHHHHHHHF7C>DGGHHHHHHGFFHBFHHBCEFEEB.*;>9 @read_150_163/1 CAAAACTGAACTGGGACTATACAGGTGCGTGCCAGTACCCCTGGCTAATTTGTTTGATTTTTAGTAGAGACAAGGTCTTGCTATATTGCTCAGGTTGGGT + GGHGHHHHHHHHHHHHHEHHHHHFHHHHHHHEB8=FFGEEHHHFFHFHHHBEHFFHHHHE@22CEEB:,1>:9C.8DFFHGHFFFHHCCHEBEHHHHHHF @read_150_164/1 ATGGATTAGTCCACTGTTTCTGGGCCTAGTTCAGCACTAGGACTCACCTAAGAGTTGCAGTCATTATGGCCTAGAATGCCTTTCAAGTTTACTTGGAGAC + HHHHHHHHHHGGHHHHHHHHHHHF;/5DDEGGGHGH@FEEB:*6E8D;>AEE @read_150_165/1 ATGCGGATACATGCACCACAGACACATGAATGTGTAAATACACACAAATACACAACCCACACACACCAGCTTCCAGTCATGCCACTATGTGTGAATTATG + EEEEFHHHHHHHHHHHHHHHHHHHHFHHCHHHHFCDDHHHEHHEHHHEHHHHHHGHHHHHFBGFHEECFFHFDCCEDAACGHHEGGGBCC.-6EDBEE@A @read_150_166/1 ATGGATTTAAAATCCAAGGGAATCTGAATAAAGTATGGACTTTAGTTAGTACCAGTATATCAATATTGGTTCATTAATTGTAATAATGCACCATACTAAT + HHHHHHHHHGDEF?BFGHHGGGDAD@B7GHHHHHHGGDDD5/287AAA,-CCBHHFB?HHHHHHDHGFHHE?CECDHHHHEHHHHHHHGGGGGHCFHHFE @read_150_167/1 ATGCGGAGTCAGGAGTTCGAGACCAGCCTGACCAACATGGTGAAACCTCGTCTCTACTAAAAATGCAAAAATCAGCCGGGCATGGTGGTGTGTGCCCATA + HHHHHGGHGHHHHHHHHHHHHHHHFGHHHFHHGEHHHHHHFFFFAGGFFF==EHHHFFHFHFFHHHHHHFA>AA?FHGGFGGFGG?;C4DHBF@.),>:) @read_150_168/1 CAAAACTCTTTGGCTACAAAGGTTAATAACAAAAGTAGTCAGTCTAAAGTTGCACAAGCAGTTGCTAGGCAGATGTCCTTACAGTAGTATTTTTGCATAA + BFFHHHHHHHGHHHHFHHHHHEDFGGECGHHHHHGE?DGDDBHHHHHHHHHEFCFHF<>;C56FFCCHFFD><: @read_150_170/1 ATGGATTCCTCTGCATTTATAAAAGAGCAGGGGGCTGGGTGCAGTAGCTCATGTCTGTAATTGCAGCACTTTGGGAGGCTGTGGCAGGAAGATTGCTTGA + HHHFB===GGFFGEGGHHHHHHHFHHEEEHFEEAEGGCGEFFGEFHHHHHHHFFHHHA<>EFHHHHHFHGHHHHFFFHHHHHFDE?=CDGHFHHHFGGGG @read_150_171/1 ATGCGGATGGCCAATATTTCCCCAAGTATGCTTTTGCCCATTCTCTCTCTTCTCTCCTTCTAGGACCCCCACTCTGCCTTTGTTGGTATGCTTGATGGCA + EEFGFFGGGFHHHHHHHHHEDGGGGGHHC+4:?CDAA?@FHHHHHHHFHFHCC2./1;<5BEEGG:=A=CA=C,;C02/EFEEGA4DHHHHHA=32EGHFGHDGCDFHHHFFHHHHHHHHHHHFHFHFHHHHHHHHHHFFHHFFHBGFFF>@@>:9==D?GHHHHFHGBHFHFGD= @read_150_174/1 ATGCGGAATACTCTATCTCAATACCTCACAATTTTGTAGAAGAGACGGACAAGTAAGCAAATAATTGCAAATCCTATATGAAGAGTGATATAATGGAGGA + HHGDFHHHHHHHHHHHHHHHHHHHGHHHEGHHGGGFHHHHHHH@CFFHHHFHHEEBGFHFDFHHFFDEFFFFCAD647@BCEFDFGEEHH@FEEFFBEBHH @read_150_176/1 ATGGATTCTGGACCTGGCCCATGAAACCTTTCTTCCCTCTTAGTCCTCCAGGCCTGTGATGGGAGGGGCTGCCACAGAGGTCTCTGAAATACCTTGGAGG + GGHHHHHHHHHHHHHHHHHHHHHHHHHHHHFHHHHHHHHHFFFHHEHFAHHFGCCDFFBDHFFHEDDCEBB1%'50&,66>FFHFHHHFGHHHHHHFEAH @read_150_177/1 ATGGATTTGCAGGCAAGACAGCTAGATCTTAAGCTCCATGAAGGCAGCCAGTGCCTGAACCATGGAAGTAACTTAATAAATACCTGAATGAATGAATCAA + GGHHHHHHEEHHHHHHHHHHHHHHHHFBFEGBFF94DHHHHHHHHHHHHHFDFHHFHHHHHEFFFFFFFEEA:>CBD@<>8.+EECBB4GA@=C5DDDD+ @read_150_178/1 ATGGATTAGTTGAGTTACAGAAGAGTAAAGAAAGTTATTATCGTTATTATTTTGCACATTTGGATCATGTAACTTGCAAATTGAGTATTTTCAGCAGCCA + HHHHHHHHHHFFD@@BGHHHHGGEFFHGB3AGGGHHHHHHHFHHEEFHHGEDBAE4D?= @read_150_179/1 CAAAACTAGAATGACTTGAACTCGGGAGGCGAAGGTTGCAGTGAGCCAAGATCGTGCCATTACACTCCAGCTTGGGCAACAGAGTGAGACTGTCTCAAAA + HHHHHEDFEHHHHHHHHHHGHHHHHHHHHHHHHGHHFHHGHHHHHHHHDFEHHHHHHHHFGFHHHFFFHHCCCEFEDE?CFDDHFHHHA1;9???78>:9 @read_150_180/1 ATGCGGATCTAGGTTTGTGTAAGTACACTCTATGATACCCGCACAATGATGAAATCACCCACTGATGATTTTTTCAGAATGTATCCCTGTTGTAATGCAA + HHHHHGEEEHHHFFG>@4:FGHHHHGGGHHFBA1@BC<<@EGEFEE:8EEHHFGFBHHDFHHEDABCEBCDABBAC@-*4DCAGDGFGGGGGFFH=:1/= @read_150_181/1 ATGCGGATGCGGTGGCTCATGTCTTTCATCCCAACATTTTGGGAGGCTGAGGTGAGACATGGCTTGAGCCTAGGATTTCAAGACCAGCCTGGGCAACATA + HHHHHHHHHHHGHHHHHHHHHFHFHGHHHEHHHHHEEDGCFEHHHHHHHEBDFHHDEFHHHHGBCAAABB:BE8EHHGEEHDGGHHGGFFFFHHHDHHDB @read_150_182/1 CAAAACTAGTTATTTGTTCTTCAAGGTGCAGCTCAGGGGCCACCTCCTCCAGAAATGCCGCCTCTTCTCCAACCCAGCTGGAGGAAGTGAGGCACCTCTG + HHHHHHHHHHHFHHHHHHHHHHFHHHHHHE@@3:>:>HHHHHFHHHHHHHA?6&/EEHFHHGFHHGGFHFHHHEFBBB6FFDCDDGHFE>EAEEFFGFFF @read_150_183/1 CAAAACTGGGATTACAGGTGTGAGCCACCGCACCCAGCCCTAAAGAGAAAAATTTCTAAACTTTACTTTCTGACAGAAATATTTGGTAGGCAAGCATTCA + EEFHHHHHHHGGGGGHHHFHHHHGGCDE@9;5*2AHHBHHHFHHHHHHHHHHHHHEHFFGGHHH@EEC>?CHHHHHHHHHHHHHFFBF=BFCHHC44:7E @read_150_184/1 ATGGATTTTAAGAATGTTGAATATTGGCCCCCACTCTCTTCTGGCTTGTAGAGTTTCTGCCGAGAGATCAGCTGTTAGTCTGATGGGCTTCCCTTTGTGG + GGFHHFEEED=FFFFHHHBEHGGGHHFHHHHHEEFHHHHHHHGGEG<>63DHHGFC5>6+4AAFHHHHHGC(CE<.03AAEHH@@GGIGIHDGG@:C5/0;>D>DFHHHHHFHBFHC.? @read_150_189/1 CAAAACTTCCTGCCTCGGCCCCCCGAGTAGCTGGGATTATAGGCACCCACCACCACGCCCAGCTAATTTTTGTATTTTCAGTTGAGATGGGGTTTCACCA + HHHHHHHHHC@B?EEEDEGFBGHHHHHHHHFEFFHFEEFHFFHHHHHHHHHHHHHEE?AEE=GA?D9B??7EHGHHFHHHHEFFDGFHHHHFC?'9FHHHGBFFGGGHHHHHHCCEEEH?DDCCHHH @read_150_192/1 CAAAACTGCATTTTAGGAAGCATTTAAATCCACCATCTAGGCTGGGCACAGTGGCTCATGCCTGTAAGCCCAGCACTTTTTGGGAGGCTGAGGTGGCCGG + DGGGGHHHHHEGGECFHHHHHHHHFEHHHHHHHHCBEFFFCF?BFEEEFF @read_150_195/1 ATGCGGACTGATGAATTCTGGAGCAGTGAAAAAGGGTTCTTACTTGGTTTCAAATAGTTTTCCTAGGACTTCTTGAGATTCAATAAAGCTTTAAAAAATA + HHHHHHHHGGEFGFFF2CDFGDDHGEEBHHHHHHHHHHHHHHHHHHHEFHHHHHHHHCHB=DFHHHHHFDGGG68;<6DEHHHEEFEFF@45FB;86:BG @read_150_196/1 ATGGATTATTGCCTTGATATTTAAAAAAATCAATTGACCACAAAGATAAAGATTTATTTCTGGACCTTATATTCTGTTTTACTGATCTATATGTCTATCC + GFFBBFHHHHHHHHHHHHBHHHHHGHHHF@FHHGGHHHHHHC@FEHHHDHGF>F9EFFHGHHHFFFFFFHBB5@>><9DFFGHHHHHHHHHHHHHHHHFFGHFCHHHHHHHFHHGGHHHHFHHHHHHFH7D@HFHHHHHHHEHHHHHFEFHHEDDGD?EFDG>0(D?? @read_150_204/1 ATGGATTCAGAATTTATGTTGCTCTGATAGGGGCTCTTTTCAAATTGATGTCTTATCTTTCTTACTGCCCCAAACTAGTTCCTGTTCAGACATGTTATAA + DDDE=EFBEDFE=AD@5?;=DHHHHHFGFHHHHHHHHHHFDFHHHHHHHHEFA?FCCDFFHHHHHEAFFDCEHHHHHHFHHHFHHHHHHHHHDDHHHHHHHGGF=45&9EFE @read_150_206/1 CAAAACTACGTGTTGTGCAGCACATGGTTCTGCAAGATTACCAAACATGCCCCTATGATCAAATCCAACTATGATTTTCAAAATCTTTTTGGACCTCTCC + HGGHGD>FFGEGGBCHHHDDEGGHEGHGHHEGFHEFHHHHHHHHHFHHFFHHH=CHHHGB9<6;>BEBCB;DA>A?DEDDEG=;GCGGEEEC>ACEFEA? @read_150_207/1 ATGGATTTCTGCCTAACCCTGAGGGTCTATGTTTTATGTAGTTTTAGGAGTGGCGATGCATCTAAACACATTTTATTTGTTTAATTCGTACACCTGTAAT + DDDGHHHHHHHHHHHHHHHHHHHHHHGHHHGGHHHHHHHHHHHFFHHFHFHHHHFBDFFHHHHHHHB94AHBFF=9.-8BEDEDGFDFBCEFHDBDGBGG @read_150_208/1 ATGGATTGTTCAACATCAATAATCATCAGGGAAATGCAAATTAAAGCCACAATGAGATACCATCTTACTCCTGCAAAAATGACCATAACTAAAATGTCAA + FFCDCD@:946,4>7') @read_150_209/1 CAAAACTCCACTGCTCACTTCCTGCTGTGTGGCGCTTTTCCTAACAGGCCGTGGACCAGTGCCAGTCCGCAGCCCGGGGGTTAGGGAATCTCTGTCTCGG + HHHHHHHHHHHHHHHHHHHHHHHHHFGHEA=FFEFHHHHHHHHHHEHHHHFGHFDHEFHHHHFEADE&?FFHHHHHHEH9EF3;EFHF @read_150_213/1 ATGGATTGGAAATATAAATATCTATAGAAAATGAAAAAGAAGCCGGGTGCGGTGGCTGACGACTGTAATCCCAGCACTTTGGGGGGCCAAGGCAGGCAGA + HHHHHHHHHHHGGHHHHHGGFHHHHHHHHHHHFGG677<75*AFH01:AB69,,@ACFHHHEEFHEHHFGHBDHHEDCGGHHHF=CHH @read_150_214/1 ATGGATTAAGATGCTTGACTGTGCATTGTGTATAATGGCAAATAAATATATGAATTAGTAAAACATTATGAATTATTACAGGTAAGGTAATATATAAATA + HHHHHGGHHHHHHHHHHHHHHHHHHHHA=GHHHHFAEFHH?ADEHHHHHDEHEGFFFFD=EEAF?6A;A+?4421:6-354>>A-F?D/.6A>;@FHHHH @read_150_215/1 ATGCGGAAGGGAGGTGAGTCAAAGGGTCAGCCCCATTGCCAGCCCCATGAGCTGCAGGGAAGACTTTTGCTTGTGGTCCATGAACAGGTTCCCAGTAAAC + HHHGGHHHHHHHHHHHHHHHHHHHFHHHHGGHHHFHHHFDHHHHHHHFFHGG;@F>DEHHFGCB?EHFHHGHFBHD @read_150_219/1 CAAAACTAAAGTATTTCTTTTTTCTTTTTTTATTTTTGGAGACAAGGTCTTGCTCTGTCACATAGGGCAGCGAAGATCGGAAGAGCACACGTCTGAACTC + HHGDCEEHHHHHHHHHHHHHHDGGEGGGGGHHHHHHHHHHBFHHHHHEHHHHHHHF0198DFD5:HHHHFHHFHHFGCGGHHHHDFHHFHFEEECD8D*. @read_150_220/1 CAAAACTGACAGGTCTGACTTCTGAGAAGGGAAAGTGGTAAAAGTATTGTCCAGTCCTTTTTAAGTTGGTGGCTGAGCTTGGTGAGGTGTGTTTTTAAAA + HDCBGEGHGDGHHHHHGG<= @read_150_221/1 CAAAACTGCTCCTTATATTCAACTACTTTTTAGAAAGTGATTCCTGTTGGTATCAAATCCTCCCCAGCTGGTCTTTCCAGACATTTATTTGAGGCACCAA + GHHEHHHHHHHGGGGGFHHHGGBEFFED4@@@HHHDHHHEFFHHFFC?55;;:@E<6BHDCEEEC@DEGHC?EBHHGGHHHHHHHHHHHHEDHFHGHHFH @read_150_222/1 CAAAACTTTCACTCTCCCCAATCCCTCCCCCTGAAAAAAAGTAGACTTCTCTTTCTGGACTACTTGTGATAACTAATTACCTAAGGCTGGAGTAATTTTT + HHHGGFEEEFFHHGED==>>GDHFHHHHHHFFHHHHHHHHHHHHDHHHDHHHGFFB9CBFHHHHFHHFFHFHHHEGEBD9'&2CFHHHHHFFFHHFFHHHHHHHHHHHHHHBBE:E8AAD?EEEHHHHE @read_150_224/1 ATGCGGATTGTTTCTTACTGAAAGGGAGGTTGGTCAAGGTAACCCATCACAGATTCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATC + HHHHHHHHHHHHHHFFHHHHEHHGGGEBBDGFFGGHHHHHHHHHHGGCG087019>@@=DHFF?@C+92;:H//;6.GFEFHHHH98;C@GDFHEFHDHHGFFGHHGEGFBE6F86>/),6DE @read_150_227/1 ATGCGGAGTGAGCATCTGACAAGATTCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAA + HHHHHFHHDGHGGGFGBDEBEABFHHHHHHHHHD>BFEHHBHFHHHFB5E>FFBFHFHHHHHHHBDDCE?D?9?BGGGEGFGGG?FFHHHHGGF@E>CA? @read_150_228/1 ATGGATTGGCTGGGAGGCAAGGCCCGTCTCTCCCTTTCACGTTTTTCTGCCTGCTTTATATTCGCTGGGAGCTGATTAGATTGTGCCCACCAGATTCAGG + GFFFGHHHHHHHHHHHHHHHHHHHHFHHHHHHHHHHHHHEFGFHHHDD:HHHHEEGD<3EFFEDFF9%4DFHHHHBFHHGFDCCHHHHHGGHHGHHHFGFGEDBHFFCD @read_150_231/1 ATGGATTGTGGAGAAAGGACAGTCTTTTCAACAAATGAAGATGGAGTAGCTAGAATTCTACATGGTGACAAGGTGAATTTAGACAGAGATGACACTTTTC + EHHHHHHHHHHHHHHHHHHGGHHGGGHHHFFHHHHHHHHHGEGGFFHDEEFHHHHHHHFEFDA*6CFHEFHHHHFHGDDA?;3;FHHEB7,(3389>98; @read_150_232/1 CAAAACTTTAGAATTTGAATGGGAATAGAACATATAGAACATGAACCAATAGATCTTAGAGACCATATATTATTCTCTATTCACAGAAAGCAGACTACAC + HHHHHGHHHHHHHHHHGFFGHHFFGGBD@8EHH=FHHGFFHHFGGFHHHHHHHHHHHHCC7EFEHHDABDHFF?3;@@>@AFDEDEBFHGHEFGGHHDB@ @read_150_233/1 CAAAACTAGGCTGGTGGGTTAGTGGCTGGATAATCTCGCTGGGCTTCCTCACCCGTTCTGCACGCAGCAGACCATCGGCCAGGGCTCCCCAGTTCTCCCC + GHHHHHHHHHHHHHHHHHHHHFDDE@EGD@EGHHFDE:A:FHHHGFFGEFEDDDFHCDBF>;9C?HHHHFHHFFFHHHFEFHHHHGEGHHF?DEDBFCEB @read_150_234/1 ATGGATTAAACTGTATAAACAGGTAATGAAGGGACAATTCTGTAGAAAATCCCTCTGAATGCCATTAATAGCATGAACACTTTAAAAGCCTCCAAGGTTC + HHGGHHHHHHHHHHHHHHHHHHHHHHHHFFFHHHGHF?B:CBG7?EEGGG9:@?HEEFC3EHEECHHHFB9>>+%*/.7>9CDFDDADDHHHF=@;?EEH @read_150_235/1 ATGGATTTCTGAGCAGCTGTGTTTGAAGAAAGCTAGTGGGAAAAGTTCCAGGATTACATGTCAGGAAACTACAAGAGGTAGAAACCTTTGTTGATTTACC + HHHHHHGGGGEGHHFFFFFFHHG=)BEEE@7:@5GFGHHHGHHDEHFFHFHHFE@+<>B2<84@>B4>D(5+4<>='7EFFFB?473D @read_150_238/1 ATGGATTACACAAGTGAGTTTTAATAATTTTTATTATCAAATTTCACTTAAATAAATTGAACGTAATATCTAATACTTGTGATGTCAGTTTTGTTACCTG + GGGHHEEGGHHHFHGEGHHHHHHHGGHHHHHHHHGGD@:6C:BGHHHHHGHHHFA@585D@1/AACDDFFHHFFB?@@EFDFFBHDGGGF18.'*9:-*E @read_150_239/1 CAAAACTGATCTCTTAGATCATCCGACAGTCAGCTGCCCCCAGGCACAAGGGTGAGCCCAGTCAAGATCTGCAGTCATCGGCTAGGCGTGATGGCTCATG + HHHHHHHHHHHHEEEHHHGHHHHHHHHEGGDGEFFEBCGFHHHHHHHHHHFBEDCFHHHHHFFCFFHHFEFFHHFCC5)6BFGHHEFGHHEHHHHFEHHH @read_150_240/1 ATGGATTTCAAATTAGAACTTGGGATTAAGAAACTCACTCAAAACCACACAACTACATGGAAACTGAACAACCTGCTCCTGAATGACTACTGGGTAAATA + HGGGFFFHHGGHGHBGHHHHGHHHGHHHGHGHHHHHHHBEHHHFDGGGFHHHHHHCEBFBEEHHHHEEFBEEBCDGB?5A+7<@8BFBBHFEEFFDFEFH @read_150_241/1 ATGCGGAAATGTTCATAATAAGAAAATACACAGAAAAGAAAGTAGATTTGTGGTTGCCTAGGGCTGGGGCTGGTAGGAGGGGGATAGAGAAATGACTGCT + DEEGCEEFFHHHEEFFC@CHHHHHHGHHFFEGGFHHHHHHHHHHHHHHHHHHHFGHGHHHHHHEHHA>>HHGGDEEHGGGHFHHEC@GGGEBCC5>5;@F @read_150_242/1 CAAAACTATGAGCTATAATTTGAAGGTAAATTGAAAAAAATCTTGCCTCACGTGAATTCCATTATTAATGTTGAGGTTAATAGGAAAATAACAGATGCTT + HHHHHHHHHFFEGGFGHHHHHHHHHFDGHHHGHHGFFG@BEHHGHFFHHHEEHHEFFHHHHGB19EECAA%,?@DBHHFFHHGGHH?/D5:5/*-;BCFE @read_150_243/1 ATGGATTAGGCTGAGGCGGGTGGATCCCAAGGTCAGGAGATCGAGGCCATCCTGGCTAACACCGTGAAACCCGTCTCTACTGAAAATACAAAAAATTAGC + GGHHHHHHHHHHHHHHHHHHHHHHHHGEFHGFGEEHHHFHHHEGGGHHHHHEDHHHHHFBHHHHHHHFFFFBEEEFHHHHHHHHH;@6)2%2;<>3*?BE @read_150_244/1 ATGGATTCCTCAAACAAGAAAATCACTTCTAAAGGGGAAGGAGAAGTCTGAGGCTCTCTACAAAATATTTTCTATCTGAACTAGTTTTATGGTGGTCGAG + HHHHHHHGADFFFGHHHHHHHHHHHHDC@?<70@>FEBBFGD=GGEFEHFG=CFBHGEDEHGFHGHHHHHEFFFFEGEEE=3:=GHFHH@D;>FFFDB>AFBDE @read_150_248/1 ATGCGGATTCTTTCTATCCCTATTCCCTTCTTTAAAATTCCCCAGAGTGTCCAAAGATTCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCT + EEEFGHHHFEEECBHHHHFGGGFGFGHHHHHGHGHHFFFEEBGGHHHFGGHHHHHHEGGHDE=CBBCFHFD=ECHHGGFGHHGEGCEFFFC8139+:+7* @read_150_249/1 ATGCGGATACAGCAAAGTTAGTAAAAGATGAAATATACTGTCTCCCAGATAACAGAGATTCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACC + HHHHHHHHHHHHHHHFFFHHFDCFAGEHFFFCFFHHHHHHHHHHEHHHFHHG=9:HHHHFFFHFH86/<<@::=FHHHHHHHHHHHHHHHHFAA5EEB;A @read_150_250/1 ATGGATTAGAAAAAAAGAAATATCTCCACTCTTATAGTCATTGAAGCATAATTAACAATAACCAAGCTATGAAATCAATGTAAGTGCCCATCAATGGATG + GHGFGGGFGFHGHHHHEEGFF8EEEGGHGBFFBEEFHHHHHHGAHHGGCDDEDFFFDEFBEDBFFHHHHHCC96DHHFGGHGGGAHHHHHHHHHEHGEB< @read_150_251/1 ATGCGGACTAATTCTGGAACATTTTTATCACCCAAAAAGGAGCCCAGCACCCATTAATCAGCCACTTGTGTTCTCCTCTTCCCCCTTGGCAACCACTAAT + HGFGFEHHHHHHHHHHECBGGCDBFEHHHHHHHHHEECHHHHHEFGFHHHHEFHGHHHF9CA?CHHHHED69AA>BFGGHHFHHHHH@EGC?ADHHGE/3 @read_150_252/1 CAAAACTCTAATCAATAGTAAATAGTAAGTCAAACAAAAGTACCTTCCCTTAGAGAGTTAAAAAAAGATTTGGTGGTTTGTTAGGCAACCTTCCAGTATG + HGHHHGB@@GHHH?<@;@DFEFD9EHHHFHHHFFGEEDGGDDFFFHHHHECHHHHHHHEHHEEF=6&&4:;,>EGFEEFFFBEEFFFHGEHDHHHHHHHDD64-.32DBBFHHHHHHGHHEEGFEEECDBEFFHHGFHHHFF>7=:>8DDD4 @read_150_254/1 CAAAACTAGGGACTCTGTATCTAGTTAGGGATCTAGAACAGATGGAGAACATTCACCCAGCAATATACATTTGCGTGTAGGTTCCCACACTGCTTATCAT + HHHHHHHHHHHHHHHHHHFBFCHFHHHHHHHHHHHHHHHHHHHHHHCFFEE?HHHHHHDEFHFFFHEB<;08431*)@FEDGFFFFHHHHHHHHHHE@DE @read_150_255/1 CAAAACTCCAACATGGTGAAACCCTGTCTCTACTAAAAATACAAAAATTAGCCGGGCATGGTGGCACACGTCTATAATCCCAGCTACTTGGGAGGCTGAG + FEEGD55CBFGD==@FHHHHHHEHHHHHEHGBDHHHHHFFFGFFHHHFB9>C?HHFFFGDHFEFEACDBDFFFFHGGGGGHDEB95EGDDDADFEFF835 @read_150_256/1 CAAAACTTGGTCCCAGCTACTTAGGAAGTAGGTCTTGAACACCTGGCATTAAGGGATCCTCCTGCCTCGGCATTCCAAAGTGCTAGGATTACAGGTGTGA + HHHHHHHGFFHHHHHHHHGGGFHGFGHHHHHHHHHHHHHHHDEFFHHHHHHHFHHHDHFEBEFHE5>569@)3=EHHFFFC:8>EFDADEC@=DFGGHHH @read_150_257/1 ATGCGGAGATATTCTTTGGTTTGCATCTCAGAACCAAGGGTGAAATATCCCCATTCTGGTAGATCGTTATCCCAAAATCACTTATAGATTCAAGATCGGA + FFGGGGHHHHFG@FGHEGHHHHHHHGEGHEGHHHGHHG@CHHHHHHHHHEHHHHHHHHHHFB=+/;5DECB=BEFHHHHHHEFEFHHHHHHHHEEBDED; @read_150_258/1 ATGCGGAAATAATTATAATAATAATAAAAAGAGTCAAAAAGGAGGAGAACCAGGAATGCACAAAGAAAGATACAGAAAATAAAAGTTTCAAGAAGAGAGA + HHHHHHHHHHHHHHHHHHHHHHHGGDGGGGBBDDBBGBEEHGFFFHHHHHHE?FC?E@BFEHFFBC @read_150_259/1 ATGGATTGAGAACAGGAAGGAGAGAGGTGAGCAATGGAGAGGCACACCAAAAATGGAAATAAGACGGAGACAGACCAGTATAAAAATAGGGAAGAGGTGA + FFGGGG;BDGGHHHHHHHHHHHHHHFEEHHHHHHHHHFHEEHHHHHHHHHHHBCF7?65??DEDFFFFEHFGGFCDDCBGHHHHHGEEEFGGGB@HHHHH @read_150_260/1 ATGCGGATTGCCCAAAATTCCTTGTGCAATGCCTATGCACAGAAACTTAGGGCATAAATATGTTAAGTATGTCATTCCCCCCCACCCTTCCCCTAGTTTC + HHEHHHFHHHHCHFGHHHHEFFHHFEBBFFGGGHHHHFFFHHHHHHHGEHHHHHHFF1AFFHHHBEHGFHEEEEFHHHHHHHHH:895@A<@DABGGHHHHHHHHFHFFHHHHHHHEGEEHHHHHFHHHHHHHFFF6DBAGGGEDFHHHFHHFHHD77?FGFFEHBEFHFFBDFBCFHHHFHHGDGGAEBFHFFBFHFHF @read_150_265/1 CAAAACTAGGCTCTGTAAAAGCATCCAGCAGAGGAAGCATAGGCTGGAAGCAGCGAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCT + HHHHHHHGGG@B;EEEHHGHGFFBED=CCDGF=C69;0:FHHHDDACEHGGGHEEFHDEEEFHHHFDDA==FFHFEEHHHHHHEGHHHHHHGHHHHEGGF @read_150_266/1 CAAAACTTCAAACCCAAATGCGTAGAACCCCCATTTTTATCCACTACAACTCCTTTACACCTACGTACCGTATGCACGCATGTGTTTATTACCCTAAGGG + HHHHHHHHGHHHGFEGB3)8FFEFBGGEEDCHGDE@BEHFHHHHHHHHHHFHHHHFHFHHHFHHDEBFHHEEEEB?93?EFED@B.@BGEHHHHHHFHFG @read_150_267/1 CAAAACTAAAGCACCTTTCCTGTCTGTGATCTAAGCCTATTTTTACTAATAGAGAAAGAGGCCAAGAGAAATCAAATGATCCCAGGACCCTTACCACAAA + HGGGGHHHHHFA:3.9:?GHHHHHHHHFHHHHHHHHHHHCHHHDCGHFGGGA?G@9?12@BFGGC'*(>>EDFFD?;><<9GGGFFFBGF6?BGDH?DC=C @read_150_269/1 CAAAACTATGGTATTTGTTAATTGAGTACTTTTAAAAATGTTTTTCATAATAATTAGAATAATGTTTTATTCTGGCAACAAAAGAAATATAAATTAATTA + HHHHHHHHHHHHHHHHHHGGGE8=CEHHHHHHHHEEA>B@FHHHHHHHHDFEFDADDDFBEEED@BB>FHHHHHBGFHHHHHHHGEHGHHHHFHHHEBGH @read_150_270/1 CAAAACTTCCAAGTTCACGGGGATGCTGACAACGTGTTGTCCCAGACCTACATGAAAGAAAAACGTCTGGCCTTATCCCAAACCCATTGCATACTTTTCC + HGGHDCB@@DCFFEDCDD @read_150_271/1 ATGGATTAACAAAAATAACCAACTTTAGCCAGACTAAGAAAAAAGAGAGAAGATACAAATAAATGAAATCAGAGATTAAAAAGGAGACGTTACAACTGAT + ECDFFCEGFFHHDDBFHHHHHHHGGGHHHHHFHHHHHHHHFFDHFHFDDHHHHHFFHFHA9>.=D7E4CHHFHFHHHHGGGFF?HFFFFGF>DDDHHHHB @read_150_273/1 CAAAACTTTAGACCGTTCACTTCCAGGTGATGAGTGATGTGGTAAGACCAGTTAATTCCATGGGAATCAGCCCACTTTTACATTTCCTTTGTTGTGAAAT + GGHHHE=EFHHHHHHHHHHHHFEBECFFGEE?HB?@>5''06@6=EEGGGFEHHBGHFD @read_150_274/1 ATGGATTTCATTTTATGTTCCCAATTTGGTTTCTACCACTGATGCCTCTGGCATCTTTGTGTTTTAGATGAAGACTGGGAAGCTGATGGAAGGCAACATT + HHHHHHHHHHHCCEDEA@GGEHHHHHHHHHHHDHHHHHFEFGHHHFHHHHFGEHACCDBAA7:6;FHC?BEHFFECDEEEFGHEEDFEDDCEBFGFFFDC @read_150_275/1 ATGGATTGGCCTGAAAGCCATACTGGAGTTGGTTCCAAGGAGTCTGAGAGGGGAATATAAGGAGCAATGAGGTCACTATAGATCGGAAGAGCACACGTCT + BE8FFEGGDCFGD=EGHHHHHHHFGGGDFEFHHEFC=CDD<6>?FEDC;/<*'4?DEEFFB1BFBHHFFD?EEEFHHHHHHHFBEDEEHEABFHHHHHHH @read_150_276/1 CAAAACTGGAGGGGGAGGGAGAGGGAGAGGGAGAGGGAGAGTTCCCAGGTGATTTCAATGTGTAGAACTGGGGATAGCAACTCTGAGCGCCAACCTCTTA + EHHHHGEEFHHHFHGHHHHHHHHGHHHE/19@GHG2=DFHHHHE@B8EFG@+0(1=,.BAEFF @read_150_277/1 CAAAACTGACCATTTAAGAATCTATTTTAAAATGTGAGAAAAATGTAGCTATTGATTAAACTGTGCATGATTAAGATTTCAGAAACTGAAGTCAAAGCAG + HHHHHHHHHHHFFGGE>)::<17FHHHHHHHHBHHHFEHFEFCAEFHHHHHFHHEA=FHHFHFF;6@:>:EBFHHHHHHDGD@FF>A766:;+':DC7@G @read_150_278/1 CAAAACTCCACTCTCTCGCTGCAATCTCACTAGAGACACTTGAGCAAGAACTGTCTCACTGACCCCGTCAAACCTCAGATTTATTAACAAAATTAATGTG + HHHHHHHHHGGHHHHHHHHHGGHF?CBEGGED=DBEEE67AEHDDHHHHHHHDGEHBDDEFFEHBEFHHD@C=>>*701()8EGHFFHGGHHHFHHFHHH @read_150_279/1 CAAAACTACCCAGGCTGGAGTACAGTGGTATGATCTTGGCTCACTGCAACCTCCACCTCCCGGATTCAAACAATTGTCCTGCCTCCGCCCCCCGAGTACC + GGHHHHHHHHHHHHHHHHGGHHHHDCABGGHFHFFHHHDD=EBEAEHHHHEBBBFHHG46HHHEGF?9CFEHA=78+417DB@805:;)6=CDDFHHHHH @read_150_280/1 ATGGATTGCTTTATATCCTATCCCTGTTTCTCCAAACTCAGTGATGGCATCAACATCTCTCGAGTTGTTCAAGCTTGAAATCATCACTATAGATCGGAAG + HHHHHHHHHHHEEHHHHGHHHEEHHHHHHHFFFFFGGGGFBFHHHHFGDGHHHHHHHHBHHHHD@FB<9AFEEEBGGGHHHHHHHHD5?FHHEEHHHHHH @read_150_281/1 ATGGATTCAACTGCAGCCCTGGCCACAGCCCCAGCTCTCCCTTCTGCACTTAGCACCATCTGACACACTACATGTTTTACTTAATATCACTATAGATCTG + B;BEGGGHHHDFEEFGGE@@=-84<=>@B9@FHB2ADDDFFFHHHF@C65//=FBAEEHEFHHDFFHFEFHHHBCFFGGHHHCEEHHHHHHHHE7A.;'3 @read_150_282/1 ATGCGGAAGCCCAGCCCTCACCTTACTTTGTAATGTAGGCCTGATTTCTTTCAGTGAAACCTTGACCTTAACCTTGAGAAAAATTACACCCTCAGTAGTT + GHHHHHGEEEEHHHHHHHHHHHHHFHFEHHHHHHHHFGFFEADHHHHHHA-:9>D?FHHFFHHHHHHHHHFFEBC?DDDD>67DDED@B=),3A?4@HHH @read_150_283/1 ATGGATTATATATGTGATTGGGCTCGAGCAGGTCCTGAAGGCACAAGTAAGTTACATGAGGAAGTGGCTCAAATGCCTATGGTCTCCACTCCTGCCACCC + HHHHHHHHHHGHHHHHHHHHG@BE;EGF:>B=DCAFFGGHHHHHHHHEHHHHFHH/@EEC8/DFHCGGEED7A?AB78;9CC?8863'4HHHHD5/:(DG @read_150_284/1 ATGGATTACAGAGCAGGACTCTGTCTCAAAAAAAAAAAAAAAAAAAGATTTGAAGGGAGCCCAGGGGGCAGGACTGGGTTCACTATAGATCGGAAGAGCA + HHGHGHHHHHGGEDDHHFEGHHHHHGFHGHHHHHEHHFGHHGGE@CEEED?5?>FHHHHHHHEEFHHFHHFHHHHGGFFFDFGFFDHHFFHHHHEBGFBB @read_150_285/1 ATGGATTTTTATTTTTTTTTGAGATGGAGTCTCACTCTGTCACCCAGGCTGGAATGCAGTGTCACTATAGATCGGAAGAGCACACGTCTGAACGCCAGTC + FFE/=B;A;A@CFHHHHHGGHHHHHHHHHHGEE?BGGGHHH@57:FHGGHHHHHFFE89BEHHGB8?EEE>;DGHHHHHDFFDDFD?FFFFC5&%/BEG? @read_150_286/1 ATGGATTTATTAGTCCTTTGTCACATGTATAAATTGTGAAGATTTTCTCCTACTCTGTGGGTTGTCTATTTACTCTGCTGACTGTTCCTTTTGCTGTGCA + EHHHHHHHHHHHGHHEHHHHHHEEHHHHHGHHHHGHHHEHGHHHHGAEHHHFHHFFCCHGGFFFFCHHF6@=5ECDD;-?DDDEFHHHEEDHFHGGFHHH @read_150_287/1 ATGGATTACATCATCATATTATTTTTGTTTTGTTTCGTTTTTTGTTGTTTTGAAACAGAGTTTCGCTCTTGTCAGCCAGGCTGGAGTGGAATGGCACAAT + HHHHHHHHHHHHHHHHHHHHFFHHDGGFGEFGEEEHHHHHHHFFFBDAFGE64>=@@,/6.>)*%5513@ @read_150_288/1 ATGCGGATCAGGTGATCCGACTGGCTCCGCCTCCCAAAGTTCTGGGATCACATCAGCCACTGTGCTTGGCCACAGTGAAAGGTTTTGTGTGGAGAGCATG + HHHHHHHHHHEBDEGGHHHHHHHHHHHFHHHHHHEGHGGGFHECHHHHFHHHFHFHHHHHHHH@FDD?@FHFCBFHHGGDGCC>2A?5AGFFFEHHBB8= @read_150_290/1 CAAAACTGGCCTCGTAGGTGACCAGGACATCAGAGACGAGAAGAGGAAAGCCTCGTAGGTGACCAGGACATCAGAGATGAGAAGAGGAACCCCTCTTAGG + HHHHHHHHHHHHHHHHHHEEGHHHHHHHFFBE>FDDEHHHHFHFHFEHHHFFF;E?AAFHFEDDCEHHHHBEHHHHHHHGHHDGFGHAB4&*1:8(>;EF @read_150_291/1 ATGCGGATGAATGCTCAAATGTTCAAGTACCTTTTTCTACATTTATCTGAATGATCACACAAGTATCATTTTACTTTTAATGTGGTGGAATACATTGGCT + HHHHHHH=DGADHHFGFHHHHFEGFBGGGEHHHHGFHHHHF87FFFHHHHHHHHHHHHHHEEEF>6>ACBHHFE?GEEEDEDDD2//%3%64-2&@?F=6 @read_150_292/1 ATGGATTGTATTAGGCTGACTTGTTCCAGAGGCAGCAATGAGCACAGCCCAGACCCAGGGAAAGTCTTGATAATACTATCTAAGGAGCCAGGACACAAAG + GBGGFGGE@DFHHGHHHHHHHHHHHHHHCC@DFHGGHD@@7D??HE??DHHHEDDHHFHHHD3D@HHEE:9>@)2EFGBEHHHHHHHE=CGECC @read_150_297/1 CAAAACTGAATGGCACCTCTCAGAATTTGGTAAGAGCCATTCAATTGTCAGAACTAGGTGGCATCTTAAAGGTGTCTTTTCCTCAGCCTCTGAAGTTGAG + HGGGGHHGFGGHHHHHHHGEED==:CFHFHGGGEEGGBDFGHHHFFHHHBHHHBDHHHHFHHHHHFFF<6(03((A>;@HHG>CBCFB@DEGDB*=CEDA@CFCBFHDEEFBGFFHHHHHEHHHFEEEE*, @read_150_300/1 ATGGATTATAGAAATATATCAGTAGTATGTGTTCATAAATACACATAGGTGGGAATTGAGCAATGAGAACACTTGGACACAGGGTGGGGAACATGACACA + HHEEEEGHHHHHGGFFDBFFHGGDEHHHGHDGHFA>EBFGGGBHHHEHHHHHFGEFHHEDEFHEHFDAFGFFDE@DFGG?BEG5>CBBA@CC8',>@EF? @read_150_301/1 ATGCGGACCAAACATAAACTACACTAACACTAATAGTAGCTGATGAGCTTTAAAAGTTGCAAAAAAAATCTTGTAATGTTTTAAGAAAGTTTACAAATTT + HGGGGHHHGHHHHHHHCB?CGHGGGGGEGGHGHHHFHGDEDHEG@EHHHHHHHHHHHFFFFHHHHHHHFFHHFBEFGHHHHHHHGBDF;EEDHHHHHHHH @read_150_302/1 ATGCGGATCAACCCCCTAAACCTACAGGCACCCCTGTCATAATCTGTTGTCATACTATATGCTTTTCCTTTGTAATACTTATCACAATTTGTCTTTATAT + HHHHGGHHHHHHHFEDD=EHHEHHHHGGFGFBEC9BEEFHHHEDDEHHECFFFHB?CFGHHECEFFGDGFHHHEDEHHHHC.5EFBCD2@<57@DCCFFHDAAA?EECCA?F?< @read_150_304/1 ATGCGGATTTTCTTTAGACTGTTGTGACTTCACTTGATATTCTATGCTAAAATGTGACAAAAAGAAAAAAAAGGCTTGCGAAGTTTTTAAGAAGAGAATT + HHHHHHHHHHHHHGFFFGGHHHHHHHHHHHHEEHGHFHHHHHHHHHH?BDBHGGFHCCCCD>CCCCBFHHHFEB.48C=DCBB4&3> @read_150_307/1 ATGGATTAAGAAGGAAAAGGAAATTTATACTAGTTTTGCTGTCATACCTCAAACTTTATTATTATGCATAGGAAAAACATTGTGTATATCGGGATCGTTA + HHHHHHFHHHEGGHHHHHGGGIIIGHHHHHHHHFBGEEBGDAHFFHBEHEFEEHFHHFHHE<23*;FFFHHHHHHHHHDBHHHHF?E55&*8&13BFGEE @read_150_308/1 ATGGATTACATTTTTGCATGTCAAATATATCTCAATAAAGCTGTTAAGGGCTGGGCGAGGTGGCTCACGCCTATAATCCCAGCACTTGGGGAGGCGGAGG + HHHHHHHGHHHHHHHHHHHHHHHHHHHHHHHHHGFHHHHHFHHHFHHHHFHFD?HHFGFFFBFGDFHHHHFFEEFHHHHHHHHH=C7&%AFFHHHHHHGF @read_150_309/1 ATGCGGACTGTATGGTTTGTGTTGCAAACATTTTCTACCAGGCTGAATTTTTTTTTTTTTTTTTTTTGAGAAGGAGTTTCACTCTTGTTGCCCAGGCTGG + HHHHHHHHEHHHHHHHHHFGGHHHHHHGGGHHHHHGHHHCFEHHHHFHHHHHHHHHGFHHE?CAHHHCHGBFHEEHHHHHHHHFCDDDFFHHEFDCD=6E @read_150_310/1 CAAAACTCCCGCGCCTGGCCAATATTCAATTTTTTAAACTGTTTTCATAACTCTTAAAGGTATGTTTGTTTTATAATTTTAAAAATTAATTAAATTGCCA + HHHHHHHHHHHHHD8GGHHHHEFHHHHHFHHDB?DGGGF@DDHHHEGHHHHE8>EE75A6:>EFB?EEEEBEEHHHHHFFFBEFEA>DDC2:><<<>:BD @read_150_311/1 CAAAACTAGTTGGACAAGCATGTTGTACAGTATTCATATCTTTAGTTTAATTTCAGTGTATATCCTATTGCAGTTTTATGTACAGGTGGGATTTACCAAA + HHHHHHHHFFGGGGGHHHHHHGHHGHHHHHHHHHFHHHHHHHHHHHFFDD9BDFFHHGHHHFEFFEFHHHBDECC><->AHHEHHHHFEFDD?BFFHHFF @read_150_312/1 ATGCGGACCTTTGCCTCCATGTGTGTCCCAAACCAATTCCCTGTCATCTTCCCCAACCCAAATGATTGGGGGGACTGTGTGTCTACATGTGGGCTCTGGC + HHHHHGFHHHHHHHHHGDDGGFFGGDHHG@HGBGFEE@EDHFFE6=EFFEEFHHE4+?D49;?<>2@2,7CC:9,6669.EEHH?9?HHF;=37/CFFBE @read_150_313/1 ATGCGGATACTTTCTCTTTGGCCACCTACTCACATCTGAAACCTGCTCCTTCTCCAAGAGCCTGGGTATACGACAAAGACCCAGGTCACGAGACATCCCT + HHHHHHHHFCCFEHHHHHHHHHHHHHHHBA=3:HHHHADHECFEEE=DBCEFHFF=5;BHHHHHFCD;GDEBFEGEBBFBHHHHFFGFHFDDCDD;>CFHHHHHHHHH?EEEBHFFCD @read_150_315/1 ATGCGGAACGCGCTGGTGAGACCAAGGAACACCAAAGTCAGTGAGGAGATAGATTCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATC + FFFHHHHHHHHHHHHHHGGHHHHHGDGGEE78EEHFHHFCDGHHHHFFGGFFFDHF?CFBFHFE?ACEFGGG<.'3<<BD>A?DEBFF@>CDDDHHHHHGHHHF@BFFFHGGGFFHHGF @read_150_318/1 ATGCGGATATGTTAAGTTTCAGCAAATCTTAATTTTGGAATAAGTTAGCCTTGATATTACTTTTTACCCCTAGTACATTTCATTACCATTACCCTGCAAA + HDEEFHHGGGHHEFFFHHHHHHHG=<0,?>D8@7GGHHHHHGFHHFFHHHHEGGHHHHHHHHFCGHHHHHHHHEEHHHHHHHHHHHHHHHHHHHHHEBDH @read_150_319/1 ATGCGGATAGAATTTTCTGTAGTCTACTATACATTTCTCTTGAAATGCTTCTTCCTAGATTTTTGTTTTACTTCACCATTCTGGCTTTCTTTCTGTTTTC + GGGHGHHHHHHHHHHHHHHHGB>>@EEGGHHHHHHGBCCDHHHHFHHHHFHHGHHHHHHHHHFHEF@@DCFFFGGHHFFDHHHHHHHHHHHHHHHHHHHF @read_150_320/1 ATGCGGACAAATGTGTAGCAAATGAATGATTGCACACCCAGCACTCCTGTCGTTCCTGAGATTCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACC + HH=<7905DEBFHHHHHHHHHHHHFGHHHHHHHGEHHHHHHHFEFHHHHHHFFFBBGBEHHBF?CEECDFEHHHFEEEDAHHHHFHHFFHFC93=+=DFF @read_150_321/1 ATGGATTGGGGCCAAGGTGGGCAGATCACGAGGTCAGGAGATCAAGACCATCCTTGCCAATATGGTGAAAACCCGTCTTTACTAAAAATACAATAATTAG + HHHGGHHHHHHHHHHHHHHHG?EDGGHGDHFGGHHHFAC?HHHHHC@FC?HECDFHHHHHHHHHHGHHAE?D.BFGGGGFFHGFGFHHHGFHHHHH??A/ @read_150_322/1 ATGGATTCATCAGTTTGTAAAGGCTATCTATAAGAATAATCCTTTGCCTAATATGTTTTGTTGGAAATTTCTCCTAAACTTTCCATCTGCTATCTAAATT + HGHGGGHHHHHHHHHHHHHHHHHGHHHHG7AEBBD?FHBHB:EEFFHEDDEFHHHHHHHHGGHHFHHHHDHEHHHHHHHHHHHFGFEHHHHHHFHGBA?> @read_150_323/1 ATGCGGAAAATAAATCCCTTCTTCAAGTCCCACCTCACTGGCTTCTCCAATGTCTTTTATAGGGCGAAAATGATTGGTCAAGATTCAAGATCGGAAGAGC + HHBB?FFEF@F9+5DEE?DEDDFFHHHHGHHHHHHHHHHHHHHHFHFFHHHHEEEDDFFCBFHFBFHHGGHHFEHHHHHHHHFHHHHGGHHFHHHHHHEF @read_150_324/1 ATGCGGAGAGAAACTTGTTGGGAACTGGAGCAAAGGTGATGCTTGTTATGTTTTAGCTAAGAGACTGGTGGCATTTGTACCTGCTCTAGAGATTTGTGGA + EDFHHFGHHHGGGGGHHHHHHHHHHHHHHHHFE7?=E@69=BFHHHHHHHHFHH?FFDFHHHHHEFHHFCEFHHFGGGGEDD@ADFFGHHHHHHHHEHHH @read_150_325/1 ATGGATTAACTCCCTACTCTCCATCCCCCACTCGTAGGAAACTAAGGTAAGGGAACTCATATTTACAGAGTACCTCCTGGGGTGCCAGGCACTGTGCTTC + HHGEHHHGGFH@DDC?GGHHHFGGHHHEHHHHHHHHHFHHHHHHHHHHHHHHDGFHHHHHHHHHHHHHHHFHHFHHHHEG@><;BFFFGHHFGGBGFDHH @read_150_326/1 CAAAACTCACCCAGTTTAATCATTTCTAGCTTTAAATTTAAAATGAGAGATGTGGTTCTATCTTTCACCTAAACACTTACAGGCCATTGTAGGGTTGGCC + HHFHGGGF@?HHHHHHHHHGHFHHHHHHHHHHHHHHHHFFGFBFHHHHHHHCCDBDHEEFHHCEFFFCHHEHC4=EFDDEGFGHHHHHHHEE<3<;A@@H @read_150_327/1 CAAAACTATGTTCTGTGATAAGGACAAAAATCACACTTTCTCCTACTTCTCAATATAAGTTCAAGCACTACTAATAAAGGTTGGAAAATGTGGTATTTAT + HHHGEFEEHHHHHHHHHHHHHGGHGHHHHHHHGHHHHGEEEEAEEBBEGGGFFHHHFDEFHHHHHFHFCFDFEE@DFGHHBC9-5EHFH??@DB=DEHHH @read_150_328/1 ATGGATTAGAGGATTTTCAAAGTGCTTTATCAGTACCATAACTTTGCTGAAAATATGGTGTTGCCTTCTTGTTATTACGTTTTCTAGGATGTTGCCTTTA + HHHHEFHHHHGFGGGDDDGGGHFHHHHEHHGB@GGGHHHHHHFFHEEBHHECEHFHHHHBCDDDHEDE@6'((.?FFE*&*0&*'-2 @read_150_330/1 CAAAACTATAAGAAAAGACCTATCTTGGAATTTGTATTGGTGATTATTTGCATTTTCAAAAAGCTTATGAATTTAATGGTGACTTTAAAAACAGAACCTC + GFDGGGGHHHHHHGHHHHHHHHEAFGGGHHFGFFGHHHHGGFFFFHFHHHHGGE8EFFFFHHFEHHFHH;D@FA@HHHHHHGHGHGFHFHHH>:+078EE @read_150_331/1 ATGGATTATCTTTAGAATTTTCTAAGAGAGGAATAAAACAGAGAAACAGAAGAAAATGAGAGAGTTGACTTCAGATAAATATAAAATTATCACCTTAAAA + HHHHHHHHHFFGFHHGHHHGGEG@>GHHHHHGHHB&2>FHF?HHHFHHHHGGFBG>E*CFHFFHGGF?C?F>?:FGHHHBC?DCGGHHG?ADDEFG?ECC @read_150_332/1 CAAAACTGAATATATATTTATATCTTTTTCCTTCTTCCCTTCCCATTGCAATTATCTTATTATATCATTTGCTTATTAAATCCGTATTGCCATATACTTG + HHHHHHHHHGGGHHHHHHHHHHFHHHHHFHHHHHHHFGHHHEEFDACFHCDA;ECCFECEFHHBF>9BCC@BB:EBHHHHEFFHHDF?FEHHHHHHFHHH?CCDBAHGGGHHHHDD>DDHBCEHHHEGFBH @read_150_334/1 ATGCGGACCTGCCGAAAAGGAAAAAAGATATGTTGTATTAAAAATATACCCCCAAAATGCATTCCTGAAATGTTAATTGTATCCCGAAAAAACACATAGT + HHHHGHHHHHHHHDAEBEDDGHHHHFFBFFFHHFHGGFHHHHFFFB6&,GGGHHHHHFGHBEEFEHHHFFFFBDDDAADGFFBF?:>>3GHHHHHHHHHH @read_150_335/1 ATGGATTATAAACTGCACAGCAAACATTAATAAATTCTTACAACAACTTTGTGAACTATAATTTTTATGTGCATATAGTAAATGAATCACCGAAAGACCA + FGGGBEFFHHHHHHFHHHHGFH<9D@EGEE934>>FHHHHFFFEFGFHHHHHHHHHHHHFHHHHHHHFHHF@FFFGGEGGEGFGFHHHHHC75@=9A>BB @read_150_336/1 ATGCGGAGGCGAAGTAACAGGTTTTTTCCCCTTTGGATGCATATTTTTTTCTGTTTGTTTGACCTGAATCTGGGAACTAGTCAGTCGAGATTCAAGATCG + BFFFEBDEB6<+9>=;B@BGHHDD5EBFHHHFHHBDGHHGHHB?FHHHHHHHFFEGHBDCFEFHHHFFF9=8>BAHEGEHHHHHFHFHHHHHHGF?A?DF @read_150_337/1 ATGGATTCCAAATCTACGTCTGATTGGTGTACCTGAAAGTGATGGGGAGAATGGAACCAAGTTGGAAAAAACTCTGTCACTATAGATCGGAAGAGCAGGC + HHHHHHHHHHHHHHHHHHFDGHHHDHHHHHBGGHGG;B@>CEHHH?FHHHHHHFBEEF?BFEBDA+7AHHHHHDFFFFE6=DHHHHHHHHHHHHED7*%: @read_150_338/1 ATGCGGAGAGAATCACTTGAACCCAGGAGGTGGAGGTTGCAGTGAGCCGAGATCATGCCATTGCACTCCAGTCTGGGCAACAAGAGCAAGACTCTGTCTC + HHHHHHHHFFF@>FGGB@D8@FDGGFBFEDB<1-BDHHFHHHHHHGFHCBHHFEEBEEHHHFEFDHHFEA;ECC@<5<8>9D55/61EHFAEFHHFHHHFFHHFFFGFHHGGHHHHHHGB;:2-BF @read_150_340/1 ATGCGGATGGTGCCAGTGGATTGGACGGGCTCCAGCTTCTTACTCTTAGCGACCTTGTTCTGCCATTTGATGTTAAATATAGAATGTAAGGGGCAGGGTG + HHHGFBA<:;=DEEEHHHHHHEDBEHHHHEHHHHHEFFGHHEFFHHHHHHHHHGG?DEEEEHHHHHHHFHFHHHBFDBB@FDA+:BGHHDFHHHHHDBHH @read_150_341/1 ATGCGGACCACTTTTCCTAATTTGAAATCACTGAAAACTAAGCTGTGCTTTCTTAAAGACCTGCAAACTGAAGCTAGACAACAAATTTCCAAAGCAAATA + HHHDEBCEFFBGGHGFEEHHHHHEEE=DDDGGHHHHHHHHHFEEHHDE?9:;;DHHHHFFHHHHE?FEFBD9AAFHHHHHHFHHHHHF@FHC89)=5BDB @read_150_342/1 ATGCGGATTCTTTACTGACACAAAATATTGTTTGACACCATGGTTGAAACATTGGTCTTAGGCCAACACTCTCCATTATCTGTTGTTGCCAAGCCTTTGA + HHHHHHHHHHHGGGGHHHHFHHHGGHHHEECEHHHHHHHHHHHHHFFHHFHFCHHHHHHHD>DHFHHHE?:C7EHHHHHFGHHHEEGHHHHHHHHFEEEEBA @read_150_344/1 CAAAACTCCAATAACAGACAAACAGAGAGCCAAATCATGAGTGAACTCCCATTCACAATTGCTTCAAAGAGAATAAAATACTTAGGAATCCAACTTACAA + HHHHGHHHHHEFFFADDCEEGEGGHHEBEGHFHHFFHHE@))6D=EGHHHFFFFEBE@?5ACEHHHFFAA=EHFHHGGFFHHHHHFHG@DFHEFHCEFHH @read_150_345/1 ATGCGGACTCATTCTGTTCATCTCTCAGATCAGTGCTGGACCAGGGGAAGGCACCACAGAAGCTACCTCCTCTCTCCTTTCAAAGATGTGGTGTTTGTTT + HHHHHHGHHHHHHFHHHHHHHHHFBEEHFABFGGEHHGHFDGBHHFHDDFFHHHDEEGEHHHHHHFFEDE>?AC@9:.--@D?))?EH5))6;99BDEDE @read_150_346/1 ATGGATTGTGTGAAGGTGGCCAAGAAGTTGCCCCAGGCCCTCCAGCGGCACCCACCCTCCTCCAAACACATTCCTTACACCCAGACACCCACCCCTCAGG + FFDGHHHHHHFHHHGHHFHHHFDFGFHHHHHHD89FGGEEE@:2;>9FCEGHHHHHGHHHFEHHGFHHHHHFEDHHHHHEEFFFHB9BHHHFHHHHDECF @read_150_347/1 ATGCGGACAATAAAAATTCACAAAACACAGGCATGGATAAATTACGGCACGCCAGCTGGATAAATATACCACTGAAGGCATGATTTTTCAAGATTGTATT + GGGGGEGHHEGHHHHHHHGHHGHHHFHFHHH=BC@HHHHHHHEHHHHHFHHHHHE?GFFGHHHFHHFEDHD@EBFBB6;:A>EEBHHHEFHEDDDFFHFD @read_150_348/1 ATGGATTGCTTGTCTAAAGCTGACTAATTATTAGAATTTATTTATAAACTTCCTGTGATGATTTCACTTGCCAATCAGCCCCTGCCTTCTTTCAGCAATT + HHHHHHHHHHHHHHHEDHHHHHGHHHEEGFHHHHHGGFFHHHHHHEHHHHHEGADCFFB/DHHFGHBBFFHEEFFGGGGGHHEFGHHHHFGFFFHHHBBE @read_150_349/1 ATGCGGACCCACCGTTGGACATTTAGATTGTTTTCAATGTCACACAAATAGAAACAATGATGAAACTGATATCTTGATGCATAAAGCTTTTGCTGTATTT + HHHHHHHHHHHHFHHHHHHHHHHHHHHCAF5EHFF5CBE@ @read_150_353/1 ATGCGGACTCTGCAGCCATAAAAAAGGATGAGTTCATATCCTGTGCAGGGACATGGATGAAGCTGGAAACCATCATTCTCAGCAAACTATCATAAGGACA + HHHHHHHHHHHHHEGHHHHHHHHHHHHHHHHHHHHHHHHHHFFDFHHHHFHHHHHECHHHHD;D@ABBHHHHEEFDHHGHHHHHHHHHFHGHFHHGFBFD @read_150_354/1 ATGGATTAAAGGCACATGCAAATGCATAGATTTATTTATTTAGATTTCAATTGAAATTTTTCATTATGTTTATTATTTGTAAACACAGGCATCTGCTTGG + HHEEGGGGGHGHHHHFHGGGFHHHHFHHHHHHHHHHFHFFHED?DDBFHHHGGFFHHHFBGGBFFEEFGEFHHFHFFHFFEEGEEGGHHFBHHHFHEFFH @read_150_355/1 ATGCGGATTCTGTCCCTCAGTGCCTAAGACAAAACTGAGGCACATAAACTGACAAATACATGTGTATCTACAAGGGTAATGGGGCAAAATATTTTAAACT + GGDA6B@FHHHHHHHHHH@>DHHHHFFFFFDEFHHHHHHHHGHHHHFHFHFHFGG5>+?8EGBHHEEEEFFHHHEGGEE@:@D@ABDHHHHGHFBDDEEFBD?EHGGFFE@8@57>@:F@39>.6=CHHFFHGDEFFECCB?HFFDFEFFCHHHHHHEHHHHHFCGHFHHHCA @read_150_358/1 ATGGATTGTAGGGACCCAGAATTTATAGAATAAAGGGAATGTCTAACAGAGATCTCGGGGCAGCAATCTAGCTGACGCTCTCTCCTATGTAACAAGCAGA + HHHHGGHHHHHHHHG@ADDHHHGBBFFHHHHHHHHHHHHHHHHHFD3A>HHHHHEEEGFHHHFECGGGGGB;6;FGFFBAFFEB>ADFFHFHFFE?BBBB @read_150_359/1 ATGGATTTGAGATTTGGGGATTACTTTTTATGTGGCATCATCACAACAAAGCCTGACTAATATATTGTATAAAGTTAATTGAGTACTAACAACATAAGAG + HHHHFFGHHHHHHHHHHHGHGHHHHFF=2GF@360D?66@?DFFGFGGFDHFHHHDEHHFHHHHFFFFD???;,8043&0&,5-(26EGEGF<8%%')77 @read_150_360/1 ATGGATTCACTGAGATGTTTATGTAAAGTTAAACATAAATCTAGCCTATGTGCACATCCAGGCACAGCACCTTTCCTTAGACTTATTTATGACACAGATT + HHHHHHHHHHHHHHHHHHHHHHGHHHHHHHGHGDFHHHHHHHHEGFED=FHHHHHFFDGFGFFFF@:?DDFFEHHHGGGGGHHHHHHFF>CFHHGHHHHB @read_150_361/1 CAAAACTTATTTTATTCTCTTTGCAGTGGTTGTAAATGGGAGTTCACTCATGAATTGGCTGTTTGTCTTTTATTGGTATATAGGAGTACTTGTGTATTTT + GGHHHHHGGHHFEEDHFFBHHHHHHHFHHHHHGGBGGGC>>DA>DEEHHHEDDFHE=HHHHHHEFHHHHEE?FEGE:1<6CE@EEECBFEEHFFHHGHHF @read_150_362/1 CAAAACTTGGCAATTTGACCTGGATCTTGAAGGATGGTTAAGATTTACAAGATGGATTAAAAGATGGGGATAAAGGGAAGGGATTCCCGGGCAGCGAAGA + HHHHGGGHHHHHHHHFFHB>GDGHHHHHHGGGHHHHHFEFHHHHHHHHHHHHFHHEHFCFFHHHCFCC255@.EED?2::EFHFGFF<DFHFHHHFDBDBFHHHHHHHHHGHHHHHHFHHHFFCDCEEEEHG @read_150_365/1 ATGGATTTTGTATATATAATGTGATTTCTAATGCTGCATTTAAAAAATTTTATTGAAACACCTTGTCCTTGTTTAAAATTTTTAAAATATAACCAAATGA + HEGEEEFGFHHHHHHHHFHHHHHHGEHHHHHGFG>+:,47DEDDHHGFHEAFGHHHGEGHHHHHFGBEGHFFHHHE @read_150_366/1 ATGGATTGGGCGCCCCTCCCCCAGCCTCGCTGCCGCCTTGCAGTTTGATCTCAGACTGCTCACTATAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC + F8<>=GHHHHHHHHHHHHHHHHHHHHHHGHHFHHGHHHFEFBGGGGGGEDHHHHHHEGHEHFHHHHHFHHHHHHHHHHCCEHHHHHHHGHHHHHCGEHGGEHHHHHHHHEFFEHHGGG?FHHHHHHHHH<;65EAE98ACEHHHHHHHEHHHHHH@EHHHHHE;9 @read_150_368/1 CAAAACTGCATGGGGATTAAGCCCAGGAAGATAATTACCAGAATATCAGACTCCAAACCGTAATCACATCTATTAAAAATGACACGCGGCAGCGAAGATC + HHHHHHHHHHHHHHHHHHHEGHHHHHHHHHHHHHHHHGG@FFHHHHHEHHHGDCEEFEDCHFGGFEHHHHHFHFDEE<8.BD;;8+@CDEBFGGGHHBBC @read_150_369/1 CAAAACTACAAACCCCAACTGAGGGACATACTGACCTGCAGTCTTCAAGTGTCAAGATCGTGTCAAGGAAAGACTGATGAACTCTTCCAGATGGAAGAGA + HHHHHHHHHHHHHHHHHHHHHHHHGEGBGHHHHFGHHHHHHHHEAEA>*3)=3+-;>>F@@DDDHHHHHHHDFEDHFHHHHHHHFB;EEFHHHEEHGD@? @read_150_370/1 ATGCGGACTGTAATTCCAGCTACTCGAGAGCCAAAGCAGGAGACTCGCTTGAACCCAAGAGGCAGAGGTTGCAGTGAGCCAAGATTGTGCCACTGCACTC + HHHHHGHHGFFFFHHHHHDBA?B?AEGHC8/*'1(1<*135>FG8=DHEEFFHH@;AEGH @read_150_371/1 ATGGATTAAATCTCAGCAATAGAATTGCACAGGTAAAGAAAGAACTTCAGAGCTTGAAGACGAGGCTTTAGAATTAACCCAATCTAACAAAGACAGAAAA + HHHEGFFFGGGGGGFGGGBEBGFFFFHGHHHHHFFHHHHHHHHGDEGECDDHFHHHHEFEFFHHHHFDFFE?6>DGGGGHHHGGGHHHHHHHHHHGHF?E @read_150_372/1 CAAAACTCACCTTGCCCCACAGCCCCTGACAGGCCCCTGTGCGTGATGATCCCCTCCCTGTGTCCATGTGTTCTCATTAGTCAACTCCCATTTATGTGTG + HHHHHHHHHHGGHHHHHHD=GFFHGHHHHHGGG=@@DCDBFHFFHHHHHHFBEEF59DFCFFD2-:;FFHFBFFGHHHFGC@@EFHHHFFGGGHEFFBCH @read_150_373/1 ATGGATTTCCCCACGTCCATGTGTTCTCATTGTTCAGCTCCCACTTACGAGTGAGAGCATGTGGTGTTTGGTTTTCTGTTCTTGTGTTAATTTGGTGAGA + HHHHHHHHGGHHHHHHE@@B=BDFEGHHHHGFF=DDCFCEE?CCEFFFHECHHHHEFFHHBGGHFHHHDDEBA@@(*97&5BI?=6>95&(15();A<6@ @read_150_374/1 ATGGATTGGTCCTACAATTCAATGTATTTAAAATCTACCATGCAATATTTCAATATTTCTACAAAAAACTTGACCTCCTCTAATCAGCTCCATTCCAACA + GHHHHHHHHHGDEHHHHHHHHHGHHGEGGDHDHEFHHHHHB>7>7*7@EA2EEHHHHHHHHHHHHHHHFHFFEE8=@@<,8DEHHHHFHHHHBGFFEEHB @read_150_375/1 ATGGATTGGGCTTTTTAATCACATCAGCTGGCTTGCTTTTATTTGAAGTTATTGTAATTTCCATCTTCTTCATTCCTCCTTTTAGCCATTCTCGATTTGA + D?CGFEEFEHHGHHHHHHHH??BDDFGD=G=FEGHHHAHHHHHHHHHHHHHHHDCEE9DFFFCFDGGGFHFFEE401'+EHHHB=?EFHHHHE6.;@C?H @read_150_376/1 ATGCGGATAAGTTCCTCTTGACTGCATACATGCAGTAGTCAAAGATTCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACGTAATCTCGTATGC + HHHHHHHHGEGGGGHGGHHGHHHHC>/@FFEFHHFHHHFFHHHGGFGGF;<@@=-65EEEFDHHGDHFHHFGGGGHHHHHHF=FB5)+%/ED67@EFFEH @read_150_377/1 CAAAACTCTGCCTAGGCTGGAGTGCAGTGGTGTAATCTTGGCTCAATGCAACCTCCGCCTCCTGGGTTCAAGCCATTCTCCTGCCCAGATTCTCAGCTGG + D=GGGGGHHHHHHHHHHHHHHHFB>EGHHECGGGHHFEEHEFHHHBEHHHHHHHHHHHGFFFHHHFFFFEBFFEEHHH?GBDEDHHFCDCA=@GHEGEHH @read_150_378/1 ATGGATTCTGAGGCAGGAGAATTGCTTGAACCCGGGAGGTGGAGGTTGCAGTGAACCGAGATCGCACCACTGCACTCCAGCCTGGGTGACAGAGCAAGAC + HHHHHHHHDD55@FHHHFGGFFHHHHHHHGGHHFGGGGFE8??DGGFHHHHBFEDHHHFHHFHHFA2;>GHHHHHHGFGHHHFHHHHHHFHHFE@EFHHHHHHD79'BC9/89'/-7.3@DFFGAAADCBGDD?;,6CHFFEFH @read_150_380/1 ATGCGGAACAATCATGTCGTCTGCAAACAGGGACAATTTGATTTCCTCTTTTCCTAATTGAATACCCTTTATTTCCTTCTCCTGCCTAATTGCCCTGGCC + HHHHHHHHHHHHHEFGGHEGHHHHHHHHHHDDHHHHHHHHHHHHHEG?HHHFHHHHHHHHHHHHHHCDDFFDFBF797*2-3CBFDEEGGGGGHFDFEHHGC7;0%%. @read_150_383/1 ATGGATTACTGCTCTATGAAAAGAAAGGTTAAACCCTGTGAGTTGAACGAAAACATCACAACGCAGTTTGTGGGAATGATTCTGTCTAGTTTTTATATTC + HHHHHHHHCC97<8GGGBABB3=B>;:; @read_150_384/1 CAAAACTGTTATTTGTGTCCTTTTACTGTTAAATTGCAAGAGGAAAGTCTTTTTAAGGGAGCAAAAATAATATTTGTGGGGAGGAGACAGCAAGCAGCGA + HHHHHGHHHHHFFHHHGGGGHGGHHEHHHHHHHHHGEG@=DFHHHE>=BFHFHHB3);%87<*D@FHHHHHHHHHHHDGGC.6>9BGDEFEE;>:@C7(- @read_150_385/1 ATGCGGAAATTTGATCACTGTATTTATGATGCCACTCAGCCAATTAGTAGGAGATCAAAGACCAGTTTTCATTTTCTGACTATGATGATCTGTTTGGTTT + HHHHHHGGFHGFHHHHHFFFHHHHHHHEGHHHHHEGHHHHHHHHHHHHDHHHHFFGHHHH?CDHDDHHHHFFFFFHHEGGHHFFHHBC93BHFFHGGHHH @read_150_386/1 ATGCGGACCTTTTAATCTCAGTCGGTGAGTCTTATTTGTTTAAAGTGCTTTTGTGGTTGGTTGCTTTTGTGAACTGACCTAGTTTATTAAAATGATAATA + HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHDDGGFFHHEFG?DE:29.EFHHHEHGHHGEBAEEHFBFFC;ADDEFEHHHHHHGHGED?E<8DDEFGFGF @read_150_387/1 ATGGATTGCCTGGGCATACCTCTGTCGCACAGCCTAGGTTCAAATCCTGGCTCTGTCACCTAGCGCTCTGCAGCCTTGGGCAAGACACTTCACCTCTCTG + HHHHHGGHHHHHHHHHHHHHHGHHHGEEEH>@FDEGCFGHHEHGHHHFHA1,=CFHGE@ @read_150_388/1 ATGGATTGGAATCTCAGATATCACTATAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAA + GGFD@FHHHHHHHHHFEHHHHHGGED=BHHEGGGHHHHHHHHHHFGF=;FFDCFEBFHHHHHHFHHHHHDFHHHHHHHHHHHHHHEEHHHEE=BD=FCEF @read_150_389/1 ATGGATTTTTTGCCTTCTTATTTGTCAATACTCTTACTCTGGATGAGTCCTACAGTTTACTCTGTTTGTCACTGATACCACAAACTGAAAGTTCCAGAAG + HHHHGEFHHHHHHHHHHGGHGGGDFHHHHHGHHHHHHGHHBEHGGGHHHHHHFHEEDBBBBFHHHFBDFHE?DED=?GGF/-:1(:8DD@CD=FHHHHHH @read_150_390/1 ATGCGGATTTTTTTTGAGATGGAGTCCCACTCTGTTGCACAGGCTGGAGTGCAGTGGCATGATCTCAGCTCACTGCTGCCTCCGCCTCTCGGGTTCAAGC + HHHHHHFFHHHHHHHGGHECGGHFFFBGEEGHHFFEFHHH7@@BFCCDFHHHH?FHFGFHHFFE/-?HH@BBEEDEEBBF;>63**=>>EE=DA50:64CFHBFFFFHHHBDDCHHHHFDHHHHHHFFE:4EGHHGHEFED>=BBFFFFH @read_150_392/1 ATGCGGAGTGAGACCCTATCTGTACAAGATTTTTTTTTTTTTTCCATTAAAACAGGCAACAGGGCCATCTAACTGGAGATTCAAGATCGGAAGAGCACAC + HHHHHHHHHHHHFFGEFFGFHHHHHHHHGFBBGEFHHECDBCGE+BFFFHHHHHHHHHHF@D@E@DF@?E?)=CCEEEEEGHCHHFDHGGHHG@@A@BFH @read_150_393/1 ATGGATTTATCCCTGTCCTCATGAAGCTTACCTTCTAGTGGGTGAAGCAGGTAATAAACAATATAAGTAAGTAAAAATAAGTATGTTAGGTACTGGTTAG + GHHHHHHHHHHHHHHHHEF=F@8EHHHGDD2>9A=HGCC?HEHB;4?CF;EHFHHHHHHHHFFCB?FHHHFFE=2>=BCFFBE??31-3.9FHHF.A>:; @read_150_394/1 ATGGATTGCTTGGCCTCAGCGGGCCATGGGAGACCCAGGGAAACGACTCTAGTGTGAGGCAGTGGTCCTGCCAGTGACTGACAAACCCTCTTTGTAAGCA + DDDFFFBB=;DBFHHHHHHHB-DGDDGFGHHHFBEHHHHHHHHHHHEFHGFGGGFHHFDBFGBEHHHEEEEFE>HGGGFGHHHFF;CA88DEEHFEFFBHFBHE@,8CD?D@DGGD?BEFGHHHGC @read_150_397/1 ATGGATTCTCAAATCATATTAGAATCTATAGATATGCCTCTGTTATAACAATCCTGTACCCACATAAAACCTGCATTTTTAATAGGAGATACAAAGGTAT + HHHGFHBGGGEHHHHHHHHHHHHHHHHHFGDHHHGGECFHHHHCBFDEGGDHFHFHHGFHHHHHEHHFHHFEFFFHHHGBHFFEEGHHHHHHHHDFFE;E @read_150_398/1 CAAAACTAATGTCAAGTAATTATTCATTAAATGAATGAAAAAATATTATTCATGTTATTCATTAAAGTATCTAGTGAATCCATAGGCAATAATTTCCTAA + HHGGGHHHHHHHHHHHHHEDD9=GEGHHHHHHHGFF@=1@@CDDDEFDFDCEBFFHHBHHHHHH @read_150_400/1 ATGGATTTCATTGTATTGCTGTCTATTTTACCCTTCATCACTATAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCT + GHHFEE;@=FEGGHHHEHHHHHHHHHHGEEB=D=3E<2'1FHH??>CHHHHHFHHHHHCEHHHHFHHFHHHHHHHFFGGF>DHHFC6E:?@-2BF4)*/1=*1,6 @read_150_402/1 ATGCGGAGCCTGAGTTTTTCTTCACTTCCTGGGTTTGTTTTTGTTTGTTTGTTTTTGAGACGGAGTCTCGCTCTGTCCCCCAGGCTGGAGTGCAATGGCG + HHGFGDEHHHHHHHHHHHHHHHHHHHHID='?HHHHGHHHHHHFFBEDEEA:;,)/*9EBCFHEEEEFD@D765ECGGFEGGGHHHHHHHHHFFFEFCCB @read_150_403/1 ATGCGGATTCAGAGCTGGAGCAGAGGATCCCCAGGAGGCTATGACAACTTCACAGGCACCCCCAGTGCCTTGGGGATCACTTGATAAAGGTTCAGGAGTA + GEFBBFHHHHHHHHHHHHFFHHHH?AEEHHFD6439AEFHHGFFFFHHC?FGGHHHHFHHHGHHHHA:0<1*:?EHHHHHHHGE@.3+,-<=DDCFF?=B @read_150_404/1 ATGCGGACCCGACCCAAATTGACAAACCTATACCCAAACAGTGCTCTGAACCACCTACATTTCCCTGCTTGGCTCAAACTCTCTCTCTCTGTGTGTGTGT + HHHHHHHHHHHHHHHGGGHHHHHHHGGGGGFFGHFGGHHEHHADHHHHHHHHHDCEGGHHHHHF:>>;>@DD773?AEADBFHHHHFBF:7.=?GFFFFD @read_150_405/1 ATGCGGAGTTGAAGGTCCCACCGTGTCAGGCCCTCTGGGTGAAGATTCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGC + HHHHHHHGGHHHHHHHGG=DGGHFHHHHHHHHHFHHHHHHHHCCFEBFHHGFCBB8==DHHHHHHGEDAFFHHHHFEGFFH @read_150_408/1 ATGGATTAGATTAACTATGATTCACTATAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAA + HGEDB09DD?D<>64:5>?HGHH? @read_150_409/1 CAAAACTTTTTTATCCTCAGCCTTTCCGAATTTGCTTATCAGTTCTAATAGGTTTTTGGTAGAATCTTTAGGTTTTTCCAAATATAAGATCCTATTGTCT + EGGGGEFEHHHHHHHHHHHHHHHHHHHHEBGDFFGHHHHHFHGGGGFHHHHEEBDFHHFEEEGBFHHHHHHHHFFGGGGDHHHAC?:F7GADEBEFFFHH @read_150_410/1 ATGCGGACCTGTAATCCAAGAACTTTGGGATGCTGAGGCTGGTGGATCACTTGAGGTCAGGTGTTTGAGACCAGCCTGGCCAACATGGTGAAACCCTGTC + HHHHHFGHHHHHHHHHHFHGHHHHGHHH?EGBEEGHHHHHHHHHHHHEEBDGHHHHHHFC?FFFFHHHD:6'2CEHHGHHHHHHH?EBCEAE=B=EDHH@ @read_150_411/1 ATGCGGAAGGTTCCAATGCGTGGAACCTGTAAATATTGCCTTATTTGGATAAAGGGTCTCTGCAGGTGTGAAGATTCAAGATCGGAAGAGCACACGTCTG + HHHHHFEHFHDCGHHHHHHHGGGGGCBCD@EFFFEHHHEB5DFHHGGF2:@EDFE?3.,C>DDDHFHHFDEHHHHHHHGHHGHEEHGEGGGHHHFHHHGE @read_150_412/1 ATGGATTATAGCCTGGGTGACAAAGTGAGACTTGGTCTCTATCAAAAACAAACGAACAAACAAATTCATTCCTTAAATCACTATAGATCGGAAGAGCACA + G8@@>8/@GFEDDHHFEDBBC@?DBGGFHHHHHFFFFEHHHHHHHHHHHFBEFFEC?4;?AFHGHHHHHHHHFHG=;7DHGGEHHHFHHFD>>9CHFFEBGGEEEEFFBFBBA<>56(62@:9 @read_150_416/1 ATGCGGAGTGAGGGGGCAGGAGCTTAAGAAGGCCATGGCCAGAGCAGCACAGAATTCAGTGAATACTCCAGGGAAGGGCGTAGCCTTTGAGATTCAAGAT + HHHHGGEDHHHHHHHFDEDB5ADEEEEHHHHHHHFDHHHHHHECHE6FHHEGGHHHHHHDB38=9FF@:.('*3C?@:>:1*DFADHBFEHGHHEFEFGG @read_150_417/1 ATGGATTAGGAACCACTGAAGATTCAGAGCTAGGAAATCTGATGAGAAGTAGACAGCGTGGGAAGAATGAATTTAACAAAGTTACAGACCATGCCTAAGA + HHHHHGGGDDE:<9FFGHHHHHHHHHHGBB;@EHHHHHHEFGGHHHDBEDFHHHHHHHFFCAE955EEHHGGGHHFHHEHHH @read_150_418/1 ATGGATTTTGTATTAATCAAAAGACCATTACTAATTTCAGGGAAGCCTCTTGATTCACTATAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCT + GGGFEEBA?;@=FBF9>CGGHHHHHHHHHHHHH2?FB8>>:7EEHDFGFFGF<@DFBDCBFHHHC.DFFFFF @read_150_422/1 ATGGATTAAAAACCAGTGCCAGGGCCCACTACAAAGGTTTTAATCCCCTTGTTCTTGAGTGGGGGCCTAGGCATCATCATTTTCCAAACCTTTCTGGTTG + GGFEGHHHHGHHHHHHHHHGHHEFFGHACHHHHGFHFHFEHHHHHHE>DFGHHHHHHEGFHFHHAEEFDEDFGFEGGD:?C74EFGGGCBBFC>DHHFBG @read_150_423/1 CAAAACTCAGCAAATATTTTTAGATAAATAAATGGTCTAGGACAAGTTAGTAGAATGTTTTGAACCTCACTTTCTGGTATGTAACATAGGGATACCAATA + HHHHHHHHHHHHHHHHHHHHGHHHHHFGGHHHHHHHHHHGHHGGE587-<0(?CEE;BC2)/7*@FAAD;:>>69EGG;BEHEGG?EA79BDEF.6AHEHFHHFHHF;<>G,8@AAFFGGG<)%''%/5@,:).,9DDC59 @read_150_425/1 ATGGATTAGGAGGAGATGGGAGCAAAGGTAAAATGCGGTAAGTAGAAAGATGGGGCCCAGTGCTGGGGTGGAGAGAGCTCTTGGAGAACTGGGTGCATAT + GFFHHHHHHHHHHHHCCEHGGFHHHHE/'-4:EEBFE@GFHHHFHHF;-=886352::*=BFHHHHEHHHFFECBGGGFHHHHFGHEFHHHCC3)4=CAH @read_150_426/1 ATGCGGAGTAAAACACAAAAGGCCACTATCACATGTAATTCACCAAGACTGAATTCTAGAATTATAATACAACTAAAACAGTCATTTAAGTTTCATCATT + HHHHHHHHHHHHHHHHHHHHHHHHH7>DCDFB?DD>:BHHHHHHHHHHEGGA:DEE?FEHHFHHHHGBHHC>DDDE77ACBGGC>?BDDBDHE?EEECBFGFFHHHF<=>+@BEC/3>6=@>?F=FHHHHGFD7,,;F @read_150_429/1 CAAAACTCCTCATTGGCGCTTCCACGGATCATCTCCAAAAAAACTACTTGTATCCAAGTGTTGCAGCGAAGATCGGAAGAGCACACGTCTGAACTCCAGT + HHHHHHHHHHHHHHFGHGHHHFFFGHHHHHHHHHHCDDFGGGE:<@ED5DCE?CEEHHGGA9>D@BEDCBDEEDCEBFFFHHHDDEEHHB=CA@C?EED9 @read_150_430/1 ATGGATTCTATCATCACAAGTTATTCCCTCCGGCCGACCCATCCTGCCGATTACCACCTGGCCTGTAGGTTAACTTCATGTAGCCAATTCTGTGCCATGA + HHHHHHHHHHHHHHHGGEDCFFGDF?=GCHHHHHFEFFFFHHHHFHHGGHBD:D=7>CFEHHGHC88?EEFFFHHHGGA=CFHHHHHHHHDEGFFCBHH@ @read_150_431/1 ATGCGGAAGTTCCTTGGCTTCTACTGATTTCCTTTTCTTATCCTGGACATTCAGGGCTGGCTTGGAGAGACCCGGATTAGAAATCTAGAGAAGAAAAGAG + FFHHHHHHGFHHHHHF@@/DDAGGGGAHDGHHGFFHGHHHHHHFFFFFE+:?FHHHHHHHHHHHHHFBHHD76D?EHHGHHHHFCE?HF=EHHEEGD7AA @read_150_432/1 ATGCGGATGTATGGTCTGCAATAAAATAAAAATATTAAATTTTTACTATCTGCCCATTTACAGAAAAAGTTTGCCAACTCCTATTCTAGACATCTAAAAG + HHEEDHHHHHHHHHHHHHEHHHHHHHHFB?FHEHH?@:B:+.EFHFHHH?HHHHBHHEF=?DBEBEFFHHHHHEBHHHHHHHEHGHGFHHHHGGGFBDFH @read_150_433/1 CAAAACTGATGCTAATGTAGCATTTCATGAAATTCAACAATCTTTTGGATTTTTAAAAAATCACACAATAATTTAGTCATAGATAAATACTTCCTTAACA + HHHHHGGGFDCBEF9FGHHHHHHHHHGH.CB@;8EFFHHHHHHHFHHFHGGGG<+6EC>4CDD@E@>CFFHFFDA@C=;9B?D=B?CC?@FCFD@FHHHE @read_150_434/1 ATGGATTAAAGCCAGGCCTGTTGGTGCACATCTATAATCCCAGTTACTTGGGAGGCTGAGGTGGGAGTATTGCTTGAACCCAGAAGGTCAAGGCTGCCTC + BC?GEHHHHHEBE<@EGGGHHGGE/FHHHHHHGHHHHHHHHHHDHHEHHFHFHHHHEFCC6D??HHHHHHHBDEHFGGGFEHHHHGGGFGG<(152%'+9 @read_150_435/1 ATGGATTGAGAAATAAAAATAGAAGTATAGTGTGATGAGTTCTGTGGTCAAGTTCTGTGTTGGGGGACATGGGAGCAGCATGGCAGAATCACTATAGATC + DCFFHHHHHHHHHHHHHHHHHHGFHDHHEGHGEEHHHHHF==DFFC>CCHEHHHGADHAHHFFBHHHFD:AEFHDHFEHHGHHHHHHGGGE>DDGGGGGE @read_150_436/1 ATGCGGACTCCTGGGTTCAACCTCTGCCTCCGGGGTTCAACCTCTGCCTCCTGGGTTCAAGCAATTTCCCTGCCTCAGCCTCCCAAGTAGCTGGGATTAT + FCCD=EFHHHHHHHHHDHH/DCHGDADDB<<%GHHHFHHHEB7>DFH?A;FB@CFFF?==DCDBGEHHHHHHHHEFD?;D+7@EHHFGEHFHHHHHHH@::?EFHH @read_150_440/1 ATGGATTAGTAATTGTTTTATAAATTTGGGAGCTCCAGTGTTAGGTGCATATATGTTTAGGATTGTGATATTTTCCTGTTGGACAAGGCCCTTTACCATT + HHHHHHHHHHHHHFEBFGHHHHHGHHGGGGEE;<FE6?DGGGGHDG=)9<35>FEFFHFFGG5 @read_150_441/1 ATGCGGAAGAAAACCCGTCATGGTACGGATGTATATCCAGGGGAGACACAAGATGTCATGGGAGGTTCCCATGGGAGGTTCACAGGATTTGAAGGACGGC + HHHHGGHHHHHHD=GFGGGGGGGHHHHEHFC@EBHHHGGFHHHBHHHHFHEF=EFHHHEBF???EC?1AB;@2/-,6:=BGFHHG?338BGEFHHHHHHHHHHHHGE<48:CAFDBEH?DDA@DFBCBFFFFAEFDEEHHHHCHHHHFGGEBB @read_150_443/1 ATGCGGACAGCATCAGAATCCTGTGGACGGCAAGCCCAGGTTTCTGAGCCCCACCTGGGCCTCTGACTCAGAATTCCAGGCATGGGCTTGGGAATCTGCA + HGHHHHGGDDHHHHGGHHHHHHHHHHHFGDDCFFEBCEHFEGB.,?DCFFHHHHHHHGGHHHHHHEHGFFHHCEHE;ABDBE?.&,@D;',<@;BHHHDFHHHHHFHHHHFGDEFFHFFC?34,85@DFCCEEHHAFHFFFFCEE%,;BBF=CGGFHHHHHHHDEFDDEFEHHHFEB33)5;CF?8@6AFHHFAC;FFBDDHGEF@D?D38B?BEHA= @read_150_447/1 CAAAACTACTAGCGAACAGAAGAAACTGAATGTTGATGATTAGATGGGTTACAATGACAAAAGACCTGGCAATTTAACAAGAAGGCATCTTCTGTAGGGA + HHHHHHHHHGGGGHHHHHHHHHHHHHHHGHHEEF?FEFHHHHHHHHFFHFHHGGGA?FFHHDGHHHHHHFFFFHFGFEDGHFFGG;+0<5>B@BEFGGHG @read_150_448/1 CAAAACTTATGTGTTACATGAATGTAACATATAATTAACACAACTATCATTACATTTGCTGTACTATACTTGGAATAAAATAGCATTTGGACAAACTGGA + HHHHHHHGGGGGGFEB>C@DFHHHEDFDDDCA@B@DEEF>E?HHHHHB82DCHE=EEEFFHHFFHFHHHDCBEHHEEGFHHHHG?BCFHHHHHDDFDECF @read_150_449/1 ATGGATTGGTGCTATGCCGCCCGCTGTCCTGGATATAGTGAATGAGCAGGGCTCGGAAGTAGCCGCTGTTAGCAAACAAAATGTTCCTGTGGGCCTTGAA + HGFFGGHHHHHHGGBEFHHFEEEE8=BCDECDDHHHHEFEHHFEE557=FFB=>BDEEFHGEBHHHFEDD?D@9DHHHHHFFEHHHHHGGGHHHFD>?:@ @read_150_450/1 ATGGATTTGAGAGAAGAGCAGATGGAGGGTTCACTATAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTT + HGHHHHHHHHHHHHHHHFCCDGHHHGHHHHHBB>FFCHHHHGEFFDEEAD@DCEFHHHHBGC55?HEHHHHHHHHHHHGBCGHBFHFDBEC9@DFHHHHH @read_150_451/1 ATGCGGAAAAGAAATGTTCAAATCTGTGAGTTGAATGCAATCATCACAGAGAAGTTTCTGAGAAGGCTTCTGTCTAGATTTTATGTGAAGATATACCTGT + EGGEGFGFDGGHEGGG8<<@BB?BB?<;:FGHHHHHHHHHHHFHHHHHFBGFHHFDADE;;?HHHEFFFFFC2?4?FFFDEFA@CEBFD<< @read_150_452/1 ATGGATTCATTCTACCTCTATAATATTTCTCCTATCTTTTCTCTTTTGTTCATTTTCACTATAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACC + HHHHHGFFFHHHGGHHHGGGGGFGGGHHHHHHHHHHHHHFGHHHHHHHFFHHHEABBCC>24C?AFD?CHECC@6AAA@D83()08%.EHHHHFGHHEB@ @read_150_453/1 ATGCGGATGCAGGTCTCTGTGAAGTCTGCCTGCAGCCTCTGATGCTTTGTTTGACAATGTGCCCTGCAAGACTTTCCACCTGCTCCTCTATCTCCCCTTC + HHHHHHHHHFHHHHHHHHHHHHHGEHHHHHFHHBEADBHHH@>>61:>89>@CHDFHHC?ABBEBHGGHHHHHHHFFF;AFA<@B@@E>+6.+?AEGGFH @read_150_454/1 CAAAACTGTTCGGCTGTTAACCGAAAGGTTGGTGGTTCGAGCCCACCCAGGAACGGTTGTTCGAGCTTTTAAAGTATTCATGCATTGTCAATCACTAGAT + HHHHHGHHHHHHHHGHHHHHHF>777>GHHHHFFBEEGFHHHHHHHHHFHHHHCA@BCC??E87FHHHHFEEBFEGHHHGBFHHHHHHHHHGGGHHFEE, @read_150_455/1 ATGCGGAGTCTACTGTAGAACAAGCATTGTGGTTGGTACTTTACATATTACTTCAGGGAGGAAGCAGGAAGTAGTTGCCGGGCACCTGCTAGTTTCTCCC + DDFFGHHHHHHHHHHHHHHHHHHHHHHFGGE@6?CDH??AFHHFFEHHHHHH7FFCEEB:6=DFEH@2D?DCB<8+9:'(8(BB,;EEGHHFFHDEEEEF @read_150_456/1 CAAAACTCATAGGTAACATTGGTTTAAGGAGAGAGACCTGTGATCGAACAGTGTCTTGTGTCTAATCTGAGAAAGAAAGCATCCAGTCTTATCATCATGT + DEEHHHHHHHHHHHEEEEGFFB?EHHHH::FGGGDHHEBEGFE;9ADBGHHHHHHHHBFEHHHHH?FFEEFHHECHHHDDFHFHHHHHHGFHFFEFAB>5 @read_150_457/1 ATGCGGATGAGAATCATTGGGAGGGCAAACTTGCAGAACTAGGCTGAGTTTCCAGGAATGGCTCACAAAACAGAATTTCCTGGGACTGCCAAGGAGCTGT + HHHHHHHHHHHGFGGGHHHHHHHHHHHHDGFG::CCCA:'*'DBHHFF<.;;HEFHE>3 @read_150_460/1 ATGGATTTTCGTTTCTGATTATGGTTCATAGTCTGGGTGGTGTTGTTTTATCCCATCTCACCTCCCACATAGAGATCCTCATTGATAGACCCTGGATCCT + HHHHHHHHFGHHGFHHHHHHFHHHHHHHHHFHHHEEHHHHHEHHHHHHHHHFBD7:=FFHHHHH?EFH@>DFFHHGDGEGHF<-64:9BFHFFHHHHHHG @read_150_461/1 ATGGATTCAACTATTACTTGTCACATGATTTGGGGCAATTCATTAATCTTTCAATTCTTTGGTTTCCTCATTTGAGAATATGGGTTATAATAGCATCCAT + GGHHHHE8HHHHHHHHHHHGEFEHGGFEE@GFHGEFHHHHHHHFHHHHHHFHHHFGBEDFHHHFHHHHFHB:A>=CGGEEEHGFGFHHHHFFHEGEECCD @read_150_462/1 CAAAACTTGAAGATTTTTGCATCAATATTTATCAGTGATATTGCCCTGTAGTTTTTTGTTTTTTGTTTTTGTTTTTGTTTTTTTGATGCGTCTTTGGTTT + HHGGGEBFFGGHHHHFE@HHHHFEHHHHHHHEFEE?HHHHHHHHHGFHFFHHHFD?AA=HHHHFFHFHHHHHHHECCFHGGGHHHFGGDC5?=D=A?BE= @read_150_463/1 ATGCGGAGTTTAAATTTTCTACCTTCAAATATTGAAATAAAAATATTATCAAGCAATCTCTACTGGCAAATGACAGAGGGGAAATTATATTTTATTTCAA + @B86EDDEEBFHHHHHHHFHHHHHEGHHHFGGHHHHHHFEHHHHHHHHHHHFFFG?83<=C@C>AFHFFFFBFEFDEEFDGGGEHHHHEBFBFD@GE@5B @read_150_464/1 CAAAACTTCATTGTCAGGAGGATTCTCATCTACAAGTCTCAAATTTGTTTTTGCTTCTCAAACTTGTTTTGTTTTGTGCTGTTGTTTCTAGCCTGTTTTA + HE@CE@D@>FGFHHHHHHFFEEE8EHGGEACHHHHFCDAGGHB9DGGGGBEGHGHHHHHHHHD=EHHFHHFHEHHHEGHHHHHHHHGBFFGGGFHHHHHF @read_150_465/1 ATGCGGAGTCTCTTCAAACTTTACTTTTTTTTTTTGCATTCGATAAAGGTACGCAATTCAATGCAAAGAAGAGCTAGGGAGGAAAATTGAGAGCATTTTA + GGGFFFFFFHHHHHHHHHHGEGGGHHHHHHHHFFHHGBBDHHHHHHHHHHHHH=HHHHHFHHHHHGF?EHHHBE?91?AFHHHHHHHFFGHFH@>?HFHH @read_150_466/1 CAAAACTACTCCCTTGACTGGCAGTTGAAGCCCCATCCACTATCTGCCCTCGTCCTCCCTCCTAATCTCTCCACATTTCTCCATATGCCCTAGGCTCATT + FFEFGFHHHHHHHHHHHHHHHHHHGGGGGHHHHHGHHHHHHHHHHHHHHFFEEEBHHHE?):CFFFEEB @read_150_469/1 ATGGATTCATCCTAGCCCTGGACTGTAAATACATTGCTGGTCACTGAAATGCTCAGTATTAAAGTAATCTGTATAGCATATAAAACATCTGTGGGTCCAG + HHHHHHHHHHHHHHHGHHHFBGHHHGGEHGFHFFGGH?EHHHHHHHDEDFFDEDD:>CCAE=EEHHHFHHEFFHHHGFBEEFFHHHGFDCHHHHFED?=C @read_150_470/1 ATGGATTTCCATTTGTTTGTGTCATTTCTGATTTCATTGAGCAGTGGTTTGTAGTTCACCTTGAAGAGGTCCTTCATTTCCCTTAGCTTTTTGCTTTGTA + HHHHHHHHHHGHHHHHHHEGHHHHHGGH?GE79;/?DCAEHHECF?A@>;CFFHGFDDDDBFDEDDEEFEFGEDB6%5@/7:@@A5>>E:DADDEEFCFH @read_150_471/1 CAAAACTGTCACCAGGCTAGAGTGTGGCGGCACGATCTTGGCTCACTGCAATCTCTGCCTCCAGGATTCACGTCATTCTCCTGCCTCAGCCTCCCAAGTA + GHHHGGGHEEFHFGE=@@FFB<;BCDEHGGGEFFHHEGFFDFEEHEECFFFEHHHHFHHHHHFFHHHHHHHFHHHFHHHHFF57CFEE;5CF @read_150_472/1 CAAAACTAAAAAAAAAAAGAAAAAAAAAAAAAGCCGGGTGCGGTGGCTCACACCTGTAATCCTAGCACTGTGGGAGGCCGAGGCGGGTGGATCCCAAGGT + HHHHHHHHHEHHHGHHHHHHHGGGEHHHHHHFFHHHHHHHHHHEEHHHHDACF?9FEEB?EFBFHFHHHHHHFFFHHGGGGEHFFFAFH?@C@<5.;>>> @read_150_473/1 ATGCGGACAGATTCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAA + HHGGGGFGGHHEDDHHHHHHHHHGGHHHFFGE@C;A@HH?AHHBFEFGCEH @read_150_474/1 ATGCGGAGGACAAGGGAGTCAGGAAGGGCAGGTCTGACCGAAGGTCCTCTGTGGCAGGCACAAACACCAGTGCCAAGGGAGAATCCAGTGGGTGGTCACC + GGGGGHGHHHHHHEECCCEEA<9GHHHEEBBE@:HHFEGGHHHHHFFHGFF>A?;5CFHHDDFFHFBE:DHHFEE@CDA?GHHHHHHF>FFHHE9EFDHH @read_150_475/1 ATGCGGATTCACATTGTTTTGTCTCTTATTTCCTAACTTTTTAATCTTTTTATTACATTTTCTAGAAGGCTTCCACAAAATTATCTTCCAATTTGTTAAT + HHHHHHFFGDHHHHHHHHHGHHHHHHHGHHHHHHHFFEEBFF<:9EB<:?DFHHHHHHHHFB6&&-+<

1<,AADDB97-0?D5(033;CEBGCC?FHHHBFHHHHEHHHHHHHAAHHHHFEFHGGGHHDHFFFGF?ACFEEBC.8A@ @read_150_479/1 CAAAACTTGGGTCTGATAACTTGAGAAATGCAGGGCAGGTGTGATTAATGAAAGGTCCTCCCTCTTTTTTCCTCTCAGGGGAGTGTTTAAAGACACCAGC + GGEGGGDFDDGGHHHHHHBDFHHHHFHGFFGADGHHHHHHEFGDEHHHHHFHHHECEHHFHHHHHHHHHBEFFFFHGEHHHHHGGHHHF@5)233CDEE5 @read_150_480/1 ATGCGGAAGATTCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAA + GDEEHHHHHGHHHHHHHHHHHHHHEHDBFHHHHHHFFGGFGGGF@9EEEEBF?GDBHH @read_150_481/1 ATGGATTGGCACGGACTTAGGGACCGAGTACCTTCGAGGGCAGATCTCTTTCCATTCAAGCTCGAACATTCTGGGTGCTCGGAGAAGGCTTCTTCTATCT + HHHHHHHHHHHHHHHGHHHHCGHGGGDHHHHHHHHHHF6DGFHHEHHHHFHF;CGF6'13;=ADF8=6BFHHHHHHE>CDFFEBEEGFHEHE=+( @read_150_482/1 ATGGATTAAAACCCAATACCTATAATATTCCTGGCTAGTACTCTTCACATCTATATCATCAAAAACAAAGAAAGTATGTGAAACTGACACAGCCAAGTGG + GGFGGGHHHHHHGEEFGGHHHHGGE5EEEHHHFADDHHHHHHHHHHHBGGFHHHFFFFHHHHFHHFHHHHHEGGHHHHG@C833EEFFEBFB7/%8 @read_150_483/1 CAAAACTTTTGTGGGTAACCCGACTTTTCTCTCTGGCTGCCTTTAACAATTTTTCCTTCATTTCAACTTTGGTGAATCTGACAATTATTTGTCTTGGGGT + HHHHHGFFGGHHHHHHHHHBHHHHHHHHHHEGHHHHFE5EHFGFFGH9?ABHHHHHHHHHHHHHHHHHFFB4@BEEHHHHFFGFFHHGGEHHFHHEEHGF @read_150_484/1 ATGGATTAACAGACAGATCTTCTATTATCCTTTCTTCTGAATCATGACAACCAGAATCATGACAATCTGAATCATGACAATCAGAGCATCTTAATCTATT + HHHGHHHHHHHHHHHHHHEEFFFFFGDFHGGFHHGHFFFBC?<45=762*,AEHHHHHHFEEEC>)5BHHHHFHHHHHHHHFHHGFEADFAEEHHHHHFD @read_150_485/1 ATGCGGAGCAACTGAGATGGGATTTATCTGCTATTTTATGTGGCCTAGATTCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGT + HHHFEBEEGGGGGGEFGGHHHHHHHHGHHH8@CHHHHHHHHHGGHGGFBHHFGBFBGHHFDGHFHHHHHHHHHHHEEEEDF?FHHHEEHFGF?FHHHFF? @read_150_486/1 CAAAACTATCACTGTAGGAGAAGTGGGCCCTTGTGCAGAAGTTCTGCCCAGGAGGGAAGGAAGGCCTGAAGAATGAAGAGCTCCAAAGCTCTGCCTGAGA + HHHHHHHHHHHHHHHFHHHHHFGGDEC:@DDFHHFHFHHHHHHHFHHHHHHFHHHHEHHHHHHHFHEHHHHEFBFCGFFFFHHFF>AD6<;E??GGHHHHHHHBFFHFFDDFDEHH @read_150_489/1 ATGCGGATGTCCTCTTGGAGATGTCCATCCCATTAGCATCCACACACGGCCCTAATGGGCTTCAGAAGGCCAATGCCAACAGTCTTGTCTTCACTCCGCA + HFGHEEHHGCCDD==BB?@C6:,A:6@BGFFHHHHHFGE7=9GFHHGFFBFHHHDEFHHHHDBDEBFE7EA?958FE=20@FG @read_150_491/1 CAAAACTCACCAAGGTAAGATGGAAATGGTGGGGGCACTGAAGGAAGATTGCAACTTGTTCAGCCTCTGGGTGCCCAACATGCATACCAAAGCCTCAAGA + HHHHHHGBFFDDDHHFHHHHHHBHHHGCHHHGGFGHHHHHHHHHHHDFF>DFHGGFFFFHHFHHH2BFHGBBF @read_150_492/1 ATGGATTGCAATTTTCCGTAATATTTGTATAGTATGAAGTAAAAATGTTTGCTTTAAGAGACATCTGCTATAAATAAAATGACAGTGTAAATTTTCAAGA + HHHHHHGHHHHHHHHHHGEDEFHHHFGGGHGFFFFC>>:7?FHE@DEHHHCGFFHHHHHHHHHHHHGGGFFDHGFCHHHHHHEFHHFDD@FHG>2=GHHHFCCCBDEEBB @read_150_495/1 CAAAACTTGATTTTTAACAAAAGATAACAGCAAAACCCCAGATAAATTAGCAAACTACCTTCACAGCTCGATGTGAGAACTCTCTTAGTTTTATTTATTT + HHHHHHHHEDFHHDDCGEHHHHHHHHHHHHHHGGGDD?BDFDFEFF>:;HHHHFC=>EEGGCCFHHHECDHHHHHHHFFHHHHFG?CCDD @read_150_496/1 CAAAACTCTGTCCCTAGGGAAGGGACGATGAACGAGCTTACTGTGTGTTTGTTCACTCACTGGTCACTCTGATCATCCGTGCATCTCTGCAGTCAGCAGA + EDDDFFEHHHHHHHHHHFEEHFHHHHGHHHGDBEDEHEHHHHHHEDDFHCFFHHHHHHHHHDHFHFHHHEFFEDHFFF@2AEEFDB?A1AAFD/DGFF5F @read_150_497/1 ATGGATTGGAAGAAGCTGTAGGACTAAGGACTGAGGATCCTGGGGTGTCCCCCACCACTTTCCCCTGCCCTGTCGCAGGGGCAAGTGAGGAGGGGGAATC + HHHHHHHHHHHHGHHHHHHHC@@EHEBGD=@CFEEGGEHHHHFHHHHHHHHHHHFGGHHHHFBHDDHB=>CCCCEHHHHGB@CGHHHHHHEFGHHHB928 @read_150_498/1 ATGCGGAACTCTTGAGATTCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAA + HHHHGGGGGHHHHFHHHDEHHHHHHHHHHHHHHHHHHHHHHHFEB;GHDFCCEFHHHHHF?CCFHHHFEHHHHFFGGBGEFEEEAADDG=GGGGAFFFFG @read_150_499/1 ATGGATTAAAAAAATTAGCCAGATGCAGGGTAGGTGGGGTGTGCCTGTAGTCTCAACCACCCAGGAGATTGAGGCAGGAAGATTGCTTGAACCCAGGAAG + HHHHHHHGGGGFGHHHHFF8BGHHGFEGHEHHB6;9=>9CBBAEFFGFHHHFFHHHECHGHGGGGGHHHHHHFHHBFHEEEFHHHFFHCGFHFFDE<:DGGEHHEGGC7@=GF@B@FHHHD/A5<>/ adapterremoval-2.2.2/examples/demux_2.fq000066400000000000000000003265041313314234200202420ustar00rootroot00000000000000@read_150_1/2 ATAGTGACAGTGGAAGAGAGTGGGTGTCCAGAAACCCTTGCATATGGAAAGTGTATATCATGCGGCTGTCGTTGCAGACCAGCGGGGAAAATGTGGACCA + HHHHFFFHHEGGGHHHHHHHHHHEB<2->A263=A<&7EEHHHHHF=C==;DDGEHHHEGHHHHHHGBCHEDEEGHHFEEDCCEHHHHFFHHHHFHFHFA @read_150_2/2 ATAGTGATACGACTCAGCTCAAGGGCCATCTCATTCATTCCTTCATCCACTCATTCATTCTTTCAACAAGAACTAAATGCTTCCCAAGTACCAATCCATA + BHHHHHHHHHHHHHHHHHHFGGGDHHHFHHGGGB==@@@:-6-34?C8A@0+.<<;9@FHH?@,--37EDEEDFHFHHHHFFFFD>>CDDEBBFF>>BEE @read_150_3/2 TGAATCTTCTTGCTTTGTCACCCAGGCTACAGTGCAGTGGCATGATCATAGCTCACTGCAACCTCAACCTCCTAGGCTCAAGTGGTCCTGCCACCTCTGC + HHHHHHHHBHHHHHHHHHHHHHHHHHHHGGBCCEEFHHHHHHHHHHH99BBGGE8?5.<9>BHFGGHF@:.D9HHFFHHH @read_150_5/2 TCGCTGCAGCGTAGACCCTAGTTGAGGACATAAAATGTGTAATAATACAAAACATGCAGTGCAGATAGCAAACACACAGTGGCCGACAAGGAAACGTGCA + HHHHHHHFHHHHHHHE=@BHHHHFHHFFHHHHHHHHHE@<@>?GHHFFHHHHHHHHHHHGEC@HHDEHHHHHHHHHHGFHHFHHHGFEEC66CBCDEDDF @read_150_6/2 ATAGTGAAATACAAAGATGAATGGTAAAATTCATGCTAATAATTTAAATTTTTAATTTTTCCTTACTTAGAACCACATAAATCGCCAATACATAAAACAC + HHHHHHFHHHHHHHGEF?@D@5=HHHHHHEEE@BHHHHHHHEFHHC@8DHHHHHGGGGGFBHD/@995=HGGG>@@AECDC7-2DHHFG4%/%&&-:;47 @read_150_7/2 ATAGTGATTTGTATTTTTAGTAGAGATGGGGTTTTGCCATGTTGGCCAGGCTGGTCTCGAACTCCTGACTTCAAGTGATCCACCTGCCTAAGCCTCCCAA + GGGHHHHHHGHHHHHHHHHHHHHHHHHFEGEBCDEHHFFFGCHHEHHFECEHHHHHHHHHHHHHHDC7DHHHHHEGHHFFGFFH>F<@5.7BBEBEHEE< @read_150_8/2 TCGCTGCGCACCAAGCACACAATGATGAAATACAGACGCTCCCTTGGTGGCATAAACACGGTGCCAGTCAGCTCCACGCTCTTTCCCATCTTATTCCAAT + HHHHHHHHHHFGHHHHHEHHHHGHHHHEE@5CFFGHHHFFHHDEHHHFF@526,+(<<<=5EC6BDFHHHHHHHHFEEHHHHHGGGHFHHHHHFFGGHHFCDHHHHGDFHHHHHEEEECB@FGFFGHHHHH @read_150_10/2 TGAATCTCTCTGGTCCCATGTAACAAATCTTAAAAGTCGTATGCAAGAAGATCAACTGTTTCTAAGTAACATAACTGCATGCCAAAAGAAAGCTCAAATC + F=EDFBBGEFFFHHEHHHHHGGGGGBDHHHFFDEHBGGHHHHHHHHGH=BB>.GGHHGGFGGHHGHHHHHF@DEHH>CBD8.CCFE;?E<5<>.4;845 @read_150_12/2 TGAATCTGGGATAGAACAGAATGTTGGTTCTGGATGGGAGCTTAAACATCATCGAGTCCAAAGGTTCTTAAAGTATAGGCCTCAGGCCAGCAGCAGAAGC + HGFEHHHHHHHFEEHGHGHHHHHHGBADDHHHHHHHHHHHHHE?3:BAA=>5:+8;:<963<36A=/DAC@FHHHHHHHHHHHFHHHFHHHHEGHH:;EFEEF@3&338GHHHFHHFHHFGHFC2.<@=6BEG?GHGGEEGDDHHFFEFHGFFE @read_150_14/2 TCGCTGCGATGCTTACCTCTATAATGTCCTCACCCTCTTCTCCAGTTCACTCTGATTTGAGTTTTGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTA + HHHHHHHHHHHGEEHHHHHHFHHHFHHFFDHHHHEHHHHHHHHHHHHE=:=A@7@>95<2=84.6DFFFHHHHHGCEE93(CBGGEE6&01,2;?G8?EFEF. @read_150_17/2 ATAGTGAAGAGCATAGCCATGAACCTCAGAGTAAACATTCAGAAAATTACTTCAATGAGTGCATAGTTATTGTAATGTAGTAAGCAGTAAGGTCATTGCA + IHHHHHHHHHHHHGBHHHHHHHHHHHHHHHHHHHG??8BBCGA4=CDEEHHHHFHE@CFHGGFFHGHHEHHHEGGGB>A@EEDFEGGHHHHFHHED=5*2 @read_150_18/2 ATAGTGAGGGCCCGCTGACAGCGCGCCCAGTAGAATATTGTATTAGTTGGTAGTGAGCTGTGTTCTCGTCAGGGTATCTGAGTTTCACAGAACAGACGGG + GEFGGEEEF=GHHHHHHHHHGHHHHHHFBEEEGGGHHHEDEEEEBGED22,(//7.16GGF=8@GG?;EBCDB3?FFD?AEE(FHHHHHHHFFHHHHHHH @read_150_19/2 ATAGTGAGTCTTCACTTATTGAGTTTATCTTTGAATGTGATGGAGCAAAGCTCTCACCAGGGAGGCATTGACACTCAGGTAAGTGCTTGGTCCCCCTGCT + HHHHHHHHHHHHHHHHGGHHHHHHHGHCFHHHHHHHHHHF@==HHFEEEHHHHHHHHHHEDHFHHHHHHGHHGDDDE;GEGD*+5)'+=:C8DEBB>?AD @read_150_20/2 ATAGTGAAGGAAAAACGTAATCTCTTTTTTCCATACCTACATTACAATGCAAAATTAATTGGTAAGTCAAAGAAATTTCAAAGAATTAGAGAGAGTTTGT + @=FEGFFCEGGI8=EG<6-.:6916@CEEFHHFDC871*:9>395@AEEGFHF><;HE73+1.=5.;-,0)3C890&9C(.. @read_150_22/2 TGAATCTTAGCTATCACCCTACTATACCAAGCCACTTTTCATCTCTTTCCCAGATTGCCCTGTTCACCTGACCAGTCAGCCTATTTCTCCATACAATCCA + HHHHHHHHHHHHHHFGHHFHHGBBFEFGFGHHHHHGEEHHHHEGGHHHHDD8@FHHHGBCHHDC:?DHHHHHHHHFGGDHHHHHHHHHHFEDEEB@--,5 @read_150_23/2 ATAGTGAACCTCCTACCACCACAGAGTTTAAAAAAAGACAATGAAACATATGGTGGGCTCACTGAGCACTTTCCTACAGAATTGTTCATTGTTGTGCATC + DGHHHHHHHHHHHHCHHHHEFHHHHHHDDFGFHGGGHEGEHHHHFHHHEDDB;@GFGFFFGFBHGCDHHHHHHHHHHHFGEEHHFBECB@627.;??5EF @read_150_24/2 TGAATCTTCTCCACTTGCAAATTCCACAAAAACAGTGTTTCAAATCTGCTCTCTCTAAATGAAAGTTCAATTCTGTCAGTTGAATACACACAACACAAGG + HHHHGHFHHHHHHHHHHHHHEBGHHHHGDHHHGDFFHHHHHFC=5AAEHHHHHDCFHEFHDBHGGEEBD?EEFGG;;=/,;>C@CDHC<A913:>FFCEEEEGHHHHGD?>CHEHBHEFHHHHHHHF<8=B?FFG@:5(02?FG6CHF @read_150_26/2 ATAGTGAGTGAGCGGGAAGGAAAAGAGAGAGAGACCGTCTTTCCTCTAATGTCCATATAATAAATATGAAGGATCTTATTAACTCACGGGCCTATCCCTG + HHHHHHHHHHHEEHGHHGGFHHHHHHHDBHHHHEFHHHHHHHHHFHHBDD@:@EBEA<<@BEG77@HGGCDFHHD?3-394>97GFB,CCFFFH=AF=FF @read_150_27/2 TGAATCTCCACTAAATACTGTGCTTACAAACTGATAATGGGTTGGAAATCACAATTTGAAAAGCACTGCTCTAGTCTATACTTTACAATTAAAAAAGTGG + D@B@HEGFEEGHHHHHHHHHFEFGIGHHHHHHHHHFCGBBBDBBHHHFCGB4D>@506???:5:.-9:BB*2,6.<<:*),+//).=>D=DHFC4;,2>+ @read_150_28/2 ATAGTGATCTTAGTTCTGAGTTATCATTTCCGGCTAGGGCATCAATTCTCCTAACTCGGGGACACAGACATTTGCACCAGTCTTTGGCAGTAATTATGTT + HHHHHGHGHHHHHHFGHEHHHHHG@DGHHHHFF?BECB@GGFHHHHFHHECBGIGFEFGEHFFFEHHHHFHHHE/GGBFEGFHFHH>;FDFFFH?GC80C @read_150_29/2 TCGCTGCGGGTAGTATGGACACTTTAACAATATTAATTCTTCCAATCTATGAACATGGGATATCTTTTCATTTATTTATGTCTTCAATTTTTTTCATCAA + 5002.579BEGHHHHGGGHHHHHHHCFGFDFFGGGGHHHHHFFFGHHHHFGDHHHHHHGEHHHHHHHDCHHFCE/12EHHHHFBEFHHHHHF?F>?A;9; @read_150_30/2 TGAATCTGGGGTAGATCTGGCCTTGGCCTGTGCTCTGCTCACTGAGCCTTGTGCCCTGGCATAGGCTAGATTGCGCTTAGGCGCAAGGGAGTCTTGTTCT + HHHHHHGGHEGHGHHHC.51>1@/1/6;.CHHHHHGGHHHHEEEEHHHFHHHA<9:''-;ACDEHHHHHHHHHHFEGHHG:-*3?EEDHFDA@8='4>EH @read_150_31/2 ATAGTGACTCTCCTATGAGAATGATCTTTTAAAACAACTTTGAAGATCTTTCTCAAAACAACTTGGAAGATTAGAGCATACAATCAGATCACTTATAATC + HHHHHHHHHHFFEHHFDHHHHFHHHHHHGGFFGGHHHHFHHHFHFHHHHHHHHGHHHHHHHGHHHFE8HHHHHHHDCHBEHEHFFDDA; @read_150_32/2 ATAGTGAGTTTCCATCTCCTTTTCCTGACATTTGAGGTTAAGACATATAAATCCATAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTG + HE@BHHHHGGGHHHHHHHEDHHHHHE=BDBD:/C=AHHHHHHHCAEG>?DGCHHHHHDCCHHHHG97 @read_150_33/2 ATAGTGAAACACTCACATTGGTAACATGACACAGCTGACTTTAGATGGGCCATGGCCTCTCCAGTCTCCACAACTCCCTAACGCTTACCACTGGACCACT + EGC>=EGHHHHHGBBBFHHHFDIGFF??5;GGEEC7880;05>BCDGHHHGGFBBEGIGE38EAHHHHHHDCGFFHHHH=?GHHHHHHHHEDE68799?D @read_150_34/2 TCGCTGCAGAAACAGAAAACATGTGGAGGTTAGTTTTTCTTTCGGAAAGATGCTTAATCATCCCTTTCGGTGAGGCGGTGCCTTTGGCATGGTAGTTTTG + FEHHHHHHHFEEFGHHHHHGHEDD4-6.>EDGGGDHHHFFHHFHHHHHHFHHHHHHHHHHHHHHG<>?EEC?=CC@DDBBF @read_150_35/2 TCGCTGCATAGGGTGGGGCCCCACTTCAATATTTTTAAGAGTCACCACAGGATTGGGAATCAATGGCTGAAACCAATTCTCAGCAAACCATTCTAAAATC + HHHHDHGEHHHHHHHHEEEGEGHHHHFHHHHHHHGEHHHHFHEBFHE@>HHHHHHDGBCGHHHHHHFHHHC;5A5BB=DH@>5BBEEEBE?815?E;BFD @read_150_36/2 ATAGTGATTGGAGCTCTCATACGCTGCTGGTAAGAATGTAAAATGGCACGATTGCTTTGGAAAACAGTTTGGCAGGTCATTAAAAGATTAAACACAAAAT + HHFHHFGGGGHHHHHHHHHHHHHHHHGEHHG@GGHHBCCHHHHHHHHFFEHHHHFGGFEHHHHHFGGH?EGGHHHDGGGGHHHHH3CE=HEGFB@CDHHF @read_150_37/2 ATAGTGATCACAGACTGTGCTAAAACTTTACATACATTACCTCATCCTCACAACAACCAGTAGGTACTCAGTAAATGTTAGCAGCTTTAATTGTATTGCA + HEEEECGGCDGHHHGGG=@<.8)+C3*08F@DHHHFGHHHHHHHFDAHHHEEB@CDHHDFFF.BGFD@HHHHFFGHHHHG@CDA@DBHHBEHGGGBFEFF @read_150_38/2 TCGCTGCAGGGATTTTTGCCATGTTGGCCAGGCTGGTCTCGAACTCCTGACCTCAGGTGATCCACCCACCTCGGCCTCATAAAGTGCTGGGATTACAGGC + FHHHD?CG?BHHHHHHHHHHHHHFHHEFHHHHBFHFDFGGHHHEEGGGHHHHHHHHHGGGHHHHHHHFGE-18A<.6+,->*EFGHFHHHED04DB@DFE @read_150_39/2 ATAGTGATGAGTAAGGATCACTATTACCCTTACAGACTGGATAAAACCCTAAGAAACAAAATCATTGTGCAAAACCTTTCAGGCCAGGCGCAGCTGCTCA + GHHHHHHHHHHHHGHGGDDFHHHHHGHFFE>AEHHFFFFDHHED?CCFHHHHF=9>?>@>4<<.65>4;FEDBEFCAA>>D?HHHD?A0.@FHHHHHGGF @read_150_40/2 TCGCTGCTAGCCTTTAGAATTGTGAAAAATAAATGTTTGTTGCACAAGCCACCTTTTCTATGGTAATTTGTTATAGCAATACAGACTGACTAAAACAAGC + FEGHHHHHHHHHDGFFCGFFHHHHHHHHHHFFFDGFFHHHFD9:7<@FHHHHGHHHHHHHHHGHEFF=EHHHHDF@1133)7?FHDHDDGHHHFEFFFD> @read_150_41/2 TGAATCTTAGCTTTGTAGTAAGTTTTGAAATCAGGAAATGTCTTTCAACTTTGTTCTTCTTTTTCAAGACTGTTTTTGGCTATTTGGATTCCTTTGCAAT + HHEEEHGHHHHHHH>DFHGGEHHHHHHHHHHHHBDDEBHCHHHDBABEEEGD669;.?GEBBFHHHHHHFEH?4FHHFF@FIFHHHHHHHGGHHB??DFF @read_150_42/2 TGAATCTTTATCAACCAAGTGCCAAGATCCCCTCCACCACCAAACAAGATGAAAACCCAAAAACTTTGCTCAGGATCTCAGAGCTTCACTGTCTTTCCAT + HHHHHHB@EHHHHGHHHHD=>@<:)'%'3%6822@ @read_150_43/2 TGAATCTGAAAGCGGCCGGCGAGCGCTGGCTGACATTTTCCTGCCCGGAAGGATGCATGGCCCGGGGTCTCCTGCACCTGAGTCCGCATAGATCGGAAGA + HHHHGEEECFHEFHGHGGGHHHHHEHHHF@8>@B@HHHHHHHHHBEHHHFHGGFDEGEEEHHGGIFEFHHHHHHHHH4=<'2DBEGE9/>AGDDF@CHFF @read_150_44/2 TGAATCTAAAACAAGTATGTCACAGACTTTAAAGCCTCCAGAGTTATTTCTTCCAGCCTCTGATCTCCAAATCTCCAGCAACTCAACAGTAATAGAATCT + HHFHHHHHHEBGHEHEBAHGFDDDDEGGFFCBEG=BCBBHHGGEGEFHHHFDGHHHHHGGFFDCBFFEFC>=:<>7;?BCBCDGDFFHHFEHGHHHFEHHGFHHHHFHHFCCEHHGFGHHHHGF<@C@536<=A08EHHHHFFHHGDEFGGHDEFFGGGGHHCCD/EDHHHEGHHHHFFHHHHFFA@GHHFEA;:(:<5.=D @read_150_48/2 ATAGTGACTGAGGAGTACATTCTACACTGGCTGGCAGAGTTTAAGCTCCAGTTACCTCTGGTGTAATTTGCTTGGTAATACACCCATTGTTGGCTTCTTT + HHHHHHHHHFHHHHHHHHGGHHHHHHHHGE?FGFHHHFHHHHHDF/DFFGGGGGGHHHHHHHHHHHHHHFDDGHF@9DEEHHEDGHHHHEHHGEFDDFBB @read_150_49/2 TGAATCTGAGAATGGCGTGAACCCAGGAGGCGGAGGTTGCAGTGAGCCAAGATTGTGCCACTGCACTCCAACCTGGGCCACAGAGTGAGACTCCATCTAA + HHHHHGEEGGGHHGHFHHHHHGGHFGHHHHE=;29DGGFBHHHHHHHHHHHHHHHHHHHHFDGGGHH=6*D8EFHG;@-6AAA@@GHFHHFHHFHDAE<8 @read_150_50/2 ATAGTGAAGAACACAAGACAGTAATAAAAGCCATTTATAATGTTCCACCTTCTATACTGGAATTACACACATCACCATAAAACCAAAGATTCAGCATTAC + /,,5-GHH@DHHHHHHHGEBC>C57DDEEBGHHHHHHHHHHFB7::<333<;@@@BHFDG.);@;/1:9>C@>7@B@@ECEFHHFGCFHFHHHHHBF?10 @read_150_51/2 TCGCTGCAGTTTTGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATAATTAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHFHHHHHHHEFHHHHHHHEFHHGCAHH?GGGGGGEHD?ED@@=GGFFHHHHHGEE=A629@>>9<7:DEGEFFHFGFHDHFEEHFEB<+BH?F @read_150_52/2 TGAATCTTGCAAGGGGACATTTGGAGGGCTTCGAGGCCTGGGGTGGAAAAGGAAATATCTTCTCCTAAAAGCTACATGGAAGCATTCTCAGAAACTGCTT + AAHHHHHHHHHHHHHFGHHHGDCG?DDHHHHHHHHEFFHB5;EHHHHHHHHHHHHHE?EDBC89:?8>@CDD8:5)-'1FGHGGDFGGFDGB5B8,;<<: @read_150_53/2 TCGCTGCATTAAGACATTTATTTTGGCCACGCGCAGTGGCTCATGACTGTAATCCCAGCACTTTGGGAGGCCGAAGCTGGCAGATCACCTGAAGTCAGGA + HHHHHHHHHHHFHHHHHHHGHHHHHHHHHHFHHHHHHHHHHHHHHEBE=FHHDDDGGEBHHHHEGGGFEDBEC4,9@EHGGGGGGDFHHHHFHHHFFHHF @read_150_54/2 TGAATCTTTAGTAGAGACGGGGTGTCACAATGTTGGCTGGTATGGTCTCGATCTCTTGACCTCATGATCTGCCCGCCTTGTCCGCATAGATCGGAAGAGC + HHHHHHHHHHHHHHHHHHHHHHHHGFFEDDDEGEHFCEEHHHHEFHHAF@554>:97@HHHHBGGGGFFF:65855>54>:DBG@+DFHHFHFHGGHFF7:B4>.(:@@DHHFHHHHHHHHHHH@FHHE<,1-5DHHHFBE @read_150_57/2 ATAGTGAGGGACCAAGATGTGGACATTAATTTGATTCCACATGGGTTTTTATTCCTATTACTTATATATAGCTATTTTTCTAGTAATATTGCTACATCTG + HHHHHHHHHHHFGEEGGHHHHHHFHFGEFD+/BEEHHHB8@BCFHHHHHHHHBDCHHEEEHHHEECEB><')+?DABBHFHHHHHDG?EGEEHHHHHHHH @read_150_58/2 ATAGTGAATTTTGGAGGTAAGGAAATTAAGGCTCTAACAAGGTAAAGAATGTAACATGCTTGAGGGCAGGTGGCAAGAGGAAGGTAGAGCCTAGAGGTTC + HHHHHH=GFDD887/B;CEEEEEHHHHEGE@HGCC.:1-0?469?BFEHGHGHHHGGHGHHHHEHHHHGGGGB,:CBF?EGHHHHHHGCCAFGA;BAD?H @read_150_59/2 ATAGTGAAGCAGAAATGTTTAAAAATAGAAAATAAACCAATCCATAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATC + HHHHHHHGGGBCHH?HHHHHHHEBB-=CBEEDCHHHHHHHHHF@AFGFHE@CCC7BF<@=A@ADHHB;@AAGHHHGHHHHHHHGFGEFFB?70<;6F@@/:7;7CHFHHHEGH;EHEHHGHGGBGEFHHDHHHHFHHHHHHHHH=. @read_150_61/2 ATAGTGAATATATTACTAACAAATGCATTGGTATGGACTTGGAGGAAACATGTCAACAGTTACCAATCCATAGATCGGAAGAGCGTCGTGTAGGGAACGG + HHHHHHHHHHHGFFEBEEFFFFHHHHHHHHHHHHHFHHHEHHHHFHFG?EHHHHHHHHFHHHFFB=BHHFHHHHHHHF?EEGFGHHFFHHH@5448;.2) @read_150_62/2 TGAATCTATAGCTGTGTCATTGTACAGACCATAAGCCTGTGTTTTCCAGGTCTAGAATGACACACTTGACATTGTATTGTCACTATTTGAGTGATACCTA + HHHHHHHHHHHHHGHHGEEBGGE=E@69))0>FGHGHHHHHHHFFFGIGAGFFFFHGGD=B-&>-14/8:@BEEE=GE=EFAFGGHHHHCEGFHHHH@C5 @read_150_63/2 TGAATCTCCAGCAGGACCTGCACCTTTGGGAATCACCCAGGCCCCTGCCATCTTCCCTCCTGAGACTGCTTTTGCCACCTTACTGTCTCCGCATAGATCG + DDEE/B/87?GE@FFGHHHHFHHHHHEGGGGGEEFC5DHHH @read_150_65/2 TCGCTGCAGCCCTCATGGAGATCCTCTACTAGGGCAATGCAGATGGGAAATATGGGGTTAGAGCCCCCACACAGAGTTCCCAATGGGGAGCCTAGTGGAA + HHHEEHHHHHHHHHHEEHHHHHHHGFFFFDGEFADGEGHEHHHGE:;FEHGGGGGGGEEEGE@EGGHHHGBEGGGFHEEF/7DGFB>49:FE:@EBHHBF @read_150_66/2 TGAATCTAGAGGGAGGAATCTGTTTTTGGTCTAAAATAGGTACGCAATAAATATGTTAAGGATAAAAAACAAAGAAACAGATTCCTCCCTCTCCTTTATT + HFHHHHHHHHHHGEE@BGHDBFDDDFHHHHEGHFEBFHHHHHBEHHDFEB6>BBHHHGGFHFHHHHHD@))1';FHHHHFEHDGHHHHFFFE:B:3@EHH @read_150_67/2 TCGCTGCAAAACTCTCCACAGCACATGTTCAAATACTTGAGGTATGTGTTTCAAACTACAGGGAGAAACTTACGTAAGACAATGACCCTCATAGCTGGTA + HHHHGDDFHHHHHGEBFHHCHHHHHBCF<@DBGGGHGG@DBFGFG;@DBEGGGGHGBBGGHHHHHF@GFEHHHHHEEEGD;?=8FHHHHE6:5%'&)%8< @read_150_68/2 TCGCTGCTACTAGAATGAGAGGCTGAGAATTCAAGTAGAAAATAGGTATTAAATGGCTACAAATGCAAGAAAAAATTTTGTAAGCTGTTTTTAGTATAAA + HHHHHGFFHHHHHGGDD@GDGGDFHHGFHHHFHHHHHHHFBBDDBEFBHHHHHHFEFCE?=CED6>?GGFBBHHFHH @read_150_69/2 ATAGTGAATTAGAAAAAGCAGACAAGAAGAGGGTTTCAAACAAAGGCATTATGCAAAGGTCCTGGGGCCAGTAGGAAAGTTGCCTACCTGAGCAGAAAGA + EEHHHHHHHHGHHGEEGH@884EHHHHHGHHDFFHHFGEHHHFHD7<@/CFFGGHGGDHHHHG95CGHHG@ADFEGGHHGH@61(>BDF<1.?BEHHHED @read_150_70/2 ATAGTGATGAGCACAAGCCCAAGCGACAAGAAGCAAAGACAAGAGAAGGAAAAGGGAGTTCAGGAGAAGATAAGAGAGAGTAAGAGGCTGAGGAAGGGAA + HHHHHHHDBCC@GHECCBBGBHHHHBGHFEBF?7CEHHHFBFHHHHHHHFHHHFHHHHHHE+9@EDDD<;DEEFEB?@;CFGGGC?DD@CBGA=>388EE @read_150_71/2 TGAATCTACTACAATAGCAGACCCTCCTAAATATTTGAAATGTTACAGGTCAAGTTAACCAACTGTTAAATATGTTTTATGCTTCTGCAATGACAAATAT + HHHHHHHHFHHHHHFHHHHHHHHHHHHHHHDBEEBAHHFFHHFHHFHFHFHHHFFHEDD=FHHHHHHHHEHHHDBIE<-1'.;D><:A730)46931:;8 @read_150_72/2 ATAGTGAAAGAAAGGGGAAGCATATTTCATTAGGCACGTCAATGCCAGACCCTAAATAATTCAGTCCCCCAGATTAAAATACTTGATGCTCTTTCAGTGT + HFDBGHDGFGGHHEEHHHHGHHBCEBBCGFEHHECDGGDFFFEEFD?GFHHHHHH8*,BBCC<:.)+,6*84GGAEFHHHHHHEECE=>0+)'.>5<&77 @read_150_73/2 TGAATCTCAGCATGGGTGAATAGGACTCGTTTTGTTAGCAACGTTTGAATTAATTCAATCAAATTTTCACAGGCCGAGAACAAGCAGTGAAGAGCAGTTA + HHHHGHHHHDDDB?DHHHHHHHHHHHHBEEGGGHHHHHHHHHFD@EGEGHHGGHHHGGG?E=BHGD56;7:6,;6+%%44GG=BECEFHHHHHGH:0=EG @read_150_74/2 TCGCTGCCATGTATGTTTATTGCGGCACTATTCACAATAGCAAAGACTTGGAACCAACCTACATGTCCAACAATGATAGACTGGATTAAGAAAATGTGGC + D=759A<5969:@:>DHHHHHHHHHHHFHHHHHGGFHHHHHHHHFFFFHHHHFHEHHHHHHF@'%%*) @read_150_76/2 TCGCTGCAATTGACACCCTAACATCACAATTAAAAGAACTAGAAAAGCAAGAGCAAACACATTCAAAAGCTAGCAGAAGGCAAGAAACAACTAAAATCAG + HHHHHHHHHGGGHHHHHHHHHHHHHHHHHHHHHHEHHHHHHHHHHHEHHHHHHHHHHHHHHHHHBHHHHEF>=DDBEHHHEFBGFEHHA@EGCFFHHHHF @read_150_77/2 ATAGTGATTACAAGTACTTTCATGGTTCATGATCTATCAAGTTTCTGAGAGTTAATGCAATTTCTCCTGGGGTGTAGGAACACCACATTGGGATACTGGG + HHHHHHEHHHHHHHHHHHHHHHHEHGGFHHHF?@<+::.>HHG.5EFABEHHEFCGHHHHHHHHHHHHHHHFHE<>>5CB+7.:CGDEHH:.8CED@BFHFG @read_150_79/2 TGAATCTAAATAGAGGACTCAGAAATAAAACTGCACACCCACAACCATCTCATCTTTGACAAAGCCAATCAAAACAAGCAATGGTAAATGGACTACCTAT + HHHHHHHHHHHHHDF=@@7<1?ADFHHFHHHHHFEHFGHHHHHHHHGFHHFHHHGHHHFEBDF@DHHHHG@BFHGHHHHHHEDGGDFGIFGHE>/577)) @read_150_80/2 ATAGTGAAGGAATAAGTTACAAAGCAAAAGGAAATGGAGAAACTTGGACAGAAATTTATACAAAGAAACATCTAAACATAGAGCAGAATAGGAATGGTTA + HHHHHHHEDGHHHHHHHEGHHHEEHHHFF@FHHFGHHHHHHHHHHHHBGFF@>@FEGGFEHHGGGHHHHHHHH=??BFHHHHGGGHHHGG>1-0>'?FFF @read_150_81/2 ATAGTGAAAAAGCACTGTCTTCAGCAAATGTGTATTGTACCTGTCCTTGCAAGAGGCTACTACCATATTAGTTACTGGAAATGCAGAGAGTATAACAATC + HHHHHHHHHHHHHHHHHHHHHGE@CHHCEGHHHHHHEDBAF=HHHGHHHHHHHFFDHHHHHHHHHHGGHHHHHHD<;5,CDE>?CF=GFGE=BD.-1D@E @read_150_82/2 ATAGTGAATTACTGCAAACCTACATGCAGACTAGCAGGAGGATATTTTCCTGTGCCTCCTTCATCTCGTTTCCACAACTTCTCAATTCGCTCTCCTAACT + @FFGADEGDBEHHHHHHHHHHHBGGFDGHHHHH@@EEEEF89DAGHE?EEHHCFEGHGHHFGD;0FFFHFFE@,==HFHBFEEEEHHHHHHFFGHFFEBH @read_150_83/2 ATAGTGAAAAGATGTTATGTGTTAGTTGTATAAATGATAATTCAAATGGAGAGTGTGGGGAGAAGTGAAGCATGTTTTGTTTCTGGTAAACAATAACTGG + HHHHGHHEHHHHHHHHHHHHHHHHHHFHHHHHHHF?EEFDD;>>=FB/B7C@GFEEBB1:;?DEFDEFHE @read_150_84/2 TGAATCTGCCTGCCTCACTCTCCATGGAAAGCCTCATTATATGAGTTGTAGCCCTTTCAATACCCTCTTAGTGCAGGTGTGCAATCATCAGTCTCAACAG + HHHHGHHHHHDGGHHHHHHHHHHAAGGHHHGFGGFHHHHHFHHHHHEE?83.<96D:'(-985BCEEEC>>:EGHGHHHHHHHHHD=,?BHHHHHEE>:12@@>H?@EEGFGEFHHHHHEBFFGHHHHHHEE4?AHHHHHHEGHHHFFEE>D=.).)'0 @read_150_86/2 ATAGTGATCATTTGGTTACAGTTTTAAACTAGCAAACCATTGCCCTATAAGAGGAGCTAAACTAAACTGTAACACTACACAAACTTCCCAAGGAAGGTAA + HHHHHEEGHHFFHHHHHHHHHFGGGFGHGB@/3;EDGFG?:GCCGHHHHHHHHHHHHGGFFCD?BEFFEDE..1+4@B?BFB=EDGGEGGHGFCF<>4@> @read_150_87/2 ATAGTGATCTCTTTTATAGATGTGGTAACTGAAGCACGTAAATTTAAGTAGCTTGTCCAATACCACAAAGGTAGTAAGCGGTAGAACCAAGAAATCCATA + HHHHHHHHHHH@<.9?<+=>EGEFGGHHFFHGFHFHHHHHHHHHHHG9CFHHHHHHFHHH;*22,,2(4FFHHHHHEBGGEDDDEGCGDA?@FHEEHHFC @read_150_88/2 TCGCTGCAACGGAAACATTCATTCATGAAGCAGTCCTGCTTGTGAAAATTCATTGTGCTGTATACTCAGGAGATGACCACTTTTCTGCATGTATATTCTA + HHHHFHHHHHFGGHHHHHGEHHHHHFDEEFHHHFFHHHHHHHE@?,:GFHHHHHFHGEGHHHHHHHD=GGFDCHEGHHHGGHHHHEDEHHHHFCAFF=,0 @read_150_89/2 TGAATCTTTAACTTTCTGTCTCGTTGATCTGTCTCCGCATAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGATGGTCGCCGTATCATTAA + GGGFHHHHHHGFDFHGDFHHHGGGF>?FHHHEHHHHGGHHHGHHHHHBCCHHHHHGFHHHHHHHHHHGEHHHHBDGFD(7-+7EHD?BBBFFFHFHHHEH @read_150_90/2 ATAGTGAATTTTCTTAATCCAGTCTATCACTGATAGACATTTGGGTTGGTTCCTGGTCTTTGCTATAATCCATAGATCGGAAGAGCGTAGTGTAGGGAAA + HFFGGHHGHHHHHHHGEHHHHHHGHHHHFGEFAFDCC?DG@GHHHHHHHHHHHFCD?E?BBBGGHHHHHEGGHHHHFHHFFF@11)13''CDDEFEDD2. @read_150_91/2 TCGCTGCATGCCATTCTCCTGCCTCAGCTTCCCGAGTAGCTGGGACTACAGGCTGCTGCCTTTTTTTCAGAGATGCCCTGGCCAAAGAGGAGGAATCTAG + HHHHHGF@@BGGDGFBEBB<<;?<>7ACAE@BHHHHEFFBFHHHFCEFCGDEEHHHHHHGHHHHHHHFHHHHHHHHHHHHEGFFHHHHHHHGEBHHGCFG @read_150_92/2 TGAATCTATCCCATTTTATTATAAAATATACTGTTATGAAGATACAGATGCTCCTTGACTTTGATGGGTCCGCATAGATCGGAATAGCGTCGTGTAGGGA + HHHHHHHGHHHHGGGHHH8:<.0.>8C@:0)<@>BHHHHGGHHHFHHHHHHGED?GHHHGGEHHFHHHHHHHHHEFHHHHHHHHGFHHHHHFFFHHHHFHHHHHECDGGBDHB?5+3C;>@DEBBD @read_150_94/2 ATAGTGAGATTTGTCTTGTTTTTCTAGTTTCTCTAGGTGTGGTGTTAGGTTGTTAGTTTGGGATTGCTCTTAACTTTTCTATTAATACTGTTTTAGCTGT + HHFE=GGHHHHHHHHHHHHHHHHHHGE>=E?:,8,46?GBFHHHHHBHHHHHEGHHHHEGGG?@DFHGEEGDDDB@CHFBCCEE?EEFEEHHHCHGHHHE @read_150_95/2 TCGCTGCCTCCCTCTGCCTAGTCCTCAGAGTGGGTGGGACAGGAGACAGGCCCACCTCGTCAGTTGCTGGGCTGCCTCCAGGCTGGGCACAGTGGGCAGT + HHHHHHHHHHHHHHGHHHHHHHGHG>=@BHHHGIGHHHHHHHHHHB>=FG=DGECHHFEE@C@FD?:::;D@BGGHFHCCF<EFHHHHHHH=FEEE? @read_150_96/2 TGAATCTCATCTCCTCCCTGGTCAAGCTGGGCACACACAGGCCCTGTTTAATGGGCACCTGGTTTTAGACCCTCACTCCCCCAGTTCCCTGCACCACCAT + HHHHGHHHFCHHHHHHHHHHHHHHGHGFHHHHDDGHHFHHHHHHHHHEHFHHHHHHHHGHEHHHFGHHHHHE@@@5:G3>@6@%?8DA:,ABEEHHGGGFA,0*0ABG@D @read_150_98/2 TCGCTGCTTTCTCCTGGAGCTCACTTTCTATTGGGGAGAAAAAGTAGTTAAATAAGTAAACAAGCAACAAATTTAGGCCAGGTAACTCGATTGTGACAAG + EHHHEBBDCCEEE<=@FEHEEFHHHHHHCEHC8E@FHHHHHHHFHFHF:>6AEEADDFGFEHHHHGB@DCGGDDEC+9*:@AGGEGGHFD<3/2>=<>--6=:*8ADHHHHBBFGEEHHGCHCEGFHHHHHFHHHHHB@GFEGHFEGGHHEGBFGEFEFDDHH @read_150_101/2 ATAGTGAGATCCCTGTCCAGCTTTTTCTCAAGACTTGCTCTGCTTGCAGGACTTGCTTTACCACGGTTCCTGCCTTCCTGTAACCACTTAGTTCAGCTTT + HHHHHHHE24EEGHHGGE63846:*=AA6;FDHHFFHHHDD-0153 @read_150_102/2 TGAATCTTGATTCTGCCAGTGTGTGGGATTTGGGAACTAGTGGGGAACAATTCATTTTCGGAAGAGAAGATGATCAATACATTGAGACATTAAAGCAAAT + HHHHHFHHHHHFFD>@;?>ICD=99DBD><?>>DDCHHHHHHHHHH?A6;FHHHHHHHHHHHHHFHHHHHFB?65EC45>ABBFGHF?'.8GEBBHE63@61<7CH7 @read_150_104/2 TGAATATAGTGGAATTTATCACACTCTCCTCTGGATTTGCCCAGGCCTTTGTTAATAAGACCTGTTGCTTTTATTGTAGCTCACCTGCTTGCTCAATGGG + 25376+6>.:CCEE>EGHHHHEHHHHHHHEHF@.<33/+:.3(90@?@<@@D@BCC@CBDDGEBF5@A@GE<=?HHFCFGEE<=EDEFFGHHHHH@5=;5 @read_150_105/2 TCGCTGCAAGGCTGAGGCTGCAGTGAGCCACGATCATGTCAGCTGCAAGTTTTGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGT + HHHBGFHFDC5CA=DD/85=+=EEHFC@EED?@@ @read_150_107/2 TGAATCTATTGACCCGGAGATTTTATTTGTTGATGTCAAGAAAATGCATATTATACTATATTTGAGGCTAGCATTGTATCAATTAGCCAATGTTTAACTG + HHHHHHHHHHHHHHHHHHHHGCA:FFFFGGGHHHHFFEHHGHE>GEDB@>GFFGGHHDDGHHHHHFIB.5BED5=EHHGEFFGBGFHHGHEGFA.9ECFG @read_150_108/2 TGAATCTTTCCAGCCCAGCCCTGACTGTGGACCAGAAAGCAAGAATTAGTGAGGACTCAGAGCGTGCCAGGTTCAGGTGCCCAGCACCCATTCTGTGCCT + 7760.6::16>@CBGHHDHHDEGAA=CFFDBFFGFHFFFHF=:11DDD?B@=ABCEHHHEBCDHHDD=?<>C8=B?@D890').)/@=ADDCDD?D<=GG @read_150_109/2 ATAGTGATTAAATATATATGTTCTTATTATATAAATCTTTTAAAATAATTTGACCGATTAAACAAAAGCAATAATAATGGATTCTGGGGTTTGTAACATG + DDBGFD=DDDGHHHHHHH@@HHHHHGHHGGADFHHHHHHDEFE*>.DDHFHHHGG@@@;35365CBEGHFHDC.@FGEEDHHGHHHHHHEDHHHHHGEFF @read_150_110/2 TCGCTGCATGGAGGTAACCTCCAGAAGTTAGAAAATGAAAGAAAATGAATTCTCCCCTAGAGACTCCAGAAACGTCACAGACCTTCCAACACCTTAATTT + HHHEBDCBE@)'271AGGGGHHHHEBHH@@GF8;AHHHE?CFHHFFHFHHHHHGGHHHHHHHHHHHF?AC?=GHFEE=DDGFDGHGHFGH.38FHC5EHH @read_150_111/2 TCGCTGCTTTTCCACTTCAAATTTATCCCTACTCTTTGGCCGGGCACGGTGGCTTATACCTGGAATCCCAGCACTTTGGGAGGCTGAGGCGAGTGGATCA + HHHHHHHEGEGEGEGHHHHHEFAGEFDHHFHHHHHIGFHHFHHHHEHHFCCDDDDFEHHHFFFBEFAADDFEED?DGEGFE@<<)>=FAGBEFHHHGHHHHHHHHHEHHEE=?E=.BHHHHHFADGACCDGGGFBEDDFGGGHHHFGGE73?ADE=D<)0-;=3684<0BE?E @read_150_113/2 TCGCTGCGCTGGTCTTCAACTCCTGGACTCAAGTGATCCTCCCACCTTAGCCTCCCAATGTGCCGGTATTATATGCCTGCAAAACTGTACCTGACCACCT + HHHHHHHHHHHHHHHHHFEGFFHHHGFE@@5?DHHHHHHFEHHHHHHGHFGHHGGHHFHFG@;82.::..20:><@BC6,8;87DEHHHHDBEB> @read_150_116/2 ATAGTGAGTCTCAGAAGGAAGAGTGACACCAAGATGAAAACAGCATTAAAACAAAGCCACAAAGAGACAAAGGCAAATCAATGCCCAGAAAATGAAGTCT + HHHHHHHFCEEEFHHHHHHHHHEFHHHHHHHHHHHB8@ @read_150_117/2 TGAATCTCCACATATCTCATTTGTTCCTTTCCACATTCATTTTCCTGCCACATTCCTGCTAAATTTCCTCTTTCATATGGCAGGTCAAGTAAACTAAATC + HHHHHFHHHFGGG@GHHFEEHHHEEEGGFFG=,A5EHHHHHHHHHHHHHHHHHHEHHHFGHHGHGHHHHHHHD @read_150_118/2 TCGCTGCCTTTATTATTAATACTCAGGACATTAGGAATTTCCAGATTTTTTTCAGTAGCATTTGTAGAACCACTTTTGGTAACAAATACAGTAGTTAGGA + HHGGGHHHHHHHHHHE@EBGGGBCBHHHHGGFFHHFHHHFHEHHHHFDFEGGGGGHHHHHBFDEFHHGFGHHHHGHB5AHHHFFECB@FFDB2:0'6@76 @read_150_119/2 TGAATCTTACTGCAACCTCTGGCTCCCGAGTTCAAATGATTCTCCCGCCCCAGCCTCCCGAGTAGCTGGGACTACACGTGCACACCACCACGTCCAGCTA + HHHFGEFDGEHHHEHHHHHHHHHGGHHHHHHGEFF39DHFHEHHHHHHHFGGGGGHHHHHHGFHFHHHHHHHHHHEGHHGGDGBFFFHHFEHHFCBHHB= @read_150_120/2 TCGCTGCATTCTACTAATCCTTATGACTGGCTTTGAGGAAAGTGAAGCCAAATGCAATAGTACCTAGAGAGTGTCAAAACCGGATTGTGAACCAAGGATT + GEEEDDCGGCFHGEHHHHHFGHHHHHHHHFFF657=CHHHHG?DDDDA<6(GGHGFHHHGHBD?>B/(*.=));70>;@5>CC@FHHHHHEFD?HEDDEE @read_150_121/2 TGAATCTTAATGGAAATAATCTTTGTTCATGCTTCTTGGATCACCTTTCCTAACTTTATAATACCTAATGAAGACTTTCCTCAAGCATCATTTATTGTTA + HHHHHHHHHG@D866BHHHHHCEGECFGHHGGFFFHHHHHHHF>A68&,A@D/6B0*ECDFFHHHHGEGDHHHHHBHHHHHHHFEGGBBGFGBEFGF@D@401.;B;DDDDAHHGGC>9FHFFFEFFGD@C=<GEGHHHHHHHHHHHHHHHHHHHHHHEHEEFH==>/+89:?@EHHHEDCGFGGHHHHHGHE?EA:CBCCEAGHHHHHHFHHFHHHGFHFFH=17;591?D;@9422>6=BHHHHHHHFFEEBEEFHGEGHHHHHFFGEEDBD@FHHHHHHFHHFHHGHHHFH=E@31:<59.>?B<+ @read_150_125/2 TGAATCTTGTCAGGAATCTTATGATCTTTAACCATATATATTTTGTCTTATAGCTAATGTAATAAAGATATTTAAATACTTTCTCCGTCCATATAATGAC + GGFHGEBB:=FHHHHHHHHHHHHHHGFGFDBCFFD59@63BHHHHHEEB>EFFGEHHHHHB<2.?EB@6A@HHHF=HBCFEGEHHD;8>AGG=6@5.DEHGEFFGGGHGGDFB @read_150_127/2 TCGCTGCGATGCTATAATTTTGTGTTATTTCTGATTGTAGAGCTGCTCTGTCCAGCATAGTAGCCACTAGCAATATATGGCTATTTATATTTGAATTTAA + HHHHHHHHGG?:608DEEHHHHHHHHE>+;5.:.>BF@FFDDDG<--FHFHG=4@F6<:EHEFGEFFHGHHH @read_150_128/2 ATAGTGACTGAGGGACTGACCATTAAAACCTACCAAGAGTTAGCTCAGCTGTGGTGGGGCTGGGCCGGAGCGCTAATCAGAGTGCATTCACCTCTGGCTA + HHHHHFGEEHHHHHHHDHEFHHGGGHCCGHHGHGGHHHHHHHHDCEFEHE>@CDGGHHGFHFE<9*86FEHHHHHGBD*GGAC@BCEA??5?BFF<3;3= @read_150_129/2 TGAATCTAAGAATTTTCAAGAAATGATTCCTGCCTTTGGAATTTTCAGACTGCTGATCATCATCCTGATAAGTAAGTGTGTTTTGTGAATACTTCATACT + HHGHHHGGD:27@HHEGHHHHHHHHHHHHHHHHHHHHH?GHFHHHFFB>>?=FD=0<61368DBCHF?E?AFGFHHHHHFHBBEFH6><<*91,2)*(C> @read_150_135/2 TCGCTGCCAAATCAAAACTACGATGAGATATCATCTCACCCCAGTTTAAATGGCGTTTGTCAAAAAGTGAATAACAGAAGTTGGTGAGGATGCAGAGAAA + HHHHHHHHHHGHGGGFGEFEHHHHHHHHHHGE?D@BF?BBDDFHHHHHHHHHHHHFEFHHGGEGGBGEHG=BDFF=.>>4-55=9@ECBEB=:ABDGHFF @read_150_136/2 TCGCTGCCAGTCAGTGCCTGTGCTCACAAGGAGTACAGAAATGTGAGAGACCCATGGAGAATTGTCTCCCGACACATCATTAAATATTATTCTTAAAATG + HHE@>EHHHHHHHHHHHHGDBD8@@DD4FFHHHHGGDDBG5G;GHHHHFHHHEHHDEEHHHHHHHHFB=DFHHHHHHHHEGGHHGGBFFHHFFDEB=26; @read_150_137/2 TCGCTGCCCAGACAGGCAGACCCCAAAGCCCCATTCTCAACATCCATCCTCTAAGGTCAAAGGTAACGGGGAAGCTGCTGCTCAAAACACAGCCGCGACA + EHHGE@?GGHFFEHHHHFEC.6EECDFHHDA/@?3=@CEFEB>D?.-+=>F @read_150_138/2 TCGCTGCTTTGAAAAATGATGGAAGTTGCTTTTTTAAATTAAGGTGGCAACACCACTGATAATTTAAACATTGCAGGCATTCCAAAATGCTGTGATTTGC + HHHHHEEGGHHHFBFHHHHFE8;;=CEF5:?FF6;ADHHFFF>.<.5(FFHHHGGFFEFFGHDEEE@>@=85:..)+9349GFEDAD=A==-3>>5+DD. @read_150_139/2 TGAATCTGATGGGCTTTAAAATGAGAAGGGCTGAGTTCAGATTCTACCTGTGCCATGTATTAACTGTGTGACCTTAGGCAAGTTGATTAACTGCTCTGGG + HHHHHHHHHGGHHHHHHHHHHFHHHHHHHHFHHGGHHHHGHHHHHHHHHGGBEDDEHHHHHHHHHHEEEGFFHHB?HHGHFFBCHFHHHHFEEFFEHFFH @read_150_140/2 ATAGTGAGACCACAGGCTTATTTTGAGGATCAAGATAATGCATGTAAAATGGCTCTAAATTCTTTAAAGCAATATACAGATGCAGATATTAATTTATATC + GBDFHHHHHF>-5@@C@6:AGHHHHFD=DBHFFHHHHFHHHHH@CEFFIFHHHHHHHFHDGFEFDHFHHHHHHFF>AA;1))225<9>:DF??244%.>HHHHEGHEEFHHCBABDDDHHCEF;@5%.7. @read_150_142/2 TGAATCTGTAGGAAAGAGGTTCTATCATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCCATCTATCTATCTATCTTTCCATCCATCCAC + HHHHHFFHHHHHG=FHHHHHHHHHHHHHFGHHHFHIGEFBEHHHHHHHFFEG./DHFGFFDDDE>5EEEGGGHEHHEHHEEABGHHCB6+A8EFCFGGE> @read_150_143/2 ATAGTGAGCCACATGAAAAGTTAGAGCTTTAATTCTCTTACCCAAACTTTTGTATACTTTTGTATCTTTGCATCCATGAGCTCTAACGTGCATAGATATT + GGGHHHHHHHHHHHHHHHHHHHHFHHE;DD?16><7B>FFHHHEEEFGHHHHHHGFHHG@HHH9/')*1;<>>CCHHHCH @read_150_144/2 TCGCTGCTTTTGAAACTCTCTTTTTTCTGGAATCTGCACGTGGATAGGTGGAACTCTGTGAAGGTTTCCTTGGAAACGGGTATATCTTCACTTAAAGAGT + HHHHHHHHHHHHHHHHHEEEHBBBE?19=@BGGHHFFEHHHHHHHGFHHHHHHHHEFHHHHHHHFGHFFHHFDF4>>>DDHHADEEHGHEEFEGCHHHFB @read_150_145/2 TCGCTGCTTATTTATGAGTTTTATCCATATAAAATTTGCTGGTAATCTGCTCTCCCCACAGTTTTTTTTTTTATTGCTGACAATTGAAAGAGGAGTGTAA + 55>6:>;5:>FDFHEGGGHHHHHEHHHGDHHHHHHHHHFGHHBGGD@EEB<<>:023::*6?BFBEEHFHHHBF49DEHHHEE@;>?@DDEDA@C@>@HE @read_150_146/2 TCGCTGCGAATGCCTGCCTAGATCACAAAAACCCCTCCTGCTAATATCCAGAGTATGGTAGGAAGAATCATGGTCCCCCGAAGGTGTCTCCCTCCTAATC + B723.@GFHHHHGHEDHHHHE8>.;FHHEEHHGBHHHFFHFFBB:GF=BFGFGHHHHHHHHHHHF?BDFGFFGHHGFFDDHHHHGGHDED@CDCFFHHHE @read_150_147/2 TGAATCTCTATTGACTGTATTTTGTCTTGATAATGAGTTATATTTCCTGTGCATTTTCATGCCTACTAGTCTGATTTTATCCTGGATATTCTGGATGACA + HHHHHHHFHH=;:40/=FHHHHHHFHHEEBHF=CEFCDFFHFHHHFD;@AEEHGGFEGHEEGFFDHFGHFHHHHFE?,>>BBEHHHHHHCBHHHHFFCEF @read_150_148/2 ATAGTGATTCAACTCCCCTCTCTTCCTCAAGGAAGGAAATATTCAGCAGGAAGTGCGACACAGCTGTAGTTCGAAGGCACTGGTGGAAATTCACGAAAGC + HFHHHHHHHHHHHHHHHHHHHHGHHHHHHHHHHBEEC:6@DEECFHHHGG?BGGEHFGHHGGEGFHGDE=(957@HHHHHHHFC91.8==DBDA>),;@/ @read_150_149/2 TCGCTGCTAGCTCCCCTGTTTTGCTGCTGGCCCAAAGATTAGACTCCTAGTCACAGGGATGACATAGTTTTTAGATCGGAAGAGCGTCGTGTAGGGAAAG + HHHHHHHHHHHHHHH>?@CHHHHFBFHHHEHEEHHHFEEEHHHHHEGBB9BCCEE;C@DGDC5>.@DGG=:./DAA>=DH@>:?HHFHFED927@@FHHH @read_150_150/2 TCGCTGCCATTGTTTCTAGGAAGTAACTAACTTCCTTTTGATTTTACAGTCTCATAAGCAGAAGGGACCTGCGTTGTTTTTGATGGGACATTGGACTGTG + HHHHHHHHHHEBGHFGGHHHHHHHHHGGGEFHHHEDEECBFGHFHHHHHEECEGHHHHHHHH@=?A72/8EBFGEHHFFE9<<9D>A>CAFEFDDGFEFE @read_150_151/2 TCGCTGCGGTATCTAGTGTGGTGATACTATCTAGTGTGGTGTCTTGCAACAACACTGCTAGTCATAGGTCTGATTTGGGGGAGAAAATAGTTTTGAGATC + HHHHHHHHHHHHHFHGFHH?DGGHHHHHHHEHDGGHEHHFGBFGDGFFFHHHHFED.7CB<<G?F@HGHHHF?FFE@CEEEE*435:=A=?HHHHHH @read_150_152/2 TGAATCTAATTAAGCAAAGGAACAGAATAGAGTCTAGAAATAGACCCACACATAGAGACAACTGATTTTTGATAAAGGTGCAAAGACAATTCACTGGGAA + EBGFHHGGGFFGECHHHGGBEGHHHEEHFBFFGGHHHGHHFHHHEAFDBFHHHHHHGHFDHHE8BGEHHFHHGFHHHEIGHHHFECG6;88<<:1@4F<8 @read_150_153/2 TCGCTGCGATGTACAGAATTTTTTTTATTTTGGTGAAGTCTAGTGTATCTGTCTTTTTTCTTTTGGCTATGCTATTGGTGTCATATTCAAGAAGATTGCC + HHHHHGHHHHHHHHHHHHHHHHHHHHHHEDFGGHHHB6735AHHHHHHHHHHHHHHGHFHGHHFFG@CEHHHHHHGFFGDHHHH?5:A=BHHHHGBGFGG @read_150_154/2 ATAGTGATAAAAAAAAAAAAAAAAACATGTGGTAAGGGCATACAGTATTCAGAGAATGGTCAGGAAAGGCCTCTGAGCAACATTTAAGCACTGAGACGGC + HHHHEHHHHGGHHHHHGGEFHHHHHGGGGGG@<:.9DFFFF=EGGGGGGDFGHHHGDBDHHHHFGHFHHHHGHDFGHHGHHEBFHFGHHHEEDEA<< @read_150_155/2 TGAATCTCAACTGAAGGATGTCCTCTGCCCTTTTTTACTTTGCTCCAGCCCTGAGAACTGATTCAACCTTTTTTCCTCCTACTTGTGAGGAAAGAGTGCC + HHHHGHHHHHHHHHFGABEHHHHEGHHHHHGGHHHBEHHHHHGHHGBGGGHHHHHHHHHFHEHFHGDGHHHDHHHHHHFAGHFHHEFCCHFFHDEDFHF2 @read_150_156/2 ATAGTGATCTAGGCAAGCGAGAGAGAGAGAGTGAGAGAGAGAAAGACATAATTTCTTGAATTTAGATCAGAGTACCTTTGCCTGGAACCAATTAATTCTT + GFFHGHHHHHHHDBGFHEEEHHHHHHHDFHFHHHHHHHHHHHHHHHBHGHHHHHHGGFFE>DHHHHGGI@233BIDDHHHE@5053CBHHDEEHHHFB.8 @read_150_157/2 TCGCTGCAACAGGAAATCACTCACAAGAAGCAGTACTGTGTTTAGAAGACACTGCTGAAGATTTTGGGGGTCCAGAGATGGTGCCACTTAGTGATCCTCT + HHHHFEGEGHGGGHHHHGDCEBGHHHHE;GHHHHHHHHFFHFHHHHHHHHGGHHHHHHHHHHHDC:79CFDGFHHHHHHGGEEE>3-EEEB>>34&@9?? @read_150_158/2 ATAGTGAACCATCACAGGAAGCCGCCTGCTTTCTTCTTTAAACTTAATATAGGGCTGCTTCGGCCTAAGGGTCCCCATGATTTTCCTTCTTTCTTGGTGT + HHHHGHHHHHHHHHHEGFGGCCE;EHHHHGHHC?HHHHHHHHHGGHHHHBGGEFHHHHHHHHHHHHHHHH38GBHHEGHHEHHHHDHHGBC<9@::>@FF @read_150_159/2 ATAGTGAACCACCTAACAACAACCCACCATAAACCACCAAAGAAGGGAAGCTCCAAGCCGCCTCACCCACACAGCACTGCAGAAGCGTCACTAGTCACAA + GGHHHHHHHHHHHHHHHHHFHHHHHHFFGDDEHHFHHHHFDDDHHFE=BHHHHHHHHHHHGDGDDAD>?@FFGHHFI:)875?C?EHF>>@BHH?HHHGE @read_150_160/2 TGAATCTGCAGAGAGAGAGAGACAGTGAGAAATTGAGAGAGAGACAGTGAGAAAGTGAGAGAGAAGAAAACAACAATAACAATAATGGAATGAATTGGGT + FEHHHHHHHHHHHHHHHHHHFDEEHHHHHBHBFG>EFIGGDDHHHHFFFHHHHHHGHHHHFHB@@>.DHHHHHHHFHBFF@BAGHHHHHD9>DC?FDCEE @read_150_161/2 TCGCTGCTACAAAAATTAGCCGGGTGTGTTGGTGTGCCTGTGGTCCCAGCTACTCAGGTGGCTGAGGCGGGAGGATCGCTTGAGTCCAGGAGGTTGAGGC + HHHHHGEB@FHHHGFBACAHFHHHHFHHHHEHHHFFHHHHHCBBGB(18BE96;829:3FFEBE@>E?>;7387EHBHHG5?AGD<.:<1:AA>EBECGG @read_150_162/2 TCGCTGCCAGATTAAGCTTTCTAAAACAGAGCTCAGATATCACTCTCCCTCAAAGAAACCTGGAGACCCAATGACTTGTCCATTAATCCTAAACTTCTTT + GGGDDHHHHHHHFF=*27BEEGFHHHFDCHGFHGBEFHHGHHHHHA6?HHHHHHHHHHHHHHHHGFHHHHHHHHHHFHDEFC:AAFHDEHBFDEHFHGHH @read_150_163/2 TCGCTGCACACAAAGACGCACATGTACAAGCACACTGAAAGAGTCACAGAAACAAAACATATCAAAGCAATAGGACCCAACCTGAGCAATATAGCAAGAC + HHHHEGIHHHHDEEHHHFGGE7>HGGFA<@@/ @read_150_166/2 ATAGTGAGACTTTAAATTTTAGAAAGTGTAGATATACAGCAAAATTGTGAATAGTACAGAGTGTTCCCCTATATATTCTGTACCCAGTTTTCCCTATGGA + BGG66>?<9C..CCCBB,??EB;BA=BFHHHHHFHHHHHHHHHHHHHHHHGIIEE5GHHHHHHDDADDHGEEEFHGEBFFB@.AD>BB@CFECFCACH @read_150_170/2 ATAGTGAGTTGCCCAGGCTTGTTTCAAACTCCTGGGCTCAAGCAATCTTCCTGCCACAGCCTCCCAAAGTGCTGCAATTACAGACATGAGCTACTGCACC + HHHFDB@EHHHGEHF8:5?:DDEGGHGC?CA:=A@GEGGGHHECHFEHHHHHHHCC;DGEGHHFGB?HHHHE==EHHH7,73<4@:@GGHEEDDC.9.8< @read_150_171/2 TGAATCTAACAGAATGAGAAAAGAATAAGGATGAAGAGAGATTTGTATGATGCCATCAAGCATACCAACAAAGGCATAGTGGGGGTCCTAGAAGGAGAGA + HHHHHHHHHHHFDD62EE@@DHHHHFEGDHHFHHFHHHFC>,>5F2&468DFFHHHFGFFBEHHFHHHHFHHHHHHHHHFDEDEEHBD@FFGGHHHHHHH @read_150_172/2 TGAATCTGTATTTGTATAGTTTCCAAAATTCCTCTTGTTATTGATTTCTGGTTTTATTCCATTGTGATGAGAGAAGATGCTTAATATTATTTAATTTTTT + HHHHHHEFGGHHHHHHHHHHHHDDE=DDD?CHHHHHFHHFE>;BG@FFFHFGFFHHHHHHHGGCCAE@G@B<9A<>DHHGG8@B=BCEFEFFE>,>:?D8 @read_150_173/2 ATAGTGATGTTAAGCTGTATGGCTTTGGGCAAATAATGTAATCTCTTTAAGTCTCGGGATCCTCATCTGTAAAATGAACTGAATAATATCTACTTCCTAT + EEHHHE;GHHHHGHHHHHFDECFFHHHHHHHGEGGAEEDHFHFHHHEDHHFFHHFHHHHHFHEHHGHFHEEFHHFEEEF;A??DBGHHFEFF.A+656@@ @read_150_174/2 TGAATCTATCAGTTTTCAGGATCTTCTCTAGATGTCTCACCTACCGTGACCACATTAAGATAGAACTACACATTCCTTTTAAACTTCATAGTACTTTTTT + HHHHHFDGEFEGGGHHHHHHEBGG29>5BH@?@FHHHHH@DDB@.:1<;CEGEGEEEEGGEHHEDF?>BA@:?6A=6-30<=F? @read_150_176/2 ATAGTGAGTAGAAAAGGAAAACCCATTTTCTGAAGAGGAATTCAAGCTGGCTGCAGAAATTGATATAAGTAAAGAGGAGCAGAATCTTCATAGCCAGGAC + DE5-16?A@DFDGGEBEEACHHHHGHHHHHHHEDHHFHHHHHHGHHHBE?AE89;>>FEHHHHHHHHFBHGB9>>FFHHHHFFEIHHHFFFDBHFDFG9' @read_150_177/2 ATAGTGAGTCTGAGACTTAGGTCCCTTCTAGATTGTAAGCTCCTTAAGGGGAGAGCCTGAATCTGGATTGATTGATTGATTCATTCATTCAGGTCTTTAT + HHHHHHHHHHHHHHFHHHHHHHHHHHHHHHHHED;BFGFHHHHHHFHHHHHFGFGHHHHGC38BF4=GDDHHFHHHHH;B3,-?=EFHHEBGHGDED;>.:;CFFC? @read_150_179/2 TCGCTGCACTACAGGCTCAAGCCACCACACCCGGCAATTTGTTTTTTTTTTTTTTTGAGACAGTCTCACTCTGTTGCCCAAGCTGGAGTGTAATGGCACG + /@FHHHHHHHHHGHHHHEECDBFFFHHHHFHHHHHHHHHHHHBBHHFGGEFFGGGBBC@CEGGEEHDFEHEBEEEGGGGEHHHHHHHFF;=D:=CB69.7 @read_150_180/2 TGAATCTCTGATCTCAAAGAAATTCATTCATGCCTTGCATTACAACAGGGATACATTCTGAAAAAATCATCAGTGGGTGATTTCATCATTGTGCGGGTAT + HHHHHHHHHHHHHHHHHBGHHHHHHEEGGHHHFHFFHHHBFFHHHHHHHHBCFFFG=DGHHHHHFHHHHHHFHHHFDB<,4>:5@/*8:;EFB@=CDFHHFFFFFECGGHF?@>:EHHGGBFFHGHHHE;*3.;FBGDDD?FHHDEGEFHFH@= @read_150_182/2 TCGCTGCTCAGGGAAAACATGGAGTTCTATGGGATTCCAGAGGTGCCTCACTTCCTCCAGCTGGGTTGGAGAAGAGGCGGCATTTCTGGAGGAGGTGGCC + HHHHHHHHHHHHHFHHFDDEBGD.D=EDDABDA.5@?HHEA1-'.GBA.,&-46?EBBBEEBEE=A@AHHHHHHHHHHHHHHGEHEEDBC@CB@@9.623( @read_150_184/2 ATAGTGATCAGATTCACCAAAGTTGAAATGAAGGAAAAAATGTTAAGGGCAGCCAGAGAGAAAAGTTGGGTTACCCACAAAGGGAAGCCCATCAGACTAA + HHFFECEE<->>366GFHHDBEGGHHHHHHHHHHFHHHHFIGGB=AIGBFGGIFEHHHHHG?==E@@DDAGFFHHHHHHFGGDC=B@DFF?+7DFDF?02 @read_150_185/2 TGAATCTCAGTGAAATTATTTTAAGTGCTATGCTTATTTAACCTCCTGAACAGCCTTAAGAGATCCGCATAGATCGGAAGAGCGTCGTGTAGGGAAAGAG + HHFHHHHHHHF=DHEHHHHHGHHH=A=FC@;@A??FFD:ACBEDF=CEFFHHHHHFGDDHGF=FGGF.;.4?:<0+87@GHHHF7;@4DCDFHHGG:17A @read_150_186/2 ATAGTGAGAAAGGAACAACTGATACCAGCCACTGCAAAAACATGCCAAATTGTAAAGACCATCAAGGCTAGGAAGAAACTGCATCAACTAACGAGCAAAA + HHHHHHHHHHHE@?BCBGGHHEE?EHHHHGE5BFHHGHHHHHGG;D=CGB?FFECEHHHHHHHHEHHHHHFFFGDFFGG=>.5>;=GGHHHHHGDEHHEH @read_150_187/2 TCGCTGCCAAAGCTACATACGGCACATTTCCCAGAACATGCCAGGTGGAGCCTGGCCCTGTTGATTGTGTGTGGCTGTCACTTGCAGTTTTGAGATCGGA + HHHHHH><@GGGEE>GEGGGFGGEEBEHFGEEHHHHFBBDEHFHHHHFCGHHHHHHFBBDFFHHHGHHEEGHHHHHFGGGGHEAD008&0+.8:7.<@<<5959EEHHHGEGGG@HEB=GHFCDFDCE?94AEF.;FEEG:,;E;E @read_150_189/2 TCGCTGCTGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCAAGGCAGGTGTATCGTCTGAGGTCAGGAGTTCTAGACCAGCCTGGCCAACCT + HHHGE=@A.7=DF8/DD5:.:<),39DEBHHBGIGEBGGDHC?:=B@DEBGHHHHB7:<-7@>58@=FFGGDGGHDHHHEDHHHGHHB>CFCCH<+.5): @read_150_190/2 ATAGTGAGGTACAAGCTGAAACACAGGCAGCCTGGGGCATGCCCCAGCCCAGCCAAGGGCTGAGCCAGTGTGCAAGCCAGGCGTGGCCAGGTGGGCTAAG + DBFEEEDDGEEHHHHHHHHHHHHHHHHHHH9FHHEEHHHHFFGCFHHFGGGHHHHHHFFFGDAEEA@DGHHHHHHHHHFHHGFFD@BBE?EHHFHDCDCB @read_150_191/2 TGAATCTCTGGAGTGCAGTGGTGAGATCTTGGCTCACTGAAGCCTCCACCTCCTGGGTTCAAGCAATTCTCCTGCCTCAGTCACCTGAGTACCTGGGATT + HHHHHHHHHHGFFFGHHHHE.7=FHHGGFGHHHHFHHGHHHHHFHHBHHCGHG@?17BDHHGGGFGHHHHEEDDFHB;4827--6-*:->?;EHHHHGHHHHHHHHHHHHHHHHCFHHHE=HHHHDDBGGFHFBCEDH @read_150_193/2 TCGCTGCCTCACATACTGTTTCCTCTGTCTAGAATGTTTCTCCCACCTTCATTTCTTTTTCTGGCCAATTTATATTCAACCTTCCGTTTGCAGTCTTAAG + HHHGFHHHHHHHHHFGHHHHHHHHHHHGGFCEFEDFHHHHHHGHHHHHHFHFHHHHHHECEGDFFHHHE344>?HFBBHHHFBF8>:7;';C@BBEHHFH @read_150_194/2 ATAGTGAGGCATATGTGCAAAGTCTGGAGGAAACCAGATGCAAGCTTTCAAGAATCCCCTTCCAGTAGAGTCACATAAGATGTGCTTAATTTCCCATTCA + HHHHHHHHHHHHHHHHHHFEFHHHHHHHGEHFHHHFFEE@:?DEBHHHGFHHHHHHHHHDGHHHHGFHHHHFFHFFFHG@DFGEHHHGGBHHFGGGHEGC @read_150_195/2 TGAATCTATGAGTCCTGGCACATAAGAGTACAGTATTATTTTTTAAAGCTTTATTGAATCTCAAGAAGTCCTAGGACAACTATTTGAAACCAAGTAAGAA + HHHHHHHHHHHHHHHHHHHHHHHHHHGGBFFHHHHFBCBHHFFEGFHHHHHH@>4D@D=FHHHHAHGGGE=@=EDG*ECDEFFF@BEBEEACAC @read_150_196/2 ATAGTGAACACAATTTTCAAAAGAAAAGAAAGTTGGACTTACTATAAAGTTATAATAGAGTATGGTATTTGTGTAAGGATAGACATATAGATCAGTAAAA + E@@723@@E?DDFHHHHHHHGAGEHHHHHG==FGHFDGGHHFHHHHDEFHHHHHHGGGHHHHHHHHHHHF=;EGG:;?3?:?DFHFHHEEGGGFB>@DDG @read_150_197/2 TCGCTGCTAAGATATAACAGTAAACACAATTGAATAGAAACAATTTTTACTCATTTTTTAATGTAGTCTAGGTATGCAGCTCTCTAATGGTTGGACTCTG + HHDB=GHHE?EGGGHHHHHHHHHHHCHHHGHHHHHHHHHHHHDEB0>9>;GFDEGFHFHHHHHHHGGEF;9?CDFCD=EHHAD?@EBAA<>GGHHHHHHH @read_150_198/2 ATAGTGATGAAAGTTGCTGAATGTGATGGCAGCTCAGAAGTCAAACACTTGTACACTTAATCCATAGATCGGAAGAGCGTCGTGTAGGGAAAGCGTGTAG + HHHHFEEEEHHHHHHHHEEFHHDHHHHHFHHFHFFHHHHHHHHFHHHHHGD@@=9CGE@>DHFEHDDEGGHHHBHHGBG9<:154BF@C555%,;AEC88 @read_150_199/2 TCGCTGCCGTAGAGACTGGGTTTCATCGTGTTAGCCAGGATGGTCTCAATCTCCTGACCTCGTGCTCCGCCCGCCTTGGCCTCCCAACGTGCTGGGATTA + HHHHGHHHHHHHHHHHGHHFHHHHHHDDEEGEGFFFHHHHHCFFHHGFHFHHHHHHFE;:9<93'8.@6?HEEGFHGE@@DEDHHFFDC/3:ECHGHHHH @read_150_200/2 ATAGTGATTTTTTTCTAATTATGTGAAGAATGATAGTGGTGTTCTGATGGGGATTGCATTGAATTTGTAGATTGCTTTTAGCAGTATGGCTATTTTCACA + HHHHHHGGEGGGHHHHFEFF=BBFGGHHHFCGHHHHGECBFFFEBEEDDHHHHGDDDGFHHHHHHHGHHHHHC?@?EGG38%0D>@EEHFHHH @read_150_201/2 ATAGTGATTATACATTTGAGTAGTCTCTGTAATCTTTTACTGGTTAATTTTTTGTATTATACATTTATTTTTCATCTCATGAGTTCTTGCTTTTGTCTTT + HGFHEEFFHHHHHHHHHHHHHHHHHHF@EEHHHHHHHHHFHHHHHGDFB;DDEEFHHGEEDCA;@EHHHHHHHHFFFCEGFGFB?A5@F>/?477)--37 @read_150_202/2 TCGCTGCGAACTTAAAGTATAATTTTAAAAAAGAAAGATAAAAAAATGCATCAGCATACTGTTCAAGTATGCTGAATTCTGTATTTTTTTCCTTTTAATC + AAACGFGFHHHHHHHHHHHHE?EG?D>:<99).>;BGHHFEEHHHGGFHHHHFHEEHFGFBGFH@BA5DGCBA?FDDHF;EEGGI=>.7@DEC7 @read_150_203/2 TCGCTGCTCCCCTTCCCAATTAATTTTATAACAAAGTTAGTTAAGAGTTTGGCCAAAGAGAGAAAAAAAGTCTGAAAAGAAAAAGCCTCAGAAAAGGCTT + HFD;<5GEE6936BDEHHHHFCHHGHFEEG?DFADEGHHHHHA'<512.BDFHHHHHHHGHHHEF;3::>DCGGEFDBBFHGFGEHFGDFEGEFG@@.@= @read_150_204/2 ATAGTGAGCATATGCTCCAGTACATTTCTTCATGGGTACCTTCTAAAATATTCCTATATTTTAACTGTCTTAGCAACAACATCATCACTCCCAATTATAG + HHHHFHGHHHHHHHHHHD=.;>946;DBEGEHFFFGHHHHFHFHHFEFHHHHHGHHHHHEHEGHGEGGHHHHHBBFEE5:-6=FHD=D.>55.9DFDFFF @read_150_205/2 ATAGTGACCTGTTGGCTTTGACTTAGCTCAATCACCTTAACCCAGTGTCTTAAAATTCTTGATTTTGAGTTTCTTATCCATCCAGTTTATTTACACCTGA + DC@C8DEFGGHHHHHHHHHHHHBGBHHHHHHHHB@DGE=HHHHHHHHHFFGHHHEEDA?BEGGEEF=FCC?@GGGFHHHHG:@AEDFHHHCHGGHHD@79 @read_150_206/2 TCGCTGCAGAATCAATAGAGCATTTGTATTTATGCTGAAGGAGAGAATTGAATTTCAAGAAGTGAGTAGTTAACATCAAATGCTTCGGAGAGGTCCAAAA + HHHHHHEGHHHDHHHHEEGGDHGGGFFFHHEA698=BGHECHFGEHHHHDFFHGEB=@>.??81206@DD??HHAFFHF?HHGBGA<0 @read_150_207/2 ATAGTGAGGCCTCCCAAAGTGCTGGATTACAGGTGTACGAATTAAACAAATAAAATGTGTTTAGATGCATCGCCACTCCTAAAACTACATAAAACATAGA + FHHEFHHHHHHF==FHFFGHEDA@BGHHHHHHGHHHFHHHHHHHFFFFHHHEHHHHHHHHHHHHGHHHHHFE747E:FGBDDEF?EE: @read_150_209/2 TCGCTGCTGGACTAGAATTAGAGCTACAGATATCAACTCATGAATTTCAATGTATATAAACATAAATATGTAAATGTCTATACACAGAATACATATATTC + HHHHHHHHHHHHHHHEFHHHHHHHGHEEGA??EHHFEEFHHHHGGGGFFHF@FHHHHHHHG@7.>=GGHHC=CBCGGE6A557>:D?GD;44@.2,17(1 @read_150_210/2 ATAGTGAAGATGGCCTTGGCCAGTAACAATGTCATGCTTTCTATGGTGCTATGTAAAGTCAATGTCTCACTTTGAATCCAGCCACCAAAAACCAAGTCTC + HHHHHFHHHHHHHHHH@FHGCBEHHE>GFFEHHHFFFHGGHHHHHGHHHHHHE?==@==EHHFE77EFGFFFFHHHEHG?67'-52? @read_150_211/2 TGAATCTCTGGGCTCTCCAGAGTTGGGCCAAACACCTTACTTTACAGATAAAGGAAGTGGGGCACACCCAGGGGTAGAAACCAGCCTGAGGACTTCCAGT + HHHFEB.B<>DGGA9-<;HHHHHHFBGGHHHGE?<*4992@C4=1>9;.EGEBGEHHEEBB@ADHHHHHHE?>B6;ACEFGGGFHFHF./8(?B@CDDD>7D/@2:DDC?++++ADGFHHHFFE<4ACCHHFFFDGEDB6-;CE @read_150_213/2 ATAGTGAAGTAGCTGGGATTACAGGCGCGCGCCACCACGCCCAGCTAATTTTTTTTGTATTTTTACTAGCGACGGGGTTTCACCATGTTGGGCAGGCTCG + =DDEBFHHHHHHHHFHEC@7;GHFHGGHF?BFEEFHFBCD9,<6BF?EGEHHHHFFGHHHHHHHHGHEHHEDFHHFHFHHHHFFFHBFHB5>;EEF56,3 @read_150_214/2 ATAGTGAATATATCATAACTCCTTCCCATGCCAGTAGACTTGACTCCAATGTAATTGTTTTAAAGGTACATTATATCTCATACTGTGGTGCTCCATAATT + HHE@?=FFFHHHHHHHFBDDFFHGHHHGEFHHHEDHHE=8A<>DHHHHHHFHHHHHHHHHHHHHB>CC@568@98;;?FGFHFGFCE>FCDDBF8GIGGH @read_150_215/2 TGAATCTTCATCCATCTATACTTTTGTCCATCCATCTATCCATCCATTCATCTATATTTTTGTCCATCCATCTATCCATCCATTCATCTATATTTTTGTC + HHHHHEHFHHHGFGGGEDEFHHHHHHHHFFHHHHHEF@<>.>C=?CFFGGDCBDGHDHHHHHHGHGHGIFDDDEFDGDHEHFCGB94:FCEFFFCG5858 @read_150_216/2 ATAGTGATGAACATGATACAAACTCATCCCATGTTTTTGAAATGGATATATTTAAGACAAAAATGTTAATAGCACCTCCAGGATGCTGGTTTCCAGGATG + HHHHHHHHHHHHH@BGHHHHHGB@FHHGAC5;>;>E92>>-@GGG:5<-GFHFF @read_150_217/2 TCGCTGCTACCCTTTGACCATCACTGAATTTTTTTTTCTTTTTCTTTTTTTTTTTTTATGAGACAGTCTCACTCTGTCACCCAGCCTGGAATGCAGTGGT + HHHHFGHHHHHHHHHHHHHFHHHHHHHHDEHHHHHHHHDCCFB9:FEHHHHHHHHHG69.193915CFE;FHHFFHHHHFEF?CDDEEEFGHDDDAFGGH @read_150_218/2 TGAATCTGTCATAAGAAAGGAGAGGAAGGGACATAATCCTGTGTGTTTACCATTTATGTGGTCTCTTTTCATCTATTATCCATTTAATCCCTGGACAATC + HHHGD>???A>7;FFHHHEHGGGGGFHHHHHHFHHHHHHHHHHGHHEFFFHHHHFHGGGHHHHHHHCFHHHHHHFFED.EFIDHFF?G;@EFABBEHHHH @read_150_219/2 TCGCTGCCCTATGTGACAGAGCAAGACCTTGTCTCCAAAAATAAAAAAAGAAAAAAGAAATACTTTAGTTTTGAGATCGGAAGAGCGTCGTGTAGGGAAA + FHHHFEHHHHHHHHHHHBDGBHHGHHHHD@AHHHHHHGGGEH>><@EHFFHHHHFHHHHHHHHGHHHB@=C@DDHH@DHGFDHHHFHHHFHHFFCD>>9EFH=CEEDFE;,;EEEDFHHGHHFC;D5 @read_150_221/2 TCGCTGCTTGTAGTAATATTGTTACTGCTATAAGAGGGAAGGAACATGCTAGCTTTCCTCCTTGTTTATTGAATACAGCCTGCCATAAACGCAATTTTAT + HHHHGHHHHHBEE:=EHHHHHEGGCHHA:1<<@99575.8EDFFHHHHFF:8D@DGEHHEGGFFHHGHG@E=7862-28DCBHHHCE:E9(3HFHEC=/; @read_150_222/2 TCGCTGCAGTGAGAGGTTTAAGAGGTTAAGATGAACTTAAAGAAAAGAAAGAGACATCCAGAAGAGGTGACTGAGTGTAAGTAGAAGCAGGAAAGGGAAA + HHHHHHHHHHHHHHHHHHFHHHFHHHHHHHHHHHHHHHHHHHGGGFHHHHHHHHFHHHEE@EC'BBHHHHHGFFF?EEFFHFFDC6BDFE@ADB@EHHHHHHHHHFGAEHHHHHFHHFHHHHHHHHHHHFEHHGGHE=.A81107AGHGFHHHBEGHHBEFFEBGHHHHF>5--;=DBB/DGFGHHHGF;88@5&3EEGDBDD>,%,CEEEFB @read_150_226/2 TCGCTGCCAATTGAATCATGGGGGCAAGTCTTTCCCATGCTGTTCTCATGAGAGTGAGTAAGTAACACGAGATCTAATGATTTTATAAAGAGGAGTTCCC + HHHHHHHHHHHHHHHHHHHHHFHGHHHHHHHHHHHFDHHHFGGFHEFFHHHHHD@@7-396)))3@>>5<)7@EGG;EFFEB9-116('(,-3BEDCBD? @read_150_227/2 TGAATCTTGTCAGATGCTCACTCCGCATAGATCGGAAGAGCGTCGTGTAGAGACAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAACAAA + HHHHHHHHHHHHHHHHHHHHHHDGHHHHHGGDBFFEEGEHFHHHHHG?>@(-((:>C@EC@::GCGGFFHG57@?(4EGDD@;::CFHHHHFH@'%-+,6 @read_150_228/2 ATAGTGAAGGTGTTGCCAAAAGAGACTAACATTTGAGTTAGTGGGCTGGGGAAGGCAGAACCATCCTTAATCTGGTGGGCACAATCTAATCAGCTCCCAG + B@EDHDFIGCBEEEEHHHHGCCBEHHHGEGHHHHHHHHHHHB;5@,3/@DEBDCA<DFFHGGHHEFFDDHHFFHFFEEEHF @read_150_230/2 TGAATCTACTTGGATGGGAGATACTAGCGTAGGATAGAGTGGATGCAGATAAATTTATAAGTGGCAGAGGGGCAGAATTTGAAAAAAAAAATCCATTTCA + HHHHHGD@=FBCAGHHFCDFEHHHHHHHHFFCFADEGGFCBEBD;)=?AHHGGGGHHHHHHHGHHHHHHGHHFD7;A=5D@@E;9ABEBHDEFFDFFEBG @read_150_231/2 ATAGTGATGAAAAGTGTAATCTCTGTCTAAATTCACCTTGTCACCATGTAGAATTCTAGCTACTCCATCTTCATTTGTTGAAAAGACTGTCCTTTCTCCA + DGHHHF@DA>CAA@HHHEGFFGGGHHHHHHHHHHHFGGEGHFHHHHHHHHHHHHHHHHHHHHHHGGBBDGEDHHH?9:<>BFGHF;BGFGFBFGHHHHE= @read_150_232/2 TCGCTGCTTATATCTGTAGCTAAGCTGATATGTTTAATTTCCTAAGTCTCATATATAAAAATAAAGGTTATATGAAATTCTATGTTACTAGTGAGGTTCT + HHHHHEFHHHHHFD=C;*33):DA1.D?HHHFGGHEEDDDHFGGGFHHHDDDDEHHHHHHHHBEGHHHHHGBGGG@,CHB.?=<2%'%%?BGCDFHE@?9 @read_150_233/2 TCGCTGCCCAAGGCTCCCACGGGCACAGGCTCAAGCCAGCCTGCTAGAAGGTGAGATGCTGCCCGGGGGAGAACTGGGGAGCCCTGGCCGATGGTCTGCT + HHHHHHHHHHEHE8BEEHHHGHHHHGHGDAAFHHHHHHDEEEGHHHDHHHHHHGGEE(6-81'.CFFHHHHHHC.6AECCHHBEFHGGHGHHHGFGGGFB @read_150_234/2 ATAGTGAGAAAACAACCTGCAACCAAATTAGTGACTGAATTTTTTAGTTAACTCAAAATTCCAAATCAGAGGGTTTTGCAATGCCTGGAGGAACCTTGGA + HHHHHHHHHHHHHHHHHFGHDGGGFHHHHHEBAAEGHBEEFFHHHF:;FHHHHH@>C83@FHHHHHHHHHHHHHHFBHHHGGGCFEHEHHHFHBEC?>@1 @read_150_235/2 ATAGTGATTCATTTTAGATGTTTGCTGTCAAGTTTTGCTTTTCCACGAAACAAGCAGTTTTCAGCCCAGCAGGAAGTTAAAAACACTGGTAAATCAACAA + HHHFGHHHHHGE*=AFGGFGEB@>95>:,CHHHHHHHHHHHHHHHHFHHHGDEEGHHHHHHHHHEBHHHFEEDFHHHHGHBEDDDGHEFFHHH?;5A?D@ @read_150_236/2 TCGCTGCGGGGGAGGGAGTTTGGTGCTTGTCACTGACGCAGGAACAAGGTGCTTTCTGTAGCTCTGATTTGTTGCTGGCTGAGTGTGAATGATGTCAGGC + HFFGEHHHHHHHGA::@GGFFGGHHHFD@@DHHCCFGFEEFDHGGGFGHHHHHHHGC>7DFE<2):@C;@D@/,7>?AFEHFDFHHHHGA@?;A@9DFFD @read_150_237/2 ATAGTGATATATTTGCAGAGCAATATGAGAAAAAATGAGATTGCAATTTTAATTTTGAAAGTTTTCCTCTTTTTAAAATTCTTAGTCTCATTGAAACGCT + DDHHHHHHDHHHHFHHHHHHGHHHHHHHHHHHHDA:3>41<0:DAFEGG@GGGGHHGD@@66EHGHHF835.5*-(&61 @read_150_238/2 ATAGTGAAATGACATTTTGAAACAAAAATGTTTGCTTTTGTTGACATTCAATGACATTTTGTTGATTCTTTTCAAAAAAATCTTCTAAATATTGTATGTT + HHHFHHHHEHHHHGFHHGFHHHHHHHHEEEHHHHGHHHHHHHHHHHHFHFFFFHHFGHHHHHHFFB>1.:-=&99GCDGGHHHGGGGE80CB95=?HEE; @read_150_239/2 TCGCTGCGTTCTCGATCTCCTGATCTTGTGATCCGCCCACCTGGCCTCCCAAAGTCCTGGGATTACAGGCATGAGCCATCACGCCTAGCCTATGACTGCA + HHHHHHHHHHHHHGGHHHHHHGGGEEHHHHHFEHHEEFEDEBHHHFFHHHHHHHHGEGHFHHHHHHHHHHHHHHHHHHHHHHHBFFHHHDDCACHGEBCF @read_150_240/2 ATAGTGAAGTGCTATAAATTTTTCTCTAAACACTGCTTTAGCTGTGTCCCAGAGATTCTCATACATTATGACTTTGTTCTCACTGGTTTCAAATAACTTA + HHHHGDEEEFGHHHHHHHHHGFFFFFEHHHFFHHHHHHHHHHHHHHHHHHHHHHHGBGHHHEB?E:*:>>DA5;.@CCE:=;=>>D=<<;38>?CFFCBF @read_150_241/2 TGAATCTAACTAAGAGGTTGAGCATCATTAAACAGGGGATGGTGTGAACTTGGGAGCCTCTTGATGTGACACAATACAAAATGCACTGCAGCATCTATGA + HHHHHHHFHHE=CDDDDE4DGHHHHHHHGHHHHHHFFHHGD58(;BBDADBEHFEGGAB.BCBEDEFHHC'.><:5CC>>AEEFDGG@@AB;7/BGE=EGFGBBB=>>?HFHA@.1)&21;36<',<>.&:39FF @read_150_243/2 ATAGTGATTTTTTTTTTTTTTTGAGACGGAGTCTTGCTGTCACCCAGGCTGGAGTGCAGTGGCGAGATCTCAGCTCACTGCAAGCTCTGCCTCCCGGGTT + HHHHHDFGGHHHA@HHHE=BEGBD8EHHHHFBFG>DD@@HHHFFFEEBFHHHEE?;DFHEHEHHHHHHFEEHDGGDBABCBDBFFF?@GDFHHHBD@7;> @read_150_244/2 ATAGTGACAAGCCCTGATGCTTCCGTGATGTTGCCTCTCTGGGCATTTAAACTCATTCCCAGAACAATTTCTATGAAGCTTTTGAAAGTTGGAAATGGGC + HHHHHHHHHGHHHHHHHBGGG@IHHHHHHGGH=D;EGGHGGDHHHHHHHHHHHHHGGGG=FGEHHHHHHEGBFFHHHHFCFHFFGHHHHHHHHHFHHHHH @read_150_245/2 ATAGTGACTTTAAAAATCATTCTCTCATTGCCTTTAAAGGTATTTAATACTTTAAAACATAATTATTTTATAGTAAATCCATAGATAGGAAGAGCGTCGT + HHHHHHHHHHHHHGHHHHHHHHHHHHHHHHHHHHHHHHFC<>.@218?HFC8@<>@CEGHHHGG?@EGHHHHHFFDBHHHHFGGCE=BHHHHHEEFHGCGF @read_150_248/2 TGAATCTTTGGACACTCTGGGGAATTTTAAAGAAGGGAATAGGGATAGAAAGAATCCGCATAGATCGGAAGAGCGTCGTGTAGGGACAGAGTGTAGATCT + HHHHHHHHHHHHEDEGGGGHHHHHHHDGGFHHHHHFHHGFFHHE=>IEGFGEE=CGGDGGFFGGD+?37B@C@BFFFFHHGHA=4')>GEF@CHHHHHH9:..@3;3.8:FGFGCFHHHFFFGEFHHHG=9A@@GB@A*0:.>>4BD@F?*)02:>CBEC @read_150_252/2 TCGCTGCCATACTGGAAGGTTGCCTAACAAACCACCAAAGCTTTTTTTAACTCTCTAAGGGAAGGTACTTTTGTTTGACTTACTATTTCCTATTGATTAG + FEBHHHFGEEFFGHHEEGHHHCFFHHHHEFFEDDEFGHHHHHHBFFHHHHFEDGHHHHHGGFGFADGHHFHHHHHHHHHHDADBE?3:1FHHFFHFFCDA @read_150_253/2 TCGCTGCAACCTGAACTGACCCTGGCAGGACAGTTGCTGCTTAGAGCCCACTGAGAATACAGCCAATTAAATGGGGAAATATGGAAGAAGACCTCCACGG + HFGEFHHHHHHHHHHHBGGHHHFE@D>@:<>?CHE7651-2-DHFHFFHGHHHHHHHEFHFHHHHHHFIGD9:<>7/@GGD@BGEHFEED;EHCD24:G9 @read_150_254/2 TCGCTGCTGTGTGGACAATGGGAAGGAATATTGTGCTTGGGGTATGTCTAAGGCTTATAGGAAAAGGCTTGAGCTGCAGGTTAAGTATCTTATGATAAGC + HHHHFHHHFHHHHHHF=FGGCEIGADAEFEBEEEBBG@AA,&:HHHHHEHHFGGGFGGHHHHHHHGEGGGB@?=GHDEEBGGGDCHGHHHFFEE;:@893 @read_150_255/2 TCGCTGCGGATTTCCATGTTACAGTCTGAGTCTTGAGGCAGAATTACTTCTTCCTTTTTCCTTTTTTTTTTTTTTTTTTTTGAGATGGCGTCTTGTTCTG + HHHHHHHHCGFG=FFHHHEHHHHHFHHHHEGGHHHHFFHGHHHGBHHCHHHHHHHHHHHHEFCAHHFFFF8DEHFHHEFDGGGFFHGBG<05GHHFB@C? @read_150_256/2 TCGCTGCATATTTCTAAGTAGGTAGAAGAGCGGACTTGAAATGTTCCCAATACATATAAATGATAAATACTCGGCCTAGTGTAGTGGCTCACACCTGTAA + C>@A<:=E@;HHGGHHHHHHHHHHBGFEHHHGHHHHHHEHHHHDEEEFFFGEE0&<.FHHHHHHFGDDDDEFFEDGFG9>::-7568:5:8HADHHH @read_150_257/2 TGAATCTATAAGTGATTTTGGGATAACGATCTACCAGAATGGGGATATTTCACCCTTGGTTCTGAGATGCAAACCAAAGAATATCTCCGCATAGATCGGA + HHHHGG@=FF<=DGIF=EDDHEEEHFEHHHHHHFEEFHFGHHHHHHHFHGEHGHHHFHHHHGGHHHHHHHHHEHHHGEGGBF?E?0099?9@=8<<<5+B @read_150_258/2 TGAATCTCTATTCGGCCGTCTTGGCTCCTCCTCCCCCTACACACATTCTTAACCCTTTGGCAAACATATCCAAACACACAAAAGCTACTGAAATTGTTCC + B87..68BFG@9DFFGGBA=@GEEHA;A6:EGDEFGEF9E:63:;EGEEEHG@@EFGHHHH;5AFHHG? @read_150_263/2 ATAGTGAGGAGCATACACCAAACTCTTGGCATTATCCTTTTGATAGTCATAATAGTAGTCTCCCCGGTCTGCCGTATTCCCTCCAAACTTTTAGATATTT + HHHHHHHHHHGEFFGGDDDDEEBFE5@/7367AHHHHHHHHHHE>DEFHF>:=,%69@;/EBEDFHHEADD @read_150_264/2 TCGCTGCAGCTATAAGATGCTGTGCCCTCAGGGTGGGGTGGTGCAGGACAGTTGTTAAAAGCCTAGACTTGAGAGATGAAGGCTCAAGTCCTGGTTCTGC + HHHHHHHGHHHHHGEC.C=BCHHHFHHFGBHHFFFCCD9/>;B@EEEGHHDD<54;AAECCFHGHFHH<6)5A@DCCFGGE @read_150_269/2 TCGCTGCCATTTCTAAGAAACATAGCACAGCTTTTAAGGTGTTTAACACAGTGCCTCAAATAAAGCGACCTAAATCTAAATTTATTTTTATTATAAATTA + HHHHHHHHDHHEHHHHHHHHHHHHHHHHHHHHHHH>CEFEFFDDFGB6ACHHHHGHGGGEHHHHHHHHHEGFFEDEEEE>BFHHDHHHFCCFFAC.8>FB @read_150_270/2 TCGCTGCAAATGTGTTTGTATGCTTTTTTTTTTTTTTTTTTTTTTTTTAAAAAGGAAAAGTATGCAATGGGTTTGGGATAAGGCCAGAGGTTTTTCTTTC + HHHHHHHHGB?GHHHHHFDAAHEHBEHHHEHHHHHGFFFEECFCHHFFFD?FCBFHHGGEGGGHHHEDEE;GGGEFFF?@EEEEEFDA>DFHEHHHHHFF @read_150_271/2 ATAGTGATGTTCAGGTTTTGAATTTCTTCATGGTTCAATCTTGGTGTGTCTGGAATGTATCCACTTCTTCTAGATTTTCCAATTTATTGACACATAGTTG + HHHHHHHHHHHHHHHHHHHHGGGHHHHFEG134A.?BGGA?>;>;DGGFHHHHHGHHHHHHHHGGE?8DEDBGGGHHHCFFEEHFHHFEB @read_150_273/2 TCGCTGCATCTATGTACTCATAGAATGTCTCACCCACTATCATGGTATAGTACACAGAATTGCCTCTTCCCAAGGAATTCATTTCACAACAAAGGAAATG + HHHHHHHHHHHHHHHHHHHBEEFFGHHGGCHHHHHHHHHHDGBGHHHFFCACCGGHFHHHHECHHHHHHHGHHHHHHHGHHHHHGHHHCFFHDEHHHHB/ @read_150_274/2 ATAGTGAAGCCTCGACCCTTAGGGCTCTTCCATTCCGGAAAAACATTTCGGCACCAAGGAGACATCCCAAGGAAAGCACTAGTTTAAAAATGTTGCCTTC + HHFGBFHHHHHHHHHHHHFHHHFGHHHHHHHHHHHHHHHHHHHHHHFHHGGFBDHEE7>FCDEC??:@BHHHHHHHHHHHHEHHH=EHGHHCE@HHHHFE @read_150_275/2 ATAGTGACCTCATTGCTCCTTATATTCCCCTCTCAGACTCCTTGGAACCAACTCCAGTATGGCTTTCAGGCCAATCCATAGATCGGAAGAGCGTCGTGTA + HHHHHHHHHHHHHHHHHDGHHHFHHHHHHHHHGEDGFBEADDA40>/EHFGFFC?EHHACCAFE8AD?EFHHG;7)).?D:CBBCFHHHHHHHHFDAC.GGGGBFHHHEEEGBGHHFFFHHHHHHHHHHGG.<3DGHHHHHHFFGBFGFFHHHHF?DHHHHFBCEFFGEFE>2: @read_150_277/2 TCGCTGCTTTGACTTCAGTTTCTGAAATCTTAATCATGCACAGTTTAATCAATAGCTACATTTTTCTCACATTTTAAAATAGATTATTAAATGGTCAGTT + HHHHHHDHHHHHHHHHDD=@FHHHHHHHHHHHHHHHHHHHEHHHHHHHHHHHHHFFGHHGEGGFFHHHHE@CAA<:B9GG?4DD?:@FDBEFFE;CA@<0 @read_150_278/2 TCGATGCTCAATCTGTATGTTATCCCAGTACCCTTTGCCTTCCGTCAGGAAGAAGAGTCCATAGCCATGTTCCTCAGGCTGTGTTCTGGTTAGTTATGGC + HHHHHDCDGFEEBCDEDFHHHHHHHHHBEEAFHCDCEEFGHHHHFFEDEA>2%--?@EEBIEEFEGGHGGF@GGFDGHHHHHHHHHGHFFB7)-9BEHG/ @read_150_279/2 TCGCTGCGCTGAGGCGGGCAGATCACAAGGTCAGGAGTTCAAGACCAGCCTGGCCAACATGATGAAACCCCATCTCTACCAAAAATACACAAATTCGCTG + HHHHFHHHHHEE?DFHHHHHGGGGHGGHHEHHHHHEBFHGC@C3FGB/B.2:DFFFHGFCAFHHHHHHHHHHGHFBDA@;+3CDHHHEFHHHHDH@CDCHHFFDDE?HF/5C @read_150_281/2 ATAGTGATATTAAGTAAAACATGTAGTGTGTCAGATGGTGCTAAGTGCAGAAGGGAGAGCTGGGGCTGTGGCCAGGGCTGCAGTTGAATCCATAGATCGG + B.=GHHHHHHHGHHHHHGGHE87;=-5>ECA@EFF=D66EHEGBFGED:4BCDDDEDHHHGFGHHHGCGHHDFG@DD67DHHFCCEHBF>337:BHHFBC @read_150_282/2 TGAATCTGATTTAATCTGTTTCTGACATTAGAATATATATATATCTTTATTGGAGAATCTTTGGCCACATCAAAAGTATCAAAACATTTCAGCATTAAAG + HHHHHHHHHHHHHHHHHH?@EHHHHECGHEHHHGHH@FHH>:DGB=69AFHHHHHDIGDEECHHHHHHHFHHHHHHHHHFGEGHHHHFFC>6FHHHGA?5 @read_150_283/2 ATAGTGAAGCCATCAGTGCAGGCTAGGGGAGAGAAGGCAGGGTGGCAGGAGTGGAGACCATAGGCATTTGAGCCACTTCCTCATGTAACTTACTTGTGCC + DHHHHHHHHHHHHHEGEEGHGGHHHHHHGGDDBDBBGFFFFFHHHHHHHHHHHHHHEBFEDHHHHHHHHE:9EDDHHFFFFFHHE8BF@FHFFGEHHFGB @read_150_284/2 ATAGTGAACCCAGTCCTGCCCCCTGGGCTCCCTTCAAATCTTTTTTTTTTTTTTTTTTTGAGACAGAGTCCTGCTCTGTAATCCATAGATCGGAAGAGCG + HHEDC79??AEHHHHHGGGHHHHHHH=>CHHHHHHGHHHHFHHHHHHHGIDGBEGFDHHHGGECD.<,9977;@D7ADCDGHHFFDD=DDFCGEA;BEEB @read_150_285/2 ATAGTGACACTGCATTCCAGCCTGGGTGACAGAGTGAGACTCCATCTCAAAAAAAAATAAAAATCCATAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTG + HHHHHHEFHHHHFG@FFFFGEEHHHFBBEEF=>:>8CD/>4*A=EHFEFGGGGIGGFFHHGGDGDBEEFDEHHHHHHHHHHHHHFEC,<<@G @read_150_286/2 ATAGTGAATCTAAGACCTGAAACTATAAATATTTTAAAAGATAACATTGGAAAACCTTTCTATACATTAGCTTAGGCAAGGATTTCATGACCAAGAACCC + HHHHHHHGHHHHHHGHHHHHDEHHHHHHHHHHHHHHFFHHHDCDE@<@CCGFFGGHHHEDFHGHHFHHHGHHEEEBGF.(.7?B?@GADDCC@CEF=.>>ABHHHHFFHHHH @read_150_288/2 TGAATCTCCCCTCACCTGGCTGCTTCCACAGCTCTGTAGCAAGAGTTCTAACCTTTTTTCACCGTGAAGCCTGCTGAGAATAAGAGCTGTGGACTGTTTT + HHHHHHFHHHHCB<@-8@EFHGCGGHHHHHAE@@@;GEFD:.EBHFHH?>>AGHGEHBFDDHHHHDFHHHHHHHH;<89A?EEHHHHHGDDFHEEEEEGEEHHFFHFFFF<9988D@?CCD@CF??DGFF6 @read_150_293/2 TCGCTGCTAATTTTTTGTATTTTTAGTAGAGACAGGGTTTCACTATGTTGGCCAGGTTGGTCTCGAACTCCTGACCTCGTGATCCACCCACCTCGGCCTC + HHHHHHHHHHHBGFGHHHHHEHHHHHHHHHHHF@ACHHHHHHHHHFFFEEFGFDHHHHHHHHHHHCDGGGGHHHHHGEA=E<>HHFEBFFFHH?),5C?A @read_150_294/2 TGAATCTATTAATCATAAAGGGATGCTGGATTTTGTCAAATGCTTTTTCTGCATCTCTCGATATGATTATGTGATTTTTGTTTTTATCCGCATAGATCGG + HHHHHHHHHHHGHHHEHHHHDDDGDGHHHHHHHHHHHHFGHE7C>>5939B3+15EHEE=HHHHHG=@@>5.3;9CFBGHHGB7?DFFE?>EBDBD@@DGEDHHEHHHHFGGHHGDHEHHHHHHHHHBFHHHHFA@FFFFDD@ @read_150_296/2 TGAATCTGGTGTTCAGGAAAATTATCTATCGTCTGATTAATCTCCTCCACCTGAAAGCGTTCCTAGGAAAAATACTCTGTAAATTTGTATTTTCCGCATA + HHHHEFEGFEHHHHHHHGFFEA=CDGAB>@HGGFHHHHDD@=??DEFHHHHHHHHHFFDDGFGG@GDGHHHHHHHHGE?7D9GGE1CDFHHHHHEHHHE? @read_150_297/2 TCGCTGCCACTTTAAAGACTGTTCTGACACCCCCACAAGTCACCCCCTCACTTTGGTCAAGCATAAAATATTGAATACAAGGTAATGAATGCATGGAAAG + HHHHHHHHHHHHHHHHHHHHHHHHHFBECBGFEHHHHHHFA68EED2GEHHHHHHHHHHHHHHHG8ABE9.;CCCGFFHBBEGGGEF@;==76<9:9*3% @read_150_298/2 TGAATCTTGGGTGAACATCAAAACATGATATTTAAGACAGAAGCCAGACACAGAAGATTAAACTTTTGATTTCATTTACCTGAGCTTTGAAAACTGTAAA + HGGCCHHFEDDGFGGHHGFHHHHHHHHHHFHHHEFEHE75?GFHHHHHHFFHHHHHHHHHHHHHGFGHHBA:@:5:?EDDHEB/%.7.:0DFGDGFDCHF @read_150_299/2 ATAGTGAGCATCCCCGGGATAGATTCCATTTGGTCATGATGAATAAACTTTTTAATATGCTGTTGAATTTAGTTTGCTAGTACTTTGTTGAGGATTGTTG + HHHHHHHHGFHHHHHGHHHHGC=@@GFGGHHHHHHHHHHHHEHHHGFGFFHGFEHG?FDFHHDCBEHHHHHHDDDAA?FGHGGFFF?>.9B:5-3:*>55 @read_150_300/2 ATAGTGAATGTGCACAACGTGCAAATTTGTTACATATGTATACATGTGCCATGTTGGTGTGCTGCACCCCTTAACTTGTCATTTACATTCGGTATATCCC + HHFHHHHHHHHHHHHHE/8EHHHHHHHHHHHHHFFHFHHHHEDBH@D/3%03/7:<5* @read_150_301/2 TGAATCTCTTTGAATGTGGCCCAACACAAATTTGTAAACTTTCTTAAAACATTACAAGATTTTTTTTGCAACTTTTAAAGCCCATCAGCTACTATTAGTG + IGGHD?@DC@@AGHHHHHHHFHGGFHFGGHHHHHHEFFFHHFFHHHHGFBEGHEDHHHGGGF?EDGGFC;EEHFGHHB;2<..07/;-66)-5-)*-01:5=ABBBHGFHHHHHHGHHHHHHHFAC<),144?BE @read_150_303/2 ATAGTGATCCCCTTGTGCATCCCCCTAGAATTCTGCACTTACCTTTGTCACAGCCCTTGTCAGCTGGTACAAGCGTATCTCCCACACTGAACTGCAACTC + HHHHHHHHHHHBCGGHHGFGHHHGHFHHHF42.?9HHHHHHHHHHHHFFFFGHHGHHEGGHHHGEFHHHHEHHFHFGHGDFGHHHGFHFBFEABD7@=<> @read_150_304/2 TGAATCTAAAATAAATGAACTATGTGACTTTGGATAAATCATTTAACCCCATCACCTATAAAACAAAGGAAATCGACTAGATAATCTCTACAGTGCCCCC + 514BEGB@DEFEGA=:CBGHEGHDD@HHHHHFCBEFGEDD, @read_150_305/2 TGAATCTATTTTTAGGTATTTGTTATAGCAACAGCCCCACTGCTTGGTACCAATTTTGTGTCTTATTTCAATTTGTGCTGCTAAAACAGAATCCTACAGT + B:AEGBA=EHHHHHHHHHHHFFDF/DHHGBG9< @read_150_306/2 ATAGTGAGGATTATAGGCGTGAGCCTCCACTGGTTTGGTTATTATAGGTTCAATAACCCATAGCTAATGTTATATAAATTTTAAAAGCCTAGGTTAACAA + @@AEB==E@GHHHHHHHHGGEHHHHHHHHHHHHHHGGFFBBFHHHGHFHHHHHHHEDGHHHDF/CHGGGHFGGGHHGCDEEEE?FFGFFFHHHDFAA;:D @read_150_307/2 ATAGTGAATATACAGATATAATACATTTGACAATAATAGCACAAAGAGGGGTAGTGAAGAAAACTAAAATAGTACCCCCTTTTCTGCATGGGCTTTATTC + FGHHHHHHHGHEBEBHHFFGHEGGBGEEEHHHHHHHHHHHHHHD6=;BCDHHHHHHHHHHFHHFGHHHEHHHHHHEBDHHHHHE?D;:21<,,-297GFG @read_150_308/2 ATAGTGAAACTCCTGGGCTCAAGTGATCCTCTTGCCCCAGCCTCCCAAGCAGCTGGGACTACAGGAGCATGCCACCATGCCGCCCAGCTAATTTTATTTT + GHHHHHHHHHDDGHHHHGHHHHHHHHDGGGHHHHHHHHHF;>@C=>BDFB8=D88<>HDGG;/=D6*6BGECA>5CEDHHHHH.<+<48>>>:A@>?BDD @read_150_309/2 TGAATCTAGAGGTTGCAGTGAGCCGAGATCACGCCATTACACTCCAGCCTGGGCAACAAGAGTGAAACTCCTTCCCAAAAAAAAAAAAAAAAAATATTCA + HHHHHHHH?FHHHHHHECFDGHF@EBHHHHHHHHHHHHHHHHHHHHHE??FFHHHHHHHHGHHHEHHFHHH@)<.GHHGEF8-6C?DGG?<<=B,.<'<< @read_150_310/2 TCGCTGCTTAAATAAGAATTCTGCATTTTCTGTGTATATGTGCTTGTGTTTGTGTATCTGTGATGGGGTGGAGGATGGAAATTGTTGTGGCAATTTAATT + FEF@FHHHHEFHHHHHDHHHGGGB?EEFEGGG38FHHFFHDECF>GE@BCAB@<@GEEHHHFHHHHHHHHHHEGHB9>>(>=DGFEF?HHFFFHHHG?BA @read_150_311/2 TCGCTGCATTTATTATTTCAAATACATTATGATACCAGAAGTCAGCCAGTAACAGTTCTGAGTATAAAAACATTTGGTAAATCCCACCTGTACATAAAAC + HHHHHHHHHHFFDGGGHHHHGGGEFHHFFGHFEEHHHHHHFHHHHFHF=<.<<9?EGFGGGDBFHHHHHHHHHHGGDDFHHHHHH>,30;?@/'5?(->A @read_150_312/2 TGAATCTGAAGACTAGATTGTTGGGTGTGGTCCCGGAGTGCTGTCAATGGGGGGCTTCTCTGTGCACAGGGCAGGACCCTCTGGGCAGCCAGTGCCCACA + HHHFHHHHHHHGGGGB@=CHFDDBDHFHGHGF?EEFHHC7;CHHHHHFFHHFGEEG8EGFEEFBBGGEF;>5>>998FFFGFFEE5;DC88EEDHHHHH@:)8EGGGFFHB@):@7-@A5>DGE9CADFEDC.:@@BEDHHHHHHHHGHHHEEFHHHGEFFHHHHDD@/@4AAGF>9:6B@BB @read_150_316/2 TCGCTGCCACCAGCTCTCTCAGATAAGGAAAAATCAACACAAGAACTCCAACAATCAAGAAGAAGGAGTGTTTCCTTACCTCCAAATGGTTGCACTGGCT + FFFBHH@A6649;GHHGEFFFFHHHHHHFGB7CHHHHE*461:>;A.36,))13:8DCDGDHHHHHHHHHHHGGEDB?A?=EE7956B+: @read_150_317/2 TGAATCTAATTTTCAAGCACTGTACAGAAAATGATAATATATTTATAGACAAATGAACAAGGAATCTTTTTAAAAAATTATTTCAATCCGCATAGATCGG + HHHHHHHHEHGGGHFGDFFDHHHHHHHHHHHHHEGCDHHHHHHHFF3<@EFHHHHHHHHHHHHHH::66:DAGGHFFFGGHFHHHFHHFGBHHHHCDE5< @read_150_318/2 TGAATCTGTCAGGAGCCTGTCCTTTAGGGATGACCTCATTTTTGCAGGGTAATGGTAATGAAATGTACTAGGGGTAAAAAGTAATATCAAGGCTAACTTA + BDC<92@FHHHHHHHHHGFHHF.1>'+8EED>-79F8;DGFFFFHHDCDAA?7;?EFFHHHHGFHEDHH=GFFFFGFFH@HHHE27..D;3=DGCCHHFF:@GHHHHHHHFHHHHHHFHHHHGCE5BGEHE@CDGFHHHHHFFHFEGHGGHDHHHFFBEHHHHHHHHH @read_150_320/2 TGAATCTCAGGAACGACAGGAGTGCTGGGTGTGCAATCATTCATTTGCTACACATTTGTCCGCATAGATCGGAAGAGCGTCGTGGAGGGAAAGAGTGTAG + HHHHHHHFFGEEEHHHHHHHHHHHHHHHFFHDCDGDDGGBFHHHHHFEBHHHHHHHHHHHHH6EEEFG?HHHHDFFBC?;?:98&<:5CGHFHHGAHEBF @read_150_321/2 ATAGTGATTCTGACGATGCTGATAAGTATATAGAAGCTTTCCACATTTTTTTTTTTTTTTGAAACGGAGTCTTGCTCTCTCACCCAGGCTGGAGTGCAGT + GB@;>;/ABGGGFGHHGEHHHHHHHHDCGFFHHHHGDC5BC>>FCFHGDGGGGGHHHHDFGGFHHHGFHGHHHEEEEDEEHF@C;ACCEBE@D7)*=EC? @read_150_322/2 ATAGTGATGAAGAAGGTCAGTTTCTCTAAACACAAAAGCATGGGGGGAAAAACATAAAAGAGGGATTCCATATAAGATCTGGAACTTCTCTATTTAAATG + HHGGEHHHHHHGFHHHHDGEGHHGGGBGGFHEEGHD@<9=FGAFFHHHFDCEGHHHHHCEDD;81(7-7?@B@@4A7@BGHFFHFGGFED=ABBDFHF<8 @read_150_323/2 TGAATCTTGACCAATCATTTTCGCCCTATAAAAGACATTGGAGAAGCCAGTGAGGTGGGACTTGAAGAAGGGATTTATTTTCCGCATAGATCGGAAGAGC + HFFHHHHHHHHHHHHHHHHHHHHHHHHFFE?GBFEHHHHD@BEEEFFF>ECD>.:.B@@=6><863:6>>9:295DCBB=CDEDGHHBHFEGG@EEB==FGHGBFGFEHHFEHHHHHHB<&8DGDBF=FHHHHFF6...< @read_150_325/2 ATAGTGACTCCTGCTTCAGCGTCCTAAATTGCTGAGACTATAGGCATGAGCCACGATGCCCTGCCCCAAACACTTTTAAAGAGACATCATGCAATTTGAG + D@CBFDFEDDBEBGGHHHHHHHHH?;:DED;EEEEFEFHHHHHHEHHEHHHHEEEHHHHHDGCBCCAAFFCC7+>GEEDE65GECB@EDDBG;@>DDECH @read_150_326/2 TCGCTGCTGCTTCTTCCTTGAGACACAGCAATATTGAAATTAGGCCAACCCTACAATGGCCTGTAAGTGTTTAGGTGAAAGATAGAACCACATCTCTCAT + HHFEHHFCDGHHHHHGHHHFGHGGEDGHHHFFFFCCBA@:158.=?@FFHHFHGHHHHHHHHHFGFEGHDFFGDHHD=ABCFE8/;@EH;D=EF?AAEHH @read_150_327/2 TCGCTGCGAGGATATATTTTTTAAACTGTCATATGAGGAAACACTTTAGTATGTAATTTCCAAAAGTTACACAAAAATGTGGTCCTGAAAATGCATACCA + DGHHHHHHHHHHHHHHHHHHHHHHHHFHHEBGHBHHFFHHEBCFHGGHHHGEEHGGHHHHHHGHHHHFGBE@<-07>@:0>>',518EHGFHEEGHHHHHHHHHHFGGHHHFFGHHGHHHGGFHHHFFGEFHHF@D/46?BB@CD@?GGBEHHHHHHB;@CB/@GFFHH@CDEGGGGGHHHFGGEFDHFB>>ACDD@GHHFCDFDCDE?D@9;EEFE@FHHHHHHHHFFHGEDDBHFE=3 @read_150_331/2 ATAGTGATGGATTTTTCACTGTATGGGTGGATAAAATTGTCCAGGGCCCAAGTTGTTCTTTAAATCAGCTATTATAACGCTCTTTTGTGTGTGTACATGT + EHHHGD8CEFDHEGGEBDDE?CC@FHHHHHEFHHHGEHFHFEEGGDFFFEGGFFFHHHHHHGGFDCBEHHHHD<@*9.>@.;:1=EFFHHHHFFGGGA=+ @read_150_332/2 TCGCTGCACCAAAAAATGTTCTGTGCAGGAAACATGCAAAGGGGAAAGAAAAGACACACACAATACCTTTAAGGGTAAACAGCCTTTATCCCAAGTATAT + HFHHHHHHHHFFFHHGHD@+4=FGGHHH@<6>@>=BGG==BEGIFDDHHEHHHGGDEHGD@ADB=BCFHHHHHFFGGHHHHHGBFEBB@HGEEEEHD7EE @read_150_333/2 TCGCTGCTTTCTGAAGGTAATCTCGGGGTGGCGATGAGCAGGGTGGGCCTGAGGGGGCACTGCTCCCTAGTCTTATGTCACCCAGGGTTTACCTCCCCAC + HHHGHHHHHHDDCBEFHHHHDHHHHHHGFFCHHHHHHHHHHHFHHHHH@:BCEDBEEFFHHHFGGEEEGFHHHHGHGGEBFDEFFAADDCA>0+<94EEF @read_150_334/2 TGAATCTAAATAATTGGCAGTAGGGTGGGGTTGGGGAAGATTATACTACTCCTAAATCACAGGCTTTGTGCCCTTTTCATGTTAATATTCGTATGACTAT + 4<=GHHGHHHHHFHHHHHHHHFEDDBDGGHHHGHH?GH@>FFFHF9::3,;5<><<@<8/''*<>@EHEDEB:@>+=FHHHHDDF8;A@BFHEEEBFHGG @read_150_335/2 ATAGTGATTTCCTGACCTAAACTATTTGAATAGGTTGTTTATATATTAAGTTGTGCTAAGCCTAGTCTTCCCTCACAAAGGCTGTGCTTTGCTGGTCTTT + 8B=GHHHHHHFFGGAFGGI=DEHHFHHHHGGHHGGGAHHHHHHHHHHHHEGHHHHHHHHHHGHHIGHHHHHFHHHHFH@@HHHHHHGEEED97163 @read_150_336/2 TGAATCTCGACTGAATAGTTCCCAGATTCAGGTCAAACAAACAGAAAAAAATATGCATCCAAAGGGGAAAAAACCTGTTACTCCGCCTCCGCATAGATCG + HHHHHHHGG=67211CGHHHGGGEA67=;;EE998GGIE@<.EFDGGHHH;(4:()+?*4AEEEDAE@GFFFFB @read_150_337/2 ATAGTGACAGAGTTTTTTCCAACTTGGTTCCATTCTCCCCATCACTTTCAGGTACACCAATCAGACGTAGATTTGGAATCCATAGATCGGAAGAGCGTCG + GDCDEHHHHHHHHHBB=?7@GFHHHHGEEBE?FFHHHFEHHCEAFHHD406><4478>DEGFHGFFBFCFFGGFHHGHBBBEHHHGFBHFFCEEF1>CHH @read_150_338/2 TGAATCTAATTTGGGAAAACAACTTTTGTATACTTAAATTTTACATGTTTTTTTTTTTCCATTTCATTTCATTTGAAAGTCCTGAAGTAGATCATACTTC + HHEHHHHHHHHHHHHFEFDHFEHHEHHFFFHEGHHHFBE2@EHFBEEFHHGHHHHGFF=BFFGDGFHHHHHHGGGG@24,,;AEFE5>,-%;4GFDFHFF @read_150_339/2 TCGCTGCTCTTAAGTTTTGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAACACAAAAAAAAAA + EEEEEEBGHGBGFHHHHFFEHHHGEE@<9GDC5FHHFHD=5@GEBE=CFGHHHHGEHHHGHHHHHHHHHGFHHHEHHHHGDDB?H>-)2.1<14FHHHHH @read_150_340/2 TGAATCTGATGTTGATAGATGAAGAGACAGGAAGAATTCGAATTTGTCTGGGACTCTGGAGTTCTCACCCTGCCCCTTACATTCTATATTTAACATCAAA + GHHHHHHDEFGHDHHHHEEGHHHHHHGFGGHHHHHHFGGFHHHHHHHGFGGGGHFHHHHHHHHHHHHHG4:@CCFHFFDHHHFHHHHBEHHEFBDHHFHH @read_150_341/2 TGAATCTGAAGTCCGTACATCAGTAGGCAGGTATGAAAGTGGCTTATGTATGTAAATATGTTGCTGTTATTTGCTTTGGAAATTTGTTGTCTAGCTTCAG + >=DGHHHHHFFFHHHHHHHHHHHGEHHHHGHHBHB'9<2+-=EFEHHB?BEGGE;EB?GHHHHHHFHHHHHEDEHFFBFGHHHFFD2<>D=C@<.:5?-68DACGGGHHFFF<=GGG@>?82-2,5=3*6AEGFGGEGFHFEHHHHFFEFHHH? @read_150_344/2 TCGCTGCGGCCATTTTCACGGTATTGATTGTTCCTACCCATGAGCATGGAATGTTCTTCCATTTGTTTGTATCCTCTTTTATTTCATTGAGCAGTGGTTT + HHHFDBEGFHHGFFFGGEEFHHFDHHHHHHHHHHGHHHHHHHHH9':?DB=CD=94?DHHGDEFFFHHHHEIEE@5>,7BEEEDEBDBCEGEEHFCCD170)4?CD@CFHE @read_150_347/2 TGAATCTGAGTAGCACGGGTAAAACTATACATTTTTTACTTAATGTAATATCCTAAACATATTTTATATAGCAATACAATCTTGAAAAATCATGCCTTCA + DHHHHHHHHHHHGHHHEGHHG@DDDHHHHHHHHHHHHHHHHCCDGGFBGEHHGGGHHHHGGHHHEDEEBEDD4983.< @read_150_349/2 TGAATCTATTCCTATTTGGCCATCTTGGAACTGCCCCTGCACTGATACATTCTGACCTGATAATTCTAAATTTGGGAATTTATCCCAAGGAATGAATCTT + 50-316:5/BGFGEEGHHHHHHHHHHHEDHHHHHHHHHHHHHHHHFFFFB??6DEHHFHHHHHHHHHHHHHHHEHHHHFF@673,888.8GBEFE>1779 @read_150_350/2 ATAGTGAGAGAGCGAGACCATCCTGGCTAACACAGTGAAACCACATCTCTACTAAAAATACAAGAAAAAAATTAGCCGGGCGTGGTGGCAGGAATCCATA + HHHHHGHHHHHHHHHHHHHHHFBC@>>3BFHHHHHHHHHHGFHHHHFABGADCEFHHHHHD@FGHGHFHHGFHHHHHHFHHEEE=;<4988.< @read_150_351/2 TCGCTGCTCCATCACTCCTCTCATTGAATCCTACATTTCTCAGCTGTTGCACAGGTACCTGCTTCAGCTACCCTATTGCATGGAGCAATCTATTGAATGG + HHHHHHHHFFHEHHHHHHHHHHHHHGGHHHC>DDDFFGEFF?A,2'38'/6?.DCGHHGFEFEGGECBGGHHFFEHHHGGEHEFEFEDDGFHHHDB@993 @read_150_352/2 ATAGTGAGGCTGTTAGCATTTAAGTTAATGCAACTTGAGAAAAACAAGGGGAGTTAAAATATCATGGAGGTGGGAATGTTCTGAGTCCTGATTCCATCAG + HHHHEHEEDHHHHHHHEGGEDGGEGGEE/FHFGHGHHHFHHHFEFHHHHHHHHHHHFDDFCABGGGHGGHHHFHHHHHHFGHHHFHE?AA>7ACD?FBFG @read_150_353/2 TGAATCTCTCGTCATTTACATTAGGTATTTCTCCTAATGCTATCTCTCCACCAACCCCCTGCCCTATAATAGACCCCGGTGTGTGATGTTCCCCACCCTG + HHHHHHHHGGDCGFBFHHHHHEFFFHHHHHDB2;FHFGFHHFHHH@>?CC@A@AA26BCHCBDFHHHHGHGG@>>:@EHHHEHH5CFFHFFFEEDEGF=@ @read_150_354/2 ATAGTGACAAGAACTTCAGTAAGAAGAGAATGAATTCAGGGCTTTGCACATGAAGCCAAGCAGATGCCTGTGTTTACAAATAATAAACATAATGAAAAAT + HHHD9.@>BEEFHHHFAEDHHHHHHHGFFB935BCBEGGHHHHHHHHHHHEGGGEFHDE>FHHHF=5;@:9;5CC;?97AEEEEHHHHEEGGGHBBGIFF @read_150_355/2 TGAATCTACCAACTTTATTAAAACAGGCTTGGAACATTTTTCTCCATAGAAGAATAGTAATAAGACATTCTACATTTCCTGGACATGGCCAGTTTAAAAT + BBCGGFGGGHHHGGHHHHHHGEGAGHHHFHGHHHHHHFHHHFHHHHHHHHG?A@DEF8EGGHHDGH?@C>FDEE@DCCA=A@BFHHHFDGHH?EHHFEGF @read_150_356/2 TGAATCTCAGAAGAATTGCTTGAACCCAGGAGGCAGAGGTTGCAGTGAGCCAAGATTGCGTAGCTGCACTCCAGCCTAGGTGACAGAATGAGACCCTGTC + HHHHHHHGHHHGDGFFGHEHHHHFGEBGHFGFAADHHHEHHHHHHGGHGEFEEEEGHHHHHHHHGEEHHHGC>8EHHHFEDBFEFE;,1,117:>DEE99 @read_150_357/2 ATAGTGACATGCACATAGTCACACACAGACCCACACACAAATGTACACACACACACGGACCCACACACAAATGGACACACTCACATATGTTTACTGCCAC + EDG8EB=.1-EE?./-266>9DDB=DDHHHHHHHHHHHFHFHFBFHHHHHD41'+/B?@<9= @read_150_358/2 ATAGTGATGAATCGGCTTGGCAAACATGCCCTCACCCACTCCTTTAGGGAGTGTAGCAATGTCTGCTTGTTACATAGGAGAGAGCGTCAGCTAGATTGCT + HHHHEFEHHGHHHHBGFGEEFDHHHGEBHHHHHFHGGHHHHHHEG52>4B @read_150_359/2 ATAGTGAGTTCATTCGGATGCAGGAAGTGAGGAGGAATAACATGAAGGGGATTGACCAGATGCCTCAATTCTAATCAGCTGAATGGAGATACTTATGATA + HHHHHGGGC.EHFHHHHHHFHHHFHGHH;FHEHHHHGEAFDA?AFHFFGFHHHH@DD.<9EHHFCDG@??88EEDFEHHGHHEBFCC=DFHHHHHGBGGD @read_150_360/2 ATAGTGAGTGAGGACCTGCACCGGCCCCGGTCTCTGAGTTCCCTCAGTATTTATTGATCACTATCTTTACCATCTTGGCAGGGGGAATGTGGTGTGACTA + HHHHHHGD?7.1DFFFGHHHFFBFHHHHHHHHHHHHHHHHGE<5DD:9.<<;HEHFHHHHHHHHHHHHHHHHCEEEHFIGGHHHEHHHFEB=EHHDEHEDD=6:7><95GFHFBFECHHBDEBCEHH @read_150_362/2 TCGCTGCCCTGGAATCCCTTCCCTTTATCCCCATCTTTTAATCCATCTTGTAAATCTTAACCATCCTTCAAGATCCAGGTCAAATTGCCAAGTTTTGAGA + CB@CAD>CD@<;6>>EDDDDFFHFGEEGBDGGFFBFFF4@CFBFFHHHHHHHCEDECDGIF?@AFHFFECB @read_150_363/2 TCGCTGCTAGAAATCTTTTAAAATAAAATGCCTTATCACTTAATGCAGTTTTGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTC + DBHHHHHHHGHHHHHHHFGEEGHHGFHFHHHHHHHHHHGHEGGFDFFHHBEEHHHHHHHHHHE:53=DEEGGGEHFF=BE:F=B.=DBFF4>>>)<68<7 @read_150_364/2 TCGCTGCTAATATGTTAATGCCTTGTAGTACTTTATGAAAATACTCAGTGGTTGCTTACAAGGTGAAGCAAAACTTGGCCAGGACTTTGCAATACCCAAG + HHHHHHFHHHHHHHGDHHHDEFHHHHHHHHHHHHHHHHHEFB?:>A@@5CHHHHHGGGFFGGGGGFFHFHHHHFHHGGHF>.A=DHGHBHHDHFGHHHHH @read_150_365/2 ATAGTGAGAGGGGATTTGGGCCATGTCTTTAGCAGCTCCCAGGAATAGTGTCTATCAACTGTAGAGTGACTTCTCGTATATTGTTTTTGGCCATCAGGAC + GGEHHHHHHDDHFEHHFFHHHHHHE>66A=GBDGGFFEEEEG=?8EDBDHHEGFHFFDDFHB&&/%3'/B=<>6AC?>9BFF @read_150_367/2 ATAGTGAGATAGAAAATATAAATCCCCAGATATCCTCTTCCCCTGTCCAAGGGCAAAAGATGACCAGGCCTAGGGAGGAAAGACTCCTGTACAGTCTGGT + HHHHGEFGFEGGGHHHHHHHHFHHHHHHHHHHHEBEEDEHHHHGDE?D>8CEEGGFEB5>7=>BGHHHFFHHHHHHHHGHFHCC<>'9?;=3,+9<6D8D @read_150_368/2 TCGCTGCCGCGTGTCATTTTTAATAGATGTGATTACGGTTTGGAGTCTGATATTCTGGTAATTATCTTCCTGGGCTTAATCCCCATGCATTTTAGAGATC + HHHHHHGHHHHHHHHHHBGFEHFGHHBGFGDEB>>A7::HHHHHHHHHHHHHGGGHHFGHGGE8FFFHIFCGBC=DEHHHHD.70-64(*=>7'E@ABBD @read_150_369/2 TCGCTGCTCATTTGCTGTCCCAGTAAATGTCCTTTATAGCAAAAGGATCCAATCCAGAATCAGACAGTGCATTGAGTTGCCTTATCTCTTTCATCTCTTC + HHHHHHHHHHHHHHG=DDABGHHHHEC@=GHEGHHHFFFDHHEEEEGCBDCBIGEGGEEHHHHHHHHHGGGGHHHHFHHHHFHDAB9AEHEBGHDHHDHH @read_150_370/2 TGAATCTTTTTTTAATTTTTTTTATTTATTTGCGATGGAGTCTTCCTCTGTTGCCCAGGCTGGAGTGCAGTGGCACAACCTTGGCTCACTGCAAGATCTG + GFFHGEBGEFHHHHHHFGEEG;=+.<--4=DHHHFFHEEHHHHHGDFHHFHHHBHGFHHHHHHHFFFHH @read_150_372/2 TCGCTGCAAGCTGAAAACCATCATTCTCAGCAAACTAACACAGGAACAGAAAACCAAACACCCTATGTTCTCACACATAAATGGGAGTTGACTAATGAGA + HHHHFBC@;>@FFDA6-,.>317CCBFHHB@DGE:>A7<@>:?GDEHHHHCIG<>EGGD/:5.:+DHHGFHHHEGGD7DHHHHB5EFHHFFHHEDDDCE< @read_150_373/2 ATAGTGACACTGTTCACAAAACTTGGAACCCAAATGCCCATCAATGATAGACCGGATATAGAAAATGTGGCACATATACACCATGGAATACTATGCAGCC + HHHHHHHHHHGB@BDFHHHHHHHHGGGGFHHHHHHHHHHHFE<,%1@,:@HFFFEH @read_150_375/2 ATAGTGATTATTACCCTTCTTTTTTGCCAAATAGCCCTGAGGAAGGTAGTCATCAAATCGAGAATGGCTAAAATGAGGAATGAAGAAGATGGAAATTACA + HHHGEEGBED9659,+6@C8<=84/GDDDDBEGGFFHHHFDBBFHEEGHHFEE1::@GD@<.7.>@796.>5A:625?F?EHHHHFGGIBCEB,B8,77B @read_150_376/2 TGAATCTTTGACTACTGCATGTATGCAGTCAAGAGGAACTTATCCGCATAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCG + CDHHHHHHHHGHHHHHGGHHGEHHHHGEECE=BCBGHHHHHG?HE;=FHFHHHGEHHHHHFHIGHHHB-.4>4A?FCHHDHDD<9;/'.?FEHEHHD6=@ @read_150_377/2 TCGCTGCAGTTCAAGACCAGCCTGGCCAACATGGTGACACCCGGTGTCTACTAAAATACAAAAATTAGCCGGGCATGGTGGTTCATGCCTGTAATCCCAG + EFHHHHHHHHHEEFBFGHHGDGBGGHHHHHH@BHHHHHHEBD=;;GGG84,ABFHHGFGEEFDGHFHHHB;CDBCE?>:>:76E8A??GEEEFEDBCHHB @read_150_378/2 ATAGTGATGAGCAGTTTAGAACACAGACTGCTACTTCCTGAGACCTGTACCTGATTTTTCCATTATTGTAGCTGAATGCTGTGTTCTCAAGAAAGTGTTA + HHHHDDHHHHHGGHGCBBGHGHHHHHAB/BHEEHFHHHHHHFHHHHHHDDDEGGHHBDDFHHHEDEHHHC@FGHHHHHHHED>(1'&)/CHEFF7EEHEB @read_150_379/2 TCGCTGCGAACAATTGTATACTAACAAATTCGATAACATAGATGAAATGGGTAAATTTCTCAAAAGACAAACTGCCAAAACTGAATCAAAAAGAGAAAAA + HHHHHGFFHHHHEGHHEHHHHHHHHHFHHHHHHHHGFFE@FHHHEGGEHFHHHHGHBEFHHFEHHF?@;.9.BEGEFF?HHHFFHDEEEGEDF<@@E6DEFGE?7?@>9>F @read_150_381/2 ATAGTGATTTGGTTGGCCAGAATTTTCCCAATAAATAGATGTGAATATTTTCCCTGCAAAGTAAAAAAGTGATATAAAAAAGTTAATAAGTCATCTAAAG + IFFGGHHHHHHHHHHHHHHHHHGGGHHH>863:9EHHHHHHHHHHHDHHHHHHHEEGHHHHHHHGGFFEEHHHHHFGGHHHFHHBEBBBFC764%587<& @read_150_382/2 TCGCTGCGTGGAGCCCAAGACTTTACTACCTTCCACCTCTTCAATTCCATAGGTCCCTCAAAAAGTTGTGATTTGTGTAAGTGTAGGAAGTTTTGAGATC + GHHHFFEHG@EFHGGGHHGGHHHHHHEGHHHHHHHHHEHHHHHFHHHHDDGGEFGHHBGHHHHHHF/EEG8:.CHGB5,%781-(*A @read_150_384/2 TCGCTGCTTGCTGTCTCCTCCCCACAAATATTATTTTTGCTACCTTAAAAAGACTTTACTCTTGCAATTTAACAGTAAAAGGACACAAATAACAGTTTTG + HHHHHHFHHHHHHHHHHFGHHHFHHHHHHHHHHHHHHHHHHHHHEGHHFHCEFGHHHHHHHGFHHHHHHHHHGEFEFGHEG@ED@EF6ECEBEC@5<><9 @read_150_385/2 TGAAACTTTGCATGAAAACTCTACATTCACCCTTCTTTCTGAACTGCTTGACCCAATCTAATTAGAAAAAAACCAAACAGATCATCATAGTCAGAAAATG + F@>,+8865@AFGHHHHHAB>>:,1'6<:DEEB @read_150_386/2 TGAATCTCTAGCATAAATCCTCAGCATTCAGCTACAGTTCTTCCTTCCTCTATATTTTCAACAGTTACTATCAGTAGTTTTCATTAGCTCCTCAAAGCTA + FFFHHHHHHHHHEHHHHH@9@C2=DHEEEGHEEHHHHHHEFFEHHHHFEGGGGHHHGHH?EFEHHHE=BCE=GGEEEFDE*ED@FHHHHHHHHD8E?CEE @read_150_387/2 ATAGTGAAACTTGTCTAATTTTTAATCAGTCTTGCAACACAAATAACATCATCAGCCCCATTTTTACTGGTGAAGAAACTGAAGTACAGAGAGGTGAAGG + FHHHHHHHHHHHDFHHHHHGEEHHHBEGFHHHHHHHGFDFEEC5<6ECCAEEFFFHFECDFFBEDGEIEEE=BCD?;?GHHDHED>7CGD559:6903;( @read_150_388/2 ATAGTGATATCTGAGATTCCAATCCATAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGATCGCCGTATCATTAAAAAAAAAAAAAAA + HHHHHHHHHHHHHHHHHHEBEHHHHHE.EFHHHHHGHBDBBCHHHHHHFGGHHHHG@EEFDE?8@-7@ABA58BHGFFFFHHDEFFHH=3,?077>@@7@B@9DA5HHEDBHHHDFD @read_150_390/2 TGAAGCTGTGGCGGGCGCCTGTAATCCCAGCTACTCAGGAGGCTGAGGTAGGAGAATTGCTTGAACCCGAGAGGCGGAGGAAGCAGTGAGCTGAGATCAT + :910&7@EEHGGEEHHHGGFA=@FE@>247>DD=7EEFHHHHHFGGCH@HHHHHHHFFHHGCF@EGBFGHHHHDDC<@;,*=GFEHEEGBFCFB2=EGHH @read_150_391/2 ATAGTGAGTGAAACTCCAAGACAAGACTGGACTGGACAAGACCAAACCAAACTGGACCAGACCAAACTAGACAACACTGGTCAGGACCAGATAAGACCGG + HHHHHGHHHHHHHHHHHBCDFGHHHHHHHHFGGHHGEGG+/BGFF9329BGGFDDHHHHF@88>GHHHDACBEA8FDFHHHHEHGHFH@CHEFDHHBD51 @read_150_392/2 TGAATCTCCAGTTAGATGGCCCTGTTGCCTGTTTTAATGGAAAAAAAAAAAAAATCTTGTACAGATAGGGTCTCACTCCGCATAGATCGGAAGAGCGTCG + HHHHHGF@GEGEEHHHHHHHHGEFDCD?FHHG>>CHHE?FHHHHEDFFFC>.976=E=EE864G,078GGHHGHHGEFFGHEEGGGB<6=5,@=D?DEDH @read_150_393/2 ATAGTGACTACTGTGGATTCTTCCCTCGTACATGATTAACTTTCACCTTGTCAGAAAGACCTTCCCTGGCCATCCTATCCAAAATTTCAACCTTCTCCCA + HHHHHHHHHHHHHHGGFECBEGE5:@E@HHHEEEHHHEHHDDA9/BFFFHHHHHHEGEGA377-)66HHHHHGBEEA71,9;>5BEBBB;A;A@DDEGGH@6337FG@BFHHEBHHHHHGHHG@<<:+)+:D2<998 @read_150_395/2 TCGCTGCTGGCTGCGGGTGGGGGCTGCCTCCAGCAGAAGGCACAGGGAACAGGGCACGAGGACTGGTGATATTGGTGCTGTTTAGCAAACTATGACTGTC + HHHHHHHHHHHHGIGHHHHHHHGGIEEFDDBEDDEGGDDDFHGEE?@>?@<%.>4BEHHHHHHHFFHHB+)6)<;E?<;64(ECCCEEAHHHHF @read_150_396/2 TCGCTGCTTAGTATCTTTTTATTGGCCAGTAGTTAAGTGTTTTACACATGTTAATTTTACCCTATAAGGAAGGTTTCATTACCCTCATTTTACAGATAGA + HHHHHHFHHHGGHHHHFHHHHHGGGHHHGEGGHHHHHFFHHHHHFHFGGCEEE@HHHHFFF8(2())4>BEACCCFEBEDDFFFEBGGEH8%*)&9;C?D @read_150_397/2 ATAGTGAAATTGTAAAGTCATGGCTGCAGTTATGCCAGCAGGTGTGAGAATCTTGTGCTTCTTGCAAAATACCTTTGTATCTCCTATTAAAAATGCAGGT + HHHHHEGFHHHHHHHHHHHHHBDH9=GHHHGHHHHHHHBHHHG>FHFEEEEEHHHDEAA>BE @read_150_400/2 ATAGTGATGAAGGGTAAAATAGACAGCAAAACAATGAAATCCATAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCA + C@@EDHGGGEHHHHGHHH@@ABFF?HE?%)0085CGGGIDHHFGEGBBA?3;::.*<<>BGGGHHHHFEHHGFHHGGGFFGHECF?GFGGGFHHB>D>/@ @read_150_401/2 TGAATCTGGCGGGCGCTAGTAGTCCCAGCTGTTTGGGAGGCTGAGGCAGGAGAATCGCTTGAACCCGGGAGGCGGAGGTTGCAGTGAGCCAAGATCACGC + HHHHHHHHHHHHDEGE>:-,%.@FDGHGGFEHGHHHHHHFHHHCEGHHHFFGGHEHHHHHHHHHHHHHHHHHHFGDGB.8:DFE9358DEEG9.=;AHHH @read_150_402/2 TGAATCTACTAAAAGTACAAAAATTAGCTGGGCATGGTGGCGTGCGCCTGTAATCCCAGCTACTCGGTGGGCAAGGCAGGAGAATCGCTGGAAACCGGGA + HHHHEEEHHHHHHHFEGHHHHHHHHHHHHEHFEHHGHHHHE.=@@E?C@:=9<77@FDDFHGBB?FHHHHHB=FHHHHHGDDFFHHH<++.95,,9C@3< @read_150_403/2 TGAATCTAATGATACTGGAAAGCTGGGAAGGCTTTTAGGAGGTAGGGCAAGGAAGAAAGATGAATAAGCTGGAGGAATCCCAAGGTAAACTCACTTTAGA + IFHHHHEGFGHHHHHEGHHHHHHGIFEEFEGHHHHHFGHHGCHHEFBHHHFEHHHHHHHGDBFHHHHHHDGHHFEHEDFFEHEDFHGBHFEFFFDDD=>> @read_150_404/2 TGAATCTTCTGCTCCACCACCATGAACCTTCTCTCTCTCTCTCTCTCTTTCTCTGTCTGTCTCTGTCTCTCTCTCTCTGTCTCTCTCTCTCTCTCTCTCT + BCCBGHHHHEDEHHGHHHHHHHHHBBFHHH>26EEDHHHHHDEGHFD@@=@4:DEDGEGHHHHHHHHDDFEHEDGEGHHHHHHHFBG?CBFDBBDBBBFC @read_150_405/2 TGAATCTTCACCCAGAGGGCCTGACACGGTGGGACCTTCAACTCCGCATAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCG + B@@@AEACHHHHHHHD@?GC@GGBBGGGDFHEEGEFFHHHHHHHHGHGFFHFGGHHHHHEGGGEHEECBFGHFFGHHFHHHHHHFD>FFD=.?HEFFFEF @read_150_406/2 ATAGTGAGACAACCAAACATGCCCAGCAACTTTTCAAACATCTCCTGGGGGATAGTGCCACTCTCATTTTTTGCTGCCAGGAAATCAGATTGCTACAGAC + HFGDB>@C@EHHHHHE.?BBGHHHHHHHBHHHE<18ADD9;>/@'<CEC<.:8DD;*)35BBB>CCFFAFGGGFFFFGFFFGGGHHHHHF?GGF5(//?FHHEEGGGH?F89CCDFEHE?D @read_150_408/2 ATAGTGAATCATAGTTAATCTAATCCATAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGAATCATTAAAAAAAAAAAAAA + HFHHHHHHHHHFFHHHHHGHFGGHFGHFHHHHHHHHHHHHHHHHF==92'<>EFFEHHHHHHHHHHHGFHHBDEE@DGGFCDADDEF;CDDA@@=EC @read_150_412/2 ATAGTGATTTAAGGAATGAATTTGTTTGTTCGTTTGTTTTTGATAGAGACCAAGTCTCACTTTGTCACCCAGGCTATAATCCATAGATCGGAAGAGCGTC + FHHHHHHGGHHHHHHHHGEFHECEEBCCB<4>.33;6<>BDEEBEHHHHGHHHHGH=GGEHHHHG:@@;?@FGEFEHHHFFFHEGG>7 @read_150_413/2 ATAGTGAAAATTTTAAGACAGCTTTAAGAAGATTCTTTTTCTCTTTGCTTGCCTTTCCACATACATACTGCAAGTTGGTAACATTTTACATAAGATGATA + HHHHHHHHF8?FFGGE@CHHGGGFHFFHHHHHFBB@BHHHHHHHHHHFGGGDBDFHHHHG=8@A=DF?<>:6.;3>F=;:..3:EEHFFF@8A@A55::>1=;%--B @read_150_419/2 ATAGTGACTTTAATTTTAATTTGTATAGATACATCAAATTTGGGATTAAATACACATTGCTCCAATAACTAAATCTTTTTCAACGTATATTATTCTATAA + HGGGE@BHHHHFBEEEGFHHHHB.ADEFHHHB.EFFDBD>8<5;70,/EHHHHHHHFEHBGGE=0-4>: @read_150_420/2 ATAGTGATGTGACAATGTCCCCAGATGATTTTAGCCCTCAGCTGTCAAATTTTCCCAGCCGAGGCCCTGGGCATGGGGGAGCAAAGATAATCCACCTATG + 7@EBHHHHHHHHHFBHHHHHHFHFHHHDFFEHHHHHHHGHF>>=88*:>C<9<>?EHHHHHHHFFEFFFHHHHHHD?<8/A?=BEFHHH;GGHFFB7FFH @read_150_421/2 TCGCTGCTAAGCTTCATAAGGGAAGGACAAATATAATCCTTTACAGACAAGCAAATGCAAATGCTGAGGGATTTTCTCACCACCAGGCCTACCTCACAAG + HHHHHHHGGGHHHHHHGGHHHHHHHHEDD8F?>67B363DFFHHHDA=@/CCA48:>>@GGHHHHHHHHHFFGFFBD-8;@@CCE0-15<:B=39>B==D @read_150_422/2 ATAGTGAATATATAATTTTTAAATAAATTTATACATAATGTTTCAGGTAACAGTACAATAAAGGAAAATAAAACTGGATAAAAGGACAGAGTTTTAGGCC + GD86DFFGGEHHHHHHGGGHHGHHHB@EGHHHHHHGG@>FFFHHHFFBEHFHHFFHHHEHHHHHHHEFGGHFBEF@@BDEHHFFFGEGG;):.-3>.?%' @read_150_423/2 TCGCTGCATGATTGTGAGGCCTCCCCAGCCAAGTGAACTATGAGTCCAGTAAACCTCTTTTTCTTTATAAATTATCCAGTCTTGAGTATTTCTTCATAGC + DEE=8FHHFHFEHHHGGHFD>>FHHFD99?FGBDHEBFFHFHHHHGEEA:@EEHHHFHGFGEEFEFFHBEEGDA;EFHEEHGFFEEHF>BCAC;@AAEFB @read_150_424/2 TCGCTGCGGGCCACTGTGTCTAATCCCATAAGACCCAAGAATACCAGGAGTAAGTGAGTAGTAGAATTAATGCTGGCAGGAATCGGGAAAGAGTTTTGAG + <>@DBBCDDC4*06)>BHHHHHHHHGEFHHHHHHHHHHHD=??0C=GFEFHHHHHHHHHHHHHHHHHHHHHHFFEEEHF8@EGFE37)(.=+:-0BGECA @read_150_425/2 ATAGTGACAGAGAAAATAATATGCACCCAGTTCTCCAAGAGCTCTCTCCACCCCAGCACTGGGCCCCATCTTTCTACTTACCGCATTTTACCTTTGCTCC + HHHGHHHHHBEFHHHHGHHHHHHHHHHHHHHHHHHHHHHHHFBFHFHEHHHFFEEGHHGEEEHEHHFFGHFHG.*+.>@8>>2(3'33@8@EHDHGGGGH @read_150_426/2 TGAATCTTTTCCTGTCTTTCTGTCATAAGAGTGATTTGAAAATGATGAAACTTAAATGACTGTTTTAGTTGTATTATAATTCTAGAGTTCAGTCTTGGTG + HHFGGGEHHHHHHHHH@HHEFEBEDHHHHHHHGFHHEFE=BFHHCFFFHFHHFGGHHHEFHHFFHHHGG;?CDEBFFEEC:@,:.%-<@;6-7,,5:;>F @read_150_427/2 TCGCTGCCAGTCTCTAGAGCAATCCTGTCTCTTATTGCCACACACTGGTGAGGCCAGCATTGTCCTTGGAAGAAACAACTTCCCTAGACATTCCACATCC + HHHHHHHHHHHHE/CHHHHHHHHHGHHHHHDHFFEHHHHHHGHHHHHHHHHE=;:CFHHHHF@C@HHHHE.'6=<-)34;>4 @read_150_428/2 ATAGTGAAAATAGTCAACCGGAAGTACTTGTTGAATAAAAATATTGACTGAGTGAGAAAGGGAGGCTCTCTACCCTCATGGAGCTTATGTATGTAAAGGA + HHHHHHHHHHHHHHHHHHHHHHGGCDFGHHHFFHECFHHHHHFFGHHHDEEBIGGHGGGHGHEFHGHHHGGDFGHHFHHHHHHHGFHHHHCCDDHHEE?D @read_150_429/2 TCGCTGCAACACTTGGATACAAGTAGTTTTTTTGGAGATGATCCGTGGAAGCGCCAATGAGGAGTTTTGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGT + GGHGHHHHHHHHHHHHHHHHH<66-AFCHB;B.B=26:5>DIB=GGGHH?GEEEFC>GDHHHHGHGHHHH=DEHHHHHHHFGAA?AGGEE=A;5968EEH @read_150_430/2 ATAGTGATACTTCCTGGGGTGCAGGAATGTCAGGTTTCTGTTCGGTGGAACATGCTCCTCATGGCACAGAATTGGCTACATGAAGTTAACCTACAGGCCA + HHHHHHFGECHHHHHFHHEFE@@EBGGHG89?;@;7-224(<,04@;;A;9826.)7GHHHHHHHHHHHHHDECBHHHHHGHHHGFFFGFEE<@HHHEEE @read_150_431/2 TGAATCTTGTGCCTGATAGAACTGCGACAGCCAAAAAATCTCTTTTCTTCTCTAGATTTCTAATCCGGGTCTCTCCAAGCCAGCCCTGAATGTCCAGGAT + HHHHHHHHHHHHHHHGHGDEGFHHEHHHHHFCHHFFHHFEGHHGGHHFGB@@?<@7*)2A>DBGIGF@HDD=G==EEHHHHFHHHHHHEGHF?FGB,3,: @read_150_432/2 TGAATCTCCCCTGGCTTTGTTATTTGTCTTTTTCTTATTGAAATTCTAGGACCTTAAATATATTTTTGGAAGATATGTTGACTTTTCATCAGAAACACAG + DEEHFDFHHHGHFHHHHHHHHHHHHHGEFGHHHHHHHFHFD9-DFFFGHG@DEFHHHHHHHF=<@DFEE>CFHHHHHHHHHFFEFGF;EECAEEEFHHDC @read_150_433/2 TCGCTGCAGTTTTCTTTTTATTTTAGTGGCATTGCTTTTAGTATTTTCTATTAAGCATGATGCTGGATTTGAAGGAAAAATATACAATTCTTATGTTAAG + HHHHHHHFEGAEEHHHEEEG>.5:.GHHHHHHEFDBEGBEGD=FHHHHGEFGFBB@EEG>BFFHHHHHHHHHHHHHD74459AB?ECDFHHHD@FB>5=. @read_150_434/2 ATAGTGATGCAGCCTTGACCTTCTGGGTTCAAGCAATACTCCCACCTCAGCCTCCCAAGTAACTGGGATTATAGATGTGCACCAACAGGCATTGCTTTAA + HHHHHFGHHHHHHHHHHHHHGHHHHHFHHHHHHHHFFHHHHHFBEHHHHHGGEHFFFHHHHHHHFGGFHHHHGHHHHHHHHDHHHHHHF@+6+<>>ACFH @read_150_435/2 ATAGTGATTCTGCCATGCTGCTCCCATGTCCCCCAACACAGAACTTGACCACAGAACTCATCACACTATACTTCTATTTTTATTTCTCAATCAATAGATC + <8:<@C89:6>=DGGHHHHHHHHHFHHFEFGHHHCHHHHCBE>77C?EHFGDGGGHHHHHHHHB@FGEGBFHHHE(;<>.<>ACGHE?>>.6'*5<(76: @read_150_436/2 TGAATCTGGCACAGTGGCTCATGCCTGTAATCCCAGCACTTTGGGAGGCTGAGGCAGATGGATCACCTGAGGTCAAGAGTTTGAGACCAGCGTGGCCAAC + DDCBFECC:@EEC@6HHHHGEHHG@3@EHHHGGFFC/BHHEBF7ACCDBA06<<==3-3/C;8DCFHHHHD?FGB@EEFFHFEEEBHHHHHHHHHHFHEHHHHHFB@E?D;E5AAD @read_150_438/2 TCGCTGCGCACATACTTTAAGAACCAGTCCCGAGTTCCAAGATGGCTGAATAGGAACAGCTCCGGTCTATGGTTCCAGTTTTGAGATCGGAAGAGCGTCG + GFFEE@<>:.-:>>FGEEGHGHHHFHHHHHHHHFCFFHHBFFFHHHGE/6BFGEEHFFGGCEDHGHGEGFHEG?HHHHHHFAEG<=DHHGHHGEE @read_150_439/2 TGAATCTATCACGCCACTGCATTCCAGCCTGGGCGACAGAGCCAGACTCCCTCTCAAAAAAAAAAAAAAAAAAAAAAAAATCCGCATAGATCGGAAGAGC + HHHHHHHHEEFEEBED8FHHHHHHE.7<> @read_150_441/2 TGAATCTCAATCCCACTAGGTAGGGATTATCACTGCAGTTATATAGACAAGGGACCTGTGGCTCAGGGAGGTTAAGCTACTTGCCAGATCTCATGGCTAA + HHHHHHHHHHHHHHHHHHDHHHGGGHHHGHHHHHFCDFHHHHEHHHHHDHHHHHGHHFGHHGB==DGA@<35=@EEHGDDHHH=FG0030-<@-56AC@CEFHHHHHFEEGGDFHHFHHGHFFHHFF23BDHHHHHHHHGHHHHHG=ADHHEHFC1==BFGE6);FDDDFEEEHFBDE+3(%'91 @read_150_444/2 ATAGTGAGTAAGTGTTTCTTGTGAAGGAGAAATATTAAGAAAAGTAAAATAAACTTAAAATGAGCCATTTCATCTTGGAAACAAAAATTGGAGGTGGAGA + GGGEHHHHHHHGGBEHHFGHHHHHBGFHHHE@FDFHHFFGGEEHHHHHHHHDDDDCC66@4<:D>0(-)05EFDEB4DDHHE?,/9ACEEHDCHH?DC>'/ @read_150_446/2 ATAGTGAAGAATATTTAAACCAGTAATTCTCATCCTTCAGCATATAACAGAATCACCTGGGAGGGCCTGTTAGGCTACCGACTGCTGGGCCCCGCCCCTA + HHHFGHHFIGGEHHHHHHHDDEGHHHHHHHFGFHHHHHHHHHHHHGGGEFGIGHHGHHHHHFHGHHHHD@FHFHHHEHHHHHHGHHHHHGFHD?HHFGEC @read_150_447/2 TCGCTGCCCATTTGCTGAATGCCTCCACGAATGGGCAGGAGATTGCTATGTTGTTGCATGTCACACTGAATTTGGCCAGCTTCAGAAATTCCCTACAGAA + HHDBEEEEEFHHHHHHFFHFHHHGD:ADEGHHBFGHEEEFB>CCGHHHHHHHHHHHHHHHHHHEE4=:><9>HEGD@GHHHFBBHHHFFFEHFHGHHGDE @read_150_448/2 TCGCTGCAGATTACTTTGGTTCATAAGTATTCTCTGGGAAACATAAATGTGAAAACAGAATTTAACTTTCTGGTGTACAAATAACTTTCTGCTTGTATGA + HHHHHHHHHGHHHHHHHEEEDEE8><CABGIGF?GGFBE;>GEHHHFHHEHFFHHGEGHHEEFB=GDEBEG*.@A9@@<9187BEHHHHGHHGHGDE9>EE @read_150_450/2 ATAGTGAACCCTCCATCTGCTCTTCTCTCAAATCCATAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAA + @GFHHGEEHHHHHHHHFE?DDC<>BFFHHHHHHHHHHHHGGHHHHHHFHHHHHHHHHHHHHHHHHHHEHHHFD7B85D=C6,<<('2,=EGGD;>:106( @read_150_451/2 TGAATCTCATTTGGAGCACTTTGTGGCCTTCGTTCGAAACAGGTATATCTTCACATAAAAGCTAGACAAAAGCCTTCTCAGAAACTTCTCTGTGATGATT + HHHHHHHHHHHHHHHHHHHHGDDB7618GGDFHHHG@B@A4?8>:>/-4=6@FCHHHHA9A?C><>3&4(120;EB@CC @read_150_452/2 ATAGTGAAAATGAACAAAAGAGAAAAGATAGGAGAAATATTATAGAGGTAGAAAGAATCCATAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATC + HFHGHGHHHEEFFFHHHHHHHHGGHHGGHHGGGHHHHHHEHHEHHHEAD+219--3-;7B;9>@EBGGGHHHFEGHHHHFB/6EFFHH51>>59;C,.?B @read_150_453/2 TGAATCTAAACTCGAGGTTTGTGTCGGGAAGGGGAGATAGAGGAGCAGGTGGAAAGTCTTGCAGGGCACATTGTCAAACAAAGCATCAGAGGCTGCAGGC + HHHHFHHHHHHGFHHHHG=5DFGHHGHHEHHHHHHHFHFF@6D=C@HHHHHHHHHFFBHDHHHHHHFHGBFHGGEEE?FEBFFFHHHHHHBA;1? @read_150_454/2 TCGCTGCAGGAGATACCCGGTTAAGAATCCGGTCGGGGAGGTAGGCTGGCCCTTGACATGGATAAGTCACAAATAAGTGGCTTAGGACTCCAGGAAGATA + =FHHHHHHHG<<<?@@EGGEFGFHHFCCFFF @read_150_455/2 TGAATCTGCCCTGCAACTACTTCAGGGAGAAACTAGCAGGTGCCCAGAAACTACTTTCTGCTTCCTCCCTGAAGTAATATGTAAAGTACCAACCACAATG + FD@/*3CBHHHHHHBGD=CCGEEEF@?BB@@EHHHHHHHHHH;<@>;-16/BDB@@16.5G9687D=GGHCCB>=G>.<<4>C@HFBDCHHHHB:+7:'6 @read_150_456/2 TCGCTGCATGTTAACAGAATAAATTTGAAAAACCACAAGATCATTCCAATAGATGCACAAAAACCATGAGAAAAACTTCAACAACACTTGACAATGAAAT + HHHHHGHHHHHFECHHHHHHFHHHHEEEHHEEHEHFBBFHHFHHGGEEFGHHHGHHFF>EGHHHEHHHHFGEDFCEBEEEE=D>:6EFGFEBEHHFFFEB @read_150_457/2 TGAATCTCATGCCAGACTTTGTTTCAAAAAATGAGTCAAATGAGAGACCGGCAGAGTGTGTGGCACCTGTTTTGTTGGCCTGAATCACAGCAGAGGTGAT + DDGEC:=@BBGDACCHHHHFGGF?DBEEED@@CDFHHHHHHHFHHFGGEEHHG@>@.@CFGGGHEGGGGG=>9968<;GFFHDDDA=DAA58FHHBEEHE @read_150_458/2 TCGCTGCTTATGCCCAGAAAAATCTACTTTAAAGTATGAATTGCTTCTTGTATCAAAGCACATACAAGTTGATTAGCAATTTATGTTCTATGTTTAGCAA + HHHHBGGGHHHHHHHHHHFHHGHHHHHHHHEFEBFHHHHHHHHEEEHHH?C>9705:7B=BADGGFHHGEGEGB;3&67(D?EBHFFGGDBDEHF?@DCE @read_150_459/2 TCGCTGCTTAAAATAGTAATCTCTTCCTAAAAATTCAACAGGTAATTATTGTTTGGTGAAAGAATATACTTACAAAACAAATTAATAAGATTACTTTGTC + HBHDD=EDGFHHHHHHHHFGGEHFGFA5=C>76HHGC7DFHHHFEHHFC-:5?@EGHHHEGFHEHHHHHHHHHHHHHHGEGD9>>E;:>?FFHHHFDA4D @read_150_461/2 ATAGTGATTTGTTAAATGAACGAATCTATGAGATGCTTCCCATGTGCAAAGTAAGGTTACAGGTGCTTTAAAGGTATTATTTGTTTTAATACTCACAATC + HHHHHHHHHGDDGGGFDGGEHHHHCDFFFHHHHHHHHHHHHF=C@.743-8DFEF@CCFHHHGDC=GGHHFFEEHHHHHHHHHHFGGHHHBCGHEGBHHF @read_150_462/2 TCGCTGCTGCTGAATTCCACCAAACATTTAGAGAACAAATATCAATCCTCCTCAAACCAGTGTGAAATATAGAGGAGGAGAGGATACTTCCAATGACATT + HHHHHHHHFHHHHHHHHHHHGHFGFHHFF65+1%EIG?<2,6.9(+)+33>>8DDHHHHHH@8DFHHEEA>6:ACC6GGG?0&>DEED:>@B>>DHE?B @read_150_464/2 TCGCTGCAGGCTACATCTTGGGGAACAAAAAAAAAAAAGAAAGTGATAACTAGTAATAATTTGAAAAAGTTATTTCAAATATACCTTAATGTTAAAACAG + =GGG@:=@BGFDHHHFEFHHGF?BB516=FFE=DDFFEEFHFHFHHFHHHHHHHHHHHED>@DDDHHHHHHHHHHHHHHHHHFGFF@=FFGEHDGFFGAE @read_150_465/2 TGAATCTACGTGACTCTCCTACATTTTCATCACATTTTAGTTATTTTCCATATCGATAGTTGAAACTGTCCTACAACTTCAGGGCTATAGCTATTTTTTT + GECDDEEHHHHHHHHHHHHHEEEHHHHGGGHFFFGBBGE@FHHFHHFFHHHHHHGHGHHHHEDDEFFHHHHHHHFHHHBHHH=DDEAGFEDB:;1><*,9 @read_150_466/2 TCGCTGCAGAAATAGCCACTTGTTAGGCCGAGGAAACCACCTGGGGTTCTGGCTGGTAATGAGCCTAGGGCATATGGAGAAATGTGGAGAGATTAGGAGG + @EHHHHHHHHGG?FHHBCCDHHFD5=EHB/><&'7,:=DHHHHHCCGDHHGGHHHHHHHHHHE8HHHHHHHHHHHHBDD@E7*1-.CF5FG@:635DHED @read_150_467/2 TGAATCTTATTAGCCCTTTGTCAGATGAGTAGATTGCAAAAATTTTCTCCCATTCTGTAGGTTGCCTGTTCACTCTGATGGTAGTTTCTTTTGCCGTACA + HHHHHHHHHHHHHEEFHCDEHHHFF@::;93.>@D @read_150_468/2 TCGCTGCCTGGCCCCAGGCCTGGCACCTGAGGTGTTCTGTCTGTCAACCTGAGCCTGGCTGGGAGCTGGGACGGCTCTTTCACCAGGCCTCTGGAGGAAA + >1-0+GGIHHGHHGEGC54=ECEHHCDC?HHGFHHHHDFAFC@GHHHHHHHHEFFHHHHHEEGGGGF>BA0CB@EGHHFAC8DAFHHFFA=FGFFEGFEE @read_150_469/2 ATAGTGACTTCTCATAACCATTAATGGAGAGAACTCCATGTGACACAGTAACTAGAGGGTAAGACTGGACCCACAGATGTTTTATATGCTATACAGATTA + HHHHHHGHHHGGEEDHHHHHHGHFFHDD8FHHFFEHFHHHDGHHHHHHHHHHHHB.55G8>C7FHHHHFHBFHHEGFFBHEAD=BHHGFHGBEC@@EBEG @read_150_470/2 ATAGTGATCTTTTTCCAACCAAGCAAGCACTAAGAAAATTCATTACCACCAAATGAGCTTTACAAGAGATCCTTAATAGAATTCTAAACATGGAAATTCC + DHHHHHHHDGGHHHHHHH=BDGEB??DEFHB<7;&>-:>;;9>@EGGHHHHHHEC=DE=B??C?BGGD4@DFEE:<1'-*)--5,DDF@,0*DCA:@('' @read_150_471/2 TCGCTGCATCATAAAAGAAAAATGATACATTCAACTTTATAAAAAGTAAAAACGGCCGGACACAGTGGCTCACGCCTGTAATCCCAACACTTCGGGAGGC + HHHHHHHHH71757@+-18BHGFFFHHC5AEFGHHHHHHHHHHHHHHHHGGHFGGHHHHHHHHH?DGGFFFC:.?:?DDCFGGGDC9;61)842:EHBBG @read_150_472/2 TCGCTGCGTAGCTGGAACTACAGGCACGTGCCACCATGCCCAGCTAATTTTTGTATGTAAAGTAGAGACGGGGTTTCACCATGTTGGCCAGGATGGTCTC + HHGGGHHHHHHHHHHHHFGGHHHHHFGHGEG@GF?HHHHFGEEHHFGGEEG@B;>)',*(.@6DEGGGEFGEHHHHHGEHHHHHHHGEGGGHHH?CEEC? @read_150_473/2 TGAATCTGTCCGCATAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAAA + =CFFFHHHHHHHFEEGDEECBGHHHHHHGGEHGDC:7>=>EHHHGFHHHHHHHGGFFHHH@:@EBE?9>8D=>A@>FFDHHHHHG?;<<<8-6@;EDDDE @read_150_474/2 TGAATCTATCTCGAGGCATCTGGAGCACCCACTCTCCTAGATTAGGAGCTTAGGCTCCCCTCCATCCCTAAGCAGATAATTTAGAACCGAGGAAGCTCTA + HHHHFEHHHFHHHEEGHHHDGCDEGHGHFF?DDFEHHHHFHHHHFGGGHHGFHHHHHHEEHHHEEGGEEFEFF:7@CF,+5<:>5=:89=DCHBFHHHHH @read_150_475/2 TGAATCTGTATTATATATAAATATGTAAATATATAATATAAATATATAAGTATACATATATGTATATTGAAATACATGTATGTGTGTGTATATATACATA + /33952-1@>DFGCDBBE,BEEDE@@8AEHHHHHHGCCHHFBHHHFCCB9=:=FDGHHHHHGGHGDDF@E3/5&2?>>FF?FGB?FEEEEBFHHEEHHHG @read_150_476/2 TGAATCTCCCTCCTACTCTTCACCAGTCTGTGTTGGGGCCATATCCGCATAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGGGGATCTCGGTGGTCGCC + HHHHHHHHHHHHHHHHHHGFCHHHHGHFFHEEHHFFHHHHHHHHHHHHHHHGHHHHHHHDHHHHHHHHDGDFCE@75C9<50'-5>@CDD@@GFFHHHFH @read_150_477/2 ATAGTGAGCACTCCAGCCTGGGTGACAGAGCAAGACTCTGTCTCAAAAAAAAAAAGAATTTATTCCGTCCCAGCTAATGCAATAACACAAGAAAAGTAAA + HHHHHGFHHHHHHHHHG>@A@GGHFHHHFHHHHGEEHC96<: @read_150_479/2 TCGCTGCAGCTAGTCTGGGATCCTTGAGGAACAGAAGTGGGATGCTGGGCTTTGTGCCTATGCAGGCAGCGATATCATCCATGTAGGCAATGTCGTCAAA + HHHHHHHHHHHHHHHHHHGFHGHHHHHHHHHHGGGFFBFHGGEHFHHEB/18:4A>;,,:AGEEH @read_150_480/2 TGAATCTTCCGCATAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAAAA + C=B8@<-CFHHHHG;DHHGFGGHHHHHHFDDD@GFHGGHH=DAE@B>ABBBDBCCHDEEIDGHHHHHHHF@7,)<@01;@?AD@@EEHHHFHCFFBHHDE @read_150_481/2 ATAGTGACCCAGCACCCAGTTTTCAGTGTCCTTGGAAACTTGGAGGAGTTCTGGGAAGGTGATAGGAAGATAGAAGAAGCCTTCTCCGAGCACCCAGAAT + GHHHHFHHHHHHHHHHHHHHGB<=?DBDGECE*9>BDFBCHHHD@37CEEFGHGGGEHHHHC83@EHHHEG?@;D==@:7CB;@@EFGHHHHHHHFADDE @read_150_482/2 ATAGTGACATTATTGTGGTATATTTGTTACAATTACTGGACTAATATGATACAGTATTATTAACTGACATCCACATTTTATTCAGATTTCTTTAGTTTTT + HHHHHHHHHHHHHHGBBHHHHHHHHHHHDEFGGDEHHHHHHFDGFFFFE6362()2//+=@;1<:BFGGEGB;BBE9<EFEFHHHHHHHFHHFECC;7FFGGHHHHFCDGHHGHHHHHHH@7(>>07@CFFFHB8@=<5:D?E?EGGG @read_150_484/2 ATAGTGAACAATACTGAACTGGGAGCCTCTTTAACCAAATAGATTAAGATGCTCTGATTGTCATGATTCAGATTGTCATGATTCTGATTGTCATGATTCA + >5-86@?88EE84485?FGGHHHHHE=EBA.<<0?@D@BCFHHEGFAD:BEEEHHHHHHH6/CCHGI?<>9AFFHHHDGDHHGFHBGB@FFGABBFFEGHHHHFHHHHCAGDECFHHDEDEEFHHFDEF??BDEE4:>6EGHHHHHBHHHHGGFFG?:>C>>@B=:=8ABBFGDGE/BFIGEFFEFFF@GEGEE?ADDC8:>GGGGCDC @read_150_488/2 TGAATCTCAAAAAATTCATTTAAAAATTCTTTATTTGATAAGTTCTGATATCCTCTCACTCAATAATCAAGGAACTATTTATTAGTAATTAACTATTGTA + /5<..CCFFGHHHHHHHHHHHGGEEEDD@HFGGHHHHFFGGFE6));DHGHHHHHHFE@?C5741&5BEGHHFFGABAEFHHEHGFBDF @read_150_490/2 TGAATCTGACCTCGTGATCCACCCGCCTTGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCCGGCCTGATTTTTTTTTTAACTACCAGA + DGGHHFHHHFHHGHHHHFHHHHHHHHHHHHHHHHHEFGHHGEFFDDC@BHFHHHHGGHEFHHHHFHHHHHF8DEGEBBFEHGEGFHHBGHFGHHEGE:AD @read_150_491/2 TCGCTGCAATTCTCAGCCCATCTCAGGTCTAATTTAGCTCACTAAATTAGAAACTTTGTGGGTGGGACTAAGGGTATTTTATTGGTAGCCTTGAAACACA + BEHHHHHHHHHHHHHEEGFHHHHD9'3@;CHGGD6FAFHHHHHHHHHFEHHGGHEGG;BBDDDDC/07;725.;GGF @read_150_492/2 ATAGTGATAGAAGGTTCATGTTTTGAGCCTTTATGGTGATTGTGCAGCTCTCTTGAAAATTTACACTGTCATTTTATTTATAGCAGATGTCTCTTAAAGC + FFDEHHHHHHHHEEHHHHHHHGDCDFHBFGGBEEFHHHHHEE;HEDHHHHGBGGBDCDHHHGHFCHHFGHFFGGGD4><,::@5*DDEECBC=ACAGHHH @read_150_493/2 TCGCTGCAGTTTTGAAAAGTGAAGCTAAGAAATGATTTCTTTCACAATAATATCAAGATGAACAAAAACTTTTAGCAATGGCAATTCAATTTCTGCATAA + IGEFACCHHFF@GHHHHGHF59;A63@EEEGHHHHD(;3++583>DF,<:<>CCCCA?@BEHBDC/6 @read_150_495/2 TCGCTGCAGCCTGGGCAACAGAATGAGACTCTGTGTATAAATAAATAAAACTAAGAGAGTTCTCACATCGAGCTGTGAAGGTAGTTTGCTAATTTATCTG + FGG7GFHHHFEEDD=CHHHHHHHHHF@B=CABDC<::FHHHGHHFEHHHGGHHHHHHHHGFHHHEAB43-9FHHCHHHHHFHHFGHDGE@DFHHEF @read_150_496/2 TCGCTGCATTCCTGCCAGTTGGTGGATCCCAGAGGAAGGGCTGGCGTTTGTTCTGTTCATTCTTAGATTCTTAGCACCAAGCGCAGAGCTGGACACACAG + GGEEDEHHHHHHHHHBBHE:4GG?@E=ABCEHHHGHDHHHHGHHHHHHHHGGIGGFHFGHHHE?HHHHGHGHHHHHHHHH2/FGHHFHGGFGHGGHFHEGHGBBB-16>D<**11)))26*(5<;BE::1,);E9EDDE? @read_150_499/2 ATAGTGATGCAATAAGCTCACTACAGCCTCAACTTCCTGGGTTCAAGCAATCTTCCTGCCTCAATCTCCTGAGTGGTTGAGACTACAGGCACACCCCAAC + HHHHHHHHHHHFFIG?FGFFHHHHHFGGGFBBHHHHHHHFHHFGE;7>6:46?<:(>58;1-(,@<>>B50EGHFFBFHHF67?ACBHE?9%2 @read_150_500/2 ATAGTGATGGGTTACAGGGGGAGGAATAGACAACAGCCCAGAAAAATAAGTCAGGTAAAATGATAAGCGTTGGAAGAATAAAGCAAGGAAGAACAGGATA + HHHHHHHHHHF??B<)5514;A@FHGEFBHHHHHHHHHGHHHHHFHHHF>=EEG=EEDFFFHHGHGGHHHHCGF9&>;B@ adapterremoval-2.2.2/examples/interleaved.fq000066400000000000000000006552101313314234200212000ustar00rootroot00000000000000@read_150_1/1 CTTGGGTACTCAGCCTTAGGGTACCACATAGAGTTATCTTATATATTATAATTGCTCTTTTAACATAATTTTAAAAAATTTATATTAAACTTTCTCTGTT + HHHFFFFBBDGGGGGHHHHHGGFCDHGEE<@;+@C792A.CEEGGFFFFDEFGFHHHH@C2;@F;EDDHFDCCC@.DEEEG=BGEDC5>:=2@GFHHHFF @read_150_1/2 AGAAACCACAGTGACTTAAACAGAGAAAGTTTAATATAAATTTTTTAAAATTATGTTAAAAGAGCAATTATAATATATAAGTTAACTCTATGTGGTACCC + HHHFFHHHHHHGFBGHHEFBDG?B=GHHFGFHFHHHHHHHFBFHHHHHGGEEG=DGGGGCHHHHHHHGEA%5ADHHHH=G&&*>>099BEB@=?*59/''.CCFHFHHHHHH @read_150_2/2 TCTTTGGTTCTGTTTATATGCTGGATCACATTTATTGATTTGCATATATTGAACCAGCCTTGCATCCCAGGGATGAAGCCCACTCAGATCGGAAGAGAGT + HHHHHHHHHHGHHHHFGHGFGB<.36./AEFEEHGGBD9HHHHHGFE:A9:<.;<E6,735@GG @read_150_3/1 TATGTAATGACATAACTCTTATGGGCAACTTCACAAAAACACAGAAGAAAGCCCTCCTAAAGAATGAAATTCCAAAAAAAATCAGGTTACTGCTCACTGA + HHE=EE@DBBBGHGBFGGDDDDFFFHHHHHGHHHHHHGHHHE7BFHHHHHHG@4FEHHFHHHHFHHHHHHFFFE?EGCDE>CD:9=>+*;=37::ADDHF @read_150_3/2 GTCATTAACATTCACGAAGATAAATTTCTCCATTTTAAACAGAGACACTCAGTGAGCAGTAACCTGATTTTTTTTGGAATTTCATTCTTCAGGAGGGCTT + HHHHHHHHHHHHHHHHHH?GF5:@AFHHHGHFDDGGFFFHHFGHHHGGHHHHHHHHFGHFGEGC.18984>1BC=GFFAC<>E?..59&&-81:<<5EEB4DFHHEHFHHHHEGFFEEFCDHEFF:+1;?GFFCFHHHHHHHHHFHBB>>BEDGCDHHHHF @read_150_4/2 GAAGACTATCAGCCATTCTTTTCTGTTTAGAAGAATTCTTGCCTACTGGCAGGTTTTAAATTTGTTTCATTTCATGCCTTTATTCCTGGACAGTTTTTCC + HHHHHHHHFHHDEECEHBHHHHHHHHHHHHHHHEA?936>.@ABCDBCE>:>@CDGHHHGEBFE/38@EEFBFGHHHHHHEGH?DHHHH>'9DEC**'*6 @read_150_5/1 TACTCACGGACAAAGAATAAATATAGCTCCTCCAGGAGCTTAATAACTCAGTGCTGTCTAAACTCCTTACACCTGATGTTGATGCCATGGTTAGATAGTT + HHFFGGFDBHHEHHHHHHHHHHHHFHHHHFHHFEEDFD8=GHFFHHDHHHCHHFDHBHDDGFHHHHHHHHHHHHHHFD;>A5<(@<4:> @read_150_6/2 TCTGCGAAAGCTTCTGTTTAGTTAGGTGACGTTATCCCGTTTGCAACGAAATCCTCAGAGAGGTCCAAATATCCACCTGTGGAGTCGACATAAAGTGTGT + HHHHHHHHHHHGEEHHHHEHHHHHHHHHHHHHGGBG=<, @read_150_7/1 TAAGTAAGGTAGACAGCTAAGTCTAGTTTGTTCCCAGTGTTGTACCAGTCTCATCAGTGCCGTGTCTGGGTCTCACAGCCTCTGGTGTTCTATGCTGGAT + GFFEEDHHGHHHHHHHHB?GG77-/:>>@?6AC5GIB?BEBHHHHHHHHHHHHFGFHHHHHHEFEGF9?EHHHE@8BB12BEHHH @read_150_7/2 ACTTGCACCTCTTCATCAGAGGAGCAGATCCAGGAACAGAAGTCCTGCATTTACAGGCTCTTCATATCTTGTGCCGGGTTTGGCTGCCAGGTGGCCAGCT + HHHHG=BDEDFFGGHHHHHHHHHHHHFHHFHHHCGHHHHHEBHHHHHHHHHHHHHHGEEE??6BCFHE624@7=1AFGBDHHHFFE<<.>,1349EEHHHHHHHGFHFHHHHHEHHD=:>-7@BC2BHHHHHHHGBHEFFHHGGHFGFHHEEFHFBEBEFHHFFBCA?B @read_150_9/1 AGGGCATATATTTTGTCAAAACAAGTAGAGCCAGGCCTGCTGTCTGTATCAGCCCCACCTAGGCAGGTTTGGGATAAGGGAGGGAGTGAAGAGGGAAGGC + GFBDDGHHHHHHHHGGHHHGHHHCFFHHHHHHHHHFGGEA?FFFGEFBBA@;6BEA@EEEEEHHFEHFDDHHHHFEEGEB(:A:6C=>>CFFFCE?DEBD @read_150_9/2 GCCTTCCCTCTTCACTCCCTCCCTTATCCCAAACCTGCCTAGGTGGGGCTGATACAGACAGCAGGCCTGGCTCTACTTGTTTTGACAAAATATATGCCCT + GGGEBGHHHHHHHHHHHHHHHHHHHHFADHHHFHHHF?DEF@B>C;CDGEHGGHHHE@@DBFGHHHHGB>BBFEGEGHFHF8ADCFDEE4D?>H@:>DD= @read_150_10/1 TATAGATGAACTCTGATTTAGAATTTGTATAAGCTAAAGCATTATAGTAATAACTTTTAAAGTAGTATTTAAAATATCCTTATCTTACGTATATATGACT + <506@6?GHHHHGFHGFCFHHHHHHHHHHFGFF<3@C43F>AAEEFBFDFFHHHHHHHHED(0DAEBEFC?BFBEHHHHHC@85@GBGGFDCHEHHFCFB @read_150_10/2 TAGTCTTCTCTTTCCTGAGAATATTTTTATTGCAAATATGTAGTCATATATACGTAAGATAAGGATATTTTAAATACTACTTTAAAAGTTATTACTATAA + HHHHHHHHHHHHHHHHHHHHHHHHHHHHHFFFGHHHHHHHHHHHHEBDG>CCBB?FHFHHDEFHGDDGHHHHHH@BECHHEHGDHHHHHFHHHGEHHHHH @read_150_11/1 GCCCAAGCCATACTTCAATAAACGTACCATAGATGTGAAATACAGGATAGAGAGCAAGAGCTTTTGGCACGGTAATCTTAGATGTGGAAATTTACTCTAA + HHHGEGGHHGGFGGGFHHHECDDCCDDHHHHHHHHHHHHHFGGGHFHHFFHHHHHHHHHHHEHFFHFG?HHHFEE=EE8@8EEBEDHHHHHHHHBCDDHH @read_150_11/2 TCCTTCTTAATAATCGTATTAGAGTAAATTTCCACATCTAAGATTACCGTGCCAAAAGCTCTTGCTCTCTATCCTGTATTTTACATCTATGGTACGTTTA + HHHHHGEHHHHHHGHHHGGGHFGHHHHGGDHHGGHHHHHGHHFHHHFBD@FDFFHHHHHHHEHHHHHDDB=DA@@5DBC<.&9=AEHGFHGGD=1A;3CC @read_150_12/1 AAGGCCTTTGAAAAATAGTTTTTTTTTCTCTGACTACGTATTTGTTGTCATTGTCATCATATTTCCTCTTAATTCTCCAAGATAGTTTTACTTTGATTTT + HHHHHHHHGGGEGGGGGHHHHHHHHFCEBFGHHHEEHHHHHHHHHHBDGBHHHHHHHHHHHFFFFEHFFCDDDHHFGGHHHHHCCEHFBGHHFGHHEEHH @read_150_12/2 TTGCCTCAGATGTGGACCCAGTGTTAGATTTAGCATATAAGGATTTTAAACCAGATATTACAAATACGTTCAAAAATCAAAGTAAAACTATCTTGGAGAA + HFB<95>:5226A>>DDCB@--3;BFFH @read_150_13/1 CCTGAAGCAGCTGGCTAGTGGCTTATTACTTGTGACTGGACCTCTGGCCCTCAATCGAGTTCCTCTATGAAGAAAATACCAGAAATTTGTCATTGCGACT + HHHHGCC8EF@E8DB'/DDEFGCEHHHGGBHHHGGDD>>FHHHHHEE;EFHHGHHB@FD:<.?DDGHHGBDDEE=ACEGHHHHF=CC?DGBBHD@DF8 @read_150_14/1 TAAAGCCCTTGCTCCTTCATTTTAGTTATTTTGATCATGTCAGGTACGTTACAAACATTATTTATTTACTGCCATGCTACTATTGCTATATCAATGCTGA + HHHGHGGHHGGGGGHGGHHHHHHHHHHHHHHHHFFEHEEBBE>?DHHHHHHFGCGC@DHFDHHDDFFHFHFDEFHFFFGFHHBBGFFHHHHHHH=>:8BE @read_150_14/2 ATTATTGATTACTCTGGAAAATAATCAGCATTGATATAGCAATAGTAGCATGGCAGTCAATAAATAATGTTTGTAACGTACCTGACATAATCAAAATAAC + HHHHHEE=/?<*>FE;-53>>8=FEEFHHHHHHHFHHHHHHHHHEHHHHHHHHHEFEEHHHHFEBFEBC>FHEGE9?D @read_150_16/1 TATTGCTAATTTCCCAGATTTTTAAATACTGCCTGATGCTTATATCCTGCAAGTCCTGTCTAAAAATCAGTCAAGATCGGAAGAGCACACGTCTGAACTC + B@EHHHHHHHHFGHHGGBB@?CFFHHHHHHFEEHE@@CADAFFC>AHHFHFHHHHHHHGGFHFGE6.6HHHEEFFGGHHHHE@?=EGGFBFHHHHHEHHHHHHHHBEEFFGHG5CBCACDG @read_150_17/1 AGATGAGGAAATGGAGGCACAGAAGAGTCACTGTCTAAGGTCCCGCAGTTAGTAAACGGTGGAACCACGATCAGAAATCACAAGATCTGTGCTCTTCTCT + HHHHHHHHD?>A=@8.>HHHHD4*BFHHHB=BEHHHHFFFFEEDE77),BAA?>5%4:FGGDHFE@614A= @read_150_20/1 TGCCCTGCACAGGAGCTGGGGACAAAGACCAAGTATATTTTGTGTTATGCCACAGACCCCAACAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCA + HGGGFFHHHHHHHHHHHHHHHGHGFFCFEHHHHHHHHHFGHHHHHHHHFFCE:<*:6EDHFGFFGAHHHEBFHHF??CDCHB0DGHHHEGCFFCDBGFHH @read_150_20/2 TGTTGGGGTCTGTGGCATAACACAAAATATACTTGGTCTTTGTCCCCAGCTCCTGTGCAGGGCAAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTACA + HHHGGFHFHGHHHHHHHHHHHHHHFHFGHHHHHHHFHHHHHHHHHHHHGGFHHHHHHGGHE><.??D98EHEC:.B @read_150_21/1 TGAGATCAATTCCAGGTACATTTTTAACTTTTCCACAACACAGGTGGCCCCGTGGGCTGAGACTCAGGAACCCACCTCATCATCTGGTTCTGCTCACTGC + FEFFGDC/>=FFHHHHHHHCEHHEGEGFD-%%5CGCEHEHHFHHGFEH>>BDEEBDBFE.1%88 @read_150_22/1 CCACTCCTCCAGAGGATGGCACAGCATGGGAAATGAGGCTTTGGGCCTAGCAGATCTGGGTTCCAATCCTAGCTCAGCCTCTTTAATAGTTGTGTGACTG + HHHHHHHHFE@EEHDEEHHHHGHHHHHHHHHHHHHFFHGFHHGHHDHHHHHFHHHHHHHH@7:@E?DDDDFFEEDGGFFHHHHEHHH68><+(>4@EFDF @read_150_22/2 AAATGAGGCCTGAGTGAAGAATCTTGATACTCATAGGTCATTAGCTTCATGTAAAAAAAAAAAAAAAAAAAAATAAAAACCAAAAAAAAAAACCTTTGAT + HHHHEEFEGDHHFHHHHHHHHF8BCDEHHHHHHHHHHFFDEHHHHHBAADGFGGBFFFGCGGHHHHHHB.057(+2-9GGHFHHFHFA@@;>DEDEBEFG @read_150_23/1 CAAGGGATCTAGACTGCTCTGTCTATGAGAATCTAATGCCCTCCCCCTCCACCATGGAAAAATTGTCTTCCATGAAAATGATCCCTGGTGGGAGACCACT + HHHFHHHHHHHHHHHHHHHHHHFFH@EHHHF8@;@DD=EEHCFFAEFGFHHFHFGD<+(4EDFHHEFHHFFFFFHHHHHDFGGHFHHGB=CF?@>CD?CG @read_150_23/2 TCATAGTCTTCAGTGCACCTTAGATTGGGGTATTGTTTTGTTTTATTCCAAGTGAGCAGGGAACATGTTAATGTTGGACATGTTCTGAAACAGTTGATAA + GGFFGGGHHHHHHFHHHHHHGHHHHHHHGHHGFF=BDHB84DB@AC5(('97B?@E=6>@AHHHHFFEGEGHHHHFHFDGHHHHHGGHGHHGEDD?7>29 @read_150_24/1 GGTTTTGTTTTAGGGAAGAGGATGAGAGTCTTGGGCATCCGAGAGGACATGAAGAACAGGTTTCATTAAAGTAGGAACTCAAGTAAAAATAGTCATGCTG + HHHHHHHHHHGGGGFFFHHHHHHHHHHHFGGGGGHDBEHFEHEEGGHHFEDD?@>&7;>HHHHFHHHHCHFHHHDFFFHHFHGHHHHHHEHHHFHEHHHG @read_150_24/2 CAACTTAATGTGACTGAACTTAGAATTGGGAAGATTCACGTGCAGTTGACTCTCATGAGCCAATACAAATTGGCTCCAACACACCATCAGCATGACTATT + HHHHHHHHHHHHHHHHHHHHHEFHHHHHHHEHHGFDEFHHHHHHGHHHFDHHHHHHHFFDG@BCFFHGFHHHHGHEE@AD?2&5.544DE82EDHH=<45 @read_150_25/1 GCTGTTGGTGAAAATTCTTGTGATGTGTTTATTTATCTCACAGAATGAAACCTGTGTTTTTATTCACTGGGTTGGAAACACTGTTTTTGTAAGATCTAAG + HHHGGGD8/=B>:CCEGFHHFHCFDAFAEFHHHHHHHFDHHHHHHGGGDDECD@FFFGD8,;1 @read_150_25/2 AAATATCACTTGTTTCTAGTTTTATGCAGGATATTCAGTTGTTCACTATAGGTGAGAAAAGCTCAGAAATGTCTGTTCTTAGATCTTACAAAAACAGTGT + HHHHGDGGGGFGGHHBAB=??CCDDBGCDEGHHBHHHHHFCECBFGGDFFGHHHHHBB@.<3,+6<<9=DCBGGFHGED@GHC@GGEEFEGB?>DB>58E @read_150_26/1 TTGCAAGTAATTGCAGATGACTGTATTACCACAGGATAACATGAGCTGACATATTTTTTTGCTACATCTCCAATTGACTACTAGGCCAAAATCTTCATGG + HHHHHHHHHHHHHHHFGGHHHBGEEEGG=GDEFBEHHHHDHE?EHHHHHHHHFFBFHHHEHFFFHHHEED?BFB=DA?E?HHHEEHHHHH=>DHHFGHHH @read_150_26/2 AAAAATTATCCAGGCATGGTAATGGGCGCCTGTAGTCCCAGCTACTCAGGAGACTGAGGCAGGAGAATGGCGTAAATCTGGGAGGCAGAGTTTGCAGTGA + HHHG>:>98633131><>>??BFGHHEHHEHGC8=8@DDCHHHHHFD;7EHHHHHHHHHHGGHHHHHHHHHHHHHHHHHHHHHHHEEBEBGECDEEEE<8 @read_150_27/1 ACAACAATTTCTTCAGATAAGTCCTTTAATTTAACCACATGGACCCAGCCTGGGATCTCCGGGACATACAATCCTGTCTTAGGGCTCAGAAGTGCCCAGG + HHHHFGHHHHHHHHHHHHHHBGDFHHHHHFHHGFEE?/8<2>CEA?7CG?FDE3FCFFCFHD?@FHHHHF79573>EDDCGFHHHDFHD=EE;)--7:ADHBFFF @read_150_28/1 TATTGAGGCAAATTAAGTGTTTTAACAAGTGTGTATATTTGCCCTAATGCAGCTTAATTAACTATATCCTCACAAGATCGGAAGAGCACACGTCTGAACT + HHGHHHHHHHHGHHGHHHHHFFEEHHH?FFFGGGGGGGGGB=?>;FHEFFFGHHFHEHHHHHHFFHHHHHHDD3,>DDDDDEEEEGCEHFBFFHHHHGGH @read_150_28/2 TGTGAGGATATAGTTAATTAAGCTGCATTAGGGCAAATATACACACTTGTTAAAACACTTAATTTGCCTCAATAAGATCGGAAGAGCGTCGTGTAGGGAA + GDD??<9;:=EEG:?CCCC@FFGHHBGFFHFD=D@@>18>=<3=FHGGFHFFHGGHHCBHHHHFFFAFFFHHHHHHHDGHEFC9=DDBDDHHHHHHBGHH @read_150_29/1 AAGAGGTGTTTAGGTGAATGGGATTAGTGACGTTATAAAAGAGGCTGAAGAAATCTCCCTAGTCCCTTTCATCCTTTCGGCCATGTAAGGACATAGTGTT + HHEHGHHHBDDFHHHHGHHGGGHHHHHHHHHHHFFHHHHFHHHHHHFHHHFFHHHHHHFD@FF<.+->@.;?,4FFHHHHHHHHHFB @read_150_29/2 CTTGCCTTCTGCTTCCAAGATGGCATCTTGTTGTTGTGTCCTCTGGAGGGGTCCAACACTATGTCCTTACATGGCAGAAAGGATGAAAGGGACTAGTGAG + HHHHHHHGGDEDG;DHHHHHHHFBDAGD@EDEE@C:DBDEFHHFBDDHFFGGGFHHHHHHHH=:A+/BHHBBF==EFFFHGGEED;3/@7E=A>87)*.: @read_150_30/1 CTCTCCCTACAAGCACCCAGAGCAAGCTGTGCTGCAATCCCAGGGACTTGTACATGGCCCCTTTCCCTCCCTTACCGCCCAGTCAGCCCCTGCATACATC + EEDFGDBB@CGFHHHHHHHGHHHHHHHEEEGGDHHHHHHHHHHGB=@FCHHHFEHHEEDD=+E?FHHDA>>12+(D8?FDHHHFHHCFF9:>FF@CDBEE @read_150_30/2 CTCTCATCAGTCCCACTCTGGCTCTGGGTGTCTGTTAGGGCTGGATTCACAGAGTGAGGGGCCTCTGCTGACGAGGATGTATGCAGGGGCTGACTGGGCG + IGDDDHHHHHGHHHHHHHG=CBCB>&-+BEHHHHEGHHHHHHFBHHHFHD/5=60CFGHEEFGEHHBFC.2':.9?FBHHHHGFCFEEEHHHHB=A?@A4 @read_150_31/1 TCATTCAACCCTGTGGAACTCATCTCATCATTCTCTGTCTCCTGCTTCTGAATGCTTTAAGTCACTTATTTGTCTATCTTCCCCAGAGAGAAAGCCTGCT + HHHHHHHHHHHHHHHHHHHHHHHHHHHEEGHHHGGGGFFFEEDFCDHHFFHHEAD?FHFGEEE5<@;=>49GGHFHGHBEFB>ABBEFFFECEHFH @read_150_31/2 CTAAGCAGCAGGCTTTCTCTCTGGGGAAGATAGACAAATAAGTGACTTAAAGCATTCAGAAGCAGGAGACAGAGAATGATGAGATGAGTTCCACAGGGTT + HHHHFF?FGFHHHHHHHHHHHHHHHFFFHHG7D=CB<9>4;4>AFHA@>>EDCDBHHHHHHHHHHHHHGHHFHHHHHHFHHHD=5@DHG6CA58=DD>AE @read_150_32/1 CATGAACACCTTTATGAGTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAA + GGFGEEE9DC346GGHHHHEFEGGHHHHFHHHHEGGGHHHHHHHHHHHHFAC=E7ADFFFBEFEEFH@DHFCHHHFFGHHHHHHHHEHHHHHD@?>CBFB @read_150_32/2 ACTCATAAAGGTGTTCATGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAA + HGGGGHHHHHGHHE8DHBGGGGGGEHHHHGGBHHHEFDCFEHBDEGGGHFFHBD555ADHHHHHHEGHHHHHFD43 @read_150_33/1 GCAACCTCTGCCTCCCAGGTTCAAATGATTCTCCTGTCTCAGCCTCCTGAGTAGCTGGGACTACAGGTATGCACCACCACGTCTGGCTAATTTTGTATTT + HHHHHHHHHH@@D?GD8GEHEB=EGH??:@GGGHFEFFFHHHHGFHHECFHHGHHHHHFEHHHHHFBFFHHHHHHHE<>@EFFC=9=GFDEEED65@BB@ @read_150_33/2 GTTCGAGACCACCTTGATTAACATGGTGAAACCCCATCTCTACTAAAAATACAAAATTAGCCAGACGTGGTGGTGCATACCTGTAGTCCCAGCTACTCAG + HHHHHHHHHHHHHEEHHHHHHHHHGHHHHGEEEHEHHHHHHHB6DHHFCDEDEGFHGGGHHHB8><)0-<9@;@HHGBFFHEEEGCFFEFFBFBCEDHFE @read_150_34/1 AAGAAAAGAAAAATGTAAACAAAGAACTGAATGCTGCTGAATAACAAAAGAGTCACTTACTTAAAAAAATAATAATTTCAGCTCATCTAAGAAATAGATA + HHHHHGGGGFFGGGGHHHHHDEGDGGGGGEFFGGFHHHHDB@FGGGHHHHHGHHHEFHHHFF@EFHHFAF>FDHEGHHHHHHHHEGGHHHHHHHHHHFED @read_150_34/2 GTTTCGGATCTTGATATTGCCCACTGTTGCTTGCTATCTATTTCTTAGATGAGCTGAAATTATTCTTTTTTTAAGTAAGTGACTCTTTTGTTATTCAGCA + FGGFDGGIBBEDB/9)/:HHHHDD=GGCEEFGBADA7EFEBC@DEGG?:C-/EDEDEG?BEGG4(4CCGFEE6EBFCCEE @read_150_35/1 TCAATACAGAATGATGCCAGCACAATGATACACAGGACAGCTGGGACCAAGAAATTTGAGAAGGTACAAATAAAAACTAAAAAAAAAAAAAAGTTTAATT + HHHGBBGGGGHHHHHHHHHHHHHHHHHHFHFFHFFHHHHHHHHHHHHHHFFHHHHHFHHEEHGHHFDFFHC?BFFFHHEHHHHHHGGBBEHHHFG86EFH @read_150_35/2 AGAAAGCACTGTGAACTTAGTCATTAAAAATGAATATTTAACAGTTCACTTTTGACATGCATTTTTAAAATTTAAATTAAACTTTTTTTTTTTTTTAGTT + HHHHHHHEEEEE/?636BGHDAEBDEBD@GEHHHHHHHHCD*1::CEDCCDB@GGEEFGFHHHHHGHHGHGHHHHHF8=FHHHHHHHBFHHHHHHFFHHH @read_150_36/1 GGGTTTGTAAAATAAATAAATAATGTGAACAATACCATCAGTGTTTGCATAGAAACAATATGATATCATTCTTAAAGAGATCGGAAGAGCACACGTCTGA + HHHHHHHGFHHHFHHHHHHHGGEHHHHHHHHEEHHHGGFHHHHHHHHHHHHHFEHHHGGE=EDEFHHGEEFD@?E::;24>6383;(.501>HHHHHHHH @read_150_36/2 CTTTAAGAATGATATCATATTGTTTCTATGCAAACACTGATGGTATTGTTCACATTATTTATTTATTTTACAAACCCAGATCGGAAGAGCGTCGTGTGGG + EF@@DEGHHHHHHHHHHHHEEEHHGHHHEFHGGCBHHHHHGHHHHHCCC>DDD;DHHHFIHHHHHHHHHGEFGFGHEHFGHHHH@*66G?1(03 @read_150_37/1 GGTCTATATGTGCCACATTTTCTTTATACAGTCTATCATTGATGGGCATTTGGGTTGGTTCCAAGTCTTTGCTATTGTGAATAGTGCTGCAATAAATATA + HHHHHHHGGFFEGFHHHHGBGD@??37=FFDAEFHHHHHHHHHHFEHHGGGHFEFFHHHHFFFHHHHEB-DHHEHHEEGFHHHGGHHFHECFGHHC@AFH @read_150_37/2 CCATTTGACCCAGCAATCCCATTACTGGGTATATACCCAAATGATTATAAATCATTCTACGATAAAGACGCATGCACACGTATATTTATTGCACCACTAT + BEED@FBFHHHHHHHHHHG;8CD=HHHHCB6>563<5?D432>..<6<>@923@CFGHHGEHCEEDEHHFHHHHHHHGHHHHFHHHHEHFCB:.<<2?@@69BDAHHHHHHEBHCH @read_150_38/2 GAAATACCTACACGCTAATGCAAAAAAGGTAGGGAAGCTGTCAGGTTTGCACCTTTTTTGTCTCATTGTTTAAGTGGAGCCAGTTTTTTTCCCAGGCTGG + EEDGGHHHHHHHHHHHHEEEFHHHHEGHFHHHHHHBGGHHHHHHHGFGBEGBDGGHEGHHHHHFEBB=HHHHHHHHHFHHADFDG@FFHDHFFFHFFBHD @read_150_39/1 TCTCCCAACCTTGTATGGTCCTAGGGGCTGTGATATGGTTTGGCTGTGTCCCCTCCCAAATCTCATCTTGAATTGTAGTTCTCATAAACCCCATGTGTCA + C?8><@CGGEDEECBEEHFFBE @read_150_40/1 CCAACATCTGTGGTTTTTGACTTTTTAATAATAGCCATTCTGATTGGTGTGAGATTATATCACATTGTAGTTTGATTTACATTTTTCTAATGATTAGTGA + HHHHHHHHHHHHHHHHHHHHHHFFHHFHHHHHHGHFFC/CEHDBDHFHHHHF<:DHHHGF<@*.>>?EFF?E@@C@6C.5EFEHHHHF>;::)04>?EFG @read_150_40/2 AAAACCAAATCACCTCATTAAAAAATGAGCAAAGGATGTGAACAGACACTTCTCCAAAGATGACATACAAATGGCCAACAAACATATGAAAAAAATCCCA + EGGHHHHFEHHEGHHHHHHHFFHHHHHGF=@E8CCHHHHFEHGGIGEEBD<47.5?GGGHHHC8CFHHHHHEG=CHHHHHHHFHHDEEGGFFFEEGEEF= @read_150_41/1 TTTTCCCATTGAGTGTTCTTAGCACCTTTGTTGAAAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTCCTT + HHHHHHHHGGGDA@BCDGGHHHHHHHHHGGEFFGBFHHHHHHHHHHFHHHCC??.AABC5DDHHHHEEEFFHHHHHD=FBHHHGGGGHHDD-%-&2 @read_150_41/2 TTTTCAACAAAGGTGCTAAGATCACTCAATGGGAAAAAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAA + HHEHHHHHHGEEEBEEHHHHBFEEEGGGC?EG6:;BGGEGEHHHHGFGDDHFEGGHHHHHGA>.?,47>6ADHHHHHHFGHHHEDDCDDFEFHHHHHHHH @read_150_42/1 ACGGAAACTAGCCAGAGTGGACTCTGTTGTCTACATGCAAGAAGATCGGAAGAGCACACGTCTGAACTCAAGTCACCACCTAATCTCGTATGCCGTCTTC + HHHHHHHHHHHHHHHHHHHHHHHHGGGGGGFCCHGHHHFBDDEFHHHDHBFHHHHGFBFHEDFFEHHC63@@<.119;C@B@BHDFGHHHHEE?CBCEFF @read_150_42/2 TCTTGCATGTAGACAACAGAGTCCACTCTGGCTATTTTCCGTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT + HHFFGE@.'8>>@DHFFDBHHFGED>13=699D=,>66EDEG669?CCCDE@44@6GHFHHGFGDA@>@?=HGECGG>@CFFCCBD?FFHEEFFC>.*/( @read_150_43/1 GCAGTGGTGACATGCATGACAGGCATTTGGGATCAGATGTTGCTGATCCAGAAGCCTAGGTGTGGCCATTTTGTCATGGCAACTGATAAGCAAGTAAATA + HHHHHHHHHHHHGGEB@C?HHHFCCGEFEEIEHHHHHEFF>4:>B:4C@9CAFHHHHHG.DEE@D77=BEHGGBA+,-(+7,7GC'5BDD;B?FDHGGGH @read_150_43/2 TTCAAAACAAACTGAACATCGCTGGAGATAAGTCAGATGACTACTCTACCCTATTTACTTGCTTAACAGTTGCCATGACAAAATGGCCACACCCAGGCTT + EHHHHHHFHHEIIEBE=@<-;AAFGHHC@>>BBGHHFHHHFHFE?EEHHDEGF7BHHHHHHFHHHHHHHHHHHHHHHHHHHG?@?DFFHE:.54HFH57@ @read_150_44/1 CCTCCTGTGCCCTGACCCTAATGACTTTTCTTCTCCGGGAATGAAGAAGCCAGAACCAACCAAGGTCTCACACCTTCACCTCTTCCCGAAAACTAACTCC + HHHHHHHHHHHHHHHHHHHEEGHECGGHHEDHF<7;BAHHCBFFFHHHHHHHHFFHHDCE928D@6<@@>>FHHHFBC+8 @read_150_45/2 TTTGCTCTCGTTGCCCAGGCTGGAGTGCAGTGGCACAATCTCGGCTCACCGCAACCTCCACCTCCCGGGTTCAAGAGATTCTCCTGCCTTAGCCTCCTGA + FHHHHHHHHHEHHHHHGGHHHHHEECDFFCHHHHHDHHFHHF@HHFGFHHHDDGGFGFB><>+923:7/DHHHHHHHHHHHGCDF@>76&>D;<;GGFHF @read_150_46/1 ATTGGTTTTTTTTTTTTTTTTTTTTGAGATGGAGTCTCGCTCTATCGCCCAGGCTGGAGTGCAGTGGTGCGATCTCAGTACACTGCAAGCTCCACCTCCC + HHHHHHHHHHHHHHHHHHCDD@EFCGHHHHHHHHHFHCDDFHHHHFDDDB>BHHHHHHHHHFEEFFGFDHHF/AF?CF8FBEFFFFFHFEBEEE @read_150_46/2 CCGGAGGCTGAGGCAGAATAGCGTGAACCCGGGAGGTGGAGCTTGCAGTGTACTGAGATCGCACCACTGCACTCCAGCCTGGGCGATAGAGCGAGACTCC + HHEGDEEFHHEGHHH9000;.252-DGFE9&7FFCBFFF*).>:,4 @read_150_47/1 CCTGTATATCTTAAGACTTCTTTCCCTTAAATTATTACCTTCTCCAAGAAGATTTCTATAACCCTCTAGGAGAAAAAAATGGGTGTTCCTCTCCCCCAGG + HHHHHHHHHHHGFHHHHHHHHHHFHEEEEEGGHFB6D?CD@@DDBGFHFHHFFAC>8CDHHE>)1 @read_150_48/1 AAGTTGCAGCAGGGGAAATACTCATTGAATTTGTCATCATTATTTTTGGCTTCTATCTTTATGAGAGCCATTTTAGTTTTCTAGTTTCAGTGATCTATTT + HHHFFFBGHHHHHHHHHHHHGGHFD=2=F??>973:9??A>+-:<7BF=DBE82@7>EHHGGHFHDDHHHHHHFHFHFBBGGHHHHHHHGGFEHHEFHHHHHHHFGEBDGEFHHHFDHEED=;46D7 @read_150_49/1 CTACATGTCATTAAGAACATTTGTGACTCATGGAAGCAGGTGAAAATATCAACATTAACAGGAGTTTGGAAGAATTTTATTCCAACCCTCATGAATGACT + GHHHHHHHHHHGGE@GBFDDGHHHHGHHHHHHH@CBHHFFGHHHHHHHFFHHHEHHFHHHFHHHHHHHHBD>@DDFFFGGHHFGCFFDGFGEEFFBFFFH @read_150_49/2 TTTAGGCTCCACTTCTAATTCTAGTTCTGTTGCTAATTCTATCACATCTGTAATTACTTCTTCCACTGAAGTCTTGAGCCCCCTCAGTCATTCATGAGGG + C@DHHHHHHHHHGEEFHHHEF;:47::2'-4.>CEIGGFFHHHHD=ADEEFFFG;@CCGHHHGGHFDEGE;8EHHHHHHHHGFF6BDFHEDFBHFFFHH? @read_150_50/1 ACTGATCCCAGGGAAGCTTTATCTATAGTGAATATTGTCTTAAATTATAGACTTTTTGCCAGTCTGTACTAGATCGGAAGAGCACACGTCTGAACTCCAG + FF;:?GGHHHHHHHHHHHHEHFFGHHHHHHGGHHHEEHEFFHHHHFHHHHHGGDDECBDDEBBCD74AABEFF;B@<@@@FEGHHEEE>,E=ACHHHHBE @read_150_50/2 AGTACAGACTGGCAAAAAGTCTATAATTTAAGACAATATTCACTATAGATAAAGCTTCCCTGGGATCAGTAGATCGGAAGAGCGTCGTGTAGGGAAAGAG + FFGHHHFGGGFDD@FFFHHHHHHHHH?BEGEEHHEHHHHFF?;A=::-*DGHHHHHHHHHGHHHHHHHHHHHHHHHFFGD699D69<<;ADF:99DD?.E @read_150_51/1 CAGAGGTGGCAAACCCTCCTTGCATAAAATATCACACTTGGGTAAGTGCAGTATGTTATGTGTCTTTAATAATGCCACATCAGCCCCAAGTATTAGATCG + HHHHHHHHHGD@3--5EFGHHHGHHHHHHEGHGEEDGGHHHHHHHHHHFHFFHHHHHHHHHHFD.CFCD4=E=DFHHHHEHHHFGHHHHHHHHBFF;;?> @read_150_51/2 AATACTTGGGGCTGATGTGGCATTATTAAAGACACATAACATACTGCACTTACCCAAGTGTGATATTTTATGCAAGGAGGGTTTGCCACCTCTGAGATCG + HHFHHHHHHHHHHHHHHHHFHHHB@',364.,& @read_150_52/1 GGCCAAAACAAGAGGCGGTAAAGAGAAAGGCAAGAATTGGTGGTCAAGTCCTGGCAGGGAAGGAGGACATCAGACATCCATAAATATCAAGAAGTGAGGG + HEEGGHHHHHHHHHGF?A;B57.+&1:/' @read_150_52/2 TGGGTCAAGACCTGCCCTTATTTCTCATCTGTTTACTCCCTCTATGTAGGAACACTGCCAATATTATTATTATTAGTCTGTATTCTGAGTCTACCTACTG + HHGEHHHHHHGHHHHHHHHHFHGHFEG@C@CD=9EGHHFHHHHHHHHE@CD<@>9.AFCCECFHHHHBEFEEEICC;<61)&5 @read_150_53/2 TTTGGCATCTTTCCTTCCTGGTATTCTCTGAGCTTCCTGAATAAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCAT + HHHHHHE..@CC/FG)6AHGHHHGHDHHF@D?D?CHHD@C>/1-BHGHEEEHHGEHHHHHHHEHHHHHHGGBHHFGGHGG@9.CCEBFDGHFFIA?7?<+ @read_150_54/1 AGTTAATAACACCTTCCTCTTCTCTGCTGTTGGATTCTAGCTTAGGTCTAATCTGTTCTAGGAAGACTTCCTAGGCCACCCCGTCAGATCGGAAGAGCAC + HHHHHHHHHHHGHGGEFDEHGHHHHHHFED>EHGHE?=?ECHHHHHHFHHHHHFHHFFH?=?BFHHEFEEFBGGHHHHHHHHHHHHGFFHHHHHGF;D<8 @read_150_54/2 GACGGGGTGGCCTAGGAAGTCTTCCTAGAACAGATTAGACCTAAGCTAGAATCCAACAGCAGAGAAGAGGAAGGTGTTATTAACTAGATCGGAAGAGCGT + GG8EAGHHHHHHHHHHHHHHGGCDEEHHHHHHHHHHHHFHHHHBB=EDHHHGIFFHHHHHHHHHHGHHH=DGFFGHHHHFFCGEHFBGFEADB?C9DCE? @read_150_55/1 TCCCTTCTTTTTCTTTTAATTTTATTTTTTACAGAGACAAGGTCACACTGGTCTCAAACTCCTGGCCTCAAGTTATCCTAAGGATTTTTATTATTTTTTA + HHHHHHHHHHHHEGGGGHHGEFGGGHGFEDDEGGEDGHHHHHHHHHHHHHFDHHGE?HHHHHEEEFFFHFFFHFDCEGHHHHHHEEEEFGGGGDGHFHHH @read_150_55/2 AAAAAGGAAAAAAGAAAAATAATAAAAAATAATAAAAATCCTTAGGATAACTTGAGGCCAGGAGTTTGAGACCAGTGTGACATTGGCTCTGTAAACAATA + GGEBGHHHHHHHHHHGGGHHHHHHGG<=8=:>>:+-,BEEHHHFHHFGGCGFFGGHHHFEE=@?DEGEHGB@9;=;DD1--*3.2%,:EG731)0%EEEFDFB>EEACABGGHHHHG@@EGGHHHEE>@ @read_150_56/2 ATGTGCAAATATAAAGATACCCAGGCTCCAACACAGAGATTCTGCTTAGTTGATTTGGGATGGGGCCCAGGCAGTTGGATTTGCTTAATAATGACTCCTT + HHHHHHHHHHHGHGHHHHHHHEHHHHHHHFE=?/CBEHHHHHHHHGBDGGGGEEHHHHHHGFCEDFDGHDGGDAE?@?9<>49'/4?@5@=FDBCF8:EH @read_150_57/1 GTCATTTAAATATAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHHHFE?GGHHHHHHEEB>?D7>*CB?FHHHHHFHEHHDFHGHHHHHHHEHHGFHFHHHFHHHHG>BCEFGE=;CFFHHHHHHGFHFGGHGG?F @read_150_57/2 ATATTTAAATGACAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHHHHHGHHHHHHHH>ADEE/GGFD=:0(+://6-3>FA7;@DDAED?FDF< @read_150_59/2 TTCAAGATGGATTAAAGATTTAAACGTTAGACCTAAAACCATAAAAACCCTAGAAGAAAACCTAGGCATTACCATTCAGGACATAGGCGTGGGCAAGGAC + FFCDHF8=HHHHHF:>@AD@DFHHHHHHHHHHH@?EEEEHHEHHHEHHFFHHHHGGHFEA5847@HFHFHF@BEHHHHGGEFHFFEBEEFHFFHHHHF:> @read_150_60/1 CTCTGTCATCTGTTTCTTGGAGGCTTGCCCCACATCAGGTGGGTGGGACACACCCAGGAGGCTGTGCTCAGGATTTCTGGCCCGTGTCCCAGGTCACCAG + HHHGGCEHHHEEGGCDGGBDGGHGGHHHGHHEFGFHHHHHHHHHHHEHEBCDEHEEEBHHHHFEFHHHHHF;@8,BDDEB>:.EE@>??BB>AA=CC??DEGGECDEEGBBEEEEEEHHHHHHFHHHEEFBEGEGBGHHGGGG?GGHHHHHBEFDEDCEFACBBGGCFHHDEFCBG== @read_150_62/1 TTTAATATCAGAGACAAGGCAAGGATGTCCACTTTCACAGTCTTGCCCCTTTTCCTTAATATTGCACTGAAGGTCCTGGCAGCACAGTTACGACAGCAAC + HHHHHHGGGGGGGFGGHGDDEBDBD?3*7>?;E8GGFHHHHHBE @read_150_62/2 CTTGTTAAGGTCTTTTATTAATTCTACTATGCTATCTGTGGATTTTTAACTTCAATTTTATCATCTGCCATCACGACAGGTTGTTTTTTGCATTTCGATA + EFEEHHHEHHCGDBHHHGGH@/A=BFEEFFHHBEBHDG>1>GEDHHFHHHHGGG@><>>>DB814DEE6&3;<><).3FGEFGHFHHGFHFH< @read_150_63/2 TAATTTTTGTATTTTTAGTAAGACGGGGTTTCACCATGTTGTCCAGGCTGGTCTCGAACTCCTGACCTCAGATGGTCCACCCACCTTGGCCTCCTCAACT + DDGHHGGHHHHHFHHHHHHHHHHHHHHHFHDCFEBD63,:8EDHHCGGCFHHHHHHCDADB9,<@BGGE=+'.5,:>=BHHHE*2,)37?DDFFHGGGFGHHEFGHFEEGFE @read_150_66/2 TACCTGTCACTTACCTTCCTCTTGAAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCTCCGTATCATTAAAAAAAAAAAAAAAAA + HHHHHHHGGHHHHGGEEGHHHHHHHHHHHDD=ADHHHHHHHGGGHHHHHHHHHHHHHHHHHHFGGEHHHHF6.>@BECAAI=DEFCHHFHGHHHHHHHHH @read_150_67/1 ATTGATTATTGCCACAATTTCAGAGCCTGTTATTGGTCTATTCAGAGATTCAGCTTCTTCCTGGTTTAAGATCGGAAGAGCACACGTCTGAACTCCAGTC + HHHHHHHHHHHHHGGGHHHHHHHHHHHHEFGHHHFHHHHHFDCBFHHHHHFHHHFHHFHHFFEFHHBF>;><33273 @read_150_68/1 AAGTTCTCTGAAAGATAATTTGGAAAAAAGAGATTTTACTCCAATGAATACTTTGCAAACCGGGGAAACCCAAGATCGGAAGAGCACACGTCTGAACTCC + GGGGGEHHFD@BFDDGHHHHGGEEHHFFEGD:FFGHHHHHHHHHHHHHHHHHHGHFFHHHFFEHEFFEHHHHHHHHHHHHFBFFHHHHGFDDEHHHHHFD @read_150_68/2 TGGGTTTCCCCGGTTTGCAAAGTATTCATTGGAGTAAAATCTCTTTTTTCCAAATTATCATTCAGAGAACTTAGATCGGAAGAGCGTCGTGTAGGGAAAG + HHHGHHHHHHHHHHHHH@DGGGHHHHHFB=8C=@FEEFEBDDDDFAAFFEFGFCDB@211,<6(D;D@>@C=CCFHFFFBFHDEBBBCEGGEE?==?C;E @read_150_69/1 CCTGGCTTTGAAAACTCACACAATAATGCCTTCCTAATTATCTCTGATGACTAGTAGTAGGGACATTCCACCCCCCACAAATAGCAAAAGTGCTCCGATT + BFFFFFFHGHHHHHHHHHHHHHEF@FFCE:FDGGHFFBHHFFGFGGFHFFBDE:6>0?CHHHGD,92>>9;DE?FEEEEEDEHCHHHHHHHHHEFFFECC @read_150_69/2 AAATGAAACAACTTCTAAAACCTGTGTGATAATGATAATACAGATTGAGATGAAGAACTTTGAAAAGAGTTGGACAATCAGAATCAGATATTTGAATTCA + HHHDHHHHHGHDFEFDHHHHHHFHHHHHHBGGHHHHHHHHHHHHEHHHHHHHEEFFHHEHGB5*0GGFGAE=B2(;>=D>,@BB/5?>.A:991/+1%*) @read_150_70/1 TAGAAGAGGTGGCCGTAATTGCTGCTTGTCATTAATATTTTTACCAAATGGATTTCTCCATATGGCAGTTCCTTTCTGTCATGGGTTATTTATAATCCTT + EFGGGHHHHHHHHHHHHGGHHHHGGHHF?DEHHHHHHHHHHHFHHHHHHHHGGAA4=?BDCBDDF;DBHHHGGFHHHHHHHHEHHHHHFA.:.30DA6= @read_150_72/1 AGGGAGGGGTAGAGGCTGCACACATTGGCCTGGGGAGTCATATTTAAAGGGAAGAGCATGTGGGTCTTGTCTAAAGATCAAGTGTAGATAAGGACGGGAG + HGHHHHHFDFHEDHHHHGHHHHHHHHHHEHHHHHHFC=:)>EBEEHHHHHHFCCBDHEEDHH??EHFFEFDEDCCFHHHHHHHGGHHBC,DHHH@E4. @read_150_73/1 AACCTGGATTCCAGGTAAAAAGGTATTTGTACAGTCCAAGCTCAGCTAATTAGTTTGGGTAACCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACC + HFFFHHHFHGBBF>;CEGHHGHDFGGEEC@@A?HHHHHHEBEBADFHHFFDCEFEHFHHHFBEEHHHGDDEG;48ECEHHHHHFBD=CFHHHHHHGFFEC @read_150_73/2 TGGTTACCCAAACTAATTAGCTGAGCTTGGACTGTACAAATACCTTTTTACCTGGAATCCAGGTTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAG + GE8BEBGHHFECDIFFHHHHHHHGHDFHHHFHFDBDIGBE-.@4*BHHHHHHHHHHHHHFB=ECHHHHHHHHHHCEGEBEBEFE?EADDF=C>97<.@G@EHD>7@4DDGEFHHEGGHHHE?6/52'64AD<, @read_150_75/1 GTCCAGGATCCTGCTGTTGGCTGGGCTCTTCAATTATCCTCCAGGTATCCTCTCCCTTATCCCACATCCCCAGCTCCACCTTGTCTTTTCATGTGGTGTC + HHEA9<=DDEGFBGHHGEG@EGHHHHHHFE?:<<>FHGHHHHHHFGHHHHFFHHGHHHHHHHHHD==??=FFD=4?DIGED8EGGHHHGADD-FHEDBGHHHHHHFFHHHHHHEEB=EBEHHHHHHFHHHHHB@.@A6HFFF>@@5BHHHGGFFFDDFEFGGFFGHHEHHEDHHHFBHFFEGEHHGDHHHBFDD<6*/EEFGE86C2638 @read_150_78/1 CTCCTCTTTTTTCCCTGATAACTTTTCTTGCTCTGAGGTCTACTCTGTCTGAAATTAATATGACTACACCTGGTTTCTTTTGATTAGCATTAGCTGTTGT + DGGGHHHHEHFGEGGE@@>?=EGDDFAHHHHHHHBEGHHF6@HGFHHHHHHHHHHHHHHGFFHHHFEE?HCEFFFHHHHEHEFHHHHHHHHHHHHHFGFF @read_150_78/2 CTGAAAGTAGAAAAAGGAAAAATAAAAATAAGAACAATGAACTTGGGCAACACATAGAAAACAACAGCTAATGCTACTCAAAAGAAACCAGGTGTAGTCA + HHHHHHHHHHGHHHHHHHHEHHHHHHHF8;+ @read_150_79/1 GTGGCCGGGAGCAGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGTGTGGATCATGAGGTCAGGAGTTCAAGACCAGCCTGGCAGATCG + HHHHHHHHFEGGGGHHHEEE:>?HGEEE>><6'CCDBEHHH>6:5;7-2>< @read_150_81/1 GGTTTATAAAATTATATACAATAAACTAAATATACACATGTAGAATAGATCTTTGGAATACTTCCCCTGGCTTCTCTAAGTAAACACAGAATACTACACT + EBCBFGGHHHHHHHHHHHHHD66?FGHHHHHHHGHHHHHHHHFDGHHHFCDEHHHHFHEEHHHHHHHFEFHE??EDECC;03D8@CGGGEEFHHHHFGGF @read_150_81/2 AAGGCCCTTCTCTTTTGTTTCAGAAGTCTGCAGCTAGGTCAGCAGTGTAGTATTCTGTGTTTACTTAGAGAAGCCAGGGGAAGTATTCCAAAGATCTATT + HHHHHHHHHECGGGFFHHDDC5;G?:>@DB9EEDGFDCFHGHGHHHHHEGGDDDEHHHHHHFGHHHHHEEADBEA,(6HGDCD=>>C@BFBFHHBFDACE558:BEEF:>ADFDEHBEFHHHHG @read_150_83/1 AATTCATTTATTCCTTACTGATTAACTCATTGGTCATGTTTACTGTGTCAGGCAGTATGCAGTAAATATACAAACACCATTAGGTTTGCTCCTTGCTTTC + HHHHHHHHHHGHHHHHFG@DFFFHHHHHHEHHHHHHHHHFHHC@HGGHHHBFF@A45:FCFHFHHH@5EEDCEGEGGF@D?BEHHHHHHHHHHHHHHHHHEGDGEB@8?B?=>CHHHDHHHFHHHHHHHHH<-=FEGHHH=?@>EEDDDDHEB:?BEA561 @read_150_85/2 CTTTGTGTTCCTGGCTGTGAGCCGCCTCTGGATGGTGCCCCAAGGAGAGCTGCTGTGCAGCCTCAATAATTAACGCCTATGCAAATTGCCTTTTACACCT + HDHHHHGHFEBDGHHHHHHHHHHHFEHHFHHHHFFHFHGEHHFFGHEGEEGGGGA?6;/@BED@=6=B>9=*/DF?EF=BB::78C*57=D><<@EEHFF @read_150_86/1 TCCAGCCATGAGCCACCCCACCTGGCCTGATTTTTTTATTTTTAGTAGAAATGAGGTTTCGCCCTGTTGCCCAGGCTGGTCTTGGATTCCTGAACTCAAG + HHHHHE>DGFHHHGHHHHHHHHHGGHHHHHEGECHHHHHFHHHHHGFFDDD??@FHHHBFGBHGHEEBFFHFFFFEBHHEHHH=DHHEECG?DHGHGGHE @read_150_86/2 ACCACACTATGCCACAAGCTTGCCAGCTACCACTTCCATGTCAACGTATCAAGAAATACATCTGGGCCGGGCACAGTGGCTGACACCTGTAATCACAGCA + DBBFHHHHHHHHHHHHHHHHHHHHHEGHFFHEEGBDFEGEEDE@HFHEHFHHHHHHHGHFHHHHHHHHHHHHHHHFEFHHHB@*6CCCE;;.37+B79<: @read_150_87/1 TTCTGACACACAGGAGTTTACTTGAAGACCACTATTTAACCTTTTGATAGCCTTTTATGGCTACCCTGGTCCCTGAGAAAAATGAAAATGCATTTGCCTT + GHHHHHGGHHHHHHHHHFEHHFHDHGHHHGHHHHHHHHFGEHEHFHHHHHHEEBFHHBD>(6E96DFHFHHB90%%&913>FEG@EBDFGHHHHHHHHHG @read_150_87/2 CGTTGGTGGAGGCTGGCTTCTTGGTGCGAAATACAGACTCGGGCATTCTTGCTGAAGGCAAATGCATTTTCATTTTTCTAAGGGACCAGGGTAGCCATAA + DFHHHHFEHHHHHHHCHHHHHHGHHHHHADG@@BFHHHHFHHHHCCFFHHFGHHHFHH@DFHHHHEHHFGGGGGHHHHHHHGFDCEEDFGFBG?CB??B: @read_150_88/1 CCTGGTTCATTTACTAGCCACCTTATTGAGCACCTACTATACTGCTGCAAGCACCCCTTTTCTCGTGTCTCCCCTCTTTCTGCTGGAAGTTGCTTCCTAG + HHHHHHHHHHHHHHHHFEHHHHHHHGGGEE:?5CGHHHHEFHHHFD??B<=@=EDG@EDFHHHCGFHDFCFHHHEFFGHHHHHHHHHHHHHHHHHF?;-% @read_150_88/2 AAGAATTATAATTACCTTTGCAGAAAGATTTATCCTAACAATTAGGAAGCAACTTCCAGCAGAAAGAGGGGAGACACGAGAAAAGGGGTGCTTGCAGCAG + HHHHHHHHHGGFFDCDFFHHHG@;@6>>CEHE@GHHHHHHHHFD?HHHHBBFHHHDCCBBDEEEFEEEHGHHFFF@11;646=D=C?6@&/)6C@.:/-< @read_150_89/1 GCATTACGTTATGTGGCAATATTTACATCCTCTTTTAAATAAACTACATTCTGGATGCCACTGAAATTTATTTCTATTTAGTATTAAGTTTAGTAACACC + HHHHHHHHHHGGGGBBBAFHHGGGEDGDCEEBHHB297BCCBEEHEHHHHHHHHFFGFHHHFCDHHHFEEGHHHFGEHHHHEBG?HFDA9EFB@/;@?HF @read_150_89/2 TGATCTCAAGTTCGGAATGACTCAGAATTTCAAGACATTTATTTTGGCACCTAAAACTATTACAGACTTGAGTCAAGTGAATTATGGATTTACATGTGGG + HHHHHHHHHHHHHHEDGEBB236+:9<.<5EBEG9?.(;D8EHHHC=FGFHHHEGHHHHHHHHHHHHBB:EHHHHHFHHHFHGGHHHHHFBBD5=?DGBD @read_150_90/1 AATTATGAGCTAAATAAATACTTCCTTGAAATCACTAAGTTTTGGGGGAGGATAGAAGATAGGAGGATATACTGAAGAGGAAAATACTGAGGACTTATTT + HHHHHGGFGGGGFHHGGFHFG>>=6FFHHHHHHHHEFFFEHHHHHHFFFGFFHHHHHDC?BDDDEHHHGFA795,@?HDDEFGGGF<(52:1-6:FE.-& @read_150_90/2 TGAAATGTTTTTTCATTTGTTTGTGTCCTCTCTTATTTCCTTGATCAGTGTGTTGGTAGTTCTCCATATAATTTCTATCATTTTTTAGTTGAAGAAAAAT + HHH8A:6BCEFHHHHFEEGGHFHHHGGGHHGCGGHHHHHHHEHFC:EGGEDCC@@@FFBFDE8FGGHHHHHGDDCD296CFFDHHHFEHHBFC;ECA:+2 @read_150_91/1 TTGACCTTCTCTCCTGTTAAGTGCAGTAGGGCTTCCCCTCTTGACTTTCCTGGTTATAGCTTTCCATCACAGCTCCCCACATTCTCTCTTGATGTTGAAA + HHHHHG@4-256EEEEHHHHHHHHHGGGHGHHHHFGG20=CA>9C6427HHHFEFHHHHHGGHHHHHHED @read_150_91/2 TACTATCTGTGGTTTGCGAATCTACTAGGGGTCTTAGAACATATACTGCTCAGATAAGGGGAACTACTGTATTTTCTTGGGCAGGAGTATGATTTGCATA + HHHHHHGHHHHHHHHHGGHHHHHHGDCDD>.@>ABFHHHHHHHHHFFGEFFHHHHHHHHHHHFGGEEHHHHHHHHHHHEHHHH>C?D;EEFEHHHHHHHH @read_150_92/1 TAGTTTTAGATCTTAAACATTTTCAACCCTTTTGTGTGAATTACAAATTGTTTGACTAGTAGAAAATAAACAGGACAAAAACTGAGCAGTAGTCTTGTTT + HHHHHHHHEEBGHHF>>G>EGDHHHHHHHHHDDAFGEAD@<?GGFHHHHGHHHFCCCBEHDBGGGGGHHHHHHHHHHFCCEHHEHHHHHHHHHFHHHHGD88=@FEFE8=64 @read_150_93/1 TCGGCCTCCCAAATTGAGGGGATTACACACGTTAGTCTCTGCACCTGGCCTACTTATCCTTTAATATTGAAAATGAAAATCTCTATAAAAGGCAAAAATA + HHHHHGGHHFGHHHHHHGHFD==BDEEEEEHFHFFHHHHHFEEHHHHGH:AEHHHHHFHHHHHFE?;AFHHHHHHHHHECGB?HHHHFGD9EHHHFCCHF @read_150_93/2 AAAGCACTTTCTTATTTTTGCCTTTTATAGAGATTTTCATTTTCAATATTAAAGGATAAGTAGGCCAGGTGCAGAGACTAACGTGTGTAATCCCCTCAAT + C5@HHGHHHHHHHHHHHEGGBDGGHGGHHHEFFFGCFFHHH@CHHHG>@DDGGGFDCB76?ADEHHFFHCCGFHHEGB@EHHHHHFHHHHHFEG9AF6BH @read_150_94/1 TGAGCCACCATGCCTGGCCTAATTTTTTGTATTTTTAGTTGAGACAGGGTTTCACTATGATGGCCAGGCTGTTCTCGAATGCCTGACCTTGTGATCCACC + HHHHHHGHHHHHHHHHFHHHHHHHHGHHHHHHHGEHHHHHHHDHHDGHHHHFGHHFGFHCHFFB>GCFCGDEEEEFGEEEHHHH@?EA7<6&0(2BGGHD @read_150_94/2 TAATCCCAACACTTTGGGAGGCAGAGGCGGGTGGATCACAAGGTCAGGCATTCGAGAACAGCCTGGCCATCATAGTGAAACCCTGTCTCAACTAAAAATA + EDDC6-<56;CAHHHHHHHHHHHHFHHHHHHHHHHHHHHHHHHHHFHHHHHHHHHG8EGGHHHDCFHHHHHHFHHHHHHF=E=FFHHHHHE<76EDCHHH @read_150_95/1 AAAACCACAATGAGATATCATCTCACATCAGTTAGAATGGCGATCATTAAAAAGTCAGGAAACAACAGGTGCGGGAGAGGATGTGGAGAAACAGGAACAA + GGHEGGHHHHGHHHHHHHHHHHHHGGGHHHHHHHHHEHHHHHFHHHHHFCHFFFGGBB@EFHDHHHHHD;4A(2*3C?A@=6)>DGGEGHHHFHHEEH=B @read_150_95/2 TGTTCCTGTTTCTCCACATCCTCTCCAGCACCTGTTGTTTCCTGACTTTTTAATGATCGCCATTCTAACTGATGTGAGATGATATCTCATTGTGGTTTTA + HHG@EGIGHEHHHHHHHHHHHHHHHHFHHHHHHHHHHHHHHG?BHHHHFHFIGGHHHHGHHHEEF:;8GGHHGGHHFHEEDBEHHEF6655BDEGCEHDE @read_150_96/1 TGAGGAGGTTTAGGCTCAAGAGAAGGAGCAAAGTGTAACAAAAAGAGCACCAGGCAGTCAAGACCACTGACTTGCTAAGACCAAACCACTTTTTTATCTC + HHHHHHHHHHHHHHHHEEFGGGGHHGHHHHHHHGFHHHHFHHFF8@79@BDGFFFFHHHHFHFEFHB:BCFEFEFHHGGGFCACDBEA=GEEHHHHHHHG>EBGFHHHHHHHGGGGGFFHHHFHHFFEEDDHEFFEEHHHFGHGGFF0:+,-(+A @read_150_98/1 ACAAGTCCCAGTGAAAGACAGGATGAAGAGTGTTTGCTGACCAGTCTCCACTCTCCACCAGCCTTTCCTCTTCCAGCCACACCCTGCTCCTTCCCTCCCC + GGGHHHHHHHHHHHGFHGGFHHHHHHDCDEEHHHHHHHCFFHHFHGGGBCBGGGFHHFFF?FHHHB2@CCHHHFFEFCDD=>>CEAC=9.3*/7/,99@< @read_150_98/2 GGGGAGGGCAGGAGCAGGGTGTGGCTGGAAGAGGAAAGGCTGGTGGAGAGTGGAGACTGGTCAGCAAACACTCTTCATCCTGTCATTGGCTGGGACTTGT + GHHHHHHHHFGBGFGHHHHHHEFHHHGHHHHHHHDHACHHHHHHHFF9E?EGDCFDGHHHHDB=GBBBBBEEEHHHHHHE<6-7,:;))%4><;9CDFFC @read_150_99/1 TGACATTTACAAGGATGTTGATCTTGTTTTCCTTCATAATTTGGAGATGTAAATATTTCAAACTTTCCTATTGGTTCTGCTATTTGTAAATATACAGCTG + HHEGGGG?A>;EFHHHHGF?64>?FHGBHHHFCC>HHHHHHHFHHFFFFHFHHHHFEEDDEEHHHEHHHEBEFHFDHHHHHHHFGHHHHGGGHHHFFHHH @read_150_99/2 CTTATGTGTCCAAGGACAGCTGTATATTTACAAATAGCAGAACCAATAGGAAAGTTTGAAACATTTACATCTCCAAATTATGAAGGAAAACAAGATCAAC + HFFFGHEFHHHHHGDDFGHHHHBF>HHFHHGGFHFGGFHHFHGEDCFHHHHHHGEFB4,*2E @read_150_100/1 AATAAAAGTGAAAAAAGCAATCAACAGTTGAAATTGTTCATCACTAGCCCAACATCTTTCCTATCACATGCCCCTTCTTCTCTGCTAATAGAACCCCTAT + HHHHHHHHGGHHFCD=DCHHHHHHHE;@BGGCEGHHHHHFFGGGGHHHHCFGGEEEFCHCFF<;EFDBDCGGGGFDEGGEFHFFHHHFBFGGG;BD4>?E @read_150_100/2 TTTCTACCGATACCTAGCAAATAGGGGTTCTATTAGCAGAGAAGAAGGGGCATGTGATAGGAAAGATGTTGGGCTAGTGATGAACAATTTCAACTGTTGA + HHHHHGFHHHFEFEBEDEFFHGFHHHHDGGE=B@FHHHHHHHHHHGDE.ABGFDFFEF@FH @read_150_101/1 GATTACAGGTGTGAGCCACCTTGCCCAGCCTATTGTCTTATCAACAGGATTAACGGCATTTTCACAAGGAGTAGATTCCATCTCAAGAAACCATTTGTTT + HHHHHHHHHHHHHHHHHHHHHHHHBCEBFFGGGCGGEEFHHHFEEHE?B;6DA;DEDHHFHHHHBBBEDBFAEE@CEGBCDBGBEB@?=@@>GFHEFGEF @read_150_101/2 ATAACTAGACAACTGAAAATATGATTGAATTGCTGCAATCTCACGATCAAACTTGAATGGATGAGCAGCTATTCTTACGGGTGGGCAAACAAATGGTTTC + E@8<5<=D=DHHFDD>@.C>@BD== @read_150_103/1 CACACACACACACAATAGAATACTACTCAGCCATAAAAAAGGAAAGAATTAATGGCATTCACAGCAACCTGGATAGGATTGGAGACCATTATTCTAAGTG + HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHGGEBGGGGHHHHHHHHEFHHHHHHEFHHHHHHHGEEDEGFHHHHHHHHHEEEEFE@);@;AADDEFADHH @read_150_103/2 GCCTTTGCATCCTCGTAGCCTAATTCCCACTTATGAGTGAGAACATACGATGTTCGGTTTTCCATTCCTGAGTTACTTCACTCAGAATAATGGTCTACAA + HHHGHHHHHHHFGBBDFGGHGD@HFDGEEHFHHFB.%3)331)%%-*'4()&*/ @read_150_104/1 ATACTTCAGGGGATGAGCCTGGGTCCTCCCCTCCTGGCTGACAGGAGCCTGGTGGGCAGTGGGTATGTGGGGCCCGTGTAGGGGGGTTGGGCAGCACTGG + HHGEEGGHHHHHHHHHHHHHHHHHFEG@>BFHHHHHHHHHHHHHHHHHHHHHHF=DEDGE,-AHHHHHHFEHFD9DEEGEHHHHHHHHFHGFFFACEFHH @read_150_104/2 ACCAGTCCCTGGCTCCCTGGCCAGGCCCAGTGCTGCCCAACCCCCCTACACGGGCCCCACATACCCACTGCCCACCAGGCTCCTGTCAGCCAGGAGGGGA + HHHHHHHHA?HGHHHFDBHHHHHGFHF9>ADD7828.?EEDD35:A<.A@><9ADE@@@C@7&%< @read_150_105/1 CATAGCCCTTCAGTGGATACGTTGGGGAATGGAAAATGAGTTATTCAATTGACTCATTCAAATGAGTCCTGGTTTTTCTTCCATAATATACAGATAAGCA + HFGGGFFFFFHHGGFGGHFFGGGDHHHFFBDEDGHHHG>10+8<@B5<+)6(8;EHEFF:AHDGGHFHF)85CD6: @read_150_106/1 CCCTCTTCATATGACTCAAGGCTGCCTCACATCCTGATGTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTG + HHHHHGFFFGGHHHHECC@@BGHEEFGHGHHHHHEFFCFBHHHHGGHFHHFFHGGGHHHHHHHHHHHHFDDDA9BCBBFDDFFHHHHHHHGFHHHFBBB? @read_150_106/2 ACATCAGGATGTGAGGCAGCCTTGAGTCATATGAAGAGGGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAA + HHFFHE>?<<@GGDDGD@EHHHHHFGHHHFHHHHHHHHHHHFFHHHHHHHGGGHHHHHFHFGGHHHHHHDHHFFHGHHHHFGFHH@@EBGE=GGGHHHHH @read_150_107/1 ACTAAGTCTTGTTTGCATTCCCTTTCGGAGCAAGAAATCAATCAGATTTGCATATAGGGAAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACC + HHHHHHHHHHHGEDDFGHHHHHHHHGGFHHHGGBGHHHHGGGGHHHHHHHFHHFFHHHHHHFAADCFFB?>;;?GHHHHHHHHHHHHHEHHHHHCFHHHH @read_150_107/2 TTTCCCTATATGCAAATCTGATTGATTTCTTGCTCCGAAAGGGAATGCAAACAAGACTTAGTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATC + HHHHFFGGGGHHHHH@50)6C599;D?>HHHGGHHHHHGAEBFFFFBDHCHHHHHGGHHHHEHDHEGF@@EFHHHHHHHHHF><>BDDGBCE0<+>FCC; @read_150_108/1 TGATCTTTTCCTTTCTAGCTTAATGGCTTTCCTAGAAACAGAGCCTGAGGTAAGTATTGAATGCTAATGCTTTATTTAGGAGGTATGTTTTTATGGCTGC + HHHHGFBHHHHHHHHHG=2BGGHHHHFHGHHHHHE;>BBFDEF9BCC:,0FHHHHHHHHHEFHHHHBFFHHHHHFHHHHGGE=>>7DFHHHHCD.3>CDD @read_150_108/2 TGCTTCAAACTGCCTCGCTTCCCTTTTCGCTCAATTTTGCAGCCATAAAAACATACCTCCTAAATAAAGCATTAGCATTCAATACTTACCTCAGGCTCTG + HHHHHHHHHHHFFFHHHHHHHFGEEHHHHHHHHHHHHHHHHGGGFE;?CBFGIGGEHHHHHHHHHHHHEEEGHHHGFBGEHDHHHH?;DFBHHHHHH>9DABHHHHHHHHHHHFEEHFHHAGEFGGG @read_150_109/2 CAAGGTAACTCTCCCTGTGTGTCTTCCTGTAGTGCTGGCTCTCTGCCAGCTTGGCTCACTGCCCAGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTA + DDGGGFEEE@?7@CCGFHHHHHHHHHHHHHHHHHHHGGHFHHHFF;08DGHHHGGGHHHE@BE=D;>@?>6.:CGGGGFFGHHHDEFFHHHHFFFGD;AC.3CCFGGEHGFEFFD+/>3+2;29; @read_150_110/2 AGGCGCCCGCCACCACACCTGGCTAATTTTTGTATTTTTAGTAGAAATGAGGTTTTACCATGTTGGCCAGGCTGGACTCGAACTCCTGACCTCAGCTGAT + FHHHHBB=DC@ABFG=-11119=D9GGD.6.84?;DGFHHHHHHFEHHHHE??EE<*.::.@GGHHFH?HHE:.<4.:ABE?CDGEDFHDEEEHHHHHHFGFGF @read_150_111/2 CAGTCACCTCCAACAAATATTGCTACTGCTCATATCTTGGGAACTGCCTGCCATCAAGAGAAGCTGCAGTGGAAGAAGCATGAGATCTGCAGCCTTCATT + HHGHHHHFGEEE@6GGHHHHHHHHHEGGFGHGHHHHHHHDDBFHFFE/1@:>@GFHFHHHHEGFHHEHHHHHGGHHHHHCDGFFGHGFHHGFCHHHHHHH @read_150_112/1 TCACCATGTTGCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHHHHHHHHHHHHHHGGGGFGDFGFFHDDC?EACFFHHHHHHHHHHHHHFCGFFFHHHFEFDEFB@D@A4?7773,5*, @read_150_112/2 GCAACATGGTGAAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGCTCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + GGFGBAEHHHGHHFHHHHEEA8CADD:.8DEDFHHHFGHEDCEBE>:*EFFDDBDGHGGFEBGF@>>B=336BDHHHHHHEBEE.659=AFHHFFBCA?E @read_150_113/1 TCACGCTTATTCATTGATGGGCTGCCTTCTTACCACATGTCCTTGACATGTTTTAATTCCTTAAGTCCTCATAGTAACCCTAGTACATGTACTCCTGTGA + HHHHGFFEB2GGHHHHHHHHHHHHGFGE8EAEFC97B<7DDEC@FHHFDFDGD=HHHHHDGHEE??CCEHH @read_150_113/2 CACAGGAGTACATGTACTAGGGTTACTATGAGGACTTAAGGAATTAAAACATGTCAAGGACATGTGGTAAGAAGGCAGCCCATCAATGAATACGCGTGAA + @><855@5D8BEE>DDDCBA1=58:<6;=B@GEEBFDC= @read_150_115/1 ATTTCAAACGGAGCCTCTTCCTTCACAGTTTTCCTTCAGAGCTCCTTTTTTTGTTTCCATTTTAAAGTTATTGTTTATTCTAGACAGGGAATCCTGCCAG + HHHGDCHHHHHHHHHHEAGHHHHHHHHHHHHAFGFHHHHHHHHHEB=EDEHEEBGHHHDFHE4DCFFFGFG@FHHFFGEFDFFHHHHHHHHHECCFFEFH @read_150_115/2 CAAAAAACAAAAAAAACTAGGTAGAATGTGATACATGTGAAAAGAGATCCAGCTCAAGTGCCTTGGGAGCTCAGGGGCGGGTGAGATTAATCTCTTTTTC + HHEHHHHHHHGF;9EE21,*60(2FFF@<<<:,A6,=D@@A@ @read_150_116/1 GATGGCAATGAGGCGCCACCAAGGTTTTTATTTTTCAACTTTTTACTTTGGAAAAAAACATTTTTTTTTTTTTTTGAGACAGAGTCTCACTCGGTCACCC + HHHEFFFFB=DA?CFEHHHHHHHHHHFHHHHHHHHHEHHHHHHHHHFHEDHHGGHHFBBHH?CBDDDB;:*3>HHGEE:61<<;+7?>?D@(%C5@@BHHHEGGECGG=@B8CDFFG;8EEIFFHHHHHHHHHHHFHHHHHGHHHHHHHHHHFHHHHFBE2?EFE.5,41-<5>AEFDCFBCFHFADG @read_150_117/1 TTGTCTATGGCTGCTTTTGTGCTTCATACAGCAGTGTTGACAAGTTATGACAGAGACAGTAGGTTTAAAAACCTAAAATAGTTACTTTCTGGCCCTTTAT + =;BGGGHHHHHHHHHHHHHHHHHHHHFFFB>HHHHHHHHGHHHGGHHFGFGGHFHGGHHHH>@<59>AFH8@EGGGGHHHHHFBEHHGIGHHHEGHFHGEGGGBHE=)4E7403A@D?DFBC @read_150_118/1 AAAAATCAACCGTGCCAATCCTCTGTCTCTTCAAGATTAGTTGTAGCTAATAGAGGGTGAACTATGGCTCAAATATAAAAAGATCGGAAGAGCACACGTC + HHHHHHHHHFGGHHEBGHHHHHHHHHHHHHHHHGBEFHHHHHHHGHHHHHHHHHHHHF6><FGHHEFHHEHHEEHHHHHFHHHHGDCC823*/%2/1DHHHG @read_150_119/2 TTGTAGTAACTCGAAGAATCAAGAGAAAAGCTAAATATTAACATCTAGATAGCAAGATTTAATGTGCAAAACTTTAGACTTCTTCAAGCTGAATCAGCCC + HHHHHHH@*?-5>9-><;=HHHHHHFHHHEDEEG/+86;2DDHEFHBEDCGBEFFB5CBE@FGGGDBFF?=;@<1')-/BGE@+6<5,@FBAE@AHHHFF @read_150_120/1 AGCAATTCTCCTGCTTCAGTCTCCTGAGTAGCTGGGATTACAGGCATGGGCCACCACGCCTGGCTAAATTTTGTATTTTTAATAGAGACGGGGTTTCTTC + GGGGHHHHHHHHHHHHHAHHGGHHHHHHHHHHF@?GFHHHHHHCFFFFHHHHHC?FFED=/BGHHHHHHHGEGHB=59ACA @read_150_120/2 ACTTTGGGGGGCCAAGGAGAGTGGATCACCTGAGGTCAGGAGTTCGAGAACAGTCTGGCCAACATGAAGAAACCCCGTCTCTATTAAAAATACAAAATTT + HHEEE?BGHHHHFHHHHHHGHHBH<@FFHHDDCDFHHHEGH?DDC>F?<3)+3*90>@;C@>DB3?ADGH@ACBC05ACDCEEGCFD=ADDDHH @read_150_121/1 CTCTATCTTTACCTCCAAAGTGCTTCCGCATCTCTTGTCCCATTTTCTTTTTTTTGCCCTATATTTTAAACCAGGATTCTGTTGCTGGCCATAACACATA + HHHHHHHHHHHHHHHHHHHHHGGHHFGE>>DDDDDEEEEHHHHHHHHFHFFHHHHHHHDDCEHCCFHHFHHFHHHHHHHHACC>?A?EFCHHHHHHHGFH @read_150_121/2 CAGAGATCTGGGTTCTAATCCCTGAGATGTTACTGATTTGGGGTATGTGTTATGGCCAGCAACAGAATCCTGGTTTAAAATATAGGGCAAAAAAAAGAAA + HHE=EHHHHEHHHHHHHHDDHHFEHHDDEEHHHHHHHHHGF>@@:FHHHHHEEGHHHHHHHDHHHBEEHGEHEDD72EEGHHHHEEEEHHHHHH;45,4C @read_150_122/1 TGTGTCCTCTCTGATTTCACTGAGCAGTGGTTTGTAGCTCTCCTTGAAGAGGTCCTTCACTTCCCTTGTTAGCTATATTCCTAGGTATTTTATTCTTTTT + FHHHHHHHHHHHHHHHHHHHHFHHHHHHHFGFGGHHDFEEGDBBBDDCFFHHF;>;B)')6GDAACE @read_150_123/2 ATATGACACCAGTGACTAATCCTGAAGTGCGGAAAATAGATGATCTCTCAGACAGGGAATTTAAAATTTCTGCCTAAAGGAACTCAACAAACCAAGATAG + HHGHHHHHHHHHHHHHHHHHHHHHDGGD5>CHHHHHHHGE/08ABBGBHHFIIGCDHHE@ADEEEHHGGBHHGFEHHHGBE@GFE7()9>,:FF@FG?>5 @read_150_124/1 CTTGTTCACCTAGCAACATTTAACAATGATACCTCTTTTAACAATTCAGGATGTGAACGACATAAATGAAGATGGTGAACATAGATCGGAAGAGCACACG + HHHHHHHHHHHHHHHHHGFBGGGGGFFFEGHHH;FFF@ABCCE;@EEEHHHHFHFHFEHHEFEEEHHHHGBFDHHHHCHHHHGHHHHHHHHH9CHGGHHE @read_150_124/2 ATGTTCACCATCTTCATTTATGTCGTTCACATCCTGAATTGTTAAAAGAGGTATCATTGTTAAATGTTGCTAGGTGAACAAGAGATCGGAAGAGCGTCGT + GBHHHHHHHHEBCC;<87CEHGHH@FEG>HHHHGFEHHEBEBGFHADCDFHHHHHE=B9CD(6EF @read_150_125/1 GACACCAGGTGGGCCTGAGCAGGGGGACCAAGCGCCTGATGGGCTGTGGGGCTAAGGGGGGAATCGGGTGGCTCCCGGGGGTACAGGCTGGGTGTTGGGT + FEEEDDDHHHFHHHHHHFHHHHHFEGGDFEGGHHHHHHFHHHHHHHHHHHEFHHHHHHHFHHHEHHHHHHFGB2?GDAAGHHHHBEHHHHHGCFHHGFFD @read_150_125/2 GGAAGGGAGCAGGGCCAGCAGGGGATAGGGGGCACTGCCAAGCTGTCAGGGAGGCCAAGGCACGGCTCATCCCTTCGGGGCCCCATTTGGTGCCTACTCT + HC?FFHHHHHEGHHHCBGHHEE.DHHHHHF<<7BGHHHHHGGFHHDCFHHHHHHDBEEGGGGEE;A<974<>:783:BAG=<>,86??GADB;57>@CB? @read_150_126/1 AAAGTAAGTGAACATAACATTAAAAAAATTCAAGGTGAAAATATCAAAGGAAACAATAGTGACTATTTCACTGTGATAAAAAGAAAATAATTGAAGGACA + HHHHHHHHHHHHHBGFDFHEBEBEEFHHHHHHHHGHG@CE829A-,>FHDEEFBHGHHHHHHFHHHHHHHHFEFFFBDHFBE756DFFDBE;BGHEHHEE @read_150_126/2 ATTTATTCTGACGGTGCATAAGTTTTAAATGTCCTTCAATTATTTTCTTTTTATCACAGTGAAATAGTCACTATTGTTTCCTTTGATATTTTCACATTGA + HHHHHHHHHHHHHHHHHHHCGGGGFFFHHFFGBBGGGHHHHHFFAEA>6=EEBDGHHHDD<><;8<.77DEHHHGHHHGC+797E.;>CAFDFFGGFFE:>EDHHHHHHHHHHHHHCHHHHHHHHHHHHGHHHGE/@=@BCDBB69B:ABEDEEHHHGGFHFHHHHHHFFHFDEHGHHHFFDDD>@DDA>FHEBFHFFDFFFHHHHHHHHHHHFFFFCGGFFGEFFGHHHHHHHFGEBFCBEH @read_150_128/2 CTTTCCTATCAAGCCAATCCAGAAGTAGGACTTACATTTGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAA + @GEEEDDHHHGGG@DEEGHHFEEFFGHHHHHHGIGEHHHHHHFDBHHHHHHHHHHHHHHHHHHHFF=EGFAHHFHHHHHB@?D@CFGGG?AHHGFHHHHHHHGEE?EEHHHHDA=>EEEGHHHEEFHHHHHH?HHFFHHHHHHHHHHHHHHHHGGFHB8;E+'+8;CHHH @read_150_129/2 AGTCACTGAGGCCAGGAGAGGTTAGTGTAGGAAGAAGGATGCATAGCAAAGTGAAGGGAGCAGCACTAGGAGGTGATGAAGAGCATAGGTATTGAAATCC + HHHHGHEHHFDDFHHHHHHHHHHHHHF@?>,9)+(4B8EHHHHGGGFHHEDCDD45EGHHHHHHHHHHHGGHHHHFFHHHHHHHHHHHBGDCDB@87CC? @read_150_130/1 TGCAGATGAAGCTTGTCCGTGCCCAGTGCCTGAGTGTCTGGAGCTGTCTGCTGACTGGAGCTGGTGGCGGGATCCATGTCTTTCTCCTGCACTTGATCTT + HHHHGGGGHHHHHHHHGF?C=FGGDE=::2/&-6FFHHHHFFGHHFHFFFFFEEHHHFHH?D>FEHFFCDHFFDD4,04>DCFFHEE@CCDD4B-+)35D @read_150_130/2 GGCACTCTGCAGACAGCTCCAGAAAATCAGGCACTCGTCACACACAGAATTCCTCTAGTGGACAGGCTGCGTCATCCCATGAACAGGCAAGATCAAGTGC + DBBEG;<@@FDHHHHHGGHHHHHHFGGGHGHHHHHHFHHF=DHHEFGB/8:=785B9>@HHHHHHHHHHEC@@?@GHHHFHH@7EHEE@B55477&0:11 @read_150_131/1 GGTTACATCTTCACTTTGTAGAAGGCTAGAAGGCACAGTTTTCTGGCAGTTCAATGTAACTCAAATTGGTAACCTCCTTTTATCAGCTCCAATATTAAAC + GGGHGHHHHHHHHHGBEEHD;DHHGGDBGHGFFHCAFDEHHHHFFEHHGGFFHFGDEDGFFHFFHHHHHEHD@ADDDDDC>@8DHHGECCE@EHHHFGGB @read_150_131/2 TCACAGGAAGGTTTAATATTTGAGCTGATAAAAGGAGGCTACCAATTTGAGTTACATTGAACTGCCAGAAAACTGTGCCTTCTAGCCTTCTACAAAGTGA + HHHGFC@6?@@EFIIHD?FHHA@..45CDEE;BFFDHHHHFFFDFD?EEA4D @read_150_133/2 TTTCAGATTCCAGGAAGTTTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAA + HHHHHHGHHHGGGG=C@=D@>@??=EE@GGFGGGHHHHGGEHHHHFDDDAFEEFF=>8DHHHHHHHHHGGFBDC>CBBGEEDB95.55;HHHHFEA=EE@ @read_150_134/1 CACAAACTTGTAAGAAACGTTTTAATTTGTCCTGTCAACTTCAACAAATTTACAAGAAAAAAACAAACAACCCTATTAGAAAGTGGGCAAAGGACATGAA + HHHHHHHGHFHGGGGGF8%9DBBHHHHHHFFFGGHFFHHHHHHH?E@:?BFHHBEHGGHHHGCEB,:0:))4;CD @read_150_135/1 CAGATTTTTGGTAGGTGCATTCTTCATGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTACTCTCGTATGCCGTCTTCTGCTTGAAAAAAAA + HHHGHHHHFGFFEHHHHHHHGGHHHHHFHHGHFBHHBEDD@;DEDHHHHHHHHHHFHFGFHFCBAEEE)9EGFFHHHFFFEEGHHFFHFHGH512DFFED @read_150_135/2 CATGAAGAATGCACCTACCAAAAATCTGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAA + HHHHHHGEGG=EHHHHHHHHFECBHEDF??FGFH;@GFD9@FIGGF@@>GGFEHHHHHHHHHHHHHHFHE8(<@)..:>CD,9 @read_150_137/1 CTACTAAATATACAAAAAAAAAAAAAATTAGCTGGGCATGGTGGCAGGCACCTGTAGTTTCAGCTACTCAGGAGAGATCGGAAGAGCAAACGTCTGAACT + HHHHHGFEDHHHHHHHHEE8GGHHHHGEGHHHHHHEFFFEHHHHHHHHHHHFDECE9D@DEHDDDEECAACCB:=9A=@BFHHAFFF0(+?DDEEGEEHE @read_150_137/2 CTCCTGAGTAGCTGAAACTACAGGTGCCTGCCACCATGCCCAGCTAATTTTTTTTTTTTTTGTATATTTAGTAGAGATCGGAAGAGCGTCGTGTAGGGAA + HHHEEBEHHHHHHHHFHHHHHHHHFGHHHHHHFGGGFHFGF?EGE566/)20?GCDEGDEHHHHHHFHHGFC=88BBCEEEDEFHHHE4G8:?;DFFHFE @read_150_138/1 AGATTTGTAACTTGGCACAAAAACTGCTTATGTTAGATATTCAATTTCCCTGTTCTTGTTCCAGGTTTTCAAAGAAATTCCCCTAGCATCCTTGTCACTT + HHHHHHHHHHHHHHHHHHHHGHHHHHHHF9?CEF@8:EHHHG@53ADEBEGFFC;=:<49AFFEFHGFFEF;2&%');6=AHHHHFFHHD@FHH?=EEEEHHHHHHGHHFCHHFEHGGGGG @read_150_139/2 GAATAATAAAAAAACCGGTCTCCTGCATAGCCATCTATGCCTGAATTACTCTTTCTCTATTGCAATCCCCTGTCTTGATATATCTACTCTGTCTAGGCAG + HHHHHHHHHHGGHHHGGGFBBGGFB<2)@BHED:73.66)+9DBB4;ACBHHHHHHHHHHHHHFFAGDBAB<9DHHHF?EHHHEE@EB>DDHHHHEE5<= @read_150_140/1 TCTAGAAGTTGTATTTCTTAAAAATAAATGTAATGTGGCTACTTGGAAGAAAGAAGAATGGGAAACGTTGATTTTTCTTGTAATCATTTATAGGCTATTG + BCDAADHHHHGFEHG=@;;>D@HHHHHHHHHHFHHED>AFHHHH @read_150_140/2 ACAGAGCGAGACTCCATCTCAAAAAAATAAAATAAAATAAAATAAAATAAAATAAAATAAAATAAAAATAGAGCCTCTGACATGAGTTCCACCAGAAAAC + :>>>:14D @read_150_141/1 TCTAAAAGTTTTAAGACCATTAGGTTTGATCGTCTTTCTTCTTTAATCTGGAAAGTTTGTCTTCAATTCCTGTATGAGACTTTAGGAGTTTCGAGAGCGG + HHHF=FHHHHHHFFGHHHHFFHHHHGGHHHHHHEE=6FGEFFHHHFGFHHHHHHFHHHHHHHHHHHEFHCEEHFHHGFBD:;2E8BGFE6EEE@C2%9;F @read_150_141/2 CGAAACTCCTAAAGTCTCATACAGGAATTGAAGACAAACTTTCCAGATTAAAGAAGAAAGACGATCAAACCTAATGGTCTTAAAACTTTTAGAAGATCGG + HHHHHHHHHHHHHHFFHHG@EGG8CHHBDCEEDCDHHHHHHFHFFHFFGGEECCA>DHHEGDB?C.:FHHHF??=DBFFEG=EHHHFFIGE?>2:(8>.1 @read_150_142/1 CTTTCAGGCAAAAATTTTGAAGTAAGATGTGATGCAAAATTTTTTATTGAATTCAGTATATTTGGCCCTATATTCTTGACTGTAGTAGTCAGAGGAGGCT + GGFFDBEACBDBBEEEHHHHHHHHHHHFEEHHHHGHHHHHHHGBDA:EGGHDB??GGGFFDHFHHHA9>EFEDCFGFEDDHEEBDEGGHHHHHHFGF:DF @read_150_142/2 TCACTCCCCACCTTTCACTGAACTAAATTATTATGGGCTTTTAGGTGAGTGGGAACCAAACTTTTTTTGTTGCCTCATTGTATGTTTGAGTCCATTTGTT + GGED=FGHHHHHHHHHHHHHHGGGDGGEDDDDEEEFHHHHHFHHFFHHHGHHHGFHHHABGHHHHHHHHFEEEGFHGHEHHHHHHEGCDFBB.CD @read_150_143/2 ACACTTGGAAGTTCTCGGGGAGCTCTAGATCCCTCTGTCTCCCCACTTCCCTCCTCCCTCCTCTCGTCACCTCCTTTCCTCTTGCCTTGACTCTCTGGCC + EFHHHHFD?=-9;:>CDEHHHHHH@0'-.6;@EFFFFGGHHHFED=CE/->99=FBB+3> @read_150_144/2 AGTTTGAATTGTACGAATGGTCCCATTTTCTAGCTCAAATCCTTTTTTTTTTTTTTTTTTTTTTTGAGACAGAGTCTCGCTCTGTGGCCAAGCTGGAGTG + HHHGGDGHHHHHHHHHFGGGHHFHGHHHHHGHHFHHHHHHHHHHHHFHHFHGDEFGHBB?DDGGGGEEB4<8=21:@CBF?1&6<(+9=CHHFDEDB9GF @read_150_145/1 ATATCAGTTAATAAATGTTAGATTCATTGGACAGTACCAGGCACATAGTTAAAGTGCAGTAAATAGTAGTTATTGTTGGTATTGGTGTTATTTTATGTTG + HHHHHHHHHHHHHFGHHHHHHHGHHFFEHHEHHFFHHHHEHHDDBCDFHHHHGGGEHHHHFDB9BFHHHHDEEHFFHHHHHHHDE;:BGDEHHHHFHD3( @read_150_145/2 AACCAGTGAACAATCCACAGGCTGCAAAGATGATGTTCCTATTTCCTCATGAAGGTTCCCAATCACTCATCCACTTTTGATTAAAGAAAAGTGAATGCAC + HHHHFHHHHHHHHHHHHHEHHHHHHFGDDGHHHHHHHHFHHGGEHG@ADFHHHHHHHDCBBDHGH<@=GGHHFHHHHHEDFFBCGGEDEHGFF9ABEFGG @read_150_146/1 GGGGATGATTTTCTTGTGGTATGCCAGTGACATTGCCTCCTCAAGAGACCTTTTTAATTTAGCTTTATGGAAAGTAATATAAGATCGGAAGAGCACACGT + HHEEEBCCGGGGHHHHHFFHHHHHHHHEGGEHHHHHHHHHHHFHEEFAAFHHHHGGGFEHHHHHFHHHC@CBEC:;::=D?HHHHFHFEDEDDFFHHHFF @read_150_146/2 TATATTACTTTCCATAAAGCTAAATTAAAAAGGTCTCTTGAGGAGGCAATGTCACTGGCATACCACAAGAAAATCATCCCCAGATCGGAAGAGCGTCGTG + HHHHGHHHHGHHHHHHHHHHHHHHHGG@?>.DHHFGHFHGDAFHHH@=AC<;CB/3(8D:EHHHHEEHHHHDEGGGHHHFHHHHHHHHHHDEFGFHFF;= @read_150_147/1 CAGGTTCTCCAAAGCAGATCGGTGCTCAAGTACCAGGAGTTTAGGAGTCATGAGGCTGAGAACCTCTTCACAGGGCCTGCTGCCCCACCCAGGGGGAAAC + GEEEGFFFHHHHHHHHHEHHHHHHHHHFFA9=CBHHHHHHHHHHFHECHFFFHHHHHHHHFHHHFFFHHFD349EDDDFHHHFEHHHFHHHHHFFEEHHH @read_150_147/2 TGAGATTCCCTGTCATACCAGTTATGGATAAATTTGCATTTTGGATGGGACATTACTGGACCAGCCCATTTTAGGCAGTTCCGTTTCCCCCTGGGTGGGG + HHHHHHHHHHHHHHHCE@GHHFGGFGGFCFHHHHHFGHHHHGGFHHHHA.GBCDDEGEC@GGHHEFGGGF@572(5-<ADFGHHEF=B:>F>BDHGFFGHF @read_150_148/2 TCTAACATTCCTGGCACGGAGGTGCATAGGGAAACATCATGTATTTCACAACTCCTTACTAAGAGGATAAAAATGACTAATTCCTTAGGAGAGACAAGGT + <56:<.5??EFGGF:EHHHHHHFGB:?DGHHHHHHHFFHHHHHHHHHHHHFGHHHHHGGEHHEF@EHHHHHHHHHHEFEFFFH>>?2?CBC::>CHHHEG @read_150_149/1 CAGGAGTTTGAGACCAGCCTGGCCAGCATGGTGAAACCCCGTCTCTACTAAAAATAGAAAAATTAGCCAGGCATCGTAGCGTGTGCCTGTAATCCCAGCT + HHHHHHDEEHHHHHHHHHHEGHHHGHGHHHGFA@HHHHC?GGHHHHHHHDBDB%395>@DEEFFAHFHEFHF@9EHHHHHHH@GGHHHHFFEFHHHFFGF @read_150_149/2 GTCTCGCTCTGTCGCTCAGGCTGGAGTGCAGTGGCACAATCTCGGCTCACTGCAACCTCTGCCTCCTGGGTTCAAGCGATTCTCCTGCCTCGGCCTCCCG + HHHHHGGE=DEFFBCEGHHHHGHHHHHHFHDGHCEB?17/.;EBEFGFDD6BGFFFBGHEB=:80.6607FHHDFBFGHGHEFC/3:+=6115DHGGG80 @read_150_150/1 ACTGTGCATAGGGCCAGTGCCCCAACTCCTGCATTGTTCAGAGGTCAACTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGT + GGHHDHGGHHHHHHHHHHHHHHHHFGHHGGGEHHHHGGGGEADFHHHHH@FFGHFHHHHHHHHHFCHACFE=ADFFHHFHHHHHHHHHHHHHHGGHHHHH @read_150_150/2 GTATACAGGATTTAGTACTAATCTAGTTTTAGACATCCACTGGGGGTCGTGAAATGTAATCCTCATGAATAACGGCAGGGGGATTACTGCAGCTTTGTGT + GGGGFHHHHHHHBGGHHEHHHFHHHHHHBDFFHHCGHEFEFHHHHBFFGEHHHHHHHHHHHHFABEEDDHHHHHHFEHFDC?DBBDFFF49=7,6)%4>B @read_150_151/1 GAAAATGAGAAAGAGTATTTAGAGATTTTACTGTCTGTGGTGGGTGATTTTAACGTAGGTCTTGCAAAGTAGGTAATTAGATCGGAAGAGCACACGGCTT + HHHHHHHHHHHHHGGGHHGHGFGFGGGHHHHH@HEEFHEGHHGDFECDAA=A?FEHHHFFFGGHHFHHHHHHHHHE26@CEHHHHHGHHFHG?B8.*>>> @read_150_151/2 AATTACCTACTTTGCAAGACCTACGTTAAAATCACCCACCACAGACAGTAAAATCTCTAAATACTCTTTCTCATTTTCAGATCGGAAGAGCGTCGTGTAG + FEHHHHHFFBF=@DCGGHHHHGGHHHFFFEDA;>B@GHHHHHHBDEEFHHFHHHHHGGHHHHHHHHHHHHHHHHHHBDBFFHHHGHHHHE;@AHFH?DD, @read_150_152/1 AGTTTTATTATTGGTCTTCAATCAAAAGGCAACATGCCATTGATAGAAAAGGGTAACTTTACAAAATAAAATACACTGTTTCCCTAAAGGAATTAAAGAA + HHHHGGGFGFGHHD4FHEFHGGHHEFEEDFFHHHEFGHHHHHHHHHEHHFHFHCBDHHCHHHHHBAEDC8@EEEB=C=/1&;EDDHHHHHHHGFGFDDDC @read_150_152/2 GATTATATAAACAGATATTTTCTTTATCTATAAAAATCAGGTAATGAGTGCTCTGGGAATTTGAGTAGGATAGGATAGTTTCTTTAATTCCTTTAGGGAA + B@GDCEEEHGHHHHHHHHHHHGDGGHHHHHEHHF@A?@:=%1/D=8,?ABDHHEECFHEHHHGHGB@8<8CC>>.6>CHHHHHHHCC@CEA3;CFHGGEGHHHGFGHGB??DFBFBFEC @read_150_153/2 TCCCCCTCCCCTTCCTCTCCCCTTCCCTCCCCTTCCCCTTCCTTTCTTCCTTCTCCCTTTCCCTTCTCCTTCCTTCTTTCTCGCCTTCCCCTTCCCCTTC + FGEFHHHHHHHHHHHHHHHHGGDDEHHHHEH>=.:1*++<@:DEB>4@58@:FHHHHHHHEGGHHGGGGG46-,31,:FFHFFHHDABC< @read_150_154/1 TTTTTTAAAACCTTTGTCTAGTAACTCCAATTTCTGTCCTTCCTCCAGGATGGTTTCTGTCAATTAACCTTGGTCCTTTGAATTAGTCATATTTTTGTAA + FEGGHHHHHHHHHFBDHFHHHHFGHFFFHHHGHGHHGFHHFHHHHFHHHHHHHHEFDEHHHHGGGD?DCDFFFFEHHHHHHHC@7CGHHE:?EEHHE><> @read_150_154/2 TACAAAAATATGACTAATTCAAAGGACCAAGGTTAATTGACAGAAACCATCCTGGAGGAAGGACAGAAATTGGAGTTACTAGACAAAGGTTTTAAAAAAA + 95<<@@DDDEBEHHDGDHHHD?C@BBBHHHFHGB>FHHHHHHHFI8><<?GEFFEEFHHHHHHHHFFEDFDF?D?6/CCD;A:4??ABHHHHFF?@DF< @read_150_155/2 TTCCCATGAAGGTAACAGGCATATAAAGTAGGGGGCAACCTTTATTAGAAAAGAAAAATATCTAACTCATATGCAGAGAGGCAGACAATCTTATCAAACA + HHHHHHHHHHHHHGHHHHFHHHHGDEHBFFE>;A7C>>;:.@CEHHFFFHHBE<.60(''64B@D/;<<5ADGGFHHHHHHHHHGHHHGCBEAA?BCFHH @read_150_156/1 GGATAAGGCACACACAGAAGAGTGTCATGAAAGCCTCCCACCCACCAGTATTTTCTGAGCATGCACCACATGCAGGCCCCGCAGAGGGCCTTCCACACCT + GGGHHHHHHHHHHGGHHHHHHHHHHHHGHGHGBFFHHHHHFGFF?00,/EABFEG @read_150_157/1 TCCTCCCAACTCCCACGGCATTATGCTGCTGTCATTGAAACCTACCACCTTCACCAGCCCAGACAACATGGTGAAACCCCATCTCTACTAAAAATACAAA + HHHHHHHHHHHHHHHHHHHEHF?A>?EHHFGEEHHHHHHFHHFFFBFHHFGGGB:BFB?CAEHHHHHHFHEHHHHHHHGGHHHHHHGHHHHHHHHHHHEE @read_150_157/2 GTCCAATTTTTGTATTTTTAGTAGAGATGGGGTTTCACCATGTTGTCTGGGCTGGTGAAGGTGGTAGGTTTCAATGACAGCAGCATAATGCCGTGGGAGT + @ECDCD>6.>7CEGHHHHFHHHHHHFHHHHHBEGBHHHHHHHHHGCBEEEHHHHHGHFHHGGHHHHFHHHHHFHH9EFHHHHHHF@CCDFHHHFH:?AA? @read_150_158/1 ATGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAATAAAAAA + HHHHHHHHFGHHGGFHHDFF;CEEEEGC=@?19@A@5BBGBGEBDHHHHHHHHHHGGDDCDEHFHHFHHFFFGHHHHHHBG51?HDEEHHHBFHHHHFDEBEBGFH @read_150_159/1 GGATTCCTCCTGAGGCTATGAAAATGTTTTATCTCCCCTGCCCGACTTATCACCAAGTCAGTGGTGATTTCTCAGTCATCCAGGTCATTACTGTAGGCAC + FFFGHHFGHHFEE@EHBBE=EGCDD8DDE/485>C@BCCEHHHHDHHHHHHFFFFHHHHBBFDDBDGGGHBGFGCAFG?EEEHH;<><>BFHHHHHHHHGFFFHHHHHFHFHHFGGD.FGGEEBEFHHHDBGHHHHGGBCEDEEGHHHHEEEEEFCFHGDF5<:A;6FF @read_150_160/1 CAGGACAGGGTGGGTGGGCTATGTCCCTGTGGGTTCACAAAGCCTCATATTCACACTCTGACCCTTCAGGAAGCTGCTACAGATCGGAAGAGCACACGTC + HHHHHHEFF89:=EGHHHHGBEGHHHHHHHHHGHHHEFGCD-)>@1<7>C=BHHHHHHHFFGHFHHHE;-*.<09CC@8A?GEB@FBGB@9>2?91:./- @read_150_160/2 GTAGCAGCTTCCTGAAGGGTCAGAGTGTGAATATGAGTCTTTGTGAACCAACAGGGACATAGCCCACCCACCCTGTCCTGAGATCGGAAGAGCGTCGTGT + HHHHHHHHHHHHEE@EGEB/5<73BFHHGC1<:<>?HHF<8=A=<;-1<.2-,:22HHHHHHFHHHHHHHGHEGGDEFEHFD446GFHHE=+@AFHH @read_150_161/1 ACTAAAAATACAAAAAATTAGCCGGGTGTGGTAGCGGGCGCCTGTAGTCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATGGCGTGAAACCGGGGGGCGG + HFFGHHHHHHHHHHHHHHHHGHHHHHHHHB-0:;6:EEHHEBFHFHHHHHHHHDFHFFHFFBBDFEDDEGHDBHEHHHHHHEHF5CD-5@;8;-&3DHFE @read_150_161/2 TATTGCCCAGGCTGGAGTGCAGTGGTGCCATCTCGGCTCACTGCAAGCTCCGCCTCCCGGGTTCACGCCATTCTCCTGCCTCAGCCTCACGAGTAGCTGG + FBHHGEGHHHHHHHHHEEEFBHGEGHHGGHHHHHHHFHHHHHHHHFEHHHFHDDGHHHHEAB74/>=B=GBFFHFF?EDH@EHHE?=,2>9%1>FHHFC??FHHHHGGEGHHGHHHGHHHHHHHHHH @read_150_163/2 GATCTCAAACCTCTTAATTCACTCAGAGCACCAAGGAGCTTGAGTTTCTTGTATATTATATTAGGCTGTTTTTGCATTGTTATAAAGAAATATCTGAAGG + HHHHFGGHHHHHDEGGHHHHHHHHHFFDGFF48FHHGHBFECC:6>5C6?DE8CCC@@HHHHHHHHHHHHHGHH>EHHGGHHFEHHHHFHFCB5;<;ABE @read_150_164/1 TTAGGAAATAATACAGAGAGATCCTGCATGCCTGTTACCTGGTTTCTCCCAGTGATAACATCTTGTAAACTACAATACAATATCAAGATCGGAAGAGCAC + HHHHGEBGGFHGEGFHHGAAEEGHHHHHHHHGGHGHHHFFCBC.E>F9BHHHHHGEFHHHHHGD=FFDEEEC>EHHHHHHHGGEB<6=A>@>ADGFB>5* @read_150_164/2 TGATATTGTATTGTAGTTTACAAGATGTTATCACTGGGAGAAACCAGGTAACAGGCATGCAGGATCTCTCTGTATTATTTCCTAAAGATCGGAAGAGCGT + HHHHGGG@EEGFFHHHHEDDDHHGHB=@FHHHHEDHHHHH@;EFGFCGGADDHHHHCDDFHFED5DDDCAGFHHFHHHFHFG;EEB><>,;@6-&/3:6C @read_150_165/1 CCCCATGAGCTAAGAATGGTTTTTACTTTTTTGAATAGTTGATGAAAGTCAAAAGAGAGGGATAATATTTTGTGACATGAGAAAATGATATGAAATTCAG + HHHHHHHHHHHHHHHHHFEEHHHE=BEHHHHHHHHE@916FHHHHHHEEHFEFFFH?HHHHHHFEF=CCC?@6,:GCCDHHGGGHHHGG703:(5(33&( @read_150_165/2 GAGCAAGACTCCAACTCAAAAAAAAGGAAAAAAAAAAAAAGAAAAAAATATCCAGATGAAGAAACATGCCCGGGTTATAACAAAACTTTATTTATGGATG + >--;BGHGDGED7-9HHHHGHBBBB@FFCHHHHHHHHHHHEEHHEHHHHHE=EEFGBFGDBBEFFEHHGGGBFFHFGGGFHHHFHFEBB;GCFHHHHHFBDDDEHHHHHHGD=@?CFFF@BHHH@F @read_150_166/2 TATTCTAGAAGAGATTAATGAGCCATGGATAATGAATGACCAAGGACTATTCATCTTTAGATTTTTTTTTTAATTGAAATATCCACTGGGCTTTAAATAA + HHHHFGEHHE@FEHHHHHHHHHHHFFFHHHHHFEIHGGDBDDHHFE8EEEGFGGA774E,5?FGHHHGEGEGFHHHFFHHFEEE?.&<@EG;?FFFFBB- @read_150_167/1 TTGATTACTGTAGCATTATAGTAAGACTGGAAGTTGACAAGTGTCAGTACTTCACTTTGTTCTCCACCAATATTGTGTTGGCTATTCTGGGTCTTTTGCC + DBFGGGGFDFFHHHFEGCC>DFHHHHHEEBGGHDCCEBHHHHHEDBEFBEHHHCBCHHHH@FEHEHEDDD7:@C52>?ACGGGHF=GEGH@E@3DAE?HHGGFHHHHFHHFFHHHHHHGHHHHHHHHFIHHHG@=?DECAB@ABFHHHHGGEDHEFEHFCFF @read_150_168/1 GTATATAGTAAGTGCAATCAATAAATGTTAGCTATTATCATTAGCTATAATTACCATACATCCTTTCATGGAGCAGTTGGAATAATCTTTTAAAAACATA + HHHHGCEFFFEAEEGEDEB@EEEEGHHGGFFHHHHHEFFFBGGGGGEEHB&6FFFEGGDFHHHHFEDBCDEEHHHHHHHHDGGGHHHHCHHHHFD/*5)5 @read_150_168/2 GGAGTCAAGGGCTAGGAAATGTAGAGCCTTTAGCCATCGTAATCTGTTAGAATTCCATTGTAACTGAAATGGGAACTCACTGGAGAATCTTAAGCACAAG + GFGDGGHHHGDF?6:.2+===;;BHDHHE?=AD8CHFHHCDFHHHHHEEGFDG/A9.;CGGBBDCHBB5:8DCBBDEHHHHHHHGFG?BFHHEF? @read_150_169/1 GTAGAAATATCTAATGTAAACTAGAAAATAGAATGTAATTTGTAAAACAGTAACATAAACAGTCTAGATACAATATCGGTAATTAAAATTCAGCTGAGGA + BBDDDDFEEECEEHHHHHHHBDGGHHHHHHGFHHGBFHFHHHHHHGHHDDAB8=GBFG:HF?EHE77DDD48EEGHFB>6=CDDDEAB=6C@859@DGHHHHHDBCGHHFFFCBC=<<%)62-32=A(/@&(6D> @read_150_170/1 CCAAATGCCTATGATTCTGAAACTAACAACACTGTGGAACGACAGTGTGGAGAGGACACTGGATGGGATCAGAATTGATTCTAGTCCAAACTCTGCTATC + HHHHGHHGEFGFHHHHHHHHHHFBFDCHHHHHHHHHHHGGEHFHHHHHHHHHHHHGHB@?@BGFFHFFB=7FFEFGGGHHG?E?EDE23&@.15>?A>5) @read_150_170/2 GGAATTAAAGTAAACGGTTTTTGAGGTCACAAAACTGATGCAACCGTGCTCAGAGAAGTCTAATGTCTTTTCTAGGTCACAGCTATAGCAGAGCTTGGAC + HHHHFBFFHHHGFGHHHHHHGHHEBHFGGHHHBDGGHHHHHHHHH?DHHHHHHHHHHGHFGGGHHHHHFHHHHHHHEC2C=?=>DCA?H @read_150_172/1 AGGCTATCCCATGCCTGCCTGCCCCTACTAAATTCTCATCTCCCATACTTCCCTGCTAAATCTATGATTTCCCCCACCTTACTATTATAATCCCCCTTGA + HHHHHHHCCDHHHHHHDDDFFFHHHHEHHHHHHHHHHHHHFADFEHHDHHGHHHGCEFEHHDB5FFFD9AEFHHHHFDEEFHGHHHFHHFHHHGHHHHHG @read_150_172/2 GACATATATTAAGAAGGCAAAAGCTGGAAATTTAAATTCAAGGGGGATTATAATAGTAAGGTGGGGGAAATCATAGATTTAGCAGGGAAGTATGGGAGCT + HHHEFG8?FGHFABGG<7;EFHFF;EGGGEFH @read_150_173/2 TGTATGATGGGAATGGGCCACTGTGCCCAGCTTTTTGGCATTTTGAAAATGGAATTGTTTGTCTTTTTATTATTGAAATGTGTGAATTCTTTATATATTT + GFEHHHHHHHBDEEB;;8EEGGF@8?DFHHHF@9:>GIDDFFHHFDC7@>CBDGFB<488:.>.5?7:6:AB6<40..8=CD?AA*6EB?@EFGDGEEEH @read_150_174/1 CTCAAATGATATGAAGCAAAATCTGGCATTATAAGAAAGAGATAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTT + HHHHHHHHEFHHGBBGFHHHHFHHHHHHHHHHHF?FAGDFFHHHHHHHHHHHHHHE7>AC7:BFFFEEHHEEEFFFFFFHHHHHHFGHHGHHFHFHHHHH @read_150_174/2 ATCTCTTTCTTATAATGCCAGATTTTGCTTCATATCATTTGAGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCAT + 8DDHHFHHHHHHFFGGHHHHHHHHHHHHFGHHG:HGGHHHHHGF?8'53CHHHHE@C2:67@FG;6>@CHHGGEFDHHHHHHHHD?CADE??FHHHHGHF @read_150_175/1 CTAATTTTTCTAGAAAAAAATAGAAAATTTGTCACTGTTATTTACTTGCACTTAAAAATAAAACAAAATATCACTCAAAAGCAATGACTTATGTTTCTTT + GHHHGGHFHHHHGB=DDGFGHHHHHHHHHHHB=4>@HHHHHHC?DGD11<9@HD;GA?;@CABHHHDFHHHHDFEHHHHEEE.8(5>H @read_150_175/2 GTCCAAGGGAGGAGGATTGCCTGAACACAGGAATTTGAAACCAGCCTAGGCATCATAGTGAAACCCTGTCTCTGTAAAATTAAATATATATAGTTTTAAA + EHHHFHHHHHHHHHHHB?CBGE7555<4@=GHHHHFFEHHHGHGHHHHHHHHHHHGHEGFHHHHHHHB<@6416@ADGEFHHDCHHHHHFHHE-5BB @read_150_176/1 AGGGAACACAGGGTATTTCAAAAAGCTCCATAAGCAACTAAATTGAGGAGTGAAGAAAAACGGACAAAAATAATGAGATTTTAAAAGGGTCTTTTGCAAA + HHHHHHHHHHHGFBCEHHHHHHHHHHHHHHHEEHHHEEFHHHHHHEHHHHFAHFFHE@A7-/11-A49.?<;.<<.7.>323=GHGGGHGHHHHHHE=GHHHH@DGFFF?=DEDHGFHHH @read_150_177/1 ATGGCTTTATAATTTTTTTTCCTTTATCTGATCATATGGTGTAGAACAGGAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTAT + HHHHHHHHGHHHGHHHHHH@BDFHDHHHHHHDGEGEEHHBFGFFFHHHHHHHHHHHHHEEF7(*(2/,@2++5=GHGEAA @read_150_177/2 TCCTGTTCTACACCATATGATCAGATAAAGGAAAAAAAATTATAAAGCCATAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGC + HFBHHHHHHHHHGGHHHHHHHHHHHGD.38:;;EGGGDHHGEFHHHHEECDDDFFHHFFD846==HHHGHHHHHG>.*63;;BEHHHFFC>,5?EHFGEFHHHHHFHHFBCFGEHHBDBA??@D=BHHHF/)?9>>AD=C4@ @read_150_179/2 GCTAGAAGTTCCAGGGACAGTGTGGAAACAGCAAACAGATTGAGAAAGATAATCGTGGGAGTGTGAGACGTGTCAAGCCTACATTGTGCAGTGCGGAGGT + HHHHHHHHHHHHHHHHHHHHHHGHHGEGGHFHHFABEHHHHHHHG>CHDHHHHHFHHGGFFDBGEEACB@FFBFFEE=BHHHFED;<@:-13<:;13(32 @read_150_180/1 AGGCACCTGCCACCACACCTGGCTAATTTTTGTATTTTTAGCAGAGACGGGGTTTCACCATGTTGGCCAGGCTGGTCTCGAACTCCTGACCTCAGGTAAT + HHHHHHHGGGHHHHHHHHHHHHHHHHHHHHEFEAA4FHHHEHHHHHHHHHHHHHFEHEFHHHEFFDDB?;>ACGGEFGDFHHFEHHHHEED67@;*28,B @read_150_180/2 AAGAAAAACAAACCCCAAATTCGAGAGGAGTTCTAGAAATATATAAGAAGAGGGCCAGGCGCAGTGGCTCATGCCTGTAATCCCCGAACTTTGGGAGGCC + EDHHGHHHHHHBEHHHHHHHB?;EGHFGEEDB8(<<@B.>FC;CA-1/)(9 @read_150_181/1 TTGTTTAACAAGCTTATTATGATACTGAAAAAGAATGGTTACCATTAGCAGAAGCAAGAAGAGATGAAGTTTTTATGTAAGTAAAACTTCACCTAACAGA + DGGEEDBGFGGHHHHHHHHHHHHGBEFHGHHFCDEHHFFGDHHFHHHFFFHHHHHFHHHHHHHHFHHEFEFFFC?7)/(187179><@@BFF@C893>3/ @read_150_181/2 TTCATTAAGGGTTGCAAAATGGAGATATCCTAATGCTATCATTTTTTCATCTGTTAGGTGAAGTTTTACTTACATAAAAACTTCATCTCTTCTTGCTTCT + GGHHHHHHHFEHHHHHHHHHHHHHHHHHHHGGHHEHHHHHHHHGFDFHHGFFDGEGGHHFHHFH?FFFFHHFH=6=@7<<3%0FFFFHHHBDE9>EGDA> @read_150_182/1 GTCTTGAACTCCTGGCCTTAAGTGATCCTCTCCCACCTCGGGCCTCCCATGTTACTGGGATTACAGGTGTGAGCTCGGAAGAGCACACGTCTGAACTCCA + HHHHHHHHHHHHHHHHGGHHHHHEGHHHHHF;=>FHFE @read_150_182/2 CACACCTGTAATCCCAGTAACATGGGAGGCCCGAGGTGGGAGAGGATCACTTAAGGCCAGGAGTTCAAGACAGATCGGAAGAGCGTCGTGTAGGGAAATA + HHHHHHHHHHHHEGBEGGGFAFF>@-8>>-,/EHEAHHHHHHGGDBBBEGFGHHHHHE=@CDB:.4@ED>FAAFHHHGFHFHFHFFFEFFE<@=DD@5,? @read_150_183/1 AGGTGACTGGTTGCTGAAGAAAGAGTACCAGGTGGAATAGGACAGCAAAGCTATGGTGACAGAATGAAGAGATTGACTTCTTTGCTGCCTTCAGAGAACA + HHHHGHHHHHHHHEBFEHHGGGHHHHHHGGHHEEHHHHDEEAFHHGDEFGEHHHHHHHHHFHEFFEFCFF?2D;DGDD@GGCBF?FEGGGEEGG@ADEGC @read_150_183/2 AGGAACTTGTTTAAATTGAATCAAAGGCTGACTTCCTGGCAGATTTTCTCTGTGTATTGGTTTTGTTCTCTGAAGGCAGCAAAGCAGTCAATCTCTTCAT + HHHGGGHHHHHHHFGDB4@@FEHHGHHHFGHHHF>GGGGBFEGGFGHHHHFEEHHHHHHHHHHHH@GEHGEHHHBGGFEEEEGG<;EBFECDDEFGGFA> @read_150_184/1 GTTCTGACTGATCAGAAGCAGCTTCCACTTACCATCAGTGTCACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCT + HHHGHHHHGGGHHHGGEEEEGGGDCCFEFFHHHHHHHGG:EFFFHHHHDFHHHHHEDCEHHHDDABDFFGG?CEHHHHHHEFHHGHFHDGFEDBD9EHFC @read_150_184/2 GTGACACTGATGGTAAGTGGAAGCTGCTTCTGATCAGTCAGAACAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCA + DDEB@DBBFCDFHHHHHHHH@CAEEB3376EEE::?FHHC@@.3-5=99EGDCE @read_150_185/1 GCTATTGCACATGTGCCGAAGAAGATATTATAAGATTTGCAGAAAAAGCAGTTATGCTTTGGAGATAAGAAAGATCGGAAGAGCACACGTCTGAACTCCA + DDGGHHHHHHFFHHHHGHHHHHHHHEHEEEHGGHHHHHHHHHCDDGDB>CDDFHHEFF=9EGHHBFFDHFHHHFHHHHGFHHFFHHFFHFBEHHHHEFCA @read_150_185/2 TTCTTATCTCCAAAGCATAACTGCTTTTTCTGCAAATCTTATAATATCTTCTTCGGCACATGTGCAATAGCAGATCGGAAGAGCGTCGTGTAGGGAAAGA + HHHHHE=C2.67BEDIGCHHHHHHHHHHHHHHEFHHGEGCFE?BEHEIB?CDDFHHHHHHHHHHHHHHHHHHDDFDHHHGFDDC+?B@HHHGGB=BDA16 @read_150_186/1 GCTTGAGAGGCAGCAATATGATGTATTCTTTTCATAATAACAAATAGGGCATAAATAATAAATTTATTTATTATTTTGTTATGTTTAATAAATACACATT + HHHHHHHHHHHHHHGGBAADGHHHHHHHGHHDGHHHHHHHHHHHHHHHEEDEA305;ADB?FHHGFFFB?A=DDFFHHHHHHF>BEFHHHED097BDBEH @read_150_186/2 CTTTAGCTTTACAGAAAAACTGAGAACAAAATGCAGTGTTCTCATGAATTCCTTCTACCCTTTGCACAATTTCTCTATTATTACAACCTTGTATTAGTAT + HHHHHHHHHFHHHHHE@<>:5C;EGEGG?EHHGEE<))18EFHHEE>BBDFE<@HEGGHHHHHFEFHHHHD.=@? @read_150_187/2 TTCTGTCTAGCAGAATATGAAGAAATCCCGTTTCCAACGAAGGTCTCAAAGAGGTCTGAATATCCACTTGCAGACTTTACAAACAGAGTGTTTCCTAACT + HHHHHHHHHHFHHHHHHHHHHHHEEHGGDBEHHHHHHHHGHHHHGHHBGFHHHHB?FFGHHHEHHHGED5DDCCFHHFHHHGEGHHHHHHHHEEECDC69BGHH<66;+196FBE;EFFD81'CGFHCFHFFEFGHHHEEC8EHGHHHG@CFD8<-'7388GGBA?6?=A618)59DE@/DBDB @read_150_190/1 AAAAAAAAAAAAGACTGGGAATGGTGGCTCACACCCGTAATCCCAGCACTTTGGGAGGCCAAGGGATCACTTGAGGTCAGGAGTTCAAGACCAGCCTGGC + HHHHHHHHHHHHHHHHHGGGGHFH<9@@GFAAHHHHHFHHHHHFFFHHFF7=?>@A-B=<>36EFHFDG=FEEEC?@CEEHEDHHHHHFE?GGFEHHHFF @read_150_190/2 ATTATAGACGTGTACCACCATTCCCGGCTAATTTTTTGTACTCTTAGCAGAAGCAGGGTTTCACTATGTTGGCCAGGCTGGTCTTGAACTCCTGACCTCA + GGHHHHHHECDEHHHB8=FHHHHHHFHHHHHFEEEFHHHHHHHFFFFFBHGGGGGGGHBHHHHHHHHE8:BEFBEBDHHHGFHD=<5,59496/:5=C88 @read_150_191/1 TTTTGCGTTATCTGTTTTATATTTTAGAAGAGTATATTTCACTACATTATCCAGAGGGATTTTGCTCAGAATCTCATTAGTGTGTTTTGAGTCAGATCGG + GGGGGGGFFD=C?<6BBFHHHHHHHHHHHHHHHEGGFCCCHHHHHHHHDDGFHHHHHHHHHEEEHHHHFFHFFHFHHGGGFBHGGCDDB4>C@1817EDCFH@ @read_150_192/2 CCTGGGGAAATGAGGAAAGAGACCTAGACTTAATGTAGATAAAACAAATTGACATGGGACGTGAATGGGAGAGAAATGAGAAAACCATTCTAGACTAAAG + HHFHHHHHHHHGGGGHCBBHEHHHHHHGHHHHFFF=?>>:@77AHHFG/DEFHHFHFG8CCA>FHHHD@EFHF8B<396=>?@?>DDD;C;DCE=GFEAA @read_150_193/1 TTACATTTCCACCAGCAACACATGAGAGTTCCAGTTTCTCTGCATCATCAACACTTGTTATTATCTGCCTTTTTTATTAGAGCCACCCTAGTGGGTGTGA + HHHHHHGG@>CGHHHHEFF8@HHHEBFHGGB?<55BBFHGGFHHHHHFFHHHHHEDD3>CEF @read_150_193/2 TAAGCACAAAAAAATATGCTCAAAATAGTCATTTGGGAAATGCAAATCAAAAGTGTGACATACTTCACACCCACTAGGGTGGCTCTAATAAAAAAGGCAG + EEBDBFHHHHHGFFFHHHHHFHHHEGDDFFHHHHHHHHHFBEEFHEBEEEGHGGCEEED6-DHHHHHHHHHA6GFFDF78C95BEHFEDDB@@ABAFFHF @read_150_194/1 AGGGCCGTTCCATCTGAGGTGAAGACAGGCAGGCATTTGTTAGGTTTGCGGGACTGCTGGGTGACATGGTTCAGCTGTGTCCCCACCCAAATCTCATCTT + GGGHHHHHHHHFFGGHEEEEGFHHHH@GG>-79.EFBBGGGGHECFEFHFFFFHHHHHFH @read_150_194/2 CATGAGACTTTTTCACTACCATGAGAACAGTATGGGGGAAGCTGCCCCCATGATTAAGGTATCTCCCACTGGGTCCCTCCCACAACACTGGGGAATGATG + HHHHHHG=ECEHHHHHHHHDGEGGE;FEHGGHHHHHHHFFD>?CFHFHHHHHHHH@>4724:BBFFHHHHHHHHHHHHHHHHEGBEEB/DBACFEE;A@5 @read_150_195/1 TTTGTTTCCTTTGTTTCTTTTTCTGCTTTTCTTCCCCACTGCCTTCCTTTGGATTGTGTTTTTTTTTTTTCTGGTTCAATTAAAACATTTTTTAACCGAT + HHHHHHHHHHHGGGGHHHHHHHHHFDCHHHHHFHHHHHFFHFHHHHHHBDFEHHHDFFEEHHHFFFFFFBEGEHHHHHFFDEGHHHDDFHHHHEFFFFBC @read_150_195/2 ACGCATCGGTTAAAAAATGTTTTAATTGAACCAGAAAAAAAAAAAACACAATCCAAAGGAAGGCAGTGGGGAAGAAAAGCAGAAAAAGAAACAATGGAAA + )0+/AEHHHHHGFFHHHHHHHHC.BGHHHGHHEHHHHHHHHHFHHDE, @read_150_196/2 GTTGCCGTGACATGCATGCCGTTCTCCACGGACACTGTGCTTGCTCTGGTCTCCATGCCTGCACCTGTTGCCTCACTGTGGCTTTCTTCCCCGCCCCACC + HHHGGHHHHHHHFFHHHGFHFE@@CADBGGHHHHHHHHFFGE=FBDDA?9FHGGGDD>DC@HHHHHHHHHHHHHHHHHHHHHHHHHHHDC='EHHFBH @read_150_197/2 TGGGAGGCTGAGGTGGGAGGATTGCTTGAGTCCAGGAGTTCAAGACCAGCCTGGGCAACATAGCAAGACCCTGTCTCTACAAAAAATTTAAAAGTTAGCG + HGFBFFGFB;:7@6.@888038:@::CB89;.DHHEEHHGHHFHHGEEFFGFDFHGGHHHGHHHHHHGDCGGGHHHHHCGEBDGEHHHDHEEDEHFBBFE @read_150_198/1 CTGCCCAGCAGCAGCTAGGATACAATATTGGTCTCATAGGGTTGAGGGGTGAGCGTGTTATCCACGTGGAGGGTTATCCAACAGAGTGTTTGGCTGGCTG + HHHHHHHHHHHHHGGGHHHHA4E@CD;DDFHHB@BGGFFGHHBEFDDCFHFHHHHHHCB=BFHEEEGEHHHHHHHGECEE?GHHHHHHHHHHH@GE@EEHHHHHHHHGGGGFHHHHG=C@AFHHHHHHHHG@HHHA @read_150_199/1 GATGAGGCTACAGTTTGGCAGAAGGCAGTTTATAAAAGGCCTCACAGACAATGGAAAACATTTTATAATTATTCTAAAATAATGAAGAATAATTAAATGA + GHHHHHHHHHHHHHHHHHHHHHHHGHHHHHHHHHCBHEEE@DDD6BFFBD8:BE?FEGHH?@CCEECFHHHC;7B>>BDDHGDD@EHHHHFHHHFHHFHHHFABHHHHFHHHHHHHHHHHHHHHFHHHHHFF@EEDBHCFHB0&%-(78DD@.C @read_150_200/1 GTTTTATAACTTCAACATGTGAATTTTGAGGGGACCTAACTCAGTCCATAATAGTGTATTTAAAAAACTAAAAGACGTTTGAAGAGGGAGATATGATGCA + EFFGGCEB>@EEEEEBGHHGD?GHHHHHGEAHFECDDAFFFEFBB2<.CDFFGHHHHHHBHHHCDED=.6:2687?CEBDBGHHBHHHHHGEFHH @read_150_200/2 GCCAATGTCATATGTCTTGTCATCCTGCCAGTCTGCATGCCTGCTGGCCTATTCATAGCATAGATATTTTATGGTAAGGGGTGATATTTGAATTGATACT + HHHHHHHHHHGGGFHHHHHHHHHHFGGG8?-2>>=FDEEEDFHHHHHHHECFFFHGBGEHHHHDB8*::+31).>E6.0.3?>@.DGHFDEEHHHHEEA; @read_150_201/1 AATGAAAAATCAAGTAATGAAATTGTCAGCTGCATAGCCAGTAGAAAAGACAAAACCAAAAAGAAGAGAAGGAGGGAAAGAGGGTGGCAAAATGTAATGC + HGFACDEE@?BCGHHHHHHHHHFHHHHHHHGEFEGHFD48./6@FFFDEHHHHHHHFHHHHHHHEFFHHHHHHHHHHHHGHHHFHHHHGFFD/%7?5CBB @read_150_201/2 CCAACCCACCCCAGCCTCGCTCCTCTTCTGAGACTCCCACCTTCCCAGGGGAGAGTGTGCAGTAATTCACTGTCACTGTGCATTATATTTTGCCACCCTC + HHHHHG@A3EGEACDB@HHFEHHHHHCFFCFFDEFFF;?F;DGFFFHHHDFHEEEHFGFHFDB?B9C @read_150_203/2 CAATGAAACTATCCTTCAAACATGAAAGAGAAAGAAAGATATTCTCAAATAAAAATTTATTGAAAGGAGATCTACATTATAAAAAATGTTGAAAAAAAGT + HGGFD@@CBDHGHHHHFFGB@@DFHHHHHHHHHGGGGFHGEEFHHFHHHHGGFHHHEEGHHHHHHCHHFFG<>;?GHHHFHHHFGHHHEHF;?FDHGBHH @read_150_204/1 CTTTAGAGAAAAAATTGACTAACTTCAGAAAAGATTTTGTAGTTGAATTAAATCTCGTAAACATGAGTAACAGTTATGGCCAGAGAATAGAGTTTATGAG + GEHHHHHHHHHHHGGCGGHHFHHHHHD@FFHEFFGGGC??59>,>DFHHHHHGBHHHEBAB?DC>FHHEE?1772=>@BHHHHHFGGGGHHHEHFFHHHH @read_150_204/2 TTGCCTAGTCTTAGTGTCTCATAAACTCTATTCTCTGGCCATAACTGTTACTCATGTTTACGAGATTTAATTCAACTACAAAATCTTTTCTGAAGTTAGT + HEHHHHGGEHHHHHF?:;EFHF=>DGGBAC@>@@HF=FHHHHFEBFFHHHFGIFGGGDHDBDGGFEHHHHGDCBFFBEBCDHHHGHGEEHHED0&%%?BD @read_150_205/1 CTTCCTGGCTAGACCACGTCAGAGGCCACTGGCAAGCCTGTAGCTTCCTGCCGGTTGGCTTAGGTGTTCTGCTGTGGTCCCTCAGCTGGGGTCGCTATGG + EGGGBEHHHHHGHGHHHHGGDFFHHHHHHHGGFAHHHFD8:9EFFHFFFHHHHDDHAFHHEFHHHHDFHHHFFHHHHECEFADBE9+,1;3:8.924:'8 @read_150_205/2 ATCGGGTGCAAGATACTTCCCTGATCAGCCACCTCTACCTCAGTTCCTGGTAAGAAACGTGGTCACTGGGGACCACGTGAAGTCATTTAGCTGAGGACAG + HHFD=@9BFHHHHHHHEHHHHFHHBHHGB?GBGB096?EHHB65/%53355 @read_150_206/1 ATCTGTGTAGTTTTAGAACACTGGGAGTAGCCTTTAGAATCGAGAGGAAGAGGCTCCAGTGAGTTATGAAGACAGCATTTTCTTGAAGATCGGAAGAGCA + <=DBGGGGGFDHHHHHHHHFCGHHHHHEEFHHHHFDDEE@HHHHHHHHHHHHHHHE/36GHFBHEHEEFHFFFDADAEDED.EBGHEFEHEFHHFFHHHH @read_150_206/2 TCAAGAAAATGCTGTCTTCATAACTCACTGGAGCCTCTTCCTCTCGATTCTAAAGGCTACTCCCAGTGTTCTAAAACTACACAGATAGATCGGAAGAGCG + E8B<<74DD=EC663?GGGFHHHHFGFFHHHHHBEEHEFBFHFFHHF5EEEGHHHHFGB=GGHFGFFB8DB@HHHEFHFEEFHA@EGHHHFACBFFE-80 @read_150_207/1 AGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + GGFHHHHEHGHHHHHHFEEHHHHHECHHHHHGGFFHHHHHHHHHHDCDFHD?AAD673ADDFHHDFFFFFHHHHHHHHHHFDDBGD>CDCDCHEGHHHHF @read_150_207/2 AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHFFHHFDDHHHHBDDEFHHHHHHHHHHHEFFAD8=FHHHHEHHHHHGHHHHHHGGGGHHGGGHHGGGGHGEEDEHHHHHGDFBDHCDHHHFB>BHHF?B @read_150_208/1 TAAGCATCTTAAAAGAGAGCAATATTTTAAGAATAAAATATGTTATTTTTAATCATTAGCCATTGTTAACTGCGATGTAATGCAGTTTTGTCAGCCAGGC + HHHHHHHHHGFHHHHHHHHFFGFFHHHHHHHDCBGFHHHFHHHHHHFHHHHHE<+A@FEFBDDFFHHHFHEBDFHHFEDHHHHFFDFHHHFEEHHFGFD? @read_150_208/2 CTCATTTTTACTCATTTTGATTCTTGTTTTCTGTAGATGAGACTTTCACTGTTCAGCCTTGCTTTACTGTGCCTGGCTGACAAAACTGCATTACATCGCA + HFHHHHHGEGHHHHHHHHHHHHHHHHFHHFFFGHFHHHHH1'''+6EEHHGGGIFHHHHEGGF@8666,DHHHFFDGGGFFA@EGHHFFGGHHHEHHHFF @read_150_209/1 GCTTGGGCTCAGAGGCCTGACACCAGGGAAGGCTTCTGATTGATCCAGCTTGAGTCTAGACTCAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACC + HHHHHHHHHHHHHHEGGGEHHFFFFHHHHHHGEEFHHHHHHHGHHHHHHFF=5D@>?DFHHHHFFHHHHHGGHHHHHHDGFFHECFDEFGHHHFFHHGHG @read_150_209/2 TTGAGTCTAGACTCAAGCTGGATCAATCAGAAGCCTTCCCTGGTGTCAGGCCTCTGAGCCCAAGCAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAG + HHHHHHHFHHHGHHHHHEGBBGHHFEHHHGHHED83@>DFHHHFHD>)1CEGBBBGBEEGDFGGHHHHHHGHHHHHGHGHHHHHHCDBEGGGDEGHHHHH @read_150_210/1 ACAGTCAAGTCCATGGGACTTTTTTTAATAGCAACTCAGTAAATTTATTGACTTATTTTAAGACTGTAACAATAGAATTGTTTTCATTTTAGCACTTAGT + HHHHHHHHGGDFBFEHHGHHFGGGFGGGGHGGEEDD/EBFEHHHHHHHHHFB?DDFGFHEEHHFGHHE@E3)'9?GGEEDFHHHHHHGG@G=DDE5BBGG @read_150_210/2 TAAATGGATAAATAACAGTAGAGTGTTTACAACAGTAACTGGTACAGGGCTTGTTCAATAATCATTAACTGACATCATGTATGCTAATTAAGTTACATAG + GEFEGDB,2,*0EBEEE;6EFFEHHHHHHHHDGHHHHHHHGFGDBDA9<'<>DFGHDABFFHHHHABBHHHHEB?@43+AEFGG>9729+.7;.EIHHHHFHHHHHHHHHACDCEFFHHHEE@BFHHHHEFHHHGGH?@@BHHHHFECCABHHHHH @read_150_211/2 TTAAAACAGAAAGAAAAAATTGTCAACCAAAAATTCTATACTTATGAAAACCATAATTCAAAAAGTTCAAGAGGAACTCTAACTTCCCAGATAAACAAAA + HHHHHHD?=97DHHHHHHHHHHHGFHHHHHHEGHHHHHGFDADFHFFHEDCDGGFHHHEHFDCHHHHHHHDEFFBCCHHFDHHHHHHHHHHHHCFCA8DB @read_150_212/1 GTCTAAGACACAGACACTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAA + HHHHHHHHHHHHGGHHHHDFHHHHHGFFHGGA<6?GDDAFBGFHEHHFHEADCBHHFFFHFEEHHGHEGGFHFEEFFG@GHHGHGHHHDFHHHFHHHF@F @read_150_212/2 GAGTGTCTGTGTCTTAGACAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHHHECCBEHHHHHHHHHEHHHHHGFGGEGGFFHHHHHHHHHHHHHHHHHFGGEGFF@=BEEEEHFEGIGGBFFC55+CFFGGFFBFEEEFEAD @read_150_213/1 TATGGAAAGCTTCAGGCTCTCAGAATTTGCAGCAGCAGTTCCAACTTGCAGATGGCAATAATTTTAGTAACTGCTGCCACCACTTGGCCCCAGACAATCA + HHDGHHHHHHHHHHHHHHHHHE@<=BE@@>FGC54@DHHHHHHDAA:??9EHFD;7AF-C??+9A><<.A?7>*)12-EEEHFHHF;@6,EGGGDDD=?EGEECCEGHHHEGE@FHHDEFGFGGFEE@53,2<9AB=@;@ @read_150_214/1 TTTTTAATTCTCCAAAGGTAGGCATGCTTCATAAATCCAAGTAAGTGATCACATGCCCTCCTGTTCCCGGCCCCAGAAGCAGCCTAGAAAGCTTATTTGG + HHHHHHHHHHHHHHHGHHHHE@>>BE=DDDEHHHHHHHGGGFCEHFHHF<86CHFHHHFDBCBEHEHHHHHDDADGGBGGBEABDBDFHHHHHGE@C>DF @read_150_214/2 CTTGAGAAATGTGTTTCCTTTGTTCATCTGAGGAAATCTAAACTCTATTCCAAATAAGCTTTCTAGGCTGCTTCTGGGGCCGGGAACAGGAGGGCATGTG + HHHHHEGEEGGHHHHHHHHHGDB?GEHHFBFFFGEFGFHHHEFHHHHHHHFBCCEDEEG=EBGGGHHHGGHFCDDHHHHH?..AA@=E53)3*;<)/*6' @read_150_215/1 TGATACAGTCTCATATAATTTCCACAATAGTTCCATGGGACAGATTAAATTATTAGCCCAGCCAATGGATGGGAAGGGCAAGTAGGATTTTATTTGCCAA + HHHHDFBEGGHHHHHHHGHGHHHHHHHGHGFHGA5ACE @read_150_215/2 TGCAATATTATTCATAATAGCCAATATATGGAATCAACCCACCATCTCCTAGCTATGTGTTCTTGGCAAATAAAATCCTACTTGCCCTTCCCATCCATTG + HHHHHHHHHHHFDEEHHFEEGBBFGEEB@<2/C>?AFEGHGBC:2'..;2CCGHHHHHHHHHHHFGHHHHE@AHDDB.,;C;77/0-,@BFHFE?A=?>= @read_150_216/1 CATAGGTACATACCATCATGCCTGGCTATATTTATTTTATTTTATTAAATTTATTTTTTTTATTTTTGTAGAGAGGAGGTCTTGCTGTGTTGCCCAGGCT + HHHHHHHHE@:CHHHHHHHGHHHHHHHFGHHHHFFFBDFEHHHHHHDHEEEHHHHGGDGHFGD>@HHHHDFC9*>,(, @read_150_217/2 CTTTTGAATGAATATTACAATTGATCCTTATTTAGGTCATTTCTCTTAAGCATACTACATCAGCAATGTTAAAAAGTGCCCAGAAATCAAAATTACCAAA + GG?.;GEHHHHGGEHHHGHHHHHHHF.>=FFGHHHDDEGHHHFF>FHHC?<<>>>;7;CHEEDDD=DBEFBFGHC@BHHEGHHHHHHHHGHHFDE@AGBF @read_150_218/1 CAAGATTTTTGTCTACTTTGTTAACTGATGTAGCCCCAGAGTCACAGTAGACACTAGAAAAATAATCATTAAATGAAGGGAAAAAAACTCAGTGGTTTAC + CDEECBFFFGHHHHHHHGGDEGHHHGGGHGE?86ADEEEHHHHHCGEB@HHEGHGFHHGDD;;@GE?;<)/-8*11 @read_150_218/2 TGAGAAGGCCATGGAGCAGGGATGCCTCCAATCCTTGAAAGGCATGTGACATGAGTAGGGAAAATATTTGCTATTGTAAACCACGGAGTTTTTTTCCCTT + HHHHHHHHFFEGFHFHHHHHFDEBHE:2<38:GGHHHHHHEGGFHFFHHHHHHHHHHHHHHHHGHFFFBEFHHHFHGG6?G?>D%7;@DFFGEED<,5F;=D6--B?EADADBC<<FGGFEFGGHHHHHBEEGGHHFBHHHHHFFDFFHHEF9*.@@GDFEFFFCFEE;82 @read_150_221/1 AAAACCGTTTCCAACGAAGGCCTCTAAGTGGTCAAATTATGCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTT + GGHHHHHHHFEHHHHHHHHGGFGGHHHHGFBCFGGHHHHHHHHHHHHHHHHHFDFDBCEFHHHHH@CHHHEHHFBFFE8GBFHHHHHF<<;+*4+)1;;H @read_150_221/2 TGCATAATTTGACCACTTAGAGGCCTTCGTTGGAAACGGTTTTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCAT + GGGGGHHHHHHHGGGGFHHHHHHHGHHHHHHHHHFHHHHHHHGFFFHHHHGGFHHGFE@:;3<:=E=EEEHHHHHDDHHHHFHBE=<<<>FHHGHGGDGE=EGECEHHHHHHHHEEHHBBEEEHF9';EEA41566.;82>>=DEFD @read_150_223/1 GGGGAGAATCTCTGAGTTTAAGCCATATGGTATTCTGGAAGTAAGGGGTTCTGATTAATATGGGCATGTGAAAAGGGCTCTGTATCTGGGTCATCATAAA + HHHHGHHHHHHHHFGHHHHHHHHHHHHHHHEGGHHGGGEEFHDCHGHHHHECB;?CEFGGGGHFE6<6,2?@8-ADDBDEE8GGFGHHHHFF<7,,958? @read_150_223/2 TGCATATTTTGACATGTGCCCCTCAATACACACACACAAGACACTCTGATTCTCACTAATCATATTTCTGGGGTTTTTTTCTGACATGAACACACAGATT + HHHHHFFIBHGGFFHHHHHHHHHHCGEHHHHHGGGGGHFGEEF?EHFFBAFFDCBD=-+9:34EF?GGHHHHHHHHHHFGHEB363+>A<>>@=>FFHHH;?HBGDGHFHE;'/07. @read_150_224/2 CCAATTATGTAGCAGATCCTTCCCTACTTCTGCACACTCAAGTTTTTTGTATTTCTACAATTACTATATTTTTAGGTTGTTTGTAATCTAGTAATGCTCA + A@=ADHHHHHHHHFEEEEEHHHHHHHHHGE>@@.>CFB>FEIEHHHHFFFEFEEEEEE=;:<<@HHH>=.ADEHHHEGGFHHHE<;<127(=DEBFEE/; @read_150_225/1 CTAAAGGTAATAAGAGCCATCTATGACAAATCCACAGCCAACATTATACTGAACACAGAAATGTTGAAAGCATTACCCTTGAGAGATCGGAAGAGCACAC + HHHHHHHHHHHHHHHHHDFHHHHHHHGGEFFE5?BEHHHHHHHHHHHFHFHHFDDFFHF>GFHHF@DHFH?EFFFE9ECFHHHHHHHBHHF9*,>CHFGC @read_150_225/2 CTCAAGGGTAATGCTTTCAACATTTCTGTGTTCAGTATAATGTTGGCTGTGGATTTGTCATAGATGGCTCTTATTACCTTTAGAGATCGGAAGAGCGTCG + HHG=CCFHHGFHHHHHHHHHHHHHHFFFFBGBGHHHHHFHHHHHHHHHFHHHHHHHHHFHHHFHHHHHHGGHHHEFHHHEGHHHHGE,>;DHHHHFB1=> @read_150_226/1 CCTGAGAGTGGGAGGGAAACTACCGTCATTCTGCTCATGTTTCTTCTTGACCTCTTGCATAATCTTTTTGTTTTCTAGACAGTTCACTAATTGTTGAATT + HHHHHHHHH<=DDFHHHDE?DFDGEDHHHHEDDBBHH:DCFFFHHEFFGDGGHHHHHHHHHFHHDC9@BED??:CFEEEFEEHFDDFFFCC@CFIGFFGH @read_150_226/2 TATACAGTAAAATTCAACAATTAGTGAACTGTCTAGAAAACAAAAAGATTATGCAAGAGGTCAAGAAGAAACATGAGCAGAATGACGGTAGTTTCCCTCC + HHHHHHHHHHB74BBHDGGFFGEEHHHHHHHHHHFHHDEEGE=FHE?FFFHGGGGHHHHHHHHHEGG@GFHHBE;68; @read_150_227/2 ATATAAAGTGACAGATGAACATATATTTTTCCTCTCAGATGGAAACATAAATGGTTCTGAAGACTCAAAGGCCTATTTTGCTTCCAGGGACATAAATTTC + @DHHHHHHHHHFHHHHHEB7435F@@EEFHF>;>BHGGGG666::166568EEB@DE8@DGFHFFEFFHHFCABEGHHHFE8BHHHHHHHGHGEDB;>A? @read_150_228/1 AAACGGGAGTTCCTCTGCACATGCGCTCTTGCCTGCTGCCATGTAAGATGTGTCTTGCTTCTCCTTCACCTTCTGCTATGATTGTGAGGCCTCCTCAGCC + GGGFFFGGHHEEHFGGGFFBHHHHHHHFHFGFGHHHHHHHHGHHHHHHFFGHEHHFCCF=>7,5>;4DDEHHFCDDDFFHEHGFGGHHHGHA5.*.(-(A @read_150_228/2 CAGGGTAATTTATAAAGAAAAAGAGGTTTAATGGACTCACAGTTCCATGTGGCTGGGGAGGCCTCACAATCATAGCAGAAGGTGAAGGAGAAGCAAGACA + HHHFFG;CBDHHGEGHHHHHHHHHHHGEBEGFGG?HFFBGHHHFFGD?EEGGHHHHHHBHHHHHHHHHHHEGD:>@BBA@AEHHHEAEEEHHHHEDCDBE @read_150_229/1 AACTTATGGTAGTTATTTTATTTTTTTGAGACAGGGTCTTCCTCTGTTGCCCAGGCCGGAGTATACTGGTAGGGTCATAGTTCGCTGCAGCTTTATCTCC + GHHHHHHHHHHHHHHHHEFHGGHHF=GGEEHHFGHHHHGHHCEHHEBEFHHHHHG5*;AB479>FFHHHDA;3DDGHHHHHHHHEHDEGHHHHFHHHH?F @read_150_229/2 AAGAATTGCCTGAGACAGGGAGATAAAGCTGCAGCGAACTATGACCCTACCAGTATACTCCAGCCTGGGCAACAGAGGAAGACCCTGTCTCAAAAAAATA + HHHHHHHHHHFFFHHHHHHHCF8?EEGFDDGHHFFHHHHHHGGEFHHHHHFHHHFGHDB=1,8FHHHEEEB?DDDFGDBFHGDDC&&45BEFFDD @read_150_230/1 CAAGAATGGAAACAAGGCCAGAGGATTGAAGTAGCCTGGTGTGTAACAAAGTGATCCTTGAGTTAAGGTCAGTTTCTTGGGAAGACTTGGAGGCTTAAGA + HHHHGEEEFHHHGGHHHHHHGHFGGHHHEBGGGGHHHHHHGHHGCEHHHFFCF<>ADFHFHGGF;FFG?BEEEFGHHHHHHFFFE @read_150_230/2 TGTTTGCATCTTCCCAAGACAGAGTTTTCCCTGTGACCACTTGTGCCTACGGATGAGTCTTAAGCCTCCAAGTCTTCCCAAGAAACTGACCTTAACTCAA + BHHFGHHHHHHHHHHHHCA:DCEHHHHHHHHGGHHHFDGEHHGIEFFHHHDDEHHHHHHHHHHED?DD=FGE>CE;<2:0--;5.<>CGGHH@B/<((7A @read_150_231/1 ATTACCCTATGAGAGAACGAGTAAAAAATATGCATGATGGATAGGGTTCAATTAACTATAGCAACAGACAGAGTTCCTAGTATGAATCAAGATGTTCTAA + GGHHHHHHFHHHHHHHHHHHHHHHFHHHHHHFHGGGGHHEHGHHFGGFFHHHFHFDFHHFHHHHHHHEFEFHHHHHHHHHFHHHHHGGGHEC=DDDHF?B @read_150_231/2 ACCTATGTGTGTTCATAGGCCTAAGGGTAGGAAGTGTGTTTGTTTCCTACTCTTAGAACATCTTGATTCATACTAGGAACTCTGTCTGTTGCTATAGTTA + G@@EHFFHHHHHHHHHGGFFHHHHHHHEFFHCHHHHHHHHHHHHHHHHFFFFHHHGFFFHFFEGGFFG5.*<-84F=EEGHFHHHHHFHFFEEGGEFFDD @read_150_232/1 AGTAGCTGAGACTATAGGTGCTTGCCACTATGCCCAGCTAATTTTTGTATTTTTAGTAGAGGCCAGGTTTCACCATGTTGGCCAGAGATCGGAAGAGCAC + HHHHHHHHHHHHHGGGGDGD@AD>;2.5@>EBGGHHEFBGCBBGH@CEEHEHDFEEEECEDFHFHFHHHHEB7:FGGDDDD8E6<><<:>GGB:;@BFHHHHHFFCFFHHGBGGIFBBFFCG; @read_150_233/1 TTTGTGTTTTTTGTTTACTTTTGTGGTAGGAACACTTACCAAGAGATGTCCTCTCTCATTTTTTTTTTTTTTTTTTTTTTTGAGACAGGATCTAACTCTG + EDA?BBFGGGF3DFG=30)),6EHHHH?4GHFCEFFFGBCCGEFGHHHH@5--,G?GHHGHF.8-2>D:7:<:<>CFBFBH8-7=<< @read_150_235/1 TGGCCAGCAGGATATTCAGGAGTGTCCAGAATAGAGTTTGCTAATCAGTGGCTTGTGGACCTAATATGGCTTGAGTACCTAATTTTTTTTGACAGCACGT + HHHHHHHHGGHHHHHHHGHGHHHHHGFBHGGFFGHHFFCD9>@BBFFHHHFFGHHHEHHDHHHEGGA;?ACCHFFGDFEHEHHHGHFFGG@C:FFEEFFH @read_150_235/2 TGAGTCGGTAATTGTTGAAGCTAGGTATTAGATAATGGGGATATTAATACTATACTGTGTAAATATGTATACGTTTTAAAATTTCCACAAAACTTTTAAA + HHHHHHHHGEGEHGG=FHHHHHHHHHHGFHHHHHHHGHGFHHFF@57>=CCB@=FHHHHHEGHFFHHFF3EHHHGHHHDBE><>?FFHFGHHFEEHHE@F @read_150_236/1 TCAGTCGAGTTAACTTCAATGAGTGTTTCTCAGTGTTGCACTAGGTGCTATAAGAAACATAGAGAAGTACAATAACATCTCAGCTCTCCAAAGATCGGAA + GHHHGGGGGGCGGDEGGGHHHHHHHHG@DHHDBGFHHHFFHHFF?314?AC>.8F@@BEEGGFGHHFDGEHHHFHHHHHGGDE7@7FGEB44228B?FF @read_150_237/2 CTGGCCTTGATTTTTAGTTGAGATGGGGTCTCTCTATGTTGCCCAGACTGGTCTCCAACTCCTGGGCTCAAGAGATCCTCCTGCCTAGGCCTCCCAAAGT + HHHGDFFHHHHHHHHHHHHHFHHCCHHHHEHBG.;DHE===>>5BGE>?;DEEFHDBABEGBBGEHHHHHGFB=3DAB>==<.:4C8F5BGGGGFDC59, @read_150_238/1 CGTTGCTCCAGCTGAACTGCTCTATGCTGAAGCCCTGCAGGTCTCAAGTGTTTGGTTCAGAGTAATTTCAGGCCATATGAATGCTTTCTTAAGTATCATT + >>CC@BEEFCCEDGGGFFHEDHGEGBBFHHHHGFGFGGGFHHHHHFFFHHC:;?A:=@@ED:ACCEFBBHHHHHFHHHGGGBFEHHHHHHHH?@HHHHEE @read_150_238/2 CTAAATATGGTAATAGCTGGCAGACAGCCAGCCCAGTAAATTCCAATGATACTTAAGAAAGCATTCATATGGCCTGAAATTACTCTGAACCAAACACTTG + GFFHFFHE=87;GGA8E8:=83EHHCHHHB@GGGGEHHHHHHHHFGGFF?GHHHHHHHHGCEEG@8.?FA@HHG=CAEEFFFHGHHHFC>FE=GGBCDHA @read_150_239/1 TGCACTCCCACCTGGAGGACAGAATAAGACCGTGTCTCAAAAAAAAATTAGGCAAACAAATTCACTAATAATTGCCATGTGATCAGTTGAAAAATCCAAA + HHHHHHFHHHHHEDGFCFHGGGDECHHHHGHHGBGFHHHHHF=DEFFE:AD4D>7D6< @read_150_239/2 GTTCAACATGCCAAAATTCTCATGCTTTCTTTTTTTGGATTTTTCAACTGATCACATGGCAATTATTAGTGAATTTGTTTGCCTAATTTTTTTTTGAGAC + HFD?GHHHHHHHHHHHHHHHHGHHHHFHHGE/2HFDAEED869EEHHFFGFGDD=DC@G=:GHHHHGFHHHEBFFFHHHAGHHHHHHHHHHGGGHHHHHHHHGDDFHHGHHHHHHFF<>+17<HHFH@BC@<=AEBCHHHHHH @read_150_241/1 TATTATCCCTTATATGACATTCTGAACAAAAGGCAAAACTATGACAGAAAACAGATCAGCAGTTGCCAGGGGCTGAGGCTCAGGACTGATTACAAAAACG + GGHHHHHHHHGHHHHHHHHHHGGGHHGBGG@BFFEHHHHHHHHHEDBHHFHHHHHHHBECEFEFHBFEDF>BEECGGGHHFGGFGEEEFEHHFHHHHHHH @read_150_241/2 CATCTACCACAATCAAGACATAGAATAGTTCCGTTACTCTAAAAAATTCCCTTATACGTTTTTGTAATCAGTCCTGAGCCTCAGCCCCTGGCAACTGCTG + ..*65;EEFFHHHFHHFFDGBEFDHHHHHEHEGHHHHHHHFFHHEEDFHHHH@EDFGDBCHHHGHHFGDHHHHHG@EEEEGEHA=><;CDHF7).8?-7; @read_150_242/1 TAGTCTTAAAACCTTGCAGTTTTGTGGGGTTTTTTTTTTGTTTGTTTTGCTTTACTCTGTCATTTACTTGCAACATGCTGCCTATTATCAAGTTGTGATG + HHHHHHHHHHHHHHHHHGEEHHHHHHHHHHHHHHHGBDCC/BHHHHHHHHFHEBHHHHHFDEGGHHHFEHBBFHFHHEBBA9&+DFFFHHHHHFD+1)3< @read_150_242/2 AGTGATATTTAGGAAAAATAAACATCACAACTTGATAATAGGCAGCATGTTGCAAGTAAATGACAGAGTAAAGCAAAACAAACAAAAAAAAAACCCCACA + HHHHHHHHGGHHHHHHHFFHHFHHHFGGHHG?GGHGGFDHHHBD=GFC>?@A7*43-->GHHHHGHHHHCB-*6BHHHHHHG:;EDFGFHHHBEBEFHHD @read_150_243/1 CTAGCATAGGGGTCAGGACTTTGGGTTCAGTAGTCCAGATGTGTGTTTGAGCTCTTGTCTCCTCCACATGACTGTAGCAAATCACTTAACCTCTTCAAAT + HHHFHHHHHHHHHHHHHHHEHHEGGHHHHHFHHHHHHHHHHFHHHHHHHHHHFEGHEAGEEB7>DH?DHB@ADBEEEE?DHHGE.E=B/955;=F9.>EFCH?9;EFFFACCADD@>@GFGHHHHHBC>>DD:A>?@GE?A@D4A?CDEFFHEFFGEEDBCBBD;=EEGFE<;BGHHE6C8;01,60A9EFHHFEFEEEHG6;D?B>=5CCEF?GEEFDD?7>7FBE?G..* @read_150_249/1 CTGGCCTATTGATCTTAACCATGTGGAGACCGTAGGACCCACTGTGGGCTTAGAGTCCCATTCCAGCCCAAGTGAGACCCATCTAGGAAATGGATGTTGA + GGGHFFHHHHHHHHHGGHHHHHHHHFE@D=350*>HHHHHHHHHC<@BEFFFHHHHHHHHEFEDEHHHFFGEECEG>>;2>,15ABB>?06):BBAFE>,,,+)*? @read_150_250/1 TCAGAAAACTGAAACTGAACCCCTTCCTTACAACTTACACAAAAATTAACTCAAGATGGATTAAAGACTTAAATGTAAAACCCCAAACCATAAAAACTCT + @EGFHHHHHHHHHHHHHHHHHGGHFEEHHDHHHFHHDBA@DHFB9BE@CDEHHHHHHHHHADDDHHHHHHHFFF=FCD>@89+3)/*:BHHHEFFDFGHH @read_150_250/2 TTTTGCCATTTTTGTCATGAAGTCTTTGCCCATGCCTATGTTCTGAATGGTAATGCCTAGGTTTTCTTCTAGAGTTTTTATGGTTTGGGGTTTTCCATTT + HHHHHHHHHHHHGHHHHHHHHD.DA8CCEHHHHGGE@@BHHFB=FBFFFHDDC@=C=65()9<5AGHHHHHHFHHHHHHHHHHHHHEEEFHHHF(@;4:3 @read_150_251/1 TGGTCTCGAACTCCTGACCTCAGGTGATCCACTCACCTCAGCCTCCCAAAGTGATGAGATTACAGCCGTGAGCCACTGAGCCCAGCCAAGTTGTAAATAT + FFFHHHHHHHHHEEFGGGGGGHHHHHHHFEHHC?@EDGHHFEHEFHFHBFFBHHFBDFHHF:5.7>,48CGHHHHHBFFHHHB9;:=A=:AE<5'-)-,>+ @read_150_252/1 AGGTACTGAATTTAGTTGCATGTGTTTTAGTGTCCTGTTATCTGGAACGTGTCTACAACTCGTCTTTGTCTTTTACAGCATTGACATTTTTCTAAGATTG + HHHEBEEBFBGHHHHF6FGHHGEEE@HHHBEEDCAEGGHHHHHHEDHEGCEFFFEFCFFHHFFHHFFGED?0)15:5AHGCCBEBB@ED;GHHHHHHHHHGFHGBGFGFFG=@&'+CGHHHHFHEE@* @read_150_253/1 TGTTAACTACATGGCCACTGTAGGCATTTGAGTTGATACTACCTGGTATACCCTTGCTGAGTCTTGTCTGCTCATCCATAAAATGGAGACATTAAAAATT + HHGGEFGGFFFHHHHHHGHHAHHGHHHHHFHHHHHGHEFHHHEHHEEAHHHHHHHHFHHHHHHEFHEEBBGHHFFHBGGHHH?B;;<(&-1+;CHHF?FE @read_150_253/2 CTTGAGCCCTGGAGGTCAAGGCTGTAGTGAGCCATGATTGTGCCTGCCTCTGCACTCCAGCCTGGGCAACAGAGTGAAACTTTATCTCAAAAAAAAAAAA + HHHHHHHHHHHHGGGHHHHHHHHHHHHHFGFEBGDFHHHHHHHHHFGGGGGGGAEHHHHCBGGBBEGGHHCD@E/<@<@AHHE>>CDHHHHHHHFD9DGA>CGGFFHFBCFFG=< @read_150_255/1 CTGACCCTTGCTGAACTGGGGTCCCTTTGTGAGTGTCTCAGTCTAGAGGTACCTCCCTCCCTGGGGGGTCTCAGCTCCTGGAGTCGCAGGCCCTTGGGGC + HHHHHHHHHFDFGFGHHHEFGFBDCFGGEHHHHHHGDEEBD334FEHFE?4:,>>>?AEEGB9F>894??HHFGHHFH @read_150_255/2 GACATTGGAAGGTTAGATGAGACTGAACAGGTGAGAAAACTCTTAGGGTCCCCAGACAGCATTGAGATCTCACAGAGGGGCCCCAAGGGCGTGCGACCCC + EHHHHHHHHHHHHHHHFFHHHHHHHGHGAFGDCEHEBEHHHHHHHHGIGFHHHHFHHGGFGHHHHHHHHHHHHHHHHGGCE8:<>=FHFHHHHHHFGGHHFHHHHFEGGHHH @read_150_256/2 GTAAAACAGACCTGACCAATTTTAGGGTTTTAATCCTTCAAATAAACTAATGTCCATGAAAACAGATGCAAAGTGTTTAAGCTAGCCTCATGATGAAGAA + GHCD@@=C:>>D?EGHHHHHHHEEEFFHE?HHGFFHHHHHEDDHHHHEFFHFGGHHHHGHHGGEGFCC@;C<7<&(3;??EE@B@CFECDADH07A4008 @read_150_257/1 GCTCCTGAAGGAAGCACTAAACATGGAAAGGAACAACAGTACCAGCCACTACAAAAACATGCCAAATTGTAAAGATCATTGATGCTATGAAGAAACTGCA + HHHHHHHHHHHHHHEGGFFEHHHGFHHHHHGFCA,1-(:<6:CFCFE6;>)5A3:@EFEHFGFFHHFD8:,639@:++6CBB66?EGGFFHFC=FBFHHHHGHHEEDF<6& @read_150_259/1 TTTTGTGGACATATATGTTTTTCATTTCTCCACGATAAATATATTTAGGAGTGGAATTGTCTAATCAGAGGTATGTTTAACTCAGATCGGAAGAGCACAC + DDDHHHHGBDFHHHFHG>ADEHHGHGGGG?3;8ADDAC>GFHGDHE@<:/DGGGAEGFHHHHHCFFFHHHHCEF@DHHHHHHHGGHFFDDB1.:5>A=B? @read_150_259/2 GAGTTAAACATACCTCTGATTAGACAATTCCTCTCCTAAATATATTTATCGTGGAGAAATGAAAAACATATATGTCCACAAAAAGATCGGAAGAGCGTCG + G7;<;G:FGHHHHHHHHHHEHF8,:<972/22589EEHE;DCDHHGHHGGHHHHHHF:8=I@@><6<:9BFHHHHGGGFHHBGGFHHHHHGHFDAC-5&( @read_150_260/1 GTCAATAAGGGTGCCACTGGCAAATTCGTCATTTAGGATGCTGTATTTTTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTAT + HHHHHEEHHHHHHHHHHHHHHHHHHHHHHHEEEGGHHHHHHHHHHHHHHBH@EBB1AFHHEFF>CFHHHFGBHBEHHHHHHGGGHGHGFGHHFEFHHDHH @read_150_260/2 GAAAAATACAGCATCCTAAATGACGAATTTGCCAGTGGCACCCTTATTGACAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGC + DEE89;<=>ACCBB/7BBHHDDE5@GEDHHHECCEDFCDAGFFHFCGHHFGIBDBGHHBDFHHHHHHHHH?.FIDA41<6??A=?2<57?DA8<9DEGD@ @read_150_261/1 TTTCTGAGACTGTGCGTGGATTTAATACGTCACATTTCGATGATTTGAGGGAGATGGTGATGGGTTGGGGAACTGAGGAAAGATCGGAAGAGCACACGTC + D?DDGHHHHGHHGEGGFHHHHFHHFHFAC=HHHHHHHHHHHHFDGB<38+4A @read_150_262/1 TAGGTTTTTAAGAATTGTCTAGTTGTTACAGTGAGTATGATTATTGAAATGTGATCTGCTTACCACAGAAGAAATATTTAGAATTGTGGCACTGTTTCAA + HHHHHHHHHEGHHHHHHHHHHHGHHHFHBGB@EDDFHHHHHHHEDHFCF3??FFFHHHEHHHHHFHFEFFBHFHEHHHFDEBFHHHACB8GFC5CDDF @read_150_263/1 CAAAACTGGCAGCATAGGTTTCAACCAAACATCGTAATGCAAGATCTGCAAACACAATTATGTGGCCCCCCCAAACCACATCATCTTTAAAAATAAATAC + HHHHHHHHHFFFEEEF?+97GHHEHHGDD>FEEEDCE?DFEHHHHHHGFEDGGEHHHHHHBGFHHHH@<@==9+)8>>?5?CGGHGFHHHGGGDDFHHHH @read_150_263/2 AAATCATTAAAGAAATTGAGAAGATAGAAGAGCAAATTTGAATGAAGTTGATAATTCATGATAGTATTCTTACAAATATAAAGCTGAGTAGGTTTTTGCT + HHHHHHHHHHHHHHHFHHHHHHHHHHHHEEHHHHBFHFHHHHHFFE/BGBDE:@@EGFFHH??=C;3-5BFBGGHBFHHHGEDEEG?@=8@FDDDDBC>= @read_150_264/1 TTCTTTTCTTTTTTTTTTTTGAGACGGAGTTTTGCTCTGTTGCCCAGGCTGGAGTGCAGTGGCGCAATCTCGGCTCACTGCAAGCTCCGCCTCCCGCGTT + F6939DFFGEGHHHEF?=CB@@F@AHHHHGGHHCDHHHDHHHHHHFFHHHEEG><9E9=07FFGFFHFGEAE@CCEHHFEGCEHHGGGBB;>5;BGFHFE @read_150_264/2 AATACAAAAAATTAGCCGGGCGTGGTGGCGGGCACCTGTAGTCCCAGCTACTCCGGAGGCTGAGGCAGGAGAATGGCCTGAACGCGGGAGGCGGAGCTTG + DCEFFGHHHGHHHHFHG:5@C=<.BB?FHGGC=DFHHHHHHHFHEHDCABEEEBB3CFFEGBBHHHHFGGHHCFEHHHHF@EEC@%25:12>11/9645' @read_150_265/1 AGGCTTGGGCCTTCTCACTCCTTCACCATCTCTTGTGCTGGAATACAGAATTTTGTTCATTATTACTATTATTTTATAGACATGGGGTCTTGTTCTGCTG + HHGHHHGHCDHHHGAAA?GHHHHHHHHHHHHHHHBEFFC?CEFDEEHHHGHHEHHD5:BEEHHBBHHHHFHH?AF@EFGG@=>4=FHEBDEEEDGBGHG6 @read_150_265/2 AGGAGTTCATAGTTACAGCGAGCTATGATTGCACTTCTGCATTCCAGCCTGGGCAGCAGAACAAGACCCCATGTCTATAAAATAATGGTAATAATGAACA + HHHDHB5EFGGFBDDDD>9FHHHFHHHHFHHHE4;?GHHGHFFGH6AAEBEEGGEEFHFFHHHHHHHGGHHHHFHHFHEEDCF@@='.8/1/%,4>;?DD @read_150_266/1 CCTCCATTTTCTCATCTGTAAATCAAGATAATAGTATTATACTTTCAAGAGCTATTGTGAGCACAAAATGAGTTAATATGAGGATTACATGTATACATAA + D8EEHHHHHHHHHHHHHHHHHHHHEHHFFGHHHGHHHHHHHHHHHHHHHHHHFDDC>HHHHHHDDEFFBEEBHFFGFHHFFFHHHHHHHFGFHHGHHH@B @read_150_266/2 GTATATTGTATGTATATATGTATGTAGGTATGTATTTTTCATAAACATTTATTATATATTTATTATGTATACATGTAATCCTCATATTAACTCATTTTGT + @EBFGGG8=2@BHHHHHHHHHHHEEHHHHHHHHHHHFFFHHHED/GGG.:BCDEDGFB;HHEEGHDHHHHHHHFHHEEEFEGEG@<:6EFFHHHFDBGDB @read_150_267/1 ACTATTGATGGTGGACAAGAATGTTTTCTTGTCAAGAACATACGATTTAGAATGAAAAGATGAGGGTTTGACTTTTATAGCATTGAACAGGTTAACCTCT + GDC>>FGGGEEFFEGBEHHGGGGGHGDDHHHHHCHHFHGGGEFB?@A=??AEHHHFFFEHHHEDFDCBDEHHHHHHA<5>47;@EHHCE @read_150_267/2 CAACTGAAACCATTTAAAAATGTATAAAACTGAAGCTCAGAGGTTAACCTGTTCAATGCTATAAAAGTCAAACCCTCATCTTTTCATTCTAAAACGTATG + HHEEGHHDCCFHHHHHHHHHGHHFGHHHHHFHHHHGHC?>E4?:38GBC@HHHHHHHHHHHHHHHHHHHHHHHHFHHHHHGD@F/<99.BF@<+/7AFFF @read_150_268/1 GTGCAGAGTCTAAGACAAATAGGGAGGATCAATGACCCTTGGAAGTTCCTTCTAACAAGACAGTAAATATGGTCAAACAGTAGAGCGAAAGAGCAAACCT + HFFEGFHGHHHHHHHGHHHEHDEF<(9>@CFEHHCEDEDBBCFB5BED;*DBBED>6774),%'7 @read_150_268/2 ACTGTTTGACCATATTTACTGTCTTGTTAGAAGGAACTTCCAAGGGGCATTGATCCTCCCTATTTGTCTTAGACTCTGCACAGATCGGAAGAGCGTCGTG + FHHHHHHHHGF8FD>=DGFEBGFBI<@ADA?FFHHHHHHDCB@C,6::==408E@CEBEFGHHHHFAFFEGHHCHHHHBCFHHHHH @read_150_269/1 CTCACTGCAACCTCCAGACATGTGTCTGTTCGTGTCGTTTGCCCACTTTCTAATGGAGTCATGTTTTACTTGTTGATTTGAGTTCCTTATAGATGCTGGA + HHHHHHHHHHHHHHHHHHHHHHHHHGHFBFBED9AEEHHHE;@ABFBADACHGF502DBDD@@EFFHHFDHFFHHHHHHHFGGHHBBEEEHHHHHHHHHG @read_150_269/2 AATATCTGCAAACTAAGCATCTGACAAAGGTCTAATATCCAGCATCTATAAGGAACTCAAATCAACAAGTAAAACATGACTCCATTAGAAAGTGGGCAAA + HHHHHHHHHHHFHHB@GBCHHHHHHHHFFBHHHHHHHBGHG>;DE<5;B>DGHFFFFBDDGGFFEBEE??BIHH?DEGF?EEEHHHHD(.AD?AC>BEGG @read_150_270/1 CACACTCCTTACCCTCTTTAATAAACTGATGGTTATCTCAACTGGTACAATCTTTCCTTCTTTAATGTACTTTTCAATAAGTTCACCATACTGTGAATCT + HHHHHHHHHHHHEEDGHHHGHHHHHHGHGFHHHGGFFFFHHFFHFBEFCC9?DBBBDFFF9=3=DFFBB>AADFHHHHFEBD?HHHHHHGGGAB?FGBHF @read_150_270/2 TCTTAAATTTTTCTTTATTATTTAATATACAAGCAAAACTTCTTTATTGTAGAAAAATTAGAATATAGAAATTAACACAAAGGAAAAAAAGTATAGTCCT + C@EGHFHHHFEDDGGEE=@BEGEEHHHHHHHHHFEEBABDHHHHG?GB@DHHFFHHHDHHHHHHHE@CEH@A?HHHHHEH9511GGHFFF>.?GGGGHHH @read_150_271/1 GCCACATAACACTTGGCATTTCCAGACTGCTTGACATGTGCTAAGCACGGTGCTGGGGGTAAGGGGATGAGCAACACTGGCAAGGCTCCTGCCTAACCTT + HHHHHHHHHHHHHHHHHGHHHFFFGHFFGFFB<*2CHFHHHHHFHBEDBFHHGDBCC?AFHHHHFHBF< @read_150_272/1 AGAAGTGAAGAAGACTCATACAAACATAAAAGCAGTAGAGAAGCTGAAAAATAGACTGGTTCTAAATATATTTTGGCGGTAGAGAGATCGGAAGAGCACA + HHHHHHHHDCDFHHHHHHHHGG?>:F;5=6>DD?D=BDGFEF @read_150_272/2 CTCTACCGCCAAAATATATTTAGAACCAGTCTATTTTTCAGCTTCTCTACTGCTTTTATGTTTGTATGAGTCTTCTTCACTTCTAGATCGGAAGAGCGTC + HHHHEBBFEHHHHFGHHHHHHHE.C+)7CHHHHHHHHHHGDFHHHEE@EHHHHHHHHFFHGGE/GFIGHHHHGGEA:1)<3CFBEDDHHHHDHEEBFEHHHFFHHFF??GGHHH @read_150_273/2 TTAAAAGTAATAAATACAAAAAAGAAAGCTTCTGTCCATTTTTTTCACCCTTTCTTTTATTCAAATGATATCCTGGGTTTAAAAAGAGAAAAAGATCGGA + GGGHHHFFEHHHHHHHGGBHHHHGGHHHHHHGHHHHFFE?DHHHHHFHH@CCCDDFFFHHHFHHIDHFFCDHFDD=EA.6,7.8;>8CEE>CFFFHHHE@ @read_150_274/1 GTCTTCCTCCAGGGAACACAAGATGGTGGGGAAACTGTCCACCCTGATCTCACTTTTTCTAGTGTAAAAACTGTGAGATGAGTACGAGAACATTGTCCAC + FGGHHHHHHGHHHGGHHHHHHHHHHBCFFBHHHFFHHFDEFFFHHHHHHHEFGHHHFGGFFFHHHDFFF?H??E=EFFCDEHHHHFCHHHEC@;0.7BD= @read_150_274/2 CAGCGCCAAGGTTAGCACCAGCAATATCCCAGTACTCGAATATAAGGATAAGACAACTCTTGGGGCCACAGAGAAGTGAAGAAACTGTGAGTACATGGTA + 2-24@<:?>DG@??>2;>:=;55.CHFHHGHHHHCHFHHHHHHHHBGGFBGGIGFHGBCHEDEEEGF@GEGF=HHHHHHHHEEEEGGAA6(,,55@CGHHHGFFHGHHHGHGFHHGGHHHHGCDDG;=GGHHFFEHHHHHB5::@DE@99D71ABE?>BHHFHHHHHHEEBC>DBHFFHHHFHFHGHECDDEEFFFEFHHHFHH@DEHHFBFFGGFHFHHB>F @read_150_276/2 TTGAGCTTGCTTAGTTCTACCAGGAAACAGCAAGGGCAGGAGGTCTGGCCCTACCACCCGTGTGCACCCTTGGTTAATACTCTCTAGAGCAGAACCCAGA + HHHHHHHHHHHHHHHHHDBDGEEFHHHHHFHGG5B?EEHHHHHHFHFFBD57EGIHHHHHHHHHHHHHFFHHHHHHHFFHHGGEDHHEEEHHHHHHHHHG @read_150_277/1 TAGTCATGTAGATTTTAAGTGGTCTGCTTATAACCCTATATTCTCATAACCCTTTTTTTAGTGCATGTTTTTATAGAATATGAGGTTTTTCAGGAACAAA + <=DB>9-7GHHHHHHGFFGGGGD??B/:CBGHHHGDGDGGGFHHHHHHGD>=8EGDHHHHHHHHHHHHHHHHFFHHHHHH>96BGCEEHHGFDGHHHFE?4FHHHHHH @read_150_278/1 AAGTCCATTCGTTTTGGAAAGAAAATTCTCATTGTTCTCCCCTGCCTGCATGTTTGTAGCTTAATAGTATAGGTTTGGGACAGCTAATCCCTGAGACATA + FF=2-14>8D=BGGFGE=FFD<:8CB=FEEEHFGHHHHHBFHBFEG?9>3?DHHHHB@DBFFFHFF9FCDDEDDDHHGHGE<>4>EBEBDG@CFEFFFGH @read_150_278/2 ACAATATGTCTCAGGGATTAGCTGTCCCAAACCTATACTATTAAGCTACAAACATGCAGGCAGGGGAGAACAATGAGAATTTTCTTTCCAAAACGAATGG + HHD?:DGGEHHHHHHHHHHH<466HDG=D@DFFCDEHHHHHHHHHHHHFEGFFHHHHHHHHGGGHHHHHHHEFFHHHHHFGDEHHADIDFHDCHF=FHFH @read_150_279/1 TAGAGTTCTCCAGGGAAACAGAACCAATAAGAGAGATTGGTAAATATTATAAGTAAAAGATATATAGAAATAAACATATAGGGAGATATAGATATATAAA + HHHHHHHHHHHHHHHHHGGHHHHHHHHFFGHFA@<:BEFBHF@75791<9DDDDE2=09EEGGGD@;=CE @read_150_279/2 AATAAATACACATATATTTATATATCTATATCTCCCTATATGTTTATTTCTATATATCTTTTACTTATAATATTTACCAATCTCTCGTATTAGTTCTGTT + HHFE8CA@@;.:-@GHHHHGFA=@BHHHHHHHGE>A:EHHHC>>@EEGGGFIGHHDCDHHHHHHHHHHHBEFBB=CHHHFHHG=49.;52)->;EED>:; @read_150_280/1 AGACTCCTATACACTTCAATTTTCCAGCAATCCATAAAATTGAAACATAAAAATAGGATTCTATTTCCCTTGTTCATTCTATATCTTACCAAGATCGGAA + HHDDDA-?HF979>(DB=0>FACDFFHHHHHHHHGB?6>BGHHGFHHFFHF @read_150_280/2 TGGTAAGATATAGAATGAACAAGGGAAATAGAATCCTATTTTTATGTTTCAATTTTATGGATTGCTGGAAAATTGAAGTGTATAGGAGTCTAGATCGGAA + 9--8;7-0,BGF8GHHHHHHHHHHHHHHHGHHHHHBFHHHHFF?<..:5FGCEEFGFGC5C@EGHHHHHHHFDFFGHFGGHHHDD@8-)4:>.EHHHDB? @read_150_281/1 GGTAACAGGGAAGGTGGTGGGAAGTGGTTGGATCCTGAATGTATCTTGAAGGTAGAGCCGATGAGGTTTGCTGATGAGTTGGATGTGGGTGTGAGAGAGA + FBGGHHHHHHHHH9GE@BBD<9::8BHHHGGHHHHDDD?EGG@@EFHHHFAAAABGFHHFGDFF8::,>1FHFHHHHHHHHHFFFHFDGFGGEAGHFEFF?=EEDEHB?=CC @read_150_282/1 AGACCTCTGAATAATTGTTTCATGTGATCTACATGAATAGTGTATTATTACTCATTACCAAGTAATTACCAAGATAGTCAACAAGATATAGCCCAAAGGG + @>>=DHHHHHHGGGHHGHHHHHGHHHGHHHHGFECDHHHFEFHHFHF?FFHEAEEHFB@@CFHE?FFFGFEGHHADHFCDGBBGB=DHHHHHHFHHHHHH @read_150_282/2 CTCCCAACTCTTCCTTCCTCCCCACCCCCCTCCACCACCCAAATTATTGTGTATAATTCCCTTTGGGCTATATCTTGTTGACTATCTTGGTAATTACTTG + I?EEEHHHHHHFFGGHHHHHHHHHHHHHHHHHE@,9EEEGEFFHHHFEHHHHHHHHHHHHEEGG6;CGHHHHHHHGHHHHHHHFFGD=C5.=65FHHFFA @read_150_283/1 GAAGGACAGCCAGCCAAGAGAGGAACAGGCCAACTATGTTCAGTCTCTACAGCAAGAAGCACAGGATCTTCCACAGCCAGACTCAACGATTTCATGATGC + GDFBBGEEHEGHHHHHHHHHHHFHHHGGCF@FFGD=FEHHHHHHHHEFHHF9EHFFHHHC@6DFHHHFHHCFFCBHHHHGHHHHFEE7??@A=CFFGDDD @read_150_283/2 TTTGCATCATGAAATCGTTGAGTCTGGCTGTGGAAGATCCTGTGCTTCTTGCTGTAGAGACTGAACATAGTTGGCCTGTTCCTCTCTTGGCTGGCTGTCC + HHHFIFGGFHHHHHHHDDDDGHEC;@<=G?EFFFFCGHHHHHHHHFHCGGFGGEEGFEB8),+;EFFFHHFFADFC,4DAE6E=8DADFFBA==FHFFFH @read_150_284/1 TTCCTGGTGCTTCAATTTCCTGTTTGTAAAATGAAGAAGTTGGACAAGATGATATCCAAACATTCTTCTAACTTTCACCTTCTGTGATTGTCTGTGTGGG + GHHHHHHHEGHHHHHHEEFHHHHEBBDDFCFBEF=HHFFHHHHHHHHHHHHHEFGEHHCCHHDDFDEDHFFDC9<@A?DBFGHEHHHHHHEE=<>;DDFG @read_150_284/2 TCTTCAGAGTGCTTATAAAATACAAACCCACACAGACAATCACAGAAGGTGAAAGTTAGAAGAATGTTTGGATATCATCTTGTCCAACTTCTTCATTTTA + C5FGGHHHHHD=DGFCFGHHHC26DBEHHHEG<@BE>FFHHH03<*1:BGHHEEHHHGFFHHHHHFFEHHHHHHEEHGCB8D,>@B@BDDHHCC@EC @read_150_285/1 ATGCTAATTAACCAAATTCTGCAAAACAGAGGGTTCAGGAACTAAGCTGATAAAGACTGAATTCTCCTGGAAAGGATATGTGACAGAGGGAGAGAGTATG + HHHHHHGHHHHHHHHHHHHHHHHHFDFFGHHHHHHHHHFFHHDDDADHHGHHHHHHHHFFHHHHGGGHHHD@CEEGHHGEEGHFFEHHHHGB?GHHHBAB @read_150_285/2 TCTAAAACTGACAGGGAAAAAGTTAATGTAAATATTCACAGTCCCTTTGCTTCAGTCATACTCTCTCCCTCTGTCACATATCCTTTCCAGGAGAATTCAG + GBBFGHHDDD;17(.:=DHH@D?E?FFED?FFFGHHHHHHHHHFFGHGFH @read_150_286/2 CAGCACCACACCACACCTATTCCAAAATTGGCCACATAGTTGGAAGTAAAGCACTCCTCAGCAAATGTAAAAGAACAGAAATTATAACAAACTGTCTCTC + HHHHHHDGHGGFHHHHHHHHHGBD7+2;(1):?AFDDGEEHHHHHHHBE?DGGGB=B@@:@?:FHHHHHHHHHHHGFHHHHDGA:CDAEBE@7:EGG@;9 @read_150_287/1 CAGACATTGTATTTTTCATCTCTAGAAGTTCAGGCTGGGTCTTCCATGTCTCTGCTTCCATGTTCAAGCTTCCCTTTACCTTCTTGTTGTGGAATGTTAT + HHHHHHHGEHHHHHHGGHHHHHDHHHHHGGHHHHHHFGDBEHFFFHHHHHFDEEEHFFHHEHHHHHHFFHFFFHFHHGGGHFCFBEE6:48*2AEHHFFH @read_150_287/2 TAATGATAACATTCCACAACAAGAAGGTAAAGGGAAGCTTGAACATGGAAGCAGAGACATGGAAGACCCAGCCTGAACTTCTAGAGATGAAAAATACAAT + HHHFCHHHHHHHHHHHHHFF;BBGEGGHHHFH>B><<:=><;<-.CCHHHHHHEFCBGGGEBHHHB@4BABDFFD:7DC>8'01->EEF6GBBEHHHHBF @read_150_288/1 CAGCTACTCCGGAGGCTGAGGCAGGAGAACCGCTGGAACCCAAGAGGCGAAAGTTGCAGTGAGCCGAGCTCGCACCACTGCACTCCAGCCTGGGTTACAG + HHHHHHHHHGBBEHFHHHHHHHHHHHHHHHHHHHEHHHHHHHHADCHFHHFHHFBCF;>,;0A3,/6A+E8EED2DEC:,'/.?;;'%*0>E=GEDBH.>*:,*<;?=>:BB @read_150_289/1 TTCCCATTTTTCAGATGAGGAAACTGAGGCTCAGAGAAGTTATGTGATTTGTTCAAAGTCACACCACTAAGTAGAAAAGCTAGGACTGTAGGCAGATCTG + HHHHHHHHGFFHHHHHFGHHHHHHHHC>?A:@@@ECC<19ADDFCFGFHFHHHFCDHFHHE5;C=BA88>.*'01;C>DDGHHHGHHHEDEGFGGE452( @read_150_289/2 TGAATAACATGATGCCCTTTGAAAAATATGATAACATAAGGGTATAATGATCAACAAAGTATCTTTGTGGTTAAGAGTCTCAGAATAAAAATTAGACAGA + HHHHHHHHHHHHHHHHHHHHHH<41AFEGFDHB?AGHEEEFFHHHHHHHHHHG@94:GD?.AB2?*; @read_150_290/1 GATGATCTGTGCAGCAAACCACCATGGCACACGTTTACTTGTGTAACAAACCTGCTCATCCTCCACATGTACCCATGAACTTAAAATAAAAGTTGAAGAA + HHFFGHHHHFGACAFHFHHHHHHHFGGFEFHHH?<5<>@>,32=:>>FHHHHHFHHFFGGEGEEFFDDDFDDDF@GGHHHHHHHHHFE?FGFFEHHFGHF @read_150_290/2 TCCAGATTTGTTCTTTTTGCTCAGGATTACTTTGGCTGTCTGTGCTCTTTTTTTGGTTCTATATGAATTTTAGGATTGTTCGTTCTTTCTTTTTCTTTTC + BB?HHHHHHHHHHHHC@@8B@>CG<5.<-====FHHHFFF?EFFEDFHHHHHHHFHFFHHEHHHHHEHHHD?4FH @read_150_291/2 GCAACAATTAGGTACATATCAGAATCTCCATGTTAGTTTGAGTCGTGTGAGAAGCACACACCAAGATGAGAGTAGATGTGCAAGAGATGCACTGGGAGGA + EEGHHHHHHHHHHHHFDC@BEEHHHGGECE@@=; @read_150_292/1 TGAGTCTGATTTTGCTGTGGACAATGTTGGGAATAGAACTCTGCGCAGGAGGAGAAAGGTAAAACGCATGGCAGTAGATCTCCCACAGGACATCGCTAAC + FEHHHHHHHHHFFHHGG@DFHHHHHHHG>@73ACA>>FHHHHHFHHHHHGHHB/A9CFDGG=)5,*087.4*19ADCDDB?A @read_150_294/1 ATCCCACAGCATTTCTTTTTAATAACTGTTCAGCTACAAAATTTTATTGGTATCTTTTTATGTTCCCTCTAGAGGATGTAAGATCGGAAGAGCACACGTC + HGHGFEDBGGE=DDGGGGGHHHHHHHHHHHHHHHHFGFHHHHHFHGEHHHHFHHHHF?EFBCDDB/34==ECDHHHHHHHGHHD9).@C>=CCFHHHHHG @read_150_294/2 TACATCCTCTAGAGGGAACATAAAAAGATACCAATAAAATTTTGTAGCTGAACAGTTATGAAAAAGAAATGCTGTGGGATAGATCGGAAGAGCGTCGTGT + FHHHHHHHHGHHHHHHHHHHHHHFHFEBCFHHGGFG4<>>E><,)45:>526?6>E;@2,5.<8@<):D@BBFHHHHHHHHHHHHEEEDHFBGB???>?> @read_150_295/1 TGACTTTCTTTTTTCCTCCTAAATAAGGACAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAGAA + HHHHBD=EEHFHHHHHGF@DHHHFGHHHHHHHBGEADA<339CBEEFFEFHHHHHHHDFFCB9;9BFFHHHHFFBEGHHGGHHHHGHHHGEDC:>A0'7: @read_150_295/2 TGTCCTTATTTAGGAGGAAAAAAGAAAGTCAAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAA + HHHEDHDFFEHHFHHEEEFEGFFBFHHHHHEHHHHHHG@>BCGGGA@::B@BEHFGFDGHGHHHGGHHHHHHHHHHEDHHHHD6(BA=>.<79=?E=?HHHHHG@A=CDGGBGHHHHHCDGHHHHHHHHHHHHFHDEEHFFFHCBEEEDC@B8CHHHHHFDCG>>6@@BFBH>DAE @read_150_297/1 GGCTAGGCCAGTCTGTTTCCACCACATGAACAGGCAGATAGGTTCAAGGGTGCTTGGCAGTATTGTGGGGAATGTAGATTAGAGTCCAGGGGACCTGAGT + DGHHHGHHHHHHHHGHHHEGEGGEGHHHHHHHHHHHF>,4BFFHHHHBCGHHHHFFHFHHHHHHHHFFHHHHHC7:<<-),6EFHHHHHGDBBGB@':>A @read_150_297/2 GGCCCAGAGAGCCTGCAGGGTGCCCAGCACCAGGCTTGAAACAGCCCTGAAGCAGCTACGTCCCATTTCCCGGTGAGTGGCACAGCCCACCTTTGAACTC + HHHHHHHHHHF@G@@56<55F@E/?83:.=BE401<:?HHHHHHHGAC=;29:;.FHHHHHHHHHHHHHB:6GFHHHHHHGGHHFHHFHGGFDGBD8<<9 @read_150_298/1 ACTTCTTGTGCATCCCTTGTTTCCCTGGCTAAGGCTTTCCAAGACTGAAGGCAACACTGTCTTGAGGCACAAGAATCCAATGTTTCTTGGTAGGAGCGGG + HHHHHFGGGHHHHHHHHHEDHHHHHEED@>76D4=FFBGFHHHHFGGFFFHHFDDEBFFDDGFFGH?@CB>>+BEHHHHEEHHHHHHFE<7@DBBA:*0; @read_150_298/2 TTGTCTGATAGTAGTGCAGTTTGCATTCCAGCTCCTACCAAGAAACATTGGATTCTTGTGCCTCAAGACAGTGTTGCCTTCAGTCTTGGAAAGCCTGAGC + HEGHHHHHHHHHHHDCEHHHHHHH@FFGGFFBGFHHHHHHFDEGHHHHHHHHDFFHHHHHD>@:4B@DC?GFCBEHDBD491);:2,'),22,,)*%',5 @read_150_299/1 GGATCACCTGAGGTCAGGAGTTCGAGACCAGCCTGACCAACATGGAGAAACCCGTCTCTACTAAAAATACAAAATTAGCTGGGCGTGGTGGCGCATGCCT + EEE?@BGGGGGGGEBDGHH@AEGHHCC>?4@FEFGHECFBDB>5??DB?@EHHHGHHHHB@;B?;?39:ADFGGGGHHHHHC>E?DEHHHFH5(*:BHHGGHHHHHH @read_150_301/2 ATCTGACCCCAGGCTAGGCCAAGGCCAGAACATTTATCGAATCCCTACTGCATATCAGGCATTGTGCCATATTTGGTCTCATTTAACCCTCACCACAACC + HHGHHFGGHFHHHHHGFHHHGHHHHFFFFHGGIGHHHHE8EGEEFHHEHFHHFHFGEGGGHHHHHGHHGGGGE?G/><*4 @read_150_302/2 TTCTATGGAAAGACTATTTCTGAAAACAATATAATAAAATATCTAAAATAATTTTAAAAGTGCTGGAGTAACTTTTCTAAAATGAAGGATGTTGTATAAA + HHHHHHHHHHHHHHHHHHFHHACBHHHFFDBHHHHHGFF77BDDCGEEHHGFFBBG@DDCGFHEHHHHHHHHHFEHHHHHH@C>.@BCBC2<>4875CF@ @read_150_303/1 GGGCCCATCATTCTCCAGGGGAGATGGCTCTTCCTATACAGAGTCAAGGACCTCTGGAAACACAATATTCAGAGTTAATATATTCCACAAATACTTATCA + HHHHHHEEEFEF982<@G?CBGFGH?DCFEGFDBFEFEEFC??=GHBHFFHHHFHHHHHHCCBBC@:>DHGFHGFGFGEHHHEEHHHFHFFHHFFDBF=< @read_150_303/2 TAGCTTATGCAATTGGCCACTACTGTACCACTGAAACCTGGTACATTGTAGGGACATGATAAGTATTTGTGGAATATATTAACTCTGAATATTGTGTTTC + HHHHHHHHHHHG@>:GEEFFEHHFFFEHHHHHHHFGEBCDDGFHHHHHGBBEHHGDB;?C;CDFEBCHHH@@CHHHHFFDFBA?FHHEGFFHFGHFDEFF @read_150_304/1 TCCATGGGGGATTGGTTCTAGGGTCTTCTATGAATACCAAAATTCATGGATGCTCATGCTACTTATATAAAATGGCAGAGTATTTTATATGGCTTCTGTA + HHHHHGGGEGHHHHHHHHFFGGFHHHBHEHEDEBEDHHHHFHHHHHHHHHEBDBGFFCA@BEEFGB6CCDFDBD?C88GGFFHHHHHG=6>BD70)&8C> @read_150_304/2 TGGTCATTATTCAATAAAGAATAGAGTATAATAACTATTTACATGGCATTTACATTGTATTAGGTATTACAAGCAATCTAGAGATGATTTGATGTATATA + 8@@GFGGGGGD@<173=((2GGFGGFHHHHHHHHHEHHHEHEHHFFFFBDHHC:>EFFHHEEGEHHGG.?EEEGGFHDGF.:22:EFGBD738?D@6AFF @read_150_305/1 CAAGAATAATGTGCCCAGCAAAGCTATTAAAACAAGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTG + FHHHGGBEGBDEHHHHHHEHGGGFFHFGEGHHHHD,::=AFHHHHHBHFHHHGGEFFHHFFHED?DHFHHHDFEFHHHHHHEEHFED65@:FGGGGHEHG8DE<<8DDBC?CCCFBECEBHF @read_150_306/1 AGAACGTAATTTTCAGGTCATGGACAAATTTTTTACTGTAGAATATGAAGGGGTATATACAAAATGTCATGACTATGACAGCAATAAGTGTATAAATTAA + HHHHHHHHHHEEEHHHHHHHHHHHHHHHHGGHHDCDDEFHHFHHHHHHHHHHEBCEFHCB<@CC;:ADHFC?D;:;>?FEHFF @read_150_306/2 TGGCCTTTTTTCACATCAAGTTGTGCTACAGTCAGTTTAGAAAATGACACTTGCATTGTGGAGTGGAAGTTGAGGAGCCAGTGAGTTACATTAATTTATA + HFDHHHHHHHGEHDFD@BCD@GHHHHHHGBEEEHH@CBC8E@6?HE2-33;>;=FFGGGHBGGG?,+<<2FBGEHHH?B;918FEEEHFGFDGGGH;>/B @read_150_307/1 GGCCCTGACGTCACGCACGGTCACGTGGCCCCGCCTCCCGCTGGATCTTTAAGTAGAAAGTAATCTATCAGGCCAGTCCTTAAAACGGGACTTTCGACTA + HHHHHGHHHHFGGHHHFHHHHFHHHHEDGD0==GD7;?FFHHHHFHHFDFHFHHHEDDHHHFFFF7DDGG<:>EDDHHHHHG=7.EEF?>::<>AFHHHHHHHHFEGHGFBCFA@@>:EEEEHHHBFC5?FDGEFHHFHHFHEFD @read_150_310/1 GAGCTTTTTTTCTTATGCTTGTTGACTGCATGTATGTCGTCTTTTGAAAGGTGTCTGCTCATGTCCTTTGCCCACATAATGAGGTTTTGCTACATGTGAT + HHHHHHFFFFHHHHHHHHHHHHHHHGGEEFHHHFCEHEEEFFEEFEFHHHHHHHFEGHEEHDFDHHFHHHHHGGFFGEDDDFBGFHGHHEGGGHFHGCA> @read_150_310/2 GTCCCCAACATAAAGAAATTATAAATGTGTCAGATGATTGATATGCTGATTGCCTGGATCCGTTCTGATCACTATATATCACATGTAGCAAAACCTCATT + GGEDC:><=GGEFFFGGGHHHEFHHHHBD=FGGEFHHFCDEHHHGGHHEAFEEHFFHHGHHHHHHGHDEGFEDAFHHHGFDDHEEDHEEFEEFFD359.) @read_150_311/1 GAAGGGTGATTATTAAAAAGTCAAATAAGGCCAAGTGCAGTGGCTCATATCTCTAATCCCAGCACTTTGGGAGGCCGGGGCAGGCGGATCACCTGAGGTC + HHHHHHFF=CEGHHHHGGFDHHHHHGGFHGAEBFGHHHHHHHBHHDE?GBFDBGHHHFFFEEEECHFEHHHHAAHHHEFE,>7BAE5@38,/@CFFHDDA @read_150_311/2 GCCGGGCTGGTCTCAAACTCCTGACCTCAGGTGATCCGCCTGCCCCGGCCTCCCAAAGTGCTGGGATTAGAGATATGAGCCACTGCACTTGGCCTTATTT + HHHHHHHHHHHHHHHHHHDGHHHHHHHFHHGGHHBDGGEEF?AHFHHHH+8>-*9GHEBEDGDHHHHHHHFFGAB<6:>9;9%',;96=D4DFGHHHEFC @read_150_312/1 CGTGTGTCACCAGGCCCAGCTAATTTTTGTATTTTTAATAAAGACGGGGTTTCATCATGTTGGCCAGGGTGGTCTCGATCTCTTAGATCGGAAGAGCACA + HHHHHHHHHHHHHHGEGFGGHCGGECBEEEE@/D?HHHHHHHHHHHGFHHHEHFFHHGEDDEDHFCFFDCDBA>;EEEEF@>5:?GHFHHHHHHHHHFH< @read_150_312/2 AAGAGATCGAGACCACCCTGGCCAACATGATGAAACCCCGTCTTTATTAAAAATACAAAAATTAGCTGGGCCTGGTGACACACGAGATCGGAAGAGCGTC + HHHHHHFGEHC8@=HHGHHHHHHHHHEEGHHFFFHHHHHHHHHFF+C=IGDDDDGGFBECD>;BFCFFF?/A?=9DE?:7:@/5FHHHHB<7@D?FFHHC @read_150_313/1 TCAGGCTATGCTAATTACTGTCATAGATTCTGCAGCAGCCCATTAAATATACAAATTACAGAATTAAAGAGCCAGAGCTCTTCATGATTAATCTCTAAAT + HHHHHHHHHHHHFBCCB@7=DDDHHFGHHHHHHHHHHHHHHHHHHHHFGGG@EHHFHHHFHHFHHFGFHHHHHEDHGH=8@9ADHHHGGGHHHHHHHHGB @read_150_313/2 GTTCATTGGGCTCACTCAGCCAAAAGTAGAGGGAAACTTTGTACAGACATCATTAGTTTTTCTCCATTTAGAGATTAATCATGAAGAGCTCTGGCCCTTT + HHHHHHHHHHHHHEBHGFDDA@DFHFHHHHHHHHHHBHHHDGEHA78A@BHFHHHHHHHGECGG<:-CCD=DGHHHHHHH=DA,2>>@D@EFHFFFFFGHHHDGEDDDDEFHHHHFGADDGHHHHHHHFFFHF@DDBG @read_150_314/2 ACCATCGGGTTTGTTTTTATTTTAATTAGACTTCTATTTTTGAGATAATTGTAGATATGCATGCAGTTATGAAGATAATGCAGAGATCTGGTATACCCAT + HFD8EIGHHHHHEGDC>78HG=C;97GHHHHG?@BEEGEGEABBC@?AEGECDDEFFEEFD@?GGGHHHHGBEEHHHHHF?EEFA71=BFCCD==9,1,2 @read_150_315/1 CCATGACTCCAGACTTGCTTTGACACCTTGCACACCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTG + HHHHHHHHHHHHHHHHHHHHGGGGGFCGHHHHDE6B@9<8C?AA8<1B>B247EDD>5= @read_150_318/1 CGCACTGTGCCTTACACGTAGTCAGGACTCAATAAATATTTGATAAGGCAAGAAGGAGGGGGAAAAAGCAAGATGACTTACTAGATCCATTGATCCGAAT + HHHHHEFCC@DDDDFFEEDD>>@A>CFFFFDDH?:FHHHHHHHHHHHHHHHHEDHHHHHHFCHHHHFEDBA.;@ACFGHGHHHHFF00>BE16.%)3((5 @read_150_318/2 GAAGCTGAGACAAGTGAAGCAACTTATCTATGTCCATACAGTTCTTATAACTAGAGGAGGCAAATTCTGATCAATGGATCTAGTAAGTCATCTTGCTTTT + HHHHHHEGFDB@GFHHHHHHB@FHHHHHHHHEFEAB@;<5@**)8?GFGCEG=DGHHHGGHHHHHHHHHHGDC@HHHHHGEEHFFFFFCBCFHD@*5BCB @read_150_319/1 GTGTGTGTGTCTGTGAATCTTTAATTAATCTCTTGAGTCCTTTTTGAGAAAGAAACCCTGTCTCATTCAAGTTTGTTCCCCAGGGCCTGACATAAAACTG + HHHHHHHEEGGFHHHHHHHHHGHHHGGHHCHHHHHHHHHHHHHFGBDDFHHHHHHHFFFEHHCHGFFHHHF:CHEDDADDGEEBADD?489.159HHHFF @read_150_319/2 CTGCATCATTCATTTGTTCATTTTGTCATTCATTTGCTTGTTTATTTAGGCATTCATTTACCAAACACTGTGCTTACAGTTTTATGTCAGGCCCTGGGGA + HFHHHHHHHHGHHHEFHHHHHHHDEEEGGEGFECB=DDBDBD:B;>BDHC>=4<=9+3:@<>.DGFCEHHHGEGHHHBEHHFBBBBDEBFA;,A;EB@FD @read_150_320/1 GCTGAACTCGTACTCTCTAGCTGAGCACATAACTTGGGTGAGCCTCAGTTTAGATCGGGAGAGCACACGTCTGAACTCCAGTCACCACCCAATCTCGTAT + GGGGHHHHHHGGGGGHHHHBEEHHHHHHHHHHHHFEGGGFHHHHHHHHBDFHHADE72)0??DDEHHHEF?@6:>CA@FHHHD;.DCGIGGGHHHHHHHHHGHHF@GGHFF7EHHHHHEG@HHHHFF@BDA@DHHBE @read_150_321/1 CTCTGAACGTACCAGAACGTTCATGTGGACAGGAGGGAACTGAACTTGCTCCGTGGCAGAAGAGCGTACCCACACCTGAACTAGGATGGCGGCACAGGTT + HHHHHHHHHFFFEB>FFFBBHHFD>>D;GFHFBFGHHHDE@DDGHHFHEEFEFEHHHHFHHHHF?DFHHE=DC@?EC9>CHGEA@FDBB?ADGGB@EFFB @read_150_321/2 TGTTCGCTGGAGTCCGGACAGTTTGGGCTCGGAAATGGCTCTGCTGCCATTCGGAGCTAAGAGCACAGCCCGTTCGCCCTTTCACTGTCGCCTTCCGGGT + DCDHFGHFDB65CGHHBBCDDHHHHHHHEHHHG@AHHBGHHEGHHHFHHHHHHHE@,07EEFHFEGHHFHHHHHHEEDCD@.5.> @read_150_322/1 AGAAGAACCTATGTGAGCAGCCCTCTCGCCTGTTCTTGAACGCCTGTGCTTGGTTACATAACATTGGCAAGGATTGCTCAAACTGGCAAGAGGCAGGATG + GFDDFGGHEHHHHHGHHHHBFFHHHHHGF9GHHHHHFHHHHHFHFHHHHGHEEHF?7;@E9DD>HGHHFHFFFFDHGHHHHGFHH><8;-0?E@DEEEFF @read_150_322/2 TCTCTCACTCTGAGTCATGGCTGGCTTCAAGTTCCCCAGCCTGGCAGGCAGGGCCAGGAGCCATTTCCCAGCCTGTGAGAGTATCTTCCCACACCCCACA + HHF<93*+=GHHHHHHHHHGBHHHHHHHHHGGGGGH?EHHHHHFFHHHEDGFD@A@<:DDD=F.>AC:?EHEGDH3;AEEHHHFDGHFEBHHFEHHHHHE @read_150_323/1 TACCTATTTACATTTTGATATCTGCATTTTACCAATAATTTTTAAGGCTGTTTTTATTTCTCAAAGATTAAAGTCATGTGAACTAAAAGGGACCGCAGCT + HHHHHHHHHHHHHHHHHHHHGGGHHGFFHHHHHFBHHFGE?EFEFHHFFFBFHFHHHFFHFHDFEHFHHFFDHHHFBFHHHHGHHDGGGA'2,-%,27:: @read_150_323/2 TGGCCTAAAGGAATACAAGTGCTTGGATCAAATATTTTTTAAAGGGAAGATAAAAGCTGTGGTACCTTTTAGTTCACATGACTTTAATCTTTGAGAAATA + HHHHHHHHFHHHHHHHHHHHHHEGIDE9/@>DEGHHHHHHHHHHEGDHHFHHHHHGHFFGDGHEE?GFFEHHFE>G?CCBHHHFEAFHHHHHFH?BEFEE @read_150_324/1 CATTTTTCTCCTATGTTTTCTTAGGAAAATTGCCAAATTATCTAATCTGCCTTTTGTTTGTAGGTAGGGAAAATTACATGACTTTTTTTCACTTTCAAAA + HHGHHGFCBCBEH?FGDCBFGHHHHHHHHHHHHHEHHHHFHHHHHHHFEGHHHC.1;BBCFDBGFHFHFFHHHHHHG@>DEDCDFHHHHEFFHFEHHHFF @read_150_324/2 GTTTTTATTTAATACGGCACTGCAGAACAAAGAGGAAATAATAGTTTTTAGAGACAGCTACTGTGGCAACTTCTGGAAGTGAAAAAAAGTCATGTAATTT + 7<:?@EGHHHBGHHHEHHHHHHHF@FFHCCHHGBEFHHFFHGHHHGECHHHHGGGGFBEDCDG>43<<>8<)*(6(:;<91BFHHFHHHHFHHHHHHE*8 @read_150_325/1 GAGGCTACTCTCATATGGCAGCAAAAACCCTGGGGTTCTCATCCAGGCCTCTCAACACACTGGTGGTTGGGAAACTGCTATATAGTATGATTCTTTGTCT + HHHHHHHHHHHHHHHHHHHHHDF;>FFFHHHHEEECDEEDC89FEEEEBFFCA, @read_150_326/1 AGAGAAGTGAGATTGCAGGGCAAATTGCTGACCCTAAAACTGAAAAGACAAACAACGGATACAGAGACTGACAATTTACCAAATCAAAAGCTCATGGGCA + HHDACEEDDDBDGEHHFFGHHHHHHHFFGEEGFFFCFGBFHHHHHHHHHHHHHHHHDFEDBDECB:9(165AFCHHHHHHHHHDEHHFEEGGGFFFCEC: @read_150_326/2 TCCCAGTGACTGGTCCCCTTGGTTTTAAACTCAGAATCAACCTCGCCGAGCCTCCAGCACATCATAAATGACAGGTTATGTTTTGCTAACCCAATACTGG + FHHHHHHHHHHHHHHHHHFGBCDDDGHHGGFHHHGHHHHFDA(,82)=DGHHHHHHHHE@DCB5@4:DDHHGHHHHHHHHHFHHHB:9'6AAD@FFHHE?ABHFHHHEBGE??CA9A=DHHHA?HBA@EGFGGDDDEEEEEGEGFDFG=EFHHHHHHHHGDHFA>B)>*4.CGEE? @read_150_328/1 AAGCAAAATGAAGTTCTTTCTGTTGCTTTTCACCATTGGGTTCTGCTGGGCTCAGTATTCCCCAAATACACAACAAGGACGGACATCTATTGTTCATCTG + HHHHHHHFGGHFHHHHHHHHHHHHHHFGHHHHHHHHFFHHHHFGHHHFDHHHHFHHHHHHHFDCCGA;<7%+:EFHHGGGHHHHHFFGGG?CEHFEFG45 @read_150_328/2 GATACTATGAATCATACCCGCCTGAACCCCTCCAAATCCCTTCGGAGCTAAATATCGCTCACATTCAAGAGCAATATCAACCCATCGCCATTCAAACAGA + HHFGHHHHHHHHHHHEB?*(9E86@?FHHHCHECCCGEHE>;CEDEFFHFDBHEGHFHFCCHH @read_150_329/1 TTGAAACACTCGTTTTGTGGAATTTGCAAGTGGAGATTTCAGCCGTGTTGAGGTAAATAGTAGAAAAGGAAATATCTTCGTATAAATACTAGATCGGAAG + HFHHHHHGGEGHEEFHHHHHHHHHHHHFHFFHHHHHHHHFHHHHHHHHHHHFEGHHHGGBH@EFFA0BCHHHHDFHHGD?@EEFF.'A>?=FHHBEGGD4 @read_150_329/2 AGTTTTTATACGAAGATATTTCCTTTTCTACTATTTACCTCAACACGGATGCAATCTCCACTTGCAAATTCCACAAAACGAGTGTTTCAAAGATCGGAAG + HHDHHHHHHHHHHHHHEG@@93@@6BHHDBFGEGHHHHHHBFEE/1-1*8.'*2*<0'>?6;?DHHHHHHHHFB>.:<=EFFH@B.:,3AC=..3?DFHHFA?%+ @read_150_331/1 GTGGTACCAAACACAGCAACAGCCTCCACATCTTTTAAGGCATTACACACTTGAACTCCACAAGTCTAGGAGACAATCAATAATAGATAATTATTATCCT + HGGFEHHHHHHHHHGGHHHHHGGHHGHHHHGCGGFHHF>FHDFEEFEHFHHHHHHHHHHHH@???FHFF?=?<649781)<9?FEDDCHHHHFHHHHHHH @read_150_331/2 GTGAGGTGAACCAGCAAGTGCACTGGCTGAGGGGACTGGAGTTCTAGCCTCTGAACCAGTTTCCTCCTGTGCCAAAGGAGGATAATAATTATCTATTATT + HHHHHHHHHHHHHFHHHHHHHHHHHHEGHHHHHHHHHHHHHFHHHHHHEHEECEE/32'38EA3AEFFEHHHEHHHHHHHHGGEHHFEEDFGGABBE??< @read_150_332/1 AGGCCTCAAAGAGGTCTGAATATCCACTTGCAGACTTTACAAACAGAGTGTTTCCTAACTGCTCTATGAAAAGAAAGGTTAAACTCTGTGAGTTGAACGC + GGGEDCFFFFB;GGHGGHHHHHHHHHHHHHHHGHHEHHGCCFFF<.BDEBHHHEEGHHHHEAB>CCCCFHHE9FHGGHHHHGEGECEFHHHHA5.>F @read_150_333/1 TGACCAGATTTAGAATTATAAACCAATTCATGGGCTGGAGCCAATGGTTTGATGGATAATTAGGGTCTTTGAAGGAGCACAGTTGAAAAATAGGTGACAA + HHHHHHHHHHHHFFFHHHHHHHHGG@GF@E@@5GGGFFGHHHHFFHFCC9FHHFAEHHHHHHHHEDDBE@B6CEB<73@@6)<.@5C??AD @read_150_334/1 ATGAAAAGGAAGACAAGCAAGAATCTAAGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAAAC + HHHGGGHHHGGHFFED@CC;FAA@C6+>>>DDDHH;<9DBHHFHHFCHHHHHHHHHFEFHHFHHBFCHHHHFHEFHHHB8?FC@@DFHHGHHHHHHF46( @read_150_334/2 TTCTTAGATTCTTGCTTGTCTTCCTTTTCATAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAA + HHHHHGB=/@<9@GGBE/@FBBGHHHHHHHHHHBECFHHHHHGFDD8AE-%3B933DEEBFDGEEEGG@DDGDHHHGFFHHH @read_150_335/2 GGCAGAGGAAAGACATTATAGACAGGACTGAGTGGCCTGACATGAGGTGGGAGGAGGTCATTCAACTTAGTCATTCAGCAGTTCACTTAGTCATTCAGCA + FBEEHHHHHHHFGGGHHHHHHHHHGEEEE?EEGHHFGFFFHHFHHHHHHHHHHHHHHHFEHFGDHHGFEEDEEE9:8?CGHHHGGE?EGEHHFC<<:.66 @read_150_336/1 GAAAGACTTTACCATCTAGGTTCGATAGCTGGGTCTAGGAAATACACTGACAATACACAGATTTAACAGGAAAAAGGGTAAACAAATTTATTAATTTTTA + F@@GGEGGHHHHHHGHHHHHHHHHHHGHHHHHHGDHHHEHHHFFD;=-*B?DEEFEGECHEEEFHHHHHHHHHFFFD40?ADFGGFHHHHHHHHHHHHH? @read_150_336/2 CACGGTAGCCCACATCTCCTCTCCCTTTTCTCTGTTAAGATGGCATCACTTTTTTGTGATATTGTTTTTTTCTTCCTATGATGGCCCCTGTGCACATCCT + BC@CHHHEDHFFHHHHHHHHHHHHHHD293>6.:8D;GEHE@BHHHHHHHHHHHHHHHHDCC@>5CHHFGGGHHGGEGBDGDFHHGG4FEEFHFFD/)1: @read_150_337/1 CCTCTGATCAGACAGGTGTGGCATCAAATCCTGGCCCAGACACAAAAGCTGTTTGACTTTGGACAACATACTTAATCTCCCTGAGCCTGGGACTCTTCTA + GGGHHHHHHHHHHHFFFHHHHHGHHHHHHHGG9;47DDGHHHHHFBFBBBEFEHHHHHHFBGFFHHHHFF@>CDAAGHHHHFEHHFHHFEEHH@7=E@GFFB=?328HHFF+78*;>. @read_150_340/1 TAAAAGGCAAAGATATTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAA + CEEDGGFG?FHHHHGGHHHHHHDF;FFEA;:=FGFHHHHHHHHHHHFBEE?BEGGFF@EEEEEFAF?6E9?DBBCFFFFBGG;?BDGHHGHBFFEEC9@; @read_150_340/2 AATATCTTTGCCTTTTAAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAA + DBGEDHHHH89=BGFFGGGBBHHHGHHHFGHHHHGHHD@E>BGFFF??FFHHHHGHHHD?GFHHHHHDHFDBBGEGFBE7;A:>FACEHFFFHE0>(0)) @read_150_341/1 AATTATACTATTATGTATTATGTTTAATTTTGAAAAAGTATGAAATAATAATAAAGTTAAAAACCTAAAAGTTTTTAAGAGAAATATATATTACAAAATA + HHHGEGHFGGHHHHHHHHGGF;E@>BB@CGHEFHHCDHEGGG=ACEHFHHGBCHEGHFHHHHHFHHHHEEFFEEEFD8EEG@CEHHHCCFGFDEEHHHHH @read_150_341/2 GGTAGCAGAGATTGCAGTGAACCAAGATTGCACCACTGCACTCCAGCCTGGGTAACAGAACAAGACCTTGTCTCACCAAAAAAAAAAAAAAAAAAAAGAG + HHHHHHHHHHFFEBGHHHHHGHHHHHHHHHHH=AFHHGFHHFDDF=GFHHEGDEHE @read_150_342/1 CGCCCGGAGGCTGGCCTGGGGTCTGACATCAACGACACAGGCGGGGAGTGGAAGTCCTTCCGCACAACATGGTGTGGGGCTGCGGGGGTGTGGACGCGCC + HHHHHHHHHHHHHGGGFFHHHHHHHHDFFGHHHHHHHHHHGBHHHFGGHFHHHHHHHHHEEEBC;E?HHBAEBFFGEFHHHHHHECHHHHHHHGGHBGEH @read_150_342/2 TTTGATTTGCAGCATCTTTGAGCCTCTACGACAAAAAAACCGCGAAGCACGCCCAGCCCTCCCCCGGCACCCCGAAAAGCACCCACTCCCTCCCGGGGAC + HHHHHHHGHFEHHHHHHFHHEHHHHFGCFGHFEHHHHHHHA=CEGHHHGHHHHHHHHHGGGFFFGHEHHHHHHHHHHGHHHHHHHGGGDC08==?EEBBH @read_150_343/1 AAAGAGCAAGAGAACTAGAATGAGAAGCAGAGCCTAGGCCAGGCATGATGGCTCATGCCTGTAATCCCAGTACTTTTGGAGGCCAAGGTGGGGGGATCAC + HHHHHHHHHHHHHHFFF<?<<>@9->>:A:((6.DCBCGHHHHHHHFHHHHHDGEF<58EHHHHEHHHHHHDFGDHHEC?BEC--->.8>4>AFHF>>@?;CH @read_150_344/1 AATGCTACCAGAATAGAGGCACCATATAGTACATTGAGTGCTGCCATAGAGCTATAGGATGAAAGATAAAGAAATAATTCATTTGACTTGGAGGAGTATA + HHHHHFHHHHHHHHHHGGFHHH=DD6BHHHHFGHHFFHHHHGHHHHHHHFHHHHHHHHHDHHHFHFFBFFHFEFHHHHHHEDD=<627?B%*%-70<9DC @read_150_344/2 GCATCGCTATACTCCTTCAAGTCAAATGAATTATTTCTTTATCTTTCATCCTATAGCTCTATGGCAGCGCTCAATGTACTATATGGTGCCTCTATTCTGG + HHGGHHHHHHHHHHHHHHHHGDGHHHH?BFHHHFHHHFEHHHHHHHHHHHHHHHHHG@CBCABEEG=:-0;+(:;DHEHHDBFGFFCGGHHHHEF/+ADE @read_150_345/1 TATTCTGCAACATGGATGAACCTGGAAAGCATTATGCTAGGTGAAAAATGTCAGTCACTAGAGACCATATGTTATATTATTTCACTTATATGAAAGTCCA + FFFGEGGGDDHHHHHHHGFGHHHHHHHHHHHHHHDFFFFBEEHFFHHHHHHHHEEEEEFFDHHHEGEFEFHHHHFFFFHHHHHHEDBBF=FFFFFGHFHH @read_150_345/2 TATCCCTCTAGGCAACCACTAGTAGATCTTTCTGTTTCTAGAGATTTCCCTGTTCTGGACTTTCATATAAGTGAAATAATATAACATATGGTCTCTAGTG + GHDDHHHHHHHFHHHHHHHHEEF@BEABHHHHHHHHHHHHHHHHHHHHHBEHGHHHHHHHHHHHHHHHHHHHHHHB?=EE3C*8.5CC3.:7EBFHG=@5 @read_150_346/1 TACCTCATCTCCACCACTCTCTCCTCCAGCTACAAGGGCCTCCTGCTCTTCCTCAAACTCAGCAAGCACCATCCTGCTGCAGGGCCTTTGCACTGCTGTC + HHHHHHHHHEDF8EEC-279DADFFHFDBGHHHHCBA9BCBEB39FCAEACDHHHHFBEFHHHHH @read_150_346/2 CAGAACACGACAGCAGTGCAAAGGCCCTGCAGCAGGATGGTGCTTGCTGAGTTTGAGGAAGAGCAGGAGGCCCTTGTAGCTGGAGGAGAGAGTGGTGGAG + B@GFHHHHHHGEHHHHHHHHHHHHHGFHEGHHHEEFEEHHHHHHHGFFFHHHHHHHHHHC:<<>:EGFHHHHB@HHHHHFHHHGD?ICFHHHECE6;B,/ @read_150_347/1 TAATTAGTGGAGACAGCTACCAGGGATCAGATGCTAACTACTGATTCAGTAGACTATTGAAAGTAAATTAATACAAGTATCTACCATTCACAGAAGAAAG + HHHHHHHHHD=@FHHHHGFHGGHHHDBFF?HHFFEEFHHHHHFHHHHHHHFFHFGGHCHHHHHHHHHHHH??DFEFEECDHFFHHHHHHD9FFFHHFBGF @read_150_347/2 ATTCAATACTTATGAGATATTTAATCAGGTCATTAACTCTAACTTGTGATAAAATTAGTAGCCCTGATGAATTTCTACTTGCAGTTTAAATCAGTGTCAC + HHHHHHHHHHHHHHHFGHHGGHHHFEAG<.BDGGHHHF?CEIGEFHHHHD=BCACFHHHHHHHDGGHHHHHHE63>DCDEEB=CEDGHEFFHHHHHHGGF @read_150_348/1 ACCAAGAAAATATCTTCATTTTTTTTCCTTTCTCCTTTATCATGTGACATAAGATTTATTGACTTCACATTAGCATTTAAGTATCGTTAACTTTATGTAT + @C@DDEE>>?ECD:;GHHHHHHHHFHFFFFFEGGGHHHHHHHECHHHHHFFFHH@FFHHDFB?FHHFFCAACA?DGHHHHHHFHHHFGGGEFHEHCED;4 @read_150_348/2 CAACTATCCTTCATACAACCAAAATGCACCAGTCCCCAACCCAAATACATAAAGTTAACGATACTTAAATGCTAATGTGAAGTCAATAAATCTTATGTCA + FFHHHHHHHEDGHHHHHHHHGHHFFEDEC@B<>>GHHHHHEFEEGHHHFF;7.:EHHHHHHHHFHHHHHHGHFHFFEHEACEEEHFG@?EHGEHFDFE=C @read_150_349/1 AATTACTACCCAACTATTTCAGCCTTGATTTCACCTTTGTGGTTTGCATTCAGGTTGCACCCACTGGCCACTTTGTCTCCATAGAATCCTTGACCATCCA + HHHHHHHHE=@HHHHHHHHHE=BHHGFGBGHHH@AFFGGEGGGHHHCFEHF3?E>EDDFDHHHHFFDBBBEEDCEBEFFG=4:6:6@:'DHGHHFH @read_150_349/2 ACCAGATGTGGAAACAAGGAAGTGAAGGTACATCTTAGCATTAGAAATTTCCGTGGCCAGAATGGTGGATGGTCAAGGATTCTATGGAGACAAAGTGGCC + HHHHHGGHHHHGHGFG?FHHHGHHHE;DCCEBHHE93EFFHHHHHHHHFC..14;.7 @read_150_350/1 AAGTTTGAGGTGGCAATGAATACTGAGGTAGGAATTTCCAGTAAGTAGAATAGAAATGTCTGGAGTTTTTTTTAGCTAAGAGTGGAATTGAGATAACTAT + HHHHHHHHHHHHHHHHHHHHHHCHHHHGFFHHEHHHBFGE@=HDHHG?A9DDEGHHHHGHHFEECCBF9FFHHHHEDDDBBFFFHHDEFFFHHFDHE?.E @read_150_350/2 AGTTGTCTTTTCTTTGAAATGTTGGTATTCTTTGATACTCTGTTCTCTTGTCACTCTCTAAATTCCCCATGGGTTATTTTATCCATTTAGTTATTGTGTT + HHHHHHHHHHHHHHGHHEEEFBD6-/@A@@HHHHFHHHHEHHD/CGGEHHHHHHHHHHHHHHHHHHHHHHHGHEHHHEFFGG=ACGA7<5><52DGFHF? @read_150_351/1 AATGATGGGATAGTAGAATTTTCTAAGAGATTAATAAAACACAAAAACAGCCTTTGAAACTTAGCTGTGACCCCAATTGCATCCCTTTATGAATCACAAA + HGFEGHHHHHGHHHHGHHFGFGGGDGE>@@GGGHHHHHHHHHHHHHHHHHHHHHHHHHHHFHFHHHHCD=AGGAFFGHHHGGHHGHHFFFCEH>9FGGD: @read_150_351/2 TCGCTGAGCAATTTGTTCTTTATTTTTTACACTAAGTTTGTGATTCATAAAGGGATGCAATTGGGGTCACAGCTAAGTTTCAAAGGCTGTTTTTGGGTTT + HHHHHHGHHHHHHHHHHHHHHEF=A@@@EHFEGGGHHHHHHBC>>57>=@BB?46A42*5:6-9-36:??HHHHHHHEFCHGFA?;??-/>:=.0&79EBHH?><:DEFHHHHGGEHHE=B@6>>.>:C@.CHHHHEEEGFFGHFHHD@?BEDGHHFFFDHHHHHHHH @read_150_353/1 CCATCAGCAAGTTTTGTTGATTATAGCTTCAAAATGCATCCCAGATGCAACCACTTCACATCATCTCTAGTGCTGGCAGAGATCGGAAGAGCACACGTCT + HHHHHHHHHHHHHHHHHHGGGGEEEFD@HHHHFCEACD65E?DDHHDDFFEEHHHHHHHHHDEHEFGCFFDCBD@DGGBEFFEGFHFB?BFCCHHHHHHF @read_150_353/2 CTGCCAGCACTAGAGATGATGTGAAGTGGTTGCATCTGGGATGCATTTTGAAGCTATAATCAACAAAACTTGCTGATGGAGATCGGAAGAGCGTCGTGTA + HHGFGGHHHHHHHHHHHHHHIDBGGAE?>CHEB31>EGEDA>CEEEAGHHF @read_150_354/1 ACCATCTGTATTAGTCTGTTCTCACACTGCTGTAAGGGTACTACCCAAGATTGGGTAATTTATAAACAAAGGAGGTTTAATTGACTCACAGTTTTGCATG + HHHHGFFHHHHHHBDGGDDGBEEEHHHHHFFA>CHHHHHHHGFHHHHHHHBFGG>EEFHHHHCDGHGFHEEDHHHHHHHHHGBHBF68*?EBDDECFCBF @read_150_354/2 CACTCTCTCTCCTGCCGCCTTGTGAAGAAAGTACCTGCTTCCCTTTCCGCCATGATTGTAAATTTCCTGAGGCCTCCCCAGCCATGCAAAACTGTGAGTC + CCC;<89>?DEEEDGCCHFF3:6.?6@BB4BH?:FHHHHHFHE@+56FEEGEEEGHHHHHHHHHH@FBEDE?<58:EEHHHHFHGGFEA52 @read_150_355/1 CTACAATTGTGGTTTTGTAAGAAAAACAGTCTTAAAGATTTCCAATAATTCCCACAATGGCCATAAATTATCCTGGGTGTCATTTTCCCATCAATTTAAA + HHHHHHEDFHGGHHHHHHHHGEFGHHHHHGFGEDDBEFGFGF@DGGGGHHHHHFF=D?GDFHHHGHHEGE.4=A@AA79>FHHGE?FHD/,23;7@GGFF @read_150_355/2 TGTGCCTTTTTAAATTGATGGGAAAATGACACCCAGGATAATTTATGGCCATTGTGGGAATTATTGGAAATCTTTAAGACTGTTTTTCTTAGCGAAGCAC + HHHHHHHGGGFHHGHHHHHGFEHFCCDF@<@.6EBBHEGFHHFFHBDCFEEEIEEGGGHHHHHHHHHHHFFDEEEHFHHHHHFDHHEAA.@+-%-5&3EG @read_150_356/1 ACCCCTAAGGTAGAAATAAGCTTAGTGTGTTTGAGGAAGAAAATGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTC + HHHHHHHHHHHC><);,:4??FHHHEHFDBD<8DEHCFHEEHFFEFD8GGDDHHHHFB@DHCEEHFEAHEBCGGGGGGGGCCFHHGGE,705BDFGH @read_150_356/2 CATTTTCTTCCTCAAACACACTAAGCTTATTTCTACCTTAGGGGTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATC + HHHHHHHHHHHHHB?@=@>CDDEGGFGGHHHHHHHHFFHHHF?GF?FHHHHHHGHHHHHHD@06FHHBFEHBGGHHGHHHHFHHGBFDEHHHC>>@E=E@ @read_150_357/1 TTCTAGGGCTTAATTTACTGTTTTAAATAAAATAAACATAAATAGAAGCTTCACTATTTTCCTTTCACATGCCAACAGATCACCTTGTGCAGTCACTGGG + HHGGGGGE@:BHHHHHHHHHHHHHHGGGHHHHHHHHHHHFHHHHHHHHHHHHHFHFHHBE>AGEFHHHDGADHHFHHEFGHHHHHHHHGGB78>=@DFDA @read_150_357/2 CTTTACCTTTTATTACCTAGCTTCCCTTTTAGGTCTTTAAGACAAAGGTCAAGATCTCATTCCATTACCTAATCTATACCTACAGGACAACTATTTGATA + HHHHGHHHHGHHHHHHGBA.38@EEHHHHC@>A@=>.5,(@C=@=?@EHHHHGDHHHFFHHBGFHHHHHHEEG=HHFBDGHHH?DFEGFDFEEHHFF??AGEEGGFHCDFFB/BCCDBEBEHHHHHHHDHHHHHHGDE@AHHHFEHHHGGHGEEDHHHHHHG52?9AA=; @read_150_358/2 GAAAAGGACAACAGAGGGTTACAGGATCACCTTCATTCTCATATCAGAGAAATCTTTCCTGGATTCTCTTTGGCTCTGGTCACCATGTCAGGGTCCTCAC + HHHGHHHHHHHHHHHHHHHHHHHFHHHHHFHHHGGHHHHHHHHHHHHHFEAAAFGHH@HHHHHHHHGGDFBGHHHGDAEHHHHHFHHHHHFH?BHD>BEG @read_150_359/1 ACCAGTTAAACGTAAGTGTTTCTCTGAGTTCCTTGCGCCACTCTAGCAAATCAATGGACTTCAAAGAGAGGATCGTAGGAATCCCAACTTGAAGTCAGTT + HHHHHHHHHHHGDHHHHGGGHHHHHHHHHHHHB4)'&*7110) @read_150_359/2 CACAGCAAGCAAGCGAGCAGTTCTGCAGTGGATACCAGCTGGGCTCCCTCCAATTCTGTTCCAACACTATCTACCTGGCGATAGCAGTAGAAACCACAGG + GHHHHHHHHHHDCGEDHHHHHHHCDHGHHHHHHHGECCFF=:5?FFHEDHHHHHHHHHHF@FEHHF@AGGD@AEEFFEEEHHGFEHHHHGH@=,6;EEDD @read_150_360/1 CAGGCTGCCAGGCCAACCGGGGAGAGGGAGGCTAAACCTGGAGCATCTCATGAATAGGCCTAGGATATCCCTGCTGCCTGGGCCCCTCCCGGGATGACCA + HHHHHHHFHHHGFGHHHHEEHHHHHEFGE>>BGF;FFHHHHFDFHHHHGDFEDEEGGGGHGGFCEHFFDEFFCFFFCFFBBEB3E8*8>FDB=EAFHHFF @read_150_360/2 AATGTTGTGTTTTCTCCTAAACTGGTTTTCATCCAAATCTTGTGTTGCTCAGAAAAACATGGAGCCAGAAAGCCAAATTCCAGAGTCCTCTCTGTGGTCA + HHHHHHFFFHFHHHHHHHHHFHHHHHHHHHHHHHHHHHHHEBDEEFHBGECD@757631:6B9DD:GGB*09A?EGGDDDBDCCEHHHHHHEHEDBA.@. @read_150_361/1 AGAAGACTATGAGACACTAAGAGAAAAATTAAGGTAAAAAAGACACACACTTAGAAAAACACACATAAGGAGGAGGGAGGAGGTTAAGACATTTTACTAT + HHHGBBHHHHHHEEHHAFHHHHHHHHFGHHHHHHHHGHHHHHHHEHHEHFC?HHFHBEBHHFC<6))60AEA5AEFFC59>>AC/--7DDHGGHHHHHGE @read_150_361/2 GTTTCCATTCACAGCACATAGGAAAATGTCTTAACCTCCTCCCTCCTCCTTATGTGTGTTTTTCTAAGTGTGTGTCTTTTTTACCTTAATTTTTATCTTA + HHHHGFHHGEEHHHHG@=9965;=DDFHHH<>:B@D5:;5=.>59@DDGFGGHHHHHHHHHFFEGFHHHHHHHHHHHHGGGBHHHGHHHH28EC,+)6); @read_150_362/1 TTGCAGCAAATATGGAAAACTGTTGTCCTCTTATAACATAAAATTTATCTTATAACAAGAAAAAAAACACCAATGCACCAAAAAATAAGCAGAGGACAAG + FFD@GGEF@GGGGHHHHHHHHHHHHGHGDBE=@DHHHHHGGHEGHHHHFHHHHFFHHHHD+)4,;DHHFFEEA5FGHHHEBFHHHHHF@@@*39BCC4>= @read_150_362/2 TGTCCTCTGCTTATTTTTTGGTGCATTGGTGTTTTTTTTCTTGTTATAAGATAAATTTTATGTTATAAGAGGACAACAGTTTTCCATATTTGCTGCAAAG + HHHHHHHHHHHHEE9*CFHHHHHHBEEHHFE?BDCGB@BEFE@;=FFHHFGHHHFHHHHHHHFB=64E=EEFDGGFEECBGHHHHHD=?@,,.<7CC@AC @read_150_363/1 GAGAGGTGTTTGGGACATGGGGTAGACCCCTCATGAGTGGCTTGGTGCCCTCTCGTGATAATGAGAGAGTTCCTGTTATGGTAGTTCATATGAGAGCTAG + GGHHHHHGHHHHHHHHA5.E? @read_150_363/2 AAACAACTAGCTCACATATGAACTACCATAAAAGGAACTCTCTCATTATCACGAGAGGGCACCAAGCCACTCATGAGGGGTCTACCCCATGTCCCAAACA + HFE;;??CBDFB8.@DHHHHG8DDEHCGE?011/%+:DGGBEFDBGHHHFFGGFGHHHHHHHHHHHHHHHHHHEEHHFCEFADFFHHFFFCDFDDCBF?@ @read_150_364/1 ATTCTGAGCTCCTGGGGTTAGGGCTTCGCCTGTGAATTTGAGGGGACCCAGTGCCCTTCCTCGAAATGTCGTGTTGACTGGCAGTGGCTCTTTGTTCCGG + HHHHHHHECCGEGHGHHHHHHHHHHHHHGFHFFFFHHHHHHHHGFHHHHHHHHDFHHHFHHHHHHHFFDHEFEBFFFHHA5>CEDFGHHHGEDHFHHHHHHHHHFCGHHGHGFHHE3);<,4(D>ECCEG? @read_150_365/1 AGGTGGTTTGTTGATTAAAACATCAATGGCTTTAGTTGTCTAGTCATTCTGTCCAAGAATTATAACCAAGTACTTGTAGGCAGGCAGTGATGCTATAGCA + FHHHHHHHHHHHHHHHHHHFFFD>=@8DC3::B@BFHHHHDDCFHHHFHHHHHFHCHDFHHHHHEHHDCC@8FGGHEDF??(HHHHEHDHHHFEBA6)8=53-21(A @read_150_366/2 CTCCTAGATGGGAATTGAACAATGAGAACACATGGACACAGGAAGGGGAACATCATACTCTGGGGACTGTTGTGGGGTGGGGGGAGGGGGGAGGGATAGC + HEBDFHHHGDFFGGHHHFHC864BGHHHHHGHHHHC53;?->9605DHECF=BGFHHHHHHHHHHHHHEEDEHHHBFBHHHHFHHHHHFFEGB+.=AA@D @read_150_369/1 CTGAAGATTCTTGGAAAATTATTGATCCTCTCTGAGAAAGAAAGAGCTCTCTCCACTCTTAGAAGTTCTGTAAGATCCCACCAAAAAATATCACCTTCTT + HHHHHHHGGFEEHHHHHHHHFFGEGHHHHHFFEEEFFFECHHHHHE?<:9C?@ @read_150_370/1 TGTCCAGAATATTATCCTTCAATCTGCCACCTGCTTAATAATCATAACAAAAAGAAATTTTACAATTATGAGCATATTTGCAACATTTCTATTTACATAT + DDBGGGGHHHF;@F;EGHHHHFGGHHFHHHHFHHHHEEHHHHHCHHHFHFFFCADFFFGBDBFFHHHHHHEE2DCDGGHHHF;B>::)6'%1;ABD=6;F @read_150_370/2 CATGTTGGAATGATACAAAGTTTGTTAACTGAGGGAATGAGTTAAAATATGTAAATTGAAATGTTGCAAATATGCTCATAATTGTAAAATTTCTTTTTGT + HFHHFGG;?9BD@59:6DDGGGGGFDBHG@HHHHHHHHFCFFHGEGGFHHHHHHHHHHHHHGHHHHHHHFFDBGBGBEFHHHFHEEAEFEBA58(>FBBA @read_150_371/1 CCACATTCCCTTGGTGGCAAGTCAATTGCGGGGACGCCTGCTTTGGCTGCTCACTCACATTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCT + DCDDDBDECHHHHHHHHHEHHHHHFHHHGGDGGHHHHHHGGEDDDGBCFF:9?ADHHEEBEEFFHAEFEEFHHCDGFHHFFFFFEFFDDHHHHHHHHHFH @read_150_371/2 AATGTGAGTGAGCAGCCAAAGCAGGCGTCCCCGCAATTGACTTGCCACCAAGGGAATGTGGAGATCGGAATAGCGTCGTGTAGGGAAAGAGTGTAGATCT + HHFHDGGEEEEFFGHG9129DHHHHHHHHHG?@?<6:72GE?7)+>=DHHHGHHHHHGGFHEG4>ED><.+6(5D:CHHHHGDH:GHHFFHHHFHDG@DF @read_150_372/1 AAAAAAAAAATAGGTATGGGCAAGATGACTCTAGGAGATTAGAAAAAATATTTTTGGCTGGGTTCAGTGGCTCACACCTGTAGATCGGAAGAGCACACGT + GGGGGEECCHHHHHHHFHHHHHF=DFFHHHHHHHHHHHHHHHHHHBFCBFHHHHHHHFFFGDAA9CEHDDEEBEFHHHED8EEE9FHHDFFC4@C@-1D9 @read_150_372/2 ACAGGTGTGAGCCACTGAACCCAGCCAAAAATATTTTTTCTAATCTCCTAGAGTCATCTTGCCCATACCTATTTTTTTTACAGATCGGAAGAGCGGCGTG + HHHHHHH?;1@BDDGGGDDDFB@CGE(5?.:EFHE?::7@EHHFGHHEHHHHHHD<=?@CE?=EC;?:CHHHEEEHEGHEFHHHEECEEBFHHHFCCEBBGGGFFHHHHGFEEBF4*..>FFHHH @read_150_373/2 AAAGGAGGGTTGTTTTTGAGTCTCTTAAGTGTGATTTAAGAAAATAATCTGTTTGGTTTGAGAGCTTAACCACATTCATTCAATTTCTTTGTTCACGTTT + HHB@FHHHHHHHHHHHHHHHD;..:ACFHHHFHHEGGGFEHHDFGC?;:=68EEFCEB48@CHHHHHHGHHHHHHFGHHHAHHFGHHHHFHHFB,-5=DB @read_150_374/1 CTCTTAACATAGACTAATTTATCAATGATCCTATTAAATATTAATAGGTACTAATTTTAGATCCATGTTTACAGACGAGAAAATGGTACTAATTTAGATC + 98DDBGHHHHHHHHHGHHHHHHHHHHH30CBGGHHFHHHFEHHHHFFEFHF;5<:(?49AA@BEBCE @read_150_374/2 TTCATTTTCTCATCAGTAAAAATGGATCTAAATTAGTACCATTTTCTCGTCTGTAACCATGGATCTAAAATTAGTACCTATTAATATTTAATAGGATCAT + HHHHHHDHHHHHHHHHH@GGGFFFHHEGGCHHHDCGHHHHHHHHHHFFGGEHHGE729=C@;EEEFFGHHHHHHF@CFHFDFDE6,5:@4DA@95>-,;9 @read_150_375/1 TCATTGTACACCTTAACTGTATACATTTTTTATTAAAAAATAACAGAACAGTAACATGTGAGGTTGTGGCTGTTATTATCATTAGTTGTAGTAATAGCAG + GEGGGHGGB>HGHHHHHHHFGHHG9DBEHHFHHHFHHHHHHHHFGBHHHHHHHHHFDEB::4>CEHGFEGFHHH @read_150_376/1 CCCAGAACACCTTTTTCATCCTGTGATTCTCTCTGAAATGTTAAGTGAGGAATTGAGTCAACTGAAATGTTGAATTAGCTTGAAAAGATTCATGACCCTA + HGFFGHHHHHHHHHHHHHHHHFDC7DEBGGFHHHEEHFDGHHHHHHFFDEHHHHFHFGGDCEHGGEHFHHGD791<4B@HGGFFHFHHFFHHEHHFDACE @read_150_376/2 AGCCAATGGCTCATAATAAATGTCTTTCTACATATCTATACCTATCCTGTGGGTTCTGTTTCCCTAGAGAACCTTGAGTAATAGAAATATAGTCCCTATT + HHHHHHHHHHHHHHHFHHHHHEHHHGG8/>,709@EE645EE>*;?GFFDDABGCHHHHHHHHHDHHHHD459;,';??42:.5*HGEDHHHHAFHHHEHHHHHHHFGFCHHHHHHHHHHHD6CEFFFEHHHF @read_150_378/2 CAAAAATACAAAAATTAGCCGGGCGAGGTGGTGGGTGCCTGTAGTCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATCGCTTGAACCTGGGAGGTGGAGG + HHHHGHHHHHHHHHHHHHHHHHHHHHHHHHHHHGGHHHHHHHHHHHHFHHEFHFFB@EGHHHE2>?CFFHHHHFHFHHHDEFGGDHB<:9-3E9>?CAAA @read_150_379/1 AGACCTAAAGTGTATGGGGTTCTATGTGAGCTGATAAAAATGCTCTAAATTTGACTTTGTTGATGGTGGCATAGATCGGAAGAGCACACGTCTGAACTCC + HHHHHHHHHHHHHEBEGHHHHHHHHBGHHHHHHFDFHHHHHHFFEEGG?=@CCF??GEDFHEHHHFHC?4/>71?HGGGD5C5BFFCHHHE>DDEGGFFH @read_150_379/2 ATGCCACCATCAACAAAGTCAAATTTAGAGCATTTTTATCAGCTCACATAGAACCCCATACACTTTAGGTCTAGATCGGAAGAGCGTCGTGTAGGGAAAG + =8EFEGCDCDEFHEDEEEGGEBHHHF@BFDFDCACG:2<64A*+CE6;;8@B/>8:.=BGCFDDABFFHHHHHHHHE@HHGHFHG@5EEEFFGHEGHHB= @read_150_380/1 CGAGAGCAGCCCTTTTAAGTGTAAGGCAGTGCACATCCACAATCTAAGGTTCGTTCTTTCTGTAAGCATTAAACAAGACCATCTGTGTACCAGGCCAGTG + 8FFGGGGGGGHHHHHHHHHHHHHHHHHHHHHHGFHHHHHHHHHHHHHHGGHHHEFFGHHEE=E?FEFCHFDDE;.0.+%'::GGHHHHGHBGDB?HHGHH @read_150_380/2 CTTACCCATCCTGTACTGTAATTGTTTGTATCTTGTGAGGGCGGGGGTTGTGTCTCACATCCTGGCATTCCCTGGGCACAGCACTGGCCTGGTACACAGA + HHHHHHHHHHHHHHGHH=GGHHHHHHHHDDHHHHHHHHEEBHD?DABC@5AC?GHHHHGGFE?DHHHGCGF=EEFHHHHGD6=<B>47BFHHHHHGHHHHHHEHHGG:<=65937BDH @read_150_382/1 ATTTCTTAGCATTTTTCTTGAGTCTATATCTAATCTTAATTCAAATATGTTTCATTTATTTTTATCAAAAGAATAAATTAAGAACCAAAAATGTTAACAA + <7-??9>><>><=A@DD;;>EBDADFGCHB=BDGFDEEGGFFEBGFHHHHGGBHHF??HHHHHHFHHHHH?DEDBEEBA?DHHHHHHHFFHHEEHHHA>: @read_150_382/2 AGGATTATACTTTCACTCAAGCCTTTTCAAAAGATTAATGCTCTATTTATGAAATAGCATTGTTAACATTTTTGGTTCTTAATTTATTCTTTTGATAAAA + HHG=EHHHHFEBGFHEEEEHEFHHHEEDDC@@886BEBCBE9DC?AA@FFHGGGGFFFF=:D>9DEFF?BEB;52 @read_150_383/2 TCTGTAAAATGGGAATTTTATGTCTCATAAACCCAGCCTTGGCTGGGCTTGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCAAGATGAGCGGA + FG?>BHHHC/DBEFHEDBDEGGCBDFHHFFHFBBHHHHHHHH?;42E=DEDBF@>FHHHHFHHGEHH=:@DB<75:9E @read_150_384/1 AGGTTAACTGTTATCTGAACTCCGAGTTACAAAATGATGAAGATTAGTTTTGTTAAAGATTCTGACTGTGAAATCATCAGGAAATATATTTGTAATAGGC + GEFHHHHGHHHHHECFHHHHHHHHHHHECGDFFGGHHHHHHFFECGGFHHHDFHHHHHHHHH>@F9?/=EFF@BD @read_150_385/1 AGAGTAAAAAGAGATCTTCAAGTTTTCCTACTACAGCACAACAGTTTGAGAAGTCAGAGGCTTCTACAGTTTGTAACTCAGTCAGTTAAATTGCTAGATA + HHHHGGEGHHH@GHHHHFDGEGGFBDDHHHHFGGHHHFEHHEFHHFHHHF@GHFFEEED<->GGGHHHGEGFEEHHBDEG @read_150_385/2 AATACAGTCAGTTTTAAATTGAGGACTACAAATATCTAGCAATTTAACTGACTGAGTTACAAACTGTAGAAGCCTCTGACTTCTGAAACTGTTGTGCTGG + :88DBHGHHHHHHHHGHHHHHFBEE?HFF=DBGGGHHHHHHGEHHHEHHHHHHDDFFHGFFFFE=.*&/;CHHHHCD@FFD(>>,,@GHHEHFHHEF@:' @read_150_386/1 CTTTCTTTAAAATGTATATAGATATTACTTTTAAATAGCATGCCGTTTTGTTTAGTGGATGCTTTCTCTGGCCAGAAGCAAAAGAAAAGAAAAGAAAAGC + HGHHHHHHHHHHHHHHFHGFHHHHHHHGGHHHHHHHHHHHHEEA646BCDFGGG=CDA??HHHHHHHHHEHHFEAG @read_150_386/2 GGAACCATGATCCCTCTACTTGTTCCTCATCTTTCCCCTCTTCCTTGAGAAACCCTCTCCTCTGCTTTTCTTTTCTTTTCTTTTGCTTCTGGCCAGAGAA + BBGCCCBDDGGHHGGHHHHHHHHE=DB<<79E@@@?>:??946+8ECFFHHFF@CFEB=@BD.EEDF;@GFAA?@;DDHGDDGHHHHHEEEEEAAEHHHF @read_150_387/1 CCCAAAACTAAGTTCGCTTCATGTCTCTCATGACAGGGAGGAAACTTAGTGTTCCTTGGAGACCTGAAGGGATGCAGTGAGCTTAAGAATTTTCAAGAGC + HHHHHHHHHHHHHH@:@EGGGHHBGF@*>CBCGBEHHHFFD@DGHEE<>EFHHHEEDDFEHHHHHE1AAEDHHFDFEE77@ @read_150_388/1 TCTCCCACCTCAGCCTCCCCAGTAGCTGGGACTACAGGCACCAACCAGTGTGGGCCCAGCTAATTTTGTATTTTTTGGTAGAGTCAGGGGTTTCACGATG + GF8FEGHHHHFFGGGGGE8D?CGHHHHHHHHHAHHHHHHE>6,::1)2%&85 @read_150_388/2 GAGGTCAGGAGTTTGAAACCAGCCTGGCCAACATGGTGAAACCCCTGACTCTACCAAAAAATACAAAATTAGCTGGGCCCACACTGGTGGGTGCCTGTAG + HHHHHHHHHHHHHHHHGF75>2-<@C7@GE9EECDEECCB??GHFE@A@D93;GGGBFHHHGFFEGFHFF@.<354,2*'>AABB8EEHHHHHEG?F??F @read_150_389/1 ACCAGTCCCAAAAATGTTTTTTAGGAATAAAGTACCCAGTTTCCAGTGATGTTGTAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCT + HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHFFEEBDDD>GHHHHHDFHHHHHHHHHFHEACEEHHHHHDEEBFFHHHHHHHFFHHEFHFFBFFDHGEEE9 @read_150_389/2 TACAACATCACTGGAAACTGGGTACTTTATTCCTAAAAAACATTTTTGGGACTGGTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTG + DDDDHHHHHHHGG==:641265>DDBE?6GDFHFGDEDFHHHHHHHHHHFCFHHHHHHHHHHHHHHGFFFHHHHH8>@=FHHGBHGGF5&0EDDGEE5;< @read_150_390/1 AGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAGAAAATGGCTGTAGCAGTTCTAGGTCTCACATCTATGTACCACACCATTCA + HFHHHHHHHHHGGGHHHHHHHHHHGHHFG@@5;4;BGGEAB?FEHBHHHED?BFHHHHF=?<= @read_150_391/1 CGTCTCCAAAAAAAAAAAAAAAAAAAAAAGCACGGAAACACACACACACACCTCTATCACAATGTGTATTCATTAATATAACTCATCCGCAAACTACACT + GGD@FHGHHHHHHHHHGGGGHHHHHHGBFHHHHHHGHHFFHHE;.6>=EBGEHHFHHHHHHB>D?DD; @read_150_392/1 ACAGACTAATACAGGCGGATAACCAGAAAAAAAATGAAAAAGAAAGATAGCTAGTAAAATAAGTGCGTTGCTTTTTTATTCCATGTAGACTCTATGTCTT + HHHGHHGFEEGEEEGHHHHHHFEBFHHHHHBCBBBEFHHHHEHHGHHHFHHHHHHHHHHHHHHHG=1AFHEEEFFHHHFHHHHHBFHFFHHHGGEHHHGG @read_150_392/2 AGAGACAGATCATGAAAAGATTCTGGTAAATGGTTGGAGTTTCAGTGATTCAAAGCTGAGCACCACACTCAGTACTTTTTATTCTCTTAACCCTAAAGAC + HHHHHHHHHHHHGGGHHHGG7C?GGHHHHHHHHHEHEHHEB?B6.:DFFHEFBBAECC=B9+CEE5BD@HGHGB-8:.9EDAC=B?C@B@GGFHHHHEF4 @read_150_393/1 GTTCGAGATCACCCTGGTCAACATGGTGAAACCCCGTCTCTATTAATAATACAAAAATTATCCAGGTATGGTGGCGCATGCCTGTAGTCCCAGCTACTTG + GHHHHGGHHHHHHGGGEGHHHHHHHGGBGFHFF=9=260&<5AEEHHFHHFBEFGFHHHHHHHHHHHFE6;;09AHHHHHHHHHHHHFBC?.;><(.A@.GHBCEC= @read_150_394/1 CTTTCGAGGTCCTTCTTTATTGGCCATGCTGAATCATCTCTATTCCCAAGTTTTACTTGATAATAAATGTTCAGACAGATATTGCATGCTCACTGCTTTC + HHHHHGGGFHHHHHHHHHHHHBEFGEEEHHHCDFFGDC?BDCEEGHHHHHHEHHFHHHHEDFHHF?GEEHFEFGG/8BHHGGH?DHHD?FGHHHFHHHHH @read_150_394/2 AGGTGTTCACAGCCCCCGAGGCTTTGAAAATGGGAGGGCTTTTGAGGTCAAGTAGGATGAGCTGCAGGTCTAATTTGAAAGCAGTGAGCATGCAATATCT + HHHHHHHHHHHHHHHHHHHHHHHHHCDCFCEHGGFHHFEHHGFGGHFD>CD@>CGHHHHHFEHHGGEFHCA@CAC6DHHHCCFHHHHH8.BBDEHEFDFD @read_150_395/1 CATTTAAGTCTTTAATCCATCTTGAATTAATTTTTGTATAAGGTGTAAGGAAGGGATCCAGTTTCAGCTTTCTACATATGGCTAGCTAGTTTTCCCAGAA + HGGGB9@@@EA20?FF===<@DEEBHHHHHFFCFFDBEECCEEHHHHHHHHHHHFE?FF95:;0+5 @read_150_395/2 GAGCCCTCAGAAATAATGCCACACATCTACAACTAACTGATCTTTGACAAAGCTGACAAAAACAAGAAATGGGGAAAGCATTCCCTATTTAAAAAATGGT + DBBEGDFGHHHHHHHHHEECEHHHHGGFHDBD6629C8BB5CCEBEB9;@GGGHHHHHHFHHHFHHHGGFDABGG@BCE@>+>=>CFEEE=B)6;29,4A @read_150_396/1 TCCTTCAGACTTCTGAACTTTTGCATTTGCCGTGTCCTGTGCTGGAAATGCCCTTTTTACCTCTTGACTGGGGGTGGGGGAGGTCTTGTTCATTTAAGTT + HHHHHHBDFF@DGGGHHHHHHHHHHHHHHHGFHDGGGFFD>7@EDHHHHHHHHFFHHBFDDDAD=B=3GDEHHFGFFGGGHHGHHHHEFHHHHHHHHHHG @read_150_396/2 TAAATGAACTAGAACTTAAATGAACAAGACCTCCCCCACCCCCAGTCAAGAGGTAAAAAGGGCATTTCCAGCACACGACACGGCAAATGCAAAAGTTCAG + HFHGGB?C/;97<68FHHGBF@EHHHHHHGFB>@@HHHHHHHHHFFEFEFHHHHFGGHHH=@ACB@GDC853F98DCDHHEFFFFHFF @read_150_397/1 TACCTGGGTTACACAGTTTCCTGCTCTTGGATTCACCAAAATTCATTTAATGCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACGACCTAATCTCGT + GGHHHHHHHHHHHE=DFEEE@DFHHHGDDGHHHEEGFFDFHHFGB8EFHHEHHHHHHBAC=;=BCC>EEBDBFEHGGEDHHDEEC>1(8GEFHHHHHHHH @read_150_397/2 GCATTAAATGAATTTTGGTAAATCCAAGAGCAGGAAACTGTGTAACCCAGGTAAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCACGGTGGTC + HHFHGGHH@EHHHHHHFHHHGGGHHHFFHEGF*BF@<-=<@@EHHHHHHHGEC<.>>5>EHHEC?EEG@D@CB:AFHHHHGFAB?<>39-,.GHD366BF @read_150_398/1 GGACACTTCTATCAATCAGGTTTCCATCAGGTTTCTTGCAAATGGCCGCTGCTCTCTGTCCACCTTTAACTGTGAACTTTTCCAGGACAGGGACTGTATC + HHHHHHHHHHHHHGHHHHHHGGGGHHHHHHHHGHEHHHFFHHHHHHFGHGGDDFFFFHHHHFBGCGEHDAEHHE6*3?:>EBHHHFEEFEEEFB:FHHHHBGC?GGHHH::F@F @read_150_399/2 TTTGGGGCTATTTTTCTAGATCTCATAGGTGTGCTTCATTCTTTTTTATTCTTTTTCTTTTTGTTTCCTCTGACTAGATCGGAAGAGCGTCGTGTAGGGA + E?DEDGBEGGGGGB@CDEEDGHHHHHGEHHGGGEDFFHHHHFHHHHHHHHHHHHHEDBD8<5535AB=A@DDEDE@),836BE.3.777(70-2BFFEFCD/HHHE9DFADHHGGHHGFHHHHHHHHHHHFHHHGFFE@AFH=FGEFC?E4DDDEBFGGBHEE6E @read_150_402/1 AGGGTGGGAGCTAAAGCAAAGATCTCATCAATCTACAGAATGAAGGGACAGCATGGGAGATATCTATGGCCCACCCAGGTCTAAAATTCAATGAGTTTCT + HHHHHGFEHHHHHHGHHHGGCFHHHHHHHFHGGGFGGGBGHHFHHHHHHCBADHBEE>086848:>E7%(5.BF @read_150_403/2 AAAACTGTTCATCTGTCTCCTTGTGAATACCTTAGAGTAGGGGAGGGCCATGATTGACACATCTGTTGTTTGAGAAATGTCTGATGCCCTCATTAGGTTT + B=FHHHHHEHHHHHHHHHHHHHHH>EFGFEHHHHHHHHHHHHHHHCDC>>DDEEEFDFGFHHHHHHHGG>;@E-0:>190<68.EHHHHH@5BHHEA9FF @read_150_404/1 ACAATAAACTCAAACAAATTTACAAGAAAAAAACAACCCCATCAAAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCG + GHHHHHHEHHEEDD8FFHHHGHGGHHHHFHHHHHGDHHHFGGFFCEHFEFEHHGHFHHFHHHCCBFFHHHFCHHFGGHCGEHF?DDFF/&9? @read_150_405/1 CAACTTCATCTAGAACCCAGTATAGTTCCAGTGGCTTTTTAGGGCCTCTCCTGGGCACCGGATCCAGAGCCACTCAGAAGGACGTTGCTGAGTTCCTGTC + HHGGHHHHHHHHHHGGHHHHHHHHHHGGGHHHGGGHHHHEHHHHHHHFFFHFFHHEEHHFH@FFHHFFHHFFE8FHHHHFHHFGFHBFCCHBFGECCFHH @read_150_405/2 TCCCTGAGGCCCACCTGCTGTCCTAGAGAGCTGTCCCCAAGCCTAAGCCCCTGTCACTGCTGGGAGCCGGATGCCCGGGCCCTCTGCTGGGTAACTGGGG + HHHGGGGFCHHHDGGHHEGCFGFHHHHHDFEGGCHHHHHHGBFHHFDBFCFEFHH@>F,,'0-32257(6;GGHHHHGHEDCHHHFHEBBE@D @read_150_406/1 AAACCCCATCTCTACTGAAAACACAAAAAAGTAGATGGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAAA + GEEFEHHHHHHHHHHHHHHHEHHHHHHHHHHHHHC;03,1>4CFHHHHGFHHHHHFHHHHE;+/-9EHHHFHFBDGGBEFHHFBDF?==BHHHHHDFDEE @read_150_406/2 ACTTTTTTGTGTTTTCAGTAGAGATGGGGTTTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGTCGTATCATTAAAAAAAAAA + GHHHHHHHHHBGGGGFFBD?;>5@D<8629 @read_150_407/1 AGTTGAGATAAAAGCCTTTCTGGTGACCTCTAACCCCCTGGTCTGGCAGCTGGTTTCAGCTTATAATTGCTGAGAAGGTAAAGGTGTTCTAGGATAGTAT + DCDDDHHHHHHHHFGGBEHHHHGBGEEEEEHHHHGHHHHHHHHHGGCAAFFECDF:EGGHEHHH@@EBGHHFHHHHHHG4DHHBDFFFHHHHFCDAAFC4CBEEEFFC@HHHHHHHHHHHGFHFHHHHHECCBEB @read_150_408/2 GGAAGGATTGCTTGAGCTTGGAAAATTGAGGCTGCAGTGAGCCATGATTGCACCACTGCATTCTAGCCTGCATGATGGGAATGAGTCCCTGCCTAATTTA + HFCDHHHHHHHHEBCEGEEDBGGFGAGF>>FGGGGFFHFFG@A?HHHHHHHHHHHHHHHHHHHHHHHHHC@@HHHHHDG6EACFEHHFHFD4*7BD29>2 @read_150_409/1 GCATGAGATGTCCTGGTGTTCAGGGAACACAGTTAAACAAAAGTGTGATGCTGCTGTGGGAAAGCCTGCCCCAGGACACCACCATACCATGCTGTCTTCA + FGFBEGHHHHHGHHHGGHHHGFFGHHFBFHHH?;;DDB.EFHHHHHHHHHHFGHEFFDEFECEBEHHCDB?HHFHHHHHHHHHHHHHDFHHFB596 @read_150_409/2 AGGAGAAAGCATTGCCTGGGAATAAAACTTCAGCTGGCAGGAACTGAAGACAGCATGGTATGGTGGTGTCCTGGGGCAGGCTTTCCGACAGCAGCATCAC + HHHHHHHHHHHHHHHHHHHHHGGGB@CFB=FHHHHGEB:BE//8=HHHHFHHHHHHHHHHHHHFHHHHHHHHHCDDHHF@HHHGBD,.4743=FF.91/A @read_150_410/1 TGCCCAGCCCTTGGTACACCACTGAGCCCTGGCACCTAAAATAGTGGCTACTCATAGCAAGCACTCAGTATCTGCAGAATGAACCAATAGATCAGATGGG + HHGFBDEDHHGHHHHHHHHGE=AADBEDDGIGHHHHHHHHHHFF?;=>EFHFCDFHHHHFHHFFHHHFFFAAEEFHGHCDD5A9DEADHF24/;@GE8.2 @read_150_410/2 GATCTATTGGTTCATTCTGCAGATACTGAGTGCTTGCTATGAGTAGCCACTATTTTAGGTGCCAGGGCTCAGTGGTGTACCAAGGGCTGGGCAAGATCGG + HHHHHHHHHHHHHEHHHHEHFGGHGHHFF?DB@EHDDDAEFFEHHDDGFHHHHHGED84+;*3?BBFHHFEEHHHHEEHHDDEBHGGGFGG9;37@>>>: @read_150_411/1 GCATCTAAAATTTCTGAAGAACAGCAGTGTGTTATGTCTCTGAGTTCTAACAACAGACCATTAACCTACTCCGTACCGAGGGAGATCGGAAGAGCACACG + HHHHGGEFFFFGGHHHHHHHHHHHHHHEBFGGHG?HHHHHHDHHEGGGGGFDDGHFDA???FECBFFD4@A9%3/:A@F?DGGEBDFCFHHHHHHDD@,; @read_150_411/2 CCCTCGGTAAGGAGTAGGTTAATGGTCTGTTGTTAGAACTCAGAGACATAACACACTGCTGTTCGTCAGAAATTTTAGATGCAGATCGGAAGAGCGTCGT + GGGHHHHHHHHHHHFG:;/422>EEDD;EEEBFFEE @read_150_412/1 GATGTAAAGTGAAAAATTAGAAGTACATTTAAGAGTGACATATGAGAAAATCATTAAATAATGCAGAAAGGGGTAATTAAGATTCATACCAAGATGAACG + D7036@DBEGGGGFHHHHHHGFFDD-*:5B@FHGHHHHHFHFHHHHFFEFEHHHHHHHFE=AD@?.4CDD<-/539BCDDEEEHH=5A5''0,8=DFHHH @read_150_412/2 TTTGTAACCAACTTTTGTCATTAACAATTTACTGGACTTGTCAACAAACCTAAATCTGTATCGTCTATAATGGCTACGTTCATTTTGGTATGAATCTTAA + CEEGBGB@@5EHHEGGHB@GFF@DDCC=:?EFGHHEE93ABHHFEEHHHHFGC@?FFGHHHFHCGH@CGEHHHHB41<@DCDDDGGHHHHFDGG?2>8BFHHGHHHHHHGFHHHHHHHHHHHHHHHHHHHHHHFFHHGHHG@EEDDHHHFFFHHGGHHFHFHFHGGA9=<=@E@?EE.CCCEFDEGFF @read_150_413/2 TGAATATCCTTTATTTCTTTCTCCTGTCTGATTGCCCTGGCCAGAACTTCCAACACTATGTTGAATAAGAGTGGTGAGAGAGGGCATCCCTGTCTTGTGC + HHHHHFBDDHE;AFDD@@EDCHHHHBHHHHHHHHHHHHHE<>3 @read_150_414/1 ACGTGTATGTGTAAGGGCTATCACGTAGATTGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAAA + CDEEFB27DD@CDFGHHHHHHHHHHHHHHHHHGHHHHHGDDHHHEBFEFGGHHHHHFFHHHHHHHFHHHHHHEE@FGGFHHHHHHHHHHHHHHDC/,7/< @read_150_414/2 CAATCTACGTGATAGCCCTTACACATACACGTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAA + GDC@A@EHF@*3@?,6CEG@FFEFDBGA?CDEFFHCA @read_150_415/1 CAAATGAGACCAGACTGCAAAATGAGTTTATGTTCCAAGACTCATTCATTTATTTTTGGGTTTCAATCAAGATCGGAAGAGCACACGTCTGAACTCCAGT + HHHHHHHHHHHHHHHFHHHEEFC;D65666FDHHHE?<'@>?CFHHGGGGFHHHFBEHEFGG?GFHHFHEBBFFFHHFFFHHHHHHGGHHHHFFBHFHBG @read_150_415/2 TGATTGAAACCCAAAAATAAATGAATGAGTCTTGGAACATAAACTCATTTTGCAGTCTGGTCTCATTTGAGATCGGAAGAGCGTCGTGTAGGGAAAAAGT + HED@:BGHHHHHHHHHHHHHHHHHHHC=EDBGGEHHHEFGHHHHHHHHHHHGHHHHHHHHHHHHHHHFHHEHHEEGFEBE>CEFHHHHGHEFC@D>)5D@ @read_150_416/1 TTTTTTTTCCATTTAGCATAATTACTTTGAAATCTGCCCATACTGTTGTCTGTATCAATAGTGTATTCCTTTCATCTCTGAGTGTCATTCCATTTTGTGG + HGGGFGBBDGBEGGGFGHGGGHHGGHHHHHGGHHEDGDHHHHHHHHHHHFFGEHHHHFHGFHFHHFFBEHHHHFFGGHE?GGE8A?AD.DEFFHGEBEFD @read_150_416/2 GCAAATGAATAAGCAAATTATGGCATTTCCACAAAATGGAATGACACTCAGAGATGAAAGGAATACACTATTGATACAGACAACAGTATGGGCAGATTTC + HHHGEBCEEGGHHHHDHHF8>3(8?HHHGHHHHHGDHHFFHHECBC5DEEFFHHFHHHHHBDDGDGHHEHHHHHHEEE?GFHHF:-388861,=FFEFBA @read_150_417/1 AGAGTGGTATTAGAAGCCAACACGTGGATGCCATGTATGCTCATTGTTACTGAGGCATCATTGTTTCTATGGGCTCCTAGCTGACAGAACCTGGAAATAT + GHHHHHHHHGHHFHHHHHHHHHHHHFHHBHGGHHHHHHFEGHFFFHHCHHHHHHGB=A996)AAHHEEH9CA.DDGDEFAHHFGFFGGFHHHDHHGGFG( @read_150_417/2 ATTATAGATAGGTGTATACACACAGGTCAGCATATTTCCAGGTTCTGTCAGCTAGGAGCCCATAGAAACAATGATGCCTCAGTAACAATGAGCATACATG + HHDA@=B/66*A.>>C;A?@FGGHHHHHHHHHHCFDEB?E?>7A*16DDEEDDBFFHHHHG=DEHHHGD @read_150_418/2 TCTTTCAACAAATTGAAATTGAATTGCTTTTGCATCTTTGTCAAAAATTGTACATGTTGGGCATACATGTGTGGGGCTATTTCCAGGTTCTATATTCAGT + HHHHHHHHHHHHHHHHHHHHHHHHFGHHHHHHHEEHFAAA;:DFHHHHHHHFGFHHHFHHHFHHEEBFGHHHHHHFHHHHFEHF?5>+:<-8)11?EHEA @read_150_419/1 TAGATTGGGAAAGTAAAATGAACTTTGTCTGTAACTGAAAGTCATCAGTGACCACATTGTAGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACC + FHHHHHFFGGHHHHHHHHGGHHDDHHHHGFE=FHHHHEHHHHHHBHHHHGHHFEEHHHFE?C=EFFHHF?ED6?>D>CA;.39>CD=*BHG=:BEEG@D5>=CA@<7EDCFFFGFFFHHHBAGGH=D@FHHB=DD?EGGHF=:>.39=ECCFHHHHGHHH;@ @read_150_420/1 CAAAGGAGTTTCTGAGAATCATTCTGTCTAGTCTTTATACGAAGATATTTCCTTTTCTACCATTGAGCCCAAAGCGGCTGAAATCTCCACTTGCAAAGAT + HHHHHHGHHHEEEHHHHHEEG?FFGHEGHHFFFHHHHHHHFGGGHHHHHHHHHHC5BDHHFHE8-'%&'%)/87ADB;>FEFEBCFFBHHHE @read_150_420/2 TTGCAAGTGGAGATTTCAGCCGCTTTGGGGGCAATGGTAGAAAAGGAAATATCTTCGTATAAAGACTAGACAGAATGATTCTCAGAAACTCCTTTGAGAT + FFBGGGGF==.75,98@BHEHHHHHHHHHC',DB@@FFEEFHGGFFHHHHHHHHFHGHHHHHHHHFFGEHEHEGEEC9>=:@BFF@>EFFHFHE<.0%)1 @read_150_421/1 CTCTCTAGTAGCTGGGACTACAGGCGCCCGCCACCACGCCCGGCTAGTTTTTTTTTGTATTTTTAGTAGAGATGGGGTTTCTCCGTGTTAGTCAGGATGG + HEFHHHHHHHHHHHHHHHHAGHHHHFFFEEGGHHGGGGFHHHHHHHEGFFHHHB?FGGGFHHHHHHHHFEB:352FGGGHHHDHHFHHHFFFFEHHHHHFFGHCGGEE@FHHEFF @read_150_422/1 AGACCAAGAAGAGCTCCCAAACTGCACAAATACATGGAAATTAAACAATTTACTCCTGAATAACTCCTGGATGAACATCAAAATTAGGACATACATAAAA + HHHHEEDGHHHFGGGC@E?FGFGEGHHFHHHHHHHHHHHHFHHHHHHH?D@FHH>5@9&);?EFFFEFDEEEFB>@59DDEBCFBGFGGH;A:DBEEEEE @read_150_422/2 TTTGGTAAGTAGTGTTCTTATTTTCATTAACTTCAAATTTTTTTTATGTATGTCCTAATTTTGATGTTCATCCAGGAGTTATTCAGGAGTAAATTGTTTA + HHHGG?>@FGHHHFFHHGHHHFB=>07;/A,9ADD@C:<66@514ADAGG @read_150_423/2 CTGCTACTTGACTGAATTCATTTATTCTAGTAACTGTGGAATTTTTAGGGGTTTCTACATACAGGGTCATGTCATCTGCACACAGGGATAATTTTTCAGA + HHHHHHHFE;GFE;<67HHHHHHHHFFDDBGGFFFGDEGHHGEFBBB7:;0,:.6@+,-:>6GFGFHHHFHFGD@9,7<>)>?CF @read_150_424/1 CGTCTTCGTCCTCTCTCCAGTCCTCCTCTTCTGAGGTTCAGGGAGTGGCCGCAGCGGAGGGGAAAAGCGAGACAGGTTAGTCTGGGAGCAGAGAGCACCC + HHHHHHHHHHHHHHHHHGHHHHE=BBCCF=BFGHHHHHFHHHHD@HHHHHHHGFEHFGHHHHFEHHHGHFHHFEC@A8BHFHEFDCFBED@1/+. @read_150_424/2 GTGGCTTGGGAATTGGAATGCCGGCCTAACTCCAAAGCCCACACTCTTAAAACCACTGCGCTGGGTGGCTGCTCCTGCCGAGCGCTCTCTGCTCCCAGAC + HDE@BHHHHHGGEEHHGHHHG@BEHHHHHHHHHFD-@=CFEGHHHFFFEH?7BAGHHHEEEFFGGGFFDBFFHHD.?AFEHG51739: @read_150_426/2 GTATACTGAGGAAGGGACCTGGTGGGAGGTGATTGGATCATGGGGGTGGTTTCTCCTATGCTGTTCTCATGAAAGTGAGAATTCTCATGAGATCTGAAGG + HHHHHHHHHHHHHHHHHHG=BB83>DDA.:-49<-ABB=FBFHEGECFHFHHHHGGFHHBBD85>EEHBABDFHEECHFDEEDGDEGFEBBFFHHHEEEG @read_150_427/1 TGGCATTTTACTGGTTAGAATCTCATTTACTGCATACAATAAAAAACTCAAAGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGT + GHHHHHHHHHHHHEGHFHHHHHHHHHFHHHHH=>+BDHHFGFFHHHHHHHHHHHDFFD8,47EBCAHHEEEFB@9GGFB<@FHHHFHGGGEBBEGGHHFADGEBF@;:?>E @read_150_429/2 GCATGGCATGCCATGTTGGAGGTGGAAGGGGGCACTCTCTTCTCATCCTGTCTTCTAAAAAACAAAACCAAAACTCATCTATTGACCCACTGGCTAAGAA + HHHHHHHHHF@2<=@@DD?:6GGG;<.83CDEEHHHHHHFHD0CACA7B@:EECBGHHH..6BBDB@>:>@AEHHHFGHF@EECFEHHHHHHHHHHHHHFGG<><@CBE;B=.DEHHHHB:--+2EHHHHHHFGFDDBFEFEECFFEFD/C@A @read_150_431/1 AGAGAAGAGGTAGAAGATGACTCCTTTGGTAGAGGTAGAAGATGACTCCTTTGGTAACTGGATCAACTGGCACTGGAAATCAAGGAGGAGGAATAGCCTT + HHHHHHHHHHHHFFGGGHHHGHHHHHHHHHHHEEGHHHHHHHHFFE?7EFHHFHHHHHHHHHHD@A=++EABFFEGHEGGHHHHHHHHHHEHFHB%*ADH @read_150_431/2 CCTCTGAGACATGTCTCCTGGATGTCCCACTGTACCTCCAACTCAACACGTCCAAGACAGAATCTGCTATCTTCCCCCAAGTGTGTTCCTCCTCCTTGAT + HHHHEFHHH=B@FHHGFHHHHHHECHEFDEEHHHEHHHHHHHHHHHHHFEHHHHHHHHHHDGG=>GFHHHHHEEHFHHGHFGFGACAC>@EBFHHHHHHH @read_150_432/1 TATTTTGAGAGAGAGAATATATTCACATAAATTTTATTATAGGATATTATTATATTTGTTCTATTTTACTATTAGTTCTTGTTAATATCTCTCTGTGCCT + HHHHHHHHDFF@BBBDGGGHHHHHFHHHHFHHGHHHHHHHHEF?2/:BBE;@GHHEEHBAHHFFC9;DCFDHHHHB86=DF???B0>:CFFDFHFEBFDB @read_150_432/2 TGATTTACCGAAGCCTAAGCGTCTAGATTGAATGGGGAGAAGCAGATCAGAGGATATCATTCCACTACAGTAGACACCCTTATCTATGGGGATATGCTCC + DDDGGHHHHHDDCGFEEEEHHFFEEEHHHHHHHHHHFDGFFFFEEFHHHHGGGHHHHHHHHHHBHHHHDEHHHHHFHHHFFHHH@;:;C/*8>:?7,4:A @read_150_433/1 TGCCCTGGATGGTCAGGGACTTGGAAGAAACATGATTGGAAAACTGGTGATGAAAAAATTTGGGCAAGAGGAATGTGGATGGACCTGTCTGAGTGATCAA + HHHHHHHGEHHHHHHGHHHHHGHHHHHHHHHHGFFDBFFHFEFFHHFHHFFGGGHFHHFFHH@<ECDHHDDDDEGAAFFCBGFEGBB@>FGGGHHGHHHHHHHHHFDDDDBCFE @read_150_434/2 TTCAAATAGGCATTTCTCTGATTATATATAATGTGGAGCATCTTTTTATATGATTACGTGCCTTCTGTATATCTTCTTTGATGAGGTGTTTGTTAAGGTC + GFDEHHHGGDHGFFHHHHHHHHHFGHHHHHH?CDDBHHFDHHHHFHGIGGGHGHHEHHHHGGHHDF86@@??EGIHFHHHBDGDHFHHHHFGIFFFGFHF @read_150_435/1 CCATGATGGATGAGGAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAAAAGAAAAAAAAAAAAAA + HHHHHHHHHHHHHHHHHHHFHHHH?HD@HGFHHHHHHFGHHE==FHHFGF5;(7>;;6;=EEE>:A@CCHHGFBHGGBB/:AC@A(.>EFEFFHHHGBEH @read_150_435/2 TCCTCATCCATCATGGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAA + HEEFHHHHHHHHHHHCAGHHHHHHHHHHHHHHHHDBFH@B9CEEFEA4:ADDFFHHHHHFEGEEB?:DFHHHHGI?DEEE@@>:6.GHHA@:31 @read_150_436/2 TTCCAGGTCAGTCTCTTTTAACTGCTCTCCTGAGTTCAACTCGCAGTTGCTCTTAGCTGTTCACCTCTTTTCTCACTTTGGGTGTGTTGGCTTTATTACA + EE6DDFDGGHHHHHHHGFHHHHHHHHHHHHHHHFD5;BFGFEAGFHGEEFGGGGGGFBE=DDDHFEEDFFIGGHHHHFFDFB?;67<>BD@EFF?GEGFE @read_150_437/1 ATCTATGTTCATCAGGGATATTGGCCTGTAGTTTTCTTTTCTTGTAGTGTCTTTGTCTGGCTTTAGTATCAGGGTAATGCTGGCCTTGCAAAAGGAATTG + HHHHHHHHHHHHHHHHHFGHHHHHHHHFFHHHHHHHHHHHHHDBHHGGHHFFFFHFDACFFHHFHHFF?EACFFDHHHGGHFHHHHGDBE<1(503BEBG @read_150_437/2 TCTCACAGGACTTAATGGCTTCACTGGTGAAGTCTACCGAACAATTAAAGAAGAATTAATGCTAACCCTTTTCAAACTCTTCCAAAAAGCTGAAGAGGAG + HHHHHHHHHGDD8GE=CBDDEEEHEGGEBG;EFFEHEHHHHHD?:>DFFFHHHHHHHHFHHHHFF?FFHHHHHHEHEFF??7>A;DEFFHFFHEHECCFF @read_150_438/1 TGGGTGAGGGGAGGGGGCAGGACTGCAAGCATCTAGAGGGTAGAAGTCAGTGGGCTGTTAAACATGTTCTAATGCACAGGACAGCCCCCAACACAAAGAA + HHHHHHHEE2DGHHHHHHHHHHHGGHHGFFHHHHHGF'(,.6.=B;-:.(0H7:=D@8CHFFFFFGHHFHEFGGDGEGGHHHGHHHHHEGGFHHHHEBAEEEBHHHGGFEFEE@@BECC:CDFHBHHGG @read_150_439/2 GCAATTGTTTGTTAAAGAAGGATTAGAAACGGCTAGGAGAGAGTGAATTTGATAGTGTGGTGGAGATAGCTGCGGAGAGGTAGAAGGTGGCATAAGAACG + 226:?6DEHHHFDED3-<@8AB4<4C<>@=<5>5<:BFFFDEB@:6@DBE?FHHHHHHHHEG=@@HBBDFBEDADHHHFGDHHHFEGHBEHHEEE @read_150_440/1 CTACTAGATGGTGCTATGATTGAGGGACCCAAGACCAGCTGAATCCCATTATGATGAAGCCTCCTTTTCTTCCCTTTCTCCTGTCAATGTTTCTAAGGAT + HHHHHHHHGEHHHHHHFFEFHFHHHHHHGG@BAHHGECDFEHFHHFFGFHD+80@>@FHDHHHHDFHFHHFFGFDHHHHEHHHHGHHHFGFFEHHHHHFE @read_150_440/2 TTGGAATGAAAACCTCAGTTTAGAGTAAAGCATGTCTGCGCGCTCCAGTTGATTTGCTAGTCCCCACCCTGTGCAGTAATATCCTTAGAAACATTGACAG + HFHHHHHHHHHHHHHHHHHHHHHFHHHHHGGHHHBFF@?@DDDFHHHHEHHHHHFEHDGGHHGF<8HHFFDEHHHHHHHFHHHHHHFHHHHFFED5DEGHHHHFBFHHHHFEHHHHHHGHHGG @read_150_443/2 ATGGGAAAGGTAACAGGATAATAGTATATTTGTGAGATATCTGTTTTTCCAGTTTAGTTAAAAGATTAAGTTTACTGTAAACATATACTGTACAAAGCAT + HHHHHHHHHGHHHHHHHHHEEEHHHHHHHHHGBEGDFFCGFHHHHF:@:GHHHFHHHDFGHHFHHFHHHHHHHHHHFBGGGDFHHHGHHGDHHHHDGHHH @read_150_444/1 AGTTAGTGATGTTGACACCTCTGCATTTTAACACTGGGATTTCTTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTC + HHHHHHHHHHHHHHHHHHHHHHHHHHHHFHHHHFGGHHHHHHHF?C=9CEEDBFC@<79>578-9DBCCFFFE/&(/6<, @read_150_445/1 TAAAGGAAAATATGTGCTATCAATGAGGTACCCACAGAGGACAGGCACAAAGGAGCAGTAGAGCCTGCAGAGCTAGACTAAAGTTGTATTTATTTTTTCT + HHHHHHFEDEFEECHHHHHHHHHEEFFFHHHHHHC>FHHHHHHHHFFD?F>478-1>DDBD;6>;?A?DFHFDFHGGBDGB9C>G@39<'178<:BFHEH @read_150_445/2 CCTGGAAGTCACGCTGATTTAAAGAAAAAATAAATACAACTTTAGTCTAGCTCTGCAGGCTCTACTGCTCCTTTGTGCCTGTCCTCTGTAGGTACCTCAT + HHHHEEEEGHHHHHDEHHDBDEFHGE?HHHHHHHHHHHHHFEDE@EFEHHFFCHHGEEGGEFGBHHHHHHGHH:GFG>CD>CEGFBEB/,;5;><.9:;@ @read_150_446/1 AGTAGATAGATCCATGATATATTCATAAAGTAGCTCTCCTAAGTATTTCTTTCTAAGTATTAGATTAAAAACATTTGGTAGCCAGGTGCAGTAGCTCGCA + GGHHHHHHHHFHCB@FGEDD:EHHGGHHDHHHHHGDEFGFHHHHHEB3:6EHH?AHHGGHHFHGGHHHHF=DGBGFEDBFGG @read_150_446/2 TGCTGGGATTACAGGTGCGAGCTACTGCACCTGGCTACCAAATGTTTTTAATCTAATCCTTAGAAAGAAATACTTAGGAGAGCTACTTTATGAATATATC + HHHHHHHEEHHHHHHEEEEHHHHHHHHHHFHHHFHHHCHHHHHDGHHHHHHHHHG8A4;HHHHDGD??EGGGEBFE5@@/3;A@;;BHHHFEBF6ECFHHFHHGHHHHHFHHHHHFDBEHHHHBFIGHHHEEC;HHHHGDFEHDFHHHHHE@/...<;?FDHB7BFHHHFEDFF?C9 @read_150_448/1 GAGGCTCGAGGATCACTTGAGCCAAGGAATTCAAGGCCAGACCAGCAACACAGTGAGACCTTGTCTCTAAAAACAACCAAAATCCCTCTGCTGGGGGCAG + HHHHHHHHHHHHHHHBEFFGHHHGHHGEHEEEGHHHHHHHHHHHFHHHFFHHHFCHHF>;DA>AED4??E @read_150_448/2 CTCAATATTAATTCTCACTCTGCCCCCAGCAGAGGGATTTTGTTTGTTTTTAGAGACAAGGTCTCACTGTGTTGCTGGTCTGGCCTTGAATTCCTTGGCT + >><<<;<3@@@=D<:;FDDEHHHFHHGHHHHHHHHHGFIGDHHEG?DA+>7EFAEE>6&0A?GHHHF@CDGEBCG= @read_150_450/1 AGGAGAATCTCATACTGGCTTCAGAAGATAAGGGAAGTCTTCCCAGACACAGAGTCCCCTCCAGCCTATACACAGCCAGTCCAGGCACTGGTATGGTCAC + HHHHHGGGHHHHGHHHHHHHHHHHHBBGEGCAGHHHHHHHGHHHHHED/?ECHHEHEGGBHHHDDCFGEC9@-:CHHHHHHHHGG@DG@@AD5%1,4BEF @read_150_450/2 AGCAGCTGGATGACCTTCATGGGTGTCCATTGCCCTAGCTTAGTGACCCTACCAGTGCCTGGACTGGTTGTGTATAGGCTGGAGGGGACTCTGTGTCTGG + HHHFFFHHHHHHHHHHFHHHHDCGGFFGG;DFFFEGFGFHHHHHHFGEEEHGGHE;DDB8.86A<33,B9BHHHD6.A5EHFECB?@DDDCEHHFDGFHH @read_150_451/1 GTCCTAAAATAGCACTATCATTTGATTAACATTGCACAATTTATAGAAGAGTTCCATATACAAGTCAATTAGCAATTTAACAAATACTCTATTAAACACC + FGFHHHHHHHHFFFFGBGGFGHHHHHHHHHHHHGHHHGFFHHHHHEEFHFD?EF=4DFCCHHBCFF??*>FFECHGEBE=HGFHHHHGG?;7CDFHFHHH @read_150_451/2 AAGGAGTATGTTTGTACTTTTCTCAGCTCCTACTACAGGATTTGCCACATGGTGTTTAATAGAGTATTTGTTAAATTGCTAATTGACTTGTATATGGAAC + BCB=?;=EHHHHHHHHFFHHHHHHHHHHHHHHHHHHHHHHFHHFFBFCDIEGDEHHHHBGHHHHFBBCDD@C7<>=@DDAD2.59::@BEGFEBFEFDFH @read_150_452/1 TTAATGTACATGATATGAATGTGAAGCATAAAATTAAATAAAATTTTTCCCCATTGGCTTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTA + GEEG@FDE=CCB@CCC6CDDFHHGEHHHHHGFHHHHHHHHHHHHHHHGHHHHHDD<&*&)3@1:EBHHHHFEAEGHHHHHHHHHHHDBCGD=EHFD9?EEGHDICEGHHHHDFDHHHHHFFBEEFH @read_150_453/1 CAAAAAATGCATTGCAGGTGTTTTACATATCCCATCCTCTACTCCGGACAGGATTCACCTGATTGAAAATCTCATATTAGAACAAAAGGAGGGGAGGCCA + HHHHHHHHHHHHHHHGGGHHHHHHHHHHHHHHFFBHGDE6553<@10/349ECCCHHHFFFHHHFFEBBBFBCDDCCCEDFGHHHHHHHHGHHHHHHHHH @read_150_453/2 GGGCTTCCTGGCCTCCCCTCCTTTTGTTCTAATATGAGATTTTCAATCAGGTGAATCCTGTCTGGAGTAGAGGATGGGATATGTAAAACACCTGCAATGC + HHHEFEGGFHHFFDDFHHG/(01)2=<>DHHHHHGEGHHHHHHHHHHHHCEE@@76>BGBGDDBDFGB>>D9;;7DHHHHGHHHHHHHHHHEFHD>;:,6 @read_150_454/1 AGAATGAAAAGAAGGCACAGAAAAGTGAAAATACTTGCAAAACATATAACTGATAAACAACTTGTATCCAAATACAGGAAGAACTCTCAAAAGTAGATCG + EEBFE=BEA6CGHGHHHHHHHFF@=GEE@AFGFDHHHFHHGHFFF9:@CA===+8,>HHD,:AHHHGA?EEDE@CHHHHGCFHDHHHHHHHHHFGHGDDC @read_150_454/2 ACTTTTGAGAGTTCTTCCTGTATTTGGATACAAGTTGTTTATCAGTTATATGTTTTGCAAGTATTTTCACTTTTCTGTGCCTTCTTTTTATTCTAGATCG + .,.@B/<@B8<=@CBDFFHEBB:6+))6<=@HHHEDGHHGGAGFEEGGGCD=.5--%,,5:--1 @read_150_455/1 AATGATTAAAACTATAAACATACATCTGTAACATTTCTTTCTAAACTATTCTAGCACTTCAAAGCCTGAAGCCTATTACTGTTATATGGAGAAATGTATA + EEEEGHHHHHHHHHHHHHHGGHHHGGEE8HHHHHECFHHHEFFHGHHHHCFGFGFFEF>:<;BDFGG;AEHHFHHHGGGGHHGFFHGFGGFFHHHHHHHE @read_150_455/2 GTTTCACCAAATAACTCATTATAGCCAGAAGAGGGTATTGCTTCTTTCATTTGTGGCACTAGATAGGGCCCTATGTTTTTCACTATTTAGTATGTATACA + HHHHGFFDCEFHHHGHHHGGHHHHHHHHFHHFEFHHHHHHHB>E<@DEGEB/1419:<7DCD:CBC.:2E@@878BEGGGHHFAHHHHB:52(4:>E>GF @read_150_456/1 GGAGGGAGAGAGAAATAGAATATGAATAGAGAAAAGAGAACCCACAAACCTAACTATAACAGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACC + HHHHHHEFEEBEGGGGHHHHFHHHHHHHGGGHHEFGGGGEFFHHHHHGHBFBGFD:061:=DFEB,>(C@FGGGDGGGEHFD,:>*&+BEEFFEHHDHG6 @read_150_456/2 CTGTTATAGTTAGGTTTGTGGGTTCTCTTTTCTCTATTCATCTTCTATTTCTCTCTCCCTCCAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATC + HHHHHHH=E@BEBEABEHHHHFHHHHHHEHHHFHHHC+>,:*346@D9AAEEGGGHHFC@EDAA6+?@FD<@D@<86:DCFGHHHFFEF?GHHHFHHHHE @read_150_457/1 TAATAACAGCATTTACAGTATTGTGACTATGTAAACGTTAATTCATGGAGGAGCCAAGTAGTATTCTATGAGTATAATTTCTTTCCTACACGTTTTTATT + HFEHHHHHHHHG@FEGGGFEEHHHHHHFFGEEHHHHHHHHFFHHHHHHBGGAFHHHHFFBEF6EGFBAEEEBEBEHGGFD9:+'21)0?CHHHFEBHHFH @read_150_457/2 CTATGACACGTACAGAACAAAACATCCAGGTCAAAGCGGAGGGATGTAGAGCCTGGGGAAAGAGGTCTCCTGGGCAAAAGGGGGACTTCCTAGAAAACTT + HHHHHHHHHHHHHHHHHHHHHEEEHFGGFGHHF8FHHHHHBFFFHHHHFGEFGEEHHHHHHHHHHHHEFGGFABGFDFC?A5675DDACB@EF6CA98;: @read_150_458/1 TGCAGCGCTCTTTACTTCTGGGTTTGGCCCAGATCTTAAGTCATCCACATATCTTCTGGTTTTCAAAATTTATTCATTCAATCAATATTTATTAATATTT + HHGHHHHHEFGEFHHHHHHHHHHGGHHFGGHHHHD@GFFFECBECFFHGHHHHHHHHHHHGGE@HHFDEEDFFHHHGHHHDBAFFHHHFFFBB=GGGDDF @read_150_458/2 TATTTTTGTACTTACCACATTGTATAAGTTTTGCTTCTACCTCTGAACTCTAAGCATGTATTTTGTCTTATTTTGTACTTCCTATACCTTGTACAGTATT + HHHDEGGHHHHHHHHHHHHHHFFBFHHGFHBGFFHHHHHHHEE5%,4(DEGEEGFHFIHHHHHEEGBEFGFHHEHHHHHEGBEB=.D/?CFA56'>87@/ @read_150_459/1 GAGTTGGAGACCAGCCTGGGCTACACAACAAGACCCTGACTCTACCAAAAAAAAAAGTTCTTTAATTAGCCAGGCATAATGGTGCACGCCTGTGGTCCCA + F@BEB<:8:9CC@BGDHGDGGHHHHGDBAGGEBGHHHHHHHHFGGFFGHHHHHHHHHHHHHHHHGFFFFHHHHHHHEEHHHHHEHHHGHHDDFHHHHHGF @read_150_459/2 TGGCCTCAGCCTTTAGAGTAGCTGGGACCACAGGCGGGCACCATTATGCCTGGCTAATTAAAGAACTTTTTTTTTTGGTAGAGTCAGGGTCTTGTTGTGT + HHHHHHHHHHHHEGGHDEEHHHFHHHGFHHGA?=)5'2AAG>FEE?EGFHHF?AED5)26+4 @read_150_460/1 TGAATAAGTGAAGGATGATGAAAAGAAAGGGACATGATTATATTTATGAATTCATCCCCAATCTTCCCTTGGGAATTATTTTCTGGACAAATCCTAAGTA + HHHHGFFFHHHHGGGHFDEEBC896EEEEG;B>HHHFCD?GEBHHHHHHEHHHFFHFGG63:@FFHFFHHHHHHHHHHGEC9FHHFDHHHHFFFGEFFHH @read_150_460/2 GCTGAAGTACTTAGGATTTGTCCAGAAAATAATTCCCAAGGGAAGATGGAGGATGAATTCATAAATATAATCATGTCCCTTTCTTTTCATCATCCTTCAC + HHHHHHHHHHHHHGGDDAAGHGEEHHGIGHHHHIHHHHHFFHFD9=;.*1FGGHHHHHHHHHHFFHHHHFHFDDD;GEHFHHEDCHFHH>EEEEADDB58 @read_150_461/1 AGAAATAGACCCAGGCATATCTGGTCAGTTGCTTTTCAACAAACTACCAAGATAATTCAATGGGGGAAAATAATCTTTTCAACAAATAGTAGATCGGAAG + GGGGHHHHHHHHHHHHHHHHGEEGC+BF@GGHHHHHHHEADGHHHHHHHGBEHHHEGHHHH@DDGHHHHHHHHF8EGGHHHHGIHBBBHHDCFB46A7BGGGFHGEEAC.5851 @read_150_462/1 GCAAATAGTGGCAGAGTGATTGTTTCCAAACTTCTTACTGATCAGCAGGAATACTGCTGTTTTCATAAATCAAAGCATTATTTTCTCGTTTAAAATCAAT + A>B>@>CFDAHHHHHHHHHGHHHHHHHHHHHHHHHECGFHHHHHHHHHHHHGE78.3>DDH>FEDFB=HHDDFFFGHHHHHFHHHGGHHEGB,5;EHHFH @read_150_462/2 TTTTAAAAAATCAAACCTAATTGCCAAAATCTGATGTTTACACATAGTTAAGAAAAGAAAGAGCTAAATTGATTTTAAACGAGAAAATAATGCTTTGATT + HGGGGC<4>DEEGGHHHHHHHHHHHHHHHHGE6+;GCEFFHHHEBDC;=HGFGGFEHHHDD<4GEGHHHHHHGHGFFDE@:8DFF=C??D1+7DD=EGFF @read_150_463/1 AGGCTGCCGGGCTGAGAGCGCGGAGACTCCTGCTAGGCTGTAGTCTGGCAGGCCGGGGGACTGGGTTTACTGGAAGAGTGTGAGGTGGGGATGCAGAGGG + HHHEGFFDDDHHHHFGGBAHHGHHHHHHHHE@DFEHHFEGGGHFBHHHFHGFFHCEFFFHCF72)77::>><9FFGGEHHHHFFB:D @read_150_463/2 GGGGATTTCAAGGACCTCCCTCTGCATCCCCACCTCACACTCTTCCAGTAAACCCAGTCCCCCGGACTGCCAGACTACAGCCTACCAGGAGTCTCCGCGC + HHHHHHHHHHHHHHFHHHHHHE8FHHF6:?D@FGGHHHHHHHHFHHHD8=FGHGFC=DGGHHHC?18=7FFEE@EFFEGGH<6,*;.DHHHEEBFDBADG @read_150_464/1 GGCCACCAGTTCAATTCAACAAAAAACTCTCTGGGAGTTCCAAATGTGCCAGGCACATTGCAGGGCACTGAGATCGGAAGAGCACACGTCTGAACTCCAG + GGGGEEGGFGFHGGHHHHHHHHGHHHHHFGHFFHHHHHHHHHHHHHHHHHHFFFHHFEFHHFGDFHHBCBHHC?FDEEEHFHHEBEDC5FFDCDHHF.79 @read_150_464/2 CAGTGCCCTGCAATGTGCCTGGCACATTTGGAACTCCCAGAGAGTTTTTTGTTGAATTGAACTGGTGGCCAGATCGGAAGAGCGTCGTGTAGGGAAAGAG + HHHFHHGFHHHHHHE;?>GBDFHHHHHHHHHEFGGDHHHHHFGGBECAHHHHHGIFGBED@6:60,/+2,A;CE7(9<<:EGFGB9- @read_150_465/1 TCTTTCAACAACTCTAGTAAGGAGGCGTGTTCCAAGATGGCTGAATAGGAACAGCTCTGGTCTGCTGCTCCCAGCGTGATCGACGCAGAAGACGGGTGAT + GGGCEE56CDEEGGHHHHHHHGDHHHHHH@/8BBGECHHFFHHHHFFCE=FHHHHHFBHGHHBB?5<0;9+02>D>>EEBEF@HFHFFGGC@B:9AADHF @read_150_465/2 CTCAGTGAGATGAACCAGGTACCTCAGTTGGAAATGCAGAAATCACCCGTCTTCTGCGTCGATCACGCTGGGAGCTGCAGACCAGAGCTGTTCCTATTCA + .66:@B>>BEHHHHHHFHHHHHHHHHHHGFGEHEBGFFD@FD9EEHFFAA:DDC?=6GEEBEEEHHHHEGD@@@45.;1*7CDF5EEECCEEGE4C@/'3 @read_150_466/1 AAAATGTAGGTAGGTCCTAGGTATATCAGGATGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAA + HHHHHFDGGFDDDA?GBDDEHHHHHHGD-D,1-98;??==;FFHHHHHHFHHGHHHHHHHE?863:FADE>CDCCGHGFGHHHFFHHHHHBHF=B(9:CF @read_150_466/2 CATCCTGATATACCTAGGACCTACCTACATTTTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAA + HHH=GHHHHHHHE+EACGGGGE;>79?@CEB/BGHHHHHHFHEGGECDAHHGEGGEHHHHHHHHHHHHHHHHHHFDC?DB?GFDGHHHHHHHDFD?E<@) @read_150_467/1 TCATCAATTAAGGAAGGAAAAAACTCTGAAGTTAGTTGTTTTGCATCAAGGAGACAGAACAACTGGTTGATTGTTAGATGTTTCTGCTTCTCCATTAGTC + HHHHHHHHHHFFFHEFEFHHHHHHGGHGGGEHHGEAEA(;-208@>4.AFHHHDEHHHHHE=:BDGGBDAFFFHHHHHHHGGDBFGGGHFBGACBGHGHH @read_150_467/2 CTCCAGAGAGCCCCTCAGATTCTTTATTGATTCATCATCTTCAAACACCAGAAGGACTAATGGAGAAGCAGAAACATCTAACAATCAACCAGTTGTTCTG + @@EGFHHHHHGEEB@HGHHHHEHHDHHHHGEIGEEEHHHHHHHFFDD<.@*3689E65DAEBD>>4GFHHGFF4&:>=CGGBDGHHHHHHHHHC?E=@F@CBE7>C/=DEEE@FBFFHHHHHHHHFFDDD;7(6CHFFFCHHHHHHHHFEFFHHHHGFABDGGFFFHF@@+C @read_150_468/2 GTAGCTGGGACCACAGGCGCCCGCCTCCATGCCGGGCTAATTTTTTGTATTTTTAGTAGAGACGGGGTTTCACCGTGTCAGGCAGGCTGGTCTCGATCTC + HHHHHHHHHHHHHFGEDGGGHHHHEHHFFFE83.-74586AB?AEEDDA/8(458?FEEEEEE98CDD59:>DBEGGGHHHHHHED5@FDFFHFHHHHFE @read_150_469/1 GTCAGGAGATCGAGACCATCCTGGCTAACACAGTGAAACCCCGCCTCTACTAAAAATACAAAAAATTAGCCGGGCGTCGTGGCGGGCGCCTGTAGTCCCA + F6DB8;EDBBFHHHHHFFDHHHGGGFHHHHHHGFHHHHHHHHHFF@BBFHHHHHHHFBC?HHDDC2BHHHHFHHHHHHHHHHFGGGHCCFFF @read_150_469/2 CTCCTGCCTCAGCCTCCCGAGTAGCTGGGACTACAGGCGCCCGCCACGACGCCCGGCTAATTTTTTGTATTTTTAGTAGAGGCGGGGTTTCACTGTGTTA + HHFC@=EBDEGHH@A@CCDDHHHEEEE*:<@@BGFAFCGFHFHHFHFHHHHHHG8<4(34362-EFBE;A.@ @read_150_470/1 CAACAAAAACAAAACCAAAAAAAGTGGGCTGTGGAACACTGAGAGGGGCTGGCCTACCCTTGGGGCATGGATCCCCTCCCCGCTACATCTCCCACCATTG + GEGGGGHHHHHHHHHHHHHHHHHHHGFHHHHHGGGGGHCDEFFHFBHHHHHHF6=EBFGB;EHFFFCH?BDDDCFHHEBGFFDFEGFEFHDDDAE<>=DG @read_150_470/2 TGGCAACTTCCTCACTCGCCGCTGGGCCAGGATGGATGACTCGATGGGCTTCAGCTGGGGGGTGGGCTTGGAGCTGTTGAGTGCGGAGTACGTGGCAGCC + HHHHHHGGHGHHHFEEFF:BCB=36>?FHDGHHEHB9EEHFE @read_150_471/2 ACTTGGCACTGACATAATTAAGCCAAACCAACCTTTGGAACCTCCAGTCCAATCTCATTCTGTTCTACATTCCAGCACCCCTCTCAGAGATCGGAAGAGC + HEDGEEFFGDFGHHHHED??CHHHHHHHHHDGHHEEEFHHECDD9DA>B587<=>-63-4-0><36?=EGCC,@@>?FB>BFFHHFDFEEHFE<9AECCA @read_150_472/1 TTTGAATTCCTTGTCTTATAGATCACACATCTTCTCTTTAGGATCTGTCACTGATGCCTTATTCTGTACATTTGGTGAGGTTATAAATCCCTGATTGTTC + HHHHHHHFFHHHHHHFFGGGGGHHHHHHHHFHHHHECHHHHEHEEFDFFHHHHHFHHHHHFEE@DDHHEGFHEEBGGGBFHGGEEHHHHHHHHFFHGBFF @read_150_472/2 AAAGAGGAATGGGCAGAGATCAACCCAGACTATGAATATTAGATTAAATACATAATTATTTAACGTGCAGACATCAACATGCATCCACATCCATCAAGAA + G=CBDEGGBGHHHHHHGFGGFBEHHGCHB59@74>A*,,1:9><-@GHHHHHHHHHHHHHHG=EC24.-BEHHH86A@BEEHDHHHEDCAD8&-11399A @read_150_473/1 TGCACACCCACCCTCCCTCCACCCCACCCCCCTTTCCCTTTTGCACCCCCACCACGGCCGCAGGCATCTCAGCACCATGCACCTCCCCCCCATGCCCTTG + HHHHHHHHHHHHHGGHFHHHHHHHHHFEFHHHHH?DFEDHHGHHHHFHHHHHHF9FFBEFFGEFHBBFF?8:1@@HHHG.,3;;+::AD?:DFF@FFFFF @read_150_473/2 CAGCTCTGGGGTGGGGGGCCTGGCCCACCTAACTGCTTCCATGGTTGAGGCAGGAATGGGAGCATTGCTTAGAGTGCAGCAAGAGGCTGTGTCCATGGTT + GGFDHHHHHGDEE@72:/.09496<+36@@845FFGGDFGHHGHHHHB@@5>>=>BFEHHHEFD<@BFEEDFF@/2<<;75=6EE4+ADE7----(,3': @read_150_474/1 TCACCTTGTTAGCCAGGATTGTCTCGATCTCCTGACTTCGTGATCTACCCGCCTCGGCCTCCCAAAGTGCTGGGATTACGGGCGTGAGCCACTGTGCCCG + EFFFEFFHHHHHHHHHHHHHHHHHHGEEDHHHHHFHHHHHDHHHHHHHHFHFEEDCDDBEEEGGGBEFEBHHHFHHGHHHH; @read_150_474/2 TCATATACTATGAAAAGTAGTTTTGTTTTTTTTTTTTTTAGCAGGGCATGGGGAACCAATGAAGAATTTAAAATAATAGGCCGGGCACAGTGGCTCACGC + HHGEHHGHHHHHHHHHFDEBCFFGGHFHGHHHB@;4*&67=FHD7@DHFFHHHDDEEEHHHHHHFHHHHHHHGGGC22)>CGF=@FFEGHHHFDCD.=A@ @read_150_475/1 TTGTGTGCTCTTGGTTCCCTAGTTCTTTTAGTTGTGATGTTAGGGTGTTGATTTAATATCTTTCTAGCTTTTCGATGTGGGCATTTAGTGCTATAAATTT + EDEEHHHHEEAGFHHHHHHHHHHHHA7,;:CBC@BGFEBGHCFC7HHHHHHDHHE??EB@9EEEGGA@HDBHFFFHHGFE@AD@DFFFECGEE<5C=?67 @read_150_475/2 GCTAAGTGGAAATTTATAGCACTAAATGCCCACATCGAAAAGCTAGAAAGATATTAAATCAACACCCTAACATCACAACTAAAAGAACTAGGGAACCAAG + HHHFGHHGGGGCDD?BGFHHHHHHHHFHHHHHCCD6B<<15@EBHHFFHHGGGGGHGFHHHHHHGEDEHFDHHHHHFHHHGD9;4*.>;5'73/9>57;1 @read_150_476/1 GTGCACAATTATATAAATTGCAAATAAAGATCATTTTACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGC + GFGFGEGFGHHHHHFHHHHHGGHHHHHHHHHHHHHFHHHFGFHEFHHHHHHHHFEHEHHHHHHHHFFDCCFFEHFHHHHGFGGEDFHHHB=E;A>><=,? @read_150_476/2 GTAAAATGATCTTTATTTGCAATTTATATAATTGTGCACAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTACA + GFGFDGFHHHHHHHGHFGFHHHHE@CFFHGHHHHEEECDEHGFHHGHFHHHHHHHHGG<-5,)8CGEEHHEFFIGDCDDCFEECEHE@FA9GF8E*4<.- @read_150_477/1 TCAAACGAGGCAAGTAAGAACATAACTGGAAATGTTTTGAAGACCCCCTACACAAACACACCTGCAGAGGCTCAGGCCATTTTAGTGTTGCACTCAAAGG + HHHHHHHHHHHHHHHHHHHHHHHHHHHHGGGGFHHHHHHHHHHHHFFFB@DBEHHHHBDDCFE9:6>EEF @read_150_478/1 CAAAATGAGAAGGTACAACCTCTTCCAATGTGTATTCTGTAAAATCTAACCTAGTAGTCCCCTGTCTATACAATGTGTTACTGAATCTCTGAATTAACCC + GE6<:6:2@@=FGGGHHHHGD9@DA;8>GHGFHHHHHFHHHHEFGGFHHHHHHHHHHHHHHHHFBHHFF@FDFFFEHHHFHHHHHHE?EE>>55<8;5-? @read_150_478/2 TACTTACAATAATGACTAATAAAGATAATAGGACATACCTCACCAACTAGGGGGTTAATTCAGAGATTCAGTAACACATTGTATAGACAGGGGACTACTA + HHGHHGHHHHHHHHGGHHHHEFHFHHHHHFHHDFFFHHHHHHHHHHGHE@4*2(((08EE@@DFHHHHHHFGEHHHHF7EGGGGGGHHHGGHHF@<;BHH @read_150_479/1 AACACTGGAGCTCCCAAATTTATAAACTAATTACTACTAGACCTAAGAAATGAGATAAATGGCCACAAATCCATTTGCTAATGGACTTAACATTTGTTAA + HHHHHHHFFHHHHHHHHHHDCDGGEB>7EEEGHHHFFGFFGGHHFC0@-5GE??DAEGGHHHHFHHHHHEEHFDBHC?<>@ @read_150_479/2 ACCTGTCTAGTGCTGTCAGTGGAGTATTAAAGTCCCCCCACAAATGGACTTAACATTTGTTAAGTGATTTATTGTTAACAAATGTTAAGTCCCTTAGCAA + HHHHHHHGGHHHHHHHHHHHHHHHHHGHHHHHHFB=?;ADFFGGHGGFHHHHFFFDCEHHHE@D@GDGGIHHHDFFFB485EHHHFHHGB8>,DEBFE2- @read_150_480/1 GGTACAGGTTTATGTACATATTGAACTACACTTTTTGTCATTATCTTAGAGTGTACTCCTTCTACTTACAAAAAAAAAAATACAACTGTAAAACAGACTC + HHHED=BDGBDECDEDGHFHHHHHHDDDEHHGHHHHHHFHHEEED@BDDDBBFFFHFA5AFBBGHHC<9?FHHHHGFGGEHHHHHHGFFABCECD98399 @read_150_480/2 TATTTTTTAAACTTTTTGTTAAAAGTGAAGACACAAACACTCACATTAGGCTAGGCTTACAGAGGGTCAAGATAATCAGTATTACCACTGGAAGGTCTCG + IFHHHHHHHHHHHHHHHHHHHHBEEEEEEGGEHFDHEFDHHFFEFED8?BEGGGGGGG=EEEB8*/:6,2)749EG @read_150_481/2 CCCCAAGTGTTAAAAGCTGGACACACTCTTAGACAAAATGAAATAATATTAGCAATGTTATTACAAACTTCAGTTATAACCAAAAGCAAATCATGAACAT + HHHHHHGGGBHHEFC@D9523',::@BEGGHHHHHHHHHHHE?GHH@EBHHGGGHHHGGGGHHHHHHHHHHEFHHHHFDDFCEEBCFEFGHHHBDCC%,. @read_150_482/1 AAAGTCTGAGGCCCTGAACAACAATTCCCAGGATGTCTTAAGTCCTGGTTTCCCATACTGATTCACGTTGTGCCCCAGTATTGGGAGTCATTGGATCCAC + HFFEFGGFGGGGGHHGFGGHHGEHGGGGGHHGCDFHHHFFDHHHHHHHDDAC?GE;A? @read_150_482/2 CCTCCACTTTGGGCATCTGAATATCTGACTGAATGATTGTTTGGGGTGTCAAAACAGGCCTGGAAAGAGACTTAACTTCAGAGTTCAAGGTGCTCTATTC + HHHHHHHHE=@BC=DECBCCDFB@BBBH@EFHHHHHHHFHHHHGGGDGGE@CEEGHHHHFHHFEEGHEHHHHHFFHBEHHGGGHFFHHHHEF??GEEEF> @read_150_483/1 AAAGTTTTACTACAATGTCATTTTAAAGTCATAGATAAAAGTCAAGACAGTGGTTATTAATTTGAGAAAAAAATATTTTACAAAGAGGAAGTGTAGTCAC + GGGHHHHHHHHHHHHHHHHGHHFHHHHHGF.6AFHHHHHHHHHFDHEHHHHHHFFFE>9BBHHBCFF@@70:CC @read_150_484/2 CTGGTGTTACTGAGAACTTTAAGGCACTGGCCTGTTCCTCCACTCCTATACATCCCCCAGTTGGGCCTCTTGGCATCGCCTTAATATCAAGATAAGATCG + <;DHHHHHHHHHHHHHGGGGGBGCHHHF@=EGHHHHHHHHHHHHHFFDDDEFFFFFH=7>:GHHHHHHFHHHHHE>7,/;@95CDGHFHHFEFFFFB77@ @read_150_485/1 TCCTGCCAAATGGTCCCCATTGCCAGTCTTAGAATGAAATCCACCTCGTAACAGCTACCAACTGATCTGCCCCCAGGGAGAGCTGTTATTCCATATTTTC + EEEGGEGGHHHHHGEFFFFHHHHHHHHHHHHHHHHGGGEEGFEHHHHHHEFHFHHHHHEEECGHHHFDDFEEHHHHHBDHHHHHHHHDBBFCED694?EC @read_150_485/2 CTTATGGGGACGCTTTCAAGATGAATAGGATAATGCATGTATCTCCCATAGCCCTGCAGCCTTATGCTTCATCCTGTCAGTGCAATCTTTTTAGGCAGGG + HHHFGHHHHDECBFDFGFEEHHHHHGFHHHHHHHHHGEEEDCEHHHFFF @read_150_486/1 ACTGTTGCTTTTCTCTCCTCCTTACCCATTTTCCAAGCCTGATGCACTTCTCAAGATCCAATCTGAATAGGTGAATTTACCCTTGACATACACTGCCTTG + HHHHHHHGGHHHHHGEB@B<@C@EDGEEHHHEE?FF?@BEGHHHHHGG9AFHH?B?9EEHHHHHFDCHHHHHHHFHFFFHHHHFGHHHHHD=FGGHHHFH @read_150_486/2 GCGGGGCTGGGGGGAGACTCAGGCAGAATTGTGAAGATATTCAATTGCTCCTGACTTTATCAATAATCTAACATTTCAACCTAACATTGATATCTATTTT + HHHHHHHHHHHHHHHHHHHHHHHHHHHH?AGEGHHFHGHHGHHHGD??B=EEHHGEGGEFCCB>,15793<*15:5@BEFFFEFH9@@DBD9->@BCEGFHHHHHHHHFDBHHHHD@:9?/;A2:@.=@;D=D>8@555=BHE @read_150_489/1 TTTCATGTTTATTTCTCAGTTCCCCGTATTATATATCTGCACAGTGTGGAAGGGAAATATGCTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAC + HHHHHHHDGHG@BEFHHHGGHHHHHHHHHHHHFFHEEEGFHHHEHHHF@GHHHECHHHHCDEFHHHHFFDFFHHHGG@CGHGBCHEGHB?AA@@=6<2FD @read_150_489/2 AGCATATTTCCCTTCCACACTGTGTAGATATATAATACGGGGAACTGAGAAATAAACATGAAAAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGAAGAT + DEHHHHFHHHHHBHEHHFCC<.@C8CDGGGHHHHHHHHHHHA9<>?CFEFEEFGGHHHHHHGGFHHGFHHHHHHH8GHEBADDB?@C9EGHH:6A%'1>B @read_150_490/1 CACTGAGGAGAGTTTTATTGATGTGCCTGGCTTTACATAGGAAAAAAAAAAACCTTCTATGTTGAGTATTAAAGACACTTGAAAAGATCGGAAGAGCACA + DDEGBEFFHHHHHDDEGFGHHHHHHHHHHHHHHFHGEDAA4--2::GBHHDFFADFHHHHHFDDE??FFFEHHFABDBHHHFHHHHHHCHFHHGGFEEEE @read_150_490/2 TTTCAAGTGTCTTTAATACTCAACATAGAAGGTTTTTTTTTTTCCTATGTAAAGCCAGGCACATCAATAAAACTCTCCTCAGTGAGATCGGAAGAGCGTC + HHHHHHHGGHHGHDDHHHEHFHHHHHHE8EFFFEGHFBEFHHHHFHGGGDCBEHHFGHFEHHHHHHED@GHHD=CDDEADEGHHF85.=ACFFFHGFD@? @read_150_491/1 GAATAGGAACAGCTCCAGTCTACAGCTCCCAGCGTGAGTGACGCAGAAGACGGGTGATTTCTGCATTTCCATCTGAGGTACCGGGTTCATCTCACTAGCG + CBEEE@ADDGGGGGDBCGHHHHHHHHHGEHHHHFGHAC@?C9DDFEFHHBHHHHHHFHHHHFHHHFGGFHB7%%CEB:;@FD;ADFHHHH2.;2,4>EFHHHHHHHHEGDGFFHHHHHG@AGE?B7GHHFE3< @read_150_492/1 CGAGTATCTGGGATTACAGGCACGAGCTACCACGCCTGGTGAACTTGGACACCTTGATGAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCATCTA + HHHHHHHHHHGGFEE=CFFECDDHHHHGFEGHHGHFGBDEEFBB?6?GGFHHFDDEEEGHFGHFHC;B?FFFFFHFFHHEGGGB@CBHDHHHHH;<.738 @read_150_492/2 TCATCAAGGTGTCCAAGTTCACCAGGCGTGGTAGCTCGTGCCTGTAATCCCAGATACTCGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGAAGTTATC + HHGGHGHGHHCD@FHHHGGHHHHHHHHDE9:>6=AEEHHFHFFHFDFFFFGGGBHHGHHHHHHFHHHHEE@D=EDEG9:.@=@.*8.8F8:&-2-&158: @read_150_493/1 GGCTGGAAATGTCATATGCCCCAATAACATAGAAATAATAAACTTTACCATGTCAAAGGTGAAGAAAGATAGTGAAGGTAAGGAAGCCTCATTAATTACC + HHHHHHHHFHHHHHHHHHGEHHHHHHHHHHEFHGHHHGHHHHCHGADFHFEEFH>DFA@CFHFHHHFHHFEE9CDHHHHHHHGGFFHHHFHHHHH@7CHF @read_150_493/2 TCCTCCTTACTCTACCATTGCACTGCTAAGTAGGCTTTTATTTTGCTGTATTTGCCACCTTTAAAATTTATCCTTCGCATCGTAGTCATAACAAGTGAGG + FHHHGEBEHHHHHHHGHHHHHHHHHHGGGHHHFFDHHHBFFHHHHHHHEFHHGHHHHGCECAGGHHHHHHFHHCEEEFFFBFGE2:?C@@?FFBEC==?? @read_150_494/1 TGGGGATAAAATATGGTAGGGAATATTTCAAACAGAGCATTCCAAGTAAATGCAAAGGCCCAGAGGAGAGAGAAAAACGGGGCATCTTCCAGGCAGTGAG + EGGGGHHHHHHHHHHHHHHHHHGHHHHHDEEFEFFC:29,;84+790AHEHDBHHGHHHHGHHHFC8>9DD?@A<@CDCAHHHHHHFBDHHCABHCA*4ACDBD @read_150_495/1 TCAGGAGGCCAAGGTGGGAGGATCACTGGAGCTCAAGAGGTCAAGGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGT + FFFEFFHHHHHHHHHHHHHHHHFGEDFEDDEHHHHHHFGGHHHFEF@EFD@DFHHFEA?7A5/.E3ABDHHHH?EGGBDDFFE,2<2AC7FGEEHFFHHH @read_150_495/2 CCTTGACCTCTTGAGCTCCAGTGATCCTCCCACCTTGGCCTCCTGAAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTAT + HHFIGHHHHHHHHHHHHHHHHHHHHHEBBCHHHGFFHHHHEED=6C@FGGGBEGBCCDEEFHHFFHHHGGGGEBECHDGHHHHHHHHEHFHHHBHHHHBHHHFFDC0CEFHHHHHHAA @read_150_497/1 GAGTGGCAGCAATAGTTTCCCAAATTTCCTTTTCCTTTTTTTTTTTTTAACAATCATCCTCACACTGGATTCATTTATCTTGAGGTGGTTACCAACCACA + HHHHHHHHHHHHHGBFFHHHGFHHHHHHHHHGGD-CGGGFEDHHFFHFHHEGHHH@GHHHFFHF=B<;@FA:<;CFGEGGDHHEE?CFHHHHHHHHD @read_150_498/2 ATTCTGAGATTTTAGTGCTCCTGTCACCCAAGTAGTGTACATTGTACCTAATATGTAGTTTTTTTATCCGACACCCCTTCCACCTTCCCACTTCTGGCTC + HFGHHHHHHHHHHEFGGF@FHHHDCA>GGGCDEHFHHGFHHHHHHHHFHF?.EEE=CCDGHHHHHGGGFHHHHHEHHH@HFHHFBE<=@>08><.::*4; @read_150_499/1 AAAATTTAATAGGAAGTACTCATGTCCATTTATATCAAATCATAGAAGAATTTCAAAATAAGTAGCGCCATATAGAAAATGAATGTGAACACATTCTCCA + HHHHHHHHHHGGGHHHHHHHHHFEHHGDGFFHHHEGGFFHHHHFBFFHHHHHHHHECFBFFHHFFHHD9:@FFHHHHGHEFFHHHHFHHGEDEGHHHH=@ @read_150_499/2 TTCTTTTAGGGTGTGTCTCTCCTTGGAGAATGTGTTCACATTCATTTTCTATATGGCGCTACTTATTTTGAAATTCTTCTATGATTTGATATAAATGGAC + HHHHHHHHEHGFEFHHHHH>GFHA6CDBHDHHE88CAHHHHDGD=@..7ECGGGHGB8>?BEEFHHGGFCCGGFDE62@>=DBBAFHFHFFGHHHHEFF6 @read_150_500/1 ATGTCTGTTCATGTTCTTTGCCCACTTTTTAATGGGGTTGTTTGGTTTTTCCTTGTAAATTTGTTCAAGTTCCTTATAGATTCTGGACATTAAGTCTTTG + HGFFFHHHHHHHHHDFDBDFGGGFFDA9DDBFHHHHHHHHHHGHHHHHHHHHHHHFHDHE5EEFFHFBHGFHHHHHHFGHHHHFHC<>EBEEGHGGGFHH @read_150_500/2 ACAGAATGGGAGAAAATATTTGCAAACTAGGAGGGGAACAACAGACAAAGACTTAATGTCCAGAATCTATAAGGAACTTGAACAAATTTACAAGGAAAAA + EHHHHGDGEEGHHHHHHHHHH@@BEAHHHHEBFHHHHHHHHHHHEHHHHFHHHHHHHFHHHGFDHHGGE>B@?GHFE?ACEHHHHFDHHH<59FFEFEEGGGGCCCGHHGGGEFFFFHHHHHHGECE@@B9FHHEFHHFFB=BEHHHFAADDFEFDCEEF95DGFBCGGGGFHHHHH @read_150_2/1 ATCGCCTGCAGGCAGGGAAGTTACTCCGTCGTAGTTGGTTCTCGGGGCCCACACTTTATCAGGCTCGTGCTGGAGCCTGTGTGTCCCATAGTCCCCTCCT + HHHHHHHHHHHHHHHGGFHHHHHFFHHHHHHFGGFEEHFFAED8@<6ADA?82D?GGHFHHFFEAFHHHGDBHHE>@<1B6;C>2.7?FF??ECF=:4>CDFCA?CEE=A.+6:5//2.9 @read_150_5/1 AAATTATGTGGAGAAACACCAAGGAATCAGACATGTGAGTAAAACCATCTTGGATATTCCAGCCCAGCTAGCCACCAGGTGAATGCAGCTGAGTTATCCC + HHHHHHFFFHHHHHHHHHHHHEBBHHHHHHHHHHFHHHHHHHHAD6':FDFFHFFFBECFEDGB>EC@CBFFBEFDA?@DFFHHHHHHGFEHHHHHHHHE @read_150_6/1 CATTAACACTGGAGCCAGATTGTCTGGGTTGGAACCCCAGCTTTTCCACTTACTAGCTGTGTGATCTCAAGCAAACTGGGCCTCAGATATCTTGTCACTA + F=?7<>>EFGG?9:>FFHGGEB@=GHHHHHFGFFE?9EBHHHH>4->D9<9@DDEHHHHEDHHEHEHHFEEEFHD9/4F4=FFHHHHHHHHHFGFDG@DCBDDHHHHFDEECFFDDEEFHCCFBCDCFHHBFBDAFFHHGGHHE=BGG@DDDG<.D @read_150_8/1 TGAATAAATGTACAAATGTCTCCCGTTACAGCTGCCACATTCAGTGGGGTAGGTCTTATGATCATTTCTCTGAGGAAGGGTGCTGTGCTAATGGTCTCAG + GGGGGFEHHHHHHEGGBGHHHHH<>EEHC@BFHG@AFGFAEF8DAFG/EHFD9ACHHHHHHHHHHHHHHEBBECFGDHHHFCGHHH9<4%0:9:5+?>:6 @read_150_9/1 GTGGCTCACGCCTGTAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + @GGGGHHHHGFFHHHHGEFFFHGGGEGEHHHHHFFGGGECED:EBD?CBHHHD5.CEHHHHHHHHHE,@@>?>@@EHHEE62A>:ADDEG?:;AB>9?DF @read_150_10/1 TATATCTTTTTTTTTTTTTTTTTTTTTTTGAGGCAGAGTCTCGCTCTGTCGCCCAGGCTAGAGTGCAGTGGTGAGACCTTGGCTCACTGCCAGCTCCACC + GGHGGF?@DEEDGHGEDGD7*009DGHHHHGBCDGEGHHHHHHHHHHEGGHHFGGGGFHHHHFHHHFECC<*0.87'.+-91931BDBBGDFDDBHGGF? @read_150_11/1 ATTTCTTTCTTTCTTTTTTTTTTTGTTCCTTTGGCTAAGTAGCATTCGTAGTTTGTTTAGCCTTTTATCTGTTAATGGAACTTTAGGTTTTTTCCAGGTT + HHHHHHHHHHHHHHHHHHHGHHHHHHHGGGGGGHFDCHHHFFFFHHHFHHFHFHHHHHHHEHDFDFFHFHB>A@?GGFHHFFAAFFHHHHHGEFFCHFGF @read_150_12/1 TGCCTTCCGCCGTGTCCCTTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAA + HHHHHHHHHHHHHGGGHHHHHHHHHHGGDDGHHEEHFHHE14CB@DEFGGDFGEHE@;9D??DEFDF58DDBDDG=ADBDFGGGHGGHEEHEHHFHHFCD @read_150_13/1 TGTATATTATGCTAATAATCAATGTTTTATGCTTGGCAGTCTTCCATGCCCCGAAGATTCCTATACCCTTAAGGTCGCAATTGTTCGAGTAAGCTGTACG + HHHHHHHHHGHHHHHHHHHHGGHHHHHHHHGGHGGHHHFHHBFFGEHHHHEEHHHHHHHHHFGFHAEHHHHGFFHHHHHHHHDBHFHBEHFCHHFA3@DHFHHHHHHFHEEHHH@DFHHHHHFHHHHHHHHHHEAFFDBHHHHFFHHHHF @read_150_15/1 TAATATTTATGTTGGACTTTTATTTTAAAGAGTGGAAAGGAGCTTAAGGGTATCTACTCTGCCTAAAACAAACTATTAATCCTAAAATTATTTATTGGGT + HHHGHHGGHHHGDF:>7DBFEHHHHHHHHHHHGEEFHFHHHHHHHHEHHHFHHH>D?FFFFEHHHHFHFHHBEGFC>:=>4<7FHHFGHHHFDHGHEGHH @read_150_16/1 GTTGCTGGCATATAGACCCCATCACAGTATAGCACATTGCCTGGCACATGGGAAACACTAAGTATTTTTTAAGTAAATGAACAAACACATAATTTGACTT + ><@FFHHHHHHHHHGGGEHHHHEBFHGGHHEBFGFDBDHHHHHHHHHFB>?BGHFEA@CFE43;)9EHHHHFFHHHHFFFFHGHHFD@5@DGFGGFEB;A @read_150_17/1 CATGCAACTAAGAGTGAGCAGATATAGAATTGGGCCCAACATCTCCCGTGAACTTGGCATTGTAGCCTCTACCCCACACTTTCTCATATCTTATTACAAA + HHHHHHHHHHGGHHHHHHHHHHHHHHHGEGFHGGFFEEGFHHHHHHHHHHHHEFHHD<18;8EEEBFEFFGEDDEFFFCFGFG?B@DHHGFGDADGHHHF @read_150_18/1 GGTGCGTGACTGCAGTCCCAGCTACTCAGGAGGCTGACGTAGGAGGAGCCTTTGAGGCCAGGAGGCAGAGGCTGCAGTGAGCCATGATTGTGCCACTGCA + HHHHHHHDHHF?GFFFGEEHBBG9=EGHHGHHHDC:7-00@BHFGFFFFHHFEHHHHHHDGGC<@FBHH @read_150_19/1 ATATATTTTTCCTGTTTGCAGAGTCAACATTTTTGGGAATGTCTCTGAGAATATTATTTTGAGGGTTTCAAAAGCACTCTGTTCATACGACGACGACCAA + HHFDCGGHHHHHHHGHHHHGFFFACFFGGGHHHEGHHHHHHHHHHHHCEEEEFDHHHHHHHHFHHFFFHHHEDFDGFEFF99<@DC>EFHF@B;2>;@.3 @read_150_20/1 GCTTGGTAGATCTTACTCCATCCCTTTATTTTGAGCCTATGTGTGTCTCTGCACATGAGATGGGTTTCCTGAATACAGCACACTGATGGGTCTTGACTCT + FHHHHFFHHHHHHHFFEFFHHHHHHHHHHHHHCEFBDHHHGE@ABDGFHFG=D?>DCHHFFFHB9::<;@DHCCAHGGGHHFFFC?:@.FHHHHGGHHF7 @read_150_21/1 ACCTGGACTGTTTTACCCCAAGGGTTCAGGGATAGCCCCCATCTATTTGGCCAGGCATTAGCCCAAGACTTGAGCCAGTTCTCATACCTGGACCCTCTTG + HHHGCDGFHHHHHHHHHGGHHHHGGFBFG>=GGEDFDDBFHHFHHHCHHHHHHFHHHHDEHHHFFFFFFDEBDCFEEEDFGEEEEFFFEEHHGGFEFHGD @read_150_22/1 CTACTGCAATGAAAACCAACAGCAATGACAGTAGGAGTAATTCAGCCTTCGTTGAAAACATGACATCAAACACACTCTGGTTTCCCTGAATCTGTTGCCT + HHHHHHHHHHHHHHEBDEGGDAHHH5CCGAEEFGC:BEBEAAEHHH?CFHFFFB:D=DCEE8378DDD=BBBECEHFHHGFFDGGFHFGF @read_150_23/1 GAAGAATTAATATTGTAAAATGAACATACTACCCAAAGCAATCTACAAACCCAATACAATCTGTTTCAAAATACCAATGACATTCTTAACTGAAATAGAA + 5=@EEGGGHHHHHHHHHHHFGFHHHHHHHFHHHHHHHGEEHHHHHHHHHHHHEGHEHHHHHH?DHHHHHHHCBCBGGGFHHHHHHHHCBHHHHF?678:6 @read_150_24/1 TGCCATTGCATTCCAGCCTGGGCAACAGAGTGAGACTCCATCTCAAAAAAAAACAAAAAACCTAAATAAATATAATACCAACCTTGAAGAGTTATGATCA + GGHHHHHHEGHHHGHHHHHHHHGGHHHHHHHH??5(D@78@DF=FECCHBDEEFDEFHHHHHHEFFCCEBFFGHHGFFD9DGFGFHHHHGHFFFFFHGHH @read_150_25/1 CTATTAAAAATACAAAAAACTAGCTGGGCATGGTGGAGGGAGAGGAATTGCTTAAACCTGGGAGGCGGAGGTTGCAGTGAGCCAAAACCGTGCCACTGTA + HHHHFFGGFFGHFHHHHHHHHHHHHHHHHHHHFGHFFHHHE/11,3@B631?EGEC @read_150_26/1 ATTAGTTCTTTAAAATTTGGTAGAATTGACCAGTGAAACTATCAGGTCCACAGCTTTTTTTTCGTTAGGAGATAATGATTACTGATTCAGTCTCATTAGT + HHHGDBHHHGFFFDDDFDDGHHHHHHHDADHHHHEFGHBHHHHHHF?HHHHHHHHHHHHHGGB;AFB@>FDFEEFGGGHHHHGBDDGHHFHHHHD/:++7 @read_150_27/1 GACTACAGGCACGTGCCACCACACTTGGCTAATTTTTTTTTTTTTTTTTTTGAGATGGAGTCTCACTGTCGCCCAGGCTGTAGTGCAGTGGCACGATCTC + GGGFHHHEHHHHHHHHHHHHHGGGGGGGGHHBEBFEGGGGGHHFFFFHFFHEHHHFFHHHDAAB@BCC6;?>GHHHGHHHEHEBFFHEHFAF @read_150_28/1 CCATTTTCTACAGCTTAGTTTTAGAACTTAAAGAGGAGTTCCCATATACAGTAGATTGGGAGCCACTGTTCTAGATCAAGTCATCATTTTTACTTATTGG + HHHHHGGEEEGGF??FHHGHHHHHHHHEEEFGGFHHFCHDEDDDDFE@;9@*FHHFFBGGFBEEEHHHHFF8)>@6(976DHDDBFFHHGGGGEFHHHGH @read_150_29/1 ACCACGAAGAAAGTTTAAAATGTTGGCTTTGCAGTGAAGTTTCCTGACGCCTGATTATCTTTGTCTGGTTTAAGAACATAATTGTTTTTCTCTTGTTAAT + ><<<;CDFGGG?DD<><D9BBFFEDEFHHHHHEDDFADFFGFCFF@9@D @read_150_30/1 ACCTGATCCTTGTTTACCAGGAGAAGCTCTCTGTTGCCTCAGACAATGGGTTAAGCCATGAAGTGCAAAGTGACCTGAGCTGTGTGCTCAGACACTGAGT + HHHHFFFHHHHHFFGGGFHHHHHGHHHHHHHHHCHB93(DAD=CDHFHEFCCBHHFEGGHHFHHHHHFHGHHGFFGGGGEEGGFBGEBFHEHHHHFHHBE @read_150_31/1 AAATACCCTTCTTAGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAA + HHHHHGFHHHHHHGGHHHHHGFD?EGHHHHHHHHHGHFFHFFFHHHHFEGEFFHHHHFFHE>9010>>>EBEDDEGGGHHHHGDD?FEEHFHFGGEE5BD @read_150_32/1 AAAGCAAAATGGTAGGAGTAAGCCCCTCTTTATCAGTAATCCATGCCCCGAAGATTCCTATACCCTTAAGGTCGCAATTGTTCGAGTAAGCTGTACGCGC + GEABFADB<>FHHHA639CGHFGHHHHHHHHHDEFFEGGFCHHEBFHHHHHHHHDEHHHGGFHEFHHHHFEBBFFFDDGGGHGFGEDC?EDFFFHA757; @read_150_33/1 AAATAGAGTCTCACTTTGTCGCCCAAGCTGGAGTGCAGTGGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCT + GHHHHHGGFDBEGFFG=EEEGEEGFHHACE=@B?>:>FEECHBEBFFEFFEFFFFHGFEEFHHEHHH=CCDFD6AFG @read_150_36/1 AGATGTTTAGGTTTCCATTTCTTCCTCCCCTTATCATTTCCTAACGTACCATAGGTTGACCATACTTCAAAAGCTGTACTTTCATGGCCACTGCATCGAA + HHHHHHHGHHGHHHHBDDFGHHHHHHCGG@EEDBFF@<9,3+BFHHHHHHHEFEFHHFHFHHFFHHHFC=FHHHHHHGHHGE@@4+4AG>;?AAA,%0=> @read_150_37/1 ATTAAACTAAAGAGCTTTTGCACAGCAAAAGGAACAGTCAGCAGAGTAAACAGACAACCCACAGAGTGGGAGAAAATCTTCACAATCTCTACACCTGAGA + HHHHHHHHHHHHEC@GHHHHHHHHHHGCD=EGGGHHHHBDGGGCHHFFHHHHBFHHHHCFHHFHDHG@89%028ADFGFDBGGHHHHHHHGHHEHBCEHH @read_150_38/1 TAAGTTCACAGTTTCTCTTGCGAGGTGTGGCAGCGCTTCCTGTTGTACAAGACAGATGTTGCCCTGGTGTTACATGAATCATCGTATCTCCCTCATTTAA + GHHHHHHHHHHHHHEGDFFHHHHHHHEDCHHHFFGEGGHGGE?A?EHHHHHHHHBGGEEHHHHHHHE:EEEEEFEGFHHHFGHEEGHB<45>>?@@FGGG @read_150_39/1 ATATTGACCTGAAGTTTTCTTTTTTTGTTGTGTCTCTGACAGGTTTTGGTATCAAGATGATGCTGGCCTCATAGATTAAGTTGGGGAGGAGCCTCTCTCA + EEEFHHHHHHGHHHHHHHHHHFHHHHHHEGGHHFDFHHHHHHHHHHHFFBHHHHFGF==F=>CF*:@>1>/30EHGGEHHHHHHEFGFEC @read_150_41/1 AACTTTCCATAGTTCCAACATTAGTTGCTACTTGAAACAAACAAAAACACACACGCACATACAACGAAACAATAATCTTTGGTGAGGTCTTGCTGATACC + HHHHHHHGGEGGGGEF=EEEDHHGHHHHHHGGGEEHHHHHHHHHHHHHHHHHHHHHFFFG;>E?HHE??EEBA.CEGHHFB @read_150_42/1 CACTAAAATGGCCATACTGCCCAAGGTAATTTATAGATTCAGTGCTATCCCCATCAAGCTTCCACTGGGTTCATACGACGACGACCAATGGCACACTTAT + GD?CDFHHHHFHHHHHHHHHHEFFHEHCEHEC==6.;>A;)'+>@::@3/:(2247@@AEGGFGFFDHHHHHHHF @read_150_44/1 AGCTAGAATGAACATTCTAATGTTTGAGTTTTGGTGACCGTATGCGGGAAACTTGCTCTGTGCCCGCTCCGTATGTCACAACAGTGCGTGTATCACCTCA + HHHHHHGGFDGHHHHHHHHHHHFGHHHHHHG=HHHGGHHFEGGHHHHHHHEB@CD<*+:?DC;<@@BCDFFHHFHHFFHHFHHGE7'*:+-+9=?HA711 @read_150_45/1 GGGCTAGTTCTTGGATTCATGTCTGGCATGTTATAGGTGGTTAATGAATGATTGTTATAATATTTACCAAATAGTGCGTTTGGGATAAAACATGTTTTAT + GGHHHHGGEEGGGHHHGGGGGEHHHHDD;;C@BFGGEED8:AEHHGGGECDFFGGHFEFHB,6B=AD<;CCHBECFFHHHHHDDFEFHHFHCDHHFDEBE @read_150_46/1 TGTGGAGGTTTGAATCTGGGCTTGGTGTTCTATCTTTTCTAAATATATTTTGATCAACTAAATCACTTTGAAGGCATCTGTGGCAAATAATATAGATAAT + EE=4?GGHGGHHHHHHHHHHHHHHHHGGFFDDFBHHHHHHHHFFB?CCFHHHFHEHHEB939CFFHHFHHHHBGHHGGHHGEHHHHHHHHFFEDFEGHHG @read_150_47/1 CACAGGGCCTGGCACAGATCAGTGCCCTGTGAAGGGCTATGAGTTGAAAAAATAGTGACCTAGAGTGTACTGGGTGTCTCACCCAAACTTCCCTGACACG + EGGBGHHHHHHHHHHGEHHHHGHHGGGBC9D@<@GHHEEGHFDEFDHHHHHHFHHFHFFFFF==EFC;9);?BFFDGEEEDFFHHHHGHHFHFAB45.76 @read_150_48/1 TATTTGTTTTAAAGTCTTTAACTGCTAAAATTAAAAGTTATTAACTCTGTATTCAACTTTTCTACCCAACCAATGTTAGTTTTGTTGTTTATTTTTTTCC + FEEEHGHHHHHHHHHHHHHHGGGEBDDDFFEB=BHD80//'+-1AFFGF@A@@@()>HHCE@+6DECDFHFEBBFHGFGHEFDHGHHHHGG@EHC>CD.E?B<<6@@B?EGDFFFBGGFGGGGFE @read_150_54/1 CCAGCAGGCCCTGATTGTGGGTTAAAAAGAGAGGTTGGGGAGGTAGGGGAAGAAAGAGGGAAGGTACTTAGTTCATACGACGACGACCAATGGCACACTT + HHHHHHHHHHGHHHHHHHHHGG@BHHHHHHHHHGGBFHGFEBDA?FEFGHHHHHHHFHFHHHFHHHHHEFHHFFE9DGGHHEFGGGHHHHHEFFHHHFFH @read_150_55/1 AACCCAAGGTATCAGAAGCTATAAAATGGAAACAATCATGCTGTGAAGCCTCAGTAGCAAAATGCTGACCAATTAATTCTGTGTATGAAAGCTTCCTACC + GHHFFGCGFGFFHHHFGGGHFGGGGEHHHHGGG?>FHHHFHHHHHGFGGHHHDFC>6>@BHHHF@CE?EFFHHHHGDDDBGFDB@FHHDEHH;<7*07?C @read_150_56/1 TATTCAATAGGTATGTAATCTATGCCTAAGGCTGCTAAGGTAACTGATGCTGATAAAAAAGAAATCTATGTTACTGTCCTCAAGGATTTATAAAATTCAA + EGFFHHHHHHHHHHHHDHHHHHFFFHHHHHGGFFHHHHHFFFFFCHEFHFEHHHHHBFFHHHB34/=D8?DDDDHHHGGGHHHFHHHHFHHHGG @read_150_57/1 TACTATTTGTCTGCTCATAACTGTTTTACCCATGTGACTGCATTAGTATACATGAGAGTATGTGTTAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC + HHHHHHHHHHHHHHHHHHHHHHHFHFHHHHEGGFFHHHHHHGGHBHHFF79DEHHHFBC9EEFHHHHFDHHHFFGHHHHH?FD>8=ADGEFEEBFHHHHG @read_150_58/1 TTGTTTTGTCAGTACTAATAGGTAAAACTTGTGTGACCAACATATCCTTTTAGCATGGAGAAAATAAATTTGCTTTTGTTTGTTCATACGACGACGACCA + GGHHHHHHHHHFHHHHHHHGHHHHHHHHHHHED@4?;=AAFGHHHHHHHFECFEHHHHH@CCGGFFFA?EHHHHFHHHHHHHHCHHHHHHHHHDCA=FFF @read_150_59/1 ACCTTAATGTGAGCAATGTCAGTGGAGAGGTGGGGAATGGAGGTACTCGGTATAACTGAATGATCTAATTTGCCGTAGCGACGTACTTCAGCCTCCAGGA + HHHHHHHHHHHHHHHGFHHHGEGGFCBB@=EFBHHHHHHHFHHHHFFE?;=>904CEHHHD;>/702=@?CAB;-BBEECHHHHDHHHGGEEECFFGHHH @read_150_60/1 TAGCATTTCTGTGCCCTTGGACATATTGGAGGACAGAGAAGACTTAGTCTCTGACCTTGAGAAGTTTAAAATCTAGAGGAAAAGACTATTCTGCAAAATA + HHHHFFGHHHHFF=DE=@FHHHHHHHHDGHHHHHHHHHHHHHHHHHHHHHEFEEEHHGGGFHHHHECFFEHFHHHHHFGEA>7EBFFHHHFBFGBHFFD: @read_150_61/1 TTCTTATAGTTCTGGAGATTAGGAAGTCCAAGATCAAGCCACCAGCAACATCCAGTATCTGGTGAAGGTGTGCTTTCTGGTTCACAGATGGTGCCTTCTA + HHHHHHHHHHHHHHEEGGFDHHHHHHHHHHHHHGGGHGFHHFHHHHHFFEGFF?DEEBBFFHHFEFBFFHHF>EBBEFHGGFG?DBD,)9>EHHHFHHHH @read_150_62/1 GTAACCCACCTTAACTTGTCATCATGACTGCTGGAAATGATAAGTAGTCCTTTCACTTATTTTTGTTTGTTTTTGATTTTTTTGTTTCTTTTTTTTTTTT + HHHHGGFGGFFGHHHHHHFGHHHHHHHFBFFG9EFEEDDAHHGHGHHHHHHHHGHBCC@FHHHDDGGEEHHGFHEBEEDDBFHFFHDFHGFHHDDCFGBG @read_150_63/1 ATTATATACAGTGATTATATGAGAATAGCCTTATTTTATGAGATACATACTGAAGTATTTAGTAGTTAATAGGCATTACATCTGTAACTTACTCTCAAAA + CBED6@FHHHHGFFFGHFGGGDDDGHHF@CDFDGAD@CC@HH8:,8'9)EHHBD*=CDFGGEDHHGECFHEFGFBEBDEFFHHBEFEFHHDFGGGGFGFH @read_150_64/1 GATACAAAATTCTTGGCTGATAATTGTTTTGTTAGAGGAGGCTAAAAATAGGACCCCAATCCCTTCTAACTTGTAGGGTTTCTGCTAAGAAATCTGGGGT + HHHHHHHHEGGDDDD@EE@BDFGFHHHHHHHHHFHHFHHFDDFHHHFFHHFHHHHABFA>0766=DFHFFFB:9>DCFHHHFHHH<*1&)+)7.*'&/)7 @read_150_65/1 GCCGAGGTGGGCGGATCACCTTAGGTCTGGAGTTCGAGACCAGCCTGACCCGCATGGAGAAACCCCGTCTCTACTAAAAATACAAAATTAGCCGGGTGTG + HGHHHHHHHHHHHHHHHDDFEC:=FFCHHHHHHHHHFBFFHHHGHFFGHHFGHHFD8?C4EHHHHHHHFHHGFHFE?FGGGGHH @read_150_67/1 TGTAGAACGTGCAGGTGTGTTACATAGGTATACATGTACCATGGTGGTTTGCTGCACCTATCAACCCATCATCTAGGTTTTAAGCCCCATATGCATTAGG + HHHGGGGHHHHHHHHHGHHHHHHHHHHHHHHHHHHHGHHHHHHHHHHHHHEGGEHHEHGGHHHHHFGHHHDEBECDFFDE87B;9CFF?ADADFEFE9*2 @read_150_68/1 AGAATAAAATATTCATACATGCAACAACCTGGATCATCCCTCTCCAGAAATTATACTGAGTGAAAAAAGCTAATCTCAAAAGGTTATACACTTTATGATT + EEGGGGHHHHHHHHHHHHG8BD8FHHHFDA=EEFGFHHHFFHHHFEDB5GFH??EDHHHHFEFHHFD@<786EEDEEEEFEFBHFHHHCCGFEHHEBF9C @read_150_70/1 TGTATTAAAAATGTGGACCACAGTCTGTAGGACTGTAAGAAAACTTGCTCTGTGCCCGCTCCGTATGTCACAACAGTGCGTGTATCACCTCAATGCAGGA + HHHHHGGEGGEEFHHHHHHHHHHHHHHCBD@F@77AEEHGHHHHHHHHEFHHHHED;=42BG?EEEFHHFEFGHCGGGGHHHHHHHGGGHHHBBB5>>0) @read_150_71/1 TATGTTTCATTTAAAACACCAAATTTTAGGAAAAGTCAATAAAATGTTAAGTGATGTTAATGCTGATGACTATCCTGCAAAATAGAGGTACTTATTCTGC + EECDFGHHHFFFEHHHHHHHHHHHHHHHHHE*;@BDFGGEHDCF?;FHEG181AA*9,CDAA@GFDEE8;(/>DBFCFGGHCFEFHHHHHHHHHHHBBHH @read_150_74/1 TATCCCCAAGGGGCATCACTCAGCACAAACTGAGAAGCAGCAGTCCTACCGCTGGGTTGTAAGTATGTGGCTTTATTCCGGGGTTCTCTATTCCATTCCA + HHHHHHHHHHHHHHHHHHHHHHHFFHHGGDHHFFHHHHHHHHHGHHHHEGEEE92@CHHHHHHHEGDEEC=25C;GGGEGHHHHBFGHHHHHHHFHH>.@ @read_150_75/1 GTTCCATTGATCTATATCTCTGTTTTGGCACCAGTACCATGCTGTTTTGGTTACTGTAGCCTTGTAGTATACTAATTTGCCGTAGCGACGTACTTCAGCC + HHHHHHHHHHHHHHHHHHHHHHHHHHFHHHHHHHHHHHHFHHHFC@@DA=:DBHHHHGGFFBEB6,%5/6 @read_150_76/1 ACACAGAAATATTAATAATATGGCTTGATTCCCTTAAACTTTTCTATATTACGTTATAAAACTTTCCAGAGTTTCAAGATGTAGACTAGAAAAGGAAACA + HHHHHHHHHHBBDCGG?><9FHBEFHHHGHHHHHHHHHHHFHFE<>5@?HHHFHHHEGGF=GGGEGEBF@FC>9DEE>FHFDFHGHHFHHEGDFFEEHHH @read_150_77/1 AATCAAGGTGTGGCATATCTCAGCACTCTGCCATGCCCCGAAGATTCCTATACCCTTAAGGTCGCAATTGTTCGAGTGAGCTGTACGCGCCCATAAAAAA + HHHEGGHHHHADCFHHHHHHHHHHHHHHHHHHHHHHHDECFHHHHHHHDDFDFFHHHFHFHFHHFGGHHHC>AD<<0'.@DECFHHHHHHHHHH=DFHHF @read_150_78/1 AGGAAAGCGCAGTGTCCTTGAAGCCAAGTGAAGAAAATGTTTCAGGAAGAAGGGCATGATCAACTGCATCAAATGTTGATAGGTCCTGATCAACTGTATC + GHHHHHHHHHHHHHHHHHHFEDFFFCHHHHGEFFHHHGGFFFGGGCFGDDDGGHHHHGHHFFHHHHFFFBEB>BBGGGD<*10.4(72>7(-87DD @read_150_80/1 GCCTCCCAAAGTGCTGGGATTACAGGCATGAGCCACTGCACCCAGCCTAATTTTGTATTTTTAGTAGAGACGGGGTTTCACCATGTTGGCCAGGCTGGTC + HHHHHHHHHHHHHHGGEEBHHHEHHGGGGFEFGGFHFEHEHFHHEEHHFFGFHHHF@548GGGFFDGFDEAAA6:EBBEEGHHHHHEBD7@@=BEHHHFF @read_150_81/1 AGAAAAACAGACACACAAAACAACAGAACAGAATAGAGAGACCAAGAATAAATCTATGCTCTTACAGCCAACTGATTTCCAACAAAGGCATCAAGAACAC + HHHHHHHHHGFFHHHHHHHHHHHHHFFFEHGGGGEHHHHHHHHHHHHHHG=A@5?DHFGEHHHHHHF?EF@B@BBEBEGFHHHHHHHHHHE@EBBABF@: @read_150_82/1 CAAAGCACCTCTGGGCATTTTCATAACGACTCTTCTTACTGTTTGGGCTATAAATAGCCAGTGACTCTGCTCCACACAGCGTCCCCAGCCTAAGCCATGC + HHHHHHHHHHGEEEGEFHHHABEEEFFFF@FGIGHEE=@GF??DDHHHHHHHFFHGH??BCHHCHHHGEHHEGEF@EFFHF8>4C<2CDFHBFGDDAGHHEFHHHGG@GGFFGFF??DC=;@ @read_150_85/1 GCACCTTTTGATGTGTGGCAGGTAGCTCCGGAAATGATTCTGAGTATAGAAAAAAAGAATGGATCCACAAAAGCAACTGGGGTGGGGGGAGTAAGCTAAA + HHGGGFHHHHHGGBFFHHFGDBFHFBHHHHHHHHHHFHHHHFHHEHHHHHHHHFBEEGGHHHHH;7FHFHHHHHHHHHHEB=8DHHHBBB,*2-FHHFHE @read_150_86/1 TCCTCAAATAAAAATTGAGAACTTTTACAATATTTATCTTGGAAAAAAACTGAGTTTAACTGAAATTTTCTTCAATGAGGAAGTCATTCTGGTGATGGCG + HHHHHHHHGDFGHHHHHEHHHHHHHHGFHHHHGGGGFHHHHHHFGHHFHHEGFECDHHBD-@EHHHHFHDD?CB<;DHGEDFFFFGBDGEF?B8GGCBB6 @read_150_87/1 GGAGTTGTTAAAATCTCCTAACACCTGAAACCCACCTAAGGCCTGGATCATAGAGGAGGCACAATAAACATTGAATGAGTGAAACTTGCTCTGTGCCCGC + HHHHGHHHHHHHHHHHHFFFBCEHGGGGF=DHHHHHHHHHHHBHHHHHHHHHHCHHHHHGFFEGHHHEEBHHHHCDDDF?FHHHHHFHGEHHEBCFHHHH @read_150_88/1 AGTTTAGTTGGCAATCCAGGGCAGTCTTCATCAAGAAGAAAGATGGAAAGGTAGCCCTCTGTAATAACCACTAGCTGTTAAATTTGACCACCATCTGAAA + HHHHHHHHHHHHHHHBGFFHHHHHHHHGGDGGHHHHHHHHHHHHHHHHHHFHHFDD>>HHHHHHHEFHHGHHHHHGGGGHHHHGGHHHHFFHHHHHHHE? @read_150_89/1 GTGGAGAGTTACTGCAACAGGAAAGGCTTAGTGGGTAGAGACTAGAAATGGCAAGTATAAATGACAAATCTAAAAGTGACTGGACAGTACTAGATTGGGT + HHGGDEHGGBDGHHF9::>@9;=@DEDHB@GHHHHHHHHHHHHBFFFHHHHHGEFFHBBECDDEHHBB??9EE=+<@EEBEDDFHGG=,?@DFHHHHHHGGHDDDCFFGGHDDCA? @read_150_91/1 CAAAAAAAAAAAAAAAAAAAAATACACACACACACACACACACACACTCATGCACGATATAATGACATTTCAGTCAATGACAGATCAGTAAGATTATAAT + HHHHHHHHHHHHHHFHHHHHGDDHFHHHGFHHEECDFHHHHHE?DEFB?>CEHHHH@AHGHDCHHHHHHHHHE6:DADGHHHFDDFFFEHHFEEEGDGC@ @read_150_92/1 CCAGTCTTCTTTACTCTTCATTATGGACTTCATCTTTGCTGCATTCATATTCCCCAGGACTATCAAGTCCCATGTTGGCACTGTTCATACGACGACGACC + HHHHHHHHHGGEFGG@EHHHGGFEFEHHHHHHHHFHHHHHHGFFFHHFEGFGEFFBEHHHHBC:B079?BC9EHEHHHGGGHCDCDEFFECC=?EB>.:A @read_150_93/1 CAAAGGTGAACTAGTGTCTTCCTCCAGGGCAGCGTTTCTCAAACACAGCCCTACTGACATTTGGGGCCCTAATTTGCCGTGGCGACGTACTTCAGCCTCC + HHHHGGHGDHHHHHF?=26>D>:>>BGHHHHHHHHEHHHHHHHHFHHHHEA??@;>BCFFADHE:;<=ADDEGFGDE,07FDGHHFBHHHHFHFFHH @read_150_94/1 CTTATGTACATGGTAAGACCAGTGCCTACCATGAACCTATCTTTTTTACCTTTTTAATCATTGTTTTTTTCTGATTTGTTTAAAATTATAGGAATATCAA + HHHHHHHHHHHHFHHHHHHHHEFDA3CHBD+<@GGHHGGGGGGFCEHHHHHHHHHFHHHFHFHHBC@DCB>@+82&-1159DEEFECFB@HFFFG?HHHH @read_150_95/1 CTGTCTCAAAAAAAAAAAAAAAAGAAGCTGCAGTTTAGAAGATGGCTGAAATTTTACAGAATTAAAAATCAAAGACTTTCACAAATTTTACTAAGAGCAG + HHHHGGGHHGHHHHHHHEGHGCCC7FFHHHHHHHFFFHHHHFGFFEEEEHHGHH@HGHHHB<:5A;FGG?5@CHHBE @read_150_96/1 AGAAACATTTAAAAACAGACTAGACCAGGCAGAAGAAAGACTCTCACAACTTGAAGATAGGTCTTTTGAAATAATGCAGTCAGACAAAAATTAAAAAATA + <=F@CEEEBGHHHHHHHGGGHHHHHHHHGDEDFCDGHHHHDDHHHHFHHHHCEFDHFGFCGGGHFHFDB?-667;DCCFD>DHHHHHFGG@BEEDCEHGH @read_150_97/1 TTTTTTTTTTTTTCTAGAGACGGAGTCTCCCTCTGTCGCCCAGGCTGGAGAGCCGTGGCATGATCTCGGCTCACTGCAACCTCTGCCTCCCGGCTTCAAG + GHHHEFFFFHHHHHHHGEEE@GGG@GGGE?GGGHHEEHHHHHEA<28.>>87<9>C;>14BBBHFHHHFEFHHHHFGGGGHGGHEE@CFHHHHHHDFFFC @read_150_98/1 TGCAACCTCCGTCTCTTGGGTTCAACAGATTCTTCTGCCTCAGCCTCCCAAGTAGCTGGGATTACAGGTGCCTGCCACCACGCCTGGCTAATCTTTATAT + GGGGHHHHHHHGGFFHHHHHGGGGHHGEEFGGHHHHHHHHHHHHEHHFHFGGFF>CC?GGDEGGHFHFFHEEEEEGGGBFFFHHEHHHHHFCCHFEGGEB @read_150_99/1 CACTCCATGGGTCAGATACTATTGCGGTACAGGAGTGAAGCATGGTGAGAGATCACTCCACCTGAGGTGGGTTCTGTTAGGCTTGGGGATATTTGAGACT + HHHHHHGGGGGHHHGHHHHHHFGEC@@1><6>72=D:;9<74>@.9DEGGBFHHHHHFHHHHFFECBD?=FGGGGD;FFFHHHHBC;;8DB=8>FGEEHHHH?;8DHHHHHHFBE:,3--3?8= @read_150_101/1 CTTTCTGAGAAGTTTATTCTTCTCCTTATTCTTAGTGCCTTCATCACTCTGTGTTTTGGGGCATTCTTTTTCCTTCCAGACTCTTCAAAACACAAACGCT + HGGEFFE@BB@EAACHHHHHHHHGHFFHHHH@FHHHEGBHHEHHBC877BGGHHHHHHHHHFGHHFHFCEEBEEDCFB,4:12CC5/DG@56@@<>=FHG @read_150_102/1 GGGGGTGGCAGACACAGCTAGGCCCTGTGGTTCTGCCCATGGCCTCCCTCTGGGGGAAGCCCTCCTTGACTACAACCTAGAGAGAGCTCCTGCACATACC + GEHHHHHHHHHHHG?<>B<<8:3BGHHHHHHGHHHHHHHHHHHHH?DHFFEB:9:ABBEDAFGHHHFEDDE4 @read_150_104/1 GGTGGAGTAGGAAGGAGGTAGAGGATGTTAGGCTGAGAAATGTCCTGTCAGCTTGGACATGGTGTTGGCCAAATTTTTTTAAGTGAAGAATTTTCATTTT + EEDHHHHHHHHHHHHHHHHHGGHHGHHHHE88DGBDBC4@E=>BCFHHFFFHGHHHHHHHHHHHH @read_150_105/1 ACTATAGGCACCCACCACCATGCTTGGGTAATTTTGTTGTATTTGTAGTAGAAATGTGTTTTCACCATGTTGGTCAGGTGGGTCTTGAATCTCTGACCTC + AAD76:BGEGGGHHHHHFHHHDGGHHHHHGEHFB>FHHHHHFHHHHHHHHHHHHHHFHHCEFCBCDDEFHEEEEFHFGHHHHGFHGHHHHG?EFG@4.1/ @read_150_106/1 TGAGTTGCATGGCCCAAAACCATACAGCTGGTAGAAATCCGAATTGAAAAGGAAGCAAGGGGTCATCTCAGTTAAGCCTCTCGCTTTACAGACAAAATGA + FHHHHHHHHHHHHHHHHHGHEEHHHHHHHHHCD-=3,8FFAD=B;AHHHEFHHHHGGD8CFHHEB:::;<8>?CDGGHB;9D@A>BDB?D>EGDF::>5- @read_150_107/1 AAGAAATACTCTGCTTAGCATTTGATCTGAACAAAGATATATTCCCTAATGGAGAAGATAGGGCCTTTCAGACACCAGAAACTAACTTCTAATTTAACTG + HGHHHEFFGHHHHHHHHHFGGHHHHGGFGGHHHHFECCDAGHFHHEHHHHHHHHE5@AC @read_150_108/1 ATCACCTGAGGTTGGGAGTTCGAGACCAGCCTAGCCAACATGGTGAAACCCCTTCTCTATTAAAAATACAAAAATTAGCTGGGTGTGGTGGTGTGCGCCT + GGGHHHHHHGGGF@BGFGGFFGGEDFFFHHFHHFHHHHHHHHHHHHHHHFFFEFGFEGGGHFEHHFHEEHHHFGHHHHHHHEEFHB8D@HB//.DHHHEG @read_150_109/1 CCTACTTCTACCCCTCCGCAGGTAAAGCAATCTGTGGCAGAGGAAGCACTCACTTTTTAATTTGTCTGTACAAGTCCATTAGACCTCAAGAGTAGTGTGA + HHHHHHHHHEEHHHHHFFHHHHHHHHFHHHHD@FHHHHHHHEABFDDFHHHHGGE;@EHFE?GHHHFDHHHFHEFHHHHHHFGHGHHHHFFD<@?55?BECEF @read_150_112/1 AACCTCCCAGACTCAAGTGATCCTCCCACCTCAGCCTTTCACACAGCTGGGACTACAGGTGCGTGCCACCATGCCCAGCTAATTTTTTTTTTCTATTTTT + HHHHHHHHHHHHHHHHHHHHGEHGGHHHHHHHHH@DHHHFB@DHBBFHH?@:1CHHF:5DFHFH>27:@5>?ADCDFE>(/;CHFFFC @read_150_115/1 TGGCCTGATCTCGGCTCACTGCAACCTCTGCCTCCTGCGTTCAAGTGATTCTCCTGCCTCAGCCTCCCAAGTAGCTGGGATTACAGGCACGTGCCACCAT + HHFFDGGHHHHHFFG=EHHHHEGFHBHHHHFGHHEFD(55@BFFFEFEEFHHHHHHHHHHFFHFFHHHHHHHEEBGGDFGFD?5>AFGCEEFHHHGHHE+9FA78;/*((? @read_150_120/1 TCAAGACCTCACATTCTCTGATTTTCAGGTTAAAATGAATAATGAAAGGAAAGGGAGAGCGTCTCTCTTTACAATGCTGGAACAGATGTCTTGAGTCTGC + HHHHHHHHGHHDDFDEFGFHHHHHHEEHGHHCDFDBFEBFEEHHFFHHEAFCCEBD@;6/1>EEFEHHHHHFHCBDEEEEFFBEGHGGGCFFFHBGDGGB @read_150_121/1 GTATTTCTCCTAATGCTATCCCTCCTCCATTCCGCCACCCCACAACAGGCCCCAGTGTGTGATGTTCCCCGCCCTGTGTCCAAGTGTTCCCATTGTTCAA + HHHHEDC@=GHHHHHHHHHHHHHHHGHHHGHHHHFHHHHEFHHDDHHHHHHHEHGD@HHHFFHHAE@FDHHFDFCGGGGHHHFGGHHFA>>@7>:E?27; @read_150_122/1 GGAGAATCACTTGAACTCGGGAGGCAGAGCTTGCAGTGAGCCTAGATCACACCACTGCACTCCAGCCTGGGCGACAGAGCAAGACTCCATCTCAAAAAAA + HHHHHHGGFGHHHHHHHHHGFHHGGHHHHHE7(2:-E?>EHHHHHDFHHHHC>FEBEEFHHEHHEB576;,<8@@EDBGEBBGGHGGFF @read_150_123/1 GTTTCCAACGAAGGCCACAAGATGTCAGAATATCCACTTACAGAATTTACCAACAGAGCTAATTTGCCGTAGCGACGTACTTCAGCCTCCAGGAATTGGA + HHHHHHHHHHHHHHHFHHGEHHHHHBCHHHHHHHEHEFHHHHFFGFFFFDCDBGHHHFHCDHHFFEE@EE=BA778<@@DCEGFHFEDEEFHHEE;FEE? @read_150_124/1 CCACATGCCTGCCCTACTGGCTCATCTCTGACCTCACTCTCACCATGCTCCTCTTCCTTCTAGCACCATCGGCCTCCTGGCACTCCCGGGAACTGCCTCA + HHHCGHGHHHHHHHHHHHHHHHHFG@>2HHF?E>B8-9<77=FFEGGHHHHEFGFHHHHHFFHHHFHHCHHFCD3.=:591*'.%1,>A>AHEHHD- @read_150_125/1 CCTCAAAATCCCATTTCTAAAACAAGATCAATGTGGACAGCACTGTCATGCTAATTTGCCGTAGCGACGTACTTCAGCCTCCAGGAATTGGACCCTTACG + HHHHHHHHHHHHHGBDHGFHHHGHHHGHDDGGHHHHHFHHHHF@B@;5AGG?GEHHHEGHHHHHHHFHHEEB=DD:<>7BGG??=A;BHE96>FCHFHHB @read_150_126/1 GGGCACGGTGGCTCACACCTGTAATCCCAGCTTTTTGGGAGAATGAGGCAGGAGTTTCGCTTGAGTCCAGGAGTTCAAGACCAGCCTAGGCAATATAGCA + =BDEHHHHHHHHHHHHHGGGFHHHHHHHHHHFFFHHHHFHHHHHHHHHHHGFHHHEDA@E?8CBBD9CEHHHHCFEEGFFHHHHHHHHF=EHHHHECFHH @read_150_127/1 TCCGTGTGTGCATCTCCCCTCTCCTACCAGGGGGACCTGGACCTGGAGCTGTGAGTCTTTCAGTGACATGGGGTGGCTGGAGTCTGTAGGGGCAGTGGAA + HHHHHGGHDHHHHHHHHHHHHHHHHHHHHHHHHGHHHHHHHHHHHHF>A?GGFFHBGGGGFGD:EEHDDFHHHHHHHHHHF?FFGGDBGGGHGHHHFGBC @read_150_128/1 TATCCCAGCGTTTCCCAAACATGTTGGCTTGTTTCTCAAGCACTATTCTATTTCACATGATTAATGTTCTGAGCAACATACTTGGGGAAATAATGTATCA + HHHHHHHHHHHFD?GFHHHHHHHCDABFFEDFFHHHBB7@EEBEHHHFHHCCEHHFFFHFHHHHCFFCFHG8DBDDEHHHHHE>BA@-, @read_150_129/1 CATTGAAAAAAATTAAATAATGTAGAAACATGGAAAATAAAAATGAAAAATTGTATTGTCCTCTTCTTCTCAGTGGCACACACACAGACACAGATGGACA + GFGGHHHHHHHGGFFDF.CDDGFGGHGHHHEFFD2AFHHHHHHHFHHHHHHHHHHHHHHHHHFGGDEHHC>EFEHBEHHHHGGBHHHF5EF @read_150_130/1 GGCCTGCCTTAGTCTGAAAAAATTTTTTACTTTCCTATGGACAGTACCTCAGCTTGGTCCAAAATATTTCCCCCATTACTGTTTCTGAAAAAGGATGTCA + HHHHHHHHHHHEFAAF>BGDEDCDA5@GGFGHHHBDDDDCBAB7*?@-)+;AHHCHG?:@@DHHHE?FHHG58:1>>5EEDCBCFHF?FHHHHHEBFFHH @read_150_131/1 TGCACGTGGATAATTTGACCACTTAGAGGCCTTCGTTGGAAACGGGTTTTTTTCATGTAAGGCTAGACAGAAGAATTCTCAGTAACTTCCTTCTGTTGTG + FFFFBCBDDBFGDHHHHHHHHHGHHHE@@?AFFGGHHHHEHHHFHHHHHHHHHHHFHHHHEHFEFB<6EHHFCDDGFGFEBBDEHHHH?FHGEE7DHFGEFFGHHFGGFFFFCBHHHHHBEFHHHDEGGGFHHHHHHHFHHHHFCD5GEE?8 @read_150_135/1 TGCAGTGAAAAACAAAAGGGGCTAAACAACTAGGATATAGCCTGTGGTTCATACGACGACGACCAATGGCACACTTATCCGGTACTTGAGTTTCAATGCG + GGGGGGECBA@FHEGHH?EDHHHHHHFHFHGHHHFHHHHHDHHHHHHHHHHHFEFEGGCFGHHADFFHHHHHDBHFHHHHGGGDD=AE%413DC>EFHHH @read_150_136/1 ATGCATTTTCAAAGTGGCCTAACATATTTCTAAATGTTTTATGCTGTTTTGTTTTTCAAATATTATTGTATAGACCACAAAACAATTGGAAAACAATATT + ><>@DEBEB7B?>CC@EGHHHHHHHHHFDFGCEGBH@:B:DCGFFGHHHHGGECEDFHBEHFHFGHHEHDEFHHHHHGEEEFF?@?:FHA @read_150_137/1 TCATCCTGTATTCAATCTAAAATCAAATTGTGTGACAAGAACTTTACTAAAATATATCTTAAATCTATCCACAAACTTGCTCTGTGCCCGCTCCGTATGT + HHHHHHHHHHHHHHHHHHHHHHHHHHHHFDGGGGIC<*DC>9>FEFHHHFGHHFGGGGFFHHFFCCFEEFBEHHHFFGGGHHHHHHGEFFD5?A+'&-.. @read_150_138/1 AAAAATAAAAGTGATGGAATCTAAGTACGGAACCCTGTTTCTGTTCCACACCTGCACACTCATCAGCTGTGCAACTCTAGTCAAGACACTTCTTGAAACC + 75GGGG=>EHHHGHHGHHHEHHFHHHHFEBFHHFB7>FHHHHEHHHH?DHHHHHHHHHFBDFHHHHHFEHDDDFD566;:AEHGH?BGFHHFHHHHHFHH @read_150_139/1 TGGCTATTAAAATGTCAAAAAAACCAGATACTGGTGAGGTTGTGGAGAAAGGGGGATGCTTTTATACTGTTGGTAGGAGTGTAAATTAGTTTAACCATTG + FFFEGGGFHFFEHDB@BBDGEHFHHGFDDHHHHEGFDDD;?BFHHHHF:>/906??DEDD02C?EFFHHDFHBFHHHHE@CDHHHHHFHGCD@CHCCB@E @read_150_140/1 ATTCATTCATTTGTTCATCCGTGTAGCGAATATTTCTTAAGTGCCTTACTTTGCGTAGCTGTGTGCTTGGCAGTGGGATGATACCAAAGATGCACAAGCA + GCAEECGGHHHHHHHHHHHHHHHHHHBHDB::GFHHHEGFGGGFBFBFHHHHHHHFHHGBEEFHFBDDABHHHFEEBEHGHG<7<=@@9B;?DHHHHHHH @read_150_141/1 TAGTTGGAAGTAAAGCACTCCTCAGCAAATGTAAAAGAACAGAAATTGTAACAAACTGTTTCTTATACCACAGTGCAATCAAACTAGAGCTCATGATTAA + HHHEEHHHFGGGGGHHHHHHHHHFF?HHHHHD63@>BG@CFEEEFHFHHBD=CE.FHHHHFHHHHAD93D);54.<:=FDDDCA?D<8BBB@9:?DF>AB @read_150_142/1 CACTGGGACAATAAATGTAAACCAACACTGGACCTGGAAAACTGGGACGTGTGTTTGCCCTATACCAAGGTAAGCTAGACACAGCCACTGCCTTCATGGA + HHHHHHFEBHHHHHFHHHHHHHHHFHHHHHHHFFHHHHB?:@DDEHHGHHHBC55<999*,CHHHHHHFBGGFHHHHHHHHFFHHHHHHHGFDGHHFFG? @read_150_143/1 AATTGAACAACATGCTCCTGAATGACTCCTGAGTAACTAATGAAATTAAGGCAGAAATCAGTGTTATTTGAAACCAGTGAGAACAAAGACACAACATACC + HHHHHHHHHEHHHHFGHHHGHFDHHCB@DDBFFGFFFCEFBCA=?EEFFFH@7DAE>A@;;8*2EED@B9@HHHFGGFFFEDBHHHHHE?D;:4EAADHH @read_150_144/1 GCCTCACACACTCACGCACAGAAGCAAGACACCCCACCCGGTGTGATATGGCCAAGCTTCTGCCCTTTAGCACAAACTAAAAGTGTATTTCGTATTTTTC + GE=CFEBCHHHHHHHHHHHHHHHHHGHHGEBGGGGFHHHHDD6+?9GGF?:@><5BA+@A>>>DAD??:=EEC=@E@FBBEFHEEEGEBDCHHHACC@: @read_150_146/1 TGACTGGAGAAGTGTCCACATGAGTCTGTGGGAGGCAAGAGTTGGGGGTTGGGAGGAGGAGAGGGAGAGCTCAGTTCATACGACGACGACCAATGGCAGA + HHHHHHHHHHHHHHHHDFHHHHH=EDDFFFDEE69@BGGDCEHHHEDF?HFFFFEHHFHFD4ECDCEECHFHHFFHHHHHHHHHEEEGGFE@&.);CC.4 @read_150_147/1 AGAAAAACAGAACTGGAGAGAAGAAGGGAAAGACAGGTAGATCAAACATTAGAGGGAAATACTTTGAACCTAATTTGCCGTAGCGACGTACTTCAGCCTC + GGEEDCEGGGHHEFD>EFGHHFHHHFHHCBGGHHGFFFEHHHHHHHHHFHHHHHHFFEHDCADBEA4'&)>EHHGFFGEHHHHHGFHGGGEFFHEEHHHH @read_150_148/1 AGTTATACTGTCATTATAAGCCACTTATCCATCCTGGCGGGGAACAGGCTCTCTCTCACCTCTGCCCCATGCACGTGCTATGGTTGTACCTGGAGCAGCA + HHHHGGGB/?GGHHHHHHHFHHHHHFDDEEFHHHHEGHHFHHHF;@3==FF5CEFG@CFFEDBHHHHHHCGGGHHGFFF59CDFFFFEEFFGGEGGHFHH @read_150_149/1 TCAGCTTAAGCTTGCCGGTCATTACATGGGCCGTATTTACATATGAAAAAAATTACTTGTTTATTTGAAATCCAAATAGCGCTAGCTGTCCTGTATTTTA + EDDCA@EFFHHHHHHHHHHHHHHGGGGGHFHEHHHHHHHHHHGFEFFEHHHHFFFHHH9EFE;:9EEBDEG @read_150_150/1 CCATGTCCCTACAAAGGACATGAACTCATCATTTTTTATGGCTGCATAGTATTCCATGGTGTATATGTGCCACATTTTAGATCGGAAGAGCACACGTCTG + GBA@;=EBDBBGHHHHHH@?CGFHHHHHHHGGDFFEFHEEHFDCBGHHFB3/68DD/7><;DCFEHECFHBFFFHHHHHHHHFHFEEGGFHEFHGFGFFGH @read_150_152/1 TCTTGGGTTGCCAAGTATTCTTTTCTTTTTTATAATATCATTTTTGTTTCAATGGAATACTGTATTTCCACTGATCATATAACATAGGAAATAAAATACA + HHGEEHHHHHHHHCDEHFHHHHFHHHHGGGGFHHHFHHHHHHFEHCFHHHFEFCHHHHHHHA6EEGHHFDFHHHHHCCEGHHHHFHHHGGFHEEF?EHF< @read_150_153/1 TGAACAACGTCTAAAGACCCAGAAAAGTTCACAAAATGCAATACTGATGTAATTTCTACATTTTAGAGTTTTAAACTTGATAATATACTTTTTTGAATTT + HHHHHHHHGBED4C>FFHHHHHFGHHHFHHHHHHHHHFFFGHFEHHEECHHHHFHGFFEE>BHFHGHHHFFHHHFFGGHHHHHFGHE>9*.=3>DF>9+= @read_150_154/1 TTTAGAATTTAATCCCCTCTGTGCTGCAAAACTATGCATCAAAAACATGGCATTCTAGCTGCTTGCTCTTTAGAGTGGGAATATCATTTATCAGACTTCA + HHHHHHHHHHFGEBAEGHHHHHHHHHHHCCB+DD4CHHHHHHHHD9A?FHHHFB:EFHHHD?BBHEHHEHBFHFAEHHFGGHHGHHHHGGGGBGGFE?CB @read_150_155/1 GCAAATTTTGTATAATCCAAATTTTCTTTTCTTTTTCTGGAGACAGGGTCTCCCTCTGTCACCCAGGCTGGAGTGCAGGGGTGCAGTTATGGCTCACTGC + HHHHHHHEFE?:GFHHHHHHHHHHFHHHGGGFBCHHHHHHE;>@4?CDFFHFHHHHFHHFECEEEHHHHHHGGFEHHHHHHHHHHFEEGEHHFE?AEHD. @read_150_156/1 GACTTCAAACTATACTACAAGGCTACAGTAACCAAACCAGCATGGTACTGGTACCAAAACAGAGATATCGACCAATGGAACAGAACAGAGCCCTCAGAAA + G=EFHHHHHHHHHHHHGFEHHHHHHHHHHHHHHHHHHHEDGFEEBDFHHHHFFHHHDHHHHHFDEHC@+BFHBAB@DFHHHHHH@HGFGFHHGGFHFDCDBCEEEGGHEBABGGFGG@DFFFHDF @read_150_158/1 GGGCTTAAAACTATGCAAGTTTATTATCTTATAATTCTAGGGATCAGAAGCGGAAAACGGGCCTCAGTAGGCTAAAATCAAGGTGTTGGCAGAGCTGTGT + HHHHHHHHHGHHGGG?DBCGHHEHHHFFGFGGD?CD?>:-%6%,AHHHHHHFFHHHHHHHHHEEABFGH?DFDD@HHHEDD6356>69A3EEFEH?:8?C @read_150_159/1 CAGGCATAAGAAATTATAAAAGTATTAATTTGGGGAACTAATAAATGTCCATGAAATCTTCACAGTCCATGTTCTTCTGCCATGGCTTCAGCCGGTCCCT + EFHHHHHHHHHFB@@CFGDHHHGGFGE8E:EFHHHFHHHBDDDFHGEDBHHGC@<95ADEHHF=DFDGGGHD@HHHHFFHFFFGEHFGGEHGFCFEHHGGHHHHHFFCHHHH @read_150_163/1 AGAAAAAATACTATCATCCAAGGAGGATCATAAGCTGATCCAATGAGATGCCTCGGACTGCTTGATCTTCATCTTTCAGTTTCGCTGGGCTAACGTAGTC + GGGGHHHHHHHHHHBHHHHHHGGHGGHHHBDDEHHHHHHCHHHFHFDHHEFHHHHHGHGHF6?E @read_150_164/1 TGGCAAAACCCCGTCTCTACTAAAAATATAAAAAATTAGCTGGGTGTGATGGTGCCCACCTGTAGTCCCAGCTACTCGGGAGTCTGATGCAAAAGAATTG + HHHHHHHHHHHHHHHHHGHHFHEA<=B@FFHHHHHHHHHFHEFGHHHHHHHHHHHHD??7BFHHHHHEC>4@7BEGGHHHHH@BCBFG=::):?AC-D1. @read_150_165/1 GACCGGGGAGCCCGGGGTGGGGCAGGGGCACCAGCTACATGTATGAGGTAGGAGGAAGATTTTATTTTCTACTGGTCAAATCACTTAATCTCTCTGTGCC + GGGGGDGGHHFFEEEHHHHGHHHHHHCG@EGEHHHGHHHFHHHCFBDGAF@CFFEFHHH?DEDDFECFHHHCAGF?.57FCEEFB=FFEDFB/ @read_150_168/1 GATGCAAATAAAGAGAAATTATGAGATAGAGAGGAGGTAAACTGAAAATCCAGTAGGATTGCTTTGGTTTCTGTAAAGTGACGAGAAAAAAGAAAAGGTT + HHHHHHHHHHHHHHFGGFHHHGDDFGEHHHA@@+6--59A>7DDDFHFFFHHHDGB::8199DDD=BH7;CFHHHHHHHHFAD8EFBBE9BFHHHHHFFH @read_150_169/1 ATGGTGTTACCTCTTCCTACTTCCTAAGCCTCTGATTTCTATTATATTTATTACATTAGCTAGAAATGCCCATCAAATTTTGAATAAAGGGCATTCATAT + HHHHHHFFFDHHHHHHHHHHHBB@@CDHFHHHHHHHHFEBEHHHHHEHHHHHEFHHGFFEHFHHFFD?@CCB::A277;?,?HHHHHHGHHHGGHHGDEF @read_150_170/1 ATGAAGAAATCCCGTTTCCAACGAAGGCCTCAAGGAGTTCTGAATATCCACTTGCAGACTTTACAATCACTAATTTGCCGTAGCGACGTACTTCAGCCTC + HHHHHHHHHHHHGEGFGGGGGDGBEFGGEFGGGHHHHHHGE@)7<2'BGHHHHHHFFHHHHHHEAFEHFHFHFFHHFGGHHHHHHBHGFF<99CEDDDCD @read_150_171/1 TTCAAGCAATTCTGGTGCATCAGCCTCCTGAGTAGCTGGGACTACAGGTGTGCACCACCACGCCCAGCTAATTTTTGAAACTTGCTCTGTGCCCGCTCCG + FFGGGGEEEDHHHHHGGHCGGHHHHHG6FFHCHHEEGHHHBA?EHHHHHFHHHEFC?FFFFHHFCCHHHBBBDFFFFGHHHHHDHEDEEFGHEHHE@6:0 @read_150_172/1 ACAATAATACAACAAAGAAAACCAACAAAGTGAAAAAATAAAAATAAAAACAAGTCTTTAAAAAAGACAAATACAGGGACAGGTGCTGTGGCTCATGCCT + GGGHHHGHHHHHHHHHHHGEHHHHHFAHHHHHFHFFGHHFFF@CDEGEHFHHHHFBAHHFHHHFGGHHHEFFGHB:B=>:,@EHCHFHHEADFHHHHFFF @read_150_174/1 AGTTCCACATGGCTGGGGAGGCCTCACAATCATGGTGGAAGGTGAAAGGCATATCTCACATGCCATGCCCCGAAGATTCCTATACCCTTAAGGTCGCAAT + HHHHHHHGHHHHFFHHHDCDFHHHHHGEGHHHHHHHFECHGHHHHHEHHHFFHHHHHHGEHFFF5BEFHHGGEFCFFE62<919FBEEEE?FHHHHHHEG @read_150_175/1 CTATTAGAAAGTTCAAGATTCTCTGGGGTTCTTAGGATTTACTGTTCCCAAAACTCTGTCAAGAACAAGAAAATGACCTGTATACTTAACTGGTCTAGGC + HHHHHHHGFGE=BCFFFFHHHHHHHHHHHGFGHEHHHFFFDHB?HHHHHHHDC@G=E8CCDHHDEEEBEFHHHHHGFGHGDFDDCCE?DHHHHCFHHHEEBADFD@EGEGGGBHFFA5HHHHHFEFFFFFGGGFGGGFFGFFC:9,7=BFHFHHE?<;DFBADEBDF=?DFHHFHBGGGCBHHE5< @read_150_178/1 GAGACCAGTGTGTGGGAACCATGTTGAGTGGGAGTGGGGGGCGTCCAGGCACTCTGGTCTGGGTGGTGGGACAGGTCTAGGGTCTCAGAGGCCCATGGTG + GGHHHHHHHHHFFFDHHHHHHHHHHHHHHHHHHHFBHHHHHFHHFGHEHCE9*CGEEGFHHHFFFHHHHHEHHHEGGGHHHHHFGGFFC>C@FFC<::D5 @read_150_179/1 AGATTTTCATGCTAAATCAGCTCTAATTTGCCGTAGCGACGTACTTCAGCCTCCAGGAATTGGACCCTTACGCACACGCATTCATGAAAAAAAAAAAAAA + FFFDDGGHHHHHHEEEFD=D7BDEFFFBFHHHHHHHHHHHHHHEFCDBEFHFFGGFHHFHHHGFGGHHEE @read_150_183/1 TTCTCCAATCAAAAGACAGTGGCAGAATGCGTTTAAAAAGTAGAATTACATGCTACCTACAAGAGACTCACTTAAGATTTAAGGACACACAGATTGAAAG + HHHHHHHHHHHHHHHHHHHHFFFHHHHHHGHHHHGHHHHHHHHHFHHHFFFHHHGGHHFFHHHBBEEEHHHFBADFHHEHHHHHFHHHHGGFHFD>BED= @read_150_184/1 AACCTGCCCCAGGACGTCCTGATCACTATTTTCTCCTGGCACACTGCACTCCACTGTCCCTTCCTCCGTCACTCCAACCCTGCCACTCTAGGGGCTGGCT + GGGHHHFBD87?EEHHHHHHHDGGHGGGDGGEHHHHHHHHHFFFFHHHHHEFHEHHHFDDHHHGCFEHFHHFHHEGGDDEBFGHHHHHHHHHHEEF?,*3 @read_150_185/1 TTTTCCTATTTTGTAAAATGAGGGTTTTATAACTCATTTCAGGGACAGTTACCCTTTATCCATTTAGGGTACTAAATTGCCGTAGCGACGTACTTCAGCC + 8D?:CCDDGFD=EGHHHHFGGHHHHHHHHHHHHHHHHGEFGFE?E<69CHHHHHHHHEFGHHH;<@FFDFDC @read_150_186/1 TCTTTTTTCTCTTTGCTCCCTTAAGTACAATTTTTTTCTGTCTTTCCTTACCTGTCTTATTCTTTCAACCATTTGTATTTACCTCTTGTTTCATTACCTC + ?=CCBGFGEGHHHHFGHEC@DDBGDHHHHHFGHGCEEEHEGHHHEFHEFHHHGHHFBGHHHFFDEHHHHHHEHHGHHHHGGFFFGHFHCHHG=B5:EEHH @read_150_187/1 TTGCAAAAGAGGGACTAATTGAGAGGTGATATTACTGGTTTAAATGAGAAGAATTAAGAGTATAAATTAGGACTCGGGCATAAGTATGGATGTGGCACAA + HHHHHHHHHHHHGGHHHHHHHFGHHHHHHHHFBDDFFEHHEFD(/E?CFHHHFCFEFHHGEHGGDCGGEHGHHHGHHFIGEHHCC?=FGHHHHHHHHHEE @read_150_188/1 ATAATTTAACATTTATATTACCACCAAAAAACACATTTAGGTATAATCTAAAAAAATATGTACAAGATCTACAGGAGGAAAACTATAAAACTCTGAAGGT + HHHHFEDHHHHHHHHHFHHHHHHB?FHHHHHEDFGDDFHGAAAFHHHHHHHHHFCHHFFHHFDEEA2369EFFBHHHHHHHHHHHHHHGF?HDB'-6*57 @read_150_189/1 TTCTAGTTCTGTTCACCCAGGGACACTTCTTCACATTTGCCTCACTCCTGCGAAGTTAGGATGTCATGAGCTGTGTTGTAGAAGAAGGTAGTTGGGTGAG + HHHHHHHHHHHHHHHHGGGHHFFFHHGHHGC4E=DAEFHHHHA6EHHFEEHDFHHHHHHHHHHHHHHHF@E@0:9C=;@@?EC@BD8@CGFHF;EHHHHGHHFEHHEHHHFFHF=FHHDE?;BCFFFFEHHEFHHHHEHHHHHHHHHHHGDFGFE<.3=EB=D @read_150_192/1 GCTCGAGCCACAGCCTGATATGAATATTGATTGGAAAAAATGTCTCTCCCCTCGTCCCCCAGGCCCGGGGCTGCCAGGGAGCTCTCCGAGCAGTCTGGGA + HHHHHHHHHHHHGGGHHHHFDBFHHHA>@GGEHHHHHHHHHHHHFEBFFEGGHFFFFHCDEFDFFHHFFHFFHHHB;B.&372,(6/+2@AHHHHHHHFF @read_150_193/1 ACAAGTTTCAAGTATGTGGTAATGTAAGAGTCCAACTTCCTACAAGTCAATTTCTACTTGGAATCTAGTTCATACGACGACGACCAATGGCACACTTATC + EEHHHHHHGGHHFGBGGGGEGFEEHHHHHHHHHHHHHHHEGGCFCC=>>*>=B>DHDEEHHHFHHHHHHHEB?@676=DA@6DF8<476F.1DGGDFFEE @read_150_194/1 ACTAAAAATGCAAAAAATTAGCCAAGCGTGGTGGCAGGCGCCTGTAGTCCCAGCTACTCGGGAGGCCGAGACAGGAGAATCGCTTGAACCCGGGAGGCGG + HHHHHHHHHHHHGGGHHHHDEBGFFGHHHHHHHHHFGGGFFFHHHEHHHFEBEEEFGCBHHH@C;@942DA?A>EHGBA*3:--/ABCDEHBHFGGGGHC @read_150_195/1 ACCATTTATATGTTCTCTTTCTTTAAACATCAGATCATATTCCTTGGCCACTTATCTATTGGAATTATAGGATTTTTTGATTCATTTCTGAAGTCTCCAT + HHHHFHHHHHHHHHHHHGGHHHHHHHHHHHHHHHFEFEEBFHHHCEEGFGFH>=HDBHHHFF?DHHDCHHEEEFAEE@BHHBF?7@3;BDFBBFHHHHHE @read_150_196/1 AACACTCTTTTTGTGGAATTTGCAAGTGGAGATTTCAAGCGCTTTGAGGCCAAAGGCAGAAATGGAAATATCTTCGTATAAAAACTAGACAGAATCATTC + HHHHGGB@DBGBED;=BDBHHHHHHHHHGGHHHHFFHHHFBBBFFHHHHHHHHFFE@8BFHHHHHFHHHC?DFFFHHFEHHHEB;FFGFBECHHHHHHHH @read_150_197/1 TGAGCCAACATGGCCCATTATACTTAATGAATATGAACAAGACAAACTCAGTTCACATATTTCCAGATGATGAAATGAAGGTTCAGAACCATTGCTTCCA + GGGHHHFBBEFB>BCE8BCFHHHHHHFF?CEHHHBFHHHHDFHHHHHHHEHHFEHHHFFFFHEFFHHFC?:32:DGHHHHGGHHHFFFGGAFHHBGEHGD @read_150_198/1 ACTCCAGCCTGGGTGACAGAGCGAGACTCCACCTCAAAAAAAAAAAAAAAAAAGGAAATGAGCTCTAAAGCCTGTCCCAGACCCAGATTTCGATACTGTT + HHHHGGEFHHHHHHGEFGGFHHGGHHHFHHHHFFHFFFHHHHHHHHHGF?CFEFCEGFFFF<<6%::>9;'-;?>@@@:-CA@EHHFGHE@?89F @read_150_200/1 TGCATGTAGCTGTTCACTGATGTCACCCCTCTGCTGAGCCTTGTCCCAGTGTTGCGGTCACCAAAATGCATGGCAGTGAGACCTCACTCTTGAAGAGTTT + HHHGHHHGGEDC@8>GHHHHGHHHHHHFFFEGAEAFFFE@>D<8(-'.4>?DGGGHFFGGEHHHFFED96ADGBFFFFFFHEHFEGGHHHHGFFFCFBEE @read_150_201/1 GAGACAGGGTTTCACCATGTTGGCCAGGCTGGTCTTGAACTTCTGATCTCAGGTGATCTGCCCGCCTCTGCCTCCCAAAGTGCTGGGATTACAGGCTTGA + HHHHHHHHHHHEBEEDD?>GFHHHHHHHHHHHHHFC?GCEGHHHFGCBFHHFFFHGGGGEHFHHFHHHHHHHHHHHHHH@=7DA?72235= @read_150_202/1 GCTCAGTTCTGTCAGACTTTAGTGAAGTACCTAGACCTGGTCTTGTCAGAGAGAACCAGGGCATTGGGCAAAGCAGGATTAAACCCATCTTCTCCCCTGA + HHHHGHHHFFFHHHHHHFFGHHHFF4>@AA=@/>>/ @read_150_203/1 AGAGTTTCAACACGTTGGCCAGGCTAGTCTTGAACTCCTGACCTCAAGTGATATGCCCACCTCAGTCTCTCAAATTGCTGGGATTATAGGCCACCACACC + HHHHHGGFFHHHHHHHHHHHHGGGGHHHFDFFHHHGG=EBFFBFHHHHGHHHHHHHHHHHEEHDFHEE8@CEEEHHHHHHHHHHHHHHHHHHHHHHHGCF @read_150_204/1 AATGTAATCACGAGATTTCTTAGAAAAGAGAGGCAGGATATTCAGAAGTTAAGGAGGAGAAGACAATGAGAAGATAAAAGCAGAGAATGATGTAATGCAG + GGEHEA@GGHHHHHHHHHFHHHEHHHHHHHHHHFEEHHHHHHHHHHDHHHHHFGGFFGHHFHHHHFDD@B?FEFHB@@DGEC((3,?A7@@HHHFFG @read_150_206/1 CTGTTCTTGGTCGTGGGCATCTCTGGGGAGCTCTGAGTGGATGAGTTCTCCGACTTGGGCTCCTGTGAGACGTGCCCGCTGTCTGGGGTCTTCTGACCAG + HHHHHHHHHHGHHHFFHHHHHHHHHHHHHHHHHGEHHEFHHHB@@ECFFEHHHGDHHHGHHFHHHHFFFHHHDE('%444D.DGE:;*GHFGEB5BF(,% @read_150_207/1 TTGAGACCAGTCTGAGCAACAGAGCAAGACCTTGTCTCTGCAAAAAATTTTTTAAAAATTAGCTGAGTATAGTGGCACACACCTGTAGTCCCAGCTACTT + HHHHHHHHHGGHHHFHHHHHGCGHHHHHHHB*>;?AAHBDHHHHHHHHHFEHHHHHHHHFHFHFEHHFFFFHD7EGGHGGGHFFHHHFFHGFEEAE;EFECDHEHHFHFHHA>3(+644A78BEEDBB;7>=)1?BFD:68=D93AD @read_150_210/1 AGAGTCCCCCGCAGCAGCGTCACGGCCCAGCTCTGGTTCTCAAGTTGGGCTGCTGTTTTTCCCCTTTTTCTCATCCGCCAGGATGCCAGGCGCTGCTGAA + HHHHHHHHHGHHHGAFGGGGGHHHGGDFEE2ABFFHFEEC-4,+FGHHHHHHHHGFCCHHBGF=E9CDC@CFEGGDDEE0=ADFHHHFHBDD?EH:A)12 @read_150_211/1 AACCTTTGACATAAAAGATTAGACACACATTTAATAAACATATATATACACACACTTTTTATTTATATTTAATGAAAATTTGGTAGTTGGCTTTCACATC + HHHHHHHEEFHHHHHHHGGDFGHHHHHHHHHHHHC.A?ADFHFHHHHHD?FHHH@FE978?EDF?BHH@HHHHHHHHHHHFEGHHHHHEFFGFHH@EFCC @read_150_212/1 TTTGTAGGAAAGCTAATGCTATTATACTGGTTTTTGTTTTCATGAGGAGCTAGAACCAGAGCAGCCCTTCCATTACATTGACATATATTTACTAAGGTTT + =;CC=DFFEEDDB=BBCEGGHHHFF=:6<>DCHGHHHFHHHHHFFHHHFHHHHE:DGGHHHFHHGDDCFFHHHFBHHGFFCEFFFFB/1;8EGFFGG??E @read_150_213/1 AAAGGTGAAATGACATTTGCTGTGTAAATTTCATAGTTTGTTTCAAAAAAGAACCTTGAAAATAAGTAAAATTAAAAAGTAGAAGAAAAAAGAGAAAATG + HHHHHHHHHHHHHHHHHHHHGGGFHHHHFHHHGFFHHHF?C3)0<2@@DFEHHHHHFBAAD1CCHHHEEFHHHFEH?;.9@HFEEF@DHEHFHHHHHHHFBHHHHHHE>EFFHHH@C=B @read_150_217/1 CAGACACACACAGCCTCAAAACATTTACTTCCCATGTACCCTTCTCAGGAAAATACTTCACAAACAACAGAGGGAACCCCAACCAAGAAGCCATGAAAAA + HHHHFEC/D?EEB/B;IEHHHHHGHHHHFHFHHHHHHHEEHHHHEFFFGFFHHD29.15BHHHHCHHHFB539EFG=558?ECFGHHHHHHHHGFC;ECF @read_150_218/1 ACTACTTTTCAACAAACAATTCCAGTACCAAAATCGTATTGCTGCTGAATTTAACACCTAATTTGCCGTAGCGACGTACTTCAGCCTCCAGGAATTGGAC + HHHHHHHHHFGDDBBEEEGGHHHGGE@;CCFHHHHHHHC?==CFHFHHBGFFHHFCFFHHFHHHHHHFB<'3966CDEGHHHHHFHHHHHBBFHFHHEHG @read_150_219/1 AATTCAAAAATTGTTTTGTCTATCCTTCCAGTTTTGAAAATATAAGCAAGTATTTTATATCTGTGCATATATATATACACCTTTTAGATAAACAGAAGCA + HHHF?AGGGGFHHGGHHFHHGEEEFHF><EEHHHHHHHHEFEFDDCHHFEEDD?@@EGGHAEEEHHHHHHHGFHBF @read_150_220/1 AAGTCTCTTGGTAGGTCTCTAAGGACTTGCTTTATGAATCTGGGTGCTCCTATATTGGGTGCATATATATTTAGGATAGTTAGCTCTTCTTGTTGGAATA + HHHHHHHHHHHHGGHHHHHHGGGHHHGFHGC@FEBGEEFHHHHA>603ACEEGFHHHEDEDFHHHHFHHFEACHFGEBAEFHHHHFGBEBEFHHHHGGFF @read_150_221/1 ATCAATGTAGACTTGCTATTTTCACTGGTATTTTTTTTTTTTTTTGACTAGCCACTTAAATTCTGATGTGTCTCATGTTTGGTTATTAGTGTCACCTAAA + HHHHEE<::<@FFGGFGGGGHHHHHHHHFFGGGEHHHHHHFHHFFGC;8DHHHHHHHDHHHEEEEHHDDDEEFCDHHFDDF?5@DC?EBDGDA7?HDGCD @read_150_222/1 TTGGGTGATGGGGGCGGATCCCTCTGGAGTGGCTTGCTGCCGTTCTCACAGTAGTGAGTAAGTCCTCGCTCTCAGTGAAAGAGCCTGGCACCTCCTCTTT + HHGEBFD=6:DGGG?@CGEEHHHHFGHHHHHHHHHHHHHHHHEFHHEEAGEA52:0<9EF<4/6AFBDEBE::''@>7;?,.86509770EE?DCHHHHF @read_150_223/1 CTTGCTTAGAGGTTTCCGGTTGGGAGGATTGATGAGTAGGACATTTGGGAAGACTAGAGAGAAAACACAAGAGGGTTCTAGACAAATTCAGCTCTTTCTT + HGFEFFHHHHHHHHHHHGGHHHHGHHHHHHHHHHEHHHHHHHHHHHHEFHHHHDFHD?=EFHBDDD87ABBEDBEECC=FEGGFFG9-%5;D9DAE2>>A @read_150_224/1 GGAAATCACAACACATCTAATTGGAGTGAGGTACCAAACCCATTTATACAGTTTATTGCCTATTGATAGTTCAGTGACTACTGAGATTAGCTTGTTAGCA + EEFD@=:GFFGEHHHHFFGCBCGGEC@F?:A@@4 @read_150_225/1 GTATCATTTTGTTACTTAAAAGGTCTAGAATTTACACTTGAAATAACCTTTTCAGGTGGAACCAGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACC + HHHHHHHHDFFHHHGD5<ABFEFEGF: @read_150_226/1 ATGACGGGTTGATGGATGCACCAACCACCATGGCACATGTATACATATATAACAAACCTGCACATTCTGCACATGAATCCCAGAACTTAGAGTATAATAA + HHHHHHHHHHHHHHHHHHHFFHHHHHHHFDEHHFFHHHFFGGGB@GFHFFHHHHHFEEEEGDD@ECHGGEHHHDDGDCE=91ADGBEHHEFHHFFHHHGB @read_150_227/1 CCAGGGTATACTGTTAAGTAAAAGAAGAAAGCAAAGTACAAAAGAGAATATAGAGCATGCTAACTTTTGTGTAAGAAGGGTAGGAAAACACACATAAATT + HHHHHHHGHHHHHHFFGGGEBGBHFHHHHHHAFFHGEHFBDDHHHHHHHHHHHHE?))4@/,/C@FBBFHHFFHHHHHHHHHHHCCFHHFCFB@DAAB7E @read_150_228/1 AGAAAGGAGAGGTGATGTGTTTGGTTTGTGCATCTTGAGTTTGAGTGCCCAGTGGGATACCTAGTGAAAATGTCCAGCCAGTTGTCAGAATGTCAGAGGT + HHHHHHGHHHHHHHHHHHHHHHHHEDE?GFGBEFFFHHHHHFHHHGHHHFBFFC>;EHHHFHHHHHHHHCEFFDEFEHHHHHHFFFFFC77?EFHHFFFD @read_150_229/1 GTTAAAATATTTACTGAGCACCTACTGTGTGCCTGGCATTGTTCTTGGTGCAGGGAAGACAGCAGAGAAGAAGATAAACAGATAAACGCAGTCCCTGTGC + HHHHHHHFFHHHHHHHHHHHHHHHHHFHE??>>HHHHHHEHHHHEEHHFFCFGED1%>?FHHHHHHHCBFFF>?EBC7>C4DEEDE8<>?AEFHHHFCDF @read_150_230/1 CTGCCTCAGCCTCCCAAGTAGCTAGGTTCATACGACGACGACCAATGGCACACTTATCCGGTACTTGCGTTTCAATGCGCATGCCCCATAAAAAAAAAAA + HHHHHHHHHHHHEDHHHGHHHHHHHHFFHEBAFF?FFHBFHHHHFEHHHHHHHHHFFFFEEHHHHHHHHHFDEFCHHHGHD?DDHHHHHHHHHFHHHHHG @read_150_231/1 AGGCTGAGGCAGGAGGATAGCTTGAGGCCTGGGGTTCAAGACCAGCCTAGGCAACATAGCAAGACACCATTGCTACAAACAATTTAAAAATTAGTTGGGC + HHHHHGFDGFHHHHHHHHHHHHHHHHHHHHHHFHHHHHHFHHHHHHHFHEBGHHFBEHHHBFHHHDF@<<>0BEFHFGFHHGHHHHHGFHHHHEEDFFHH @read_150_232/1 ACCAGGTCAGCGATGAAGGTATCTTCAGTCTCCCCCGAACGATGAGACACCATGACGCCCCAACCATTGGCCTGGGCCAGCTTGCACCTGGAAGCCAAGG + HHHHHHHHCFGDE/EHHHHHHHHHHGGHHGGHHHHHHEEEFHHFGBEHHBCAHFDHFHFFEGGGBHHHHHDA?AEFGHHHHGGECEFGHHEGHECEBDDF @read_150_233/1 AACTAGAACCAATCCAGGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAA + GHHHHHHHHDEFFFFHEHHHHHHHHHHGHHFHHHEEEDBD?6>5@EFHGGBGGHHHHHBFHGHHHHFHHHFDA:(C=@@5BDFHHHHHGFGEEFBFDFFD @read_150_234/1 CAGGGATGCTTTATTACTATTATTATTTATCTTGATGTTTCTACTAATTTGCCGTAGCGACGTACTTCAGCCTCCAGGAATTGGACCCTTACGCACACGC + HHHHHHHHHHHHEEGC@GGG>>11:;171:@A;/3;DGGGGEHHGFACFFCH @read_150_235/1 AATTTGTCCCCCAGCAGGACTCAACTGTTTGCGGTTCCTGCCTAATTTGCCGTAGCGACGTACTTCAGCCTCCAGGAATTGGACCCTTACGCACACGCAT + HHHHHGGEEEGEDHHGHHFFFHHHDF?GEHHHHHHHHGGEFFHHHHHHHHHHGGFFHHHHHFFHHHEHECBEFFDGHHHHEDFFHHHFA>BDEHHGHHHH @read_150_236/1 CTATCCTTTTTATAAATTCAAAGTGGGTTAAATCTTACTAAAGTTCAGAAAAATTAAGTAACTTGGAATCAAAGTTCACACAGCTCATAAGAGGCAAAAC + HHHHHHHHHHHHHHAEEB<4=FEHHHHHHFGHFFHHHHHHHEBHHHHHHEF9< @read_150_237/1 TTCCCACCCCCTGTCGGGAGTGCTGAGCAAGGGGCCCCTCAGGTTTTTCCGCTTTAAGAATCGGGTCCCAATGTCCTGCTGGCCATAGCTGCGGTTTTCC + HHHHHHHHHHGHHHHHHHHHHHGGC?DGGF=BGGGHHHGGEEHHHFFHHHFDDEEH@ADCHHEFDD9851)03%95BBFAEEB@@66<:>FHHHGFEEDH @read_150_238/1 TAAAGACACATGCACACGTATGTTTATTGCGGCACTATTCACAATAGCAAAGACTTGGAACCAACCCAAATGTCCAACAATGATAGACTGGATTAAGAAA + HHHHHHHHHHHHHHFDDD4>FFBHHHHHHFHHFGFHHFEEFACCFE@@;BCGGBBEDFEHHFHCEGECDDFGHHHEHHEHHHDEDEEGFE @read_150_241/1 TTTGGTTGGTAAGCTATTAATTATTGCCTCAATTTCAGAGCCTGTTATTGGTCTATTCAGAGATTCAACTTGGTCCTGGTTTAGTCTTGGGAGGGTGTAT + DHHHHHHHHHHHHFEAFHHHHFGDEBE@EFFFHGHHFHHHHHHHHFFFGFHFDE7CFEGFFG97B4382*+%%'<>67'6/2CFHGG38:BGG;EEEEFF @read_150_242/1 CTTGTAGGGTACTCTCGTTAGCTTTAAATCAAAGCCTAGTTATTCTTATTTTAAACACAATTTTAATCAATTAGGCTTTCTGGTTTCCTAGCCTGTGGTT + HHHHHFFFFDEA>7CEHHHHHHGHGHHHHHHHGGFEHHFGFH?CEFGFDFHHHHHGGGFDCDCFHHHHHFHHHFFHHHHGFHHHHHHHHHHFHHHHHHHF @read_150_243/1 CTCATCTGGCAAGAAAGAGCCCATGTAGGATCTTGAGTGTTGAGAAGGTGGGAGTTGCAAAATGGAAAGCAGGGTTTTAGAAAGATGAGAGGAGATCGGA + C>6DHHHHHHHHHDDEGFD?FFBFHHHHHHDEEFHHHCHFEHHHHHFGEHHHHHFD45>@DFHEHHGGBBFFHFHHFFD<:?EHHHHHHHHHHHGGHGBHHFHHFBBFG.3+7F @read_150_248/1 ACTTTCTGTCTTGTTGATCTGTCTAATGTTGACAGTGGGGTGTTAAAGTCTCCCATTATTATAGTGTGGAAGTCTACGTCTCTTTGTAAGTCTCTAAGGA + HHHHHHHHHHHHHHHHHGHGGBEGFGHEEFHHHHHHHCHHD<95=BFFBDED??HHG@C?GFHHFHHHHFHHCEFHHHHFFHDDEHHHHDEHHFEFD<8> @read_150_249/1 AAAATAAAGTAAAATTTCAGGATTTTTTTCACACTTGAGGTTATTTTTGAAATTTCATACAAAGCCCCTGGAAATTTGCAATAATTTATTTTGTGCCTTA + GGGGHHHHHFEHHHHHC6DEGB=@@8EEGGHHHGGE?:AFHHD6@FHHGHGHFFFHGHHEFFF::?FHFAEHHFGDDEEFHHHHHHHHFFEBBEFGFHHH @read_150_250/1 GAGGCAGGCACTTTCTTATCACCTCCATCTCTAAGATGAGGAAACTGAGGCTTGGAGAGGCTAGTGACTTGCTGAAGGCCACAGAGCGTGCTGGTATTTG + <<=?HHHHHHHD89<DEEEFF;@?HHEEHHHHDAEF?GFGEEHFFFHBGGE;0<*4(2DDFF @read_150_251/1 GAGCAAAACACTAGGTAAAAGAAGGCTGACTGATTACTTTGTATAGCACAGCTACCATATTACCTTGGGCCTTTAACTCGTGAGAATAAATGTCTGCCTT + HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHFBHHHHHHGDDGHDDFBD:AADFHE@C9.64A @read_150_253/1 GTCCATACATTTCAGACAAAACAACATATCATATCACAATAGATTGAAATTTCAGGCAAAACAACATATTATATCATAATAGATTGCAGAAGCAGATATA + 6:GFGHDFFGGGGHHHHHFHHHHHHHHHHHHHHHHHF?GHHHHFEHHBDEHHFHHHHHHFHH?AAA;?-5)26;FB:8@@EFFCCGHHHGHC@E/)&-=G @read_150_254/1 AGTTACACTTTCAGTCCTCCAGGGCCCCATCATCTCTGGGCCCATTCTATATTCCCTCCTTCCCACACCCACCTCAGTGTGCCTCTCACCGCAGTAATCT + EEBFDGGHHHHHHGHHHHGGGBHHHHFEEEGHHHHHHHHHFHFHHHA,(EFBDD>@@BBHHHHHFAAE@7DDEFDGDC;>+'9951A?CEGGGG@2>?.: @read_150_255/1 GTACTCTGAAATATTATATACCACTTTCTTTTTTCTAGAAAAGAAAATAATTTCTGTTTATATCAAAAGCACCAGTTGATTCTGTTTATTGGATAGTCCA + =><<:@EEEG@DEHHHHGB?DBGGGGFFFGGGGGD8EEDBEE?BEGFFF @read_150_257/1 TGGCCAGGTAGGTTGGCAAGACACAAGCCAATCATGAAGGGCCTTGTCCACAAGGACTTTGACCCCGGACTTTAGCCTTGTGGGGGTGGTACACCCCCGA + HHHHGHHHHHHHHFHHHHHHFGGGHHHHFFGGHHHHHHHHHGHFDGHFHHEB?8;;>6@:EECEED;:FHEEFHHFHHHEGFHHHEAECAEHFHHFCGBF @read_150_258/1 GTCCACTGATGTTTAAGCTGCTTCCATGAATAACAGTAATAGCTAAAATTGGGCTTTACCTTTCATTGTAAAACCACCACAGTCCTATGAATTATTCCTA + HHHHHHHHHHHHHHHHGHHFGGFHDGGGFFHFGGEDE@CEFCCEEFHHHHHHHHHHHHHHGFHHHCFFBFHHHHHG=?FFHHHC>EBFDFEEEDEDHFFH @read_150_259/1 AATTGAAGTTGCTTTTGAAAGTCAACAAATGCCTCAGCAAATACATCAAAGCTTCCCTAAAACAGGGTCAATATCAAATCTTCCTAAGGGAGCTTACTGC + GFDDD?AE-9CHHE;EFHHHHHFFGFHFFFFHFHHEHHGBEBFDDEFHHF8?FHHHHHFDCC4AHD;FF=?FFF?0@BHFHFFFHEHGHHHHFGHHFEFBED?HFHHHFDCCHFG=AF6?DDFEHHHHEH @read_150_261/1 TAGTTTGAGATGTACATTTATATACGTACCTCTTATTTGAGATAGGCAGGTGTGCAAAGTTAGATTCACCATGACACTAACGAGACTTAAACTGTAGGGC + HFHHHHHHHHHHHHHHGGGGBBFBC<@80@HHFD@HF?DCHA9:EFFHHFGHHHHBBA:<4DHGGFGBEEFF @read_150_263/1 GATGGGTGAGTGGTAGTAATAGTAATAGCTGAGTTCATACGACGACGACCAATGGCACACTTATCCGGTACTTGCGTTTCAATGCGCATGCCCCATAAAA + HHHHHHHHHHGGGGHHHHHHHHHGFHEHGHHHHHHHGGGEFFHFG@BEFEGF?EFGDD?.;9BHHHEEHHHHFBEED<5007EF37B?GGFFFFGGGEAA @read_150_264/1 TTGTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATTTAGTTCAACCAAATTTTGTCACATGTAGATTAAACTTGCTCTGTGCCCGCTCCGTATGTCA + HGGHHHGGHHHHHHHHGHHFD@@?BHHC=EBCBBHHHHHHHEGFE>@EFFEFHFFHHHEEEHHHHHFHHFGFDAEHD/(-<:@HG8;@:.5.1-;FGEEE @read_150_265/1 TGCATTCTCTTAGAATATTTTTATAGATTTATTTTTTATATTCAGATATCTATCTGAAATGTATTTTTATATAGTATAATGTAAATGTATTACTTTTTCT + HHHHHHHHHHHHHHFHHHHHHHHHHHHHFBFHHHHHGGGGHHHHHFGHFHHHD@;@(77AEFHHHHHHHBEFCCDFHHHHHHHCDBEGGEBBHH85;EGG @read_150_266/1 TCAGGGGCAGTTGGGATCGATGGATCTCTGAGCTGCCTGTGGGCACCAAGATGCTAAGAGCCTGGTTTTGAAAGTGTGTTGTATGAAGGGAGAGAAGGTC + HHHHHHHHHHHHHGFBGHHHHGHHHHGGGGHHFHFHHHHHHHHHHHHHGGFEFFFGEGHFEED@AHHFHHHEED:DDD57>8<947BFFHHHHHHABDEC @read_150_267/1 TATCAATTTGGCACCAGGTTTGATATATAGTAGAGGGAGCTGTTTAACAAGCCATGTTCTTCATCCTGTTGATAAGGGAGAAACAGGAGAATATGAAGTC + HHHHHHHHHHHHHHHHHGGGHHHGFHHHHEGGG;EDHHFFBCFGGHHHF@6>2:3:3;EEHHHE?EEBFGFHHHHGGGGGHHHHHGGDGBHFFE7EEG;F @read_150_268/1 CATTATTTCTGAGGGCTCTGTTCTGTTCCATTGATCTATATCTCTGTTTTGGTACCAGTACCATGCTGTTTTGGTTACTGTAGCCTTGTAGTATAGTTTG + HHHHHHEHHHHGFHHHHHHFHHHGHHHGHHHHHHHHB?7?@DD@FHHFHHHHHHHHEFDFHHHHFHHHHEEEDHHHHFEEF@>>CGHHHCEF@DFFAHHHHHEA16-88@D @read_150_273/1 GCGCCACCACACTTGGCTTTTTTTTTTTTTTTTTTTTGTATTTTTAGTAGAGACAGGGGTCTCACCATGTTGTCCAGGCTGGTCTGGAACTCCTGACCAT + HHHGFHGGGHGFFFBFFHGDBBDFGHGGFFHHHFGHHFHHHFF@E9=BEEHHFGGFCCBCGFEADHHHHHEFFHHHHHGGDDDBC=DFHHHHHFHHHHHH @read_150_274/1 CTGATAAAACTGATGAGGAAAAAAAAAAAGAAATAGACCCACTCAGAGACAAAGAGATAACCATGCCCCGAAGATTCCTATACCCTTAAGGTCGCAATTG + HHHHHHHHGGGEEGHHHHHHHHHHHFFHHHGFGDHFDFHHHHHGBEFHHFHEEHGFHHHAEFEEE:EEHFFEFFDGA>CCEFGGGHHEFE@DAADDDDBE @read_150_275/1 TTGAGGAAAAGCAAATGGATTTAGTTTTGGTCATACAGGGTGATCAGTAGATGGCTCTGGAAGGTCTTGGAGGGCTTTGTATGCCATTCTAAGGAATTCT + GGGGFCEGEFGDEGGBBB=CAGFGGHHHHHHHHFGEBFHHHHHHHGHHBB@@BFFF8DFEEGGC?C @read_150_277/1 CTCAATCACAAAGAGAAACTAAGAAACTGACCTTTAAGTTCTTTAAACAAGTCCTAGAATTTTGTGATAACAGAACATAGCCTAGCCTTACCAATAGCAA + GFGGHHHGGHHHHHHHHHHGFHFHHDB<:>FFEE6876*<2409DEHHHHHD;FFHHHHHG<727CHHB<,BCFA@37>7@FGGHFHFHHHHHHHF>DDC @read_150_278/1 AATCTGGAAAGAGAAGATCCTTAAGTATTGCTTTAAAGTGAGCACTGAAGGACAGCCGTTAAAACAATCCCAATTTTTAGAAAAGGTATTATTCCCTGAC + AAAECFGFECHFHHHHHHHHHHHHHHHFHDDFGFGF=;EEFDEGGGFBE@7')7(74 @read_150_279/1 GTTGGAGCAGAGCTCCTAGGCCCACCTTCTGAGCCTTTCCTTCTCCCCTCCTCCTGCCCAATCCATGCCCCGAAGATTCCTATACCCTTAAGGTCGCAAT + HHHHHHHFGHHHGHHHHHHHGGFFHHHGHGHDEAEFFHHHHFGFEHF>DFHHHHHHHHHFFBGFE?AADFF?DFFGEFGGEB>;D;99AA@<>>ECFFHH @read_150_280/1 CCCAAGCATTGATTTTCTAGACATAATTCACTCCCATTGCAGATGTCCTAGGAAATGGAGAGCTCTATGACAGAAGTACACATCATGTGTCCAAAGTAAC + HHHHHHHHHHHHHHHHHHHHHFHHHHHHFHHGHHFHHFCDFFDBHHHHHFGGGGEF@EGHHH80;;@D=6EEF?DHHHFHHEFBHHHHHH>6D@6><>@DFEHHFFFHF@42><4?D @read_150_282/1 CACTGTCCCTCGTGGTGTCAGTGTCGCGATCTGGGCTCACTGCAACCCGTGGTGGAGCCTTTACATAGGAGTAGGTTGTGTTGGAGCAAGCAGAGGCCCT + C=FFHHHHGGDDDGGHHHFHHHEDHHHHHHHHHHHHHHFCFBHHHF>BHHHHHHDHHFHHHHHHFHFFHHHHHHHGGGGFFHHHHFCDBCG,3,&(1&/6 @read_150_283/1 GTTAGAAGTATGTATGTTTTGTATATATCTCACTCCTATAATATTAGGTATATTGTCTGCATTAGACCTTTGCAAAAGACATGGATTCTTATCAGCTCAG + HGGGHHHHHHHHHHHHHHGHGDFGB4;@GGHHHHHHHHHHFEEFHHHHHHBCEEHHHHHHFFFFHFHFHHHHEEEHGGGGHHHDA???;HEBHHHDDB49 @read_150_284/1 AAAAAATTCTTTTATCAATTGAGGAAATTTGAAAATGAACTAGCAATTAGAAGATATTATGAGGCAGGGCATGGTGGCTCACCCCTCTAATCCCAGTATT + HHGFEFFGEEGGHHHHHHHGHHGHHHHHHHHHHHHHHHGHHHHHAAA?CBEFHHHHHFCEEHHCF@:,)*6CBAFHHGGDFFHHHHEEHHHFHHHHHHHG @read_150_285/1 TTGAAGTGGCAGAAGATAAAATCTCCCTCTCTCCTGTGTACCTTGGGCTAAGGATTCTTCTCTGGATAGCCAGGACCCTGTTGATCCTGAGCCCCCATTG + @67@@;DEEEFGHHHHHGHHHHHGGGHFGBDDGGG7><=EHHHFFGEHHHHHHHHFHFHHHHHHHGGFFFHHFHFGG*&7CDDGBGFFFHHHHHHHHDCF @read_150_286/1 ATCCTGTCCCTCTTCCCAGTCTCCACCCTGCAATAGGCCCCTTTGTGTGTCCATGTGTTCTTATCATTTAGCTCCCACTTATAAGAGAAAACATGTGGCA + HHHHG:@ADHHHHHHHHHGHHHHGGGGCCBEGFG@E=EH8-EHHFB5FFHHFB@FFFFFHHDFEFHHHHHHHFHFEFFEGHHHHHHHHHHHDHE/&7+)3 @read_150_287/1 TGTCAAAGAAAGAGCTTAAACTTCAGGCTTAAATACCATCATTTTTCTGAAATGAAGGAAAAAAAGACTGTTGGGAAAAGGCCCTGTTGAGATGACCAAG + =BGGGGEGGHHHFGGGGHHHHHHGEED..7(49DEFHFBHHFFHHHHHFHFFFHHHHHHBBFDHA5454EFCB?1(208-DGHHF<16FGHGFCFHHHHE @read_150_288/1 AAAAAAAAGGACAATATGTAATATTGATGAGTATTCCTAGCATTGTTATATGGGGAGTCTTGTCTAATGCACGTCTATAAATATTTATACTCCTTGGGAA + HHHFCD@EHFE@CCGGBGEEGHEEBHHGGFHGGEHHHHHHC49@FFFHHHHHHECEHHHFBCCDFHHHHCBA77296@BGHHEE@FCEHCDD:;A%)4=; @read_150_289/1 TGACTCCAGAAGGAGGAAGTGATCAGCTATGTCAAATTGTGCTGCTAGGTCTAGTAAGATGAAGAATAAGAACTAACCATTGGGTTCATACGACGACGAC + HHHHHHHFFGGHHHGGFDEF;CD;FHHGBD3(EHHHHHHHGGG@AFEG?FFCC;HHHHFHE@DEFECFHFHEEHHHHHHF@HHHHHGEFHEFBBBFHHHF @read_150_290/1 TATTCTCTTGGAACTTACTTTTTCACCGTGATATTTTTGGTCACAGTTAAACTAGTTGGTAGATACTCATTTTCTAGTGTCCCTGAGGTTCCTTTAGGTT + HHGGHHHHHHHHHHHHHHHHE6<9<;EHGGBEE@BFHHHHHHHE @read_150_291/1 TATGTCAGGTCTACACACTTATGTCAGGTCTAGGTATATTATAGGAATTTTTCCATGCTTTATTTTTGTCTCTTTCAATAGGATTATAACTTTCTTGAGG + HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHGHHFC;9EEBDHDHHHHHHHHHHHHFFHHFFFGGFFFDDEEHDDEEFHHHEHED>?FHHGDDFBFHH @read_150_292/1 TAACTGCTAATCGCTGATTTAAATACTTAAACTCTGCAGAAGTATTTATTGCATTGACTTCAATCACTCCTTCCACGGTATTTTCTAAATATTTCTGTGT + BBGGEFGGGHHHHHHHHHEEDHHHFFEFFHHHHHHEGGGHHHHHHHHEHHF?A9?EBFHEFDDDEGCGFFHHHHFHGBB75CDHHHHHHGHHHHGHHHGH @read_150_293/1 ACTAGACCCCCACTTGGTCTCCCTCTCCCCAGGCTACGCCTGTCCCCCAGCCCTACCTCGCAGCGCAGCCGTGGCCGTGCTTCCTCTCACTCATCCCAGA + HHHHHHHG9<976=GHHHGGGFHGGHHHHHFEHHHHHHHHHHFEGHHHFHHFFGFFC>DB@EFGHHHHFHHF @read_150_295/1 CACATCACGCAGCAGTTTCTGAGAATGATTCTGTCTAGTTTTTATACGAAGATATTTCCTTTTCTGCCTTTGACCCCAAAGAGCTTGAAATTTCCACTTG + GGHHHHHHHHCCFHHHEGGCFF7 @read_150_297/1 TGGGATTACAGGCACCCGCCACCATGCCTGCCTAATTTTTATATTTTTAGTAGAGACGGGGTTTTACCATGTTGGCCAGGCTGGTCTCGAACTCCTCACG + HGGGDCEEGHHHHHGFHHHGHHFCGFFHFGHD<@CEBEECFFHFFCCB?>BHHHDEFHHHHHHHHHFH?BHHHDBGFGFBF87.>>?;?FHHA>>0&&<@ @read_150_298/1 TTATTGTTTCATTGATCAAAAAGATTAGGTATATAATCTATTCTTCCACAGCCCCCTTCCCATTCGTGATTTCCTCTAATGATACATAATATTTCCAGTT + HHHHHGHHHHHHHGGFHHGGHHHHHHHEEGDHHHHHHHHHHHHHHHHHGGD@?ACFFGGGEHHHHGEDEBGHCHBGHGDGHHHHHHHHHHGDFHEFB:54 @read_150_299/1 ATCTGCTGATTTCCATTCACCGTTGTTATATGTATCACAGAAATAGATGTTCATACGACGACGACCAATGGCACACTTATCCGGTACTTGCGTTTCAATG + >?=GFHHHHHHHHHGGGHGFFEEHHHGGHHGHHHHHHHHHGGGGFCEEHFBBHHHHHHHFEEE?3?D@94>;91AEFHHHH?:>A@DCDEHHFGGHHH@E @read_150_300/1 TTTAGCTTCCTTTTGTACCAGAATTTGTCAACTATAACATCTCTTTCACTAAAGATTGAATATATTAATCTGTATACAAATCTTAGAGCATATAATAAGC + GGGGGGGHHHHHHHHHGDDFFGCEEHHFFHHHHH=5:FEE=@BHHFHGHEFBHGGGHGGEHHHHHFHHHHHHHD@3:*6'1->799?;)2:94<-B5DB; @read_150_301/1 TTCTGCTACTCAATATATTGATGTTTAATCTTCTACTAACATGACAAATTGTTGAAAACAGACTGGAATTCAACTTCAAACTTGCTCTGTGCGCGTTCCG + HHHHHHHFFHHHHHHFHHHHHHHHGHFGHHHHHHHHHHHHHHFDBFCBGFHHHEEFHFFHHHHFFFGGGEHHHHF>EEDDD??>CHGFGGCC(AD+4E@FCEDDEBCFBBEDE @read_150_303/1 TGTGTTTGTATATCTATTAATGTATGTTATGTATATGTGATATTTTCTGAACTCCAGAGAGCATTGCAAAATTCATTTATGAAATCCAAACTTGCTCTGT + GEE=CCCBHBEEHHHGHHHHHEEHGEEE@1:<>:A?> @read_150_304/1 CCCGGGTTCAAGAGATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGATTACGGGCATGTACCACCATGCCCAGCTAATTTTGTATTTTTAGTAGAGACAG + HGGEEHHHHHHHHHHHHHHEGHH?/CCGHHEBHHHHHHHHFFEEFBFBADDECDDD62-3(+=?HHHHHHEECC=HHHHHHHFFHHHHHHHHHH?BBEDH @read_150_305/1 CACTGTTGCCCAGGCTGGAGTACAGTGGCACATGATCTCGGCTCACTACAATCTTCACCTCTTGGGTTCAAGTGATTCTCCTGCCTCAGCCTCCCGAGTA + HHHHHHHHGGHHHGEHHHHHHHHHHHHHHHHFHHHHHHFF7=@FFBFFHC?FHGHHHHHHHHHHA<:81*1*47=ECBGFHFFBHHGHHF:>C5GGHHE: @read_150_306/1 TAGAATCTTCTCTGTAAAATGAGGATAATATGAGTACCTACCTCACTGGATTAGTACCTTAATTGTGAGGATTAAACCAATTAATATATCAAAAGCCTTT + HHHHHHHHFHHHHEHGHGGF@@DGHHHHFFF33EHHHHHHHHD??@FHHHHGFFFHHFFDGFHHFFHHFFFHHHHFE?GEECCFHGHHGHFEGFCGEGHE @read_150_307/1 CAAATTCTTCCATAACGTTTTATGTCTAGATGGAGCCGTGACAAAGGCAATAGGTTAAGGCTTGAACATCTACAAGTTCAACTTCAAAAGGCTTATTTTA + HHHHHHHHHFDEEFHHHHHHHHGGCHHHGEAGEEDGHHG>DEEGGHHFEB@@/%/:'',,=?DD7;@>HHFFEFEFHHGGEEFFHHHHEEAABDHHHHEG @read_150_308/1 TGAATGACTGTGGGATTGGCTTATGTACTTCCTACACTATACTTTTAATTATTATTTTGGAGGATACTCCTTCTTATACAAAGAAGTTAACTATAAACAC + GEHHHHHHHHHHHF?FCCDH@F6DDGGHHHHEBDFDFCCEED>81?EHHHHHHHHHCHH@DHHFHHHHFFF?DE0<BEECEGHFFFEEEFGHFFFF@;CC==FFFFAEHHHG @read_150_311/1 GCCCGGTAGACCTCCATGGACCCAGACATGCGAAAAGGCTGCAGGAGCTGAAGGCAAAGGGAGAGCTGGTGGATTGCAGGGTGTCAGCCCAGAAACGGCT + HHHHHHHHHHHHHHHHFFGFEBEFHHHHHHHHHHHHEDHHHGDFHHHHB*5EF*'0=@DBDHHHHHHHHE>A3<3/*671C6',A=EGHHGFHEDCHCFF @read_150_312/1 AAAGCCCCTTTTCTGAACAATACCAGTTGGCATCCTGCAGAATAATCTTTGGGAAATGCTGTTCCAGGCAAATGCTACTGTGAATCCCTCTACCTTAATT + 6><>@@DGDCGEEED38CC@BDGGGH>D@@<>FEEFHHHHHHHHHCCEFFEHHHHFD@BE@@4BFHFDFHHHHHEHHHDDHHHFC@FHGDHHHHHHHHHD @read_150_313/1 TATTCTAGGTTTTCTAGGTTCCACAGCATTTACTTATATCACAGCTATCTTCTCCCCAAGAATTACAACAGTGTTCATACGACGACGACCAATGGCACAC + E@GHHHHGGGHHHFFEHHHHHHHGBBFHGHHFFFFFFB?EGDDEHFE:3)33@CFFHDEFEHGGHFHHHFCBFFHHHGFDGFFFFFFFHGFHFHFHGHE,>0D@ @read_150_315/1 CTGGGTGGCCATGCGGTCACCCATGGTGTGGAGCTGCTCAGGATGCCCCTTCTCCTCATGACAAAGCCAGAAAGATGCATGACCAGATTCCCCATGATTG + GGGHHHHHHHHGDDHA@A;AEHHHHGGB68==DAHBE?HHHFCFHFEFHHHHHHHHHB>AEG=EBFHHHHFEE?:@@DDDHHGFHHHHFDFBHHHFHFHH @read_150_316/1 ATCCTAAATCTGTCGTCATAATTAAGCCAGAAATTATCCAGTATATACCAGGTTTATTAGAGATTTGAGTAAAACCTACTGATGCTTCTAACACTCCATT + HHHHHHHHHHHHHEGHGGHHHHHG<=/?EDDFHC=:>;97AFHHHHHHHHF@GFFFFHEEBDEHC @read_150_317/1 TTAAGAAGGAACGGAAGTGGCCTGAGTCATGAAGTTTAGATTATTCTGATTATTTTAATTCCTCAAAGAAACTTTTTCTGATTGAAATTTAGCCTTTAAT + HHHHHHHH@FFHHHHHBE=FHHHHFFHHHHHGGGGACDBGHHHHHHHFHHHHHHHHHFDGHF?>FHHHHHFHFFGA@GGGHHFHHHHHGEHHHHHHHGGB @read_150_318/1 TCACCACTTCAGAAAATATATCACCTATTGCAATACTGCTCATGGTATTTGACTCACTATAATGCCACCATGCCCCGAAGATTCCTATACCCTTAAGGTC + HHHHHHHHFFA9)@BHHHHHHHHGHHHHHHHHHHHHHHHHGHHHHHFHHHHFGHFEHHHHHHHD=FHGGFFFHHHHHHHECHECCFFFHHHHHGC<;771 @read_150_319/1 GGGAACGTTCAACTCTGTGAGTTGAATGTACACAACACAAGGAAGTTACTGGGAATTCTTCTGTCTAGCCTTACATGAAAAAAACCCGTTTCCAACGAAG + HHHHHHHHHHDBDFEGGGGHEEEEHHHHHD@?FGGFFHHFHHHHHHHHHHHHHHFHHHAGFFFEFEFHHFHHHED:?D?AGHHHHHFDD<@BEEEDEGHH @read_150_320/1 ATGCCTTTGACCAAAATGCTGACAGTGATTTGGACAATAAAGTCCAGGCCGAGGTTGTCTCAGATGGAGATGAGGACTTGTTGGGAACTGGAATAAAGGT + HHFGGGGHFEGFEB/=BGA=FG=@FFGFDDGGFGHFFBBDHHHHFHHHHBFFHHHFHHHHHHHHHDFHHHHHHHHHHHHE;EFGEFFDB<=DBHHHDDEC @read_150_321/1 GTCGTGGTATGCTGCATCAAACTTAGTTCTGAGTAACGCCTAGAACAATGCATAGTATTTTATATTGGCCAATAACCAATGTTTTATAACTCCTGAACAA + HHHHHHHHHF?@@BEFFGHHGE0>EGGHHGGHDEHFFFCFHHHHHFDDDBEEFEGGGHFHHHE@:;9<@A@CBDD@A.;;<<+?FF @read_150_323/1 AAAGCGATATAAAGTAAATGAGACTCTGATTATCTGTTTAAAAAAAGATAATTACTTGAGGCATATGATTTTTAGACACTTGTCCTCTACAGTATGATAC + HFFHHHHHHHHHHHHHHGHGHHHHHHHHHFGGHHHDFHEEHHHHHHHFHHE:=2?FFHHHHHHEHFCFD?<@CCDHHFG@BFFDDFEADCFFADGFHHHF @read_150_324/1 CCATGTTAGTCAGGATGGTCTCAATCTTCTGACTTCGTGATCCGCCTGCCTTGGCCTCCCAAAGTGCTGGGGTTACAGGCTTGAGCCACCGCACCCGGCC + HHHHHHHHHHHFDEHHHHHHDDAGGGGEEEGHHFFHHHHHHHHHHHHHHBGFFHHHDFHHEHHHHHHHHHHHHDCGHHHFGFFEFGHHEGBGEFFHGEE9 @read_150_325/1 ATTTTCTTTTTTTGAGACAGAGTCTCTGTCGCGCAGGCTAGAGTGCAGTGGCACGATCTCATCTCACTGCAGCCTCCAGCTCCCTGGTTCAAGGAATTCT + HHHHHHHHHHHGHHHHHHHHHHGBEGHHHHEED=BB@FGBGHHFHHHHHHBE(46DBFEEHHFFHFB3/;GFCFBFFHHHHHHHHHEAADCBEFGHHFHH @read_150_326/1 GTATGGCACAATCATATTATTTCACAAACAGAAAAAGTAAAGAAAGAAAGAAAGCTAATCGAAATGCCTGTGGATTATAAAATACGTATTTGAAATCTGG + CCEGHHGHHHHHHHHHHHHHHHHHGHHHHGHFGFFFFEEAFHHHHHFHHHHHFH@ADAD>@;9CGEFCEGGEGBFDHHHDEHE @read_150_336/1 AGGCACCAGCTTTGAGGGCAGCTGTTTTCTTACTCTTGTTCTTCATGGAGTAAGCTAGAGAGAGTCTTTTGAACTAAATGCACAAGTTATTTGTTCAAAG + HHHHHHHHHHHHHHHHHHHGFFGHHHHHHHFHHHHHHHHHHHHHHHHEHFHHHHFFFFFFFFBBEFEBCBDGGEEAAGFFHHFB@G?ECGGGGFGGGEGE @read_150_337/1 CCCATCGTAGGTGGGACAAGGGTCAAAGAACGGAGTGGGTAGGGTGCAGGCAAGGGAGTGGGATGTGGTATTGGGTGAGGTTGAGGGCCGGACCATCCCC + FHHHHHHHHEAADFGHHHGHFGGGGGHHHHHHHHFHHHHHHDFHHEDEEHHHHHFEGBHEFDDDAA:A<>9)<@3>CCD@EEDDHHFCEHHHHHHHHHHEBHHFFGEEHHHHHHBEGFFEHGHHHHGHHHHGFGGHHHHHBD.&& @read_150_339/1 TCCCTGGCTTCCACCTCTTCTCAAAGAAGAGAAAGGCATCTCATTATGTAGCACCAAAGCGACATTTTAAAGAGTGCTTCAGCATTGACTTTATTCCCAA + DDDDEFHHGGGG=@A4+;EEEEEFEGD@DFFFEGHHHGHHHHHHHFC<@@FFFHFEGGHHHE??HHHHHEFFEFFHHGHHEFFFFHHHHHHE=:>C+*++ @read_150_341/1 TGATGAATGTCAAAAGTAATATATTCTTAGACAGTAAAAGGTTGAATTTATTATCAGTAAACATACATTATTAATGAGATCGGAAGAGCACACGTCTGAA + FFE2-8;@.3;CB7FGHHHGHHHHHHHHF?GEFHHHHHHHHHHHFHHHHEDFFCHHFHHHGGFHHHHHFFFH>BBHHHHHHHGGHHHHFHHDAA?CGFEF @read_150_342/1 TGAGAGGGTAGTGGGACACTGAGGCCCATGAGGGAGAAGCGGGGAATCATTAGAGCTGCCTCACTTCCCAACAACTTCTCAGTTTCCATTCAAGTGTTTC + DCEFHHHHHHHHHHHHHHHHHHHHHHHFD:@DBHGHFE=DGGFHEEEHFHHHHHDD=?BHE884;FHB7EAEEFHHHHHHF?FGBB:=9E @read_150_349/1 GACATTGACTTCTACCTTGTAGAAATCTTGTCTGAGAAAATTCTGAGACATCTTTAAAGAAATACCTTTTTTTTTTTTTTTTTTTTTTTTGAGACAGAGT + GDCDCGHHHHHHHHGHHHHHFFFHHHHGFFHHGGHHDGGGCGHHHHHDEFHE>5@CEFFHHFBD4EBC1=.2;;ADEAGGHHHHHEHEEEFGGBBEHHEG @read_150_350/1 GAGGTTGCACCCCTGTGGCTTTTCCGATAGGGAGATGGATGATAGAGCTGGAAGCTCATGAGCTAATTGAAGTAGCTTTCAAATGATGTATTTATAAGCT + HHHHHHHHGHHHHHHHHHHHHDCDDHFHHHHHHHEFEEHHHHHEBFHHHHGEFHGGFHFFFCDHHFGEHHHHFBDHHHHHHHEGHGGFFFHC>>EGGFHH @read_150_351/1 GCTCCATTGTGGCTTCCCTTTGCAGTCACTCAAAGGCCCCTCCAGCTTTGCTTTGTCCTGCAGAGAACTCATTGGTCCCCACCGTCTCCCTCCAGCAGGT + HHHHHHHHHHHHHHHHHHHBGFHHH?ABHHHHHHHHHHHGE+@@:ECFFCHHDHHHHHHHHHHHHHHHHHHHHFCDGFC@@ACDE8A>EGGDFEFHDFE9 @read_150_352/1 ACTCTGTCTCTACTTAAAAAAAAAAATAGGCATGTTGGCCCATGCCTGTAATCCTAGCTACTCAATAGGCTGAGGCACGAGAATCAAGAATTGCCTGAGC + FFDDDHGGFGGHHHHHHHHHDHHHHFGGGHHHHG,CFC?FFD98FHHHHHEEB.:BGGFFHHHHHHHHHEDAA9ACFEEADEE@BGHCGFHBFED@@.FB @read_150_353/1 GTCACACAGTATCTAAATTTGGACTCTCAGAGATGTATCCTAAAGCAACAGGCTCATTCAGTCCCCAGAATAAGGCAGTAGGATGTACAAAACTCAGTTC + HHHHHFGGGBEHHBEE5GHGHHHHHHHHHHHHHHHHEDDDGGEHHHHHHHHHFFEHFBFFHEFHF@AHFBAABFFHHHHGFEHGGGFEFBDEFB3DE48> @read_150_354/1 AAGGCCATGTGCAGTGGCTCACGTCTGTAATCCCAACACTTTGGGAGGCCGAGGCATGCAGATCACTTGAGGTCGGGAGTTTGAGACCAGCCTGGCCGAC + HHHHHHHFHHHHHHHGFFEEHHHHHHHHGGFDCCGGGGHHHFFEHE?DFHHFFHHHHHGHFDCEFFHHFFFF0910?DEB9<= @read_150_356/1 TAGCATTAGGAGAAATACCTAATGTAGATGACAGGTTGATGGGTGCAGCAAACCACCATGGCACGCATATGCCCATATAACAAAACTGCATGTTCTGCAC + HHHHHHDA;=EEGGGGGGHFHHHHHHHGGHHHHGGHHHHHHFFDHHHFFFHHHHHHFC138C>(4DD>>>A>CBEHHBEDD?D?83;;DBCEFEFFGHHH @read_150_357/1 ATATCCAGTTTTCCCAGCACTGTTTGTTGAAGAGACTTTCCTGACCCATTGTGTATTCTGGGCACCTTTACTAAAGAGCAGTTTTATGTATGTGGATGTA + FA@BGGGH@BEFFHFGEFGHHHHHHE@A?GHH@@<;DA@DFFFECHHHHFHHHHHHBB3'633EEGECHFHHFFHGGE-BFHFEH@@B>EHFHCECC1AEHHHHHHHHHHHFHHHHHFFFEGHHH @read_150_359/1 ATTATTTAAAACTCTGGGCTGGGCGCAGTGGCTCATGCCTATAATCCCAGCACTTTGAGAGGCCGAGGCGGGTAGATCACTCTAATTTGCCGTAGCGACG + HHHHHHHHHHHHHHHDDBA?96FGFHHHHHHHHHCFFD?FHFGGDGHHFCAABFD225FHHHD?FFHHF=ED?FFFFDDEFFHHGG=:;9DACEFFFG?B @read_150_360/1 ATTTCATAGTGTATGCGTACCACATTTTGAAAATGTATTCATCCATTGATGAGCACTGTAGTTGTTTCTGTGTCTTGGCTAGAGCGGAAGAGCACACGTC + HHHHHHHHHHHHHHHHHHHFHHHFB>C@DCG?FFHD?ECHHCAA=:7>;,4A;B@DHF:(-/3:.BG@FEEHHHHB @read_150_361/1 CAGCCTGGTCGACAGTGAGACTCCGTCTCAATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGGGCTGGGCACGGTGGCTAACGCAAACGGGCTCTGTGC + HHHHHHHHHGGHHHFFEDEHHHHHEFHHHHHHHHGHHGGEBGHHFGGHHHHHHHHHFEHHFHHEEFFFHHFFFHHGGGBEGGEG8(/+6'%'-77DBBEE @read_150_362/1 CTACGAATCCAAAGTTGTTTACCCTACGAAAGTTGAGATTCCAGTTCATTTGCTAACCTGCAGTTTCTTATTTCTTGTCTTGGTACTTCAGTTGGCTCAT + HHFFFFFHHHHHHHHHGGGHHHHHHHGHHGHHHGGHHGGGA=@8?FFGHHHHHFFA;AA?GFCEHHGE5.3<>EHHHHGGHDHFHHHHHHHFFEEHHHFF @read_150_363/1 CTTGTTAATGTTGATATTTTGATCTCCTTCTATGAAGTATGAGTGTTCCTAATGGTGTCTGGAATAGTGAATCCTTTCCAGAAGGTTTTCAATTTACTGT + HFF@CFGGGHGDDHHHHHHHHHGHHEFGHHHHHHHHHHGEHHHHHHHHHHHHFGGD:43>*6FHEHFGHHCHHHHFFFC;GHHHHHHEHFHHEEBDDDHH @read_150_364/1 GTGGAAGGTTTGGGGGAGAATCAGAGCTTAATGTGTATGTGATCATATTTACACATATAGGCTGGTAGCCCCATAAGTGGGGGGCCATAAAAAAGAAGTT + HHHHHGGGHHGHHHEEFGHHHHHFHHHHHHHHHFFHHHHHHHHHHHHHHHFFFHHHHEEDCEDHBEDBGGBFCEEHHHHHHB>FE?5;&765,DFGGHHH @read_150_365/1 ATTTAATCATTACACATCATATACATGTATGAAAATATCACATGTACTCCCAAAAGAAGTAGATCTGATATATCAGTTAAAAAGTACAAAAACAAGAAAT + HHHHHHGGHHHHHFDHHHHGFGHHHHHHHHGGGG@D?EAHHHHHHHFHHHFFGFAF?EEEEFHFHHHFCHDGF?EHHHFD:9?EEHH @read_150_368/1 CTCCTCAATGGGCCAGGATGGAAAATCCAGGACGGATGATCCTGCCTCCTGGGCAGGGAGGGGCAGAAGCTGAAATGGAAACTCTTTCTTGGGAGAGAGT + HHHHFBFGHF2GGG9CC@4<8@FGGHHHHHHHHHHHHHEDHHHHABFHHHFFHHHFHHHHFBH?F97EFHFE?DFHHHHHHHHHE>7B?EFHGHHHHHHH @read_150_369/1 TTTGGTTGGATGAAGTTTATTCTCTCAAAGTTTGCCCAAAGGAAAATCAAGAATACAATATGCCTCAAGTTATTACATGTTTAAAACTATTTTTATATAC + @>77<39CC6EBGBEGFHHGHHGGHHHGD=FEHHC@EEFFFHHEC>(-7306DHHHFGGHHHHHHHFHHHDFHHEFHHHHHFGHHFFDDHHHHC=C@?F; @read_150_370/1 TGACCAACTATGATGCCCAACCCTAGAATGAGCAATCTAATTTGCCGTAGCGACGTACTTCAGCCTCCAGGAATTGGACCCTTACGCACACGCATTCATG + HHHHHHGGGHHHHHHHHHHHHHHEGHHHHHHHHGGHFGGEFHHHHHHFFCCEEHHHFHHFHGFEFHFFFHFDFFFHHHHHHFFF?.5036390>>BFGFE @read_150_371/1 TGGTTCTAATTCATCCTGTCCTTCAAAAACATTAAGAACGTTATTGAGCATCTATACCACCACATCAGCCCTGGTCTAAACTTGCTCTGTGCCCGCTCCG + HHHHHHHHHGFF=DEDDFFGGHGCBCDBGGHHGDDFFCFHHHEEFEHF?D@?C>@>C>@E?DGG;@2DEE7 @read_150_372/1 GACTTGCTACCCCATGCCCCGAAGATTCCTATACCCTTAAGGTCGCAATTGTTCGAGTAAGCTGTACGCGCCCATAAAAAAAAAAAAAAAAAAAAAAAAA + GHHHHHGGFFEEHHHHHHHHHHHHHGFHHHHHEBD?@379882?BBBFHFEBFFCHHHHHHHHGGGHFHHFFHEFDCDEFFHEHHFF@GHGEGHHHHHHB @read_150_373/1 TATTTTTTGTTTGTTTGTTTGAGACAGGGTTTTACTCTGTCACCCAGGCTGGAGTGCAATGGTATGATCTTGGCTCACTGCAGCCTTACCTCCTGGGTTC + HHHHHHHHHGGGEEEFGHHHHHEHHHHGH=6<<<< @read_150_374/1 CTCTCAAGTCCAACCCCCTTCCAATTAAGCAAACCAGCTGCAGGGTAAACGCTCCCAGTGGCAATAACTTAAGTATAGCCTTAGAATGGATTGGCCCTGT + HHHHHHHHHHGBDBEFGHHBFFGFHHHHHHDDDCAEGGGHHF@EDHGHHFFHHHEFBFHHFFA>>;>DEEGFHHEB*5< @read_150_377/1 AGATCAGGAACAAAACAAGGGTGTCTACTCTCACTACTTCTAATATTATACTGGAAATCTTAACCAGTGCAATGAAAAAAAAAGAAAGAAAAAAAAACTT + HHHHGGFFGFEHHHHHHHHHHHHHGEGEE@0C@AFEEHDCEFGGGHHHHHHHHHHHHF?ABBHHHHFC:.77EEDGEEEGHGHHHHHFFFHHHHFFHEAE @read_150_378/1 AGCAGGCCTTGCTCTAAAGTCTTCCTTGGCTCAAAAAGTAAGATACAAGACTGGCTCCATACCTCTCAGCAAGTCTAAAAAAGCAGAGCCAGACCAGAGC + HHHHHHHHHHHHHHHHHHHHHHHHHHHHEFHHG@BHHFFFHHHHHHHDEBD?C***7+67DEFFHFHFFDEEFBBEB?BGGFFF=CD @read_150_380/1 GACATCCACCACAACCCCAAGCAGACTGGATCACACCCATCTTCACACCATTACTGCACGTTCATACGACGACGACCAATGGCACACTTATCCGGTACTT + HHHHHHHHHHHHHHHHHHHHHHGDHHHHHHHHEHHHHHHHHFGGGGBEEHFHHHHHFHHHHHHFEDEDCBBHFFDEFHEFEFE>>>@2<9EEHHHH @read_150_381/1 ACCATAAGACAAAAAGGAGCACAGAGGATCACTTGTAGAAGGGTTTTATGAGCCAGACCTGGAAGGAGCACAGATCACTTTCATATTCCACTGGCTAGAA + HHHHHHHHHHHHFFEF@=88?=4DGFHFFGCDBHHHHHHHHHHHFECCBFF:/;9:>DDGEHHHHHHHHFF?@*EGHHHHFGH@<=EFD4<<1/8@FGHF @read_150_382/1 GAGTTTCCTGATAAACCCATTCTTTCCATTTTATTTATTTATTTATTTATTTATTTATTTATTTATTTAATGAGACAAGGGTCTTAGTCTGTCGCCCAGG + HHHHHHHHHGFHHHHDHHHHHHHHHEEBHDEDBEFHHHHHHA?FHHHHHHGFEHHHHFHHHHF8:<85@7359?CGGFGHFHHHGHHFHFEGFFFEFHGH @read_150_383/1 TACAGCAGCCCCAGCAGGAACGGAGCCCTGGGAATAAAAACTCCAGCTGCTCTCTGTCTCCTGCCATGCCTCCCTTTGGCATAACCAACCAGAGGGCAGA + HHHHHHHHHHHHHHGGDDFFHHHHHHHHGHGFFHHHHGHHEGB=@DDGGGGFCEHHFFHHHHEFDFEFHHHHHGGDG?EBBGHGFHE?FDDG @read_150_384/1 AGATGCCCCACCCTGGACTGAGGATCTCATCTCCCAGTCACTGGGAATGTTGCCTCCTGCTGGCTCGCAGCTGAGTCCTTTCTGGGAATTGCCCTCAGCC + FDFHHHHHHHHGHHHHHHHHHHEHGCCHHHHHC@GFHHHHHHHHHHHHHHEBFHHEBBDEGHHFEHHFFGGFFHA@B@BDA:>.>@B@FHHHGECEB?>F @read_150_385/1 GCAAACTGAAGTCCCTCAGTTCTACGCCTGAGCAAGGTAAGAAACTGGGTATAACTGATGCAGTAGACTTGTGTGTGAACTACTGTGTTATAGAGGGGAG + 95@DC@EEHHHHGGHHHHHHHHHHHEGGHHHHHHFFFGGGHHHFEFHHHHHHHHHHHHFHHHHHHHHHHBFGDD?FHGGGFEHFG@;?FHHHHFFF@DD('&%01.+GGGFHFHHFFFFFFFFFH>9 @read_150_388/1 GAGGAAGGGCCCAAATAATCTCCTGGGTGGTTAAGAAGGGCTCAAAGTTAACCAAGTGATGGGCTGTATACTTTGAAACCTGGAGTTCATACGACGACGA + HHHHHHHHHHHHFGGDEEGGEEEEED5ADD2:@@=BEHHFHHHHHHHHHHDGHHF>GGFBFEECC=>0>@>D8<)39:ADGGHHHHHHHE@D@EHFEHHH @read_150_389/1 ATCTGTAATAGACAAATCTATAGACCCGCAGAAATTATTTTCTCTTTTTGTCCTCTCAGGGTGTGGGGATTAACGAATAAATTCTAAAGGAGCTTTCAAG + DEEBDHHGDEDCEDBB8.D5>@ABDECFCC=1;7:?G @read_150_393/1 GCAGGAGAACTCACATCGGGCAGGCAACAGGGTAAAGTCCCAGCTAGTCCCTTTCCCTCCCTGGCTTGAGGTACGCACCTTCACGAACCAGACAGGCACA + A-'566CDE;+@EBEGEGD@=@B?/3)3@CG=EC@ADDDHHHFFDD?2*@CEGDDFEFHHE@HEEC2DFHEBEGIHHHHHHFHFDHHHHHHEEFHHHHCC @read_150_394/1 ATGTGGCTTGCAGAAGTCATTTATTCATTGAAAATGTATTGAGCCTCTTCTTTGCACCAGGTCTCATGAATAATTGACAAACCAAATAAACATGGTCCCT + HHHHHHHHBEFGEEHHGGDGGGEBD;ACADFFHDFFBFFFHHFHFFHHFGFHHHHFFDCFFCBHBACFFHFCAADE=8EEBGDHEE>CDC?HHEAFFHFHHHHHGHHHHFFFGFCCD>+>,9=C9 @read_150_396/1 TTTCAAAATAGTTTGGTAAAGGATTTTGGAGCCAATGTTTGTGGGTGTGGTAAAGTGTTTAGGTGAAGTTTTGTTTTTGGAGAGCCAGAAGCCGAGGCTC + GGHHHHHHHHHHHHHHHHHHHHFCDE@BEEFHEGGHHHHHHHHHH:,=HEHEEDHGHHHHHHEHHHHC;D>:@FFHHFHHHGBHHFHHHHHG@@>CFHFH @read_150_397/1 GTAAGTTTCCTGAGGCCTCCCCAGCCATGCAGAACCGTGAGTCAGTTAAACCTCCTTTCTTTATAAATTACCCAGTCTCTGGCAGTTCTCAGATCGGAAG + HHHHHGHHHFHHHHHHHEDFEEEDFGGEHHHHHHHHHHHHHHHHHHHHHEDHCEHHE84;@HFE9?DDBDFHHHHH?FHHHHHHHFFGHHBDA?A,8FHDDBFFEBFE:DEEE @read_150_399/1 CTCCTTGGAAAAAGTAAAAGGAAAATGTAAAATGGAGTCTACCTTCTGGATGCAAAGAAATTCTCATCATCACGTGATAGCAAGGAGATCGGAAGAGCAC + GEEEHHHGGGF?DDEHHHHGBEGFEHFFFFCGFEEEHHHHHHHHHHHHHHHHHFEFDFE?>6FEDEGEHGD=CFBGGHHF?8:>FGHHHHHHBE954DFA @read_150_400/1 GACTTAGAAAGCCTTGTCTAAAACCATTGTGGAAATAAGTGGTGGAACTGAAACTTGAAGTCCACACCAACATCCCATGCCCCGAAGATTCCTATACCCT + HHHHGFDDFBFEFFF=FHHHHHHHHHHEHHHHHHHHHHHGEFHHFHHHHFEEFGHHHHHHHFEHHFHA @read_150_401/1 AATTTTTCAAACTTTTATGCTCTGCTTCCTCTTGAATGTTTTGCCACTTAGAAATTTCTTCTACCAGATACCCTAAATCATATCTCTCAAATTCAAAATC + HHHHHHHHHHHHGHHHHHHHHHHHHHGFHHHHHHHHH:@?FHGE=AGHHHHHHHHHHHHEFHHGFHHBFFDCHFCHHHHHHHFHHHHG=;E8C?:93''' @read_150_402/1 GGACATACACTGGTAGCCCACGCAAAGATGAAACAAGCAAGGTCTCATCTCCCAAGATGGCACAATTTAGTGAAGGAAGAAGGAAATGTTCTCAGCTGTC + HFBGHHHHHGGGGGGGHEEBGHHFHHHHHHHHHGFFFFHHHC4DGDHHHFFBFBHHHHFHHHFE?GHFFFBHFHHHHHFFEGFHGFBGE<1+?ECDFD??.,0;EFGGHHH @read_150_404/1 ACATATGCCTTAGTTCTGTCTGTTTTTTGACTTCATATGAATGAAACCACATGTAGGCATGTATCGCTGCTTACTCTACTGCCTCATCCTTATGAGATTC + D@?A?68EGHHHHHHGHHHHHHHHEFCHHGFHHEHHHEEHHHEECCGGGHHHFCHFFFHHGGEFFFFC@A@DEE>GGGGGHGHHHGHHHHHHHHHHHEAC @read_150_405/1 GCAAATTGTTGAGCCTCATCTCCACAAGTTTCATTTTGGTAGGTTTTGGGTGAGGTCCCAAACTCTGTATTTTTTTTTTTTCTTCTTAAACTTTATGGTC + GHHHHHHHHHHHHHHHHHHFFHHGGGHHC@EGGDHHHHHHFFHHHFHHDDFBFFHHHHHFDD@>;5FFFEEBFEDFHHHHHHHFEGHHHHHHHHHHHHFG @read_150_406/1 CTAAAAACACAAAATTAGCTGGGCGTGGTGGCGCATACCTATAATCCCAGCTACTCAGGAGGTTGAGGCAGGAGAATCACTTGAACACGGGAGGTGGAGG + HHHHGFF=?:DCBFHHHHHHHHHGEGG@2*-9AHGHGCC/;>DDAEEHFFDBFHHHHHHFHHEEEFHHFHHHGFHGGHHHFHHHHG99>5@5=HGGFFDC @read_150_407/1 ATCTGAGGGGCCCCATGATGAAATGGCAGGCAGCATCGCCCCTCTACTTTGTAAAGAAGGCAGACCTGTCTGGAGTTTTCGTTCATACGACGACGACCAA + GGHHHHHHHHHHHHHHHE@@@C5FBBHHF>@BEGGGGFFBFHHHHHHHHHDA99EHHHHFFHHHFFG663=DFF;DDCEEHHHGGFFGFHFGE><+:@GG @read_150_408/1 TGGGCTCAGGGTTGACTTCCTTAAGCCGTGTATTACTATGCTAGAGCGTGAGGAAGAACTTATAAACTTGCTCTGTGCCCGCTCCGTATGTCACAACAGT + HHHHHHHHHHHHHHHHHHGGGGHHHHHHHHHHH5FGHHHHHB@7;7EHHHGGFHHHECC//:DDDFFGHHFFFFDHHHF=:417.ADHHHFHHHHHHGGH @read_150_409/1 TCTGGCCTCTAGTTCTGGTTTTAGATGGAAAGAGTGTTGAGTACCAAAGATCTAGCTTTTTGAAAATTTTATTTCAGGCCCTGCCTTTATGTAAACTGTA + GHHHHHHHGFGEEGHHHHHHHHHHGGGGGHHFHGGDDEE=A@4;6@CDBFFD==CHHHEDDFFFHHHHHF0*2=/>AABGHHGF;FGHHHHHHHHHHHHH @read_150_410/1 TTCTTTGAAAAGCTTGCAGTTAATATAACGGCTTCACAAAAAGCTACTTTTATGTGCATAATAACAGGTAGAAAGCGAATATGCTCCAGGCACTATATTA + HHHHHHHHEEGHHFEGGGFFFDEGGHHHHHHHGHHHFHHHHHBFHHHHHHHECBDEHHHHHHHHHFGFC5<>EDEGHHHHHHFEFHHHHHHHHHHHEFHH @read_150_411/1 TGCAAAGCAAATGCTGTGTGAAAGACAGGTTTCCAGTGTAGCATATGTGGGCCACTAATGGGTGTAGATTGAACTGTTCTCTTGCCAAGAGTCATCAATA + @BEDDBDAEHHGGGGGGHHHFHHHHHHHHHHHFFGHHHHHHEEDFDD?FFHEBHE>FHHFEFFDBFHHCBFGHHHHHHHHHFFFHF=EEFHH @read_150_413/1 CTATGAGCATGTAACTTTTTAATTACAAAAACTATTACCTAATATTAGATAGTTTTTACAATTCTGAAATAATTTTTATCATAGGAAAAAGCCAAAAGGG + HHHHHGGGHHFFGFHHHHHGGHHHGEHHHHHEGEEDDHHHHHG@AEGGFG=CFFCEDADDFEFHHHFBHFEFB>9EEDGEFB?EG@EGGGFHHFHHEA74 @read_150_414/1 GAGTCCGTGAGAAAGGTGTCCACAGCAAATGCTTATGTGTTTCTCTTGTATGTAAAGTGCACAAGTACTACTAAGTTGCACAAGACTTTCATTTCACATT + HHHHHHHHGHFBFDFHHFA8EHHHHHHHHHHHHHHHGGGFBCBBBHHHHFHHHHHFFHHHDFHFFHHFFHHHHHHHACDECDHHHHHHHHHFFHHF?EEE @read_150_415/1 GATCACTTGAGGCCAGTAGTTTAAGACTAGCCTGGTCAATATAGTGAGACCCTGTTTCTACAAAAAAATAAAAAATGAAAAAAGTTCTAGTTTTCCTAAA + HHHGGHHHHHGGHHHHGEHHHHHHHHHHGHHHHHGDD?BEFHHHHC?E2@EAA><*DDACHHHHHHHB?EHFGFHHHHGHHHHHHFGHEDEHHHHHFEHH @read_150_416/1 AACATATTTCTAAAGGAGTAAGTTGTAAGTGTAATGTTTAAGGCAAATAAAGTTTAATGCAATTCTAGTAGCAATTTCTGAAGCTCTTTAATTAGTGGAA + HHHHHHGHHHGFHHGGEDGHHEHHHHHHHHEADC<;G=B>@>+EEBBCE @read_150_418/1 CCCTAAAAGGAAAAAAAAAATTATTCACTGCTATCTATTTATTGATAATCTTTAACTTAGATTCTAAAACCTGGGATTTAATAATCAAATCCCAGTACTT + HHHHHHHHHHHGGHHHHHHHHFGHHGGBEEGHHHGHHHHDEEEHHHFEEHHHHHHHHED<)5FFHBFHHH?@+DCGEEBDA;GGFGEBDD?=EEGHHB5C @read_150_419/1 GTTCCAGGATTGGATATCCAAGCTGTTGGCTTTTAGGATACATCCCCAAATGGTCATCTATCACTCTTTTTTTTTTTTTTTTGAGACGGAGTTTTGCTCC + HHGGGGHHEFFG???EGHGGGGBC@EGFGGFGHHHHFFHHHHGFFHHHHHHHHFHHHHHHHHHHFHDACEHHFF9EEEECEGGGGGHHDHFHHGGEFFCB @read_150_420/1 GGGATTGATCGAGGAGTCCCGTGTCCTAGTCAACTTACCACTTTGTTCACTTATCCATCCACTTGCTCATTTTTTGGCCCAATCAATCTACAAATGTGTA + HGGBD@EHHHHFFFHHHHHHHHHHGFFHHHGGGCDHHHHHHHBECB>ECEEHHHHFFEHHHHHHFHHHHHFD@>91G?FGHHHHFGFBBEDDB=330?GH @read_150_421/1 GACTCTGCTTCCCCAAATGTGGGGAATCTGAGGGAAGGATATGAGACATGTTGAGGCAGGAAGAAACTTGGCCTTGGAAGAGAAAACACTCATGATCCAG + HHFGFGHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCFEEDA=@>79FHHHHHBEEEFEC,)/(/)630>DDEEBEBDDDEGF;59D6*499:+4>0><- @read_150_422/1 AAGAAAGAAAGAAAAAGAAAAGTAAAAGGAAACAATTCAAGTGTGAATGGAGTCATAGTGGAAAAAAAGAGTTCCAGCCAAATTCTTTTCTATGCAGCAT + HHHHHHHHHHHHHHHHHHHHDDGGGHFHHHHHHHGAGGEHHHHFFFFGFHBFFHFFDEEHHFBFHEEFDD=?3>-,EDHHHFHHHHHHHHHHHCFHHHFFG2GHFHHHHHHHHHHHHHHHHHHHHHEHHHHHHF?79@@HHHFH7C99+*4CFHHHF65+:,48DEF5EGHHFCFHB;7B @read_150_425/1 TGCAGCCCTGGTTGGTATGGTAAATAGCAGGACCAGTGAATAACATGGTCATGTGCTCACTTTCTCCATGGCCATGTTATGGGGGGTTCATACGACGACG + HHHGGGHHFHHEEEAFAGFB25FGGGGGEC2@EHHHHHHHHHHFGBBFFHHHHHEDDEFHFHHFBCFHEHBFHHFHHHFFEHHHHFFHHHHHGFGGFHEB @read_150_426/1 TACATTGTCCACGAATTTATCAACTTCTGCTAGGTTTTTTTTTTGTTTTTTTTTTTTTTTTTGAGATGGAGTCTGAAAACTTGCTCTGTGCCCGCTCCGT + HHHHHHHHHHHHHHE0EEEFHHHHHGGEEB?GGHHHHHHHHGHHHHHF<5=FHFFHHHHHGFFHHHHEBFBDFC>EFFHHHHHHFEBHBD?DD:6GEHHH @read_150_427/1 AAAGCCTGCAGAACATTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAA + HHHHHFHHHHHHHHHFE=@@@B@@GHHHGGHCBGGCD@B?CA=:)-<<@>/)4EFHHHHHGGHF89CCFHGHGHEHEHH43'@A@<1A;=> @read_150_432/1 GACAAAAGAACACTTTCACTTGTGTCTTCAGCCAGTTCCCATCTGTAAAATGGAGTGATAATAGTATCATAGGTTGTTGTGACATTTTCCTTTGAGATGG + GGGGGGE@DC8,=:BGCEHHHFGGGFDDFFHHHHHHGGGHHHHHHHHHFDDEHHFHHHHFGHHHHHFFFFAADDEGGGGGHHHCFFHHEHHFFFGGFEGH @read_150_433/1 TTTTAATAAGCTGTTGATCTCTTGATGATACAGGAAAAGATGAGCAAGTCCTTAGAATCTGTATATCTTACTTCTTTGGTTTTCGATGACAGAAAAATTT + HHHHHHHFFHHHHHGHGGHHHHHHB=@=GGGHHH>B34EEHHHHHHHEHHHHHHFEFEBHHHBBAFB=@DFFADDDA;1,149C@CCB=EGHHEC00B-; @read_150_434/1 GTGGAGTGGAGGCCTTCGTTTTAAGACCAGGGTTCTGATTACACCTGACAGGGCCGAAACTTGATGCCCGCAGAGCTTACTGATATCTTATCTTCTTCCA + GGCHHHF@EFHHHHHHHHEBEEEDHHHHHHHFHGGGHHHHHHBFCHHEHHHFFFFFFFHHHHHEHHHHHHFHHEEGHGHHHGHHHFFGGED@GGGGDF;7 @read_150_435/1 CTATGTTTTCTTTTTCTTTTTTTTTTTTTTTTTTTTGAGATGGAGTCTTAGTCTGTCTCCCAGGCTGAATGAAGTACAGTGGGGTGATCTTGGCTCACTG + HHHHHHHHHHHHHHHHHHHHHHHHHHHHFFFBBGGGHHFDFEABCEFFFHHHHHHHHHHHFHHHFE>BF?D=>><><;8;FFHHGEAFEFFC8-;EEFF? @read_150_436/1 ATTAATTGTGTCCTGGGCACCTACTGTTTTGTCACTTGTTGGTGAGCCTTCTGAGGGCAAATACTCTGTTTCATTAATATTTTTTATCTCCAATGTCTAG + HHHEEEE@@?556&0=>9@ADEFFEHH=CHFFEHHHHCCDD>?FB@?FEE?BGGDDDEGE=7+ @read_150_439/1 TACTTTGGGTCAGACACTGTTCTAAGTGCTGAGTGATGAATAAGGTAAGAGCCAGATGATTATACTGTCATGGAACTTAAATTCAAGGGGATGAGGCAGT + DCEGGFGGHHHHHFFHHHHHHHFHEF=FHGHHHEEEGGGGD85AF6FFFHGGFHHGG;:EFHHHHHC,>;A@FE?A7.34AGHGHD;DFDBDEGGHHCFH @read_150_440/1 GGAAGCGAGGCAAAAAGCTGTGGCAGGCCGGGCACAGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCCAGGCAGGCAGATCACCTGAGGTCAGG + HGGGGHHHHHHHHHHFD@HHHHHFBEGHHHFHHHHHHFHHFFEEEGHHHHHHHEHHHA+5'*>:@DFEE?<>@-6 @read_150_441/1 AAACCACCATCTCTCACCTAATTTTTGCACTCCTAACTAGTCTTCCAGATTTTATGCTTGCTTCTCTGTGGTCTATTTCCACACTGAAGCCAAAGTGATC + HHEEEFFFHHHGGGGGGHFHHHHHFD?95/@DGHB@GFBEDBHHHHHHHBCGGDHHHHHHEFEGD=FHFCEBHFHHHHHFEECEBEGHHEHFHHFGHHFF @read_150_442/1 TCTGTAAAGTATTTAATATAAGGTCTTAATCCCAGTTGCAGAGTTGTGTGTAATTTAAAGCACAGCATTTTGTGGCATCTGGGCCATTTACTGCCTTTGT + EGHHHHHHGF@?@EBEDFGHHHFFHHHFFBEHHHHHHHHHHHEFHFEHHHHHHHGGFHHDBCADHDD?C??A?EEHHHHHFHHHHHHHEHHHHG79EGEBFGG @read_150_446/1 ATGATAAAGCTGCCATTAATATTCCTGTACAGACTTTTGGTAGATGTCTACACTCTTTTCTCATAGTTATGTTCCTAGACATGGAGTTGCTGGTCGTAAG + A3AFGGFGGHHHHHHHHCCEGDFFHHHHHHHHHHHHHHEFGHHHHHHHHHG<099EC?>9DDHHEEHHHEAACFEGHHHHGHGEDCAEEFGG==5BCDHF @read_150_447/1 CAGAACCAAAGACAAAAACCACATAATTATCTCAATAGATGCAGAAAAGGCCTTCGACAAAATTCAACAGCCCTTCATACTAAAAACTCTCAATAAACTA + HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHFGHHHHHHHHHFG=7'.;D9EEHHHHFDFHHEFEEEEEFHGEEDDHFAD=DCDFBFCECD;DD// @read_150_448/1 ACAAAAAAACAAGAATGGCTTATAGGCTCTGGCCATCATCTCTCTAGCTTCATCTCACATCATTCTTTCCCTGAACCTCTAAGCCCCAGCATTATGGCCT + GGGFEEEEBHHHHHHHHHHHHHHGGHGGGGHEHHHHGFGGGGDADF>D=1A?ACDFGEHH=A?@ACCFHGFG @read_150_449/1 CAAAGATGTACAAGGATGCCCGGTTCATACGACGACGACCAATGGCACACTTATCCGGTACTTGCGTTTCAATGCGCATGCCCCATAAAAAAAAAAAAAA + C,9447CC8?DFEFE@BBHHHEBFHHHHHHHGGGGHHHGFEFHHGEBCBHHFA>> @read_150_450/1 GGTTGTGGACTCACAAGTATTTGTGATTCCACAATATTATAATCCATAACTTGCATGTGTATTATTTTGTAGGTATCAAATACTATAATGTTAAAAAATA + HHHHHHHHHHHHHHHHGEBHHHHHHHHHHHHHGFEHHHFFFHHHFHHEEEGF?EDFFGHHHHFF@??5:=98>CBGGGHHGHHHHHHHHHHEEHHHHHHE @read_150_451/1 CTTACAACTTTAAAGAACTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAA + HFFED@=?EEFHHHHH@DBEFGFHHFHHHHFFFFHDEHHHHHHHHHHHHHBFFFBFFGFHHH=>91AFD?FEHHFFHHHHGFFFGHHHFGE=EHDG?BB0 @read_150_452/1 CTAACCACAGAAATGTCAAAAGAAAATAAATGGAATTCTTTTCGGCTACAGGCAATACAAAGAGAAGTATAATCAAACATATAAAAGCTGCTTTAGGCAC + DCDHHHHHHGEFGGHHHHHHHFFDD@@BBEFHHHHHHHHFFE?DFEEAAAGGEHHFFGEGDC4==CEEFFED@<1;EGFFFHEGG@FGEEGGHHHHHBEG @read_150_453/1 ATGTAGAATTATGAAGGATCTTATTTTTAATTTATACACCCAGATATTACTTGTTACTTTTAAAATAATGGCTTTGTAGTTTTTATTATTATAACAGCTA + HHHHHHHHHHFE@EFHHHHHHDBCFEHHHGHHHHHHFDHHHHGFGFGGFEHFEEGHHHHHHHHFFHHGEADBD>CDB@BDGFFFFHHGDAFC@EFHHEFB @read_150_454/1 ATAAGATTCCTGGAAGCCAAGTGAAGAATAGGTTTCAAAGAAGACAGCATAATCAACTCTATCAAATGCAGCTGCTAAGTAAAATGAGGCCTGAAAACTG + HGGFHHHHHHHHHHGHFFDGEEHFHHHGGFHHHGHHFHHEB>CCGHHH?EFHDFFHFDHEBDGEDF9@=GHHFHFEBDCFHHFGFDAAAFFDDEEE?DGG @read_150_455/1 AAGAAGGCAATGATGTCTACTTTTGCCACTGTTATTAAATATAACAAATACCTGAAGGCCTAGCTAGAGCAATTAGGCAAGAGAAAGAAATGAGGGCAAC + HGB<=CDEEHHFCHHGGGGHHHHHHHHHHHHHHHDEHHHHHHHHHHHFHHHHHGHHFGHFFFHHHHHHHEBCCCBGBBEEFF(?8EHHFGGEEECCHHBD @read_150_456/1 CCTTGCCTGGAAGTAAGTTTACATTCTTTAACTTTGTATTGCCTCCTATATTTTCCAGTCTAAGAAATGGTCTTTCTTTGTAGACTCAATTTTGGAACAT + FFFGBDBHHHHHHEHFBHGF@?DGHHHGFG895@HHHHHHHHHFFFFFHHHHFFEHFHHFHHFHEBDCBFHHHDDHHHHHHHHHHHHHHHD?*++)--54 @read_150_457/1 TTGGCACGTTTTTCTGCGCCAGGACCCTCTGGCTGTAACGGTGGCTGTCTCCATTTCTTCCAGTGGTGGCTCTGATAAAGGGAACCTAAAGTCTCAAATT + HHHGHHHHHHFFF8>EGGGGGFBEBGHHHHF@BFHFFHGFHHHHFGGE.FAGFE?FHHHEE992*''9CHHHCE4;=>@HHHD5CECF>@:<+BB?DD @read_150_461/1 AAAAGGCCTTTGACAAAATTCAACAACCCTTCGTGCTAAAAACTCTCAATTAGGTATTGATGGGACGTATTTCAAAATAATAAAAGCTATCTATGACAAA + GGGGGFB=D>FHHHHHHFEHHHHHHHHHGHHHEGC:CFFA?DD.01=@A5>*7A4BHC1:4)+;5:ADE@>.5A<@A>54<(( @read_150_465/1 CCCCAGGCTGTTCCCAGCCAACAACTGAGCGTGGCAGGGACACTAAGACAGGCCCATTCCCAGGAGGCCTAGGATTCCCATGACAGGTAACTTTGGCTCA + HHHHGHHHHHHFFGEEFFHHHHHE7EEEBF=:E?DEHFGEFFBEBDAFCFHHHHHHHFE@HHECCFE>FB@GDHHBD/.BBG@@AEEFHFGGHHHHHHHH @read_150_466/1 TGTCTCAAACAATAAATAAATAAAATAAAAATAAAGAAAGACTGGTTAAACCATGAGCACAGAGAGACTGCCCAGCACACCAGGAAGAGACAGAAAAACA + EB=EGGEEFGHHHHHHHHGGBHFFBFHHHHC?>FHGFHHEFGHGHHHHHGGEFFFHFEGGHHHHHHEE?FEFHHHFHHHHHHHHB?<)>@5A@CFHHHHH @read_150_467/1 GGTATCTGCAGGGTTGGTTCCTTGCTAAGGCTATGAGGAAAGCATCTGTTCTAGGCCTCGTTCCTTGGCTTAACATGGCCCGAAGATTCCTATACCCTTA + HHHHGHHHHHHHHHHHHHGGGGGGGGHHHHEFEHHHHHHHGGGG;.)0:ADGGGHHFEDHHGGHHHHFFDAD44@ED,62=DDHHHHHHF78<8898;EF @read_150_468/1 AAAGACAGGGTTTCACCATGTTGGCCATGCTGGTCTCAAACTACTGACCTCAAGTGATCCACCTGACTCGGCCTCCCCAAGTGCTGGGGTTTCAGGCATG + GEBFGDFG=CABBCB:@;DDF535A>?BDG @read_150_469/1 TCTAATGAAGTTAAAGATGAAATGAAGATGTGCTGAAAGATTCGGTAATAAGACCCTGTGCACTTACTGAGCATGCAGACTGTTCTTTAATAGATGTGTG + HHHHHHHHHEHHHHHHHHFHHHHHHHHHHHHGGDEEFEEEFFHHEHFDGGFGGGGGHEB?2<.%&)5:@@GEHGHGGEFFHFFFFFHHGHFD/36;?C?< @read_150_470/1 AGAATGGCATTAGGATTCATTATGTCAATAATGATGAGAAATAAGTAAGCAATTCAACTGGTTTTCTCAAACATGGAAACTATTCTCCTGAAAGCCTTGG + HHHEEBHHHHHHHHHHFFGGGHHHHHGHHHEEGHHHHHHHHHHHHHHHHHFHFHHHDEHHHHDBD6>BEECCBHHHHG?<91)88;5DFGDBHFHHH78; @read_150_471/1 ACCTGAGAGACAGGAGGCCGCAGAGAGGCTTTTCTGAACATCTTGGGCATTCAGTTGAGACCCCAGAAAGGCCACACCCTAAAATTAAGATTGTCCTGTA + HHFEGGHHFHFHHHEFHHHHHHFFDEHHFHHHHHFHHHHHFADA9EEHFHHFEEFHHHHHHEEGE9;E.:;>4E?:;<7;EGHHHHHHFDFEEA').'1* @read_150_472/1 TTGTGCCTCAACCTAGTGTTCAGTAACTGAAAACAGCAGTGGGACCAGGCAGTCTCCAGAGGAAATGTGCAATCCCAAACCATGATTCTTTTACAGCTTT + DC-9?GCDDFHG;:A?FEGFGG==BHHHHHHE>HHHHHHHFHHFHHFEHHHFHHFHDHFBE?=,5F?AEHHHHHHHHHHGHHFHHHBCHHFFFAD?CE @read_150_477/1 ACTTCTGCCTCCTGGGTTCAAGCGATTGTTGTGCCTCAGCCTTCCGAGTAGCAGCTGGGATGACATGTGCACACCACCATGCTCGGCTTTTTTTATTTTT + HHHGEHHGGHHHHFGF?FHGHHHHHHGHGGGEGFHHHHHFHHHCEFFFHHDD?EE?DABHHHEEHGFFHHEEHHHHHHHGGEEFHHHHHHHGFDDAF?:; @read_150_478/1 GGCATTACTCTATTATTTGTGTTTCCATATTCAAACTCTTCAAGAGAGTATCTGATTGGCTTGTCAGTTACTCTCCAGTATAAATGCCAGATTGGCCATA + GGGGGGGGC7BHHHEEHHHHHFGFHDEFGGFHHHHHHF<@EFHHEHHHHHHHHHFFGHFFHHFFDHA?CFFFDDDGGGFGHHHHHHHGH:DEGGHHDEHG @read_150_479/1 GTCTTAGGGCAAGTTAACAGCTCTGATATTCAGTTCTCTCCTTTGCAAAATTGGAGATTATCAGATGTGACATGAACATTTCTCTGTGGACTAGGGGTGA + HHHHHHHHHHFFDFFFGG@>CDEBFFGGG@@:;HDGGGFHEGHHHHHHFFAEFHEHFHHHFFE?2>5/EHHHFGHHHHHHCCEDD @read_150_480/1 CCGCCTCTGGCATCAAGTCCCACCTCCTACCTCAGGAAGGCAAATAAAATAGAAATAGAGGGGAAAATGAAACTAATACAAAAATTTGGTAAGTTTATAA + GEEFHHHHHHHHHGGHHHHHHGGHHHHHHHHHHFF0/92DFHHHHHHGGCFHGGGHGGGGHHHHHBEHFECFHDD>8FHHHHHHHHHH94>FBEDB:@FF @read_150_481/1 AGTTTTTATCCTATGGGAAGGGAAGGAATATCCCCACTAAGCAGGTTTAACAATATTGTGGGAAAGAGAAGAAAACCGACCTAATTTGCCGTAGCGACGT + HHHHHGEDFGGHH@F=DDFD6;EEHHHFHEHFFFGHHHD9BD=DDHHHHEFHHHHGFFBEHHFHHHHHFF@CCGEDFHHHHHGEGGGFEFHHHHFB<@BF @read_150_482/1 TTCAAATCTACCAATTCAAAGCCCTTACACCCAACCACCTACTTTATCTGGCTCTTGCACTCTGGGTCACTATCCACTTGCCCTAATCACCTCAGGACCA + GFGFHHHHFFHHHHHHHGHHDEEHHHGFFHHHHHEB<<2EHHHFEDHFHHHHHHHHFFFFFHHHEHHAFHHHEEEFFFEEGG@@GFHHGHEHHHHHGEGE @read_150_483/1 TTAATTTTTTGAGAAACCTTCATACTGTTTTTTAAAGTGGCTGTCCATGCCCCGAAGATTCCTATACCCTTAAGGTCGCAATTGTTCGAGTAAGCTGTAT + GGGGF@FHHHHHHFFHHHHHHE@@HHHHHHHHHHHGCD38CCADD@??EHHDBAA?FFHECF@=DFDFFHHHHFFHHHHHHF><=E9DECD;7( @read_150_484/1 AGTGACAATATGATGTAGTTAATATGAAGAAAATGAAGGGCGACTACAGACTGAGGTATACTGGGTGTTGTGTGGGATAACCATTTGCTTTCTTCTTTCA + GEEHHHHHHHHBEGDAGHHGHHHHHHHHEGFFDDDFGHHHHHHFFHHFHHGBEGE9:DFDEHGGFBHHHHHHHHHHHHE>EGF?; @read_150_486/1 CTGACTCTCCTGCTTCCATCTTCTCTTCTGTAATGTGGGGCTAATCATAGAACCCACCTCATAGGGTACAGTGATAATTAAATACTTTAAGCTAAATAAA + HHHHGHHHFEBC@FFGEGED3=5C9>?DB@>C:>A:BEFFFEDFHGBD:>:@ @read_150_489/1 TTTTTCCTGGCTCCTAAAGTGATCATTTAAATATCTTTCCAATGTGTTGAGCCTCTCAAGAAGCAGTTTCTACACATGTTGACACCTATTGGGTGTAACT + HHHHHHHHHFGFHHEFB=>EBD?B@EEHHHBAB3DEC;9DHHHHHBDDDDCCFHHFBB9)/:7=C4DCGFHHCADFFGFDDGGHHHGHFFFHDAGEEEDF @read_150_490/1 CTAGATCAACAGTTCTCAGAGTGTGGTTCCTGGATCAACAGCATCAGCATCATCTGTGACATTGTTAGGAATACAGATTCTTGGGCCGCATTCCGGCCCT + HGGGEGBFFD@GHHHHHHEEFFGHGBE?C:EBF>;/);2 @read_150_491/1 CGTGGTGGTTTAAACACTGGTTGTAAAGGAATGTGCCTCAAAAAAACAGGAAGGAAATCAATACCAGATCTATTGATTTAAAAAGCTAATGGATGGAACC + HFGGGHHHHHHHGGD9<@+')??DBFFHHHHHF @read_150_493/1 AAAAAAAATCTCCACATACACAAAACCAAACATTTAGGTTTTGTGATTGATACCTTTCAAGGTTTTATTTGGATGAGCTGTTATAAGAGCAGGCCTCTCA + HHHHHHGGHHHGHHHFEEEEGGGHHHFHHHHHHFFEEHHHHFEEEHHHHHFHHHHHECD4@>>?FGG<:DDFGHHEEF?DFFGEHFB5DCGD(>@HBHHHFEG @read_150_495/1 TGCAGGGAGTGGGATGCGCAGGACACAGCATGAGGGGGCTGCTGGCCGCCAGGGCTGGGTGTGTGGCCCCTGAGGAGGCAGGTGAGAGGTCATCTGGCTG + BA=8=BDEGHHHHHHHHHEHHHHHHHHFFA@@GFHHHHHHHHHHHHHHHFFHHHHEE=CBHHHHHHFH?DEFFDEEF?EDDFDC@DFHHHHHHHC>:DEF @read_150_496/1 AGTTTAATGTGTGTTGGATTGTGTTCATACGACGACGACCAATGGCACACTTATCCGGTACTTGCGTTTCAATGCGCATGCCCCATTAAAAAAAAAAAAA + HHE@FGFDGEHHHHHHHHFHHHHHHH=EEHHHGGGEHHHHHHFFH?DBEBAHH@9.5?E=@:?GD?ACCF4CFHHFBHHHHG8=?2-<>@EHCCFFB>?C @read_150_497/1 TCAATAAAAGATGAAGAACCACTGGAGGGTTTTTGTTTGCTTGCTTGCTTGGTAAATTGGTTGGTTAGTTGGTTGTCTGATTTGTTAAAAAATTAAATTA + HHHHHHFHHHHHHHHHHHHHHHHHGHEDD=<4FFGEFHHHDEFFFFHHHFB?FHEF;8GGHFFFEGHDEEHHEEEGB@EBBEFHHEDD<>40?C=EEFHH @read_150_498/1 AAACAGAGGAGGAAAAATACTCAAAGAAGGGGAAGATAACAGGAAAAGCTAGAAAAAAAATGGCTAAGGAATAGGACAAGTTCCCATACAAATATCCAAT + HHHHHGGEED*@@CFHHHHHHGFFDHEHHFHGHHHHHHHHHCEEEHHHFHHHHHD?E@56.:7,DE5>>EHHFC@EE993EGGGDFFHHHHGHHHHHHHG @read_150_499/1 TTTTATAATTCAATAAAAAGATAAATTATCCAATAAAAAATGGGCAAATGTTTTGAATAGACAGTTCTCCAAAGAAGATATACAAATGGCCAGTAACACA + DHHHHHHHHHHHHHHHHHHHHHHHFGGGADG56A?FFFGHDGHHHHHHHGHHHFHHHFHCEDFFEFHHB@EEEEHHHDFHHHFFGHHHGFFGGGFGEHHH @read_150_500/1 TCTTAAACTCTGTGATTTTGAGTATCATTTCTTCCTTTACAATTATTTTAGAGGTTTCCAGTTGTTGAGTCTTTGTAAATTAATCCAAACTTGCTCTGTG + HHHHHHHHHHHHHHHHHHHHHHHFGBEFHHHEGEEEHHHHHHHHHHHGGGB@H?C,BGHHFHHEHHHHHHHHHHHHHGGFEEHHEHHHHHHHHHBD?:EHDCBD?DFHE??@?DDBDDBGE @read_150_3/2 AATACTAGCAATAATAGGAACAGACACTGAACTTTTATGACTTATTACAATTATTAACGGAATGATTTACCCAACACAGTCTTAGAATACTGAAAGTTGG + DG@HHHHHGGFFFHHHHHHHHHGGHGGHHHHH>HGBHHHHHHF5EFDAF?GE@GGIG@B47CEGEGHDDFE@+--&;5(+:;?CC1=004;57)+:+5=A @read_150_4/2 TGACTGTCTCTCATCCCCCACTCCTGCAGAATGTAAGCTATATGAAGGCAGAAGATCGGAAGAGCGTCGTGTAGGGAAAGAGGGTAGATCTCGGTGGTCG + HHHHHHHGFG7/@FEEEIFDHFHHHHHGFEFFHFBBBDEEEEBFHFFCGGFGGGBCBD8'9:C5<=>HFDFFCGBEE @read_150_5/2 CGTTCTAACTATCTATACTGTGTAACAAATCACCCCCAAAACTTAGTAGCTTAAACCACCATGGTTTATTATTTCTTACAAGTCTATAGGATAGGAATTC + @.2>AGHHHHHHHHHHHHHHHHEBE:CFG@:4<:-88ACHHHDEEFFEFHHHGE932;8/CC @read_150_6/2 TTACATATTTAGCTCCCCTGTTCTTCTCAATACCTCTGTGAGTATTTGATTATTGCCAGTTTATGGACAAGATATCTGAGGCCCAGTTTGCTTGAGATCA + GGGHHHHHFGGFHHHFHHHHHHHHEHHCDCGHFHBHHHHHDHH?AEGHHHHHHHHHHHGGHHHHHHHHGGEFHHFHGEEEFFHHHHFGEE*1@97-4AED @read_150_7/2 TCAACACTAAGAAGCCTAAATTGAATAAACACACACAAAACATTGTTAAAATTTTGCAAAAGTTTATAAAAAATTATTTTTGTCACTATTTATTGAGAGA + BCD95?DHHHHHHHHHHHHHHHFHHHHHHHHDGGHHDDBHHFFHHHHHHHGHHHHHFDFGGGDDFGFEHH@7-64).@?B?HHHHHH@>?ED?FFFEBFH @read_150_8/2 TCCAACAATGCTTCGAGCTGATACCAGGGGAGGAGAGGGTCAGCCTTGGGGCCGGTGGGGGGGTGCGGGGGCAGAGAGCAGGTGCCTTCGTTGGATTCTC + HHHHHHHEFEEAB,5?=@@?CEEHGHGHFG7'045-.5:;GBGHHHHHHHE8@DCFEEFHHHHHHEB@@HGHHHHG=HHHHHEGHEDEEHHHHHFHHHFE @read_150_9/2 TACAGGCGTGAGCCACAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAACAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHHHHHHHFGGHHHHHHGEHFDEGGDBBGHHFHHHFGAEHDCHHGGGGIHGHGHHHHEBEFCGGGGEEEE>+,;>BD@@7368EAD=F @read_150_10/2 AATTAGCCAGGCGTGGTGGCGGGCACCTGTAGTCCCAGCTACTCGTGAGGCCGAGGCAGGAGAATGGCGTGAACCCAGGAGGTGGAGCTGGCAGTGAGCC + HHHHHHHHHGF=BGHHHGA55><00>>CEEHHHHHGGIGDACEHHHHHFGEHHHHHHHHHHHHFHHHHHGFFHFGGEFEHHHGE7 @read_150_12/2 GAAGGGACACGGCGGAAGGCAAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAA + GFFHHHHFGHHHHHHHHEEHGHHHHGHHHHHHHBE@DC@GFCGHFHHHH?E @read_150_13/2 AAGACTGCCAAGCATAAAACATTGATTATTAGCATAATATACAGTTGCATTGACCCGAAGGGCTCGCTGTTTAGGGAGGTCAGAAGTTGAGCGGGTTCAA + HHHHHHHHHHHHHHHHHHHHGFHHFGHHHFDBHHHHGDDHHHHEF@=B@.@DHHHDD8@CAG?E6-*8EEEG8GHHHHEEBGFFDFFFF=.;9@EEHF/@ @read_150_14/2 GTATTTTAATTTTTGATGGATTGGTGCTTATTTTCCTATCTTTATTGATATTAGATACTGACAGTGAAGAATAATATTCAATAATAAAAATTTGTGCTTC + FHHHHHHFHHHHHHHHH;;-((/ABGGBFHHHHHHHHHHHHHHHHHHHHHHHHHHHHGEF=<53=E7AC>EFEHHHHHHHHEHF:3-DFGHHHHHHHHHHGGG@?>D?DHHHCDDHHHHHHHHHHHHHFHFC53F@BDEEHF @read_150_20/2 GTAGTTTGTATTTCTGTGGAATCCATTGAGGCTAGGAAGAAACTGCATAAACTAACGAGCAAAATAACCAGCCAGCATCATAAAGACAGGATCAAATTCA + HHHHHHGGDEBFHHHHHGGGGEFFC?476*,:6B?A@?>ADFHHHHDFB:EGHFHHHHHHHGFCDGGGHHHHHHE6+=9FB>856>9A>@75DE7.,,3DBEF @read_150_22/2 GCAATTGTGGATGCTTAATTCTGTGTTAACACCTGGAGGCAACAGATTCAGGGAAACCAGAGTGTGTTTAATGTCATGTTTTCAACGAAGGCTGAATTAC + GFDHHHHHHHEEHHHHFEEGEGHHHEGHHHDC/8@@GEECGDG?@EGFFEHHHHHGHHHHHGGGGEE:<*&,7:3?EHHHHHHHHHFHBFFEEFGEH@>; @read_150_23/2 TTTCTATTTCAGTTAAGAATGTCATTGGTATTTTGAAACAGATTGTATTGGGTTTGTAGATTGCTTTGGGTATTATGTTCATTTTACAATATTAATTCTT + D98DEE?D;=,+6:HHHHHHF@?FHHHFDDEEFCFGEHHHADHFFDEGGFHHHHDFHHHHHHHHHHFG@=D=-E?8<8F>0*1:FFHHHHHHD7FGGHHHGHGHDHCFFFFFDE64.36DBHHHHHHHHHHHHGHEEEGE@EEGFGGFFGGGG<8CGFFEBED@@+5@@@3)0%3A>?A?C @read_150_26/2 GACAGGACTATGGACAGTTTGTACACCAACAAATTGGATAACCTAGATAAAATGAAGAAATTCATAGAAACACAAAACCTATCAAGACTGAATCAGGAAG + BA@=DHFEEEHHHHGHHHHHHHHHHHHHHHHHHHHHHHHHHFGDGHHHHHHGDFHHHFHFHHHFE844@HHHGGFHHFGHGHHHFFECDFHFGGGCCEB? @read_150_27/2 AGTGAGCCGAGATCGTGCCACTGCACTACAGCCTGGGCGACAGTGAGACTCCATCTCAAAAAAAAAAAAAAAAAAATTAGCCAAGTGTGGTGGCACGTGC + HHHHHEHGBIGHFHHHHHHHHHHB=DA;ABG:@BFHHHH?DE=-927>23EGGGHHHHHHHHEEFHGGDBBEFF>BHCFCCHHHHDB.9.74,4CACFGF @read_150_28/2 TATTGCAATTAAATAATTTAATATTTAAAGTAATGTGTTGGAAATCTTCTATGTTTTGCTACTAATAAGTGAAAACTTGAGCAAACCAATAAGTAAAAAT + =CBHHHHHHEEHHHHHHGGHHHHFF@GHHHGG?8FHHFE066GHHHFFHHHGEEEIFFFHHEDFD6(48@>);.97EBHHGGGGE:@>@C @read_150_29/2 TAAAGAAGATAGTAAAAAGAAATATTATTTTTATGATGAACAAGAGAAAAACAATTATGTTCTTCAACCAGACAAAGATAATCAGGCGTCAGGAAACTTC + GHHHHHGFHHEEGDFF=47;D>>>HHHHHHHFHHHGGEHFHBEEHHHGHDGGF@D@=3.,0&=G=@<8GGGE8;CCCFBCDC< @read_150_30/2 CCCTCAGTACTGGTGTTTGTGCCTGCCATTGTAGGACCTGTAGGTGGGCTTGCATGGTCCTTCCTCATCCATCTTCTCCCCACTCAGTGTCTGAGCACAC + HHHHGHHHHHHHHHHHHDA?EE@BF=EEFFFGGHFA@6A526@HHHGFBFHGFFHHHHHHHBEEHHHHGCHFGG8/,?DDB<;5.>EEHH<70EDDFHBF @read_150_31/2 CTAAGAAGGGTATTTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAAA + EGFFHHHHHGGEDFFEGG@EDHHEEGGHEHHHEFGHHHHGBGHHFEDBFFE@@DGCHHHHGGDGGEGHGCE'',8?GGGFFGGGHHHBGFFDHHHHHHHHDDECBBDHEHGGGGBHHHHHHBBCFHHHHHEFFHFGEGG @read_150_33/2 CCACTGCACTCCAGCTTGGGCGACAAAGTGAGACTCTATTTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTA + HHHHHHHHHFHHEHGHHHHEEGGHHHHHHHHGFHHHHHFHHHHHHFHHHHHHHHBEHHHBDBFEBCBB??(CD@:&.?AFBFFEEGFE<;BFGDEHFDEB @read_150_34/2 CAGAGAAAGAAATAAACACTGTGAGCTCCTGGTCCTATCTATAGTCTTAGTACCAGGTATCTCTTAGAAACTTAGTAAGTGTTTGGAAAGAAAGAAAAGA + DC8-946,(/6?>ADG?DCBGGFEEA:CF@@@GGGEEEEBBFDGBCEGGG<=EBEDEEEGHHHGHHHHD=EFE?3+<>ADGGEEE?CBD @read_150_36/2 AGCTCAATAGTTTTCCATAAAATATGCTCAAAATTCGATGCAGTGGCCATGAAAGTACAGCTTTTGAAGTATGGTCAACCTATGGTACGTTAGGAAATGA + HHHHGEHHHHHHH@>CGHFGHHHDC;>'<5:ECD@CFFG?FFGFHHHHFDDA997AHHHHHHFEEB=<@E61>><5735+=GGDGGGHHHGHHGFHHF<;9<@;@@9>;C>18?CC7 @read_150_39/2 TTGAATCAGTAATAAATAGCCTACCAACCAAAAAAAAAGCCCAGGACCTGATGGATTCACAGTCAAATTCTATGAGATGTACAAAGAAAAACTGGTACCA + A>;66/=EGGG?@GGDEEG=@EEHFHFB8GHHHECCAAEFHHHHHDCC<5>CDDEEEB@=EHHHHEFA?EFFGGHHGHHHHHHHC078D;12CA*:DDFH @read_150_40/2 TTTGCCTCAAATTCTTTCTTGTGTAAGATCCAAGAATCCTCTCTTGGGGTCCGGATCAGTAACAGCTTTACCGTCACGTAGTTCTGTGACAGATCGGAAG + HHGHHHHHHHHHHHHHFHHHGB;7B;7@7)7;><( @read_150_41/2 GCCTGTATCACCACTTAGCTCTCACTCTAGCCTCAGTTAGGTATCAGCAAGACCTCACCAAAGATTATTGTTTCGTTGTATGTGCGTGTGTCTTTTTGTT + <8CCBBDDDHHHG@4BIEHHHHHHHHHHHHHHHFHHHHHHHDGFGFBEEFGGGGGHHHHHHHHHHH=27@;+3,8:6GEEEFHHFFFFHHHHHHHH?HH @read_150_43/2 AAGGGTCTGCCTGAGTTGTGTCCTGTTGGACCAGAAGGAATTAGTCAAGCACAGTGGGGAGGAAAGCATTCCAGGTACAGGGAACAGCATGTGATAAAAG + <53.@EEHHHHHHHHHHHGHHHHHGG5<.76EFGGHHHHHF@;47336DFGGGGGHHDBFGE=FHHCDGGFEHFFHHHHHGGH==/@@BFFIDBFBAAEG @read_150_44/2 CCCGCATACGGTCACCAAAACTCAAACATTAGAATGTTCATTCTAGCTGATCGGGAGTAATTTGGAGGCAGTAGTTCGTCGAAACTCGGAGCGTCTTTAG + HHHHHHEEFE<<5:EHHHHHHE?@@CFGGEHHHHGBDEFBEEFEHHHHHHHHHHHHHHHEHE=EEHHHHHHHHGBFHFGFDDFG@DGEE=EEEFGEDHHF @read_150_45/2 GTAGGATTGGTTTTTGCCTCTGAATGCTTGGGATAAAACATGTTTTATCCCAAACGCACTATTTGGTAAATATTATAACAATCATTCATTAACCACCTAT + DA<;<:<<GGBAC<.)/)0,+A @read_150_48/2 ACCAATAATTATTAAATCATGTTTTTAAAATTATGGACCAGTAAGTTCTCAGGAAAAAAATAAACAACAAAACTAACATTGGTTGGGTAGAAAAGTTGAA + HHHHHHHHHHHHHHEHHHHHFFGDDFDEHE@GEEDHHFFHGEEEFEEGG@<3/AB=:5/EAA@;=EBC8EHHHHGEEHHHGBBGGHHGHHDDCBEFGEDC @read_150_49/2 TTCCATCAGAAAGTCTCCTATTACAAATGTCAGTTTATTTCTTATGCTTAACATTTTAAACATGATGTCCAGAAGCCCTTATTTGCCATAGGTACAAATT + HFGGF@?861/CDD5=FCFEHHHHHHHHHHHHHHGGFC2D0>>A01157.DHEE @read_150_51/2 GTTATGATGCAGCACAAAAGCCTTCACCAGAAGCCAATGCCATGCTGTTGAACTTCCCAGCCTGCAGAACCATGAAGTAAATAAAACTCTTTTCTTTATA + HEDGDB=EEEHHHHHHHHHHHHHHHHHHGAEFFFEHHG>CHHHHHHHFF@EEHHHHHHHGHHHHGGEFFD913<<@.9;:5:FHHFFD? @read_150_52/2 CCCTTTCCCTAGGTAGCCAAATTAATTGGGAAAAGAAAAAATGTGTTCATTGGAGTGGAGTCTCACACACTATCACAGTGCCCTTGACAGCACCCTGTTG + HHHHHHHHHHHHHHHHHGFEGHHHHHHHHFGGFFGGFFGHHEHHHFI9<.DDG@@67=HHHHHEHEGDE;-.5>=EFHHH@CDBHGFFFHDHADEFGE9< @read_150_53/2 AAAGGTAACCAGAAAATAAAGGGAGCTGTTAGAATATTCTCCTTGTTTCAGTTTCATTCTCTAAAAGATGGAGAATATAATAGTACATGCCTACAGGAAT + FHHHHHHGBFEFFHHHGGGFG=DADEBFBCG@;=EFHHHFHFFHHHHFDABB@CA=??7839;GFHHHGHHHHHF@EHH?HHHHHGBGD?5@'*31>:.5 @read_150_54/2 TAAGTACCTTCCCTCTTTCTTCCCCTACCTCCCCAACCTCTCTTTTTAACCCACAATCAGGGCCTGCTGGTAAGAAACTCGGAGTTTGGCCTGCGGGGTA + GHHHHHHHHHHHHHHHHHHFHHHHHHHHHHHHHHHHHHHHHE:@C?HHFHGIGGFFGGF>ED8<7F=@AE<<=>4@CEHHHHHEGB,5<:28)/6&,4:< @read_150_55/2 TTTGCTTGCATAAAGACAATATCCCTCATTTCCTGCTAGAGAGAAAAAAAAAAGACAATATCCCTTGTGCATCTGGAGTTTTAGCAAAAATGGAAGTTTA + HHGHHHHHHHHGGHHGHHHHHGEEDAACHE=EB=BGDFHHHHDEEFHHEE.83731;;>FHHHHHHHHGGHACBC5AEFHHEDHHHHHGDBGHHEH;4DF @read_150_56/2 CTAAAGCACTGCCAGTATCTTCTGCTTTCAAATTTATATATAATTTAACATCATAACATACCTTTTCATTTTGTTCTAAGTGTTTCGTAAACTTGAATTT + HHHFDGHHHHGGHHHGEGGHFHHHHHHHHGEHHHHHEEDDGHD@@@D55>.@5C?ABFHHHH @read_150_58/2 AAACAAAAGCAAATTTATTTTCTCCATGCTAAAAGGATATGTTGGTCACACAAGTTTTACCTATTAGTACTGACAAAACAATAAGAAACTCGGAGTTTGG + HHHHHHHHHHHHHHHHHHHHGEFFHHFFEEDDCD42,'>49138@419<7?BECBHHEGGGF=DFHFHHHEHHHHECFBFEB;.>:<61<=GGDA@BFFGGHHHGHHHHHHEEFGH=;E>A)79<.-0(0/ @read_150_61/2 GCTTGTTCTTCCACCATGTGAGGACACAGCTAGAAGGCACCATCTGTGAACCAGAAAGCACACCTTCACCAGATACTGGATGTTGCTGGTGGCTTGATAT + HHHHHHHHHHHHEEHHBGHHDFHHHHHHHHHHHHHHHGHFFHHDE?=)31?/D=?-BEEHHHFHHHHHEHBEA>DDD9DF>*34 @read_150_62/2 AACTTTCTAACCAAAAATTAAAAAAAAAAAAAAAAAAAGAAACAAAAAAATCAAAAACAAACAAAAATAAGTGAAAGGACTACTTATCATTTCCAGCAGT + HGGGGFDHHHHHHHHHHEEEEHHFHHDFHHHFHHHHHHFH@>BHHHHHHHHHEFHFHHHFFGED?EE.;=93>CGHHHHHHHHFEHFGBABBFH?@@@EG @read_150_63/2 TTTTCCCAATGTTTAACATAAGCATTCTATTATAGATATACAGATATTTTTCTGAACCTTTTGAGAGTAAGTTACAGATGTAATGCCTATTAACTACTAA + HHFHHHHHHHHHHHHHHD=FF@GHHHFDBCHFH=299.7CHHHHGA=9:G8BGGGHHHDC@ADDGGHGEA@CADEFFEGBBBGBC*,1>C86:>>DB?DA @read_150_64/2 ACATAGTCATCAGGTTATTGAAAGTCAGGATGAATGAAGGAATCTTATGAGCTATGAGGCAAAAGCATCAAGAAACCTATAAAGGAAAACATGTTAGATT + HFHHHHHHHHHGFHHGFDF?GFBGGFHHFGHHHFGHHHFFHHHHHH@4>ABECDDHHHGGGGHHHHHGEHHHHDBEFBHFHEFGCDD6,-:'>DEGBD>A @read_150_65/2 TGGTGAAATCTCAGCTCACGGCAACCTCCGCCACCCAGGTTCAAGCGATTCTCCTGCCTCAGACTCCCTAGTAGCTGGGATTACAGGCATGTGCCACCAC + EFHHHHHHHHHGHFE5A3:./EFEEE:ABCE6-@DGHHHHHEGHHHHHHHHHHHFEHHGHHHHHHEDDFFBFHH<(1;6DHHHHFFCFB:,C4/ @read_150_66/2 CCCAGCCCTGATGTGTTCCTTTGGAGTCTGATTCAGGGAAAGTTATACTAATGTAGTAAATAAATTCACTGACTGAGTATTAGGTTTTGCTTGCTCTTTC + HHHHHHHHHHHHHHHHEGHHHHHHHHHH==BEHHHHHEFHHHHFFHFFFHHGBCCFEGHHHHHHHHHHHHHHHHHEEFEFFHGE4,,=@BHHFHHHFEBD @read_150_67/2 GCCATGGGGGACAAGGGGAGGGAGAGCATTAGGACAAATGCCTAATGCATATGGGGCTTAAAACCTAGATGATGGGTTGATAGGTGCAGCAAACCACCAT + @DFHHHHHHHHHHHHHHHFEEFFHHHGFFHGHBEFHHHHHG8@@FHHFHHHHHHHHHHGHGBDB4FD>:@A:;>>C:;HHHHHHHH@EFBEHHFAC@AFF @read_150_68/2 ACTTTAAGCAGGTGAAATGTGTGGTATGTGAATCATATCTCAAGTAAAACATAAGAATGTTATATAAATGGAATCATAAAGTGTATAACCTTTTGAGATT + FHHHHHHHHHHHHHCG:1+BDHHHHHHGGBHHHHHGHHHHHHFGGDEFHHHHEEDHFHHHFGEHHHHHHFEFGGHEGGHGHDFHHHFHHHD@DHFFEFBF @read_150_69/2 AAACTGTGGTGAGGTTTTTCTGGGTACTAGGGTGCCAAGTGAGCCAGTCCTTTGTTCCCTAGATGCTATCCCCTTGTTGGTTTTAGAATTCTCTCTTCAT + HHHHHHHHHHHHHHEHHHHHHHHHFHG=GFHHHHHHFADFG>>:FF@.>>6*(9B?@EEFHHEFGHHHHHHHHFHGDEGEFHHDFBG @read_150_71/2 CAAAAAGAGGGATAGCAGAACACAGACAAAATCCTTTGCAGAATAAGTACCTCTATTTTGCAAGATAGTCATCAGCATTAACATCACTTAACATTTTATT + HHHHHHEEEHHHHHHHHGHHHHEED>>96@+>9?6@CGHFHHDAE?84:6EG>>7);8994,@@B?:B7@7@8?FAHHGGGCGADHHHHHHHHFGGF@C;HEGFDFE @read_150_73/2 AGGCTCCTCACTTCCCAGACGGGGTGGCAGCCAGGCAGAGGCTGCAATCTCGGCACTTTGCGGGGCCAAGGCAGGCAGCTGGGAGGTGGAGGTTGTAGCG + HHHHHHHHHHHHHHHHHFHE?DGEBAE<>?CDG<<34BFHHHHFHHHHHHHHHHHHDEGEFHHHEEEHHH@:>DDHHE@4@GGHHEGHBFHHHGEG.48? @read_150_74/2 TGGAGGCATCACATTACCTGACTTCAATTTATACAGTAAGGCAATAGTACGCAAAACTGCGTGGTACCAGTATGAAGGTCGAGACATAGACCAATGGAAT + EDDGHGD8==DFHEB::25EEIG8>CCD67<>CDDEFEE?D=/897.<,CFBEEHHG+9BE=CCB?GHHH77*-+-*5<<CGBHHHHBEHHHHHGDD@@DEBB@A=DHEE=9;.663DEEB>BBFHECA?:=4DEHHHE@AB @read_150_77/2 CAGAGTGCTGAGATATGCCACACCTTGATTGTTGCATTGACCCGAAGGGCTCGATGTTTAGGGAGGTCAGAAGTTGAGCGGGTTCAAAAAAAAAAAAAAA + EHHHEEHFFHHHHHHHFGHHHHHH@8<>@F?ABEE>>6CGHHHHHHHHD?GGGFFFBBBFHHHECFFFABGGHHHEHHHHHHHGHHHHHHFCCA>DGEHH @read_150_78/2 TGTCAGCCTTTATCTTCCTTGACCCATTAACATTTGATACAGTTGATCATGACCTATCAACATTTGATGCAGTTGATCATGCCCTTCTTCCTGAAACATT + GE9@BFFHHHHHHHE@BCHHFHGGGGG6GHHHHHEGGGEECEHHHHHFHHHHHHHHHHHGF89;+2,<<9/=EHHHGF?GGGHHEGEHHCHHHHHHHHH@ @read_150_79/2 TATAAATATAGTGTCTGGCAGAAATTGCTTTATATTAAATATCAAAAACAGCAATCAATAGTGACAGCGATCCATGTATATTAGTATTTTCCAAAGTATG + GGIEEEGDEDFHHHHHHHHHHHDHHFHHHHEC>BHHDEFGHBE>><7;=AHHHFFBCEFFDE@DDHHHH@:>59.>:>>HHG@EBDHHHHDFHHHEFEBG @read_150_80/2 CAGGAGTTTGAGACCAGCCTGGCCAACATGGTGAAACCCCGTCTCTACTAAAAATACAAAATTAGGCTGGGTGCAGTGGCTCATGCCTGTAATCCCAGCA + HBHHHHHHHHHHHHHHFFBDBFGD@:C=FEGE;EHHFDHHHHHHHHEHHFEFE/--8D+8;BBEFGGHHHHHGGGHHHGHHHHFFFEF>CFFBDEBGGDF @read_150_81/2 TTTTCTCAGCACCCTTTATTGGATAGATTGGCCTTTGCCCAATGTGTGTTCTTGATGCCTTTGTTGGAAATCAGTTGGCTGTAAGAGCATAGATTTATTC + HHHHHHHHGFEEDGFHHHHHHHHHHHHHHHEHHHHHHHHHHGGGGFFF@FCA@GGHHHHGHHFEHFEFEEHHH=/AFHFC;8B(4>:?GHHH=EEDA5<, @read_150_82/2 TGGGCTCGGTCTCCTGAGGGAGACAAACAGGGCTTCAAGCAGGGCTTAGGCTGGGGACGCTGTGTGGAGCAGAGTCACTGGCTATTTATAGCCCAAACAG + AB=EDDDDCDEEFHGF@@DFHHFEGGFHHED>>>>66.AE=EDBBGGHHHHFFFFHHHGHHDFGF@BHHHHHHHHHHHHFHHHFGGHFCEGGFE4AEBC8 @read_150_83/2 TAATAGAAGTAAATAAATAATAAAAATTGGAACAATAACGAAACAGAGACTAAACAATACAAAAGATCAATGATACGAAGAGTTGGTTTTTTGAAAAGAC + HHHHHHHHGGEHHHHHHHHHHDD/@DDHHHHHGCCEEFHHFHHHHHBGGGGHHHHHHFGIDCFFDGFGEFHDAE<(125CHGDCC44545)/=EGHFB5E @read_150_84/2 AAGTGACTACAGACATCTGTCCCAGGACAGTAAACAAGAAAACAAGGTGTCACAAAAACAAAAACAGCTGACCCCAGCATACAATCACTGAGACTGAGCC + HHHHHHHHHHHHHHHHGHEEHHHHHHHHHHHHHHHHHHHHHHHHEBBDEGHHHHGGGDHH@DHHH=83*2-'9'':??D?EBDFHHHHHHE>BD5)786>5<96C@HHDDGFHHHGFHHFGCFHFGDGFHGGCCEE=1 @read_150_86/2 TTATTTTTTGCAACTTTGTCCAGTTTTATAATTGTTTTTTGGGGAAGAGAATTTATCAATTGCTTCAGTTCGACATCACCAGAATGACTTCCTCATTGAA + HHHHHHHHHHGGHHHHHHHHHFCBHHHHHHHHEFCEHHHHFFHHHEECDCHGGGGGFHHEBGGEHHHHHHFE(41:@5<9EEHE>D:A.:GGGHBFD@5< @read_150_87/2 CACTCATTCAATGTTTATTGTGCCTCCTCTATGATCCAGGCCTTAGGTGGGTTTCAGGTGTTAGGAGATTTTAACAACTCCGATCGGGAGTAATTTGGAG + HHGHHHHFHHHHHHHHHHFFHHHHHHHHHFGGHHEHHHHHHHHHHHHHHHHHHHHHHFGGDGHHHHH87.-;CC/2,0*6):@EAGFDEEFHHHHHG9>4 @read_150_88/2 TCCGATGTGGTCCTGTGCTCATCACCTTCCCACACCTGCTGCCCTGCACCATTCCCAGGGGCTCCTCTGTGACATAAATTATAGTTGACCATAACTGATC + HHHHHHHHHHHHGGGHHHHHHGHGGC@HHHHH?EHHHHHHHHHHHHF:>7FHHHHHHHHHHHHDACEFHHHFBDC55?4<%-1-5,>BGEEGDH @read_150_91/2 GGTGATAGGAATTTGTCAGCTCCATTATAATCTTACTGATCTGTCATTGACTGAAATGTCATTATATCGTGCATGAGTGTGTGTGTGCGTGTGTGTGTGT + HHHHHHHHHHHHGFFHHHHHCHHHHD=;575EHHFFH @read_150_92/2 AGTGCCAACATGGGACTTGATAGTCCTGGGGAATATGAATGCAGCAAAGATGAAGTCCATAATGAAGAGTAAAGAAGACTGGTAAGAAACTCGGAGTTTG + HHHHHHHHHHHHGEHHHHHHHHHCAHHGGGEHHHHHHFHHHHHFHHHHHHHHHHHHFHHHHHHHGEGGHHHEFE?EB@A.-5?A65433*83.:03CBCB@EFFHHHE;>;3;@@ED6DCEDFGFHHHHHGE@@CFFGEHHHHHGHHHHHHHEEDHFHHHHHHHHHHHHHHHGGHGFFCFHHHHHHGFEH @read_150_94/2 CAAAGTAGGATATGCATAAACTTGGTGGCCATAGTATCCCTAGGACTAAAAAGAATTCATTTTATATCAATGAAAATCCCTTCTTTGTGGCTTCTTGAGA + HHHHHHHGHHHHHHFG=,@D=:BDEEHHHHHHHHHHHHHHHHHHHHHHFHHFHFGHHHHHHFHHHCDDGEEFGHHHHHHDGIEGHHEHGGHH?@2*6:;))1 @read_150_96/2 ATAAATATATATATATAAATAAATATATATAAAATTCAGGGCTTTTCAATTTTTCTTCCCTCTTGGGAATATTAGTAATTTGTAAGTCTCATGGATATAT + HHHHEGGGDDFHHHHHHHHHHHHHHHHHHHHGF=B.@-2>@EFHH>:FDCFEGGHHHHHHHHHHHHHH;><(1>9.@24=CE5>)<=77@A( @read_150_97/2 GCGGCGTGTGCCTGTAGTCCAAGCTACTCGGGAGGCTGAGGCAGGAGAACTGCTTGAAGCCGGGAGGCAGAGGTTGCAGTGAGCCGAGATCATGCCACGG + HHFIEGDFFHHFFGEBD:::*<19=DEBBEFGDEGEHHHHFFHHHHHHHHHGIGGE252726.D=<6-1ADEGECDHHHHHFFDHHFDDGFBBCFFFFBF @read_150_98/2 GCAGTGGCTCACGTCTGTAATCCCAGCACTTTGCGAGGCCGAGGCAGGTGGATCACCTGAGTTCAGGAGTTCAAGACCAGCCGGGCCAACATGGTGAAAC + HHHHHHHHHHHHHGGHHHGFFHHHHFD;F@C:>ECFFD?E@;@EEGHHHFCDD@=GHHHHFHHHHGGBDD:EEBHHHCHE@/*7512/ADDEEHFHHD?5 @read_150_99/2 AAAGTATCATATCTGTACTGGTTACATTGGCCTATGTCTGCCCTCCTTTCCTATCATCACAGACAACTTTAGCTAGCCTTCTGTCTTCAGAATTTTCCAG + HGB:EHHHHBFCGG>?>56GHHEGG?EDDEFDECC;GG@AHHHGGFHCFEFGEEEHHDD=98-4<5-2*5?GHECDEEDEFHHHEDFHFHEGEE@C.9DD @read_150_100/2 GTACTTTGTCTTCTGTTGTACCTTCCAGAGAAATATCTATAAAAGCCCATAATCACCACCACCATGACCACCCACCACTGCCACTGCTCCCACTACTGCC + >+>9>88<98GBBEHHHHHHFEHHBCFHHHHEFFFHHHHHHHHHHHHDHHGEE9HHHHHHFEG6>7')-0CFHHHFDDFFBC@BF @read_150_101/2 ATGTTCATCGGGTCCATGGATCAGGAAGACTCCGGGGTTTTTAGCCCCTTTACCGGCATCTACATGTGGAATTAACACATCTTCTAAACCCAAATCAAAG + GEGDGGGHHHFEHHHHFHHHBCFHHHHHHHHBEGGHHCBEEBHFFGHEDFHHHHGHHHB@FFFEEFHGFGFHHHHHG=DCBGHHEFFFD95*:4568BBD @read_150_102/2 GTGGAGTTGGGAGCTGTGTGTGGCTCTGCATGTGTGTTACATGTGTGTATGTGTATGTATGGGTATGTGCAGGAGCTCTCTCTAGGTTGTAGTCAAGGAG + HHGHHFGFEGGGGHHFFHHHHHHFFFGGGDFFEE@FEHHHHHHHHHHHFHHHHHHHHHHHE/.?;>=DHHEFFHHHHHHGHHD=GGGFDDHHHHFEHHHB @read_150_103/2 CCAAGGGGACTTCCAAGAGATCATCTCAGGAGGCACAAGTCTGGACTATAATGTTGCATTGACCCGAAGGGCTCGATGTTTAGGGAGGTCAGAAGTTGAG + HH=BEHHHHHHHGDBHHEIGHHHHHD=DF?GHHHHHFFEHHGGHHEHHHHFEEHHHHHHHHHGHHHFHHHHHHHHHHHHHGEHHHGG--4*-@>.,7DD@ @read_150_104/2 AAAATGCACAAGATTCTCCAATTAACTGAGGGTGCACAGTCAATTGGGTGCTCATAAATAGGACAAAAAAAATGAAAATTCTTCACTTAAAAAAATTTGG + HHHHGDE@@@@@>?@EE@GHHHEB@CGEGFB529;.802AF?=EB8+<74BEHHFHHHFHHHEFG6/;?@>?2'07D@?>BB3@C@A.FHHFEHEFFFG@ @read_150_105/2 TTAGGCCCTTATTTATCTTTTGATGTTTTATTTTCAATTTTTAAAAGTCAATAATAATTTATAATAATAATTATAGTAAGAAATTATGTGCCTGTAATTC + HHHHHHHHHHHHHHHHDB@@CFHHGHFHHHHBDEEF>FFFFFHFHFHHHEEEGF@EGHHHHHHGGHHGHHD@DDHF?D=D9>@A?=EAAA;59EFEHHHB @read_150_106/2 TTCTGGTTCTCAAAACCTGACTACACTCTCTCTGGCTACCTGGCAAATCGGTTTTTGGTGCCCAGTCATTTTGTCTGTAAAGCGAGAGGCTTAACTGAGA + HHEEHHHHHHGFHF:=FFFDGDGFHHHHHHHHFHHHHHHHHHHEG@?>,AFGFBEFFHFHHHHHHHHHHHHHHHHGHGEGHF<9'77,2,@D5>FHGFFEGEHHHHHHHHHHHHE@?>>>BEGHHHHHHHD?FFEBCGHHHGGDCC?EHHHHGCD?9(.9C57*+5-2/5<*<93@BHHFFE>CC @read_150_108/2 TGAGCTTTTTTCTGAGACAGAGTTTCACTCTGTCACCCAGGCTGGAGTGCAGTGGCACTCCACTGCAACCTTGGCCTCCCGGGTTCAAGTGATTCTCCTG + 26;94BFHHHHHEEHHEHHHHFEEHHHF=FHHBDFGBDDGFBCDGEEEE<;@DDB@FFCBFHHDDEGHGHHFHHH @read_150_109/2 GACAGTTAAGACCATATATTCTCTGAACATTTAAAGAATTCTGGAGTCAGTCATAATCAGCCTGAAAGCTGAAAGATTATGTTTTCTCCGAACTCACACT + HHHHHHHHHHHHHHHDDDFHHHFGIEHHBEEEGHHHHHHAGHHHHGFDEFHHHHHHHFEEFGGFHFHHH@GGGEDHHHFHEBCCB@E.:'CED;FEF.<4 @read_150_110/2 TAAAATTATGACTGTTGACATAACCTTTAAGGATTATCCCTCAGATTCATGATGAGGCTTCAGTCATCTCTGAGCCCTTTTCCTTACACCCACATGCTAA + HHHHHHEB=>)24@HHHHHHHHHDDHHHHHFFHHHHHHHHEEEBE=BB=AFFHHHHHHHHGBHGGGHG+.)89CEFHHHHHHED7'*;,=FGHFFDBEGG @read_150_111/2 ACTGCTGTTGCCCTGGGTCCATCTGCCATCATCTCTCACCTGGATTATCTCAGTAGTTTCCCAACTGGTTTCCTTGTTTCCATTCTTGCCTCCTTCTGTC + EGEE@@@CDEHHHFHGHHHHHHHA8=DDB/9.DEDGEBD7CDEHHHEAAEHHHHHHHHHHHHHHHHHHHFEBCEEFCDGHHHHHF?B@5><=>:67.DEEFHHHHHHHD:4CDC8=DGGBCCBBE@CHHFHHEHEGGGCB@@@GGHHFHFHF<:@FCFHHHHC @read_150_113/2 CGTCTTCTGAGCCCTCCAAACTATTCCAACCTTTGCCTGTTACCCAGTTCTAAAGTTGCTTCCACATTTTTGTAAGAAACTCGGAGTTTGGCCTGCGAGG + HHHHHHHHHHGGGGGGFFEFGBEHFC@E;@<>50BHHDGCGDGHGFFHHHHHHHGHHHHHFGHHHHGGIGFCDDHHHHHC?57:@B5GHHEFHDCBF?=? @read_150_114/2 TCAGGTGGGTATATATGCCACTAATTTGTTTGATTGTGTTTTTTCCTTGTTTCATTTTGTTTTGGCCAAGTAATATCCTATTGATGGTATGACGATCATA + FGGHHHHHHHHHBGGHHHHHHHHHHHHHHHGGEEBDEHHHHHHHG.8:?@;:,7BFDFBDHHGHFG=418EHHHEHHF8<9;.74672@@FHB.,-4=<( @read_150_115/2 CAGGCATGGTGGCACGTGCCTGTAATCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATCACTTGAACTCAGGAGGCAGAGGTTGCAGTGAGCCGAGATGA + HHHHHHHHGGHHHF.A?C@;DGHHHHHF=BHHHHHHEEHFHHDDE>0<,598BCHHGFGFGHGEEFHGGB@AGGFHHHCEEEBGEEFHHFFBDDD78-(4 @read_150_116/2 TTCTGAATGCAAGAAGCAGCACCCTTACATACTGCCTCTTTTCTCTTAAAGGCTAACTCCACCAAAGACAGGGAAGAGAAAACGAATAAATCTCTCCTAA + GGF;?EBGHHHHHFFGHHHFG@CHHHHHHHHHHHHHHHHHHHG>(')).?>>B@?EDEGCEBA<:69=EE5;:1===FF @read_150_117/2 AAAAACTTCCTAAAAGCATCAAATGGCCAAGGCAGTATGGAGTTACTGGGCTGAGATCTGGAAAGACTGGAGCCGAGAAAAGTAAGTCTGTACTTGGCTG + HHHHHHED@4/DC;8>?BBBGEA?C?HHHCBEEHHHHHHHHHHFFFGGHHHHHHFEGHHFBHHHHDA@EHHHFBEHHHHHHFHHFFHH9EHHHHEBFCHE @read_150_118/2 AGAGATTGAATCAAACGTGGTGGAATTGAGAAGCAGCATTGACACTCCTGGGAGCACACTCCTTCCAGGAAACAACAAAGGAGTCCTCTTGTGGTTGGTA + FEEEDDHHHHHHHHHGGHHHHFFGGFFHHHHHHHHHHHHHEFDDD@6A;<87,6HG @read_150_119/2 GGACCCACTCAGTCAAGATCACAGGGTGAGGGGCGTGTGGGCAGAGGGGGTTTGGGACAGCAGGGTTTGTGCTAGGGGCTCTGGAGCCTGCCTTGGGTTC + HHHF=GGGFFHHEEFEE.>9>117:.>@CBGGFG=GBG=DGHHHHHHHBB26;<==GCA9>2B6CC58>.9:4,)%. @read_150_124/2 GAGGAAAGACCTGAGGCAGTTCCAGGAAGTGCCAGGAGGCCGATGGTGCTAGAAGGAAGAGGAGCATGGTGAGAGTGAGGTCAGAGATGAGCCAGTAGGG + )93:FHHHHEEBEFHHHHHHHHHGHHHHHHHHHHHHHHHFBBBDDDDHHHHHHFFBGHHEDHHHHHEHHHFCE??EFEEGHHEEEC?DDDHHHHFFE9F? @read_150_125/2 CATGACAGTGCTGTCCACATTGATCTTGTTTTAGAAATGGGATTTTGAGGTACCGTGAAAGGTGCGCTTAGTGGCATATGCGTTAAGAGCTAGGTAACGG + HHHFHHHHHHHHHHHHHHHHHHHEFHHH?DBD?<75>DFEHHHB?=C:<=HHHHHHHHHHHGGHHHEBEFHHHEEEFHHFDHFH?DDFB=CC><6;>ABC @read_150_126/2 GCTGGTACTACAGGCACACGCCACCATGCCTGGTTAATTTTTAAATTTTTTGTAGAGACAGGGTCTTGCTATATTGCCTAGGCTGGTCTTGAACTCCTGG + HHHGEHHHHHHHHHHHHHHGHHHFHGF=FHGHHFDDC@AE;ADEE:.<;B8:?A8AACFFHFFGGFFHHHHHFFFEEHEFHDFDDHHHHHHHF?>EGHHHHBHHHHDHHGHGFBHHHHHFHHHHHHHHHHHFGGHHDHHHHHHHDFEFFGHHFFHBHGGGHHHHDEEEFF @read_150_129/2 GTGTGTGTGTATGTATGTGTGTCCATCTGTGTCTGTGTGTGTGCCACTGAGAAGAAGAGGACAATACAATTTTTCATTTTTATTTTCCATGTTTCTACAT + HHHEGE=DCF@C=GGBFFHHHHHHHHHFEBEEEE?GGHHFGEFFFHHGGFHGHHFDGHHHBD.-24FEEEF7)776.5:AGHHHHHHHHHHFHHHEFG@@ @read_150_130/2 AGTCATCTCCTATCGAGTAGTAGCAGGATACTTAGCAGTGTTGGGGTTAAACCTTCCTTGCCTTCAAGTTTGTTCTCTCCAATGTTAGCAGGCTCAACTT + HHHHHHFFDG8@BFFHHGHHGEC?@DHFFHHHHHHHHHDD9DHHHHHHHHHHHHHHHHHEFHHHHDHHHHGEHHHEHGDD>+.5/.35=?D@EDEEHHHHHHHHHHEFHHHEA:?GDGGFI@EHHHFFFHG5;@CC5(,+GHHHHHHHHHHHHHGG@?@A@FFHFFD8DAB @read_150_134/2 TTGAGGGCTTTATTCTAAGGGGTCAGTAGTCCTCAAAAGGTGACCACTGCCCAATTATTGCAGGAACATGGGGATGCTGGTGAAAAATGAAATTCCAGGG + @CECDGGGHGHGGHHHHHHHHHHHHHHHHHHHHHHHHFHHHHHHDED;;*057@@@@=FFFEEDB<125>EGDB?FG@@GGBGDEBGG?4>A,4,%,38; @read_150_135/2 CACAGGCTATATCCTAGTTGTTTAGCCCCTTTTGTTTTTCACTGCATAAGAAACTCGGAGTTTGGCCTGCGAGGTAGCTTGGGTGTTATGAAGAACGGCA + HHHHHHHHHFHHHHHHHHCBAHFEGA=FHHHHHHHGGFHHHHGGEGEGFHHHHHHHEDGGB>DDD685*8994<=HH7-3?EHHHFGFEHFFHHHHHHFF @read_150_136/2 ATTGGATTTCTCACAACTTGCATTTTGAATATTGTTTTCCAATTGTTTTGTGGTCTATACAATAATATTTGAAAAACACAACAGCATAAAACATTTAGAA + EHHHHHHHHHE2<@.>CGGHHHHEEEDEEGBEHHHHFEHGHHHFFFEEDEGGGGFHHGEEBBFHHHHDEDDIHHHHD?.C>;5:)5<4@DBHHF8DEFFF @read_150_137/2 GTGGATAGATTTAAGATATATTTTAGTAAAGTTCTTGTCACACAATTTGATTTTAGATTGAATACAGGATGAGATCGGGAGTAATTTGGAGGCAGTAGTT + HHHHHHHHHHHHHHHHHHHHHHHHHHGFHGBHFFDE@DDDGHHHHHHHHHHHHFFEE@@DDB= @read_150_140/2 CCTTCCCTGAATCCCCCAGCCCACAGCGGCAAAGTCTTGGTACTCAAAGTTGCTTGTGCATCTTTGGTATCATCCCACTGCCAAGCACACAGGTACGCAA + HHBGHHHHHHHHHHHHHHHHHGFGGHEFHB=HHHHHHHFGFFFB/;AD9CGHFB7>&9C @read_150_141/2 TCATGTACCCAGTAGTCATTCAGGAGCAGGATGTTCAGTTTCCATGTAGTTGAGCGGTTTTAGTGAGTTTCTTAATCGTGAGCTCTAGTTTGATTGCACT + HHHHHHHHFDHHHHHHHHHHGGIEGHGEFGFFHHHHEIEBFGGHHHHEHHHHHHHHHFFGEEGHHGIGBEHDA.,<1&161?AEFE=5:CFHHHHEA=A; @read_150_142/2 GACACAGCGCCAGGTCCACAGCCAACACGGGCAGATGTATACTTGTCTTGTGCAGTGGAGAGAGCGCTCGTCATTGGGAATGCACGTTATCAGGATGAAC + FGGGGHEHHHGG@FFHHHHHHHHHHHHHEBHGGFHHHHHHHC;DDF<9:89;/EGHGGHHHGGFGD?GHHEFFC;;GFADCCBEAADDD8@CHHFFFHC@.B. @read_150_146/2 TGAGCTCTCCCTCTCCTCCTCCCAACCCCCAACTCTTGCCTCCCACAGACTCATGTGGACACTTCTCCAGTCATAAGAAACTCGGAGTTTGGCCTGCGAG + HHGHHHHHHFHHHHHHHHHEFGHHGHHHGGHHHHHGGFHHHFCFEEHFFHHHHHHHGGDFHHHGGDA9;E5-8;FE?=AEFBFHHHHC:DEFHHFFDDFC @read_150_147/2 GTTCAAAGTATTTCCCTCTAATGTTTGATCTACCTGTCTTTCCCTTCTTCTCTCCAGTTCTGTTTTTCTTACCGTGAAAGGTGCGCTTAGTGGCATATGC + HHHHHHHHHHHFFHHHHFEEBHHHH36FBIDEIEEBHGHHEGHHHHHHHHHHGFHFACD<8=DFHHHHHHFHHGEBGGHHHHE@?CEFGGDDDDBHHHDF @read_150_148/2 AGGGAGAGCTGTGAGAGGACACAACCTGAGTGTTTGTTGGAGCACAGAGGAAAGGCAACTGGCCTTGTCTTGGAGGATCCAGATGGGTTCCTAGCAGAGA + HHHHHHHHHHHHHGHHHHHHHHG?AFFHHHHG@@;59E@BCEHHFHHFE@@BB@@GCBGGHHHHHHFGFHHHHHHGGHGDEHHEEFHHDCFCFHHCDFFH @read_150_149/2 GGCAACCCTCACAGGTTACTAAGGGGGGGTGGCTAAGTGTCAGGTGCAGCTCATCAGTGAGCAAGGCCACACTGAGACAGGAGCCTGAGTTGGCAAATTA + HFGFDHHHHHHHD?=HHHHHHHH?8.BFFGHHHHHHHFHHHH?EC/BBBEBGHHGHHHHFHHHHHB6.,6>8/,478>5@;(90&&4ECC@DGGHB;;6= @read_150_150/2 AAAATGTGGCACATATACACCATGGAATACTATGCAGCCATAAAAAATGATGAGTTCATGTCCTTTGTAGGGACATGGAGATCGGAAGAGCGTCGTGTAG + EGEHHHHHHHHHHHHHHHHHHHHHHHHHBBEEGEHE8EEHHHEHFHFHGHHHGF;CCBFGEEEDDGEEE:+0,CFHHHHHHHFGA=?C@A3*5'+3,34* @read_150_151/2 ACATCTATTTCTAAGGCAGTCACTCCCTCTGCACATCCCTCCTATCAGAGTAATTTCCATATTAAGAAGGCAGAGAATGAGAGGGAATGCAAAATCCATT + =54--=:6@@@BGHHHHHHHHHG=D<<>AFCDHGEGHHHHHHHFHHHFHHHHHEGFHFHHGHHHHGE;+'B=A36(7.'7(-*-3%.11-<=8GFFFHFH @read_150_152/2 GGATCCCAGCAAACCAAGGTTGAATTTTGTATTTTATTTCCTATGTTATATGATCAGTGGAAATACAGTATTCCATTGAAACAAAAATGATATTATAAAA + HHHE@EHHGHHHHHHHHHHGEEGDCE@EHHHHGFHHHHHHHHHHHGHHHFFGGHHHHHHHHHHHHHHG>B62?@EHHHHEFFHFHFCD?EGBF7>@DCGF @read_150_153/2 TATCACAGATAGTTTTTGTTTCTTTTTTCTTTTTTTCTTGGTATTTCCCAAATTTTCAACAATGAATATGTACCACTTTTCTAATCTGAAAAGCGACCAA + HHHHHHHHHHHHHHHAB7)?8.FHHHHHHHGE8GHHG9--,&&<>=EEHHHHHHHHHHHHHHHHHFEHHHHHHHFHHHHHHGG7350%2-;93 @read_150_154/2 CTAGGTCCGGATCTTTGCACTTGTGTTCTCTCCCAAAATAATGGATTTTCTGTGGATTTTATTTTGGAATAGGTATTTCTCCTATGAAGTCTGATAAATG + HHHHGEEB?FGGGHEFE82;BGHHDFHHHFEEEDHHEFHHHHHH>=?DBDHHHHHHC99*7@;DCEFEFBFHDCEHHF:76;77C=FEGFHHBDHFGBFH @read_150_155/2 ATTTAAGGTTGCAGTGAGCCATAACTGCACCCCTGCACTCCAGCCTGGGTGACAGAGGGAGACCCTGTCTCCAGAAAAAGAAAAGAAAATTTGGATTATA + HHHHHHHHHHHHHHHHHHHFEEEFHFHHFFFGHHHFGGGCGFHHHHHFHHHHHHHHHHHHFEHHHHHHGG?7932'9;BEHEHHDHHHCFHHEEGHB;:3 @read_150_156/2 CAGCACCATTTATTAAATAGGGAATCCTTTCCCCATTGCTTGTTTTTCTCAGGTTTGTCAAAGATCAGTGGGTTGTAGATATGCGGCGTTATTTCTGAGG + HHHHHHHHHHFHHHHHHHHEBEHGF@B?GEBHGD*3CEFEHHGGFEBEE6GGGHGHHHHHHHGED:?:,'&+,AFDDEFE@4)=<:DEE?2EEBCGGEBH @read_150_157/2 TTGGTGAATCAGCTTTGAAAATGTCATATAGGCCTCATATTCAAATTGATCTTCAATATTAACTGACTCTTAAACTAGTGCAATTTCTTCATCAGTCGAT + HHHHHHHHHHHHHHHGGHHHHGGGHHHFFCAAE/*9.>DCHHHHHHFFFFHHHHHHHHH@@?&,-'2DFHGFHHHHHHHAAFFDBC.:DEHHF;?FA,7% @read_150_158/2 GCAGCCTCTAGATGCCAGAAAATGCAAACAGACAAATTCCCCACAGCACATCCAGAAGAAACACAGCTCTGCCAACACCTTGATTTTAGCCTACAGAGGC + DHHHHGHHFFHGGEDBGHHHHHHHGEFGHFGGGHHDIDDE;>9=FBDEFHDIIDECABEFFHHHG? @read_150_160/2 GGTCATTTTTGCTGCGGCAAAAACTTGCTTGAAAGTGAAAACATTTGTCCATGATTCATATAATTGTGCTAGAGGTTACAGTTTGCTACCATGAAGGCTA + GGGHHHHHHHHHHFHHHHHHHHHHHHHHHGBCDHHGHHFCCEGHFHHHEHHFHB @read_150_161/2 TTTTAGTAAGAAGTTATTAAATGTATGAAAGGCTATTGGGACTTTAACTCTTCTTCTGTATAGAATATTCACTAAACTTAGTGGTAGAAACCTTTTTTTT + HHHFHHHHHHHHGGFF<<-;ADDDHHHEHHHGEEB=B?FFGGGEBFFFFHHHHHHHHHHHHHHHHHHHHFHHHEHHHFFC,<5DF=EB89478EA9*8=: @read_150_162/2 GTACTTCGAGGCAGGGATGGATAAAACAGGAATGTATAATGAATGGCTTGGCTAAGTATACATATTTAGTACACAATAGGAGGAGTCATGAATATTTATG + HHHHEGHHHHHHHHHHHGHHHHHHE@CHHHHHHHHBEFFHHCHHDCCDD=DDD;=CFGGEEHHHHHHHFFGHHFGFHHHEEFHHHH>9EGE?:GGEC>CFFHFB;DEEF?BFFE@BBACDCFEGGHHHHHHFGHHHHHHHFDDEHHGACFDDEHB@@>=9,,. @read_150_164/2 CTGGGTTCAAGCAATTCTTGTGCATCAGACTCCCGAGTAGCTGGGACTACAGGTGGGCACCATCACACCCAGCTAATTTTTTATATTTTTAGTAGAGACG + EHHHGFHHHHHHHHHEBEFGFDBEHGHHC@6,.+FGFFEBE?BHHHHGGFHHHHHHHHHHHHHHHHHHEHHHHFHEHHHHHHHHEE@:9=FD31/<.<<, @read_150_165/2 TCTGTGTGTTCCATAATGCTCCAAAAGGCGGTTTTTCATCACAGTAATAACAGCTACCATGCATGTAAGGCCTATAAATTAAGTGTTCTGAAGTATTTCA + HHEBCGHHHHHHD@BGHHHHHGH@FHGGGEDCA-AEHHFFEBEFFHEFEBBCDHHHHHHHBDDDGHHGFHHHHHHHHHHHHFGBFBDFFHHGDFHHHHHF @read_150_166/2 ACAAGTAAGCAAATAAATAATTACATGTTGTGATTAAGTGCTATAACAGAATTAACAGAGTGACTGTGGAAGGGCAGTCAGTATGGCCTCTATGAGGAGG + HHHHHHHHHHHEGFHHHHHHHHHHHHHHHFHDBFFHHHHHHFFHDGHFEGHHHHHHHFG838B9<@CHHHHHHBE?FGGFGGGB?BEEE7=BGHCDAGGG @read_150_167/2 TGAACAGTTTGGTGTTCATCCTGTCTACCATCCCCCTCAAAAACAAAGAGACAGACAGAAAGAAAAAAAAAGCAGAAGTTTTGCTTTTCTAAGCTACGAG + EEGEEFBHHHHHHHHHHHHHHGHHEHHHHHGGGGHHHFHHFFFEEEEFB==AHHHHHHHHHHHFEHHGA@HHHHFHA>:@EAGGEFGBFGGFEBFFHHHHHHHHHHHHHHHBEEB==HFGDDDA7EGEGF0BBGBD @read_150_169/2 AAATATGAATGCCCTTTATTCAAAATTTGATGGGCATTTCTAGCTAATGTAATAAATATAATAGAAATCAGAGGCTTAGGAAGTAGGAAGAGGGAACACC + HHHHHBGGGDEDDB?BGE=CHHE=DGAGGGHHHHHHHHHE>GHHD=*8>5@GC @read_150_170/2 TGATTGTAAAGTCTGCAAGTGGATATTCAGAACTCCTTGAGGCCTTCGTTGGAAACGGGATTTCTTCATTACCGTGAAAGGTGCGCTTAGTGGCATATGC + GGFGGHHHFGGFHHHHHHEHHHHHHHHHHHHHHHHHHBHHHFGHHHEBC?3913,?BFGHHHGHHHHHFHGHHB%*-65DFHFHHHGGHED<,ECCEADB @read_150_171/2 CAAAAATTAGCTGGGCGTGGTGGTGCACACCTGTAGTCCCAGCTACTCAGGAGGCTGATGCACCAGAATTGCTAGAAGATCGGGAGGAATTTGGAGGCGC + GGGEFHHHG=GGFHHGAAGGHHDDGHHHHHGBFHGHHHEBCDHHHHHFFGHHHHHHHDFFGEHFHDB791933))/6>5AC?@G6%%;<<:792>@E9)' @read_150_172/2 CGGTCAGGCTGGTCTCAAACTCCTGACCTCAGGTGATCCGCCCCACCTTGGCCTCCCAAAGTGCTGGGATTACAGGCATGGGCAACAGCACCTGTCCCTG + HHHHHHHHHHHHHHHHHHHHHGFHHHHHHHEGG75<<*BHFA;36-12;;5:968BDD@@@85@FHHHHHFHC@/A.-1)&+),==<=EED?;?9DD>HH @read_150_173/2 AGTTCCCTAGTGGCCAAAGTAAAAAGGGATGAGTGGGCCTTTTATCCCACTTCCATGGGAGGATTGCAACAAAGGCCAAGTAAGATCCTAGATATGAAAG + HHHHHHE@FHHHHHHHHHHGEHHF=)93336FHHHB/.>>>CDBA@EGFHFFGD=?=?EHHHFAHGHHHHHFFEFFFEF @read_150_174/2 CATGTGAGATATGCCTTTCACCTTCCACCATGATTGTGAGGCCTCCCCAGCCATGTGGAACTGTTGCATTGACCCGAAGGGCTCGATGTTTAGGGAGGTC + HHHEE:IGHHHHHH?BAAEA:FGG@CDGGHHHHHHHHHHHHHBEE?EFGFGDF@FGGHHDGFHEEF>6+5?6?EEB @read_150_175/2 GTGTCTTCTTAAAACAAATCTTCTCTGAGAATTGTCTTTCCACTGTTGCCTAGACCAGTTAAGTATACAGGTCATTTTCTTGTTCTTGACAGAGTTTTGG + E8;:@ABDDAFHHHHHHHHHHHDHHF<>>9<:66=@DCFEEEEGFBFFHHHHHF=EGGHHHGG@DE5=EF;.:A=FGHHGHHHFB80CHFFHEBCD?EFC @read_150_176/2 ATGAAACTTTCTGCTTGCAACTCTTTGCCTGGAGAAATAGTTTCTTGAGAAAGTATTTCAGCAATCCTTAGAATTTTTTTTAATGTTGTCACAAAATATA + GBGHHHHH@@BGFHEHHHHHGHHHHHHHHHHHHHHHHHHHEE@DECCIFF=@<>BD.=.@+--2'38B=@@GHHHHHHHFF=DFHHCEDDC?EBBFBFFG @read_150_177/2 ATGCTTGTAATCCCAACACTTTGGGAGGCCGAGGTGGGTGGATCATTTGAGGTCAGGAGTTCGAGAACAGCCTGGCCAACATGGTTAAACCCTGTCTCTA + HHHHHHHHHB-:ACEGG?>>-@;+:CHHHHHHHHEBFHHHHHHHHHHEFEDFGHHDGEEIEHHGFHBE8CGHHHB6?5EBGHGFHHHGHEHEAHHG?1%1 @read_150_178/2 TGGGGCCCTGACCAAGCACGCCTGACTCCAGCCCCATGAGGAGCATCCTGTCTTGGTTCCGTAGGGATCATGGGTCCTCTTACCACTGTGCGCCAAGCCC + HHHHHHE@ACGGGGGHBB=GHHHHHHFFFHHG@@HGGGHHHHHHHHBE@<9??:>=?:9>D@DGGHHHFCFE=>FFDDDFE74?DBBB-BEFGGG/BEFFHAFFGHHHHHHHHHFHHHHHDHHFEE;?.<>4<,9<5+686GHHHHDGGFFBFHHEHHHFBF?ED>6<;.851?EEC @read_150_182/2 GTTCCAACTGTATGGAGGGACAGTCAATTTGAGCCCTCATCTTGAACAGCCTCTAGGTTATGTCTTCTGGCCCCCTTTACCGTGAAAGGTGCGCTTAGTG + HHHHHHHHHHHHHFGEFEHHHHHE;.;EH@DDDHHFFFHHHCDEHHHHHHHHHBCEHHHHGGGEFHHHFFEEEFHFHEHHFHHHHHF<EHHHHFHHFFEEHHHEEHGF?FGEF;/3BDGGGEHHHHGDEGGGGEFH @read_150_184/2 CACCAGAAACCTTGGCAAGTAGCCACCTCTGGAAGTGACATGTAAGCTGAGAACTGGATTGAGCAGGAGCCAGCCCCTAGAGTGGCAGGGTTGGAGTGAC + HHHHEFFHHFGFC@;2/B;?BGFHHHHHE<8BEEHHHHHHFHFHHHHHH=EFDHFEEDBGHHHEB>BEGHHGDDDBEGGHHHHHHHHGC?8=DFD:=G:. @read_150_185/2 TACTCTAAATGGATAAAGGGTAACTGTCCCTGAAATGAGTTATAAAACCCTCATTTTACAAAATAGGAAAAGACCGGGAAAGGTGCGCTTAGTGGCATAT + GGFHHHHGGFGFFGGHHHHGFHHHHHDHHHHHHHHHHHHHHHHHDD4::>:9*??FCA?5>&39.))+=HEGHHFFHGEHHD<55*ACGB @read_150_186/2 GAAGCAAAATGAGGTAATGAAACAAGAGGTAAATACAAATGGTTGAAAGAATAAGACAGGTAAGGAAAGACAGAAAAAAATTGTACTTAAGGAAGCAAAG + @EFFE=@AGHHHEBFFD@GEHGGGGGGEHHHHFHBA?>EEDGHHHGCC@?41=;98?A<96??ECGGGFFFFHHDEEGFFGHGHGFCFHFC>179489AA @read_150_187/2 GATTAATGCTATCACCTTTTCAGGAATACAGGCTTGAAAACTGACAATCCTAGTCTCTCTCTCTCACCCTCGAAGCCAGTTGTTATCAAATTCTCATAAT + HHHHHHFGG@CHHHHHHHHHHBCHHHHGGFEHHHHHHHE==FHHHHHHFHFB89>FF>=FBEBGEFED01+7D.<+8995361,, @read_150_188/2 CTTCAGAGTTTTATAGTTTTCCTCCTGTAGAGCTTGTACATATTTTTTTAGATTATACCTAAATGTGTTTTTTGGTGGTAATATAAATGTTAAATTATTA + FHHHHHHHHHHGEGE=93;47>G@.11.<9**177CFFFFHHHHHEEFFHHHHHHHHHHHGGHHHFHGG@DIB8AGDDED<:.;79=DGFEDGGGFEGE? @read_150_189/2 GTATATAATGCCCATGTAAGAAGCTTCTACTTTAAGCAATCTGAGCCTTCTCACCCAACTACCTTCTTCTACAACACAGCTCATGACATCCTAACTTCGC + FEDDABGGEEEEHHHHHHHHHHHHHGF@BBDFGHGFFGEEEHFHHEHHEE@CEEE7)**6;D:,;48@C7'7=EG @read_150_191/2 AATTGTGTCCTGTTATAAATGTAAACAGGTTCTTATGGCACTTATGCAAGTAACTATATTGCCATAAGTTAAGCATATTCATAATAGTTTACAAATTCTG + HHHHHHHHGG>BEG9>.67A@AA8DHHHHGHGGEEGHHFHHHHHHHH=><::5861=9EE9>CAHHHHHGBE??DEFFHHHFHEE;ADBGHHHHHHHHHH @read_150_192/2 TGCGGCACGCAGGGCATCTCCCAGCTTCAAACACACTGTCTTCCCATGAGCCTCTTCTCCCCATGCCCGGCTCCCTCTCGCCTCACAGACTGCTTGGAGA + HHHHHHHHHHHHHHHHHEG@@GHHHHHHFFHDFGHFC.A+?GGGBFHHHFDGFEFFHHHHHHHGB@BC5;@ @read_150_193/2 TAGATTCCAAGTAGAAAGTGACTTGTAGGAAGTTGGACTCTTACATTACCACATACTTGAAACTTGTTAAGAAACTCGGAGTTTGGCCTGCGCGGTAGCA + HHHFHHHEFHHHHHHHHHHEHHHFGGHFFHHHHHFCGHHFHHHFC7=EBFHHHHG5-?GE.=//EFHHHHHFHGDHHHEHHHHD(3FGGGFC4EHCCC/- @read_150_194/2 CCGCCTCCCGGGTTCAAGCGATTCTCCTGTCTCGGCCTCCCGAGTAGCTGGGACTACAGGCGCCTGCCACCACGCTTGGCTAATTTTTTGCATTTTTAGT + HHHHHDDE@B8ECDDDEHFBBB>HHIFGGHHHFHHHDD@@HHHFDFA??@6<>;?E=881-2>=GHGCFHE@DDDDDHHHFF?@,295?>:;FHHHHHHEGEEHHHHHFHFHHHE6BFFFHHEGEABC@68349 @read_150_196/2 AGAAAAGTTAAACTCTGAGAGTTGAACGCACACATCGCAGAGCAGTTTCTGAGAATGATTCTGTCTAGTTTTTATACGAAGATATTTCCATTTCTGCCTT + DB>9-1.AHHG?GHHHGGHHHHHHHHEHFHHHHHHHHHHHHDDEHGGGGHHHHHGEFFDFFDGAAEFHHH>?DEBGEGHHHHHHEAADGHHHHE?FA=4/ @read_150_197/2 TCCAAGGGACACCATTCGCATAGAACACAATGTACAGGGAATACATTTTGCAGTACAGGCCCTGAGGCCACTGTTCCTCTGCCACTGCCACAACTGTGGA + HHHHHG?EGGGHHHHHHHHHHGHHHFHHHHHHHHHHHHHHBBGGH@BBE>@C@EGIDGGHHHHFGCFGFH?5.66F+)7.82(-2B745)7079'55DBFGGHH?.=A<464 @read_150_199/2 TGCAGTCTAGTCCAACTGTTTCTCCTTTCCCCTCTGTCCCTAGGAATCTTCCTTCAGCTTCTTTTCTGCTGGGGCTTTAGTATCCTTCAGGTGACCCCAC + HHHHHHHHHHHH@GB-9713.9:;AECF@DEGGHHHHHHHHFGACFFFFHHGFGGHHHHHHHHHHHHHFHHHHHHE.DDAAFEEFBCFFHHCEFE8>>;= @read_150_200/2 TCCTTCAGGTCTCTGTTCCTGTATTACTTCCTTCAGGGAGCCTCCCCTGGCTGCCCAGTTAGGAGGTCCCTCCCTGGGTTTATATATCACCCTGCATAAT + HHHHHHHHHHHHFGFHHHHHHHHHHEGGHHGHHFE:;:=4;?3?=+1>D6@GGGHHHHHHHGHHBGBFHHGB=;85?EFAAA>D9>ABGGGE @read_150_202/2 GCCTTAAGCAAGCTTATTTTAGTTGGGCAAAGGCCTTTCTAGCCTACAGTTCACAAATAAGACAGTGAGTTTTAGCTGCCTGAGTCCCCTTTATTAGGTG + HHHHHHHH;FFDCDDGHHHHHHHHB5*3609B@?EGD@GGGBEEEHHHHHFGDDABEGFGHHHDGE730/A89:06<:.+'>)+=DBEFFCGB<>7 @read_150_203/2 AGATTACAGATGTGAGCCACAGCATCTATCCTATAAAACTCTTTAAAGAAAATAGGCCAGGTGTGGTGGCCTATAATCCCAGCAATTTGAGAGACTGAGG + /?FFGHHHHHHFCHHHHHHHFGCFG>8EFGGHHHHHHHHHHHHDEBE8EFHHHHHHHHHHGGHEED;.GGHFFFFFFFFHFB>EFFAFEEBBH<39/8DC @read_150_204/2 GAGTTCTACTGGGCTGGAATCAGGTTGTCAGCGGGGCTGTTTTTTCTGAAGGCTCCAGGGGAGCCTGTTTCTTACCTCTCCCAGTTTTTAGAGGGTGCTA + HHHHHHHHHGGFHGEGHEHHHHHHHHEFHHFADDHHGG8?GEGGGHHH=EIGHHFHEHDDHHFHE:>:89DDCD:*18<-673;GGEEHBHHEHHHHF97GHHHHHHFEB?>:@:7(0:AC>< @read_150_207/2 TGCCTTAGCCTCCCAAGTAGCTGGGACTACAGGTGTGTGCCACTATACTCAGCTAATTTTTAAAAAATTTTTTGCAGAGACAAGGTCTTGCTCTGTTGCT + HHHHHHHHHHFHHFEGBBHHHHHHHHHHHHHHED8HHHHHGGHHHHFHFEDEHHHHHHHHHHHFHHHHHHHHHFFHHGBGH=4A@EEHHGGEEE+7DHFG @read_150_208/2 TTTTTAGCGTTGTGAATACTTACATAAGCTGTGTAGAAACACATCTTCAAGTGAAGATATTTTCTCCATTTGGCAGAATATGCAGGCTCCAAACTGGATA + HHHHEBDEFHHHHHHHGFGGHHHHGHHFEHHHHHHHBEED>@EBGGCGFE?9<<9BHF=ECDA>5:@??BE;@<;>9FFBFHF/D?FHGA.8;CDEEHGC @read_150_209/2 TGGTCTGTTTTCCATGTCTAGATATTAGAAGAGAAGGCTCAAACATGAGGTTACTCTCTGTAGTGCAGTGGGAAAGAGTATATTCCCAGGGAGCCTGGCA + HHHHHHHHHH@@.795>BHGHHBECBBB==DGGHHHHF5;DDDCB(B@@1/(01=EGHHHHEE@@<<:;@D>>;GFFBFHHHFHHEHHFGHHHF>?FEBG @read_150_210/2 CGTTGTAAGGAATTCTAAATCCTTTCGGCTGCAGCTTTCAGCAGCGCCTGGCATCCTGGCGGATGAGAAAAAGGGGAAAAACAGCAGCCCAACTTGAGAA + HFG/===DH?<<<<6=GAGB;/&53@DDEBFGFEGGGDBDEHHHHHFEDEHHHHHHHHHFEHHHHHHHHFHCDEECFHHDBFF@9FGGFC<;@<26.39H @read_150_211/2 TTTCTAAACATGCATCAGTGCCAATGATAAACAGTGCTTTCCTCGAACCACATGATGTGAAGGCCAACTACCAAATTTTCATTAAATATAAATAAAAAGT + HHHEEFHHHFHHHHDFHHHHFEEEE?DFFGGGGEEF=CFFGFFD6'>1<>8AFGGHHFFG<-268>8DEHHHB>:EED;.FBFFFEHFEE>FEE>E44%& @read_150_212/2 AGCAACTAGCACAGTAACTGGCCTATCACAAAACCTTAGTAAATATATGTCAATGTAATGGAAGGGCTGCTCTGGTTCTAGCTCCTCATGAAAACAAACA + HB@EEHHHEBEHGGGEDGEHHFGED5.FHHHHHFGHHHHHFFHHHFHHHEAGGEEEBHHHHHHHHHHHHHFGGFHGDH@:DHHHHDDCAEHHFHB@,C.D @read_150_213/2 TATCCATAGCCCTACAATTTTTTTTCAGTGTGACTATAAAGTAATACATTTTCTCTTTTTTCTTCTACTTTTTAATTTTACTTATTTTCAAGGTTCTTTT + GGHHHHHHHHHHHHFBGGGEHHGGEFFFFHHHHHHHFE@.AHHFGDFHHHFE8=:=2.>:7<=CFHHFFHGGHHGHHHHFFFB8:68*?DHFHHHHHFDHHHHFEDHHHGEG<>339AD8>397@@@7CD><=CG=G=D-CDEFDD7CGHDAFFG7(<.*:?=>FHHHFFB @read_150_215/2 TGGTAAGAAAGGCAAATTCAAATTTGGAAGAACAATGTGGAATATGTTGTTTTAAAATTAAACTTTTATTTTTGAGATAATTGTAAATGCACATGCAGTT + HHHBGEGHDEG@EGHHHHHHHFF@;G86<6-*>@DEF?EEGGFFHHEHHFGED=>EHHFEHHHHEHHHHHFGHHHHHGD,+=GG;D,0:DDDCDFHHHDE @read_150_216/2 AGTTAGCCCTTTCAGCAAGAATGTATGTATCCTTCTTCTAATCTCCACCACATGACTCTCTATGCGTCTTTATCCACAGAGGTAGATATTATTCTCCATC + @@8?GHHHHHHHHDAHHHHHHDDGHHHHHHHHAC7*:(7:??@=79>ADADHHHHHHGHHHHHHHHEEHHFHHFGEEIFDEDGHHFHECD0>EEEDFFFF @read_150_217/2 GCCTTGGTGCTATCCTCCTGGAACCCATTGCCTCATTTTGGTGTCTAGATCTGCCACTGAGTTGTTGGAAGAAGACTTCCCTTTCATATGACTCTCAGAT + HHHCBBC@FHHHFHHHHHHHHHHHHHHHHEGA@2CFHD7@@=9CDFEBBCEEDDCGGGGHHGFDEHHHHFBFHHHGHHHHHHHEFHEEHFB;,EHFCFEF @read_150_218/2 GTGTTAAATTCAGCAGCAATACGATTTTGGTACTGGAATTGTTTGTTGAAAAGTAGTTACCGTGAAAGGTGCGCTTAGTGGCATATGCGTTAAGAGCTAG + DBDDDGGDHHHG//DHHHHFFFHHHEEGFEEBD>CGFHHEFHHHFHHEFEGEC@BDFHHHHAGFGHHGFFHEEFEDC=>EHE:6AAD643@@FFB @read_150_219/2 GTTGTCAGCTGAAAAGAAGGTGGAAAAAGTGTCTACAGTATGCTTCTGTTTATCTAAAAGGTGTATATATATAAGCACAGATATAAAATACTTGCTTATA + .@HHHHHHHHFB@AEDFEGGFGGHHHHHHDHCDCE=CBHDGE<76DEGCCHHFFFHHHHH>)+;DBE=BFHDD(/C/DEGHEB7>A=C?D@FEEEECDFC @read_150_220/2 TTCAAAATAATATTTCAGATAGTACTACACAATCTATATTGATCTAACCAGAAGGAGAATATTTTATTCCAACAAGAAGAGCTAACTATCCTAACTATAT + <;/GHHHHHHHHGHHHGHFHDHHHHHGH?GEEDFE=..BGDEEGFGFDD69&'+37;,956@GGHDEFCDHGBB0@@6?D+@FFADDDA:.8;@CA @read_150_221/2 TTTTCAGAGGTATTAATCTAAAAGCCATTTCATGGAAAAAAGCAACAAGGAACTGGTTTTATTTCTTTTAGGTGACACTAATAACCAAACATGCGACACA + HHHHHHHHHEFFBFHFFFBHHHHHHHHFEHFGDEA755=D<.85(;GGCCGGHHHFHHHHHHHHHBEBE;EEEEFEHGHFHHFGFFFFFHHHHHDIFHHHHHHEE:0,>DBEGHHHHFFFDA=>.D:A.8BCEEHFGFGEEA @read_150_223/2 ATCTGTTGGTTCCAACTTATATTTCTGTGTGTACAAATAATACACCCTGTGCACGAAAAATCAGTTTCAAAAGAAAGAGCTGAATTTGTCTAGAACCCTC + HHHHHHHHHGHGFFHHHHGGHHHHHHHEHHHHHHHHHHHHHHHEGBCEDD:@?,/1?;EEEEFHGEFHGED @read_150_224/2 TTTCCTAGAGTAGTGACCAAGTTTCTGACTATCCATTAAATCAACCGTAGAGAATACCCGCAGTTCTTTTTCAAAATGTGATGCTAACAAGCTAATCTCC + HHHHHHHHHHHGHHHFFHHHHHHHHFE=FFHDHHHFGHHH?HHHHGFHHEBGDDB.5 @read_150_225/2 CTGGTTCCACCTGAAAAGGTTATTTCAAGTGTAAATTCTAGACCTTTTAAGTAACAAAATGATACAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAG + GEEB@FDCDGGHHHHHHHH>;DHHHHHHHHB:GHHBFFHBF=@DGHHHHHHHHHEEEHHHHHHHHHDGGEBCHHHFHHHHHHHGB4+DEFHFFEEAADEG @read_150_226/2 TAACCTATAAACATTTATGTTTAGTATATACAATCTTTTTTTTATTATTATACTCTAAGTTCTGGGATTCATGTGCAGAATGTGCAGGTTTGTTATATAT + HE:.FGHHHHHHHHHHHHHGGGHHHGHHEHHEHFGHHHHFGFBEI:=CBD=DGIEFGHHHFHHFFBHH87@CEGD>@??:9FDEBB @read_150_227/2 TTTGTCCTTATCTTTATGGATTTAATTTTATTTTTAGAATATATAGAAAATTATCTTGCTTCCAAGAGTCAAAAGTCATACAAAACATTTACTAAGAGAA + G@GFHHGHHHHHHHHHEBFHC@AA?=>@AC35-(')<7:99EFFHGE32(><<'*:D=:=BHHHBB@@?DG>FEFBGHEFHHHHHHHEFGED.>+.1:;C @read_150_228/2 TCTTCAAAGGCTAATGCTCTGCAGCCTGTAATCCTGCAGGTTGCCTTAACAGGCTCCCCAGCTCTGTTCCATTAACTATTTTTGGCTCAGTGATTAGAAG + HHHHFDGHHHHHHHHFHHGBDE@HGHHHHHHHHHHHHFHHHHEGDDEGGGHHHHHHHHHEFGGF@739@;44017BDEDFGE@BB@D??GGGEADHEEE;B>ECFCFFHHHHHHHHHHHHHHHHGHHHHHHHGEBEGHHHHHHFFGG?CC@>*,<>9.938<854>;EEFFHHHHGBECBDDEHFBHHHHHHFHHHGHHHB=FDDHHGGD0:5-4(/8@FGEGF;?A>BD?FCD @read_150_233/2 CCTGGATTGGTTCTAGTTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAGGAAAA + HHHHHHHHHHHHHFFHGHHHHHHHGGHFE>CFDCBFHHHHHHHHDEFF4==ABCHHHGHHHHHHHHHGHHHHFHHE89DDHHFBFBD=@C1.:7&&>>DC @read_150_234/2 TAGAAACATCAAGATAAATAATAATAGTAATAAAGCATCCCTGTACCGTGAAAGGTGCGCTTAGTGGCATATGCGTTAAGAGCTAGGTAACGGTCTGGAG + EE=CCEBFEFBEG@BGHHHHHFGDHGHHHHHFGGEFFFFHHHHHHFB:@@EGGHHHHHGDGHHHHHHFEBFFEGF5/DGD>>?6?2>@+8/68,8DGB@@9>EF?@ED.EFBBEEHDEEED.HHHHHHHFFEEHDBFHC@=)3:?;;DDCB::+@B> @read_150_241/2 CCACAGAAATACAAACTATCATCAGAGAATACTATAAACACCTCTATGCAAATAAACTAGAAAATCTAGAAGAAATGGATAAATTCCTTGACGCATACAC + HHHHHHHHHHHHDBGGGGHHHHHHHHHGFFBHHHHHHHHHFEHHHGGFFEHHHEEHHHHHHDDGGFHHHHHHFEDGFA@EHFEHBHHFHEGBFHB4%/3/ @read_150_242/2 AGAAGTCTCACTTTAGTTTGCTGCTTCTAATCAACCACAGGCTAGGAAACCAGAAAGCCTAATTGATTAAAATTGTGTTTAAAATAAGAATAACTAGGCT + HHHHHGGGGGDDDGGHHHHHHHHHFHHHGGB;=?60,;99HHFE=:DGIGHHHBBGGFFBBEFFHHHHHHHHB;;GGHEGGFHHHHEGHHB<189-9A@4 @read_150_243/2 CCTCTCATCTTTCTAAAACCCTGCTTTGCATTTTGCAACTCCCACCTTCTCAACACTCAAGATCCTACATGGGCTCTTTCTTGCCAGATGAGAGATCGGA + HHHHHHHHHFEGGB?CDHFGGIDGGGFGGHHHHHHHHFGGHHD>6<5?HFHHHHHGGGGDEEHHHGHHHHHHHHHHHHHFHHHHHHHHEHFHFDBBGFHF @read_150_244/2 GAAAAAAAAAAAAAATCAGACATGAGCCCCTCACCCAGGGTTTCCTTCCTTGGGGGAACTCAGGCTTGTACCCCTCTTGGTTTGTGGCAGACTGCACTGA + <@AEGEDCDFFDE=6DBHHHHHH@HF=ADGGHHHHFFFGHFHHHHHHHHHHHHHHHHHHHHGGGFEEHHEGGHHHHHFHHFDGGFHFA;AGDHB=))A?B @read_150_245/2 GTCTTCGGAGACCTTACTTCTCTGACTTTCACATTCTAACGTTCTGAGGCTAATACTGCGATGTTGCATTGACCCGAAGGGCTCGATGTTTCGGGAGGTC + HHHHHGFEEEEGFHHEFFHHHHFHGEGGDEGGHFGGGHHGB+0>CB&*4@HHHEEHHHEGGFFHHDB,5<@'5:1: @read_150_246/2 GAGCCAATTTGATGCACATGTAGGATCTCAGGGGTCCCCTAAAACATCCAGTAGGGAGAGCTTGATAAACCTAAATCCTAGAAGATACCGTGAAAGGTGC + HHHHHHHHHHHHHHHHHHHF=GEEGGEEBGHHHHHGDA@;F@;87GGDDA5D?EE8).@5@DHDFHEEDA>GGEHHGBFA@AAEFHHHHG4@?B;GED4??HF @read_150_249/2 TCTATGAGCAGCACATTTCCTATACAAATGTAACCTAGGATAGACTGGGCATCTTTTCTGATTTGACTATTCTTCCTAAACAGCTTTTATAATAATGTTA + HHHHHHHH?GE8@CCBE@C>FGAEGHFGGGGB@@GHHHGGHHFHH@A?>>8*74>FEHHGE=?@.?=FFHHHHHHH@C.CHFFDAHHHHEHHGB;@BGEEDDFHHHGHHFHHHHFEHBAFFGFBCE;@A-@EHHHHEEG9@=EGFGHGGHFHHHHHHGHHHGGHEHHHHHHEC=6ADGFEFHHGDDEH@CEFF @read_150_251/2 ACAGGATATATACCTTGCATTTTTATTACATACATTTTATATACAGTATTAGCAATGGCTTAAACAAGGCAGACATTTATTCTCACGAGTTAAAGGCCCA + FGGFHHHHHHHGEHFFEDGGHEFEHHHHHHHEEEHHHEEFHHHFHEEHHHHHHHHHHHHHHHHFGHHGFBFEDDGGGHHHFGHFF=CCBCGHHCHDF?DE @read_150_252/2 AGCAAATTAGCAAAGTCGAATTTTAGTTCTGCTTTTCAGGGAAAAGAACTGGAACTCTGCTATTCAGAAATAAACTGTGAAGAAGAGTGGCCAAAACCTA + HHBHF?HHHHA@>>>B7@GGEEHHHHDE=FGHEGAHDD=@=18>DCE=CFCGHHHHHHHDFGGCBGGG=CGHHHEBB=@HEBDA?GHHHHHHHHHHHHHH @read_150_253/2 AAAAGTAAACTCATCCATCAAGATACATCATTATGAAAAATAACCATATTTTCCAAAACAAAATTAGTAGAACAATGAAATTGTTCTAAATTTGTGCAAA + FHGEBHHHHHHHHHEHHHHHCGGHHGHHHHHHFHHF?EFFGCGEB>7@AA75<>>DGGFEGGGDHHHEFDHHHHHHFEEG@>BAFHEB?&%7CFDDH @read_150_254/2 GCCAGGCAACCTGGGTCTGACTGTCTACCACCGGGCATTTCTCCTCTATTCCTTCCTGCGCAGTGGGGAAGCACTGAACCCTGAATATTACTGCGGTGAG + GFFACGD>:>EEHHHHHHGBE?>>DGHHFHHHHFHHFHHHHHHHFBBFFG@BFGHGDIHEGGGHFHHHHBC=CDEFHFFHHHHHFCGBDHECFFF@A@>A @read_150_255/2 TTTTTGTTCATTCCTGGACTATCCAATAAACAGAATCAACTGGTGCTTTTGATATAAACAGAAATTATTTTCTTGTCTAGAAAAAAGAAAGTGGTATATA + HHHHHHHDBBDFEHE=BCHHHHHGHHGFGGFEHHHHHHFFEEHH=H<8DFHHHHHHHHHHHE@??@CGGG21*+.7EHHBCBEHHHHBEECBDCDDF5GF @read_150_256/2 TTATCTGAGTTCCTTCCTCAGGAAAGGACCTTTAAAAAAAGTATCAGAGAACTGAAACTCACCAGATCACTGCACCAGATGCCTCCTTGCCCCTCTGTAG + HHHHHHHHHHHHHFFDFE.8FIGGGHHHHHHHGGHHHHHHHGDCD57@FGGGGGGD@GDGGGDBEHFHH?EFFDGBF?DHFEDBDHHB@<45DGGHHFDF @read_150_257/2 GAAGATGAGCGGACGCAAAAGAAAGAAGGATGAGAAGCGCCTGAACGAGCTACTTAAAAGCCAACGCCGGTGACATCACAGCCTTGCTTTAAACCCCTCG + HHHHHHHHD=BGHHHC@;33A.>CDDAEHEHHHHHFHHEEGHHHHHEFEFEGHHHHHH=EHHHGGHHHFHHHHHFHHHHHHBGFFFF58'BD@@>::E@< @read_150_258/2 TGGTAAAATAGGAATAATTCATAGGACTGTGGTGGTTTTACAATGAAAGGTAAAGCCCAATTTTAGCTATTACTGTTATTCATGGAAGCAGCTTAAACAT + HHHHHHHHHHHHHHHHHHHHGD>BGGEHE@EEEGHD6>GAE<8EB5CGGFHHHHHHHGGHHHHFHHGCADF@CDBEE/:DGHHHHHHHDBEEHHHHFEFH @read_150_259/2 AAACCTCTTTTCTTTGTAAATTTCCAGTCTCAGGTAGTTCTTTATTGCAATGCAGGAACAGCCCAATACAAACAGGTATAGCAGGTGTGTCATAATTTAA + HHHFFGHFHHGFBFFHHGFBBFHHHHHHHHHHHHHHHHHHHHHHHFFFEEHEGFHHHHHHHHF<>EGHHHHHHEHHHHHEDDGGFBEHECFCHF5311,< @read_150_260/2 CAAAAGCTCCCCAGCCAGGCAACAGGCCCTAGGAATTGGCCTTCTGATGCCTCTTCCCTTCCAAGCTGAGATCAGACCCACTTCTCTGCTGCAGACGGAA + GHHHHHHHHHHHHEGHBFFHHHHHHFGHHFHGEEBEEFHHHHHHHHFDFHHHGEEDFHGHHHHEEIEGGFHHHHHC)BEE+:BHGDFFFHHHHEE=FHFA @read_150_261/2 TAAGAATGCCAAGTTGACAAATGCAGAAATGGGAACAGAGTTTTCAAAGGGGCTCCTGCAAGTGGAAGGCCCTACAGTTTAAGTCTCGTTAGTGCCATGG + HHHHHHHHHHHHGGGHHHD:4<9<5>D?HHHHHHEBGHHHHHHHEHHHHFHHGHFGEEE2BGA7:16EFFGFHHHHGHEHEHHHHEGHHHHHHD;3&;EE @read_150_262/2 ACTCAGTAAACTAGGTAGGGAAGGAGCATATCTCAAAATAGTAAGAGTTATTTATGACAAACCCATAGCCAGTAAGATCGGAAGAGCGTCGTGTAGGGAA + HHGD>7A=FB<>:2;-**'00*-3>BFHHHHHHHHHHFHFHHHHHFGGCBF.8=CIEB@?=B7BC<*2/CEEEA?:CCE@A.8EEED245==:9%BFHHH @read_150_263/2 TCAGCTATTACTATTACTACCACTCACCCATCTAAGAAACTCGGAGTTTGGCCTGCGAGGTAGCTTGGGTGTTATGAAGAACGGCATGCGAAAAAAAAAA + HHHHHHHHHHHCFHHGEHHHGDHHHHFEHHHHHHHFHHFBHHE83('.36BDHGIEHE8E7BEEEGGGHHHHHHH/3&AFFEGGGFD?6BAFFGFHC<06 @read_150_264/2 AATCTACATGTGACAAAATTTGGTTGAACTAAATAAACACACACACACACACACACACACACACAGACAAGATCGGGAGTAATTTGGAGGCAGTAGTTCG + HHHHHHHHHHHHHHHHHHHHHHHHHHFDBE<=@-1-25:BFHHHHFBGECDDCDGHHHHHHHHHHHHFDHEFHHHHHHFEBE:776>:-)48ECCAAEEF @read_150_265/2 TTAAAAGTACTAGTAAAATAGCCTATCTGGACAAAGAAAAAGTAATACATTTACATTATACTATATAAAAATACATTTCAGATAGATATCTGAATATAAA + 8DHHHHHHHHHHHHHHHHHHHHHHHEHHHHHHHFHHHHHHHHHHB;@BFHGGHHHB06>A7.;@@FHD@@6=@BIHFHHDGGFFA=>;7B@?C?C?;,55 @read_150_266/2 AGACTTGTTCTTATTCGGTCTATTTTTTGTACCCATCAAAAACAAATGATGGTTAGGTGTCACTAAGTAGGTGACAATGGCTTAATCTGTCTGTGCTCCT + HHHHHFHHG8>=?HHHHHHHHEE?CEAHHHFHH@D2-(20.(?EHHHFHHHHHHGDEGBBD==<:A?FHHD@;GEC8=CCDHHHFEGHGE43A@BCGHEA @read_150_267/2 AAGACATGCTAATCCTCAGATCACTTCAGCAAATGAAATTGTTTCAGCTTTGGACAACTCACACTCCGTTACATGACTTCATATTCTCCTGTTGCTCCCT + HHHHHHGGGHHHHHHHFHHHHGHBCBDFHHHEF?@DGBBDHHHHE.1?HHHFGGFHHHBF=CF4720).BFHHHG@=A6EHHH=CCBFFE=,%-FFEHFF @read_150_268/2 TGGAACCAAAAAAGAGCCCGCATCGCCAAGTCAATCCTAAGCCAAAAGAACAAAGCTGGAGGCATCACACTACCTGACTTCAAACTATACTACAAGGCTA + EEHBEBDDB9'1'04?GGBC=DFHFBBBHHHEE897E@HHHGE=:?.<8DFHGGHHHHHHHGHHHHHHHHFEE(/7&,1:99<>4;51D?C:6438.8(ECCA5 @read_150_272/2 ACAAAGCATTTGCCACTAATAAGACTTTAACACCAGCAATCTGTTAATATTACAGATGTAAATTAAATATTTCCACCACAGAGATGCTTCATCAACTTCA + HHHHHHHHHHHHHBDFFHHHHHHHHHHEFHHHHGEHHHEHHGEHHHHHHHH9<<;A;BEFFFFDF>?AAAEHH;%1'.3 @read_150_275/2 CTGTTTCCTTATTTAATACCATTAGGTGCTTCTCCACTAGGATAAAGTAGTCAGAATTCCTTAGAATGGCATACAAAGCCCTCCAAGACCTTCCAGAGTC + HHHHHFHHHHHHHHHHGD?=C9GHHBBBHHE@FHEC@,@.:DEEEHHHGEFHHHHHHGGDGGBDFHGHHHHHFHHHDD?BFHHHG<<.CHHHHHHHHHHHHHFFEFHFHHHHHHFEEDF=EHHHHHHHHHGHHHHHB@B@*3BBHHEGGGGHHF;<;D@A=:>;5>55>:& @read_150_277/2 CCAAATTGTGCTAATTCTGCTCAGGATGAAACAAATCCCCACGCTGAAGTGGAGAAATATTTTCATAATTGAAGGAACATATCCCATTGATTGTCTACAC + E@E=ADBGHHIGEGEHHHHFFHHHHGCDG>@@7?436GGHHHFHHHHGBCGGGEGGHHHBHGGGFHHEHHGH@>>A?>43DDBEHHHG@>FBEHFC@EDF @read_150_278/2 AGCATCTGTCCAAAATGTGTCTTCAGATTGAGAAGGGAATAAAACAAGTAAATGTCAGGGAATAATACCTTTTCTAAAAATTGGGATTGTTTTAACGGCT + /?7495AE @read_150_279/2 ATTGGGCAGGAGGAGGGGAGAAGGAAAGGCTCAGAAGGTGGGCCTAGGAGCTCTGCTCCAACGTTGCATTGACCCGAAGGGTTCGATGTTTAGGGAGGTC + IE@=F@BEB@@;EDFHDHHHHHGDBCFHHHEGEDF?-6;>),271899BDGHHHGECHHFG7BEHEFFF;ADFFA..;<=>+6<>?E6BFHHHHFG?D9< @read_150_280/2 CTGCAATGTTTATTCATATGGTGACATTTACTGTAGCTTTCCTCTAAAAGGCAATGGTTTCTTCCTGTTTTAACAACCCAGAAACCATTATGAAGTTACT + HFHHHHHHHGGFHHHHEGFHHGFHHHFHHHHHHHHHHHHHFHGEEDDFHGHHFF=ABDFFHHHHHHGGGHHHHHHFDHHBG7'-100.7;@6041:>DGEEFHHCB9:,6;<<.8CA'386.(5:@E9869@@FFGFBBE8BCD6.19AACCFHBCHHFGF @read_150_284/2 TAGAGACAGGGTTTCGCTATGTTGCCCAGGCTGGTCTCGAACTCCTAGGCTCAAGCAATCCTCCAGCCTTGGCCTCCAAAAATACTGGGATTAGAGGGGT + HEB@@GGBDHHHHHHFGHHHCGHGFGHHHBGGEHHHHHHHFDFFFHHHHHDCCCB:=B:;>>@HHHHHEAGHHHHHHHHHHF>9.9=@EEFHEEGFFGGG @read_150_285/2 TTCTGTGGGGCCATTGCCCACTTACTAGGGGGAAAGTTTGGTGCATGTTTTCCCCAGAAAATGTCCTGTGACATCAAAGAGTGACCTAATGGAACCAAGA + HHHHFFGEBC@CFHHHHHHEDFHHHHHHGGEHFBFHHHEBEFFEHHHHFHFHH:)50365:??ABD,2@DEEECEEEEFFFHDCDGEFCDE+%5=FHHBH @read_150_286/2 TAGCAAACAAACAGAGGAATAGAAAACAAAATACCACATGTTTTCTCTTATAAGTGGGAGCTAAATCATAAGAACACATGGACACACAAAAGGGCCTATT + HHHHHHHE>B@ECF8DEACHHHHHHHDGDE;FHHHHHHBHFFGFHHGGHH=EEGFHEFGFHHC:7..;;A9,AEEHHHFDHHHHHHHE=4'>9AE63;57 @read_150_287/2 CTTTGTTTAATGTGTTCTTCTTGGTCATCTCAACAGGGCCTTTTCCCAACAGTCTTTTTTTCCTTCATCGCAGAAAAATGATGGTATTTAAGCCTGAAGT + EHHHHHDECCHHHHGHHHEEGFF:<=DFG?E869DEE>B@DFHHHDCDFHHHGHGDFHGGEHHEE6--+))=G??FF@;AHHHFHDDFHHHHE@HHH9=3 @read_150_288/2 TCAAGAAAAATAATAATAAATAAATAAAATAAAATAAAATATACATACATTTTGCCAAAAGACGCTGGAATAAAGTTCCAAAGGAGTATAAATATTTATA + HHHGHHHGCBHEGGHHHHHHHHHHGEEEHHHHHHFHHHA@GFHHHHHFFHHHCB75412,)&1010GEEFHHHHHHHHDBECBHHHHHHHEE><;6;>CEHFHFHHHHGHHHGHHHHDHHFF@@HHFFEEGHHGHHHHHGFFFHFCBHHFAEF?FFFHHHHHHH @read_150_291/2 ACAGACACTTTAGAAGTACAAATATAGTATTTTTCCTCAAGAAAGTTATAATCCTATTGAAAGAGACAAAAATAAAGCATGGAAAAATTCCTATAATATA + HHHHHHHGHHGFFHEHHFHHEFGHHHCBHHHHHHFD@BB>BCC.BC;>;CHHHHHGGHHHHHHHHHHHHEGEGFHFGHHEFFFFHHHHEEHHFGBEBGEE @read_150_292/2 GGCCACAGAGAGGGAAGAAGGGAAAGAAGGACGTACAGATGTTCACTCATTCCAGTGGAGCAGGGGAAGGAAAAGAGAAATAAGCTGACCTGAGGCATCA + FHHHHHHHHHHHHHHHHHHHHH?CDA>AHF;CBEDHHHHF?AHHHEGB,@GHHHHHHHHHHHHHHBF=>>E:>>@F?=DDEFFHCCBEBDC+&+BGHHHF @read_150_295/2 TTCCTTGTGTTGTGTGTATTCAACTGACAGAGTTGAACTTTCATTTGGAGAGAGCAGATTTGAAACACTGTTTTTGTGGAATTTGCAAGTGGAAATTTCA + HHHHHHHGEBC@=FHHHHGHHGFFGB@@;@DDFCHHHHHEE?BHHHHHHHHHHHHHHHFHHHGEHHHFAAIGGHHHHHHG;AGFFHHHH=GGHHHHHHEF?FHHHGHHDE;FGHHEGECE=DDDGIBGBBAC@FHHCFG?4-AEGHH@<8.2DFCFHHHHHH@CEEF@:.?ACFHHEFFEBDBFHHHCHFGGGFFDDD @read_150_301/2 GAAGTTGAATTCCAGTCTGTTTTCAACAATTTGTCATGTTAGTAGAAGATTAAACATCAATATATTGAGTAGCAGAAGATCGGGAGTAATTTGGAGGCAG + HHHHHHHHHHHHHHHHGBGHHEEEFE@CDCF@DDDHDDGGFDA:HHFF77)3.;BBGGEHGHHFEHHHHHHHHHGADFEGFGFBGHFGDEEHHGFFHE?C @read_150_302/2 CTGATATTTCCATTTCAGTTACCGTGAAAGGTGCGCTTAGTGGCATATGCGTTAAGAGCTAGGTAACGGTCTGGAGGAAAAAAAAAAAAAAAAAAAAAAA + DBEDEDD@<@B=CGGFHHHHHHHHHHE5ABDGEEEEHHHHFCFHBF=C>914-54CEGDHHHHEEHHHHHGFHHHC76GGHHEEEGCEAEEBEHHHFC?9 @read_150_303/2 GGATTTCATAAATGAATTTTGCAATGCTCTCTCGAGTTCAGAAAATATCACATATACATAACATACATTAATAGATATACAAACACAGATCGGGAGTAAT + FBB>HHHHHHHHHHBEBHHHHHHFE@5.@G@6+:/DEB@HEHHHHEDBADD@=EEHHHHHHHGB8CC@6->4A;?DHHHHHF@HHH?,;>33:300BCHE @read_150_304/2 GGTCAGGAGTTTGAGACCAGCCTGACCAACATGGAGAAGCCCTGTCTCTACGAAAAATACAAAATTAGCTGGGCATGGTGGTACATGCCCGTAATCCCAG + GFFEFGD?4?CBDBGHHHFHGHHFHHFEHHHHHFGGD@><5<.D?EE7<&('5DD?>EEE:48EEDBFFHHHHHGF+@EEFG@E36@=?AHAAACBFHFE @read_150_305/2 CTCTACTGACAATACAAGAATTAGTTGGGTGTGGTAGCACGCAGCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCACTTGAACCCAAGAGG + BAEAB@.?EEBDGFCHHHHHHHHHFEDBHHHGDAAEHFGE.D??E@+BGB7:D@7/6@BBGFHBFEGHHHHHB? @read_150_306/2 TCTGCAATCCCTGTTACATATGACAAGTTGAACATAAGTCTTTATATCACCTCTCCCAAAATTCTACTAAAATGAGCACATCAGAAATTAACCATGGATT + HHHHHHHHHHHEHHHHH@.6>C/55DHHHHHHEFHHHHHGHB:@A*59AEEFGFGHEE0;BDHGGG:6<<,2C>>BEEHGHHHFFHEE?+7BFFGBCGFFGBADBHHHHHEGEEF @read_150_308/2 AGGATCAACAATATCACTGTCCTCTACCTCCACATCTTGTGACACGGGAAGGTCTTCAGGGGCAATAACAGGCATGGAGCTGTCATTCCCTATGATAACA + DAA@FHHHHHHHHHHHFFFDGHHHHHEEHHHHGGDGGGFHFHHHD;;DC2,'/)..?A8HHHHH @read_150_309/2 ACACATATATATATGTTTCTTAAGGAATCATATTGTACATACTGTTTCTTTCCACTAACACGGAATCTCACTCTGTCTGCCAGGCTGGAGTGCAGTGGCG + HHHHHHG=C@=GFEHHHHHHDGHHHHHHHHHFFGFHHHHHHHBFHAB@DHHHHHHHHHHHHHGFFHBIFEHHHHHHHE:@DB>.2>937.635CF?@2<- @read_150_310/2 CAAAGCAAGACATATTTCAGGATAAAGAGAGCAATTCATCAAGAGGATATAATAATCTCAAGTGTATATGCACCTAATAAAAGAGCTTCACAATACATGA + GGHHHHHHHFFGHHHHHHHHFEC=BF<5:DED=DAAC5:.>.:E=D?G=FE @read_150_311/2 TGAACACCCCCTTTTGCAGCGAGATCAGCCGTTTCTGGGCTGACACCCTGCAATCCACCAGCTCTCCCTTTGCCTTCAGCTCCTGCAGCCTTTTCGCCTG + HHHHHHHHHHHHHHCEFFHHGD=+CDGFHHHHHFHHD>>8:>@EFHHHHHHGGIGGHHHHHHFHFHHHFHHFIBEDD;C==EFFFEEBCA::557ECBCF @read_150_312/2 ATCCTAGACCTTGAGGAAGAAAGGCAGCGGCATGCACAGGATACGGCTGAAGGAGATGATGTCACCTACATGCTAGAGAAGGAAAGAGAGAGGCTGACTC + HHHHHHHFEGHHGGHHHHHHHHGFFGGHHHHHFFFFHHHHHB><(ACFFHHHHHHHDC88<'/CHHHHHBA:>=5BFFG@DC;CFC>DDBF=@@EE?97-836)&&:59(*0%.AF>94 @read_150_316/2 GAACCTGGGAGGCGGAGGTTGCAGTGAGCTGATATCGTGCCACTGCACTCCAACCTGGGCGACAGAGAGAGACTCCGTCTCAAAAAAAAAAAAAAATTCA + HHHHHFGHHHHHHHHDFGHHHHHHHFFHGEEEGGF@CFHHD@@FHHHFEEFFFFFHHEHF7;DBCFBGFFEEHEE?FHFHHHHFE4A:D/=FHFGBCEEBA;9@C@FFC8GFHBGFHHHGBFGGFEHHHHHHHHBHHEEEE@B<8=FGHHGB @read_150_318/2 TGGCATTATAGTGAGTCAAATACCATGAGCAGTATTGCAATAGGTGATATATTTTCTGAAGTGGTGAGTTGCATTGACCCGAAGGGCTCGATGTTTAGGG + CD@EGHHHGFHHHHHHHHHFFFGCBGHHGGGHEEDCC:<>C>CHHHHFB7.A8937558,5:EHGGDFFHHHHGHHHHBG.9<<9=AAACHHBEHFFBHD @read_150_319/2 TGCGATGTGTGCGTTCAACTCTCAGAGTTTAACTTTGCTTTTCATTCAGCAGTTTGGAAACACTCTGTTTGTAAAGTCTGCACGTGGATAATTTGACCAC + HHHHHHHHHHHHHHGHHHHHHE+:CFHHDDFHHHHGHHHHHHHHHFEGGHFGGGHHHHHHHHHHHHHHHHHHFFEHHDDGGIDGG=CD>?*>8 @read_150_322/2 TCCCCCAAAAGGATCATCATTTTCTGTGTCCAGCTCCAAGCCCAGGAGCTCTGGGTGATAGCCATTCCTCCAATTCTGTCACCATCTCATCTCAGTTGCA + FEEDGHHHHHHHHHHHHHHGHHHHHFFHHEHHHHHFHHHEHHEBDHEHHHHHHHHF?<8BF>EGGEHHFFBGEDEBC<7-5EEGHHHEFFDEHHHA@@AB @read_150_323/2 TGCATTCAGTTTGTCCTTTCTCTCTCTCAAAGAAGGTACAGTATCATACTGTAGAGGACAAGTGTCTAAAAATCATATGCCTCAAGTAATTATCTTTTTT + HHHHHGFED@DDF?ABCEGGFHHHEGGDDGGHFGHHHHBDGHBGBADEFGEFFHHHHHGHHHC@D;=EDBHHHHFFDCFHHHHHHGGGGGFHHHHHHDA< @read_150_324/2 CATAAGCAGACAAAAAACTGGACTGCTGGCCGGGTGCGGTGGCTCAAGCCTGTAACCCCAGCACTTTGGGAGGCCAAGGCAGGCGGATCACGAAGTCAGA + HHHGEGGFGHHHEHHHHGB@:?C@75?8EE?<@DE@EEHHHHF?.=9EBEGGGHHHB7GBD?BCEEGGHHHHHHHHH?HHHHGFHBEDFC92BHHHFEHH @read_150_325/2 CCAATTCAAAGTGCTGGGATTAACGCCTATAATCCCAGCATTTTGGGAGGCCGAGGCAGGTAGATCACTTGAGGTCAGGAGTCTGAGACCAGCCTGGCCA + HHH@F8D=DGDFDHEGGGD?;5:96+03.5'AFGFHHHHCEFCGHFGGEEHHHHHHHCC2(?A79;A?AD @read_150_328/2 TAACCACTGCTTTCCCCACCAGGCTAAGAAACTCGGAGTTTGGCCTGCGAGGTAGCTTGGGTGTTATGAAGAACGGCATGCGAAAAAAAAAAAAAAAAAA + HHHHGHHHHHHHHHHHHHHHHHHHHGHHFGHHHBBHHHHHHHHHHHHHFEHFFDDHHHHFGECB>EGHHHHHFHGDFGGEFHHGFDEFB@B>D>D?ADDF @read_150_329/2 GACTCGACCCACTGCTCCTGTTCCAGGCATTTTCTAGACATTCAAATATGCTTTCACCCCCATTCATTTTTAGAACTTCATTGATGAAATTCCACTGAGG + HHHHHGHHG@A@@/BBIFHGEDHHHHDBHHF?DC?8CBHH?3:;A?;EGBFFGCEHHHGHHHHHH@CDHHHHHFFG;;@A4D@?<761))9 @read_150_330/2 GGGGTTTTCTAGATATAGAATTATGTCATCTGCAAACAAAGATAGTTTTACTTTCTCTCTTCCTATTTGGATGCTCTTTATTTCTTTCTCTGGAATGATT + HHHHHHHHHGHHHGGHHHHGGHHGHHHF>@8DEBFHHHHHHHEDGGDEIGCEGFGEHDB@<.505DDEHHHHHHFHHHHHHHEDCDFB;A<>11/;59?? @read_150_331/2 GGATGACTGGTACATTGCTAAAATGCAAGCCCCATTCTTTTTGTCATTAACGAAAAAGAGTTGGAATATAGATTGAGGCAATCACTGTATCCTATTTTCT + HHHHHHHEEGHHHHGE?BBEB@DBAHHAFEEHHHHHHHHHHHHHHFEGFHEFHHHHHHHEBHHHHHGDGHFGDDGGGFEFHEFHHHFEGD@A?FFDFBEH @read_150_332/2 ATGCTAGAAGTGTGATAAACTAAAAGAAAATTTGTATTTTTGGAAAAGATTTCTTGGGAAAGATTTCTGAATTTCATAAGTAACCTGGAAACTCTTTAGT + HFHHHHFHHHHHHHHHHHGFEHHGHHHABEBGFEHHHHHHHHHHHFFGGDFGDGFHHHHHE@EBFHF=@<9<:))*@B70+@CCFHHGGAD4;:99?EBC @read_150_333/2 TCTCCACTTGCAGATTCTGCAGAAGGAGTGTTTCAAACCTGAACTATCAGAGAAAGGTTCAACACTGTGAGTTGAATGCAAGCATCACGAAGAAGGTTAG + HHHGHHHHHHAFA?=FHHHHHHHHHDHDB)*-*->2?A?>FGDGHHHHDDHHBA..?DCCC?@FFFHFEHHFHHHFFHHHD@26>CDADD>,,:BFADAB @read_150_334/2 GGGACGACAGAATTTCACACTCATTTTATAGATGTGTTTCTCCAATAGCCAATTCCTAGGTCATAATACCGTGAAAGGTGCGCTTAGTGGCATATGCGTT + GEBEE:AGGHHHHHHHHHHHHHHFGFHHEEHHFFF;@EDCHFFEDCEHFDDDGEE@8/D=GFHHHGHHGHHHF@=9<@EADA>0&&;FHE@;E9G@BIFE @read_150_335/2 CAAGAATAGGTTATCAAAGCCAGAATTCACAAATGGGATCACATCAAGTTAAAAAGCTTTTGCACTGCGAAGGAAACGATCAACTAAGTGAAGAAATAAC + HHHHHHHHHBGGHGGHFEHHGGGDGDFFHHHGHHHHHEBEEEEFFHFEFHHHGGGFHEEEFBFHFEGC@9DHHHHGHHHHFFHHHHFHHHHHF<4@GD.A @read_150_336/2 TCTAATAGAATGGATTTCTGTATACCAGGATCAGAATGATTTAGATTTAGTAATGCTGCTTCTTGATTCTTTGAACAAATAACTTGTGCATTTAGTTCAA + HHFGGHH@GHHHHHHHHHHHGGABHHHGHHGHHEGDDD<<:5<>>B?A?DD6836=DFCB<;:44>A?<@16&:DHHFE:>><75, @read_150_338/2 ACATGGTGAAACCCCATCTCTACAAAAAAAAAAAAAAAAAAAAAAAATTAGCCAGGCATGGTGGTGAGCACCTGTGGTCCCAGCTACTCAGGAGGCTGAG + 44+(/A5<.76:>7<-=EHHHHHFHFHHFEECD@EHHHHGEHHHHHEE7EFHHHHHHHHHFBEHGGFHBGCGGEHHHFAFHHHHHEDEFFHHHHHHHGFF @read_150_339/2 TGCATCAGAAAACAGGAGGGACACTGAGGCTAGTGTGGAGGAAGGTAGCACAGGTTCAGTGTTCCCATCACCCATGGTGATGCTGTGGTGTATGACACAG + DHHHGGEDHHGGGEEHHHHHHHHFD?A@=3';DHHHFFHFHHHHHHHHHHB@@E=BB@DCGGEEHHHFEGID@BHHHDDG=@66:CBGFEBACFFFHHHH @read_150_340/2 TTTCACATTTTGTTTTCTTGGCTAAATGATTGTCTGACTATCTCAGATGAGTGGCTTATCTCAATAACCCAAGTGCGTGTGAAGAATGGAATACATCAGA + HHHHFEFD<48CDFB;924FGAFHHHHHGHHGIEEHHEB?DF7108DBHGHHHHHHHHGGHHHHHFDD=FGB76EGIG?A?C@HHHHFGCDD(,5:64%7 @read_150_341/2 CATTAATAATGTATGTTTACTGATAATAAATTCAACCTTTTACTGTCTAAGAATATATTACTTTTGACATTCATCAAGATCGGAAGAGCGTCGTGTAGGG + HHHEEEGEHHHHHHHGGBB@/B=DD?HHEEBBFHHHHHHHHHHHHEB@EHGHHHBGGHHHHDHHH@<B;@DB9-3C4><=?BDEFHFFHHHHHHGEA7@HHHHGFHHHFHFHHHHHHHEHFFDFHHHFBDEHFEHHHDCBCC @read_150_345/2 TTGGTACAGATTGACCTAAATGGAACTCTGAAAAATACTCACTATATAATCTAATTGCCAAGTCCAACCCCCATTATCAAATTAATGAGCAAAACGCACC + 95331).-8EHHGDGFHHHHHGGDEHHHHHHE@BEEDGCF;7,*:@H @read_150_346/2 TGATTTTCCTCAGGGAACACAGAGGAGAGATTGTGATCCCCAGGGGTTACCTGGTAGAGGGAGAATATGGAGGCCCAGAAATCAAGGCTGTGCCTCTAGT + HHHHHHHHHHHHHHHHHHGHHBGGHHHHFHHHHG@@@HHHFHHEBHHHFEHHHHHHHHHH9<*<.EGDE8=DDGFBC>=CFEG?GHHFE?CHHH@BDDBEEFGHHHEEFCFFG @read_150_349/2 GTGGAGGTTTCAGTGAGCTGAAATTGTGCCACTGCACTCCAGCCTGGTGACAGAGCGAGACTCTGGCTCAAAAAAAAAAAAAAAAAAAAAAAAGGTATTT + CDCDDHEEEDHHHHHHHHHHGHHHHGHHHHHHHHHFFFHHHHF,<>>ABF89==HGFFDBC570)*6;;/=DCCDBCF@AECBFGB?;FHGFFFCGGEHH @read_150_350/2 AAAAAAAGTCCGAATAAATCAGTGTTAAATAACAGCAAAAACATCCACAAACTCATATCAAAGAGACCATGTGTTTCCAAAGCTTATAAATACATCATTT + HHHHHHHHF<=EHHHHHHHHGBFHHHHHHHHHEEFHFHHHHHHHHHEHHFFHHFDGGEEGFDHHHHHBGGGFFFEEHBF?BFFFHGGGFBED,,DFFFFF @read_150_351/2 AAGCGAGGAGGACCCGAAGGTGAGCAGAACCTGCTGGAGGGAGACGGTGGGGACCAATGAGTTCTCTGCAGGACAAAGCAAAGCTGGAGGGGCCTTTGAG + HHHHHHHHHHHHHHHHHHAEEBCDHHGCHGHEEBFEE??CFHHHHEEHFE:@EEEF=+-CHHHFFDGHHHFGHHDDGEBDG?DDB:CEEEBDFBAC@DDD @read_150_352/2 CAAGGTGACTTTTTTTTTTTTTTGAGACAGTCTTGCTCTGTTTCACAGGTTGGAGTGCAATGGCACTATCTTGGCTCACTGCAACCTCTGAGTCCAGGGC + HHGHHHHHHHHHHHFFHHGHHHEDHHEEGHEDHHHHHEEEE2FFHHHHHHHHGGFD@8BGHF@DEEGFEE,-88EGFHHHHHHHHHHCBEEGHHEFFGHH @read_150_353/2 GGAACCTGAACTGAGTTTTGTACATCCTACTGCCTTATTCTGGGGACTGAATGAGCCTGTTGCTTTAGGATACATCTCTGAGAGTCCAAATTTAGATACT + HEEGGEGHHHHHHH>:>>@HGDB@;HDFFHHEDAHEE986D;FF@EBGFFFGGFHHHHHC@5=F>BEHHGHHHG@HEG5DGEHHHHH?6;@@BCFGHDAA @read_150_354/2 TAGTAGAGACAGGGTTTCACAATGTCGGCCAGGCTGGTCTCAAACTCCAGACCTCAAGTGATCTGCATGCCTCGGCCTCCCAAAGTGTTGGGATTACAGA + CBHEHHFDBBDHHHG?BGGHHHHHHHHHHHHHHH@BGFAAHHHH?))07;>828@HHHHEGDDDEFHHHFAB;>GFGFD=CGFFDFFG77BEEEFFEFGF @read_150_355/2 AGTTTCTTTCCAGCAACAATGACATGAGTTCAAGCGATTCATCAACATTACTGCATGTAACTGTAGTTCATACATTCTCGTTGCTGTGTAATATTGAAGA + HGGEHHHHHHEEHHHHHHEHFDDCDEGHHHGEEFGEFHHEHHHHHDCF?>GFHHHFB@DEHEHFEFHHHEFFGEHHHGGFHDFGGEHBEIBDB)):5BDD @read_150_356/2 TAAAATTATACTTTAAGTTCTGGGATACATGTGCAGAACATGCAGTTTTGTTATATGGGCATATGCGTGCCATGGTGGTTTGGTGCACCCATCAACCTGT + HHFHHHHHHHHHHHHHHHHHHHHHHHHHBEEEG?:2')BBFHHHHHHE=:FGIFGGCDCEDFGHHHHHHGGFHECGEFFFEA/D8AEDC47BEDFH6 @read_150_357/2 TTGATTTTCTGATTTCAAAATATATAACAAAGCTGTAGTAACTAAAACAGTGTGGTACTGGCCTAAAGACAGACATAGAGATCAATGGAACAGAATAGAG + HHHHHHHHHHE8=BGDDEEFEE=EHHFHEHHHHEGHHHHFHHHHFFFD49FGDBHHGIED:BFFEFHHFGE=D=DA96.>CDDEBFGHHDA<<:6))1%) @read_150_358/2 AAATTGCACAAATAGAGTGTTTCAAATCTGCTCTGTCTAAGGGAACGTTCAACTCTGTGATCGGGAGTAATTTGGAGGCAGTAGTTCGTCGAAACTCGGA + EGFFBG@<71DFFFHHEDHHHHHHHHHEGGFFHHHHHHFHHHHHHHHHHH@5.>FHGEEHFEFFHHHHE=.93<>4-37I@?HHFBDCA=FFGG:BC?F7@9:@205C=GDB<.1/EEDGFEEGEDDBHHHFBFHHHF?AADACCBFD@<<6CF @read_150_360/2 AGCCAAGACACAGAAACAACTACAGTGCTCATCAATGGATGAATACATTTTCAAAATGTGGTACGCATACACTATGAAATAGATCGGAAGAGCGTCGTGT + HHHHHHHHHHHHGGHHHHHHHHGHHFEGHHHHGHHHHCFFB?@D;1,59788.76FFHHHFHHHHGGGHHHHHEHHHFHHHHGGEFHGGHHHHHHHHFCC @read_150_361/2 GCGTTAGCCACCGTGCCCAGCCCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTAATTGAGACGGAGTCTCACTGTCGACCAGGCTGGATCGGGAGTAATTT + HHFHHHHHHFGEEEFGEEFHHEGE@C@@>>@66EHHHHHHHFHFEGGEEFHHHHHHHHHHFGHHGGGGDHHG?F?DCGEEFFHHHHHHGE.;5>=E @read_150_362/2 GAATTTCTCTCTCCTTCTATCACTGTATCTGAGGAATGGGCAACAGATGGATCTAGTAAGATGTACATAATAATTAGTTTCCTCTAAATCAGGACACATT + HHD@;C;ABBFEBGFGFGGHHHHFHCEHHFEEE<>99:;.D987DD8DF?FEGB@DADFHHHHHHHFEG=?:3'=>BGGDEA9:>FABHCA<.<59:-=CCDHHH?HHHHH @read_150_364/2 CACCTTGGTCTCCAGCTTCTAGTTAACCTTTACTTTCTAATTTGCAACTTCTTTTTTATGGCTCCCCACTTATGGGGCTACCAGCCTATATGTGTAAATA + HHHHHHHHHHHHHEHHHHHHHHHHHHHHGGHHHHEDHHHHFC>B?DCFE>..:46@C@GDA:*36>DDGHFHGGB@AEEGHHE8>539,8&.3DDD=.@: @read_150_365/2 CTTCCCTCCAGGGGAATCAATTATCCGGCTTCTAAATATTATATATAAGACACAAGTGTTTTTATGCTATTTTTAAAAATTTAATATTTCATATGATTTC + BE/BBHHHHHHHHHHHHHFFHHHHHHHHFHH>=GHHHHEHHHHHHHFHHHHDAB>EGGFGDCCEGGGFEHHFHHDDFFHHHHHGGB4EIBGDBGHHEDFF @read_150_366/2 TTATTTCGACATTTAATATCAAAAGTATTTTGGTTTTTATTTAGAAGTTTGGTGACATTTTTGTGGCCAGTAGAAACCTAACTCTTGTTTACATCAATTA + HHHHHHG@FHHHHFHE26:8DFHHHHGHHHHHHFCC@DEEBIGCDEFDD@EEEGFDDGHHHHHGFEGHHHEEFF=FCAC=EHBHHHHFEGGDBA*@EEEE @read_150_367/2 ACTCCTTCGCCAGAATGCTTCCTTCCATGCGCAGAGGGGTCTTCCGTCTGTAACCCCTGACCTCTCTCTGCGCCTATGCCCTCTTCTCTTCCCCAGGAAG + BCC?:?..9;CDBFFHHHHHCFHHGBDDDGHHHHHHHHHEGFHHHFDCCHHHHHHHHHHHHHHHEHDHHHHHHHHG?BHHFBFFHEEEFEEEEAFFFEFF @read_150_368/2 GCCTGATAGGGCCCACCCTCTACTCACTCTCTCCCAAGAAAGAGTTTCCATTTCAGCTCCTGCCCCTCCCTGCCCAGGAGGCAGGATCATCCGTCCTGGA + GGFHHHBECC>GHHHHHHHHEDDDDECA4>=FHHEGECF?CFHHHHHEBFDC@EC@@@-.7-6.GHFFHHEFFHEEHHHFHHHFE@+>C/86CFB1'7?C @read_150_369/2 TATATAAAAATAGTTTTAAACATGTAATAACTCGAGGCATATTGTATTCTTGATTTTCCTTTGGGCAAACTTTGAGAGCATAAACTTCATCCAACCAAAG + GGDBGEFEEGHHFHHHHHFHGGHEHHEEFC-/..++>EB1>>EHDFHDIE:6@B4<8=CDDGEFFHHECEFEFHHHGG9ADHHHHHHHHHHFGEHEHHEE@>:47;,CC?AHHBDGEE?=?DD>ED @read_150_372/2 GGTAGCAAGTCGTGGCATTGACCCGAAGGGCTCGATGTTTAGGGAGGTCAGAAGTTGAGCGGGTTCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + 949BEEFGGHFFC/)GFGGHHF:3-<<6@CBGHHHHHHHHCGC57A?:EFGIGEHHHHHHGGHHHHHGGF5<@CDDGBFHDA<8EDFGHHHFEE<<@5/> @read_150_373/2 ATTCGGAGGCTGAGGTGGAAGGAACACTTGAACCCAGGAGGTAAGGCTGCAGTGAGCCAAGATCATACCATTACACTCCAGCCTGGGTGACAGAGTAAAA + HEFHHHHHHHHHHHEBDA@.EFHGGGG?@='(3538DBFGEGHHFHHHFHHHHHFEEHHHHED<>C((6.+(-=EIGGGGGDAEAEDFHHE=DBEF=DA; @read_150_374/2 CTCTGGGTTGGCCACTCCTGAATTCCCTAGTTTGGAAAACATTTTCAGGTGGGAGTCTGCCAGACAGGGCCAATCCATTCTAAGGCTATACTTAAGTTAT + HHHHHHHHHHHHHFHHHHHG=B;HHHHHHHDDA?73-5>CDEBDD;-,54CDHFGHHGBC--',;GHHHHHHEGEHHHGD:;AEEHFHHHHHFDCCCCFF @read_150_375/2 AAGAACTCAAATGAGGTACTAAGGAAATCTATAAAAGGAATAAGGAATTTCTACTCTCTAAAAACCTTAGAGATGATGAGTGTGAATTTCTTCATTTAAT + HDDDHHHHHHHHHHHHGHHGHHHHGHGD=GFFHEEHDHHHFDC=FHHHHFHHHHHHHHGFHGGGGFHHHHFFEGEFFFGF@DCFEHFDEHE<6AE2)6.7 @read_150_376/2 AGGTTGTCTGTTTACTCTGTACCGTGAAAGGTGCGCTTAGTGGCATATGCGTTAAGAGCTAGGTAACGGTCTGGAGGAAAAAAAAAAAAAAAAAAAAAAA + FHGFHHHHDHHHHHHHHHHHHHEGHEFEHHHHHHHDEGGHEGEFHHFHHHHHGFG5AACA@CEBHHHHHHHHEGE@GHD>)=DB=HEE/DCFHBHHHHEE @read_150_377/2 TATACTTTTTAATATATGTGTACAAGTCTTTTGTCAGATATATATACTGTGTGTCTTTTAATTAGCAGAATTTTAAAATTTTGCTAAAATTTCTGAAAAC + HHHHHHHFHHHGGD@BB8G@FHF@E88BCDGFBEBEHHG<@=;AD<4;EDGB@C:;BBDE@B?A;1692-?E@B;CFFEHHHFAHHHHHHEHHHFDHGFF @read_150_378/2 TGTAATTCATATATCACATATATGAAAGTCTGATGACAATTATACTCATGTACTTGTATACTATGTTTCAGCTCTGGTCTGGCTCTGCTTTTTTAGACTT + B885D@D7>GGEHHHHHHHHEHHHGHHHHHHHHHHHD?ABFFCCCDEGHHHHGEFEHHHFGGHHHHAA=EC;?108AGDBHHHEHHHFHGFHHHGC>;:? @read_150_379/2 ACCACCACGCGCGCTACTTTTTGTGTTTTTAGTGTTGCATTGACCCGAAGGGCTCGATGTTTAGGGAGGTCAGAAGTTGAGCGGGTTCAAAAAAAAAAAA + HHHHHHHGGGHHHHFHHHHHFCEEFB?BHHHHHHHHHHHHHHHHB>:>;2FE??B?63.<@:@BA>@4.(816.5(29DDGF@:D.737?7?GIFHAEFE @read_150_380/2 GTGCAGTAATGGTGTGAAGATGGGTGTGATCCAGTCTGCTTGGGGTTGTGGTGGATGTCTAAGAAACTCGGAGTTTGGCCTGCGAGGTAGCTTGGGTGTT + HEGHHFG=BA=EI?DFGHHHHFGGGGGGHGE5>8FFGAHFHHHHFHFFFGHFHFFB/GBEFDHHHHHHHHDFHHHHHHHHBHHFGFCDEHHHHHC@>A?BEDFGHHHGFD@@BCHHHHHHHF67BFHHFCDFFFHH>;661A9:)-.>5,).@5 @read_150_382/2 GGTCAGGAGTTCAAGACCAGCCTGGCAAACATGGCCAAACCCCATCTCTACGAAAAATAAAAATAAAAATAACAAAATACAACAATTAGCCGTGGCTAGT + HHHHHCA/EG@EB==0:3;7ECFC;A@@>.EF@BDEG=FHHHHHHHGG7&@...3C/6BA@?6BHHFFHGFGHHGHHFBF @read_150_384/2 AGGGAGGTTATTGGGCAGTGTTGTTGGACCATCTTCGTTGGGTGAGTGAGTCTGGCTATTCCAGGAAGGGAACATGGTCTGGCTGGGACTCTCTTTGGCT + HHHHHHHHHHHHHHHHHHHHHHHFGFGFDFHHHHHHHHHHFGEGBBEBEFHHHHHHFHHHHHEHFHHHHHHHDDEHHHHGCFGFFFDEHEEGGGEG@@DF @read_150_385/2 TTGCTCGTCTATCCCCACTTCCATATGTGAAACTTGGACTTTCTTTGAAGATCTGGGTAAAATGCCACTTCTGAAAAACCTCTTGACTCCCCCAGGTACG + HHHFEHHGEAGHHHHHHHHHHHHHHGHHHHHHHHHFHHFEBFEEFHHFFHHHHHFHHHHHHHFFHHHHEFFFGHHHHEHFGFHHE?DEBDAG==@C>)%% @read_150_386/2 CCTAAGGAAACAACATGAGGTTTCCTCAGTTAAGAATGGCCGTCCAATATTCACATGCCAACAACTGAGTGTCACAACATCCAATAAGGAAATATACAAA + HEGHFEEHHHHFD@EEBHFEB??>9>3-@CGHHHHHHHHHHHEFHHFFEGFFDDDGHHHEHHGFHGGHHHHHE/GHHHFFBHFEDEGECDB*-(97IFBH @read_150_387/2 AAAAATATTAGACATGTAACATAATTTTTTGCCTTCTTTTACTTCTTTTGTAGCTGGGTGTGGTGGTGTGCACCTGTAATCCCAGGTACTCGGGAGGCTG + HHHHFGDEGGGHHHHHHHHHHHHHBEHHHHFHHEHHG.23@DBEHHC>>>BA?CHHHHHHHHHHHFHFHHHHHFHHDFGDGHHHHD+:9BDDCHEEEFCD @read_150_388/2 TCCAGGTTTCAAAGTATACAGCCCATCACTTGGTTAACTTTGAGCCCTTCTTAACCACCCAGGAGATTATTTGGGCCCTTCCTCTAAGAAACTCGGAGTT + EHHHHHEBBBDIGHGGGC55EGGEGD.@/EHHHG=G4DCDEBHFG>@@9-D@C@<>,/;@B@GGHHEEGDGEHHEGEHHE@?:ABGGDDD26@; @read_150_389/2 GCACCCCACTCCCCAACAGGCCCTGGTGTGTGATGTTCCACTCCCTTTGTCCATGTGTTCTCATTGTTCAACTCCCACTTATGAGTGAGAACATCTGGTG + HHHHGGGGGDHHHHHHHHDGGEEFC=CGHGHHHHFHHHHHHHHHHHFHHHHHHHHHHHHHHHHHEFGBEHHGG=ECGHHHFHHHHFFHEBGG8++D@4@EHHHB;09FHHHHHHDFF=CBE;@GB=GGDD=8>;6D5DHC@HGGHHBDHHHHHFHHHFHHHHFBBACB8=F @read_150_394/2 GGAAATTACTCATACTATACAAATTCTTTTGTCTCAGAAGTTAATTTTGAAAATATGGCTTTATTTAGAGTTGTCAATTCAGATAAGCATCTCTGTGTGG + HEDFFFHHHHDDGGHFGEEHHHHHHHHGHHHHFHHFDFFHHHFHHHHHHGEF;(;BGHHHFBHHHDDE=GHHHHHHFHHHGGGBHHHHFCFHHBHHHBFH @read_150_395/2 GTCTTAAAGTTTAGAAATTCTTTCTTCTGTTTAAACCTGTCTGTTTTTGGTGTTCTTGCTTTTATTTTTTATTTCAATCATTGAATTATTCAACTCCACA + HHHHHHHHHHHHHHHHHHFEEEEHHDDEDEFGHHHHHHHGHEBHEFHHHHDEGFFEHHHHHHGHHHHHHFBDEIEEEC=:DGFFHHHHDFEFDDHHHEGF @read_150_396/2 GCAACGCCCCACTCAACCGCTCCTAACTCACAGATGACCTCAGAGCCTCGGCTTCTGGCTCTCCAAAAACAAAACTTCACCTAAACACTTTACCACACCC + HHHHFHHHHHHGG;FHFHHHHHHHHHHGDDADBGFHHHHHHHHHHHGEFFGGGFGHHHHHHHHHGFGHHGHFHHHFB>BHDECEFHHCDBFHFFF5?;2< @read_150_397/2 GAGAACTGCCAGAGACTGGGTAATTTATAAAGAAAGGAGGTTTAACTGACTCACGGTTCTGCATGGCTGGGGAGGCCTCAGGAAACTTACAGATCGGAAG + HHHHHHHHHHHHHHHHHHHHFHHHHDHHHHHHGHHE=FFEGFHHEFHHHHHHHHHCCCDDEF<<4>.E@?-0BFHHFHD=DFHHFGFB<;?%3BDFFHHHGFHHFHFEFEC:6GHB.;BF6; @read_150_400/2 GATGTTGGTGTGGACTTCAAGTTTCAGTTCCACCACTTATTTCCACAATGGTTTTAGACAAGGCTTTCTAAGTCGTTGCATTGACCCGAAGGGCTCGATG + HHFBFGEEFHHHGHHHEEGE???:?G@@@DFEHHFHHHHHHHHHHCEBGHEDGGFFEFEE25<+;>>>:.>;+98:5*56E68EFDCCDEHGH?AD=EBB @read_150_401/2 TAATATAGTAAGTTGGTATAGGTAAAGTGGGATGCTGCTGTAAAGATACCCAAAAATGTGGAAGCAGCTTTAGAGCTGGGTAACAAGCAGATGTTGGAAC + HHHGHHHHFGGHGHHHHEHHHHHHHHHHHEFHHFHHHHHHHFG=>CD822>>>:=;DD@CEEGGGHHHHHHHEHFGHHHHE;CDHHHEE>CCE@AGHHFH @read_150_402/2 TTTTTTTAAATTTGTTTTTTAGGACAGGGTCTCATTGTGTTTCCCAGGCTGGTTTAAAACTCCTGGCCTCAGGCGATCCTCCCACCTTATCCGCCTGGAC + HHHHHHHHHHHHHHFHHHHHHHHFHHFCHHHB9@@CAADEFHHHHHFFHHHHHEEHEFGGHFD:@9:;?C>GHFHE@@EDE=30(8261::>.@AAA5+, @read_150_403/2 CCTACAGACATAGACTTCTTGCATTTAGCAGTATCACTCACCTCTTACTCCATCATTTCTTCAATAACTCCATCAACACTGAACCTTCTAACTCTAACAT + HHHHHGGGGEE801*+8GHHHDEGGEGHGGGGFFB5::<.EBEFFHE@=BFFG@CBBCDEB/,9:@EBEFEHHHGHHHE<@DEGDD@8AAEEE?B?FEHH @read_150_404/2 GAATACTATACATCAGTGAAAATTAGTGCCTATAGGTACACATATCATGATGGAGGAATCTCATAAGGATGAGGCAGTAGAGTAAGCAGCGATACATGCC + HHFCFHHHHGDDE8CDFFHFBGGGHCCD@DBGFGHHHHHHHFFHHFFFFHHHHHHHHHGEHHHGHFFFFDGEHHHHHHHHHHHHHFCFF?C?BHHHHFBB @read_150_405/2 ATTCCACAGAAGCCTTTTGTTAGAATCTTCAAAGGATGAGAACCAGGATGAAGAAGAGTTTTCAGTAGGGAAGTATTTCTCAACTGTAATTGTACATAAA + HHHEEBCGHHHHHHHFB;@@DBA;BCFFHHHFHHHH@?FFHHHHEHFHC:;<:= @read_150_406/2 GAGTTTTGCTCGTTACCCAGGCTGGAGTACAATGGTGCGATCTCGGCTCACTGTAACCTCCACCTCCCGTGTTCAAGTGATTCTCCTGCCTCAACCTCCT + HDFFFHHHHHHHBEE@DABFHHHHHHHHHHFGDB@DCFHHFEHHB98'..,3.,12==@BGGEFHFFF=BAFFHHF8CCGB@C<('12(8@>@GFEF?9* @read_150_407/2 GAAAACTCCAGACAGGTCTGCCTTCTTTACAAAGTAGAGGGGCGATGCTGCCTGCCATTTCATCATGGGGCCCCTCAGATTAAGAAACTCGGAGTTTGGC + HHHHHHFHHHHHHHHHHGHH=EEEEEHFHHGHGGGHFHECFEHHGGHHHFHHHHGB;;<9.A7@BHHFA=EGFFFGHHHGGGFHHHHFFHHHHHCEHEFGGCBHHHFBGHFHFF @read_150_410/2 GTCTCTTAGCCTCTCTAAGCCTGCTTCTTCACCTCCAAAGTGGGAGAATAATAGTCCCATGTGGTTGTGGAGACAATTAAATATTTGATGTACTTAATAT + FGGHHHHHHHHHHFB((08=GHHHFHGGEDCEHHHEHHHHHHHHHHDDEEGGGDDHHHHHFFFBFC=EBHHHHGHHHEGDGG=CAFFGHHDD.0>8@@@. @read_150_411/2 TATTGTTTACTGAGTTAAACACAGAGATCTTCATGCCAAAATACATCTATGAACTAAGCCATCATTAAAGAGTTCTTATTGATGACTCTTGGCCAGAGAA + HF?6898=CEGGGHHHFBAHHHHHFGEF@HHHD.AHHHDDGHCFHHGFGGFHHHHHGGEE?@EFEHHHHHFEBEBBEFGHHHHHHEEED?(;7):BEFBE @read_150_412/2 TCTGGGGCTGTTATGGGTTCAGAATAGGTGAGTATGTGCTGATTGGTTTGTGAATATGCAAAAAAGGCTAAAACAAAGACATCACTCAATAGTGAACACA + HHHHHHHHHHHHHHHFHHABHHHHHHHDEFEGFEEHHEBFHHHHDEDCGHGGFFD66@=GEFHFGHHHHHFHGHGHGHHHEGDBD@B>==EAAHEGBDG? @read_150_413/2 AAATTATAAAATTCAGTGGTTTTCATTGTATTCACAGAGTTGTGCAGCCATCACCACAGTCAATTTTAAACCATTTTTATCACTCCAAAAAGAAAGCTTA + HB=EGHHGGHHHHHHHHHHHHEFHHHHHHGHE@HFEFFFFDGI?HHHECBFEGGE=BFEGA/B;55&<4))2B=6;.29@EEEEHHHHHHHFHHHED>8: @read_150_414/2 CTTTCTCACAAAGGGAACAATTTCAAAAATAAGAAGTTTTTTTTGGGCTTCAGGTAGCACATTAGGGAGAAACATCTGCATGGTTCAACAACATCTCCCA + HHHHHGGD@?BCBDDHHE8<@@FEFHEFDBHHHHHHHGG?GCEDFFGEHHHHGHGHHHHHHDEE/DGC>@EDEDDFHHBFGFHHHHHG896>4-?6DGHHHHHHHHHHHHHHFBEHHHHHHHHHHHFEEDHHHFHHD>>DDBDGHHHHHHHHHEDFB?@B8GGGEDEE<,1'9'), @read_150_416/2 TGAAAAGTGTTAGCTTATTTCCACTAATTAAAGAGCTTCAGAAATTGCTACTAGAATTGCATTAAACTTTATTTGCCTTAAACATTACACTTACAACTTA + EGGDDHHHHHHHEEABBCCHHHEEEHHHHHFFFFFHFHHHFEEFFGHHHEFE@DHGGHHHGHEDGHGH>7@HHGGHHHFHFEFHHHFFFFFF753.;HHH @read_150_417/2 GAAACCCTGTCTCTACTAAAATAAGAAACTCGGAGTTTGGACTGCGAGGTAGCTTGGGTGTTATGAAGAACGGCATGCGAAAAAAAAAAAAAAAAAAAAA + FHHHGF@FFHHHHEHHHHHHHHHHHHFGABB4:5E<::5.5@CH<2.DFHH @read_150_419/2 CAGGAGCAAAACTCCGTCTCAAAAAAAAAAAAAAAAGAGTGATAGATGAACATTTGGGGATGTATCCTAAAAGCCAACAGCTTGGATATCCAATCCTGGA + GHGDEDGFGHHFF@EC@6;>:CHHHHHHFFFHHHFFBDDDHHHFEC:5'&46:<<=EGCCB,=<:FGFEDHGFHHHHHEF@=HHHBGFCFFBEDD@BB@E @read_150_420/2 TCCCCATGTCTGTATGGATGCCTCTGCCTGGCACCTTGTAAGTAAGCACTCATTACACATTTGTAGATTGATTGGGCCAAAAAATGAGCAAGTGGATGGA + HHHHHGCDBDFIA89,75'6936BDHG=FFC>CFFHGEFFFEDHHFFEGBDGGFEEHGHHGG?HHHHHBGHHHHHHHHEHHBFFHHHFGGFHHHHHFEEF @read_150_421/2 ATCCACCCACTCAAAGCATCCCTTTAAATCCAGCAAGGCAGGGCAAGAGGCTGAAATTCAGCCTCTTGGAGGGATGATGCAAACTCTACGTTCCTTCCAA + HHHB@DDBGHHFHHHHHHHHHHGGHGGGEEEDDDFHFGBAAEHHGHHHFF@DFFGHFHHHHHGBEDGHHHHB2:FHHHHGFFHFG@:3@DEHHHHHHFHHHHFHH:C:>6BEBF=5<:5<41079BEHHHHGGHHHGHHEHHHHHHHHGDFHHHHFHHFC7E;;735 @read_150_426/2 TCAGACTCCATCTCAAAAAAAAAAAAAAAAACAAAAAAAAAACCTAGCAGAAGTTGATAAATTCGTGGACAATGTAGATCGGGAGTAATTTGGAGGCAGT + //C@=EHHHHFFFDFHHHHHHHHFEGGGB<<@@HHGHHHFFHG:?FGGDGGEFFHHFDHHHHECEB>A7F @read_150_428/2 TTCTGTGCTATTTAAAATTCTTTGGTTTCTTTTTGATTAAAATATTCTCATTTTCTTGTATTTTAAGGCATTATATCTGTCGCATTATTTCCTCTCCTGT + EEDGGHHHGHHGDBB?:9>C*+94=GFHHGBFHHGIE@CECDEHHHHHHGHHHGFFE8671*665@FFGFEEEEEC/3.>8?'17:<<8@FDBD?HHHHD @read_150_429/2 GCTCCTCCTCTTCTCTGGAACGAGATTTTTACCTTTCTCAGCTTCCTCGTCTCTCCCATGTCTACCATGGCAGTCTGGTTACTTCTGTGTTACGGAGTCT + GGHHHHHHGEGGFHFGFHHHHHHHHHGFGGHDCBEHHHHHHHHHHB=EHFEEHGB?BBFHHHE@@B=DAEEGHHH@@4:<=A8>DEE?BEHHHHHFFH=F @read_150_430/2 AACAGGGACCTCCCCCCATCCCTAGACCCCAGTACCCAGCAGACAACTGTGGGATTCTTCACATGATGATGAGGACATGCTCGGGCTTCTTGAGAGTTAG + FFFHHHHHFAACFHFHHHHFHEEBIHHHHHHDDDFHHHHHHFHHHHFEHHHGGGFD.@CD>DDGHHHHHH@84&)9>?EEHFGFFECDDB@GGB5,.A<5 @read_150_431/2 TCCCAATTTGAGAGGCGCCATTTTTTTGGAGGGTAGTGAATTTTGATTTCTGTCTCCTTTGCATCCTTCCCAATGAAAACTGCTTTCAGCCACTCTCTGC + HHHFG:?DDFHHHHHHHHHHHHHHF@>>:>EEGDHHHHHHHFFFB@@?EFHHHHHHHH@DF=C;DHFDDFHHHHHHABGHGFDBEEHHHHFCCFEHGDFC @read_150_432/2 ACCTGTAATCCCAGCACTTTGGGAAGCCAAGGCGGGCGGATCACCTGAGGTTGGGAGTTCAAGGCCAGCCCGACCAACACGGAGAAACCCCACCTTCAGC + HHHHHFHHHHHHEGGGHHHGDGGEFHHHHHHHHHHB5<6?CEHHHHHBHHHGHHHHEBDFHHHHD=;GHHHHHHHHHHG>FHHEFFGGGCDFFGHEGHHH @read_150_433/2 GAGGTGGGTGTGCTATAAAGTATCCCATGCTAGTTTTGGGGCTTTGACTCCGCAGAATAGTTTAGTCTTAAACTCTAGCTACCAAAATATGGATTAGCAT + D@A:94>->8>@DEEHHGGGBHHHFHHHB;+?HHGEHGCB5@A;CGDCFFDCGGIGBF?4-6=AGFHB3:B7,2;FE@@?CB@FB@BE@EEFCED2:1<3 @read_150_434/2 AGCCTTGAGAACAAAACTCTTTATGTTGACCAATATTTTTAAAAAGATGGAAAGAACTCTCTCTGGAGCTAATTTCAAGGAGGACAAAAAAGAATTTTGT + HHHHHHHHHHHHFGGHGGHHHHHHHHHHEFGHHHHHHHHEFHHFHGBAABGGFD/>GEEFEHDBFHHHEHGGHBBEEHHEHHG@EEDBHFHHFBHB;DDF @read_150_435/2 TCTACTAAAAATACAAAAGCTAGCCAGGTGTGGTGGTGTGTGCCTATTATCCCACCTACTCGGGAGTCTGAGGCAGAAAAATAGCTTGAACCTGGGAGGT + HHHHHHHHHHGGGHHHHHAFHHEGDBBGD.B59.BBB?=CHHHFEF?>CFFEFHGFEEEGHHHFFF=:ACE8BFHHHFDD>0/DB72::FHHHHDDDCF= @read_150_436/2 TGTATTAAGTTCTGTCTATGTACTAGACATTGGAGATAAAAAATATTAATGAAACAGAGTATTTGCCCTCAGAAGGCTCACCAACAAGTGACAAAACAGT + D@@B=DFHHHHHHHHHHGFHHHHEGGEGD@6657*FHFFFGFFBGHHHHFGFHHHHHHDGBFGBHHHHDGFG;==FHHGFEEFDC@;*/2AHHEGDDFHH @read_150_437/2 TTGTGTTTGTTGAAATGAGTAGCTAAATTCAACTATATAAGGAAACATATATCAGTCTCATGAATTTCAGTTTTGATTCATAAACTGTCTGCTAATGTTG + HHHHHHHHHHHHGFFHHE>@BFFHHHHE;=FHHHHHHHHHHHCDFFEGD.>>>=EGHHHHHHHHHHHHHHHHHHGGGHHHHHB?::;<@:*EE6C:AHHC:;?@6..>DGE @read_150_440/2 GCGTGTGCCACCATGCCCAGCTAATTTTGTATTTTTAGTAGAGATGGGATTTCTCCATGTTAGTCAGGCTGGTCTTGAACTCATGACCTCAGGTGATCTG + HHHHEHDBDDFEHHHHHHHHHHHCCHEDHHHHFHHHHHEGHHHHHFEHHHHHHHHHHHHHF?FHHHHHHHHHHFHHHGFB03+,.<?:@C/-23:EFFC>5DAEGF @read_150_442/2 CTCACAGTTGAGTAAACTAAAGTATGGAGAATGTTAAGGAACTTGGCCCAGAACTACAAAGGCAGTAAATGGCCCAGATGCCACAAAATGCTGTGCTTTA + 66A5@;@CBAFCEBFHHFFHHHHHHFHGGHFHHHG39B5>DB/0?EEEFGHHHHFDDCGHHHGGGHHHHHHHD::ABDDE=='@HHC6A3'%%).:86,1 @read_150_443/2 CATCAAATCAGGAGCGTTTTCTACTTGTCAGACACACGTACCAAAAAAGGTAAGTCATCTTGCCCTTTCCTTGGGGCCACCAGCATCTAATTGTGTTCAT + HHHHFFGGHHHHHHHHHHHHHHHHEEFFGHHHHHFFFHBEHHHHHDEEEHHHHEEEFHGGEBDBAEEFHHGHFDFHGHHHFFFDFHE--6EHH@DFFFEE @read_150_444/2 CATTCATTTGATCTTCCAGCACTGATACCCTTTCTTCCAGTTGATTGCATTGGCTCCTGAGGCTTTTGCATTCTTCACGTAGTTCTCGAGCCTTGGCTTT + HHHFCFEBHHHFFEABD8.:3BGEHHHHFHHHEEHHFFFGGHHHHHHHHHHHHHHHHHHHHHHHHHHHGHEGGG@HHHEHHD@HE@+@A922@0-5>?;9 @read_150_445/2 GATATTACAGACAGCCCCAGAATCACTGTGTGAGTCAGAAGATTTGGGCCTCTGAGTTTCACTTTCCTCATCCTAGAAACTGTGGTAAGAATTTATCCCC + HHHHHHHHHHHHHHHHHHGHHHEEDEHHHFHHD5139B?HG=DGHHHHHHHGDDBFHHHHHHHHHG0@?>GHHHHHHFFFGD?DDHHHHDDDEEE@DFFF @read_150_446/2 GTAGCTGGGACTACAGGTGCATGCTACTGTGCCCAGTTCAATTTCTTTTTCTTTCGTTTGCTATAGAAACGAGGTCTCACTATGTTGCCAAGGCTGATCT + BEED=B//34)2=5-+EFEBFHHHHFFHBHHGHHHHHHHHHHHFGHHHHHHHFFFHHGG=D:++471:@EGEEDGC?AC>+178:>?;6(;DDCCGGFHHHHF@EFHHHHFFFFFEE><,@1*,2(%))/=>CF @read_150_448/2 TACTAGGTCTGGAGAGTATATATTTTAAAAATCCTACCCAGGTTATTTTGTCAATCATTTCTGAGAGTTAGAGAGAGGCCATAATGCTGGGGCTTAGAGG + HHHHHHHHHHHHHHHHHHHGGHHHHHHHHHFHHHHFC3.59>B@?D<0@DHHHHHGGHHE83)7?DDGGGFHHHEEBAFBECA@BHH?EHHH??<>6=ED @read_150_449/2 CGGGCATCCTTGTACATCTTTGTAAGAAACTCGAAGTTTGGCCTGCGAGGTAGCTTGGGTGTTATGAAGAACGGCAGGCTAAAAAAAAAAAAAAAAAAAA + HHHHEFHHHHHHHHGGG=@@CEGEFEEGG8EFG@<>:BEHDFBEEFAEGGEEDDDIFHHHHFEGHHHHHHHHFGC:(%(+%&2(;DG>;;@ADFCG@BE= @read_150_450/2 TTTTGATAACTAAGGCTAAAGAAGTTCCTTCAATTCATTTTTTTTTTTTTGCTAAGTGCTTATTTTTTAACATTATAGTATTTGATACCTACAAAATAAT + HHHGHGBHHF@6?>.607>@DD;8.DGBFFHHHHHHE651;>.-@@.>CDF=;?=EHHHHHHHHHE;=7>GEFHDHGGEEHHHE@HFHHEHHFHHDEBEG @read_150_451/2 AGTTCTTTAAAGTTGTAAGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGACGTATCATTAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHFHHHHHHHHHHHHHFD@;EHHHFHHHHHEE=>>EHHFHHEGHHHHGEDHHHHHGHC=20&))2(/45.;@B>@FGBHFGHFDBCEEF@>.8DEHHHHHHHHEEEFH@CCGED@GDB;@B;CG@.5GGGHHHHHHHHHHHHHEBDB@DBDA=ADHGGHHGHHDEEEBFDDBHFEDDIDDB0:74:=A:2'2--,>7CFHGFFH @read_150_455/2 TTTAGCATTTCTTAAATACAAGATCATGTCATCTGTGAACAATAATAATTTTTCTTCTTTCTTTTCAGTTTTGGTTGCCCTCATTTCTTTCTCTTGCCTA + HHHHHGHHHHHHHH@EE@?DEB=B<11468:DBFHHFHHGHHGHHHHDF@95-5-))(*@?@C@>64>;E<95<:@>;?>EDGFEFDEC2==DGD@C>?E @read_150_456/2 ACAAATTTCCAATACAAAATTAGAAATGTTCCAAAATTGAGTCTACAAAGAAAGACCATTTCTTAGACTGGAAAATATAGGAGGCAATACCACGTTAAAG + HHFHHHHHHHHEEGHHHGHHHHHHHHHHHHBEEHHHHHHHHHHHABG6?DFFHHHHEEDBEDFHHHHFGGHHHHHHHHHHFFFHHHHA@%,<'@A3772F @read_150_457/2 TTTCCTTTTGTTGAAGACATGGGGGATTAATTTGAGACTTTAGGTTCCCTTTATCAGAGCCCACACTGGAAGAAATGGAGACAGCCACCGTTACAGCCAG + HHHFHHHHHHHHHHHHHGHHHHHHHHHHHGHFFHHHHFFEEBAHFFD;CDGGGHB@;::;?@@;<;B?<4(-')69DDDC5:.F;FFBGF @read_150_459/2 AAGCAGTGGCTTTTACAGCTCTCATGCAAGTTAGCACTCCTCTTGTTACAAAGTCTGTTGGCTATAGCACCCTACAGGATTATTTAGATCGGAAGAGCGT + HHHFHHHHHHHHHHHED=D?FEHHB:@DDBBGHHFHHHHHHHHHFHHBFBFGHGBGHHGHHHHHGHHHHHHHHHHGDC<<;5?:B>=@D2GBDEGHHHHH @read_150_460/2 ACTGAGCAAGGAATCAAGGATGCAAATATGAATAAAAGTACAGTCTAGTAAGAGAATCAGATATGTAAACAACTGTTGTATGAGAAAGAATTATATGGCT + HHHHHHHHHBB?DFGEGGHHHHFFHHHH?ADGHHHGFGHHHHE9/>5@EED@C;BDBA33>BCG@HGHHHHHGFFFGDEBEHGGGHHHHGGGHF<5=<(% @read_150_461/2 AGTTTTCAAAGGGAATGCTTCCAGTTTTTGCCCATTCAGTATGATATTGGCTGTGGGTTTGTCATAGATAGCTTTTATTATTTTGAAATACGTCCCATCA + HHHDG7*7//386A@EEE=EFGHHHHH@GEEEHHFHHFHHHHHHHHHHFFHHHFHHHHHGEHHHFHHHHHEBD>>FH:2>(= @read_150_462/2 ATTAGAAAGACTGCAAAACAATGATGTCTACATTATTCATGAAACAAAATTTGGAAAAATTTTGCCCACTTGGATGTTTTCTTAGCTTCAACTTAACGTT + DA;DHHHHHHHHHHBEGHHHHFGFFHHHHHHFCHHHFHHHGE=EG>:5,/99414@-;@::<;HHHHHHHHDEHHHFFHHHEDEHF;;5B>=DGEEFFF= @read_150_463/2 ATTAATTATCCTTAAATATAAAAGAGCATCATCTCTGCCATCCTGTTAACAAATCCTGTTTGTTTAGTCAGCCTGATTTCCATGGGGAAGCAGAAAGATT + FHHHHHHHHHHHHHHHHHHGHHFHHD=6GFFHHFE;CDGGGGB:;DBF @read_150_465/2 GCTGAGGCTGTCAAATAGTTGTTGAGCCAAAGTTACCTGTCATGGGAATCCTAGGCCTCCTGGGAATGGGCCTGTCTTAGTGTCCCTGCCACGCTCAGTT + HHHHHHHHHHHHHHHHHHHHHFHHHHHHHHHHHHHEHHDBFFFHHHHHHHHHHHHHHHH@@8?DC6>C>2'+AHHHHHHHHHHHHECFADFCDBFHF<<> @read_150_466/2 GGGTGGCTGGGATGCATGGGGTAGGTAGGGGTGGCAGTTTTTCCAAATTATACATTCAGGCCATATGTGGAACCCTTGCAGAGACCTGGCTTGCTGTTTT + @/HHHHHHHHCBHHHEEHFFCF@GEG@=GGHHHHBEGHHHHHGFEFFFFGCDDEEGHGGEF??EFEFGFFHHEEEGFHFGHHHHFHHF@EBB<<E>><6;HHHE?EDGHGF8DHHHHHFFHHHHGFHHHHHHHHHHGCCC96154.7@@>DD@FHGEHHGGHHHF5CGHHCFFGDECE:?:4,,= @read_150_468/2 CTGTCCTGTCATTCAGATAAATAAACCAAAAGAATAAAATATAGAATAAATCAGGCTGGGTGCAGTGGCTCATGCCTGAAACCCCAGCACTTGGGGAGGC + DFGGDDDGHHHHHHAGD55GHHHHEFHHHHHHHHH5EFGGHEHHHFEEGBGGIGGFEEGHHHE93EDEDGEGGG=BEHHH@@EEBFFHHE@FHFFHFHF8 @read_150_469/2 ATTTAAAAGGAAGTGAAACTTCAGACAATGTGAAACATGTCAGAGTCGTGTTTGCATTCTAAATTGCAGTAATGATATAAACATCATTATTCCTAATCTG + HHHHHFGFGEGFFFHHHHHHHHHHHHHHHFHHHHHHHDGGFEGFB0@BFF?;29>C@EHHHHHHHHEHHEHHHEECGGBEFGGHA=B0;/1<6, @read_150_470/2 TGTCTAAAATGAATGAGCAACACTATCATTCCCTCACTCTTTAGTGCATATGTGTTATAACTTTTAATAACTCTTCTCTACAATTAACTGAGTTATTGCA + HHHHGHHDDEGGHHG?D8EHHHHHHFGGHHHCHHHHHHFEHHHHHHHEHHDFCBEH?78D@CBFFHHHHHHDDA2<<4)&&85DGFEEFGGHHHHDEE?G @read_150_471/2 GTTTTTGAACTTAGTCCTAAAGTACAATCTTAATTTTAGGGTGTGGCCTTTCTGGGGTCTCAACTGAATGCCCAAGATGTTCAGAAAAGCCTCTCTGCGG + A?CBC@EEE@?<9E@6@FHHHHHHHEDDEEEHHHHFHEEIHHHHHHG@23.),,39@FHHH @read_150_472/2 TCTTTCATAAAAACTACTGCGCCTCAGCTCTGCCGTGGGGTCACCCAGTCATATGAAAACATGAACTATGTAAGAGGAAAGACATAGGCATACACTGAAA + FFHHHHHHHHHHHDGHHHFHHHHHHHHEBIH?GGBA;/DDHGBBC@-.EG=5<>DDHFHHHHHHHHHHEGEHHHHHGHHHHADDEGFCDD<3-273(@EE @read_150_473/2 TGGTGACTCTGAAAAGTGAGTTATCAGGAAGAGGAAAGGGACTTACAGAATAGGTCAAGAAAATCACCGCATTATGGCCGGATGCAGTGGCTCATGCCTA + HFHHHHHD-5:5?=A;@<@/CDHHHHHEFD,<=FHHHFGHHHHHHD:;CFEEEGEGCEFHBCEGC?FFA:EHGGGHH@.G @read_150_474/2 AAATATCTGGGTAGCTCCAACGATCGGGAGTAATTAGGAGGCAGTAGTTCGTCGAAACTCGGAGCGTCTTTAGCAGGAGAAAAAAAAAAAAAAAAAAGAA + HHHGHHHHHHFHHHHHHHHHHHFH;BGHHHHHHHE.6BGFHHHFHHEHHHHHHHGHHHHH?EGGFDCCDHHHHHHHHHFFFHHHFHHHFGF>B9>@>,6- @read_150_475/2 ACTTGTAGTTAGTGACCAGCCAATACGAACTTCATGTATGTCAATATCTTTTGTATATAAATGCCTTACTGGGATCTTCTCTGTAACCTGAAAGTCAAAT + HHHHHHHHHHHHHEEHHHHHHHHHHGHFHHHHHGEHHCGHEHFFEFBEEFGGGGE:@>2,2'&1/9:=GHHHHHFEF:A=DFHHHHCBEGHFE?FDHHFE @read_150_476/2 GCACTCCAGCCTGGGCAGCAGAGTGAGACTCTGTCTCAAAAAGAAAAAAAAAAAGAAGAAAACCAAAACCCAGTTAATCCTAAAGTGACTTTTTGCTCCA + 8D;2,<@FHHHHGEHHHHHHHHHFHHHBBD3-DEFHFHH8EEGCFDD/.>BEDCDEGHHHHHEFGHHHHFCCDDDCEC@GCFFEEGBDDGHEE95=D8F> @read_150_477/2 GCGCGGGCAGATCACTTGAGACCAGGAGTTCTGACACCAGCCTGGCCAACGTGGTGAAACCCCGTCACTACTAAAAATAAAAAAAGCCGAGCATGGTGGT + D@GFHDDCCGHHHGHHHHHHHFCGHHHHFBB=FDBEHHHHFGEEHHHEE535-CCGHHHHHHHHEGHHFHHHDGFBA?EE?.0FGHHFGEEBA?86155AFE @read_150_480/2 CTGATTTCCTACCTAAAATGGGTCCCTTCAATTCTCTCACTCAGACTCTTGATTTCCCATGATGGCACTCATTATAAACTTACCAAATTTTTGTATTAGT + HHHHHFHHHGDD;FFHHHHHEBE@@FGGFHCFFHFBHFHFGFCFHEHHHHHHGHHHHHHHFHHHGHFHHFG=@@C78>:<9CEE<>>?BHHFEFHHHHHHHHHFHFFH>:5BHHHHHHFHFEEEDAEEEHHHHHHHHHHHHHHHGGGF?5BAADBDFHCCGEE @read_150_482/2 AAAACCCTTTATTGTGGTTTCTGCTGGAAGCAATGGCTGAGGCAGGGTGAGCAGGCTGGTTTGTTTCAATAATGTCAGTGGGCTCTAGGGTAAAAAGGCT + 97B>>HEED<6=BGGBGGHHHHHFHHHHFHHHHFHFHFEEEB??8FFBBEDDCCEGHHHHHHHHHHGHHHFHHFHHHE?GEEHHHFEGGFEFGBEEFFBA @read_150_483/2 ACAGCCACTTTAAAAAACAGTATGAAGGTTTCTCAAAAAATTAAGTTGCATTGACCCGAAGGGCTCGATGTTTAGGGAGGTCAGAAGTTGAGCGGGTTCA + HHHHHHHHHHHHHHHHHHHFFFHHHBBHHHFFCBC@@56?EHHHHHHHHGFHGHHHHHEFHHHHHGEE6AFFEGHHHHHHHHEEEEBA=ECC@BHFFF?D @read_150_484/2 ATCTACTTCACGAAACCTCTTCAGTGAAAGAAGAAAGCAAATGCTTATCCCACACAACACCCAGTATACCTCAGTCTGTAGTCGCGCTTCATTTTCTTCA + HHHHHHHHHHHHHHHHHHHHHHHEGBHHHHHHHHF?=ADFGHGHHHHHFHHHGGFB732EEBEE?EC<:@C=@<->A,6@E>4<=4>DE @read_150_485/2 AGGACTGTTAAGAAATCACTGCTTCATTTCTTCAACTGGGCAGCAACTTGTGCTAATGAAACTCAGGTGGACATTAGACTGCCAGCCCCAGGGTTTCCCT + HHHHHFEEDG24531)-)6=2,30?:.9 @read_150_487/2 GCACTGGCATGAAGGATTTTGAGGCTGTGTCTTAATAATGCAGAAAAGGTTGTGACTGATTTATGATCTCAGGCATTGGAACAGCACAAAACACACATGC + HHHHHHHHHHHHHEEEEHHHHDF=EFD<43+'6(*?EGG?EEFGGEE<3.4@DDDGHHHHGHHH?>DCF?83CEEHHHHHF=HHD.;:6.(19+))*07, @read_150_488/2 TATTGACATTTTGCATCAAACTTTTGCTTCGGGCGATTTATTGTGTATTGTGTCTTGCTTATAGCATCCTAAACCACAACCTACTAGATGCCAGTAGTCC + HHHHHHHHHG8DGHGEHHF@CCAHHHHHHHGHHHG;:>==DFHHFDDDC;>;>78-,569-FHHHHHHHHHEFFHGHH>0>BCE/?=DEGIGEFGHHHHHBGA<@E9;7:>:@EGGG@555:@C:DBF<7EEE @read_150_490/2 AAGACAGTGGTTCTCAAACTTAAGCGTGAATCAGAATCACCTGGAGAGCTTGTTAAACGAGACTACTGGACAGGAGGTCCGGAATGCGGCCCAAGAATCT + HHDA=;FHHHHHHGEDFHHHHHCFHHHHH?@E@DD?BFHHHHHHGC?CCBGHHHEHH=;49<./%& @read_150_491/2 CAATAGTAATGGGTTCCATCCATTAGCTTTTTAAATGAATAGATCTGGTATTGATTTCCTTCCTGTTTTTTTGAGGCACATTCCTTTACAACCAGTGTTT + HEHHHHHHHHHFGFHHHHGHHEGGGF@DDHHFHHFHHHHFHHHHHFEGFHHHHHHHHHEHGHHHHHFFHHHHHDDC@0':FEGGFHHDGHEHHFFFEEEF @read_150_492/2 TCCAGCTTGTGCAGAGCAGCATGACATTCTTAACCAGGAGATATGGACAGCCCACTTACTTCCCATTTATAGTTGGATTTAAATGTTTTATTTTCATATA + HHHGGHHHHHHHHHHHHFFHHF9=DHHHG@FE;FFEFHHFAADBHHHHF=DFGHD@<<@D,3330/?<>CBFFFHHHHHGEHHFEGHFFGFE4;AEDHHD @read_150_493/2 CATTATGTTGCATTTCCTGTGCTTATTTCACAGTAGCTGAGAGGCCTGCTCTTATAACAGCTCATCCAAATAAAACCTTGAAAGGTATCAATCACAAAAC + EEEGCFGGGHHHHHHHHHHHHHF:.A:=GBDHGGHHHHHHBCC=?=;@EGGGDD>C@>C<@GGEG?@EEHBEEHFFFGHHHBHHHHB@HHFHHHFDCA5= @read_150_494/2 AACATATGTATGCATGTGTCTTTATAGTAGAATGATTTATAATCCTTTGGGTACATATCCAGTAATGGGGTGGCTGGGTCAAATGGTATTTCTAGTTATA + EEIHHEHGEEHHHHHHHHHFGHHHB:8AHGFHHHHGGHHHHHHFFFF3@2?>7:>DACDE@CDFHHCFHEBFBB;C,@HHHHHHHHHFFCDGD22)))AF @read_150_495/2 TGCTGTCCCTGGGGTAGGCTTGCCCCTCCTCTGTTCACACCCCTCTTTGGGTGGTCACCTCGCTTCCCATGGACACAAGCACCACGTTCAGCCAGATGAC + FHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHGEEHHEFHHHIE?FGGHHHHHHHEIFGGF=<669GCA,-8AHGGCA;>04=DD@DDFDDCA>A>EE>,> @read_150_497/2 ACCTCAAAGAAAGAGTCCTTTCTTTCCATGGCCACTGATACGGTGTCATTTAAGACCCTGATTTTTTCTTGTCTGGGCTATTACCACAGCCTCCTCTCTA + HHHHHHHHHHGHBHHHHHHHHHHHHHHHHGFHHH;EEHFC=8;AD=@DGIGEEEEGG/BBDBBBE4->/)EBDDGFC@BEHFHHHHE8CECHHHHFBDEF @read_150_498/2 ATATCCAAATGAAAATAGCTAGAAGCTTTTATTGGATATTTGTATGGGAACTTGTCCTATTCCTTAGCCATTTTTTTTTTAGCTTTTCCTGTTATCTTCC + HHHHHHFIGEFGEEHHHHGHHHGFG889<:?HHGDEHHHHHFGFDFGIGGEEEDDHG=BGDC@?GD==73:31:CDECB @read_150_499/2 TCCTCATTCACCCCTTTCCCCACTCCAGTAATGCTGAGCATCTTTTTATGTGTTAGTGGCCATTTGTATATCTTCTTTGGAGAACTGTCTATTCAAAACA + /+>>@BEHHHHHHHHHHHHFEEGFHHHHHHHHHHHHFDCDFFFGGFHDEB6>>21*(,7;-4EHD;BBF@HHHHFEHHHHHHGHFA7.7%.=:.;.C?A? @read_150_500/2 GGATTAATTTACAAAGACTCAACAACTGGAAACCTCTAAAATCATTGTAAAGGAAGAAATGATACTCAAAATCACAGAGTTTAAGAGATCGGGAGTAATT + FHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHFBGEFFFFDBDFHHHHFHD@86<3=GGFHHHHHEHHHHHHHHHFD166>5<;;ECHGGFIGHHHHHHH adapterremoval-2.2.2/examples/reads_1.fq000066400000000000000000003265041313314234200202150ustar00rootroot00000000000000@read_150_1/1 CTTGGGTACTCAGCCTTAGGGTACCACATAGAGTTATCTTATATATTATAATTGCTCTTTTAACATAATTTTAAAAAATTTATATTAAACTTTCTCTGTT + HHHFFFFBBDGGGGGHHHHHGGFCDHGEE<@;+@C792A.CEEGGFFFFDEFGFHHHH@C2;@F;EDDHFDCCC@.DEEEG=BGEDC5>:=2@GFHHHFF @read_150_2/1 GAGTGGGCTTCATCCCTGGGATGCAAGGCTGGTTCAATATATGCAAATCAATAAATGTAATCCAGCATATAAACAGAACCAAAGAAGATCGGAAGAGCAC + HHHHHHHHHHHHHHHHHHHHHHHGC.@CFGHHHHHHHHFBFFHEHHHHFBGHFFFFFFHEDE@EBHHFHB<<>099BEB@=?*59/''.CCFHFHHHHHH @read_150_3/1 TATGTAATGACATAACTCTTATGGGCAACTTCACAAAAACACAGAAGAAAGCCCTCCTAAAGAATGAAATTCCAAAAAAAATCAGGTTACTGCTCACTGA + HHE=EE@DBBBGHGBFGGDDDDFFFHHHHHGHHHHHHGHHHE7BFHHHHHHG@4FEHHFHHHHFHHHHHHFFFE?EGCDE>CD:9=>+*;=37::ADDHF @read_150_4/1 CTCCTATATAAAGATAGCTCTGTAAAACAGGCCAAAAAGCAGAGTGGGGTGTGGGAAGGCAGGGAAAACTGTCCAGGAATAAAGGCATGAAATGAAACAA + HHHHHHHHHHHHHHHHEG@:EEB4DFHHEHFHHHHEGFFEEFCDHEFF:+1;?GFFCFHHHHHHHHHFHBB>>BEDGCDHHHHF @read_150_5/1 TACTCACGGACAAAGAATAAATATAGCTCCTCCAGGAGCTTAATAACTCAGTGCTGTCTAAACTCCTTACACCTGATGTTGATGCCATGGTTAGATAGTT + HHFFGGFDBHHEHHHHHHHHHHHHFHHHHFHHFEEDFD8=GHFFHHDHHHCHHFDHBHD:> @read_150_7/1 TAAGTAAGGTAGACAGCTAAGTCTAGTTTGTTCCCAGTGTTGTACCAGTCTCATCAGTGCCGTGTCTGGGTCTCACAGCCTCTGGTGTTCTATGCTGGAT + GFFEEDHHGHHHHHHHHB?GG77-/:>>@?6AC5GIB?BEBHHHHHHHHHHHHFGFHHHHHHEFEGF9?EHHHE@8BB12BEHHH @read_150_8/1 TAAAAACAAAAACCCTGATGAGAGTATTGATGTGTGCATAAACAAAGAAAAACATAATAGGAATAGAATGGTGAATTAAATTTTGTGAATTTTGGAAACC + HGGGGGHHHHHFHHGHHHHHHHEHHHHHHFHHEEHHHHHFE:/CGBHHHHHGFFGHHHHCEHEFECEFHHFEEE>CFFFCE?DEBD @read_150_10/1 TATAGATGAACTCTGATTTAGAATTTGTATAAGCTAAAGCATTATAGTAATAACTTTTAAAGTAGTATTTAAAATATCCTTATCTTACGTATATATGACT + <506@6?GHHHHGFHGFCFHHHHHHHHHHFGFF<3@C43F>AAEEFBFDFFHHHHHHHHED(0DAEBEFC?BFBEHHHHHC@85@GBGGFDCHEHHFCFB @read_150_11/1 GCCCAAGCCATACTTCAATAAACGTACCATAGATGTGAAATACAGGATAGAGAGCAAGAGCTTTTGGCACGGTAATCTTAGATGTGGAAATTTACTCTAA + HHHGEGGHHGGFGGGFHHHECDDCCDDHHHHHHHHHHHHHFGGGHFHHFFHHHHHHHHHHHEHFFHFG?HHHFEE=EE8@8EEBEDHHHHHHHHBCDDHH @read_150_12/1 AAGGCCTTTGAAAAATAGTTTTTTTTTCTCTGACTACGTATTTGTTGTCATTGTCATCATATTTCCTCTTAATTCTCCAAGATAGTTTTACTTTGATTTT + HHHHHHHHGGGEGGGGGHHHHHHHHFCEBFGHHHEEHHHHHHHHHHBDGBHHHHHHHHHHHFFFFEHFFCDDDHHFGGHHHHHCCEHFBGHHFGHHEEHH @read_150_13/1 CCTGAAGCAGCTGGCTAGTGGCTTATTACTTGTGACTGGACCTCTGGCCCTCAATCGAGTTCCTCTATGAAGAAAATACCAGAAATTTGTCATTGCGACT + HHHHGCC8EF@E8DB'/DDEFGCEHHHGGBHHHGGDD>>?DHHHHHHFGCGC@DHFDHHDDFFHFHFDEFHFFFGFHHBBGFFHHHHHHH=>:8BE @read_150_15/1 TTTGATGGGAGACATTTTATTACAGATTTAATCTCTTTACTCATAATTTGTCTGTTCAGATTTTCTATTTCTTCTTGGTTCTATCTTGGTAGGTTGCAAG + BB;:DGEGGEEFHHHHHGHHHHHHHHHFHHGDHHHHGGHHHHHHHHHHHHEF77BFGGHFFGEDDF@GF;DCFFHHHHHHHHHHHHHFEBC@FFFFHHH; @read_150_16/1 TATTGCTAATTTCCCAGATTTTTAAATACTGCCTGATGCTTATATCCTGCAAGTCCTGTCTAAAAATCAGTCAAGATCGGAAGAGCACACGTCTGAACTC + B@EHHHHHHHHFGHHGGBB@?CFFHHHHHHFEEHE@@CADAFFC>AHHFHFHHHHHHHGGFHFGE6A=@8.>HHHHD4*BFHHHB=BEHHHHFFFFEEDE77<+(>4@EFDF @read_150_23/1 CAAGGGATCTAGACTGCTCTGTCTATGAGAATCTAATGCCCTCCCCCTCCACCATGGAAAAATTGTCTTCCATGAAAATGATCCCTGGTGGGAGACCACT + HHHFHHHHHHHHHHHHHHHHHHFFH@EHHHF8@;@DD=EEHCFFAEFGFHHFHFGD<+(4EDFHHEFHHFFFFFHHHHHDFGGHFHHGB=CF?@>CD?CG @read_150_24/1 GGTTTTGTTTTAGGGAAGAGGATGAGAGTCTTGGGCATCCGAGAGGACATGAAGAACAGGTTTCATTAAAGTAGGAACTCAAGTAAAAATAGTCATGCTG + HHHHHHHHHHGGGGFFFHHHHHHHHHHHFGGGGGHDBEHFEHEEGGHHFEDD?@>&7;>HHHHFHHHHCHFHHHDFFFHHFHGHHHHHHEHHHFHEHHHG @read_150_25/1 GCTGTTGGTGAAAATTCTTGTGATGTGTTTATTTATCTCACAGAATGAAACCTGTGTTTTTATTCACTGGGTTGGAAACACTGTTTTTGTAAGATCTAAG + HHHGGGD8/=B>:CCEGFHHFHCFDAFAEFHHHHHHHFDHHHHHHGGGDDECD@FFFGD8,;1 @read_150_26/1 TTGCAAGTAATTGCAGATGACTGTATTACCACAGGATAACATGAGCTGACATATTTTTTTGCTACATCTCCAATTGACTACTAGGCCAAAATCTTCATGG + HHHHHHHHHHHHHHHFGGHHHBGEEEGG=GDEFBEHHHHDHE?EHHHHHHHHFFBFHHHEHFFFHHHEED?BFB=DA?E?HHHEEHHHHH=>DHHFGHHH @read_150_27/1 ACAACAATTTCTTCAGATAAGTCCTTTAATTTAACCACATGGACCCAGCCTGGGATCTCCGGGACATACAATCCTGTCTTAGGGCTCAGAAGTGCCCAGG + HHHHFGHHHHHHHHHHHHHHBGDFHHHHHFHHGFEE?/8<2>CEA?7CG?FDE3FCFFCFHD?@FHHHHF79573>EDD;FHEFFFGHHFHEHHHHHHFFHHHHHHDD3,>DDDDDEEEEGCEHFBFFHHHHGGH @read_150_29/1 AAGAGGTGTTTAGGTGAATGGGATTAGTGACGTTATAAAAGAGGCTGAAGAAATCTCCCTAGTCCCTTTCATCCTTTCGGCCATGTAAGGACATAGTGTT + HHEHGHHHBDDFHHHHGHHGGGHHHHHHHHHHHFFHHHHFHHHHHHFHHHFFHHHHHHFD@FF<.+->@.;?,4FFHHHHHHHHHFB @read_150_30/1 CTCTCCCTACAAGCACCCAGAGCAAGCTGTGCTGCAATCCCAGGGACTTGTACATGGCCCCTTTCCCTCCCTTACCGCCCAGTCAGCCCCTGCATACATC + EEDFGDBB@CGFHHHHHHHGHHHHHHHEEEGGDHHHHHHHHHHGB=@FCHHHFEHHEEDD=+E?FHHDA>>12+(D8?FDHHHFHHCFF9:>FF@CDBEE @read_150_31/1 TCATTCAACCCTGTGGAACTCATCTCATCATTCTCTGTCTCCTGCTTCTGAATGCTTTAAGTCACTTATTTGTCTATCTTCCCCAGAGAGAAAGCCTGCT + HHHHHHHHHHHHHHHHHHHHHHHHHHHEEGHHHGGGGFFFEEDFCDHHFFHHEAD?FHFGEEE5<@;=>49GGHFHGHBEFB>ABBEFFFECEHFH @read_150_32/1 CATGAACACCTTTATGAGTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAA + GGFGEEE9DC346GGHHHHEFEGGHHHHFHHHHEGGGHHHHHHHHHHHHFAC=E7ADFFFBEFEEFH@DHFCHHHFFGHHHHHHHHEHHHHHD@?>CBFB @read_150_33/1 GCAACCTCTGCCTCCCAGGTTCAAATGATTCTCCTGTCTCAGCCTCCTGAGTAGCTGGGACTACAGGTATGCACCACCACGTCTGGCTAATTTTGTATTT + HHHHHHHHHH@@D?GD8GEHEB=EGH??:@GGGHFEFFFHHHHGFHHECFHHGHHHHHFEHHHHHFBFFHHHHHHHE<>@EFFC=9=GFDEEED65@BB@ @read_150_34/1 AAGAAAAGAAAAATGTAAACAAAGAACTGAATGCTGCTGAATAACAAAAGAGTCACTTACTTAAAAAAATAATAATTTCAGCTCATCTAAGAAATAGATA + HHHHHGGGGFFGGGGHHHHHDEGDGGGGGEFFGGFHHHHDB@FGGGHHHHHGHHHEFHHHFF@EFHHFAF>FDHEGHHHHHHHHEGGHHHHHHHHHHFED @read_150_35/1 TCAATACAGAATGATGCCAGCACAATGATACACAGGACAGCTGGGACCAAGAAATTTGAGAAGGTACAAATAAAAACTAAAAAAAAAAAAAAGTTTAATT + HHHGBBGGGGHHHHHHHHHHHHHHHHHHFHFFHFFHHHHHHHHHHHHHHFFHHHHHFHHEEHGHHFDFFHC?BFFFHHEHHHHHHGGBBEHHHFG86EFH @read_150_36/1 GGGTTTGTAAAATAAATAAATAATGTGAACAATACCATCAGTGTTTGCATAGAAACAATATGATATCATTCTTAAAGAGATCGGAAGAGCACACGTCTGA + HHHHHHHGFHHHFHHHHHHHGGEHHHHHHHHEEHHHGGFHHHHHHHHHHHHHFEHHHGGE=EDEFHHGEEFD@?E::;24>6383;(.501>HHHHHHHH @read_150_37/1 GGTCTATATGTGCCACATTTTCTTTATACAGTCTATCATTGATGGGCATTTGGGTTGGTTCCAAGTCTTTGCTATTGTGAATAGTGCTGCAATAAATATA + HHHHHHHGGFFEGFHHHHGBGD@??37=FFDAEFHHHHHHHHHHFEHHGGGHFEFFHHHHFFFHHHHEB-DHHEHHEEGFHHHGGHHFHECFGHHC@AFH @read_150_38/1 CAATGTCTGTTTCACCTTCACTGCAGTCTGTTTATCCAGCCTGGGAAAAAAACTGGCTCCACTTAAACAATGAGACAAAAAAGGTGCAAACCTGACAGCT + GFHHHHHHHHHHE=GGFFGEG2@BHHHHHHGGGHHGGGHHHHHHHEFFFFAHHHHFHHHHGHHFFFDA2<<@FC:;44:>2?@@69BDAHHHHHHEBHCH @read_150_39/1 TCTCCCAACCTTGTATGGTCCTAGGGGCTGTGATATGGTTTGGCTGTGTCCCCTCCCAAATCTCATCTTGAATTGTAGTTCTCATAAACCCCATGTGTCA + C?8>?EFF?E@@C@6C.5EFEHHHHF>;::)04>?EFG @read_150_41/1 TTTTCCCATTGAGTGTTCTTAGCACCTTTGTTGAAAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTCCTT + HHHHHHHHGGGDA@BCDGGHHHHHHHHHGGEFFGBFHHHHHHHHHHFHHHCC??.AABC5DDHHHHEEEFFHHHHHD=FBHHHGGGGHHDD-%-&2 @read_150_42/1 ACGGAAACTAGCCAGAGTGGACTCTGTTGTCTACATGCAAGAAGATCGGAAGAGCACACGTCTGAACTCAAGTCACCACCTAATCTCGTATGCCGTCTTC + HHHHHHHHHHHHHHHHHHHHHHHHGGGGGGFCCHGHHHFBDDEFHHHDHBFHHHHGFBFHEDFFEHHC63@@<.119;C@B@BHDFGHHHHEE?CBCEFF @read_150_43/1 GCAGTGGTGACATGCATGACAGGCATTTGGGATCAGATGTTGCTGATCCAGAAGCCTAGGTGTGGCCATTTTGTCATGGCAACTGATAAGCAAGTAAATA + HHHHHHHHHHHHGGEB@C?HHHFCCGEFEEIEHHHHHEFF>4:>B:4C@9CAFHHHHHG.DEE@D77=BEHGGBA+,-(+7,7GC'5BDD;B?FDHGGGH @read_150_44/1 CCTCCTGTGCCCTGACCCTAATGACTTTTCTTCTCCGGGAATGAAGAAGCCAGAACCAACCAAGGTCTCACACCTTCACCTCTTCCCGAAAACTAACTCC + HHHHHHHHHHHHHHHHHHHEEGHECGGHHEDHF<7;BAHHCBFFFHHHHHHHHFFHHDCE928D@6<@@>>FHHHFBC+8 @read_150_46/1 ATTGGTTTTTTTTTTTTTTTTTTTTGAGATGGAGTCTCGCTCTATCGCCCAGGCTGGAGTGCAGTGGTGCGATCTCAGTACACTGCAAGCTCCACCTCCC + HHHHHHHHHHHHHHHHHHCDD@EFCGHHHHHHHHHFHCDDFHHHHFDDDB>BHHHHHHHHHFEEFFGFDHHF/AF?CF8FBEFFFFFHFEBEEE @read_150_47/1 CCTGTATATCTTAAGACTTCTTTCCCTTAAATTATTACCTTCTCCAAGAAGATTTCTATAACCCTCTAGGAGAAAAAAATGGGTGTTCCTCTCCCCCAGG + HHHHHHHHHHHGFHHHHHHHHHHFHEEEEEGGHFB6D?CD@@DDBGFHFHHFF973:9@DDFFFGGHHFGCFFDGFGEEFFBFFFH @read_150_50/1 ACTGATCCCAGGGAAGCTTTATCTATAGTGAATATTGTCTTAAATTATAGACTTTTTGCCAGTCTGTACTAGATCGGAAGAGCACACGTCTGAACTCCAG + FF;:?GGHHHHHHHHHHHHEHFFGHHHHHHGGHHHEEHEFFHHHHFHHHHHGGDDECBDDEBBCD74AABEFF;B@<@@@FEGHHEEE>,E=ACHHHHBE @read_150_51/1 CAGAGGTGGCAAACCCTCCTTGCATAAAATATCACACTTGGGTAAGTGCAGTATGTTATGTGTCTTTAATAATGCCACATCAGCCCCAAGTATTAGATCG + HHHHHHHHHGD@3--5EFGHHHGHHHHHHEGHGEEDGGHHHHHHHHHHFHFFHHHHHHHHHHFD.CFCD4=E=DFHHHHEHHHFGHHHHHHHHBFF;;?> @read_150_52/1 GGCCAAAACAAGAGGCGGTAAAGAGAAAGGCAAGAATTGGTGGTCAAGTCCTGGCAGGGAAGGAGGACATCAGACATCCATAAATATCAAGAAGTGAGGG + HEEGGHHHHHHHHHGF?A;B57.+&1:/' @read_150_53/1 GATTCAGGAAGCTCAGAGAATACCAGGAAGGAAAAATGCCAAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTT + FFFGHHHHHFFFHHHHGHHHHHHHHHHHHHHDDEEG7DFEGGHHHFFGDHGGHHFBF?HFHHHFHHHFFDFF=EDFGFA@DFHHHGFHHH>CC;<61)&5 @read_150_54/1 AGTTAATAACACCTTCCTCTTCTCTGCTGTTGGATTCTAGCTTAGGTCTAATCTGTTCTAGGAAGACTTCCTAGGCCACCCCGTCAGATCGGAAGAGCAC + HHHHHHHHHHHGHGGEFDEHGHHHHHHFED>EHGHE?=?ECHHHHHHFHHHHHFHHFFH?=?BFHHEFEEFBGGHHHHHHHHHHHHGFFHHHHHGF;D<8 @read_150_55/1 TCCCTTCTTTTTCTTTTAATTTTATTTTTTACAGAGACAAGGTCACACTGGTCTCAAACTCCTGGCCTCAAGTTATCCTAAGGATTTTTATTATTTTTTA + HHHHHHHHHHHHEGGGGHHGEFGGGHGFEDDEGGEDGHHHHHHHHHHHHHFDHHGE?HHHHHEEEFFFHFFFHFDCEGHHHHHHEEEEFGGGGDGHFHHH @read_150_56/1 CCCAATCTGGCTTCACCTGGTGGTTCTCAAACCCAGCTAAGGAGTCATTATTAAGCAAATCCAACTGCCTGGGCCCCATCCCAAATCAACTAAGCAGAAT + HHHHHHGGGBCEEEHHHHHHHHHHHHHHHHFEECHHHHHHFCFDFHHHGHHHHHHFEHCBEFEFHH>EEEFDFB>EEACABGGHHHHG@@EGGHHHEE>@ @read_150_57/1 GTCATTTAAATATAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHHHFE?GGHHHHHHEEB>?D7>*CB?FHHHHHFHEHHDFHGHHHHHHHEHHGFHFHHHFHHHHG>BCEFGE=;CFFHHHHHHGFHFGGHGG?F @read_150_58/1 TCTGATATAAAATAGGAGCTCAGTCAGTGAGCATTCAATCAATAGTATCATGTTTCTGTCTCTGTCCCCAGCTCCCTCACTAACTCCCTTGGCCCTTATA + HHHHHHHFHHHHHHFGHHHHHHEAGHGGHFHHFHHEFFHHHHHHE+8>://6-3>FA7;@DDAED?FDF< @read_150_60/1 CTCTGTCATCTGTTTCTTGGAGGCTTGCCCCACATCAGGTGGGTGGGACACACCCAGGAGGCTGTGCTCAGGATTTCTGGCCCGTGTCCCAGGTCACCAG + HHHGGCEHHHEEGGCDGGBDGGHGGHHHGHHEFGFHHHHHHHHHHHEHEBCDEHEEEBHHHHFEFHHHHHF;@8,BDDEB>:.EE@>??BB>AA=CC??DEGGECD?;E8GGFHHHHHBE @read_150_63/1 TGTGGTGGCTGGTGCCTGTAATCCCAGCAGTTGAGGAGGCCAAGGTGGGTGGATCACCTGAGGTCAGGAGTTCGAGACCAGCCTGGACAACATGGTGAAA + HHHHHHGBEFDBGGGHHHHHHHHHHHFFHHHHHHDD@CGGBEHFGGGHHHFHHHHHHEBHGGEED<).3FGEFGHFHHGFHFH< @read_150_64/1 TAAATTATAGTTGTCTTTTGTAAACAGGATGTCAAATACATCAAAACCTCTCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGT + HHHHHHHHHGGGHHHHHHHHHGHGHHEH?;C@EFEEFE?AFHGGC:EEHHHHHGFFHHDBHHHHFHHHFFFGFDFHHHHHHHHHHHHHCD=CEACCCHBD @read_150_65/1 AGACCATCCTGGCTAACACAGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCGGGCGCGGTGGTGGGTGCCTGTAGTCCCAGCTACTCGGGAG + HHHHHHHHHHHHEEEFFFHHHGFHHHHFFHHHHFFHHHHFFHHHHHHFHFFHHHHHD?C4DDHFHHHDBFHFBB,8DBDE*2,)37?DDFFHGGGFGHHEFGHFEEGFE @read_150_67/1 ATTGATTATTGCCACAATTTCAGAGCCTGTTATTGGTCTATTCAGAGATTCAGCTTCTTCCTGGTTTAAGATCGGAAGAGCACACGTCTGAACTCCAGTC + HHHHHHHHHHHHHGGGHHHHHHHHHHHHEFGHHHFHHHHHFDCBFHHHHHFHHHFHHFHHFFEFHHBF0?CHHHGD,92>>9;DE?FEEEEEDEHCHHHHHHHHHEFFFECC @read_150_70/1 TAGAAGAGGTGGCCGTAATTGCTGCTTGTCATTAATATTTTTACCAAATGGATTTCTCCATATGGCAGTTCCTTTCTGTCATGGGTTATTTATAATCCTT + EFGGGHHHHHHHHHHHHGGHHHHGGHHF?DEHHHHHHHHHHHFHHHHHHHHGGAA4EBEEHHHHHHFCCBDHEEDHH??EHFFEFDEDCCFHHHHHHHGGHHBC,DHHH@E;CEGHHGHDFGGEEC@@A?HHHHHHEBEBADFHHFFDCEFEHFHHHFBEEHHHGDDEG;48ECEHHHHHFBD=CFHHHHHHGFFEC @read_150_74/1 AGTGTTTTAGTGATTGTTCAATGCCATTTAGCTAGACTGTGCACAATCCATTCCAGGCATCCCAGAGTCCCTGTAATACCACAAATGTACCATTTTATCT + HHHHHHHHHHHHHHHGHGGHHHHHHHHHHGGGHHHHHHHHHHHEEFGFHHHHHHBE?@FHHHFHHHFE5BEG?ABDDDDGGFGHHHHBFHHHHDGFFHHH @read_150_75/1 GTCCAGGATCCTGCTGTTGGCTGGGCTCTTCAATTATCCTCCAGGTATCCTCTCCCTTATCCCACATCCCCAGCTCCACCTTGTCTTTTCATGTGGTGTC + HHEA9<=DDEGFBGHHGEG@EGHHHHHHFE?:<<>FHGHHHHHHFGHHHHFFHHGHHHHHHHHHD==??=FFD=4?DIGED8EGGHHHGADD-?=EGDDFAHHHHHHHBEGHHF6@HGFHHHHHHHHHHHHHHGFFHHHFEE?HCEFFFHHHHEHEFHHHHHHHHHHHHHFGFF @read_150_79/1 GTGGCCGGGAGCAGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGTGTGGATCATGAGGTCAGGAGTTCAAGACCAGCCTGGCAGATCG + HHHHHHHHFEGGGGHHHEEE:>?HGEEE>><?BEHHHHHHHHHHHHHHHHHEGDGEB@8?B?=>CHHHDHHHFHHHHHHHHH<-=FEGHHH=?@>EEDDDDHEB:?BEA561 @read_150_86/1 TCCAGCCATGAGCCACCCCACCTGGCCTGATTTTTTTATTTTTAGTAGAAATGAGGTTTCGCCCTGTTGCCCAGGCTGGTCTTGGATTCCTGAACTCAAG + HHHHHE>DGFHHHGHHHHHHHHHGGHHHHHEGECHHHHHFHHHHHGFFDDD??@FHHHBFGBHGHEEBFFHFFFFEBHHEHHH=DHHEECG?DHGHGGHE @read_150_87/1 TTCTGACACACAGGAGTTTACTTGAAGACCACTATTTAACCTTTTGATAGCCTTTTATGGCTACCCTGGTCCCTGAGAAAAATGAAAATGCATTTGCCTT + GHHHHHGGHHHHHHHHHFEHHFHDHGHHHGHHHHHHHHFGEHEHFHHHHHHEEBFHHBD>(6E96DFHFHHB90%%&913>FEG@EBDFGHHHHHHHHHG @read_150_88/1 CCTGGTTCATTTACTAGCCACCTTATTGAGCACCTACTATACTGCTGCAAGCACCCCTTTTCTCGTGTCTCCCCTCTTTCTGCTGGAAGTTGCTTCCTAG + HHHHHHHHHHHHHHHHFEHHHHHHHGGGEE:?5CGHHHHEFHHHFD??B<=@=EDG@EDFHHHCGFHDFCFHHHEFFGHHHHHHHHHHHHHHHHHF?;-% @read_150_89/1 GCATTACGTTATGTGGCAATATTTACATCCTCTTTTAAATAAACTACATTCTGGATGCCACTGAAATTTATTTCTATTTAGTATTAAGTTTAGTAACACC + HHHHHHHHHHGGGGBBBAFHHGGGEDGDCEEBHHB297BCCBEEHEHHHHHHHHFFGFHHHFCDHHHFEEGHHHFGEHHHHEBG?HFDA9EFB@/;@?HF @read_150_90/1 AATTATGAGCTAAATAAATACTTCCTTGAAATCACTAAGTTTTGGGGGAGGATAGAAGATAGGAGGATATACTGAAGAGGAAAATACTGAGGACTTATTT + HHHHHGGFGGGGFHHGGFHFG>>=6FFHHHHHHHHEFFFEHHHHHHFFFGFFHHHHHDC?BDDDEHHHGFA795,@?HDDEFGGGF<(52:1-6:FE.-& @read_150_91/1 TTGACCTTCTCTCCTGTTAAGTGCAGTAGGGCTTCCCCTCTTGACTTTCCTGGTTATAGCTTTCCATCACAGCTCCCCACATTCTCTCTTGATGTTGAAA + HHHHHG@4-256EEEEHHHHHHHHHGGGHGHHHHFGG20=CA>9C6427HHHFEFHHHHHGGHHHHHHED @read_150_92/1 TAGTTTTAGATCTTAAACATTTTCAACCCTTTTGTGTGAATTACAAATTGTTTGACTAGTAGAAAATAAACAGGACAAAAACTGAGCAGTAGTCTTGTTT + HHHHHHHHEEBGHHF>>G>EGDHHHHHHHHHDDAFGEAD@<GCFCGDEEEEFGEEEHHHH@?EA7<6&0(2BGGHD @read_150_95/1 AAAACCACAATGAGATATCATCTCACATCAGTTAGAATGGCGATCATTAAAAAGTCAGGAAACAACAGGTGCGGGAGAGGATGTGGAGAAACAGGAACAA + GGHEGGHHHHGHHHHHHHHHHHHHGGGHHHHHHHHHEHHHHHFHHHHHFCHFFFGGBB@EFHDHHHHHD;4A(2*3C?A@=6)>DGGEGHHHFHHEEH=B @read_150_96/1 TGAGGAGGTTTAGGCTCAAGAGAAGGAGCAAAGTGTAACAAAAAGAGCACCAGGCAGTCAAGACCACTGACTTGCTAAGACCAAACCACTTTTTTATCTC + HHHHHHHHHHHHHHHHEEFGGGGHHGHHHHHHHGFHHHHFHHFF8@79@BDGFFFFHHHHFHFEFHB:BCFEFEFHHGGGFCACD>CEAC=9.3*/7/,99@< @read_150_99/1 TGACATTTACAAGGATGTTGATCTTGTTTTCCTTCATAATTTGGAGATGTAAATATTTCAAACTTTCCTATTGGTTCTGCTATTTGTAAATATACAGCTG + HHEGGGG?A>;EFHHHHGF?64>?FHGBHHHFCC>HHHHHHHFHHFFFFHFHHHHFEEDDEEHHHEHHHEBEFHFDHHHHHHHFGHHHHGGGHHHFFHHH @read_150_100/1 AATAAAAGTGAAAAAAGCAATCAACAGTTGAAATTGTTCATCACTAGCCCAACATCTTTCCTATCACATGCCCCTTCTTCTCTGCTAATAGAACCCCTAT + HHHHHHHHGGHHFCD=DCHHHHHHHE;@BGGCEGHHHHHFFGGGGHHHHCFGGEEEFCHCFF<;EFDBDCGGGGFDEGGEFHFFHHHFBFGGG;BD4>?E @read_150_101/1 GATTACAGGTGTGAGCCACCTTGCCCAGCCTATTGTCTTATCAACAGGATTAACGGCATTTTCACAAGGAGTAGATTCCATCTCAAGAAACCATTTGTTT + HHHHHHHHHHHHHHHHHHHHHHHHBCEBFFGGGCGGEEFHHHFEEHE?B;6DA;DEDHHFHHHHBBBEDBFAEE@CEGBCDBGBEB@?=@@>GFHEFGEF @read_150_102/1 TCTAATTTTGAAACGAAGATATTTCCTTTTCTGCCATTGACCTTAATGCGCTTGAAATCTACACTTGCAAATTGCACAAATAGAGTGTTTCAAATCTGCT + HHHHHHHHHHHHHHHHHHHHHHHHGFGGGFHFEEEFHHHHHHHHH?EEFGFGH=GGEBHABD@9@DFHFEDC8;9DDFHHHGE=GGFHHGHHECBDFFHH @read_150_103/1 CACACACACACACAATAGAATACTACTCAGCCATAAAAAAGGAAAGAATTAATGGCATTCACAGCAACCTGGATAGGATTGGAGACCATTATTCTAAGTG + HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHGGEBGGGGHHHHHHHHEFHHHHHHEFHHHHHHHGEEDEGFHHHHHHHHHEEEEFE@);@;AADDEFADHH @read_150_104/1 ATACTTCAGGGGATGAGCCTGGGTCCTCCCCTCCTGGCTGACAGGAGCCTGGTGGGCAGTGGGTATGTGGGGCCCGTGTAGGGGGGTTGGGCAGCACTGG + HHGEEGGHHHHHHHHHHHHHHHHHFEG@>BFHHHHHHHHHHHHHHHHHHHHHHF=DEDGE,-AHHHHHHFEHFD9DEEGEHHHHHHHHFHGFFFACEFHH @read_150_105/1 CATAGCCCTTCAGTGGATACGTTGGGGAATGGAAAATGAGTTATTCAATTGACTCATTCAAATGAGTCCTGGTTTTTCTTCCATAATATACAGATAAGCA + HFGGGFFFFFHHGGFGGHFFGGGDHHHFFBDEDGHHHG>;;?GHHHHHHHHHHHHHEHHHHHCFHHHH @read_150_108/1 TGATCTTTTCCTTTCTAGCTTAATGGCTTTCCTAGAAACAGAGCCTGAGGTAAGTATTGAATGCTAATGCTTTATTTAGGAGGTATGTTTTTATGGCTGC + HHHHGFBHHHHHHHHHG=2BGGHHHHFHGHHHHHE;>BBFDEF9BCC:,0FHHHHHHHHHEFHHHHBFFHHHHHFHHHHGGE=>>7DFHHHHCD.3>CDD @read_150_109/1 CTGGGCAGTGAGCCAAGCTGGCAGAGAGCCAGCACTACAGGAAGACACACAGGGAGAGTTACCTTGAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC + DDBBDD=DGFGGHHHHHHEGHHHHHFGHHGHHGFFHGC@CBHFE=CDA9FFHGGGEHHHHFHHGFDFF6<>9DABHHHHHHHHHHHFEEHFHHAGEFGGG @read_150_110/1 CGGTGGCTAACGCCTATAATCCCAGAACTTTGGAAAGGCAAGGTGAGTGGATCACCTGAGGTCAGGAGTTCGAGACCAGCCTGGCCAACATGGTTAAACC + GGFHHHFHHHHHHHHHHHHHGDGFA/10*=(,CGHHHHHHCD42:A>:CGGGGFFGHHHDEFFHHHHFFFGD;AC.3CCFGGEHGFEFFD+/>3+2;29; @read_150_111/1 GGAGCTCAGAAGGGTCTATTGGCAAAGCCCCAGAGACGATGTCTCAGGATACAGAGTGTGGGGCCCATTGGTACACAGGTGTCTCCACGCAGGGGCTGAG + HHHHHHHHE@EEEBFHHFFFGHGHHHHHHEHHHHHHHHFDEGDEEFFFDDACBHHHHFC;@FHEFFFHE4EEE>ABE?CDGEDFHDEEEHHHHHHFGFGF @read_150_112/1 TCACCATGTTGCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHHHHHHHHHHHHHHGGGGFGDFGFFHDDC?EACFFHHHHHHHHHHHHHFCGFFFHHHFEFDEFB@D@A4?7773,5*, @read_150_113/1 TCACGCTTATTCATTGATGGGCTGCCTTCTTACCACATGTCCTTGACATGTTTTAATTCCTTAAGTCCTCATAGTAACCCTAGTACATGTACTCCTGTGA + HHHHGFFEB2GGHHHHHHHHHHHHGFGE8EAEFC97B<7DDEC@FHHFDFDGD=HHHHHDGHEE??CCEHH @read_150_114/1 CATTGACTAACAGATAGTAAACTCTCAATATATTTTTACTGAATGAATGTGAGAATTATCTTCCCAAAGGTGTTTTATTATTCTTTATCAAGATCGGAAG + HHHFFFEEHHHHHHGGHHHFBGGGFGGGGGHHHH?@799;6DHHEHHHGDEEEDDBEEFHHHHHHFHHFEFFFFCHEEEFGGG=?BFEGGGHBBBEHHHH @read_150_115/1 ATTTCAAACGGAGCCTCTTCCTTCACAGTTTTCCTTCAGAGCTCCTTTTTTTGTTTCCATTTTAAAGTTATTGTTTATTCTAGACAGGGAATCCTGCCAG + HHHGDCHHHHHHHHHHEAGHHHHHHHHHHHHAFGFHHHHHHHHHEB=EDEHEEBGHHHDFHE4DCFFFGFG@FHHFFGEFDFFHHHHHHHHHECCFFEFH @read_150_116/1 GATGGCAATGAGGCGCCACCAAGGTTTTTATTTTTCAACTTTTTACTTTGGAAAAAAACATTTTTTTTTTTTTTTGAGACAGAGTCTCACTCGGTCACCC + HHHEFFFFB=DA?CFEHHHHHHHHHHFHHHHHHHHHEHHHHHHHHHFHEDHHGGHHFBBHH?CBDDDB;:*3>HHGEE:61<<;+7?>?D@(%C5<FGHHEFHHEHHEEHHHHHFHHHHGDCC823*/%2/1DHHHG @read_150_120/1 AGCAATTCTCCTGCTTCAGTCTCCTGAGTAGCTGGGATTACAGGCATGGGCCACCACGCCTGGCTAAATTTTGTATTTTTAATAGAGACGGGGTTTCTTC + GGGGHHHHHHHHHHHHHAHHGGHHHHHHHHHHF@?GFHHHHHHCFFFFHHHHHC?FFED=/BGHHHHHHHGEGHB=59ACA @read_150_121/1 CTCTATCTTTACCTCCAAAGTGCTTCCGCATCTCTTGTCCCATTTTCTTTTTTTTGCCCTATATTTTAAACCAGGATTCTGTTGCTGGCCATAACACATA + HHHHHHHHHHHHHHHHHHHHHGGHHFGE>>DDDDDEEEEHHHHHHHHFHFFHHHHHHHDDCEHCCFHHFHHFHHHHHHHHACC>?A?EFCHHHHHHHGFH @read_150_122/1 TGTGTCCTCTCTGATTTCACTGAGCAGTGGTTTGTAGCTCTCCTTGAAGAGGTCCTTCACTTCCCTTGTTAGCTATATTCCTAGGTATTTTATTCTTTTT + FHHHHHHHHHHHHHHHHHHHHFHHHHHHHFGFGGHHDFEEGDBBBDDCFFHHF;>;B)')6GDAACE @read_150_124/1 CTTGTTCACCTAGCAACATTTAACAATGATACCTCTTTTAACAATTCAGGATGTGAACGACATAAATGAAGATGGTGAACATAGATCGGAAGAGCACACG + HHHHHHHHHHHHHHHHHGFBGGGGGFFFEGHHH;FFF@ABCCE;@EEEHHHHFHFHFEHHEFEEEHHHHGBFDHHHHCHHHHGHHHHHHHHH9CHGGHHE @read_150_125/1 GACACCAGGTGGGCCTGAGCAGGGGGACCAAGCGCCTGATGGGCTGTGGGGCTAAGGGGGGAATCGGGTGGCTCCCGGGGGTACAGGCTGGGTGTTGGGT + FEEEDDDHHHFHHHHHHFHHHHHFEGGDFEGGHHHHHHFHHHHHHHHHHHEFHHHHHHHFHHHEHHHHHHFGB2?GDAAGHHHHBEHHHHHGCFHHGFFD @read_150_126/1 AAAGTAAGTGAACATAACATTAAAAAAATTCAAGGTGAAAATATCAAAGGAAACAATAGTGACTATTTCACTGTGATAAAAAGAAAATAATTGAAGGACA + HHHHHHHHHHHHHBGFDFHEBEBEEFHHHHHHHHGHG@CE829A-,>FHDEEFBHGHHHHHHFHHHHHHHHFEFFFBDHFBE756DFFDBE;BGHEHHEE @read_150_127/1 GCCTCATTTCTCACACATGTATAATGAAAAAATGGAAGTCCAAGGTCCTTCCAGATCTAAAATTCTACAATGTTATGAAACTAAATCATAATAGCAGCAA + HHGGB@@EEGHHGGGHHHHHGHG@;9>CAFDFFGGFFE:DDA>FHEBFHFFDFFFHHHHHHHHHHHFFFFCGGFFGEFFGHHHHHHHFGEBFCBEH @read_150_129/1 GGTGACAGAGCAAGACTCCAGTCAAAAAAAAAAAAAAAATGAGACCAAGGAAAGTGAAATAATTTGATTAAGAGCTACAGGATTTCAATACATTTGCTCT + HHHHEFEGG?>?D@CFGGG?AHHGFHHHHHHHGEE?EEHHHHDA=>EEEGHHHEEFHHHHHH?HHFFHHHHHHHHHHHHHHHHGGFHB8;E+'+8;CHHH @read_150_130/1 TGCAGATGAAGCTTGTCCGTGCCCAGTGCCTGAGTGTCTGGAGCTGTCTGCTGACTGGAGCTGGTGGCGGGATCCATGTCTTTCTCCTGCACTTGATCTT + HHHHGGGGHHHHHHHHGF?C=FGGDE=::2/&-6FFHHHHFFGHHFHFFFFFEEHHHFHH?D>FEHFFCDHFFDD4,04>DCFFHEE@CCDD4B-+)35D @read_150_131/1 GGTTACATCTTCACTTTGTAGAAGGCTAGAAGGCACAGTTTTCTGGCAGTTCAATGTAACTCAAATTGGTAACCTCCTTTTATCAGCTCCAATATTAAAC + GGGHGHHHHHHHHHGBEEHD;DHHGGDBGHGFFHCAFDEHHHHFFEHHGGFFHFGDEDGFFHFFHHHHHEHD@ADDDDDC>@8DHHGECCE@EHHHFGGB @read_150_132/1 AGTCGTAGGACACCATTGGGAGACCGGGCTGTCTCCAAGAGAAAGATGCCCAGTGGCCCCCAAAGCCTTCTTGAATCGCACACTTACCCCAGCTCTCCAG + HGGGGHGGGGHHEHHHHHHHHHHHBHHHHHHHHFGHHFHHHHHHHHHGHHHHHHFEFHHHFC?;DCFBFEHFFFHHHFFHHGEEE=9A<)84>CDEE;BFFDHHHHFFFDFD?EEA4D @read_150_134/1 CACAAACTTGTAAGAAACGTTTTAATTTGTCCTGTCAACTTCAACAAATTTACAAGAAAAAAACAAACAACCCTATTAGAAAGTGGGCAAAGGACATGAA + HHHHHHHGHFHGGGGGF8%9DBBHHHHHHFFFGGHFFHHHHHHH?E@:?BFHHBEHGGHHHGCEB,:0:))4;%');6=AHHHHFFHHD@FHH?=EEEEHHHHHHGHHFCHHFEHGGGGG @read_150_140/1 TCTAGAAGTTGTATTTCTTAAAAATAAATGTAATGTGGCTACTTGGAAGAAAGAAGAATGGGAAACGTTGATTTTTCTTGTAATCATTTATAGGCTATTG + BCDAADHHHHGFEHG=@;;>D@HHHHHHHHHHFHHED>AFHHHH @read_150_141/1 TCTAAAAGTTTTAAGACCATTAGGTTTGATCGTCTTTCTTCTTTAATCTGGAAAGTTTGTCTTCAATTCCTGTATGAGACTTTAGGAGTTTCGAGAGCGG + HHHF=FHHHHHHFFGHHHHFFHHHHGGHHHHHHEE=6FGEFFHHHFGFHHHHHHFHHHHHHHHHHHEFHCEEHFHHGFBD:;2E8BGFE6EEE@C2%9;F @read_150_142/1 CTTTCAGGCAAAAATTTTGAAGTAAGATGTGATGCAAAATTTTTTATTGAATTCAGTATATTTGGCCCTATATTCTTGACTGTAGTAGTCAGAGGAGGCT + GGFFDBEACBDBBEEEHHHHHHHHHHHFEEHHHHGHHHHHHHGBDA:EGGHDB??GGGFFDHFHHHA9>EFEDCFGFEDDHEEBDEGGHHHHHHFGF:DF @read_150_143/1 AGTCTCAGAAGATTTCTCTCCACACATATGAGTAATACCTGGCAAAAATGCTGTCCTCGGAGCAGAGGGAGAAGATGGAATGATTCGGTGTTTGATTAGA + HHHHGHHHHHHHGFEBDCHHHHHHGBEHHHHEHFFHHHHHHHGGG??/7DHHFHFFHHHHHHHEEHHHFFFBEDAFF6:.)35@:&+AGF7.33/BD>CD @read_150_144/1 GCACTCCAGCTTGGCAACAGAGCGAGACTCTGTCTCAAAAAAAAAAAAAAAAAAAAAAAGGATTTGAGCTAGAAAATGGGACCATTCGTACAATTCAAAC + FFE?@EFBGEFGGG:>CDEHHHHHH@0'-.6;@EFFFFGGHHHFED=CE/->99=FBB+3> @read_150_145/1 ATATCAGTTAATAAATGTTAGATTCATTGGACAGTACCAGGCACATAGTTAAAGTGCAGTAAATAGTAGTTATTGTTGGTATTGGTGTTATTTTATGTTG + HHHHHHHHHHHHHFGHHHHHHHGHHFFEHHEHHFFHHHHEHHDDBCDFHHHHGGGEHHHHFDB9BFHHHHDEEHFFHHHHHHHDE;:BGDEHHHHFHD3( @read_150_146/1 GGGGATGATTTTCTTGTGGTATGCCAGTGACATTGCCTCCTCAAGAGACCTTTTTAATTTAGCTTTATGGAAAGTAATATAAGATCGGAAGAGCACACGT + HHEEEBCCGGGGHHHHHFFHHHHHHHHEGGEHHHHHHHHHHHFHEEFAAFHHHHGGGFEHHHHHFHHHC@CBEC:;::=D?HHHHFHFEDEDDFFHHHFF @read_150_147/1 CAGGTTCTCCAAAGCAGATCGGTGCTCAAGTACCAGGAGTTTAGGAGTCATGAGGCTGAGAACCTCTTCACAGGGCCTGCTGCCCCACCCAGGGGGAAAC + GEEEGFFFHHHHHHHHHEHHHHHHHHHFFA9=CBHHHHHHHHHHFHECHFFFHHHHHHHHFHHHFFFHHFD349EDDDFHHHFEHHHFHHHHHFFEEHHH @read_150_148/1 TAACCTTGTCTCTCCTAAGGAATTAGTCATTTTTATCCTCTTAGTAAGGAGTTGTGAAATACATGACGTTTCCCTATGCACCTCCGTGCCAGGAATGTTA + HGCCEFGGHHHHHHHGE@AACCCGBEFHHDHFFFGHHFD8FHHHFADAAEAHHHC?AADDDGGADFGHHEF=B:>F>BDHGFFGHF @read_150_149/1 CAGGAGTTTGAGACCAGCCTGGCCAGCATGGTGAAACCCCGTCTCTACTAAAAATAGAAAAATTAGCCAGGCATCGTAGCGTGTGCCTGTAATCCCAGCT + HHHHHHDEEHHHHHHHHHHEGHHHGHGHHHGFA@HHHHC?GGHHHHHHHDBDB%395>@DEEFFAHFHEFHF@9EHHHHHHH@GGHHHHFFEFHHHFFGF @read_150_150/1 ACTGTGCATAGGGCCAGTGCCCCAACTCCTGCATTGTTCAGAGGTCAACTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGT + GGHHDHGGHHHHHHHHHHHHHHHHFGHHGGGEHHHHGGGGEADFHHHHH@FFGHFHHHHHHHHHFCHACFE=ADFFHHFHHHHHHHHHHHHHHGGHHHHH @read_150_151/1 GAAAATGAGAAAGAGTATTTAGAGATTTTACTGTCTGTGGTGGGTGATTTTAACGTAGGTCTTGCAAAGTAGGTAATTAGATCGGAAGAGCACACGGCTT + HHHHHHHHHHHHHGGGHHGHGFGFGGGHHHHH@HEEFHEGHHGDFECDAA=A?FEHHHFFFGGHHFHHHHHHHHHE26@CEHHHHHGHHFHG?B8.*>>> @read_150_152/1 AGTTTTATTATTGGTCTTCAATCAAAAGGCAACATGCCATTGATAGAAAAGGGTAACTTTACAAAATAAAATACACTGTTTCCCTAAAGGAATTAAAGAA + HHHHGGGFGFGHHD4FHEFHGGHHEFEEDFFHHHEFGHHHHHHHHHEHHFHFHCBDHHCHHHHHBAEDC8@EEEB=C=/1&;EDDHHHHHHHGFGFDDDC @read_150_153/1 TCTGTCTCAAAAATTATAATAATAATAATAACTGTATATAATTTGTGAAAGGAAGAGAGGAAAGAAGGAAGGGAAGGGGAGGGGAGGGGAGGGGGAAGGG + HHHHHHEEEHHHHHHHHFE:CHHFHHHHHFFGBGEFHHHHHHHHHEEBEFHHHHHHFFF@CDHHHDB>@CEA3;CFHGGEGHHHGFGHGB??DFBFBFEC @read_150_154/1 TTTTTTAAAACCTTTGTCTAGTAACTCCAATTTCTGTCCTTCCTCCAGGATGGTTTCTGTCAATTAACCTTGGTCCTTTGAATTAGTCATATTTTTGTAA + FEGGHHHHHHHHHFBDHFHHHHFGHFFFHHHGHGHHGFHHFHHHHFHHHHHHHHEFDEHHHHGGGD?DCDFFFFEHHHHHHHC@7CGHHE:?EEHHE><> @read_150_155/1 AAGGCTCTTGAGCACATTTTGGGAATATTGCTCTGGCAACAGCACATGGTAGAACGGAGTTTCACCAGTTTCCCTGGTGGAAAAACATGTTCCATGGCAA + HHHHHHHHHHHHEEBFCFHHHHHHHGGGGHHHHHHHGGHHHHHHHHHHHHFHFHHHHFECFGDFE?DHHHFEF4??ABHHHHFF?@DF< @read_150_156/1 GGATAAGGCACACACAGAAGAGTGTCATGAAAGCCTCCCACCCACCAGTATTTTCTGAGCATGCACCACATGCAGGCCCCGCAGAGGGCCTTCCACACCT + GGGHHHHHHHHHHGGHHHHHHHHHHHHGHGHGBFFHHHHHFGFF?EHHFGEEHHHHHHFHHFFFBFHHFGGGB:BFB?CAEHHHHHHFHEHHHHHHHGGHHHHHHGHHHHHHHHHHHEE @read_150_158/1 ATGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAATAAAAAA + HHHHHHHHFGHHGGFHHDFF;CEEEEGC=@?19@A@C@BCCEHHHHDHHHHHHFFFFHHHHBBFDDBDGGGHBGFGCAFG?EEEHH;@1<7>C=BHHHHHHHFFGHFHHHE;-*.<09CC@8A?GEB@FBGB@9>2?91:./- @read_150_161/1 ACTAAAAATACAAAAAATTAGCCGGGTGTGGTAGCGGGCGCCTGTAGTCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATGGCGTGAAACCGGGGGGCGG + HFFGHHHHHHHHHHHHHHHHGHHHHHHHHB-0:;6:EEHHEBFHFHHHHHHHHDFHFFHFFBBDFEDDEGHDBHEHHHHHHEHF5CD-5@;8;-&3DHFE @read_150_162/1 TCAAAATTTTATAACTCCTGAAGACCTGACACAAATACCACTTAGTCCACAAACCATGTCGATTTCCCTGAAATTCATCCTTTCCTTTAAATACTCATGG + HHHHHHHFHHHHHHHHHEEFBHHHHHHHEEBDDDE@?DHHHHHFHEEEHHHGHHF>,2>9%1>FHHFC??FHHHHGGEGHHGHHHGHHHHHHHHHH @read_150_164/1 TTAGGAAATAATACAGAGAGATCCTGCATGCCTGTTACCTGGTTTCTCCCAGTGATAACATCTTGTAAACTACAATACAATATCAAGATCGGAAGAGCAC + HHHHGEBGGFHGEGFHHGAAEEGHHHHHHHHGGHGHHHFFCBC.E>F9BHHHHHGEFHHHHHGD=FFDEEEC>EHHHHHHHGGEB<6=A>@>ADGFB>5* @read_150_165/1 CCCCATGAGCTAAGAATGGTTTTTACTTTTTTGAATAGTTGATGAAAGTCAAAAGAGAGGGATAATATTTTGTGACATGAGAAAATGATATGAAATTCAG + HHHHHHHHHHHHHHHHHFEEHHHE=BEHHHHHHHHE@916FHHHHHHEEHFEFFFH?HHHHHHFEF=CCC?@6,:GCCDHHGGGHHHGG703:(5(33&( @read_150_166/1 CTTAACAAAAGAGAAAGCACAGCACTTTCTGATCCAAACTGTCTTTTTTTTGTATCTGTTATTTAAAGCCCAGTGGATATTTCAATTAAAAAAAAAATCT + HHHHHHHHHHHHHHHHHHHHFFGF>EHHGGGBFFHFGGGFHHHFHFEBB;GCFHHHHHFBDDDEHHHHHHGD=@?CFFF@BHHH@F @read_150_167/1 TTGATTACTGTAGCATTATAGTAAGACTGGAAGTTGACAAGTGTCAGTACTTCACTTTGTTCTCCACCAATATTGTGTTGGCTATTCTGGGTCTTTTGCC + DBFGGGGFDFFHHHFEGCC>DFHHHHHEEBGGHDCCEBHHHHHEDBEFBEHHHCBCHHHH@FEHEHEDDD7:@C52>?ACGGGHF=GEGH@E@3DA?A>5) @read_150_171/1 CCTTCTAAACAGAATATAAATAAGACCTTAACCAAAAGAGAAAAAGTCTCTCTACTTTCAGAAAAGCTAAAAACTATTCATGTCCCCAAACTTACTATTT + HHHHHHHHHHHHHHHHHHHHGGHH7;EFHFF;EGGGEFH @read_150_174/1 CTCAAATGATATGAAGCAAAATCTGGCATTATAAGAAAGAGATAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTT + HHHHHHHHEFHHGBBGFHHHHFHHHHHHHHHHHF?FAGDFFHHHHHHHHHHHHHHE7>AC7:BFFFEEHHEEEFFFFFFHHHHHHFGHHGHHFHFHHHHH @read_150_175/1 CTAATTTTTCTAGAAAAAAATAGAAAATTTGTCACTGTTATTTACTTGCACTTAAAAATAAAACAAAATATCACTCAAAAGCAATGACTTATGTTTCTTT + GHHHGGHFHHHHGB=DDGFGHHHHHHHHHHHB=4>@HHHHHHC?DGD11<9@HD;GA?;@CABHHHDFHHHHDFEHHHHEEE.8(5>H @read_150_176/1 AGGGAACACAGGGTATTTCAAAAAGCTCCATAAGCAACTAAATTGAGGAGTGAAGAAAAACGGACAAAAATAATGAGATTTTAAAAGGGTCTTTTGCAAA + HHHHHHHHHHHGFBCEHHHHHHHHHHHHHHHEEHHHEEFHHHHHHEHHHHFAHFFHE@A7-/11-+5=GHGEAA @read_150_178/1 CCTTCTGGGACGTCTTTTGAAATCTGGATGGAGGCTGCTAAGAATTCGTAAGGCCCTTGGAACAAGCAAGAAACCCTATGTTGGAATTTGGGGAAAAGAG + HHHHHHHHHHHHHHHHHHHHHHGGGGGGEFHEFGGFGGHHHC=;@F9CEE19DDCDDF?FHHHFCBEGA::/DCDFG===6<>EFHHHHHFHHFBCFGEHHBDBA??@D=BHHHF/)?9>>AD=C4@ @read_150_180/1 AGGCACCTGCCACCACACCTGGCTAATTTTTGTATTTTTAGCAGAGACGGGGTTTCACCATGTTGGCCAGGCTGGTCTCGAACTCCTGACCTCAGGTAAT + HHHHHHHGGGHHHHHHHHHHHHHHHHHHHHEFEAA4FHHHEHHHHHHHHHHHHHFEHEFHHHEFFDDB?;>ACGGEFGDFHHFEHHHHEED67@;*28,B @read_150_181/1 TTGTTTAACAAGCTTATTATGATACTGAAAAAGAATGGTTACCATTAGCAGAAGCAAGAAGAGATGAAGTTTTTATGTAAGTAAAACTTCACCTAACAGA + DGGEEDBGFGGHHHHHHHHHHHHGBEFHGHHFCDEHHFFGDHHFHHHFFFHHHHHFHHHHHHHHFHHEFEFFFC?7)/(187179><@@BFF@C893>3/ @read_150_182/1 GTCTTGAACTCCTGGCCTTAAGTGATCCTCTCCCACCTCGGGCCTCCCATGTTACTGGGATTACAGGTGTGAGCTCGGAAGAGCACACGTCTGAACTCCA + HHHHHHHHHHHHHHHHGGHHHHHEGHHHHHF;=>FHFE @read_150_183/1 AGGTGACTGGTTGCTGAAGAAAGAGTACCAGGTGGAATAGGACAGCAAAGCTATGGTGACAGAATGAAGAGATTGACTTCTTTGCTGCCTTCAGAGAACA + HHHHGHHHHHHHHEBFEHHGGGHHHHHHGGHHEEHHHHDEEAFHHGDEFGEHHHHHHHHHFHEFFEFCFF?2D;DGDD@GGCBF?FEGGGEEGG@ADEGC @read_150_184/1 GTTCTGACTGATCAGAAGCAGCTTCCACTTACCATCAGTGTCACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCT + HHHGHHHHGGGHHHGGEEEEGGGDCCFEFFHHHHHHHGG:EFFFHHHHDFHHHHHEDCEHHHDDABDFFGG?CEHHHHHHEFHHGHFHDGFEDBD9EHFC @read_150_185/1 GCTATTGCACATGTGCCGAAGAAGATATTATAAGATTTGCAGAAAAAGCAGTTATGCTTTGGAGATAAGAAAGATCGGAAGAGCACACGTCTGAACTCCA + DDGGHHHHHHFFHHHHGHHHHHHHHEHEEEHGGHHHHHHHHHCDDGDB>CDDFHHEFF=9EGHHBFFDHFHHHFHHHHGFHHFFHHFFHFBEHHHHEFCA @read_150_186/1 GCTTGAGAGGCAGCAATATGATGTATTCTTTTCATAATAACAAATAGGGCATAAATAATAAATTTATTTATTATTTTGTTATGTTTAATAAATACACATT + HHHHHHHHHHHHHHGGBAADGHHHHHHHGHHDGHHHHHHHHHHHHHHHEEDEA305;ADB?FHHGFFFB?A=DDFFHHHHHHF>BEFHHHED097BDBEH @read_150_187/1 GACAAAATGATTCTCATAAACTCCTTTGTGATGTGTGCGTTCAACTCACAGAGTTTAACCTTTCTTTTCATAGAGCAGTTAGGAAACACTCTGTTTGTAA + HHHHHHHHHHHHHHHHGHF@EEEEEEEGGHE.6HGFEEGED4:>DFE<@HEGGHHHHHFEFHHHHD.=@? @read_150_188/1 GGTCCCCAAAAGATCCCCAGACCTGGGTCAGGCACAGAGCTGGTACTCAGGAAATGATTCGTGGATGCTGGATGGGGAGGAGCCGAGCTAGTGTGACCCT + GHHHGGGEFE:5?BEEHHHHGHHFGHHHEDHHHHFFHHHHHH?FFHHG@DFFFHHHFHHHHHFFFFHHGHFFEGB54,2@C47@GG=FEBHFHHHHBFFD @read_150_189/1 AATGGCCATTAGTCATTCTAAGCAGAATCTGCTTCTTCTCTGTAAAATCAGTTGTATCTTGAATGGCCCTTTTCTTAAATCTTCTGGGGCTTTTTACCCT + HGGFGFHHFFHHHHHHHHHFHHHG@HHHG=G?HHHHHHHEGEHHHHHHFFHFEHFHHHHHHHHFFHHHDDF@CCCEEEBBE=HHHGHEACHHEHHHFDHF @read_150_190/1 AAAAAAAAAAAAGACTGGGAATGGTGGCTCACACCCGTAATCCCAGCACTTTGGGAGGCCAAGGGATCACTTGAGGTCAGGAGTTCAAGACCAGCCTGGC + HHHHHHHHHHHHHHHHHGGGGHFH<9@@GFAAHHHHHFHHHHHFFFHHFF7=?>@A-B=<>36EFHFDG=FEEEC?@CEEHEDHHHHHFE?GGFEHHHFF @read_150_191/1 TTTTGCGTTATCTGTTTTATATTTTAGAAGAGTATATTTCACTACATTATCCAGAGGGATTTTGCTCAGAATCTCATTAGTGTGTTTTGAGTCAGATCGG + GGGGGGGFFD=C?<6BBFHHHHHHHHHHHHHHHEGGFCCCHHHHHHHHDDGFHHHHHHHHHEEEHHHHFFHFFHFHHGGGFBHGGCDDB4>C@1817EDCFH@ @read_150_193/1 TTACATTTCCACCAGCAACACATGAGAGTTCCAGTTTCTCTGCATCATCAACACTTGTTATTATCTGCCTTTTTTATTAGAGCCACCCTAGTGGGTGTGA + HHHHHHGG@>CGHHHHEFF8@HHHEBFHGGB?<55BBFHGGFHHHHHFFHHHHHEDD3>CEF @read_150_194/1 AGGGCCGTTCCATCTGAGGTGAAGACAGGCAGGCATTTGTTAGGTTTGCGGGACTGCTGGGTGACATGGTTCAGCTGTGTCCCCACCCAAATCTCATCTT + GGGHHHHHHHHFFGGHEEEEGFHHHH@GG>-79.EFBBGGGGHECFEFHFFFFHHHHHFH @read_150_195/1 TTTGTTTCCTTTGTTTCTTTTTCTGCTTTTCTTCCCCACTGCCTTCCTTTGGATTGTGTTTTTTTTTTTTCTGGTTCAATTAAAACATTTTTTAACCGAT + HHHHHHHHHHHGGGGHHHHHHHHHFDCHHHHHFHHHHHFFHFHHHHHHBDFEHHHDFFEEHHHFFFFFFBEGEHHHHHFFDEGHHHDDFHHHHEFFFFBC @read_150_196/1 ATTTCTTCAGAAGGAGGTTGTCAGCAGTGGGGTGGGGCTGGGAAGAAAGCCACAGTGAGGCAACAGGTGCAGGCATGGAGACCAGAGCAAGCACAGTGTC + HHHHHHGGGGGFFGGGHHHHHHHGHEEE@@GHHHHFHHHHHHHHEHHHHHB=CFEEFFHHFHHHHHFGEHB@:BEBDGGGF>HHEHHHHHHHHHFHHDE, @read_150_197/1 TTCATCTTTTTATTTTATTTATTTATTTATTTTTTAATTTAAGAGTTAGGGTCTCACTGTGTCACCCAGGCTGGAGTGCAGTGGCACAGTCATGGCTCAA + FFFFGGGHHHHHHHHHHHHHHGHHGBFFHFHHHHHFEB@9)4CFGGGGHHHF@DHHHHHHGHHCEGFHFHECB49DEFAFFHHHHDDBBHHHF>EHHFBH @read_150_198/1 CTGCCCAGCAGCAGCTAGGATACAATATTGGTCTCATAGGGTTGAGGGGTGAGCGTGTTATCCACGTGGAGGGTTATCCAACAGAGTGTTTGGCTGGCTG + HHHHHHHHHHHHHGGGHHHHA4E@CD;DDFHHB@BGGFFGHHBEFDDCFHFHHHHHHCB@EEEEEBGHHGD?GHHHHHGEAHFECDDAFFFEFBB2<.CDFFGHHHHHHBHHHCDED=.6:2687?CEBDBGHHBHHHHHGEFHH @read_150_201/1 AATGAAAAATCAAGTAATGAAATTGTCAGCTGCATAGCCAGTAGAAAAGACAAAACCAAAAAGAAGAGAAGGAGGGAAAGAGGGTGGCAAAATGTAATGC + HGFACDEE@?BCGHHHHHHHHHFHHHHHHHGEFEGHFD48./6@FFFDEHHHHHHHFHHHHHHHEFFHHHHHHHHHHHHGHHHFHHHHGFFD/%7?5CBB @read_150_202/1 TCATCATGTTGGCCAAGCTGGTCTCAAACTCCTGACCTAAGGTGATCCACTCGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCATGAGCCACTGCACC + HHHHHHHHGGGGFHHHHHHHGEHFHHHHHGHGHHHHHGHHE?DHHFCHHHHHHGHEDC<.9(7:9FHHCCFHH?DFEEEDEFFFHHHHHEGGBFCA:DDC @read_150_203/1 CTATAATTACTCAATATATTGTTACTATTGTTACTTTAAACATATAATTATAGATCAATTAAGAGTAAAAAGATGAAATATTATCATTTACCTTCATTTA + HHHHHHGGGHHHGHHFHHHGGHGHDDDGGBDB@HHFEHHHHHCFFCFFDEFFF;?F;DGFFFHHHDFHEEEHFGFHFDB?B9C @read_150_204/1 CTTTAGAGAAAAAATTGACTAACTTCAGAAAAGATTTTGTAGTTGAATTAAATCTCGTAAACATGAGTAACAGTTATGGCCAGAGAATAGAGTTTATGAG + GEHHHHHHHHHHHGGCGGHHFHHHHHD@FFHEFFGGGC??59>,>DFHHHHHGBHHHEBAB?DC>FHHEE?1772=>@BHHHHHFGGGGHHHEHFFHHHH @read_150_205/1 CTTCCTGGCTAGACCACGTCAGAGGCCACTGGCAAGCCTGTAGCTTCCTGCCGGTTGGCTTAGGTGTTCTGCTGTGGTCCCTCAGCTGGGGTCGCTATGG + EGGGBEHHHHHGHGHHHHGGDFFHHHHHHHGGFAHHHFD8:9EFFHFFFHHHHDDHAFHHEFHHHHDFHHHFFHHHHECEFADBE9+,1;3:8.924:'8 @read_150_206/1 ATCTGTGTAGTTTTAGAACACTGGGAGTAGCCTTTAGAATCGAGAGGAAGAGGCTCCAGTGAGTTATGAAGACAGCATTTTCTTGAAGATCGGAAGAGCA + <=DBGGGGGFDHHHHHHHHFCGHHHHHEEFHHHHFDDEE@HHHHHHHHHHHHHHHE/36GHFBHEHEEFHFFFDADAEDED.EBGHEFEHEFHHFFHHHH @read_150_207/1 AGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + GGFHHHHEHGHHHHHHFEEHHHHHECHHHHHGGFFHHHHHHHHHHDCDFHD?AAD673ADDFHHDFFFFFHHHHHHHHHHFDDBGD>CDCDCHEGHHHHF @read_150_208/1 TAAGCATCTTAAAAGAGAGCAATATTTTAAGAATAAAATATGTTATTTTTAATCATTAGCCATTGTTAACTGCGATGTAATGCAGTTTTGTCAGCCAGGC + HHHHHHHHHGFHHHHHHHHFFGFFHHHHHHHDCBGFHHHFHHHHHHFHHHHHE<+A@FEFBDDFFHHHFHEBDFHHFEDHHHHFFDFHHHFEEHHFGFD? @read_150_209/1 GCTTGGGCTCAGAGGCCTGACACCAGGGAAGGCTTCTGATTGATCCAGCTTGAGTCTAGACTCAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACC + HHHHHHHHHHHHHHEGGGEHHFFFFHHHHHHGEEFHHHHHHHGHHHHHHFF=5D@>?DFHHHHFFHHHHHGGHHHHHHDGFFHECFDEFGHHHFFHHGHG @read_150_210/1 ACAGTCAAGTCCATGGGACTTTTTTTAATAGCAACTCAGTAAATTTATTGACTTATTTTAAGACTGTAACAATAGAATTGTTTTCATTTTAGCACTTAGT + HHHHHHHHGGDFBFEHHGHHFGGGFGGGGHGGEEDD/EBFEHHHHHHHHHFB?DDFGFHEEHHFGHHE@E3)'9?GGEEDFHHHHHHGG@G=DDE5BBGG @read_150_211/1 TTTATAATTTCTAATATATTTGCCACTACTAAGACCTTCTTCATGTTGCTGTCTAGTGTCCTTCCATTTCAACTTTTTAGCATGCCTTGTAAGAAAAGTC + FDEDDEEFGECD=CFD?FGGHGG??GHFFBG;@CG<9>EIHHHHFHHHHHHHHHACDCEFFHHHEE@BFHHHHEFHHHGGH?@@BHHHHFECCABHHHHH @read_150_212/1 GTCTAAGACACAGACACTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAA + HHHHHHHHHHHHGGHHHHDFHHHHHGFFHGGA<6?GDDAFBGFHEHHFHEADCBHHFFFHFEEHHGHEGGFHFEEFFG@GHHGHGHHHDFHHHFHHHF@F @read_150_213/1 TATGGAAAGCTTCAGGCTCTCAGAATTTGCAGCAGCAGTTCCAACTTGCAGATGGCAATAATTTTAGTAACTGCTGCCACCACTTGGCCCCAGACAATCA + HHDGHHHHHHHHHHHHHHHHHE@<=BE@@>FGC54@DHHHHHHDAA:??9EHFD;7AF-C??+9>BE=DDDEHHHHHHHGGGFCEHFHHF<86CHFHHHFDBCBEHEHHHHHDDADGGBGGBEABDBDFHHHHHGE@C>DF @read_150_215/1 TGATACAGTCTCATATAATTTCCACAATAGTTCCATGGGACAGATTAAATTATTAGCCCAGCCAATGGATGGGAAGGGCAAGTAGGATTTTATTTGCCAA + HHHHDFBEGGHHHHHHHGHGHHHHHHHGHGFHGA5ACE @read_150_216/1 CATAGGTACATACCATCATGCCTGGCTATATTTATTTTATTTTATTAAATTTATTTTTTTTATTTTTGTAGAGAGGAGGTCTTGCTGTGTTGCCCAGGCT + HHHHHHHHE@:CHHHHHHHGHHHHHHHFGHHHHFFFBDFEHHHHHHDHEEEHHHHGGDGHFGD>@HHHHDFC9*>,(, @read_150_218/1 CAAGATTTTTGTCTACTTTGTTAACTGATGTAGCCCCAGAGTCACAGTAGACACTAGAAAAATAATCATTAAATGAAGGGAAAAAAACTCAGTGGTTTAC + CDEECBFFFGHHHHHHHGGDEGHHHGGGHGE?86ADEEEHHHHHCGEB@HHEGHGFHHGDD;;@GE?;<)/-8*11 @read_150_219/1 ATCTCATTTAAAACACAAGGGACAAAAGATACTGTATTACAACTGGGAAGCAGAAAGTTAAAGCTCCTTCAGTATCATCTGAATTAAAACAGAAAGATAG + @FFFGHHHHHFDEGHHGGGFHHHHEHHHG@EGGGFHHHHHBEFGFHEGGGHHFGGHHHHF>>@=>FFHHH;?HBGDGHFHE;'/07. @read_150_225/1 CTAAAGGTAATAAGAGCCATCTATGACAAATCCACAGCCAACATTATACTGAACACAGAAATGTTGAAAGCATTACCCTTGAGAGATCGGAAGAGCACAC + HHHHHHHHHHHHHHHHHDFHHHHHHHGGEFFE5?BEHHHHHHHHHHHFHFHHFDDFFHF>GFHHF@DHFH?EFFFE9ECFHHHHHHHBHHF9*,>CHFGC @read_150_226/1 CCTGAGAGTGGGAGGGAAACTACCGTCATTCTGCTCATGTTTCTTCTTGACCTCTTGCATAATCTTTTTGTTTTCTAGACAGTTCACTAATTGTTGAATT + HHHHHHHHH<=DDFHHHDE?DFDGEDHHHHEDDBBHH:DCFFFHHEFFGDGGHHHHHHHHHFHHDC9@BED??:CFEEEFEEHFDDFFFCC@CFIGFFGH @read_150_227/1 AGAAATTTATGTCCCTGGAAGCAAAATAGGCCTTTGAGTCTTCAGAACCATTTATGTTTCCATCTGAGAGGAAAAATATATGTTCATCTGTCACTTTATA + HHHHHHGHHHHHHFGHHHHHHHHFEGBFEEFFHBHHFHHHHHHHHFHHHHFFEFFHHHHE9CFFFHHHHHHHDFHC@CCCFFFFGHGGFHFBFFHHE<>; @read_150_228/1 AAACGGGAGTTCCTCTGCACATGCGCTCTTGCCTGCTGCCATGTAAGATGTGTCTTGCTTCTCCTTCACCTTCTGCTATGATTGTGAGGCCTCCTCAGCC + GGGFFFGGHHEEHFGGGFFBHHHHHHHFHFGFGHHHHHHHHGHHHHHHFFGHEHHFCCF=>7,5>;4DDEHHFCDDDFFHEHGFGGHHHGHA5.*.(-(A @read_150_229/1 AACTTATGGTAGTTATTTTATTTTTTTGAGACAGGGTCTTCCTCTGTTGCCCAGGCCGGAGTATACTGGTAGGGTCATAGTTCGCTGCAGCTTTATCTCC + GHHHHHHHHHHHHHHHHEFHGGHHF=GGEEHHFGHHHHGHHCEHHEBEFHHHHHG5*;AB479>FFHHHDA;3DDGHHHHHHHHEHDEGHHHHFHHHH?F @read_150_230/1 CAAGAATGGAAACAAGGCCAGAGGATTGAAGTAGCCTGGTGTGTAACAAAGTGATCCTTGAGTTAAGGTCAGTTTCTTGGGAAGACTTGGAGGCTTAAGA + HHHHGEEEFHHHGGHHHHHHGHFGGHHHEBGGGGHHHHHHGHHGCEHHHFFCF<>ADFHFHGGF;FFG?BEEEFGHHHHHHFFFE @read_150_231/1 ATTACCCTATGAGAGAACGAGTAAAAAATATGCATGATGGATAGGGTTCAATTAACTATAGCAACAGACAGAGTTCCTAGTATGAATCAAGATGTTCTAA + GGHHHHHHFHHHHHHHHHHHHHHHFHHHHHHFHGGGGHHEHGHHFGGFFHHHFHFDFHHFHHHHHHHEFEFHHHHHHHHHFHHHHHGGGHEC=DDDHF?B @read_150_232/1 AGTAGCTGAGACTATAGGTGCTTGCCACTATGCCCAGCTAATTTTTGTATTTTTAGTAGAGGCCAGGTTTCACCATGTTGGCCAGAGATCGGAAGAGCAC + HHHHHHHHHHHHHGGGGDGD@AD>;2.5@>EBGGHHEFBGCBBGH@CEEHEHDFEEEECEDFHFHFHHHHEB7:FGGDDDD8E6<><<:>GGB@BBFFHHHFFGHHHEHHDHHHEGGA;?ACCHFFGDFEHEHHHGHFFGG@C:FFEEFFH @read_150_236/1 TCAGTCGAGTTAACTTCAATGAGTGTTTCTCAGTGTTGCACTAGGTGCTATAAGAAACATAGAGAAGTACAATAACATCTCAGCTCTCCAAAGATCGGAA + GHHHGGGGGGCGGDEGGGHHHHHHHHG@DHHDBGFHHHFFHHFF?314?ACFGEB44228B?FF @read_150_238/1 CGTTGCTCCAGCTGAACTGCTCTATGCTGAAGCCCTGCAGGTCTCAAGTGTTTGGTTCAGAGTAATTTCAGGCCATATGAATGCTTTCTTAAGTATCATT + >>CC@BEEFCCEDGGGFFHEDHGEGBBFHHHHGFGFGGGFHHHHHFFFHHC:;?A:=@@ED:ACCEFBBHHHHHFHHHGGGBFEHHHHHHHH?@HHHHEE @read_150_239/1 TGCACTCCCACCTGGAGGACAGAATAAGACCGTGTCTCAAAAAAAAATTAGGCAAACAAATTCACTAATAATTGCCATGTGATCAGTTGAAAAATCCAAA + HHHHHHFHHHHHEDGFCFHGGGDECHHHHGHHGBGFHHHHHF=DEFFE:AD4D>7D6< @read_150_240/1 CTCTTTCACTGCAGTTAATCATTGTGGATGGATGGATCAGTGGATGAATGGATGGATAGATGAATGGATGGATGATTTAAATAAATAGATACTTCTACCA + >AGHHHHHHHHHHGGGHHHHHHHHGDDFHHGHHHHHHFF<>+17<BEECGGGHHFGGFGEEEFEHHFHHHHHHH @read_150_242/1 TAGTCTTAAAACCTTGCAGTTTTGTGGGGTTTTTTTTTTGTTTGTTTTGCTTTACTCTGTCATTTACTTGCAACATGCTGCCTATTATCAAGTTGTGATG + HHHHHHHHHHHHHHHHHGEEHHHHHHHHHHHHHHHGBDCC/BHHHHHHHHFHEBHHHHHFDEGGHHHFEHBBFHFHHEBBA9&+DFFFHHHHHFD+1)3< @read_150_243/1 CTAGCATAGGGGTCAGGACTTTGGGTTCAGTAGTCCAGATGTGTGTTTGAGCTCTTGTCTCCTCCACATGACTGTAGCAAATCACTTAACCTCTTCAAAT + HHHFHHHHHHHHHHHHHHHEHHEGGHHHHHFHHHHHHHHHHFHHHHHHHHHHFEGHEAGEEB7>DH?DHB@ADBEEEE?DHHGE.E=B/99.>EFCH?9;EFFFACCADD@>BGHHEHHHHHHHHHC<@BEFFFHHHHHHHHEFEDEHHHFFGEECEG>>;2>,15ABB>?06):BB@89+3)/*:BHHHEFFDFGHH @read_150_251/1 TGGTCTCGAACTCCTGACCTCAGGTGATCCACTCACCTCAGCCTCCCAAAGTGATGAGATTACAGCCGTGAGCCACTGAGCCCAGCCAAGTTGTAAATAT + FFFHHHHHHHHHEEFGGGGGGHHHHHHHFEHHC?@EDGHHFEHEFHFHBFFBHHFBDFHHF:5:,>>>?AEEGB9F>894??HHFGHHFH @read_150_256/1 TTTTTCTTCATCATGAGGCTAGCTTAAAAACTTTGCATCTGTTTTCATGGACATTAGTTTATTTGAAGGATTAAAACCCTAAAATTGGTCAGGTCTGTTT + GHHFED@EGHE@<>=FHFHHHHHHFGGHHFHHHHFEGGHHH @read_150_257/1 GCTCCTGAAGGAAGCACTAAACATGGAAAGGAACAACAGTACCAGCCACTACAAAAACATGCCAAATTGTAAAGATCATTGATGCTATGAAGAAACTGCA + HHHHHHHHHHHHHHEGGFFEHHHGFHHHHHGFCA,1-(:<6:CFCFE6ADEHHGHGGGG?3;8ADDAC>GFHGDHE@<:/DGGGAEGFHHHHHCFFFHHHHCEF@DHHHHHHHGGHFFDDB1.:5>A=B? @read_150_260/1 GTCAATAAGGGTGCCACTGGCAAATTCGTCATTTAGGATGCTGTATTTTTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTAT + HHHHHEEHHHHHHHHHHHHHHHHHHHHHHHEEEGGHHHHHHHHHHHHHHBH@EBB1AFHHEFF>CFHHHFGBHBEHHHHHHGGGHGHGFGHHFEFHHDHH @read_150_261/1 TTTCTGAGACTGTGCGTGGATTTAATACGTCACATTTCGATGATTTGAGGGAGATGGTGATGGGTTGGGGAACTGAGGAAAGATCGGAAGAGCACACGTC + D?DDFEEEDCE?DFEHHHHHHGFEDGGEHHHHHHBGFHHHH@<@==9+)8>>?5?CGGHGFHHHGGGDDFHHHH @read_150_264/1 TTCTTTTCTTTTTTTTTTTTGAGACGGAGTTTTGCTCTGTTGCCCAGGCTGGAGTGCAGTGGCGCAATCTCGGCTCACTGCAAGCTCCGCCTCCCGCGTT + F6939DFFGEGHHHEF?=CB@@F@AHHHHGGHHCDHHHDHHHHHHFFHHHEEG><9E9=07FFGFFHFGEAE@CCEHHFEGCEHHGGGBB;>5;BGFHFE @read_150_265/1 AGGCTTGGGCCTTCTCACTCCTTCACCATCTCTTGTGCTGGAATACAGAATTTTGTTCATTATTACTATTATTTTATAGACATGGGGTCTTGTTCTGCTG + HHGHHHGHCDHHHGAAA?GHHHHHHHHHHHHHHHBEFFC?CEFDEEHHHGHHEHHD5:BEEHHBBHHHHFHH?AF@EFGG@=>4=FHEBDEEEDGBGHG6 @read_150_266/1 CCTCCATTTTCTCATCTGTAAATCAAGATAATAGTATTATACTTTCAAGAGCTATTGTGAGCACAAAATGAGTTAATATGAGGATTACATGTATACATAA + D8EEHHHHHHHHHHHHHHHHHHHHEHHFFGHHHGHHHHHHHHHHHHHHHHHHFDDC>HHHHHHDDEFFBEEBHFFGFHHFFFHHHHHHHFGFHHGHHH@B @read_150_267/1 ACTATTGATGGTGGACAAGAATGTTTTCTTGTCAAGAACATACGATTTAGAATGAAAAGATGAGGGTTTGACTTTTATAGCATTGAACAGGTTAACCTCT + GDC>>FGGGEEFFEGBEHHGGGGGHGDDHHHHHCHHFHGGGEFB?@A=??AEHHHFFFEHHHEDFDCBDEHHHHHHA<5>47;@EHHCE @read_150_268/1 GTGCAGAGTCTAAGACAAATAGGGAGGATCAATGACCCTTGGAAGTTCCTTCTAACAAGACAGTAAATATGGTCAAACAGTAGAGCGAAAGAGCAAACCT + HFFEGFHGHHHHHHHGHHHEHDEF<(9>@CFEHHCEDEDBBCFB5BED;*DBBED>6774),%'7 @read_150_269/1 CTCACTGCAACCTCCAGACATGTGTCTGTTCGTGTCGTTTGCCCACTTTCTAATGGAGTCATGTTTTACTTGTTGATTTGAGTTCCTTATAGATGCTGGA + HHHHHHHHHHHHHHHHHHHHHHHHHGHFBFBED9AEEHHHE;@ABFBADACHGF502DBDD@@EFFHHFDHFFHHHHHHHFGGHHBBEEEHHHHHHHHHG @read_150_270/1 CACACTCCTTACCCTCTTTAATAAACTGATGGTTATCTCAACTGGTACAATCTTTCCTTCTTTAATGTACTTTTCAATAAGTTCACCATACTGTGAATCT + HHHHHHHHHHHHEEDGHHHGHHHHHHGHGFHHHGGFFFFHHFFHFBEFCC9?DBBBDFFF9=3=DFFBB>AADFHHHHFEBD?HHHHHHGGGAB?FGBHF @read_150_271/1 GCCACATAACACTTGGCATTTCCAGACTGCTTGACATGTGCTAAGCACGGTGCTGGGGGTAAGGGGATGAGCAACACTGGCAAGGCTCCTGCCTAACCTT + HHHHHHHHHHHHHHHHHGHHHFFFGHFFGFFB<*2CHFHHHHHFHBEDBFHHGDBCC?AFHHHHFHBF<>:F;5=6>DD?D=BDGFEF @read_150_273/1 TTTTCTCTTTTTAAACCCAGGATATCATTTGAATAAAAGAAAGGGTGAAAAAAATGGACAGAAGCTTTCTTTTTTGTATTTATTACTTTTAAAGATCGGA + HHHHHHHHHHHHEEB@@>GFIGHHHHGGEA:1)<3CFBEDDHHHHDHEEBFEHHHFFHHFF??GGHHH @read_150_274/1 GTCTTCCTCCAGGGAACACAAGATGGTGGGGAAACTGTCCACCCTGATCTCACTTTTTCTAGTGTAAAAACTGTGAGATGAGTACGAGAACATTGTCCAC + FGGHHHHHHGHHHGGHHHHHHHHHHBCFFBHHHFFHHFDEFFFHHHHHHHEFGHHHFGGFFFHHHDFFF?H??E=EFFCDEHHHHFCHHHEC@;0.7BD= @read_150_275/1 TTTTGACTAGTATGGGAGAGGATCAGACCACAGGACTCAAGCAACATTTTATTTCTTCATCAAGGAAAGGGCACCGTCTAGTGGCACACACTTCATAACC + HHHEBE@FGFHHHHHHHHHHHHHHHC=EHHHHFGFFGFFFFHHFFHHHFFFHHFHHFHFHHHDDHHHHHHFHFBEHHHHHHGDBABBABE?>BHHFHHHHHHEEBC>DBHFFHHHFHFHGHECDDEEFFFEFHHHFHH@DEHHFBFFGGFHFHHB>F @read_150_277/1 TAGTCATGTAGATTTTAAGTGGTCTGCTTATAACCCTATATTCTCATAACCCTTTTTTTAGTGCATGTTTTTATAGAATATGAGGTTTTTCAGGAACAAA + <=DB>9-7GHHHHHHGFFGGGGD??B/:8D=BGGFGE=FFD<:8CB=FEEEHFGHHHHHBFHBFEG?9>3?DHHHHB@DBFFFHFF9FCDDEDDDHHGHGE<>4>EBEBDG@CFEFFFGH @read_150_279/1 TAGAGTTCTCCAGGGAAACAGAACCAATAAGAGAGATTGGTAAATATTATAAGTAAAAGATATATAGAAATAAACATATAGGGAGATATAGATATATAAA + HHHHHHHHHHHHHHHHHGGHHHHHHHHFFGHFA@<:BEFBHF@75791<9DDDDE2=09EEGGGD@;=CE @read_150_280/1 AGACTCCTATACACTTCAATTTTCCAGCAATCCATAAAATTGAAACATAAAAATAGGATTCTATTTCCCTTGTTCATTCTATATCTTACCAAGATCGGAA + HHDDDA-?HF979>(DB=0>FACDFFHHHHHHHHGB?6>BGHHGFHHFFHF @read_150_281/1 GGTAACAGGGAAGGTGGTGGGAAGTGGTTGGATCCTGAATGTATCTTGAAGGTAGAGCCGATGAGGTTTGCTGATGAGTTGGATGTGGGTGTGAGAGAGA + FBGGHHHHHHHHH9GE@BBD<9::8BHHHGGHHHHDDD?EGG@@EFHHHFAAAABGFHHFGD>=DHHHHHHGGGHHGHHHHHGHHHGHHHHGFECDHHHFEFHHFHF?FFHEAEEHFB@@CFHE?FFFGFEGHHADHFCDGBBGB=DHHHHHHFHHHHHH @read_150_283/1 GAAGGACAGCCAGCCAAGAGAGGAACAGGCCAACTATGTTCAGTCTCTACAGCAAGAAGCACAGGATCTTCCACAGCCAGACTCAACGATTTCATGATGC + GDFBBGEEHEGHHHHHHHHHHHFHHHGGCF@FFGD=FEHHHHHHHHEFHHF9EHFFHHHC@6DFHHHFHHCFFCBHHHHGHHHHFEE7??@A=CFFGDDD @read_150_284/1 TTCCTGGTGCTTCAATTTCCTGTTTGTAAAATGAAGAAGTTGGACAAGATGATATCCAAACATTCTTCTAACTTTCACCTTCTGTGATTGTCTGTGTGGG + GHHHHHHHEGHHHHHHEEFHHHHEBBDDFCFBEF=HHFFHHHHHHHHHHHHHEFGEHHCCHHDDFDEDHFFDC9<@A?DBFGHEHHHHHHEE=<>;DDFG @read_150_285/1 ATGCTAATTAACCAAATTCTGCAAAACAGAGGGTTCAGGAACTAAGCTGATAAAGACTGAATTCTCCTGGAAAGGATATGTGACAGAGGGAGAGAGTATG + HHHHHHGHHHHHHHHHHHHHHHHHFDFFGHHHHHHHHHFFHHDDDADHHGHHHHHHHHFFHHHHGGGHHHD@CEEGHHGEEGHFFEHHHHGB?GHHHBAB @read_150_286/1 TAGTTGAGCGGTTTGGAGTGAGTTTCTTAGTCCTGAGTTCTAGTTTGATTGCACTGTAGTCTGAGAGACAGTTTGTTATAATTTCTGTTCTTTTACATTT + HGGHHHHHHGHHHHHHHHHHHHHHHHHHHHHHHHHHHHFFHHCHHHCCEEHHBHE9DFEE>17(.:=DHH@D?E?FFED?FFFGHHHHHHHHHFFGHGFH @read_150_287/1 CAGACATTGTATTTTTCATCTCTAGAAGTTCAGGCTGGGTCTTCCATGTCTCTGCTTCCATGTTCAAGCTTCCCTTTACCTTCTTGTTGTGGAATGTTAT + HHHHHHHGEHHHHHHGGHHHHHDHHHHHGGHHHHHHFGDBEHFFFHHHHHFDEEEHFFHHEHHHHHHFFHFFFHFHHGGGHFCFBEE6:48*2AEHHFFH @read_150_288/1 CAGCTACTCCGGAGGCTGAGGCAGGAGAACCGCTGGAACCCAAGAGGCGAAAGTTGCAGTGAGCCGAGCTCGCACCACTGCACTCCAGCCTGGGTTACAG + HHHHHHHHHGBBEHFHHHHHHHHHHHHHHHHHHHEHHHHHHHHADCHFHHFHHFBCF;>,;0A3,/6A+E8EED2DEC:,'/.?;;'%*0>E=GEDBH?A:@@@ECC<19ADDFCFGFHFHHHFCDHFHHE5;C=BA88>.*'01;C>DDGHHHGHHHEDEGFGGE452( @read_150_290/1 GATGATCTGTGCAGCAAACCACCATGGCACACGTTTACTTGTGTAACAAACCTGCTCATCCTCCACATGTACCCATGAACTTAAAATAAAAGTTGAAGAA + HHFFGHHHHFGACAFHFHHHHHHHFGGFEFHHH?<5<>@>,32=:>>FHHHHHFHHFFGGEGEEFFDDDFDDDF@GGHHHHHHHHHFE?FGFFEHHFGHF @read_150_291/1 CTAATCCTGCTTTCTTCCTCTTCTCCGTTATAGGGGTCAAATCTACAGGCTCTGTCCACCTTCTCTGGTTTGCTCCGCTTTATCCTCTACTGGTATTTCC + FGGGFGGGFGDGFGGHHHHHHGFHHFGGEHHHHHHHHHHHE6@@)7,:7967>-====FHHHFFF?EFFEDFHHHHHHHFHFFHHEHHHHHEHHHD?4FH @read_150_292/1 TGAGTCTGATTTTGCTGTGGACAATGTTGGGAATAGAACTCTGCGCAGGAGGAGAAAGGTAAAACGCATGGCAGTAGATCTCCCACAGGACATCGCTAAC + FEHHHHHHHHHFFHHGG@DFHHHHHHHG=CCFHHHHHG @read_150_295/1 TGACTTTCTTTTTTCCTCCTAAATAAGGACAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAGAA + HHHHBD=EEHFHHHHHGF@DHHHFGHHHHHHHBGEADA<339CBEEFFEFHHHHHHHDFFCB9;9BFFHHHHFFBEGHHGGHHHHGHHHGEDC:>A0'7: @read_150_296/1 TAGAGGATTATACTACCCAAGTCTGACTGGGAAGGAGGAGGACCATTCTATTTTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCG + HHHHHFHHHHHHHHHHEFFEHHHEEEDDDDBGHHHHHEHHHGHHHBFFFHHFHFEGGHHHHHHHHHHHHHHFFHHHFHHHHHFHHHHHHB5'*=ADFGHH @read_150_297/1 GGCTAGGCCAGTCTGTTTCCACCACATGAACAGGCAGATAGGTTCAAGGGTGCTTGGCAGTATTGTGGGGAATGTAGATTAGAGTCCAGGGGACCTGAGT + DGHHHGHHHHHHHHGHHHEGEGGEGHHHHHHHHHHHF>,4BFFHHHHBCGHHHHFFHFHHHHHHHHFFHHHHHC7:<<-),6EFHHHHHGDBBGB@':>A @read_150_298/1 ACTTCTTGTGCATCCCTTGTTTCCCTGGCTAAGGCTTTCCAAGACTGAAGGCAACACTGTCTTGAGGCACAAGAATCCAATGTTTCTTGGTAGGAGCGGG + HHHHHFGGGHHHHHHHHHEDHHHHHEED@>76D4=FFBGFHHHHFGGFFFHHFDDEBFFDDGFFGH?@CB>>+BEHHHHEEHHHHHHFE<7@DBBA:*0; @read_150_299/1 GGATCACCTGAGGTCAGGAGTTCGAGACCAGCCTGACCAACATGGAGAAACCCGTCTCTACTAAAAATACAAAATTAGCTGGGCGTGGTGGCGCATGCCT + EEE?@BGGGGGGGEBDGHH@AEGHHCC>?4@FEFGHECFBDB>5??DB?@EHHHGHHHHB@;B?;?39:ADFGGGGHHHHHC>E?DEHHHFH5(*:BHHGGHHHHHH @read_150_302/1 GAGAGGTAGAGTCTCAGTCCTGTACTACAGAGATGAAAACACTGCAGTCAGATAGGCTAGTAACGTTCTGTGTCCTCATCACTTTTGTCAAGAGATAACT + HHHFFFHHHHGGFHHHHHHHHHHHHHHHHHHHBFHHHHHHHHHHHHHHHCEHG@BGDBA>EGEEFHHEHFHHFHFGEGGGHHHHHGHHGGGGE?G/><*4 @read_150_303/1 GGGCCCATCATTCTCCAGGGGAGATGGCTCTTCCTATACAGAGTCAAGGACCTCTGGAAACACAATATTCAGAGTTAATATATTCCACAAATACTTATCA + HHHHHHEEEFEF982<@G?CBGFGH?DCFEGFDBFEFEEFC??=GHBHFFHHHFHHHHHHCCBBC@:>DHGFHGFGFGEHHHEEHHHFHFFHHFFDBF=< @read_150_304/1 TCCATGGGGGATTGGTTCTAGGGTCTTCTATGAATACCAAAATTCATGGATGCTCATGCTACTTATATAAAATGGCAGAGTATTTTATATGGCTTCTGTA + HHHHHGGGEGHHHHHHHHFFGGFHHHBHEHEDEBEDHHHHFHHHHHHHHHEBDBGFFCA@BEEFGB6CCDFDBD?C88GGFFHHHHHG=6>BD70)&8C> @read_150_305/1 CAAGAATAATGTGCCCAGCAAAGCTATTAAAACAAGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTG + FHHHGGBEGBDEHHHHHHEHGGGFFHFGEGHHHHD,::=AFHHHHHBHFHHHGGEFFHHFFHED?DHFHHHDFEFHHHHHHEEHFED65@CC;:ADHFC?D;:;>?FEHFF @read_150_307/1 GGCCCTGACGTCACGCACGGTCACGTGGCCCCGCCTCCCGCTGGATCTTTAAGTAGAAAGTAATCTATCAGGCCAGTCCTTAAAACGGGACTTTCGACTA + HHHHHGHHHHFGGHHHFHHHHFHHHHEDGD0==GD7;?FFHHHHFHHFDFHFHHHEDDHHHFFFF7DDGG<:> @read_150_311/1 GAAGGGTGATTATTAAAAAGTCAAATAAGGCCAAGTGCAGTGGCTCATATCTCTAATCCCAGCACTTTGGGAGGCCGGGGCAGGCGGATCACCTGAGGTC + HHHHHHFF=CEGHHHHGGFDHHHHHGGFHGAEBFGHHHHHHHBHHDE?GBFDBGHHHFFFEEEECHFEHHHHAAHHHEFE,>7BAE5@38,/@CFFHDDA @read_150_312/1 CGTGTGTCACCAGGCCCAGCTAATTTTTGTATTTTTAATAAAGACGGGGTTTCATCATGTTGGCCAGGGTGGTCTCGATCTCTTAGATCGGAAGAGCACA + HHHHHHHHHHHHHHGEGFGGHCGGECBEEEE@/D?HHHHHHHHHHHGFHHHEHFFHHGEDDEDHFCFFDCDBA>;EEEEF@>5:?GHFHHHHHHHHHFH< @read_150_313/1 TCAGGCTATGCTAATTACTGTCATAGATTCTGCAGCAGCCCATTAAATATACAAATTACAGAATTAAAGAGCCAGAGCTCTTCATGATTAATCTCTAAAT + HHHHHHHHHHHHFBCCB@7=DDDHHFGHHHHHHHHHHHHHHHHHHHHFGGG@EHHFHHHFHHFHHFGFHHHHHEDHGH=8@9ADHHHGGGHHHHHHHHGB @read_150_314/1 TAATGTTCTGTATCTTGACTGTATTAACATTGATATTCTGTTTGTGATGTTGAATTATAGTTCTGCAAGATGTTACCTTTGGGGAAAATCAGGTAAAGAG + HHHHFFEEEFFCFFFFHHHHHHHFBGBAEHHHHDDGEEFHGCFCGGF>>@D@EFHFFFFFGHHHDGEDDDDEFHHHHFGADDGHHHHHHHFFFHF@DDBG @read_150_315/1 CCATGACTCCAGACTTGCTTTGACACCTTGCACACCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTG + HHHHHHHHHHHHHHHHHHHHGGGGGFCGHHHHDE6B@9<8C?AA8<1B>B247E>@A>CFFFFDDH?:FHHHHHHHHHHHHHHHHEDHHHHHHFCHHHHFEDBA.;@ACFGHGHHHHFF00>BE16.%)3((5 @read_150_319/1 GTGTGTGTGTCTGTGAATCTTTAATTAATCTCTTGAGTCCTTTTTGAGAAAGAAACCCTGTCTCATTCAAGTTTGTTCCCCAGGGCCTGACATAAAACTG + HHHHHHHEEGGFHHHHHHHHHGHHHGGHHCHHHHHHHHHHHHHFGBDDFHHHHHHHFFFEHHCHGFFHHHF:CHEDDADDGEEBADD?489.159HHHFF @read_150_320/1 GCTGAACTCGTACTCTCTAGCTGAGCACATAACTTGGGTGAGCCTCAGTTTAGATCGGGAGAGCACACGTCTGAACTCCAGTCACCACCCAATCTCGTAT + GGGGHHHHHHGGGGGHHHHBEEHHHHHHHHHHHHFEGGGFHHHHHHHHBDFHHADE72)0??DDEHHHEF?@6:FFFBBHHFD>>D;GFHFBFGHHHDE@DDGHHFHEEFEFEHHHHFHHHHF?DFHHE=DC@?EC9>CHGEA@FDBB?ADGGB@EFFB @read_150_322/1 AGAAGAACCTATGTGAGCAGCCCTCTCGCCTGTTCTTGAACGCCTGTGCTTGGTTACATAACATTGGCAAGGATTGCTCAAACTGGCAAGAGGCAGGATG + GFDDFGGHEHHHHHGHHHHBFFHHHHHGF9GHHHHHFHHHHHFHFHHHHGHEEHF?7;@E9DD>HGHHFHFFFFDHGHHHHGFHH><8;-0?E@DEEEFF @read_150_323/1 TACCTATTTACATTTTGATATCTGCATTTTACCAATAATTTTTAAGGCTGTTTTTATTTCTCAAAGATTAAAGTCATGTGAACTAAAAGGGACCGCAGCT + HHHHHHHHHHHHHHHHHHHHGGGHHGFFHHHHHFBHHFGE?EFEFHHFFFBFHFHHHFFHFHDFEHFHHFFDHHHFBFHHHHGHHDGGGA'2,-%,27:: @read_150_324/1 CATTTTTCTCCTATGTTTTCTTAGGAAAATTGCCAAATTATCTAATCTGCCTTTTGTTTGTAGGTAGGGAAAATTACATGACTTTTTTTCACTTTCAAAA + HHGHHGFCBCBEH?FGDCBFGHHHHHHHHHHHHHEHHHHFHHHHHHHFEGHHHC.1;BBCFDBGFHFHFFHHHHHHG@>DEDCDFHHHHEFFHFEHHHFF @read_150_325/1 GAGGCTACTCTCATATGGCAGCAAAAACCCTGGGGTTCTCATCCAGGCCTCTCAACACACTGGTGGTTGGGAAACTGCTATATAGTATGATTCTTTGTCT + HHHHHHHHHHHHHHHHHHHHHDF;@FFHHE?ABHFHHHEBGE??CA9A=DHHHA?HB?=FHHBEGGD4 @read_150_330/1 CCAGGCCAACTGGCTTCCTTTAAAGTCATGATCTCCAGCCATTAAATGTCTTCATTCCTCACAGAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACC + HHHHHHHHDDFDEGGGGGG=DAGHHHHHHHHHHHHHHHHHHFHHHHEGGHHHHHCGDEE=HHHHHFFHFGDFFFFGHHFGGHHHECGGGDGG@ACHFHHH @read_150_331/1 GTGGTACCAAACACAGCAACAGCCTCCACATCTTTTAAGGCATTACACACTTGAACTCCACAAGTCTAGGAGACAATCAATAATAGATAATTATTATCCT + HGGFEHHHHHHHHHGGHHHHHGGHHGHHHHGCGGFHHF>FHDFEEFEHFHHHHHHHHHHHH@???FHFF?=?<649781)<9?FEDDCHHHHFHHHHHHH @read_150_332/1 AGGCCTCAAAGAGGTCTGAATATCCACTTGCAGACTTTACAAACAGAGTGTTTCCTAACTGCTCTATGAAAAGAAAGGTTAAACTCTGTGAGTTGAACGC + GGGEDCFFFFB;GGHGGHHHHHHHHHHHHHHHGHHEHHGCCFFF<.BDEBHHHEEGHHHHEAB>CCCCFHHE9FHGGHHHHGEGEC>>DDDHH;<9DBHHFHHFCHHHHHHHHHFEFHHFHHBFCHHHHFHEFHHHB8?FC@@DFHHGHHHHHHF46( @read_150_335/1 ATTAGAATATAAGCTCCATGAAGGCAAGAACTTTTTGTTATCTGCTATATTCCAGTGCCTAGCACAGTGCCTGGAACATGGGAGGCACACTGTAAATATC + GGGGGGHHHHHHHHHGG5@EGGGFECAGGGHHHHHHEFHHHHHFDFBEBDHHGFCDCGGGGHHEDC>-%3B933DEEBFDGEEEGG@DDGDHHHGFFHHH @read_150_336/1 GAAAGACTTTACCATCTAGGTTCGATAGCTGGGTCTAGGAAATACACTGACAATACACAGATTTAACAGGAAAAAGGGTAAACAAATTTATTAATTTTTA + F@@GGEGGHHHHHHGHHHHHHHHHHHGHHHHHHGDHHHEHHHFFD;=-*B?DEEFEGECHEEEFHHHHHHHHHFFFD40?ADFGGFHHHHHHHHHHHHH? @read_150_337/1 CCTCTGATCAGACAGGTGTGGCATCAAATCCTGGCCCAGACACAAAAGCTGTTTGACTTTGGACAACATACTTAATCTCCCTGAGCCTGGGACTCTTCTA + GGGHHHHHHHHHHHFFFHHHHHGHHHHHHHGG9;47DDGHHHHHFBFBBBEFEHHHHHHFBGFFHHHHFF@>CDAABB@CGHEFHHCDHEGGG=ACEHFHHGBCHEGHFHHHHHFHHHHEEFFEEEFD8EEG@CEHHHCCFGFDEEHHHHH @read_150_342/1 CGCCCGGAGGCTGGCCTGGGGTCTGACATCAACGACACAGGCGGGGAGTGGAAGTCCTTCCGCACAACATGGTGTGGGGCTGCGGGGGTGTGGACGCGCC + HHHHHHHHHHHHHGGGFFHHHHHHHHDFFGHHHHHHHHHHGBHHHFGGHFHHHHHHHHHEEEBC;E?HHBAEBFFGEFHHHHHHECHHHHHHHGGHBGEH @read_150_343/1 AAAGAGCAAGAGAACTAGAATGAGAAGCAGAGCCTAGGCCAGGCATGATGGCTCATGCCTGTAATCCCAGTACTTTTGGAGGCCAAGGTGGGGGGATCAC + HHHHHHHHHHHHHHFFF<DADFFHFDBGHHHHCBA9BCBEB39FCAEACDHHHHFBEFHHHHH @read_150_347/1 TAATTAGTGGAGACAGCTACCAGGGATCAGATGCTAACTACTGATTCAGTAGACTATTGAAAGTAAATTAATACAAGTATCTACCATTCACAGAAGAAAG + HHHHHHHHHD=@FHHHHGFHGGHHHDBFF?HHFFEEFHHHHHFHHHHHHHFFHFGGHCHHHHHHHHHHHH??DFEFEECDHFFHHHHHHD9FFFHHFBGF @read_150_348/1 ACCAAGAAAATATCTTCATTTTTTTTCCTTTCTCCTTTATCATGTGACATAAGATTTATTGACTTCACATTAGCATTTAAGTATCGTTAACTTTATGTAT + @C@DDEE>>?ECD:;GHHHHHHHHFHFFFFFEGGGHHHHHHHECHHHHHFFFHH@FFHHDFB?FHHFFCAACA?DGHHHHHHFHHHFGGGEFHEHCED;4 @read_150_349/1 AATTACTACCCAACTATTTCAGCCTTGATTTCACCTTTGTGGTTTGCATTCAGGTTGCACCCACTGGCCACTTTGTCTCCATAGAATCCTTGACCATCCA + HHHHHHHHE=@HHHHHHHHHE=BHHGFGBGHHH@AFFGGEGGGHHHCFEHF3?E>EDDFDHHHHFFDBBBEEDCEBEFFG=4:6:6@:'DHGHHFH @read_150_350/1 AAGTTTGAGGTGGCAATGAATACTGAGGTAGGAATTTCCAGTAAGTAGAATAGAAATGTCTGGAGTTTTTTTTAGCTAAGAGTGGAATTGAGATAACTAT + HHHHHHHHHHHHHHHHHHHHHHCHHHHGFFHHEHHHBFGE@=HDHHG?A9DDEGHHHHGHHFEECCBF9FFHHHHEDDDBBFFFHHDEFFFHHFDHE?.E @read_150_351/1 AATGATGGGATAGTAGAATTTTCTAAGAGATTAATAAAACACAAAAACAGCCTTTGAAACTTAGCTGTGACCCCAATTGCATCCCTTTATGAATCACAAA + HGFEGHHHHHGHHHHGHHFGFGGGDGE>@@GGGHHHHHHHHHHHHHHHHHHHHHHHHHHHFHFHHHHCD=AGGAFFGHHHGGHHGHHFFFCEH>9FGGD: @read_150_352/1 GTTCTCAACTCTGGCCGCACATTCGCCTCACGTAGGAAGATTTTTACTTACTTATTTATTAATTAATTTTTTTTTTTGAGACAGAGTCTCGCTCTGTCAC + HHHHHHHHHHFBGHHHHHHHHGHHHHGGG=9@CA@DHHHHH@CHHHHHHHGFHHHHHHHBFGG>EEFHHHHCDGHGFHEEDHHHHHHHHHGBHBF68*?EBDDECFCBF @read_150_355/1 CTACAATTGTGGTTTTGTAAGAAAAACAGTCTTAAAGATTTCCAATAATTCCCACAATGGCCATAAATTATCCTGGGTGTCATTTTCCCATCAATTTAAA + HHHHHHEDFHGGHHHHHHHHGEFGHHHHHGFGEDDBEFGFGF@DGGGGHHHHHFF=D?GDFHHHGHHEGE.4=A@AA79>FHHGE?FHD/,23;7@GGFF @read_150_356/1 ACCCCTAAGGTAGAAATAAGCTTAGTGTGTTTGAGGAAGAAAATGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTC + HHHHHHHHHHHC><);,:4??FHHHEHFDBD<8DEHCFHEEHFFEFD8GGDDHHHHFB@DHCEEHFEAHEBCGGGGGGGGCCFHHGGE,705BDFGH @read_150_357/1 TTCTAGGGCTTAATTTACTGTTTTAAATAAAATAAACATAAATAGAAGCTTCACTATTTTCCTTTCACATGCCAACAGATCACCTTGTGCAGTCACTGGG + HHGGGGGE@:BHHHHHHHHHHHHHHGGGHHHHHHHHHHHFHHHHHHHHHHHHHFHFHHBE>AGEFHHHDGADHHFHHEFGHHHHHHHHGGB78>=@DFDA @read_150_358/1 AGCCCTAGCCTCATAACCACCTGGGGTGAGGACCCTGACATGGTGACCAGAGCCAAAGAGAATCCAGGAAAGATTTCTCTGATATGAGAATGAAGGTGAT + GBCCGEHHHHHHHHH89EHEEGGG;@>??AGEEGGFHCDFFB/BCCDBEBEHHHHHHHDHHHHHHGDE@AHHHFEHHHGGHGEEDHHHHHHG52?9AA=; @read_150_359/1 ACCAGTTAAACGTAAGTGTTTCTCTGAGTTCCTTGCGCCACTCTAGCAAATCAATGGACTTCAAAGAGAGGATCGTAGGAATCCCAACTTGAAGTCAGTT + HHHHHHHHHHHGDHHHHGGGHHHHHHHHHHHHB4)'&*7110) @read_150_360/1 CAGGCTGCCAGGCCAACCGGGGAGAGGGAGGCTAAACCTGGAGCATCTCATGAATAGGCCTAGGATATCCCTGCTGCCTGGGCCCCTCCCGGGATGACCA + HHHHHHHFHHHGFGHHHHEEHHHHHEFGE>>BGF;FFHHHHFDFHHHHGDFEDEEGGGGHGGFCEHFFDEFFCFFFCFFBBEB3E8*8>FDB=EAFHHFF @read_150_361/1 AGAAGACTATGAGACACTAAGAGAAAAATTAAGGTAAAAAAGACACACACTTAGAAAAACACACATAAGGAGGAGGGAGGAGGTTAAGACATTTTACTAT + HHHGBBHHHHHHEEHHAFHHHHHHHHFGHHHHHHHHGHHHHHHHEHHEHFC?HHFHBEBHHFC<6))60AEA5AEFFC59>>AC/--7DDHGGHHHHHGE @read_150_362/1 TTGCAGCAAATATGGAAAACTGTTGTCCTCTTATAACATAAAATTTATCTTATAACAAGAAAAAAAACACCAATGCACCAAAAAATAAGCAGAGGACAAG + FFD@GGEF@GGGGHHHHHHHHHHHHGHGDBE=@DHHHHHGGHEGHHHHFHHHHFFHHHHD+)4,;DHHFFEEA5FGHHHEBFHHHHHF@@@*39BCC4>= @read_150_363/1 GAGAGGTGTTTGGGACATGGGGTAGACCCCTCATGAGTGGCTTGGTGCCCTCTCGTGATAATGAGAGAGTTCCTGTTATGGTAGTTCATATGAGAGCTAG + GGHHHHHGHHHHHHHHA5.E? @read_150_364/1 ATTCTGAGCTCCTGGGGTTAGGGCTTCGCCTGTGAATTTGAGGGGACCCAGTGCCCTTCCTCGAAATGTCGTGTTGACTGGCAGTGGCTCTTTGTTCCGG + HHHHHHHECCGEGHGHHHHHHHHHHHHHGFHFFFFHHHHHHHHGFHHHHHHHHDFHHHFHHHHHHHFFDHEFEBFFFHHA=@8DC3::B@BFHHHHDDCFHHHFHHHHHFHCHDFHHHHHEHHDCC@HHHHEHDHHHFEBA6)8=53-21(A @read_150_367/1 TTATCTATTGCACCTTTGCATTCACTCTTTTCACTTAGTTATAAGTCTTTTTAATTTGCCTAAAGTGTGAGGATCTCTCCTTACCTGTAGGCTACTAATC + HHGGGFHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHFGGEEFFFCFEEF9DGHFFHCHFDCFEEGEFFFCFCDDDHHHHHHFBF/DGHF?FFGBF?E?DE @read_150_368/1 AAATGCCCCCAGGGATGGAAGTTTACTGCCTCACAAGGCAGCCAATTATCTTTCTGACAGGTGCCATTCTTCCTAATACTGAGGTAAAGTACATTGTTCT + HHHHHHHHGHHHHHEGHHCB@@CHHHHEHHHHHHHHHHHHGCFHFFDEGGHF::)6'%1;ABD=6;F @read_150_371/1 CCACATTCCCTTGGTGGCAAGTCAATTGCGGGGACGCCTGCTTTGGCTGCTCACTCACATTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCT + DCDDDBDECHHHHHHHHHEHHHHHFHHHGGDGGHHHHHHGGEDDDGBCFF:9?ADHHEEBEEFFHAEFEEFHHCDGFHHFFFFFEFFDDHHHHHHHHHFH @read_150_372/1 AAAAAAAAAATAGGTATGGGCAAGATGACTCTAGGAGATTAGAAAAAATATTTTTGGCTGGGTTCAGTGGCTCACACCTGTAGATCGGAAGAGCACACGT + GGGGGEECCHHHHHHHFHHHHHF=DFFHHHHHHHHHHHHHHHHHHBFCBFHHHHHHHFFFGDAA9CEHDDEEBEFHHHED8EEE9FHHDFFC4@C@-1D9 @read_150_373/1 TTTAAGACCAGCCCTACTTAACTTTTAGGTACCTACTCTGATTTTCTGACTTATGTTTTAACAGATTGTTCCAGAGCTTATTTAAATGTAAAGAAGAGAA + HHHHHHHFFFHHHHHHHHHHFFECCGGGHHHHHHHEHHHHHHG>HHHEEEHEGHEFHHHEECEEBFHHHFCCEBBGGGFFHHHHGFEEBF4*..>FFHHH @read_150_374/1 CTCTTAACATAGACTAATTTATCAATGATCCTATTAAATATTAATAGGTACTAATTTTAGATCCATGTTTACAGACGAGAAAATGGTACTAATTTAGATC + 98DDBGHHHHHHHHHGHHHHHHHHHHH30CBGGHHFHHHFEHHHHFFEFHF;5<:(?49AA@BEBCE @read_150_375/1 TCATTGTACACCTTAACTGTATACATTTTTTATTAAAAAATAACAGAACAGTAACATGTGAGGTTGTGGCTGTTATTATCATTAGTTGTAGTAATAGCAG + GEGGGHGGB>HGHHHHHHHFGHHG9DBEHHFHHHFHHHHHHHHFGBHHHHHHHHHFDEB::*HGEDHHHHAFHHHEHHHHHHHFGFCHHHHHHHHHHHD6CEFFFEHHHF @read_150_379/1 AGACCTAAAGTGTATGGGGTTCTATGTGAGCTGATAAAAATGCTCTAAATTTGACTTTGTTGATGGTGGCATAGATCGGAAGAGCACACGTCTGAACTCC + HHHHHHHHHHHHHEBEGHHHHHHHHBGHHHHHHFDFHHHHHHFFEEGG?=@CCF??GEDFHEHHHFHC?4/>71?HGGGD5C5BFFCHHHE>DDEGGFFH @read_150_380/1 CGAGAGCAGCCCTTTTAAGTGTAAGGCAGTGCACATCCACAATCTAAGGTTCGTTCTTTCTGTAAGCATTAAACAAGACCATCTGTGTACCAGGCCAGTG + 8FFGGGGGGGHHHHHHHHHHHHHHHHHHHHHHGFHHHHHHHHHHHHHHGGHHHEFFGHHEE=E?FEFCHFDDE;.0.+%'::GGHHHHGHBGDB?HHGHH @read_150_381/1 CAAATAGCCAGAAAATGGCACTTTGAATTTTTCCATCCTGCAAGATCTAAATAATTCTCGTAAAATAGGCAAACGGTCTGAGGTGCCTGACATCCAGGCA + GFCFEGHHHHGHHHHHHHHHHHHFHHHHHHGGGDDEGHHFHHHHHFHHHH=CHHHHHHHHHHHHHEED?HEG><>><=A@DD;;>EBDADFGCHB=BDGFDEEGGFFEBGFHHHHGGBHHF??HHHHHHFHHHHH?DEDBEEBA?DHHHHHHHFFHHEEHHHA>: @read_150_383/1 GTGCCTCAGCCTCCCAAGTAGCTGGAATTACAGGCAGACGCCAACACGCCCGTCTAATTTTTGTATTTTTAGTAGAGATGGGGTTTCACCATGTTGGCCA + FFFFFFHHHHHHHHHHHHGHHHHFFEFEFC767;EHHHHHHBGGGEDFEHHHF?=4646>BEBCBE9DC?AA@FFHGGGGFFFF=:D>9DEFF?BEB;52 @read_150_384/1 AGGTTAACTGTTATCTGAACTCCGAGTTACAAAATGATGAAGATTAGTTTTGTTAAAGATTCTGACTGTGAAATCATCAGGAAATATATTTGTAATAGGC + GEFHHHHGHHHHHECFHHHHHHHHHHHECGDFFGGHHHHHHFFECGGFHHHDFHHHHHHHHH>@F9?<->GGGHHHGEGFEEHHBDEG @read_150_386/1 CTTTCTTTAAAATGTATATAGATATTACTTTTAAATAGCATGCCGTTTTGTTTAGTGGATGCTTTCTCTGGCCAGAAGCAAAAGAAAAGAAAAGAAAAGC + HGHHHHHHHHHHHHHHFHGFHHHHHHHGGHHHHHHHHHHHHEEA646BCDFGGG=CDA??HHHHHHHHHEHHFEAG @read_150_387/1 CCCAAAACTAAGTTCGCTTCATGTCTCTCATGACAGGGAGGAAACTTAGTGTTCCTTGGAGACCTGAAGGGATGCAGTGAGCTTAAGAATTTTCAAGAGC + HHHHHHHHHHHHHH@:@EGGGHHBGF@*>CBCGBEHHHFFD@DGHEE<>EFHHHEEDDFEHHHHHE16,::1)2%&85 @read_150_389/1 ACCAGTCCCAAAAATGTTTTTTAGGAATAAAGTACCCAGTTTCCAGTGATGTTGTAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCT + HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHFFEEBDDD>GHHHHHDFHHHHHHHHHFHEACEEHHHHHDEEBFFHHHHHHHFFHHEFHFFBFFDHGEEE9 @read_150_390/1 AGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAGAAAATGGCTGTAGCAGTTCTAGGTCTCACATCTATGTACCACACCATTCA + HFHHHHHHHHHGGGHHHHHHHHHHGHHFG@@5;4;BGGEAB?FEHBHHHED?BFHHHHF<(0?FF===<@DEEBHHHHHFFCFFDBEECCEEHHHHHHHHHHHFE?FF95:;0+5 @read_150_396/1 TCCTTCAGACTTCTGAACTTTTGCATTTGCCGTGTCCTGTGCTGGAAATGCCCTTTTTACCTCTTGACTGGGGGTGGGGGAGGTCTTGTTCATTTAAGTT + HHHHHHBDFF@DGGGHHHHHHHHHHHHHHHGFHDGGGFFD>7@EDHHHHHHHHFFHHBFDDDAD=B=3GDEHHFGFFGGGHHGHHHHEFHHHHHHHHHHG @read_150_397/1 TACCTGGGTTACACAGTTTCCTGCTCTTGGATTCACCAAAATTCATTTAATGCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACGACCTAATCTCGT + GGHHHHHHHHHHHE=DFEEE@DFHHHGDDGHHHEEGFFDFHHFGB8EFHHEHHHHHHBAC=;=BCC>EEBDBFEHGGEDHHDEEC>1(8GEFHHHHHHHH @read_150_398/1 GGACACTTCTATCAATCAGGTTTCCATCAGGTTTCTTGCAAATGGCCGCTGCTCTCTGTCCACCTTTAACTGTGAACTTTTCCAGGACAGGGACTGTATC + HHHHHHHHHHHHHGHHHHHHGGGGHHHHHHHHGHEHHHFFHHHHHHFGHGGDDFFFFHHHHFBGCGEHDAEHHE6*3?:>EBHHHFEEFEEEFB:FHHHHBGC?GGHHH::F@F @read_150_400/1 TAAAGCAACCACGCCGTGCAACCTATGTAAACTTGTTCCTCCTGTGGGCCTCAGTTTCTCCCTGTAAAGTGAGCAGCTATGCCAGCCATGCTTCACCTTG + EEBFGHHHDFC8ECEBFHFHHHHHHHHHHHHFCBFHHHHHHHHHHHHHHHHHHHHHGCCHFHHHEHF>086848:>E7%(5.BF @read_150_404/1 ACAATAAACTCAAACAAATTTACAAGAAAAAAACAACCCCATCAAAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCG + GHHHHHHEHHEEDD8FFHHHGHGGHHHHFHHHHHGDHHHFGGFFCEHFEFEHHGHFHHFHHHCCBFFHHHFCHHFGGHCGEHF?DDFF4CFHHHHGFHHHHHFHHHHE;+/-9EHHHFHFBDGGBEFHHFBDF?==BHHHHHDFDEE @read_150_407/1 AGTTGAGATAAAAGCCTTTCTGGTGACCTCTAACCCCCTGGTCTGGCAGCTGGTTTCAGCTTATAATTGCTGAGAAGGTAAAGGTGTTCTAGGATAGTAT + DCDDDHHHHHHHHFGGBEHHHHGBGEEEEEHHHHGHHHHHHHHHGGCAAFFECDF:EGGHEHHH@@EBGHHFHHHHHHG4DHHBDFFFHHHHFCDAAFC4CBEEEFFC@HHHHHHHHHHHGFHFHHHHHECCBEB @read_150_409/1 GCATGAGATGTCCTGGTGTTCAGGGAACACAGTTAAACAAAAGTGTGATGCTGCTGTGGGAAAGCCTGCCCCAGGACACCACCATACCATGCTGTCTTCA + FGFBEGHHHHHGHHHGGHHHGFFGHHFBFHHH?;;DDB.EFHHHHHHHHHHFGHEFFDEFECEBEHHCDB?HHFHHHHHHHHHHHHHDFHHFB596 @read_150_410/1 TGCCCAGCCCTTGGTACACCACTGAGCCCTGGCACCTAAAATAGTGGCTACTCATAGCAAGCACTCAGTATCTGCAGAATGAACCAATAGATCAGATGGG + HHGFBDEDHHGHHHHHHHHGE=AADBEDDGIGHHHHHHHHHHFF?;=>EFHFCDFHHHHFHHFFHHHFFFAAEEFHGHCDD5A9DEADHF24/;@GE8.2 @read_150_411/1 GCATCTAAAATTTCTGAAGAACAGCAGTGTGTTATGTCTCTGAGTTCTAACAACAGACCATTAACCTACTCCGTACCGAGGGAGATCGGAAGAGCACACG + HHHHGGEFFFFGGHHHHHHHHHHHHHHEBFGGHG?HHHHHHDHHEGGGGGFDDGHFDA???FECBFFD4@A9%3/:A@F?DGGEBDFCFHHHHHHDD@,; @read_150_412/1 GATGTAAAGTGAAAAATTAGAAGTACATTTAAGAGTGACATATGAGAAAATCATTAAATAATGCAGAAAGGGGTAATTAAGATTCATACCAAGATGAACG + D7036@DBEGGGGFHHHHHHGFFDD-*:5B@FHGHHHHHFHFHHHHFFEFEHHHHHHHFE=AD@?.4CDD<-/539BCDDEEEHH=5A5''0,8=DFHHH @read_150_413/1 ACTGGAAGCATTCCCTTTGAAAACTGGCACAAGACAGGGATGCCCTCTCTCACCACTCTTATTCAACATAGTGTTGGAAGTTCTGGCCAGGGCAATCAGA + HHHFFGA>>8BFHHGHHHHHHGFHHHHHHHHHHHHHHHHHHHHHHFFHHGHHG@EEDDHHHFFFHHGGHHFHFHFHGGA9=<=@E@?EE.CCCEFDEGFF @read_150_414/1 ACGTGTATGTGTAAGGGCTATCACGTAGATTGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAAA + CDEEFB27DD@CDFGHHHHHHHHHHHHHHHHHGHHHHHGDDHHHEBFEFGGHHHHHFFHHHHHHHFHHHHHHEE@FGGFHHHHHHHHHHHHHHDC/,7/< @read_150_415/1 CAAATGAGACCAGACTGCAAAATGAGTTTATGTTCCAAGACTCATTCATTTATTTTTGGGTTTCAATCAAGATCGGAAGAGCACACGTCTGAACTCCAGT + HHHHHHHHHHHHHHHFHHHEEFC;D65666FDHHHE?<'@>?CFHHGGGGFHHHFBEHEFGG?GFHHFHEBBFFFHHFFFHHHHHHGGHHHHFFBHFHBG @read_150_416/1 TTTTTTTTCCATTTAGCATAATTACTTTGAAATCTGCCCATACTGTTGTCTGTATCAATAGTGTATTCCTTTCATCTCTGAGTGTCATTCCATTTTGTGG + HGGGFGBBDGBEGGGFGHGGGHHGGHHHHHGGHHEDGDHHHHHHHHHHHFFGEHHHHFHGFHFHHFFBEHHHHFFGGHE?GGE8A?AD.DEFFHGEBEFD @read_150_417/1 AGAGTGGTATTAGAAGCCAACACGTGGATGCCATGTATGCTCATTGTTACTGAGGCATCATTGTTTCTATGGGCTCCTAGCTGACAGAACCTGGAAATAT + GHHHHHHHHGHHFHHHHHHHHHHHHFHHBHGGHHHHHHFEGHFFFHHCHHHHHHGB=A996)AAHHEEH9CA.DDGDEFAHHFGFFGGFHHHDHHGGFG( @read_150_418/1 TATTGGAGGAACAGACACAGATCAATGGAACTGAATATAGAACCTGGAAATAGCCCCACACATGTATGCCCAACATGTACAATTTTTGACAAAGATGCAA + GGFBGHHHHHHHHHHHHHHHHHHHGHGGEHHFEHD=GF:FHHEEEDDFHHGHHHEFDFHHFFBB>FDEB?E?>7A*16DDEEDDBFFHHHHG=DEHHHGD @read_150_419/1 TAGATTGGGAAAGTAAAATGAACTTTGTCTGTAACTGAAAGTCATCAGTGACCACATTGTAGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACC + FHHHHHFFGGHHHHHHHHGGHHDDHHHHGFE=FHHHHEHHHHHHBHHHHGHHFEEHHHFE?C=EFFHHF?ED6?>D>CA;>FEFEBCFFBHHHE @read_150_421/1 CTCTCTAGTAGCTGGGACTACAGGCGCCCGCCACCACGCCCGGCTAGTTTTTTTTTGTATTTTTAGTAGAGATGGGGTTTCTCCGTGTTAGTCAGGATGG + HEFHHHHHHHHHHHHHHHHAGHHHHFFFEEGGHHGGGGFHHHHHHHEGFFHHHB?FGGGFHHHHHHHHFEB5@9&);?EFFFEFDEEEFB>@59DDEBCFBGFGGH;A:DBEEEEE @read_150_423/1 GTAAAATTATCCCTGTGTGCAGATGACATGATCCTGTATGTAGAAACCCCTAAAAATTCCACAGTTACTAGAATAAATGAATTCAGTCAAGTAGCAGAGA + HHHHEHHHEHHHHHHCE@DGHHHHHHHHGHHHECGGHHFEHHHHH80?EHBBBGEEHHHHFFEEBEFHHFHHFEEHHFEE8>ADD@C:<66@514ADAGG @read_150_424/1 CGTCTTCGTCCTCTCTCCAGTCCTCCTCTTCTGAGGTTCAGGGAGTGGCCGCAGCGGAGGGGAAAAGCGAGACAGGTTAGTCTGGGAGCAGAGAGCACCC + HHHHHHHHHHHHHHHHHGHHHHE=BBCCF=BFGHHHHHFHHHHD@HHHHHHHGFEHFGHHHHFEHHHGHFHHFEC@A8BHFHEFDCFBED@1/+. @read_150_425/1 AGACAAAAATAAACAATGGGAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAA + HHHHHHHHGAAGDFH?FHEEDFGGHHDHGHHHFHHHHHHHHFFGHHHHHHHHHEBHHFD?@DFDEF?A-45BCAEGCFFGHGGGCEDHHFGGHHHEFC48 @read_150_426/1 GAGAGAGAACATGTGAAGGAGGAACTGTCAAACACTTATAAAACCTTCAGATCTCATGAGAATTCTCACTTTCATGAGAACAGCATAGGAGAAACCACCC + HHHHHHHHHHHHHHHHFFEHHGEEHHHHHHHDFHHHEGEGG?FG-5>-@=CFEGHHHFFFEH?7BAGHHHEEEFFGGGFFDBFFHHD.?AFEHG51739: @read_150_427/1 TGGCATTTTACTGGTTAGAATCTCATTTACTGCATACAATAAAAAACTCAAAGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGT + GHHHHHHHHHHHHEGHFHHHHHHHHHFHHHHH=>+BDHHFGFFHHHHHHHHHHHDFFD8,47EBCAHHEEEFB@9GGFB<@FHHHFHGGGEBBEGGHHFADGEBF@;:?>E @read_150_430/1 CAAAGAGAGCCAACTGTTCAAACAGTGTTCAAATAAGGCAAATGCTTAGTTGGAACCAATACAGCTGTTTCAGTTTCCTTTTCTGTACATCACTTTCCTT + HHHHHGGHFFDC@BBFFHHHHHHHHHHHHHHHHHEE<<@@98:246EEHGFFC=>BBDB@:CFFDFHFEBFDB @read_150_433/1 TGCCCTGGATGGTCAGGGACTTGGAAGAAACATGATTGGAAAACTGGTGATGAAAAAATTTGGGCAAGAGGAATGTGGATGGACCTGTCTGAGTGATCAA + HHHHHHHGEHHHHHHGHHHHHGHHHHHHHHHHGFFDBFFHFEFFHHFHHFFGGGHFHHFFHH@<ECDHHDDDDEGAAFFCBGFEGBB@>FGGGHHGHHHHHHHHHFDDDDBCFE @read_150_435/1 CCATGATGGATGAGGAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAAAAGAAAAAAAAAAAAAA + HHHHHHHHHHHHHHHHHHHFHHHH?HD@HGFHHHHHHFGHHE==FHHFGF5;(7>;;6;=EEE>:A@CCHHGFBHGGBB/:AC@A(.>EFEFFHHHGBEH @read_150_436/1 GGGATGATTTATGGGCTTTGTGCTTAAGAGTATGAAGGTGTATAAAAGCTGGTGTGGAGTATGGTAAGGTTGCTGAGTAGAGATGAGGAAAGGACTGCAG + HHHHHGHHHHHHHHHHHHHHHHHHHHHHHFHHHHHHHHHHHHHHHHHFCHHHEHFHFHFCFDFFHHHHHHDDDBCAHHHHFGED.:-2;>6.GHHA@:31 @read_150_437/1 ATCTATGTTCATCAGGGATATTGGCCTGTAGTTTTCTTTTCTTGTAGTGTCTTTGTCTGGCTTTAGTATCAGGGTAATGCTGGCCTTGCAAAAGGAATTG + HHHHHHHHHHHHHHHHHFGHHHHHHHHFFHHHHHHHHHHHHHDBHHGGHHFFFFHFDACFFHHFHHFF?EACFFDHHHGGHFHHHHGDBE<1(503BEBG @read_150_438/1 TGGGTGAGGGGAGGGGGCAGGACTGCAAGCATCTAGAGGGTAGAAGTCAGTGGGCTGTTAAACATGTTCTAATGCACAGGACAGCCCCCAACACAAAGAA + HHHHHHHEE2DGHHHHHHHHHHHGGHHGFFHHHHHGF7:=D@8CHFFFFFGHHFHEFGGDGEGGHHHGHHHHHEGGFHHHHEBAEEEBHHHGGFEFEE@@BECC:CDFHBHHGG @read_150_440/1 CTACTAGATGGTGCTATGATTGAGGGACCCAAGACCAGCTGAATCCCATTATGATGAAGCCTCCTTTTCTTCCCTTTCTCCTGTCAATGTTTCTAAGGAT + HHHHHHHHGEHHHHHHFFEFHFHHHHHHGG@BAHHGECDFEHFHHFFGFHD+80@>@FHDHHHHDFHFHHFFGFDHHHHEHHHHGHHHFGFFEHHHHHFE @read_150_441/1 AGCTCAAGTGCCAATAGACATGAGAGAGCTTATAGCTGATAGGGATGTAAGGAAGGGCAGGGGTATCTCCACAGCCCTGACATAAGGCAGGCTGAGGTAA + GGGHHHHFGGGHHHHHHHHHHHEBEGGGHFGHHHHHHHHHHHHHHHHHFHHHFHHHHHFHHHHHHHHHHHHEEDHHHHHHHHGEHHHHHHFE90:ADFGC @read_150_442/1 GAAAATTAACAAAGATATTTAGGACCTGAATTCAGCTCTGAATCAAATGGACCTAATAGAGATCTACAAAAGATCGGAAGAGCACACGTCTGAACTCCAG + HHEEDFEGHHHHHHHGHFHHHHHHHHHGHHGHHFFFHHHHHHHHHHHHHHHEDDDEECBFHHFHHHHHBFAAB?CG=423595EBGHHHFHEE4%6,1+: @read_150_443/1 CTTATTCCAAATTTGAAGGATTAGGCCATGTTTTTCTTTTTTGCTGAGTGCATGATTTTTCCCATGTTGTACCACTTGAAAGAAAGGTTTTCCCTTTTGC + HHHHHHHHEHHHHFE=@FFGHGEHF?EGHHGHEHHHHHDCF>8HHFFDEHHHHHHHFHHHHHHFHHHHFFED5DEGHHHHFBFHHHHFEHHHHHHGHHGG @read_150_444/1 AGTTAGTGATGTTGACACCTCTGCATTTTAACACTGGGATTTCTTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTC + HHHHHHHHHHHHHHHHHHHHHHHHHHHHFHHHHFGGHHHHHHHF?C=9CEEDBFFHHHHHHHHFFD?F>478-1>DDBD;6>;?A?DFHFDFHGGBDGB9C>G@39<'178<:BFHEH @read_150_446/1 AGTAGATAGATCCATGATATATTCATAAAGTAGCTCTCCTAAGTATTTCTTTCTAAGTATTAGATTAAAAACATTTGGTAGCCAGGTGCAGTAGCTCGCA + GGHHHHHHHHFHCB@FGEDD:EHHGGHHDHHHHHGDEFGFHHHHHEB3:6EHH?AHHGGHHFHGGHHHHF=DGBGFEDBFGG @read_150_447/1 GAGTGTGGCCCATCTAGGGAATGTGGTTCATCTAGGGAGCGTGGCCCATCTAGGGAGCGTGGTTCATCTAGGGAGATCGGAAGAGCACACGTCTGAACTC + HHHHGGED?EHHHHHHHHHHHHBFEHGFBDFDGHFHHHFHHHHHHHHEHHEHGGFHHGGFEHHHHGBFCFHHHFCHHFFE77EEEGGHHFGDGB@FHGF6 @read_150_448/1 GAGGCTCGAGGATCACTTGAGCCAAGGAATTCAAGGCCAGACCAGCAACACAGTGAGACCTTGTCTCTAAAAACAACCAAAATCCCTCTGCTGGGGGCAG + HHHHHHHHHHHHHHHBEFFGHHHGHHGEHEEEGHHHHHHHHHHHFHHHFFHHHFCHHF>;DA>AED4??E @read_150_449/1 ATTTTCCAGTCAGATAATCTAATTATAACCATGAATAGAACTGAAAGAGTATTAATACTGTAATACCATATCAAATATACAATATGGAAACACATTAAAA + HHHHHGGGGHHHHHGEGFHHHHHHHHHGHHHHHHHHHHHHHHHFDC=DDHHHF9FFECHGEBE=HGFHHHHGG?;7CDFHFHHH @read_150_452/1 TTAATGTACATGATATGAATGTGAAGCATAAAATTAAATAAAATTTTTCCCCATTGGCTTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTA + GEEG@FDE=CCB@CCC6CDDFHHGEHHHHHGFHHHHHHHHHHHHHHHGHHHHHDD<&*&)3@HHD,:AHHHGA?EEDE@CHHHHGCFHDHHHHHHHHHFGHGDDC @read_150_455/1 AATGATTAAAACTATAAACATACATCTGTAACATTTCTTTCTAAACTATTCTAGCACTTCAAAGCCTGAAGCCTATTACTGTTATATGGAGAAATGTATA + EEEEGHHHHHHHHHHHHHHGGHHHGGEE8HHHHHECFHHHEFFHGHHHHCFGFGFFEF>:<;BDFGG;AEHHFHHHGGGGHHGFFHGFGGFFHHHHHHHE @read_150_456/1 GGAGGGAGAGAGAAATAGAATATGAATAGAGAAAAGAGAACCCACAAACCTAACTATAACAGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACC + HHHHHHEFEEBEGGGGHHHHFHHHHHHHGGGHHEFGGGGEFFHHHHHGHBFBGFD:061:=DFEB,>(C@FGGGDGGGEHFD,:>*&+BEEFFEHHDHG6 @read_150_457/1 TAATAACAGCATTTACAGTATTGTGACTATGTAAACGTTAATTCATGGAGGAGCCAAGTAGTATTCTATGAGTATAATTTCTTTCCTACACGTTTTTATT + HFEHHHHHHHHG@FEGGGFEEHHHHHHFFGEEHHHHHHHHFFHHHHHHBGGAFHHHHFFBEF6EGFBAEEEBEBEHGGFD9:+'21)0?CHHHFEBHHFH @read_150_458/1 TGCAGCGCTCTTTACTTCTGGGTTTGGCCCAGATCTTAAGTCATCCACATATCTTCTGGTTTTCAAAATTTATTCATTCAATCAATATTTATTAATATTT + HHGHHHHHEFGEFHHHHHHHHHHGGHHFGGHHHHD@GFFFECBECFFHGHHHHHHHHHHHGGE@HHFDEEDFFHHHGHHHDBAFFHHHFFFBB=GGGDDF @read_150_459/1 GAGTTGGAGACCAGCCTGGGCTACACAACAAGACCCTGACTCTACCAAAAAAAAAAGTTCTTTAATTAGCCAGGCATAATGGTGCACGCCTGTGGTCCCA + F@BEB<:8:9CC@BGDHGDGGHHHHGDBAGGEBGHHHHHHHHFGGFFGHHHHHHHHHHHHHHHHGFFFFHHHHHHHEEHHHHHEHHHGHHDDFHHHHHGF @read_150_460/1 TGAATAAGTGAAGGATGATGAAAAGAAAGGGACATGATTATATTTATGAATTCATCCCCAATCTTCCCTTGGGAATTATTTTCTGGACAAATCCTAAGTA + HHHHGFFFHHHHGGGHFDEEBC896EEEEG;B>HHHFCD?GEBHHHHHHEHHHFFHFGG63:@FFHFFHHHHHHHHHHGEC9FHHFDHHHHFFFGEFFHH @read_150_461/1 AGAAATAGACCCAGGCATATCTGGTCAGTTGCTTTTCAACAAACTACCAAGATAATTCAATGGGGGAAAATAATCTTTTCAACAAATAGTAGATCGGAAG + GGGGHHHHHHHHHHHHHHHHGEEGC+B>@>CFDAHHHHHHHHHGHHHHHHHHHHHHHHHECGFHHHHHHHHHHHHGE78.3>DDH>FEDFB=HHDDFFFGHHHHHFHHHGGHHEGB,5;EHHFH @read_150_463/1 AGGCTGCCGGGCTGAGAGCGCGGAGACTCCTGCTAGGCTGTAGTCTGGCAGGCCGGGGGACTGGGTTTACTGGAAGAGTGTGAGGTGGGGATGCAGAGGG + HHHEGFFDDDHHHHFGGBAHHGHHHHHHHHE@DFEHHFEGGGHFBHHHFHGFFHCEFFFHCF72)77::>><9FFGGEHHHHFFB:D @read_150_464/1 GGCCACCAGTTCAATTCAACAAAAAACTCTCTGGGAGTTCCAAATGTGCCAGGCACATTGCAGGGCACTGAGATCGGAAGAGCACACGTCTGAACTCCAG + GGGGEEGGFGFHGGHHHHHHHHGHHHHHFGHFFHHHHHHHHHHHHHHHHHHFFFHHFEFHHFGDFHHBCBHHC?FDEEEHFHHEBEDC5FFDCDHHF.79 @read_150_465/1 TCTTTCAACAACTCTAGTAAGGAGGCGTGTTCCAAGATGGCTGAATAGGAACAGCTCTGGTCTGCTGCTCCCAGCGTGATCGACGCAGAAGACGGGTGAT + GGGCEE56CDEEGGHHHHHHHGDHHHHHH@/8BBGECHHFFHHHHFFCE=FHHHHHFBHGHHBB?5<0;9+02>D>>EEBEF@HFHFFGGC@B:9AADHF @read_150_466/1 AAAATGTAGGTAGGTCCTAGGTATATCAGGATGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGCTTGAAA + HHHHHFDGGFDDDA?GBDDEHHHHHHGD-D,1-98;??==;FFHHHHHHFHHGHHHHHHHE?863:FADE>CDCCGHGFGHHHFFHHHHHBHF=B(9:CF @read_150_467/1 TCATCAATTAAGGAAGGAAAAAACTCTGAAGTTAGTTGTTTTGCATCAAGGAGACAGAACAACTGGTTGATTGTTAGATGTTTCTGCTTCTCCATTAGTC + HHHHHHHHHHFFFHEFEFHHHHHHGGHGGGEHHGEAEA(;-208@>4.AFHHHDEHHHHHE=:BDGGBDAFFFHHHHHHHGGDBFGGGHFBGACBGHGHH @read_150_468/1 TGTTTTAGAAACTTTGTTCTCTGCTGGGCGGGCCTGGTGGCTCATGCCTGTAATCCCAGCTCTTTGGGAGGCCGAGGCAGGTGGATCACAAGGTCAGGAG + GFF>>=CGGBDGHHHHHHHHHC?E=@F@CBE7>C/=DEEE@FBFFHHHHHHHHFFDDD;7(6CHFFFCHHHHHHHHFEFFHHHHGFABDGGFFFHF@@+C @read_150_469/1 GTCAGGAGATCGAGACCATCCTGGCTAACACAGTGAAACCCCGCCTCTACTAAAAATACAAAAAATTAGCCGGGCGTCGTGGCGGGCGCCTGTAGTCCCA + F6DB8;EDBBFHHHHHFFDHHHGGGFHHHHHHGFHHHHHHHHHFF@BBFHHHHHHHFBC?HHDDC2BHHHHFHHHHHHHHHHFGGGHCCFFF @read_150_470/1 CAACAAAAACAAAACCAAAAAAAGTGGGCTGTGGAACACTGAGAGGGGCTGGCCTACCCTTGGGGCATGGATCCCCTCCCCGCTACATCTCCCACCATTG + GEGGGGHHHHHHHHHHHHHHHHHHHGFHHHHHGGGGGHCDEFFHFBHHHHHHF6=EBFGB;EHFFFCH?BDDDCFHHEBGFFDFEGFEFHDDDAE<>=DG @read_150_471/1 CTGAGAGGGGTGCTGGAATGTAGAACAGAATGAGATTGGACTGGAGGTTCCAAAGGTTGGTTTGGCTTAATTATGTCAGTGCCAAGTAGATCGGAAGAGC + HHEDFFFHHHCHHE+5@EHHHHHHHGGGHHHHFDDEHHGGHHHHHHHHEHHFHHHGEFHFFHHBFECC?FFDHDDCCGGDHHH>?FHDGHHEHB9EEHFE @read_150_472/1 TTTGAATTCCTTGTCTTATAGATCACACATCTTCTCTTTAGGATCTGTCACTGATGCCTTATTCTGTACATTTGGTGAGGTTATAAATCCCTGATTGTTC + HHHHHHHFFHHHHHHFFGGGGGHHHHHHHHFHHHHECHHHHEHEEFDFFHHHHHFHHHHHFEE@DDHHEGFHEEBGGGBFHGGEEHHHHHHHHFFHGBFF @read_150_473/1 TGCACACCCACCCTCCCTCCACCCCACCCCCCTTTCCCTTTTGCACCCCCACCACGGCCGCAGGCATCTCAGCACCATGCACCTCCCCCCCATGCCCTTG + HHHHHHHHHHHHHGGHFHHHHHHHHHFEFHHHHH?DFEDHHGHHHHFHHHHHHF9FFBEFFGEFHBBFF?8:1@@HHHG.,3;;+::AD?:DFF@FFFFF @read_150_474/1 TCACCTTGTTAGCCAGGATTGTCTCGATCTCCTGACTTCGTGATCTACCCGCCTCGGCCTCCCAAAGTGCTGGGATTACGGGCGTGAGCCACTGTGCCCG + EFFFEFFHHHHHHHHHHHHHHHHHHGEEDHHHHHFHHHHHDHHHHHHHHFHFEEDCDDBEEEGGGBEFEBHHHFHHGHHHH; @read_150_475/1 TTGTGTGCTCTTGGTTCCCTAGTTCTTTTAGTTGTGATGTTAGGGTGTTGATTTAATATCTTTCTAGCTTTTCGATGTGGGCATTTAGTGCTATAAATTT + EDEEHHHHEEAGFHHHHHHHHHHHHA7,;:CBC@BGFEBGHCFC7HHHHHHDHHE??EB@9EEEGGA@HDBHFFFHHGFE@AD@DFFFECGEE<5C=?67 @read_150_476/1 GTGCACAATTATATAAATTGCAAATAAAGATCATTTTACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCTAATCTCGTATGCCGTCTTCTGC + GFGFGEGFGHHHHHFHHHHHGGHHHHHHHHHHHHHFHHHFGFHEFHHHHHHHHFEHEHHHHHHHHFFDCCFFEHFHHHHGFGGEDFHHHB=E;A>><=,? @read_150_477/1 TCAAACGAGGCAAGTAAGAACATAACTGGAAATGTTTTGAAGACCCCCTACACAAACACACCTGCAGAGGCTCAGGCCATTTTAGTGTTGCACTCAAAGG + HHHHHHHHHHHHHHHHHHHHHHHHHHHHGGGGFHHHHHHHHHHHHFFFB@GHGFHHHHHFHHHHEFGGFHHHHHHHHHHHHHHHHFBHHFF@FDFFFEHHHFHHHHHHE?EE>>55<8;5-? @read_150_479/1 AACACTGGAGCTCCCAAATTTATAAACTAATTACTACTAGACCTAAGAAATGAGATAAATGGCCACAAATCCATTTGCTAATGGACTTAACATTTGTTAA + HHHHHHHFFHHHHHHHHHHDCDGGEB>7EEEGHHHFFGFFGGHHFC0@-5GE??DAEGGHHHHFHHHHHEEHFDBHC?<>@ @read_150_480/1 GGTACAGGTTTATGTACATATTGAACTACACTTTTTGTCATTATCTTAGAGTGTACTCCTTCTACTTACAAAAAAAAAAATACAACTGTAAAACAGACTC + HHHED=BDGBDECDEDGHFHHHHHHDDDEHHGHHHHHHFHHEEED@BDDDBBFFFHFA5AFBBGHHC<9?FHHHHGFGGEHHHHHHGFFABCECD98399 @read_150_481/1 TCATGATTTGCTTTTGGTTATAACTGAAGTTTGTAATAACATTGCTAATATTATTTCATTTTGTCTAAGAGTGTGTCAAGCTTTTAACACTTGGGGAGAT + HHHHHHHHHHEEEHHHEEEAGDGFHHHFDD@@?GGEFFHHHHFFFEBFFHHGFHHHHHHHHHFFBEE9>ED8?BEGGGGGGG=EEEB8*/:6,2)749EG @read_150_482/1 AAAGTCTGAGGCCCTGAACAACAATTCCCAGGATGTCTTAAGTCCTGGTTTCCCATACTGATTCACGTTGTGCCCCAGTATTGGGAGTCATTGGATCCAC + HFFEFGGFGGGGGHHGFGGHHGEHGGGGGHHGCDFHHHFFDHHHHHHHDDAC?GE;A? @read_150_483/1 AAAGTTTTACTACAATGTCATTTTAAAGTCATAGATAAAAGTCAAGACAGTGGTTATTAATTTGAGAAAAAAATATTTTACAAAGAGGAAGTGTAGTCAC + GGGHHHHHHHHHHHHHHHHGHHFHHHHHGF.6AFHHHHHHHHHFDHEHHHHHHFFFE>9BBHHBCFF@@70:CC @read_150_485/1 TCCTGCCAAATGGTCCCCATTGCCAGTCTTAGAATGAAATCCACCTCGTAACAGCTACCAACTGATCTGCCCCCAGGGAGAGCTGTTATTCCATATTTTC + EEEGGEGGHHHHHGEFFFFHHHHHHHHHHHHHHHHGGGEEGFEHHHHHHEFHFHHHHHEEECGHHHFDDFEEHHHHHBDHHHHHHHHDBBFCED694?EC @read_150_486/1 ACTGTTGCTTTTCTCTCCTCCTTACCCATTTTCCAAGCCTGATGCACTTCTCAAGATCCAATCTGAATAGGTGAATTTACCCTTGACATACACTGCCTTG + HHHHHHHGGHHHHHGEB@B<@C@EDGEEHHHEE?FF?@BEGHHHHHGG9AFHH?B?9EEHHHHHFDCHHHHHHHFHFFFHHHHFGHHHHHD=FGGHHHFH @read_150_487/1 GGAAAAGGGTAAATTGCACAAGCAATTTCTGGGGAAAAAATGGCCCCCACCAACAAATTTTTTTTTTTTTTTTAAAGCAAACTTGCCTGTGGAGGAATTT + HHHHHHHHHHHHHGGHGDDGHHHHHHHHHBFBDEEB@HFFDFFFFBEGFHHHHHHHHHHDEAAEADBEEBDFGGFHHFFBCC>:5@BEDFA@CFHFHHHFHHFEE9CDHHHHHHHGGFFHHHFHHHHH@7CHF @read_150_494/1 TGGGGATAAAATATGGTAGGGAATATTTCAAACAGAGCATTCCAAGTAAATGCAAAGGCCCAGAGGAGAGAGAAAAACGGGGCATCTTCCAGGCAGTGAG + EGGGGHHHHHHHHHHHHHHHHHGHHHHHDEEFEFFC:2B<;@FA:<;CFGEGGDHHEE?CFHHHHHHHHD @read_150_499/1 AAAATTTAATAGGAAGTACTCATGTCCATTTATATCAAATCATAGAAGAATTTCAAAATAAGTAGCGCCATATAGAAAATGAATGTGAACACATTCTCCA + HHHHHHHHHHGGGHHHHHHHHHFEHHGDGFFHHHEGGFFHHHHFBFFHHHHHHHHECFBFFHHFFHHD9:@FFHHHHGHEFFHHHHFHHGEDEGHHHH=@ @read_150_500/1 ATGTCTGTTCATGTTCTTTGCCCACTTTTTAATGGGGTTGTTTGGTTTTTCCTTGTAAATTTGTTCAAGTTCCTTATAGATTCTGGACATTAAGTCTTTG + HGFFFHHHHHHHHHDFDBDFGGGFFDA9DDBFHHHHHHHHHHGHHHHHHHHHHHHFHDHE5EEFFHFBHGFHHHHHHFGHHHHFHC<>EBEEGHGGGFHH adapterremoval-2.2.2/examples/reads_2.fq000066400000000000000000003265041313314234200202160ustar00rootroot00000000000000@read_150_1/2 AGAAACCACAGTGACTTAAACAGAGAAAGTTTAATATAAATTTTTTAAAATTATGTTAAAAGAGCAATTATAATATATAAGTTAACTCTATGTGGTACCC + HHHFFHHHHHHGFBGHHEFBDG?B=GHHFGFHFHHHHHHHFBFHHHHHGGEEG=DGGGGCHHHHHHHGEA%5ADHHHH=G&&*>>E6,735@GG @read_150_3/2 GTCATTAACATTCACGAAGATAAATTTCTCCATTTTAAACAGAGACACTCAGTGAGCAGTAACCTGATTTTTTTTGGAATTTCATTCTTCAGGAGGGCTT + HHHHHHHHHHHHHHHHHH?GF5:@AFHHHGHFDDGGFFFHHFGHHHGGHHHHHHHHFGHFGEGC.18984>1BC=GFFAC<>E?..59&&-81:<<5.@ABCDBCE>:>@CDGHHHGEBFE/38@EEFBFGHHHHHHEGH?DHHHH>'9DEC**'*6 @read_150_5/2 TGGGGCCATCAGGAATTTTGCAGTGGTAATGGGGGACATTTTAGCTGAGACTTGGAAAAATGGTAGAATTTGCTCCAACATGAGGAAATATGAGCATTGA + HHHHGEGHHHHGEG;/FHHHHHHHHE;@==G=DC>DGFHHHHHHHHHHHHHHFD;>A5<(@<4 @read_150_7/2 ACTTGCACCTCTTCATCAGAGGAGCAGATCCAGGAACAGAAGTCCTGCATTTACAGGCTCTTCATATCTTGTGCCGGGTTTGGCTGCCAGGTGGCCAGCT + HHHHG=BDEDFFGGHHHHHHHHHHHHFHHFHHHCGHHHHHEBHHHHHHHHHHHHHHGEEE??6BCFHE624@7=1AFGBDHHHFFE<<.>,1349EEHHHHHHHGFHFHHHHHEHHD=:>-7@BC2BHHHHHHHGBHEFFHHGGHFGFHHEEFHFBEBEFHHFFBCA?B @read_150_9/2 GCCTTCCCTCTTCACTCCCTCCCTTATCCCAAACCTGCCTAGGTGGGGCTGATACAGACAGCAGGCCTGGCTCTACTTGTTTTGACAAAATATATGCCCT + GGGEBGHHHHHHHHHHHHHHHHHHHHFADHHHFHHHF?DEF@B>C;CDGEHGGHHHE@@DBFGHHHHGB>BBFEGEGHFHF8ADCFDEE4D?>H@:>DD= @read_150_10/2 TAGTCTTCTCTTTCCTGAGAATATTTTTATTGCAAATATGTAGTCATATATACGTAAGATAAGGATATTTTAAATACTACTTTAAAAGTTATTACTATAA + HHHHHHHHHHHHHHHHHHHHHHHHHHHHHFFFGHHHHHHHHHHHHEBDG>CCBB?FHFHHDEFHGDDGHHHHHH@BECHHEHGDHHHHHFHHHGEHHHHH @read_150_11/2 TCCTTCTTAATAATCGTATTAGAGTAAATTTCCACATCTAAGATTACCGTGCCAAAAGCTCTTGCTCTCTATCCTGTATTTTACATCTATGGTACGTTTA + HHHHHGEHHHHHHGHHHGGGHFGHHHHGGDHHGGHHHHHGHHFHHHFBD@FDFFHHHHHHHEHHHHHDDB=DA@@5DBC<.&9=AEHGFHGGD=1A;3CC @read_150_12/2 TTGCCTCAGATGTGGACCCAGTGTTAGATTTAGCATATAAGGATTTTAAACCAGATATTACAAATACGTTCAAAAATCAAAGTAAAACTATCTTGGAGAA + HFB<95>:5226A>>DDCB@--3;BFFH @read_150_13/2 ATGTTCTGGGATTTTTACATTGCTGATATCAATTTTGGTTGAAGTCGCAATGACAAATTTCTGGTATTTTCTTCATAGAGGAACTCGATTGAGGGCCAGA + HHHHHHHHEGHHHHHHHHHHHGEGGFHHHHHEHHHHHH@E>FHHHHHEE;EFHHGHHB@FD:<.?DDGHHGBDDEE=ACEGHHHHF=CC?DGBBHD@DF8 @read_150_14/2 ATTATTGATTACTCTGGAAAATAATCAGCATTGATATAGCAATAGTAGCATGGCAGTCAATAAATAATGTTTGTAACGTACCTGACATAATCAAAATAAC + HHHHHEE=/?<*>FE;-53>>8=FEEFHHHHHHHFHHHHHHHHHEHHHHHHHHHEFEEHHHHFEBFEBC>FHEGE9?D @read_150_16/2 TGACTGATTTTTAGACAGGACTTGCAGGATATAAGCATCAGGCAGTATTTAAAAATCTGGGAAATTAGCAATAAGATCGGAAGAGCGTCGTGTAGGGAAA + HHHGHHHHHHHHHHHFFHHHHHHFFDEGDHGHHHHHHHHHBBAB>.6HHHEEFFGGHHHHE@?=EGGFBFHHHHHEHHHHHHHHBEEFFGHG5CBCACDG @read_150_17/2 GCTTCGGTCCGGGTGAGACAGGCCAGTGGCTGCAGCTGCTTTGCCAGAGGAGAAAAGGGCATCCTTCCTTGACTAGGAATAAAGAATGAATGAATGATGT + HFHHHHHGFHHHHHHEBHFFHHHHHFEHHHHHHHHHHHHGHCCGGHHFEGHD=FGGGHHHHEEHBGHHHHGG),BAA?>5%4:FGGDHFE@614A= @read_150_20/2 TGTTGGGGTCTGTGGCATAACACAAAATATACTTGGTCTTTGTCCCCAGCTCCTGTGCAGGGCAAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTACA + HHHGGFHFHGHHHHHHHHHHHHHHFHFGHHHHHHHFHHHHHHHHHHHHGGFHHHHHHGGHE><.??D98EHEC:.B @read_150_21/2 CAGAAGGAGAAGCTGGTAACTGTCAGCCACTTTATGGTAGATAAATCGAGGCCGGGAGAAGAAAAAAAATCACAGTAAGAGGCAGTGAGCAGAACCAGAT + HHHFABEHHHHHHHHHGHHHHHH@:ABHGGHHHEEHFHHHHHH>>=FFHHHHHHHCEHHEGEGFD-%%5CGCEHEHHFHHGFEH>>BDEEBDBFE.1%88 @read_150_22/2 AAATGAGGCCTGAGTGAAGAATCTTGATACTCATAGGTCATTAGCTTCATGTAAAAAAAAAAAAAAAAAAAAATAAAAACCAAAAAAAAAAACCTTTGAT + HHHHEEFEGDHHFHHHHHHHHF8BCDEHHHHHHHHHHFFDEHHHHHBAADGFGGBFFFGCGGHHHHHHB.057(+2-9GGHFHHFHFA@@;>DEDEBEFG @read_150_23/2 TCATAGTCTTCAGTGCACCTTAGATTGGGGTATTGTTTTGTTTTATTCCAAGTGAGCAGGGAACATGTTAATGTTGGACATGTTCTGAAACAGTTGATAA + GGFFGGGHHHHHHFHHHHHHGHHHHHHHGHHGFF=BDHB84DB@AC5(('97B?@E=6>@AHHHHFFEGEGHHHHFHFDGHHHHHGGHGHHGEDD?7>29 @read_150_24/2 CAACTTAATGTGACTGAACTTAGAATTGGGAAGATTCACGTGCAGTTGACTCTCATGAGCCAATACAAATTGGCTCCAACACACCATCAGCATGACTATT + HHHHHHHHHHHHHHHHHHHHHEFHHHHHHHEHHGFDEFHHHHHHGHHHFDHHHHHHHFFDG@BCFFHGFHHHHGHEE@AD?2&5.544DE82EDHH=<45 @read_150_25/2 AAATATCACTTGTTTCTAGTTTTATGCAGGATATTCAGTTGTTCACTATAGGTGAGAAAAGCTCAGAAATGTCTGTTCTTAGATCTTACAAAAACAGTGT + HHHHGDGGGGFGGHHBAB=??CCDDBGCDEGHHBHHHHHFCECBFGGDFFGHHHHHBB@.<3,+6<<9=DCBGGFHGED@GHC@GGEEFEGB?>DB>58E @read_150_26/2 AAAAATTATCCAGGCATGGTAATGGGCGCCTGTAGTCCCAGCTACTCAGGAGACTGAGGCAGGAGAATGGCGTAAATCTGGGAGGCAGAGTTTGCAGTGA + HHHG>:>98633131><>>??BFGHHEHHEHGC8=8@DDCHHHHHFD;7EHHHHHHHHHHGGHHHHHHHHHHHHHHHHHHHHHHHEEBEBGECDEEEE<8 @read_150_27/2 ACACACCACCACACCCAGCTAATTTTTTTTTGTATTTTTTTAGTAGAGACTGGGTTTTACCGTGTTGCCCAGGCTAGTCTCAAACTCCTGTCCTAAAGTG + GHHHHHGHHHHHHHHHGHEGHHHHHHFIGGGGBDEEEEE6BHDHHHHHFHHGE@HHHHHHC8//4*)5>CGFHHHDFHD=EE;)--7:ADHBFFF @read_150_28/2 TGTGAGGATATAGTTAATTAAGCTGCATTAGGGCAAATATACACACTTGTTAAAACACTTAATTTGCCTCAATAAGATCGGAAGAGCGTCGTGTAGGGAA + GDD??<9;:=EEG:?CCCC@FFGHHBGFFHFD=D@@>18>=<3=FHGGFHFFHGGHHCBHHHHFFFAFFFHHHHHHHDGHEFC9=DDBDDHHHHHHBGHH @read_150_29/2 CTTGCCTTCTGCTTCCAAGATGGCATCTTGTTGTTGTGTCCTCTGGAGGGGTCCAACACTATGTCCTTACATGGCAGAAAGGATGAAAGGGACTAGTGAG + HHHHHHHGGDEDG;DHHHHHHHFBDAGD@EDEE@C:DBDEFHHFBDDHFFGGGFHHHHHHHH=:A+/BHHBBF==EFFFHGGEED;3/@7E=A>87)*.: @read_150_30/2 CTCTCATCAGTCCCACTCTGGCTCTGGGTGTCTGTTAGGGCTGGATTCACAGAGTGAGGGGCCTCTGCTGACGAGGATGTATGCAGGGGCTGACTGGGCG + IGDDDHHHHHGHHHHHHHG=CBCB>&-+BEHHHHEGHHHHHHFBHHHFHD/5=60CFGHEEFGEHHBFC.2':.9?FBHHHHGFCFEEEHHHHB=A?@A4 @read_150_31/2 CTAAGCAGCAGGCTTTCTCTCTGGGGAAGATAGACAAATAAGTGACTTAAAGCATTCAGAAGCAGGAGACAGAGAATGATGAGATGAGTTCCACAGGGTT + HHHHFF?FGFHHHHHHHHHHHHHHHFFFHHG7D=CB<9>4;4>AFHA@>>EDCDBHHHHHHHHHHHHHGHHFHHHHHHFHHHD=5@DHG6CA58=DD>AE @read_150_32/2 ACTCATAAAGGTGTTCATGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAA + HGGGGHHHHHGHHE8DHBGGGGGGEHHHHGGBHHHEFDCFEHBDEGGGHFFHBD555ADHHHHHHEGHHHHHFD43 @read_150_33/2 GTTCGAGACCACCTTGATTAACATGGTGAAACCCCATCTCTACTAAAAATACAAAATTAGCCAGACGTGGTGGTGCATACCTGTAGTCCCAGCTACTCAG + HHHHHHHHHHHHHEEHHHHHHHHHGHHHHGEEEHEHHHHHHHB6DHHFCDEDEGFHGGGHHHB8><)0-<9@;@HHGBFFHEEEGCFFEFFBFBCEDHFE @read_150_34/2 GTTTCGGATCTTGATATTGCCCACTGTTGCTTGCTATCTATTTCTTAGATGAGCTGAAATTATTCTTTTTTTAAGTAAGTGACTCTTTTGTTATTCAGCA + FGGFDGGIBBEDB/9)/:HHHHDD=GGCEEFGBADA7EFEBC@DEGG?:C-/EDEDEG?BEGG4(4CCGFEE6EBFCCEE @read_150_35/2 AGAAAGCACTGTGAACTTAGTCATTAAAAATGAATATTTAACAGTTCACTTTTGACATGCATTTTTAAAATTTAAATTAAACTTTTTTTTTTTTTTAGTT + HHHHHHHEEEEE/?636BGHDAEBDEBD@GEHHHHHHHHCD*1::CEDCCDB@GGEEFGFHHHHHGHHGHGHHHHHF8=FHHHHHHHBFHHHHHHFFHHH @read_150_36/2 CTTTAAGAATGATATCATATTGTTTCTATGCAAACACTGATGGTATTGTTCACATTATTTATTTATTTTACAAACCCAGATCGGAAGAGCGTCGTGTGGG + EF@@DEGHHHHHHHHHHHHEEEHHGHHHEFHGGCBHHHHHGHHHHHCCC>DDD;DHHHFIHHHHHHHHHGEFGFGHEHFGHHHH@*66G?1(03 @read_150_37/2 CCATTTGACCCAGCAATCCCATTACTGGGTATATACCCAAATGATTATAAATCATTCTACGATAAAGACGCATGCACACGTATATTTATTGCACCACTAT + BEED@FBFHHHHHHHHHHG;8CD=HHHHCB6>563<5?D432>..<6<>@923@CFGHHGEHCEEDEHHFHHHHHHHGHHHHFHHHHEHFCB:.<<><@CGGEDEECBEEHFFBE @read_150_40/2 AAAACCAAATCACCTCATTAAAAAATGAGCAAAGGATGTGAACAGACACTTCTCCAAAGATGACATACAAATGGCCAACAAACATATGAAAAAAATCCCA + EGGHHHHFEHHEGHHHHHHHFFHHHHHGF=@E8CCHHHHFEHGGIGEEBD<47.5?GGGHHHC8CFHHHHHEG=CHHHHHHHFHHDEEGGFFFEEGEEF= @read_150_41/2 TTTTCAACAAAGGTGCTAAGATCACTCAATGGGAAAAAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAA + HHEHHHHHHGEEEBEEHHHHBFEEEGGGC?EG6:;BGGEGEHHHHGFGDDHFEGGHHHHHGA>.?,47>6ADHHHHHHFGHHHEDDCDDFEFHHHHHHHH @read_150_42/2 TCTTGCATGTAGACAACAGAGTCCACTCTGGCTATTTTCCGTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT + HHFFGE@.'8>>@DHFFDBHHFGED>13=699D=,>66EDEG669?CCCDE@44@6GHFHHGFGDA@>@?=HGECGG>@CFFCCBD?FFHEEFFC>.*/( @read_150_43/2 TTCAAAACAAACTGAACATCGCTGGAGATAAGTCAGATGACTACTCTACCCTATTTACTTGCTTAACAGTTGCCATGACAAAATGGCCACACCCAGGCTT + EHHHHHHFHHEIIEBE=@<-;AAFGHHC@>>BBGHHFHHHFHFE?EEHHDEGF7BHHHHHHFHHHHHHHHHHHHHHHHHHHG?@?DFFHE:.54HFH57@ @read_150_44/2 AAACAAGCACAAACACTTGTGTACCAACACACCTGTCCTTTAAAGCAGGGGCTGGACTTAGAGGTGGAGCTTTGCCCACAACTTCAGAGCAGTGCTGAGT + HHHHHHGFGFADDFGHHHHHGGHHEEEDEFHHGCAEFHHHHFE/9GHHFHHHHHHHC862<@8DGH@<6.CGGE87<7@HHGD=CDHHHF?5:74AFEEE @read_150_45/2 TTTGCTCTCGTTGCCCAGGCTGGAGTGCAGTGGCACAATCTCGGCTCACCGCAACCTCCACCTCCCGGGTTCAAGAGATTCTCCTGCCTTAGCCTCCTGA + FHHHHHHHHHEHHHHHGGHHHHHEECDFFCHHHHHDHHFHHF@HHFGFHHHDDGGFGFB><>+923:7/DHHHHHHHHHHHGCDF@>76&>D;<;GGFHF @read_150_46/2 CCGGAGGCTGAGGCAGAATAGCGTGAACCCGGGAGGTGGAGCTTGCAGTGTACTGAGATCGCACCACTGCACTCCAGCCTGGGCGATAGAGCGAGACTCC + HHEGDEEFHHEGHHH9000;.252-DGFE9&7FFCBFFF*).>:,4 @read_150_47/2 TAGAAGCCTGGGGGAGAGGAACACCCATTTTTTTCTCCTAGAGGGTTATAGAAATCTTCTTGGAGAAGGTAATAATTTAAGGGAAAGAAGTCTTAAGATA + HHHHHHHHHFHHHHHHGHHDEBGGEDF2/EDEBHHFE=9.;@B@EDGFE4<@ACDHFF;;BGGGHHHBBHHDC?HFFAAGDE;331=>AC>8CDHHE>)1 @read_150_48/2 TTGTAGCTTAAAATCTAAAAAATAGATCACTGAAACTAGAAAACTAAAATGGCTCTCATAAAGATAGAAGCCAAAAATAATGATGACAAATTCAATGAGT + HHHHHHHH4>??A>+-:<7BF=DBE82@7>EHHGGHFHDDHHHHHHFHFHFBBGGHHHHHHHGGFEHHEFHHHHHHHFGEBDGEFHHHFDHEED=;46D7 @read_150_49/2 TTTAGGCTCCACTTCTAATTCTAGTTCTGTTGCTAATTCTATCACATCTGTAATTACTTCTTCCACTGAAGTCTTGAGCCCCCTCAGTCATTCATGAGGG + C@DHHHHHHHHHGEEFHHHEF;:47::2'-4.>CEIGGFFHHHHD=ADEEFFFG;@CCGHHHGGHFDEGE;8EHHHHHHHHGFF6BDFHEDFBHFFFHH? @read_150_50/2 AGTACAGACTGGCAAAAAGTCTATAATTTAAGACAATATTCACTATAGATAAAGCTTCCCTGGGATCAGTAGATCGGAAGAGCGTCGTGTAGGGAAAGAG + FFGHHHFGGGFDD@FFFHHHHHHHHH?BEGEEHHEHHHHFF?;A=::-*DGHHHHHHHHHGHHHHHHHHHHHHHHHFFGD699D69<<;ADF:99DD?.E @read_150_51/2 AATACTTGGGGCTGATGTGGCATTATTAAAGACACATAACATACTGCACTTACCCAAGTGTGATATTTTATGCAAGGAGGGTTTGCCACCTCTGAGATCG + HHFHHHHHHHHHHHHHHHHFHHHB@',364.,& @read_150_52/2 TGGGTCAAGACCTGCCCTTATTTCTCATCTGTTTACTCCCTCTATGTAGGAACACTGCCAATATTATTATTATTAGTCTGTATTCTGAGTCTACCTACTG + HHGEHHHHHHGHHHHHHHHHFHGHFEG@C@CD=9EGHHFHHHHHHHHE@CD<@>9.AFCCECFHHHHBEFEEEI/1-BHGHEEEHHGEHHHHHHHEHHHHHHGGBHHFGGHGG@9.CCEBFDGHFFIA?7?<+ @read_150_54/2 GACGGGGTGGCCTAGGAAGTCTTCCTAGAACAGATTAGACCTAAGCTAGAATCCAACAGCAGAGAAGAGGAAGGTGTTATTAACTAGATCGGAAGAGCGT + GG8EAGHHHHHHHHHHHHHHGGCDEEHHHHHHHHHHHHFHHHHBB=EDHHHGIFFHHHHHHHHHHGHHH=DGFFGHHHHFFCGEHFBGFEADB?C9DCE? @read_150_55/2 AAAAAGGAAAAAAGAAAAATAATAAAAAATAATAAAAATCCTTAGGATAACTTGAGGCCAGGAGTTTGAGACCAGTGTGACATTGGCTCTGTAAACAATA + GGEBGHHHHHHHHHHGGGHHHHHHGG<=8=:>>:+-,BEEHHHFHHFGGCGFFGGHHHFEE=@?DEGEHGB@9;=;DD1--*3.2%,:EG731)0%49'/4?@5@=FDBCF8:EH @read_150_57/2 ATATTTAAATGACAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHHHHHGHHHHHHHH>ADEE/GGFD=:0(+@AD@DFHHHHHHHHHHH@?EEEEHHEHHHEHHFFHHHHGGHFEA5847@HFHFHF@BEHHHHGGEFHFFEBEEFHFFHHHHF:> @read_150_60/2 GACCTGGTGACCTGGGACACTGGCCAGAAATCCTGAGCACAGCCTCCTGGGTGTGTCCCACCCACCTGATGTGGGGCCAGCCTCCAAGAAACAGATGACA + HHHHHGGGHHHHDEEEHHHHHHHGHCFFHHHHHHHHH?IHHHHHHHEFHHHGBBBHHHHHGHHHHHHFDDHHHHHE6138:CCHHFGHHHHEGGEEFEEH @read_150_61/2 AATAGATTTTTCATCAGTGGAATTAGCCACTTCTTTGAGAAGAAGAATTCCTTGATCAGGACAGAGCAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGT + HHHHHHHHHHHHHHHHHHHHHHHHGE8>EEGBBEEEEEEHHHHHHFHHHEEFBEGEGBGHHGGGG?GGHHHHHBEFDEDCEFACBBGGCFHHDEFCBG== @read_150_62/2 CTTGTTAAGGTCTTTTATTAATTCTACTATGCTATCTGTGGATTTTTAACTTCAATTTTATCATCTGCCATCACGACAGGTTGTTTTTTGCATTTCGATA + EFEEHHHEHHCGDBHHHGGH@/A=BFEEFFHHBEBHDG>1>GEDHHFHHHHGGG@><>>>DB814DEE6&3;<>=BHHHE@BECAAI=DEFCHHFHGHHHHHHHHH @read_150_67/2 TAAACCAGGAAGAAGCTGAATCTCTGAATAGACCAATAACAGGCTCTGAAATTGTGGCAATAATCAATAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTG + 7=BDDGHFCEF8929EE;;GHFHBHGFHHEHHHHHHHHBFFFDCCHHHHHHHHHHHFED.)5BCFHHHHHDGEEGAA=+EHH67@39%%->>;><33273 @read_150_68/2 TGGGTTTCCCCGGTTTGCAAAGTATTCATTGGAGTAAAATCTCTTTTTTCCAAATTATCATTCAGAGAACTTAGATCGGAAGAGCGTCGTGTAGGGAAAG + HHHGHHHHHHHHHHHHH@DGGGHHHHHFB=8C=@FEEFEBDDDDFAAFFEFGFCDB@211,<6(D;D@>@C=CCFHFFFBFHDEBBBCEGGEE?==?C;E @read_150_69/2 AAATGAAACAACTTCTAAAACCTGTGTGATAATGATAATACAGATTGAGATGAAGAACTTTGAAAAGAGTTGGACAATCAGAATCAGATATTTGAATTCA + HHHDHHHHHGHDFEFDHHHHHHFHHHHHHBGGHHHHHHHHHHHHEHHHHHHHEEFFHHEHGB5*0GGFGAE=B2(;>=D>,@BB/5?>.A:991/+1%*) @read_150_70/2 GAATCCTATTTGATATTAGCCAACAAAGCCACATGCAGGTCTGTGCTTATTCAGCCTTCACTTTAATAGCCCTGCCTCCTGGAAATGACATAAGGGAACT + EHHHHFHHHHHHHHHHHGGEEHHGFHGDBGHE=C*:284<;=?BDCBDDF;DBHHHGGFHHHHHHHHEHHHHHFA.:.30DA6= @read_150_72/2 GCTGATCTAGAACTCCTGGGCTAAAGCAATCTTCCTGCCTAAGCCTCCCAAAGTGCTAGGATTACAGGCGGGAGCCATCACACCCAGCCTCCTCCCGTCC + HHHHHHHHHHHGHHHFFFHHGHHEFHHHHHHHHHHHDAE8.:1:7FFHHHHHHDEHEDCACBFHHHHHHHHHHF89?AFHHHHHHHHHGECFDDDE*>4. @read_150_73/2 TGGTTACCCAAACTAATTAGCTGAGCTTGGACTGTACAAATACCTTTTTACCTGGAATCCAGGTTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAG + GE8BEBGHHFECDIFFHHHHHHHGHDFHHHFHFDBDIGBE-.@4*BHHHHHHHHHHHHHFB=ECHHHHHHHHHHCEGEBEBEFE?EADDF=C>97<.@G@EHD>7@4DDGEFHHEGGHHHE?6/52'64AD<, @read_150_75/2 AAAAGACTGAAGCAGAAGTGATGTTGTGTCATTTCACACTTAGACTTTAAGAAAACTGGCAGCTTCTGCTCCCTCTTTCTTGAAACCCACCTACCATTCA + GEFGEC@<.DHHHHHHGFDFGEEHHHHHHFHHHHHFDGHGGEGIGGHHHHHHHGHHHHHHHHHHHHHF@BFFFE@FGHC@:EEHGGHHHH?C=EDEFFFH @read_150_76/2 CCAGAATTCTCAGGAATCTGCACTTTACCCAGGCGAAAAGCCCAAGGGCTCTCCCCACAGCTTCCCAACATCCTTCTACAGAGTTTTTAAATAGTAGACT + HHHHHGHEGGGHHHHHHHHHHHHHHHHHHHHGH>FHEDBGHHHHHHFFHHHHHHEEB=EBEHHHHHHFHHHHHB@.@A6HFFF>@@5BHHHGGFFFDDFEFGGFFGHHEHHEDHHHFBHFFEGEHHGDHHHBFDD<6*/EEFGE86C2638 @read_150_78/2 CTGAAAGTAGAAAAAGGAAAAATAAAAATAAGAACAATGAACTTGGGCAACACATAGAAAACAACAGCTAATGCTACTCAAAAGAAACCAGGTGTAGTCA + HHHHHHHHHHGHHHHHHHHEHHHHHHHF8;+ @read_150_79/2 GCCAGGCTGGTCTTGAACTCCTGACCTCATGATCCACACGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACTGCTCCCGGCCACAGATCG + HHGHHHHHHHHFHHHHHFHHGEFGEGBEGFGGGFFHHHHHHFD?D5@A.6'CCDBEHHH>6:5;7-2>< @read_150_81/2 AAGGCCCTTCTCTTTTGTTTCAGAAGTCTGCAGCTAGGTCAGCAGTGTAGTATTCTGTGTTTACTTAGAGAAGCCAGGGGAAGTATTCCAAAGATCTATT + HHHHHHHHHECGGGFFHHDDC5;G?:>@DB9EEDGFDCFHGHGHHHHHEGGDDDEHHHHHHFGHHHHHEEADBEA,(6HGDCD=>>C@BFBFHHBFDACE558:BEEF:>ADFDEHBEFHHHHG @read_150_83/2 GTGAGAGTTCTGCTGCTTTCTGGACAGTCTGTCTTTAAGCACCCGTTTGTGATTGTTTCCACATCTAAGACCTCTCCGGGCTAAAAGCACCTTGAAAGCA + HHHHGGGGHHHHHHHHHHHHHFDDGHHHHHHHHHHHHHADHHHHHHHFFHHHHHHGHFGHHHHHHHGFHCDFDBHHH=,BCFGD@DDGDCAEDC9=*/DF?EF=BB::78C*57=D><<@EEHFF @read_150_86/2 ACCACACTATGCCACAAGCTTGCCAGCTACCACTTCCATGTCAACGTATCAAGAAATACATCTGGGCCGGGCACAGTGGCTGACACCTGTAATCACAGCA + DBBFHHHHHHHHHHHHHHHHHHHHHEGHFFHEEGBDFEGEEDE@HFHEHFHHHHHHHGHFHHHHHHHHHHHHHHHFEFHHHB@*6CCCE;;.37+B79<: @read_150_87/2 CGTTGGTGGAGGCTGGCTTCTTGGTGCGAAATACAGACTCGGGCATTCTTGCTGAAGGCAAATGCATTTTCATTTTTCTAAGGGACCAGGGTAGCCATAA + DFHHHHFEHHHHHHHCHHHHHHGHHHHHADG@@BFHHHHFHHHHCCFFHHFGHHHFHH@DFHHHHEHHFGGGGGHHHHHHHGFDCEEDFGFBG?CB??B: @read_150_88/2 AAGAATTATAATTACCTTTGCAGAAAGATTTATCCTAACAATTAGGAAGCAACTTCCAGCAGAAAGAGGGGAGACACGAGAAAAGGGGTGCTTGCAGCAG + HHHHHHHHHGGFFDCDFFHHHG@;@6>>CEHE@GHHHHHHHHFD?HHHHBBFHHHDCCBBDEEEFEEEHGHHFFF@11;646=D=C?6@&/)6C@.:/-< @read_150_89/2 TGATCTCAAGTTCGGAATGACTCAGAATTTCAAGACATTTATTTTGGCACCTAAAACTATTACAGACTTGAGTCAAGTGAATTATGGATTTACATGTGGG + HHHHHHHHHHHHHHEDGEBB236+:9<.<5EBEG9?.(;D8EHHHC=FGFHHHEGHHHHHHHHHHHHBB:EHHHHHFHHHFHGGHHHHHFBBD5=?DGBD @read_150_90/2 TGAAATGTTTTTTCATTTGTTTGTGTCCTCTCTTATTTCCTTGATCAGTGTGTTGGTAGTTCTCCATATAATTTCTATCATTTTTTAGTTGAAGAAAAAT + HHH8A:6BCEFHHHHFEEGGHFHHHGGGHHGCGGHHHHHHHEHFC:EGGEDCC@@@FFBFDE8FGGHHHHHGDDCD296CFFDHHHFEHHBFC;ECA:+2 @read_150_91/2 TACTATCTGTGGTTTGCGAATCTACTAGGGGTCTTAGAACATATACTGCTCAGATAAGGGGAACTACTGTATTTTCTTGGGCAGGAGTATGATTTGCATA + HHHHHHGHHHHHHHHHGGHHHHHHGDCDD>.@>ABFHHHHHHHHHFFGEFFHHHHHHHHHHHFGGEEHHHHHHHHHHHEHHHH>C?D;EEFEHHHHHHHH @read_150_92/2 TGAACTAAACAAGACTACTGCTCAGTTTTTGTCCTGTTTATTTTCTACTAGTCAAACAATTTGTAATTCACACAAAAGGGTTGAAAATGTTTAAGATCTA + HHHHGHHGFFFFHHHDGHFFHDHHHF=/>?GGFHHHHGHHHFCCCBEHDBGGGGGHHHHHHHHHHFCCEHHEHHHHHHHHHFHHHHGD88=@FEFE8=64 @read_150_93/2 AAAGCACTTTCTTATTTTTGCCTTTTATAGAGATTTTCATTTTCAATATTAAAGGATAAGTAGGCCAGGTGCAGAGACTAACGTGTGTAATCCCCTCAAT + C5@HHGHHHHHHHHHHHEGGBDGGHGGHHHEFFFGCFFHHH@CHHHG>@DDGGGFDCB76?ADEHHFFHCCGFHHEGB@EHHHHHFHHHHHFEG9AF6BH @read_150_94/2 TAATCCCAACACTTTGGGAGGCAGAGGCGGGTGGATCACAAGGTCAGGCATTCGAGAACAGCCTGGCCATCATAGTGAAACCCTGTCTCAACTAAAAATA + EDDC6-<56;CAHHHHHHHHHHHHFHHHHHHHHHHHHHHHHHHHHFHHHHHHHHHG8EGGHHHDCFHHHHHHFHHHHHHF=E=FFHHHHHE<76EDCHHH @read_150_95/2 TGTTCCTGTTTCTCCACATCCTCTCCAGCACCTGTTGTTTCCTGACTTTTTAATGATCGCCATTCTAACTGATGTGAGATGATATCTCATTGTGGTTTTA + HHG@EGIGHEHHHHHHHHHHHHHHHHFHHHHHHHHHHHHHHG?BHHHHFHFIGGHHHHGHHHEEF:;8GGHHGGHHFHEEDBEHHEF6655BDEGCEHDE @read_150_96/2 ACCTTACAGATGAAGATACAAAGGTACAGGGAGATAAAAAAGTGGTTTGGTCTTAGCAAGTCAGTGGTCTTGACTGCCTGGTGCTCTTTTTGTTACACTT + HHHHHEGFHHGC86BEA=GEEHHHHHHHG>EBGFHHHHHHHGGGGGFFHHHFHHFFEEDDHEFFEEHHHFGHGGFF0:+,-(+A @read_150_98/2 GGGGAGGGCAGGAGCAGGGTGTGGCTGGAAGAGGAAAGGCTGGTGGAGAGTGGAGACTGGTCAGCAAACACTCTTCATCCTGTCATTGGCTGGGACTTGT + GHHHHHHHHFGBGFGHHHHHHEFHHHGHHHHHHHDHACHHHHHHHFF9E?EGDCFDGHHHHDB=GBBBBBEEEHHHHHHE<6-7,:;))%4><;9CDFFC @read_150_99/2 CTTATGTGTCCAAGGACAGCTGTATATTTACAAATAGCAGAACCAATAGGAAAGTTTGAAACATTTACATCTCCAAATTATGAAGGAAAACAAGATCAAC + HFFFGHEFHHHHHGDDFGHHHHBF>HHFHHGGFHFGGFHHFHGEDCFHHHHHHGEFB4,*2E @read_150_100/2 TTTCTACCGATACCTAGCAAATAGGGGTTCTATTAGCAGAGAAGAAGGGGCATGTGATAGGAAAGATGTTGGGCTAGTGATGAACAATTTCAACTGTTGA + HHHHHGFHHHFEFEBEDEFFHGFHHHHDGGE=B@FHHHHHHHHHHGDE.ABGFDFFEF@FH @read_150_101/2 ATAACTAGACAACTGAAAATATGATTGAATTGCTGCAATCTCACGATCAAACTTGAATGGATGAGCAGCTATTCTTACGGGTGGGCAAACAAATGGTTTC + E@8<5<=D=DHHFDD>@.C>@BD== @read_150_103/2 GCCTTTGCATCCTCGTAGCCTAATTCCCACTTATGAGTGAGAACATACGATGTTCGGTTTTCCATTCCTGAGTTACTTCACTCAGAATAATGGTCTACAA + HHHGHHHHHHHFGBBDFGGHGD@HFDGEEHFHHFB.%3)331)%%-*'4()&*/ @read_150_104/2 ACCAGTCCCTGGCTCCCTGGCCAGGCCCAGTGCTGCCCAACCCCCCTACACGGGCCCCACATACCCACTGCCCACCAGGCTCCTGTCAGCCAGGAGGGGA + HHHHHHHHA?HGHHHFDBHHHHHGFHF9>ADD7828.?EEDD35:A<.A@><9ADE@@@C@7&%< @read_150_105/2 CGAAAGGCACATAGAAATTACCAATGGGAGAAAGATGGCTAAAATTTGATACCATACATCTTTACTAAGCTGGCTGTTTTAAACCTTTGTCATAGCTTTA + HHFHHHHEEHHHFEHFHHHHCHHHGGDGD=EEGD@EHHHFHHF??99;HHGFGFDHHHHHHG>10+8<@B5<+)6(8;EHEFF:AHDGGHFHF)85CD6: @read_150_106/2 ACATCAGGATGTGAGGCAGCCTTGAGTCATATGAAGAGGGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAA + HHFFHE>?<<@GGDDGD@EHHHHHFGHHHFHHHHHHHHHHHFFHHHHHHHGGGHHHHHFHFGGHHHHHHDHHFFHGHHHHFGFHH@@EBGE=GGGHHHHH @read_150_107/2 TTTCCCTATATGCAAATCTGATTGATTTCTTGCTCCGAAAGGGAATGCAAACAAGACTTAGTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATC + HHHHFFGGGGHHHHH@50)6C599;D?>HHHGGHHHHHGAEBFFFFBDHCHHHHHGGHHHHEHDHEGF@@EFHHHHHHHHHF><>BDDGBCE0<+>FCC; @read_150_108/2 TGCTTCAAACTGCCTCGCTTCCCTTTTCGCTCAATTTTGCAGCCATAAAAACATACCTCCTAAATAAAGCATTAGCATTCAATACTTACCTCAGGCTCTG + HHHHHHHHHHHFFFHHHHHHHFGEEHHHHHHHHHHHHHHHHGGGFE;?CBFGIGGEHHHHHHHHHHHHEEEGHHHGFBGEHDHHHH?;DFBHHHHHH>@?>6.?;DGFHHHHHHFEHHHHE??EE<*.::.@GGHHFH?HHE:.<4.:@GFHFHHHHEGFHHEHHHHHGGHHHHHCDGFFGHGFHHGFCHHHHHHH @read_150_112/2 GCAACATGGTGAAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGCTCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + GGFGBAEHHHGHHFHHHHEEA8CADD:.8DEDFHHHFGHEDCEBE>:*EFFDDBDGHGGFEBGF@>>B=336BDHHHHHHEBEE.659=AFHHFFBCA?E @read_150_113/2 CACAGGAGTACATGTACTAGGGTTACTATGAGGACTTAAGGAATTAAAACATGTCAAGGACATGTGGTAAGAAGGCAGCCCATCAATGAATACGCGTGAA + @><855@5D8BEE>DDDCBA1=58:<6;=B@GEEBFDC= @read_150_115/2 CAAAAAACAAAAAAAACTAGGTAGAATGTGATACATGTGAAAAGAGATCCAGCTCAAGTGCCTTGGGAGCTCAGGGGCGGGTGAGATTAATCTCTTTTTC + HHEHHHHHHHGF;9EE21,*60(2FFF@<<<:,A6,=D@@A@ @read_150_116/2 GGAGAATCGCTTGAACCCAGGAGGCAGAGGTTGCAGTGAGCTGAGAGCATGCCATTGCACCCCAGCCTGGGTGACAGAGTGAGACTCTGTCTCAAAAAAA + HHHGD8>@@BHHHEGGECGG=@B8CDFFG;8EEIFFHHHHHHHHHHHFHHHHHGHHHHHHHHHHFHHHHFBE2?EFE.5,41-<5>AEFDCFBCFHFADG @read_150_117/2 TTTCTATAAAGGGCCAGAAAGTAACTATTTTAGGTTTTTAAACCTACTGTCTCTGTCATAACTTGTCAACACTGCTGTATGAAGCACAAAAGCAGCCATA + HHHHGFHC>HHHHHHHHGHHHGGHHFGFGGHFHGGHHHH>@<59>AFH8@EGGGGHHHHHFBEHHGIGHHHEGHFHGEGGGBHE=)4E7403A@D?DFBC @read_150_118/2 TTTTATATTTGAGCCATAGTTCACCCTCTATTAGCTACAACTAATCTTGAAGAGACAGAGGATTGGCACGGTTGATTTTTAGATCGGAAGAGCGTCGTGT + HHHHHHHHHHHHFHHHEHHHHHHHHHGFHFGBEEHCDGBHHGHFHGHHHHFFGGHHHHHHEEGEEDGEBBDDGADD?CHHH?HE@49:=CDHHHHEDGEE @read_150_119/2 TTGTAGTAACTCGAAGAATCAAGAGAAAAGCTAAATATTAACATCTAGATAGCAAGATTTAATGTGCAAAACTTTAGACTTCTTCAAGCTGAATCAGCCC + HHHHHHH@*?-5>9-><;=HHHHHHFHHHEDEEG/+86;2DDHEFHBEDCGBEFFB5CBE@FGGGDBFF?=;@<1')-/BGE@+6<5,@FBAE@AHHHFF @read_150_120/2 ACTTTGGGGGGCCAAGGAGAGTGGATCACCTGAGGTCAGGAGTTCGAGAACAGTCTGGCCAACATGAAGAAACCCCGTCTCTATTAAAAATACAAAATTT + HHEEE?BGHHHHFHHHHHHGHHBH<@FFHHDDCDFHHHEGH?DDC>F?<3)+3*90>@;C@>DB3?ADGH@ACBC05ACDCEEGCFD=ADDDHH @read_150_121/2 CAGAGATCTGGGTTCTAATCCCTGAGATGTTACTGATTTGGGGTATGTGTTATGGCCAGCAACAGAATCCTGGTTTAAAATATAGGGCAAAAAAAAGAAA + HHE=EHHHHEHHHHHHHHDDHHFEHHDDEEHHHHHHHHHGF>@@:FHHHHHEEGHHHHHHHDHHHBEEHGEHEDD72EEGHHHHEEEEHHHHHH;45,4C @read_150_122/2 CATTCACAATCACTGCAAAAAGAATAAAATACCTAGGAATATAGCTAACAAGGGAAGTGAAGGACCTCTTCAAGGAGAGCTACAAACCACTGCTCAGTGA + HHHHFFFHHFBBFBFHHHHHBEIGGGHHEFGFGGGFFBC@:BFFFFE@/7)/=DA5<8CHHHHHHHGE/08ABBGBHHFIIGCDHHE@ADEEEHHGGBHHGFEHHHGBE@GFE7()9>,:FF@FG?>5 @read_150_124/2 ATGTTCACCATCTTCATTTATGTCGTTCACATCCTGAATTGTTAAAAGAGGTATCATTGTTAAATGTTGCTAGGTGAACAAGAGATCGGAAGAGCGTCGT + GBHHHHHHHHEBCC;<87CEHGHH@FEG>HHHHGFEHHEBEBGFHADCDFHHHHHE=B9CD(6EF @read_150_125/2 GGAAGGGAGCAGGGCCAGCAGGGGATAGGGGGCACTGCCAAGCTGTCAGGGAGGCCAAGGCACGGCTCATCCCTTCGGGGCCCCATTTGGTGCCTACTCT + HC?FFHHHHHEGHHHCBGHHEE.DHHHHHF<<7BGHHHHHGGFHHDCFHHHHHHDBEEGGGGEE;A<974<>:783:BAG=<>,86??GADB;57>@CB? @read_150_126/2 ATTTATTCTGACGGTGCATAAGTTTTAAATGTCCTTCAATTATTTTCTTTTTATCACAGTGAAATAGTCACTATTGTTTCCTTTGATATTTTCACATTGA + HHHHHHHHHHHHHHHHHHHCGGGGFFFHHFFGBBGGGHHHHHFFAEA>6=EEBDGHHHDD<><;8<.77DEHHHGHHHGC+797E.;>EDHHHHHHHHHHHHHCHHHHHHHHHHHHGHHHGE/@=@BCDBB69B:ABEDEEHHHGGFHFHHHHHHFFHFDEHGHHHFFDDD>@,9)+(4B8EHHHHGGGFHHEDCDD45EGHHHHHHHHHHHGGHHHHFFHHHHHHHHHHHBGDCDB@87CC? @read_150_130/2 GGCACTCTGCAGACAGCTCCAGAAAATCAGGCACTCGTCACACACAGAATTCCTCTAGTGGACAGGCTGCGTCATCCCATGAACAGGCAAGATCAAGTGC + DBBEG;<@@FDHHHHHGGHHHHHHFGGGHGHHHHHHFHHF=DHHEFGB/8:=785B9>@HHHHHHHHHHEC@@?@GHHHFHH@7EHEE@B55477&0:11 @read_150_131/2 TCACAGGAAGGTTTAATATTTGAGCTGATAAAAGGAGGCTACCAATTTGAGTTACATTGAACTGCCAGAAAACTGTGCCTTCTAGCCTTCTACAAAGTGA + HHHGFC@6?@@EFIIHD?FHHA@..45@??=EE@GGFGGGHHHHGGEHHHHFDDDAFEEFF=>8DHHHHHHHHHGGFBDC>CBBGEEDB95.55;HHHHFEA=EE@ @read_150_134/2 CATGGCACAGGTATACATATGTAACTAACCTGCACATTGTACACATGTACCCTAAAACTTAAAGTATAATAATAATAAATTCAAAAAAAAAAAAGAAAAA + HHHGEBB/0,)=CDHHHGHHHHEHFEEDEHHDDHHHHHGHGGFFGGG4@@DGGDDB@=CDGGHHHHHHHHHEEBGHDHHHGDFFHHHHGGHHBFC;5>CD @read_150_135/2 CATGAAGAATGCACCTACCAAAAATCTGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAA + HHHHHHGEGG=EHHHHHHHHFECBHEDF??FGFH;@GFD9@FIGGF@@>GGFEHHHHHHHHHHHHHHFHE8(<@)..:>CD,9 @read_150_137/2 CTCCTGAGTAGCTGAAACTACAGGTGCCTGCCACCATGCCCAGCTAATTTTTTTTTTTTTTGTATATTTAGTAGAGATCGGAAGAGCGTCGTGTAGGGAA + HHHEEBEHHHHHHHHFHHHHHHHHFGHHHHHHFGGGFHFGF?EGE566/)20?GCDEGDEHHHHHHFHHGFC=88BBCEEEDEFHHHE4G8:?;DFFHFE @read_150_138/2 TTTCTTCAAGTAGTAAAACAGCCTATTCCTGGAATGTCCCCTGGAATGCAGAAGTGACAAGGATGCTAGGGGAATTTCTTTGAAAACCTGGAACAAGAAC + HHFCDDEHHHHHHGGHHHHHHHHHHHFHHHHGHHGHHEDDHHHHHFFFDFHHGHHHHBFFBGBGBEAE?E1DDHHHHEE5<= @read_150_140/2 ACAGAGCGAGACTCCATCTCAAAAAAATAAAATAAAATAAAATAAAATAAAATAAAATAAAATAAAAATAGAGCCTCTGACATGAGTTCCACCAGAAAAC + :>>>:14D @read_150_141/2 CGAAACTCCTAAAGTCTCATACAGGAATTGAAGACAAACTTTCCAGATTAAAGAAGAAAGACGATCAAACCTAATGGTCTTAAAACTTTTAGAAGATCGG + HHHHHHHHHHHHHHFFHHG@EGG8CHHBDCEEDCDHHHHHHFHFFHFFGGEECCA>DHHEGDB?C.:FHHHF??=DBFFEG=EHHHFFIGE?>2:(8>.1 @read_150_142/2 TCACTCCCCACCTTTCACTGAACTAAATTATTATGGGCTTTTAGGTGAGTGGGAACCAAACTTTTTTTGTTGCCTCATTGTATGTTTGAGTCCATTTGTT + GGED=FGHHHHHHHHHHHHHHGGGDGGEDDDDEEEFHHHHHFHHFFHHHGHHHGFHHHABGHHHHHHHHFEEEGFHGHEHHHHHHEGCDFBB..DHHFGHFHGDAFHHH@=AC<;CB/3(8D:EHHHHEEHHHHDEGGGHHHFHHHHHHHHHHDEFGFHFF;= @read_150_147/2 TGAGATTCCCTGTCATACCAGTTATGGATAAATTTGCATTTTGGATGGGACATTACTGGACCAGCCCATTTTAGGCAGTTCCGTTTCCCCCTGGGTGGGG + HHHHHHHHHHHHHHHCE@GHHFGGFGGFCFHHHHHFGHHHHGGFHHHHA.GBCDDEGEC@GGHHEFGGGF@572(5-<>?2?CBC::>CHHHEG @read_150_149/2 GTCTCGCTCTGTCGCTCAGGCTGGAGTGCAGTGGCACAATCTCGGCTCACTGCAACCTCTGCCTCCTGGGTTCAAGCGATTCTCCTGCCTCGGCCTCCCG + HHHHHGGE=DEFFBCEGHHHHGHHHHHHFHDGHCEB?17/.;EBEFGFDD6BGFFFBGHEB=:80.6607FHHDFBFGHGHEFC/3:+=6115DHGGG80 @read_150_150/2 GTATACAGGATTTAGTACTAATCTAGTTTTAGACATCCACTGGGGGTCGTGAAATGTAATCCTCATGAATAACGGCAGGGGGATTACTGCAGCTTTGTGT + GGGGFHHHHHHHBGGHHEHHHFHHHHHHBDFFHHCGHEFEFHHHHBFFGEHHHHHHHHHHHHFABEEDDHHHHHHFEHFDC?DBBDFFF49=7,6)%4>B @read_150_151/2 AATTACCTACTTTGCAAGACCTACGTTAAAATCACCCACCACAGACAGTAAAATCTCTAAATACTCTTTCTCATTTTCAGATCGGAAGAGCGTCGTGTAG + FEHHHHHFFBF=@DCGGHHHHGGHHHFFFEDA;>B@GHHHHHHBDEEFHHFHHHHHGGHHHHHHHHHHHHHHHHHHBDBFFHHHGHHHHE;@AHFH?DD, @read_150_152/2 GATTATATAAACAGATATTTTCTTTATCTATAAAAATCAGGTAATGAGTGCTCTGGGAATTTGAGTAGGATAGGATAGTTTCTTTAATTCCTTTAGGGAA + B@GDCEEEHGHHHHHHHHHHHGDGGHHHHHEHHF@A?@:=%1/D=8,?ABDHHEECFHEHHHGHGB@8<8CC>>.6>CHHHHHHHCC=.:1*++<@:DEB>4@58@:FHHHHHHHEGGHHGGGGG46-,31,:FFHFFHHDABC< @read_150_154/2 TACAAAAATATGACTAATTCAAAGGACCAAGGTTAATTGACAGAAACCATCCTGGAGGAAGGACAGAAATTGGAGTTACTAGACAAAGGTTTTAAAAAAA + 95<<@@DDDEBEHHDGDHHHD?C@BBBHHHFHGB>FHHHHHHHFI8><<?GEFFEEFHHHHHHHHFFEDFDF?D?6/CCD;A:;A7C>>;:.@CEHHFFFHHBE<.60(''64B@D/;<<5ADGGFHHHHHHHHHGHHHGCBEAA?BCFHH @read_150_156/2 GGTCCTGGGGTGCCTGGAGAACTGGGGAGGGAGGTGTGGAAGGCCCTCTGCGGGGCCTGCATGTGGTGCATGCTCAGAAAATACTGGTGGGTGGGAGGCT + HHHFE:BGGHHHHHHHHHHBEHHHHEGBHEHHFEHHHA<4@BFHHHGHHHHHHHHHHHHDGGGGGFHHFFGEHHHHGGGH.5?00,/EABFEG @read_150_157/2 GTCCAATTTTTGTATTTTTAGTAGAGATGGGGTTTCACCATGTTGTCTGGGCTGGTGAAGGTGGTAGGTTTCAATGACAGCAGCATAATGCCGTGGGAGT + @ECDCD>6.>7CEGHHHHFHHHHHHFHHHHHBEGBHHHHHHHHHGCBEEEHHHHHGHFHHGGHHHHFHHHHHFHH9EFHHHHHHF@CCDFHHHFH:?AA? @read_150_158/2 CATAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + GIIGHHFHHGCFHHHHHHHHDDB@;B@D?>5BBGBGEBDHHHHHHHHHHGGDDCDEHFHHFHHFFFGHHHHHHBG51?HDEEHHHBFHHHHFDEBEBGFH @read_150_159/2 GTGTGGGTCTCAAAGGAACATGAGGCTACTTATTCATTCAATATTTGATATTAAGTGCCTACAGTAATGACCTGGATGACTGAGAAATCACCACTGACTT + HHHHHHHFHHFFHHG><><>BFHHHHHHHHGFFFHHHHHFHFHHFGGD.FGGEEBEFHHHDBGHHHHGGBCEDEEGHHHHEEEEEFCFHGDF5<:A;6FF @read_150_160/2 GTAGCAGCTTCCTGAAGGGTCAGAGTGTGAATATGAGTCTTTGTGAACCAACAGGGACATAGCCCACCCACCCTGTCCTGAGATCGGAAGAGCGTCGTGT + HHHHHHHHHHHHEE@EGEB/5<73BFHHGC1<:<>?HHF<8=A=<;-1<.2-,:22HHHHHHFHHHHHHHGHEGGDEFEHFD446GFHHE=+@AFHH @read_150_161/2 TATTGCCCAGGCTGGAGTGCAGTGGTGCCATCTCGGCTCACTGCAAGCTCCGCCTCCCGGGTTCACGCCATTCTCCTGCCTCAGCCTCACGAGTAGCTGG + FBHHGEGHHHHHHHHHEEEFBHGEGHHGGHHHHHHHFHHHHHHHHFEHHHFHDDGHHHHEAB74/>=B=GBFFHFF?EDH@EHHE?=5C6?DE8CCC@@HHHHHHHHHHHHHGHH>EHHGGHHFEHHHHFHFCB5;<;ABE @read_150_164/2 TGATATTGTATTGTAGTTTACAAGATGTTATCACTGGGAGAAACCAGGTAACAGGCATGCAGGATCTCTCTGTATTATTTCCTAAAGATCGGAAGAGCGT + HHHHGGG@EEGFFHHHHEDDDHHGHB=@FHHHHEDHHHHH@;EFGFCGGADDHHHHCDDFHFED5DDDCAGFHHFHHHFHFG;EEB><>,;@6-&/3:6C @read_150_165/2 GAGCAAGACTCCAACTCAAAAAAAAGGAAAAAAAAAAAAAGAAAAAAATATCCAGATGAAGAAACATGCCCGGGTTATAACAAAACTTTATTTATGGATG + >--;BGHGDGED7-9HHHHGHBBBB@FFCHHHHHHHHHHHEEHHEHHHHHE=EEFGBFGDBBEFFE?HHGGFHHHHFHHFFHHHHHHGHHHHHHHHFIHHHG@=?DECAB@ABFHHHHGGEDHEFEHFCFF @read_150_168/2 GGAGTCAAGGGCTAGGAAATGTAGAGCCTTTAGCCATCGTAATCTGTTAGAATTCCATTGTAACTGAAATGGGAACTCACTGGAGAATCTTAAGCACAAG + GFGDGGHHHGDF?6:.2+===;;BHDHHE?=AD8CHFHHCDFHHHHHEEGFDG/A9.;CGGBBDCHBB5:8DCBBDEHHHHHHHGFG?BFHHEF? @read_150_169/2 GACTTTTTTTTTAGAGACAGGGTCTTACTCCATCACCCAGGCTGGAGTGCAGTGATGCCATCATAGCTCACTGCAGCCTTGAACGCCTGGCCTCAGGCAA + HHHHHGHFFF.GBGFI8;HHHGHGFHHF?>77DDD48EEGHFB>6=CDDDEAB=6C@859@DGHHHHHDBCGHHFFFCBC=<<%)62-32=A(/@&(6D> @read_150_170/2 GGAATTAAAGTAAACGGTTTTTGAGGTCACAAAACTGATGCAACCGTGCTCAGAGAAGTCTAATGTCTTTTCTAGGTCACAGCTATAGCAGAGCTTGGAC + HHHHFBFFHHHGFGHHHHHHGHHEBHFGGHHHBDGGHHHHHHHHH?DHHHHHHHHHHGHFGGGHHHHHFHHHHHHHEC2C=?=>DCA?H @read_150_172/2 GACATATATTAAGAAGGCAAAAGCTGGAAATTTAAATTCAAGGGGGATTATAATAGTAAGGTGGGGGAAATCATAGATTTAGCAGGGAAGTATGGGAGCT + HHHEFG8?FGHFABGG<GIDDFFHHFDC7@>CBDGFB<488:.>.5?7:6:AB6<40..8=CD?AA*6EB?@EFGDGEEEH @read_150_174/2 ATCTCTTTCTTATAATGCCAGATTTTGCTTCATATCATTTGAGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCAT + 8DDHHFHHHHHHFFGGHHHHHHHHHHHHFGHHG:HGGHHHHHGF?8'53CHHHHE@C2:67@FG;6>@CHHGGEFDHHHHHHHHD?CADE??FHHHHGHF @read_150_175/2 GTCCAAGGGAGGAGGATTGCCTGAACACAGGAATTTGAAACCAGCCTAGGCATCATAGTGAAACCCTGTCTCTGTAAAATTAAATATATATAGTTTTAAA + EHHHFHHHHHHHHHHHB?CBGE7555<4@=GHHHHFFEHHHGHGHHHHHHHHHHHGHEGFHHHHHHHB<@6416@ADGEFHHDCHHHHHFHHE-5BB @read_150_176/2 CCATATATGAGTGGGAATATGTGAGATTTGCAAAAGACCCTTTTAAAATCTCATTATTTTTGTCCGTTTTTCTTCACTCCTCAATTTAGTTGCTTATGGA + HHHHHHHHHGGHHHGHHFGGHHHHB@BEGFDFGGEDDGGG=2)0>A49.?<;.<<.7.>323=GHGGGHGHHHHHHE=GHHHH@DGFFF?=DEDHGFHHH @read_150_177/2 TCCTGTTCTACACCATATGATCAGATAAAGGAAAAAAAATTATAAAGCCATAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGC + HFBHHHHHHHHHGGHHHHHHHHHHHGD.38:;;EGGGDHHGEFHHHHEECDDDFFHHFFD846==HHHGHHHHHG>.*63;;BEHHHFFC>,5?EHFGCHDHHHHHFHHGGFFDBGEEACB@FFBFFEE=BHHHFED;<@:-13<:;13(32 @read_150_180/2 AAGAAAAACAAACCCCAAATTCGAGAGGAGTTCTAGAAATATATAAGAAGAGGGCCAGGCGCAGTGGCTCATGCCTGTAATCCCCGAACTTTGGGAGGCC + EDHHGHHHHHHBEHHHHHHHB?;EGHFGEEDB8(<<@B.>FC;CA-1/)(9 @read_150_181/2 TTCATTAAGGGTTGCAAAATGGAGATATCCTAATGCTATCATTTTTTCATCTGTTAGGTGAAGTTTTACTTACATAAAAACTTCATCTCTTCTTGCTTCT + GGHHHHHHHFEHHHHHHHHHHHHHHHHHHHGGHHEHHHHHHHHGFDFHHGFFDGEGGHHFHHFH?FFFFHHFH=6=@7<<3%0FFFFHHHBDE9>EGDA> @read_150_182/2 CACACCTGTAATCCCAGTAACATGGGAGGCCCGAGGTGGGAGAGGATCACTTAAGGCCAGGAGTTCAAGACAGATCGGAAGAGCGTCGTGTAGGGAAATA + HHHHHHHHHHHHEGBEGGGFAFF>@-8>>-,/EHEAHHHHHHGGDBBBEGFGHHHHHE=@CDB:.4@ED>FAAFHHHGFHFHFHFFFEFFE<@=DD@5,? @read_150_183/2 AGGAACTTGTTTAAATTGAATCAAAGGCTGACTTCCTGGCAGATTTTCTCTGTGTATTGGTTTTGTTCTCTGAAGGCAGCAAAGCAGTCAATCTCTTCAT + HHHGGGHHHHHHHFGDB4@@FEHHGHHHFGHHHF>GGGGBFEGGFGHHHHFEEHHHHHHHHHHHH@GEHGEHHHBGGFEEEEGG<;EBFECDDEFGGFA> @read_150_184/2 GTGACACTGATGGTAAGTGGAAGCTGCTTCTGATCAGTCAGAACAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCA + DDEB@DBBFCDFHHHHHHHH@CAEEB3376EEE::?FHHC@@.3-5=99EGDCE @read_150_185/2 TTCTTATCTCCAAAGCATAACTGCTTTTTCTGCAAATCTTATAATATCTTCTTCGGCACATGTGCAATAGCAGATCGGAAGAGCGTCGTGTAGGGAAAGA + HHHHHE=C2.67BEDIGCHHHHHHHHHHHHHHEFHHGEGCFE?BEHEIB?CDDFHHHHHHHHHHHHHHHHHHDDFDHHHGFDDC+?B@HHHGGB=BDA16 @read_150_186/2 CTTTAGCTTTACAGAAAAACTGAGAACAAAATGCAGTGTTCTCATGAATTCCTTCTACCCTTTGCACAATTTCTCTATTATTACAACCTTGTATTAGTAT + HHHHHHHHHFHHHHHE@<>:5C;EGEGG?EHHGEE<))18EFHHEE>BBDDCCFHHFHHHGEGHHHHHHHHEEECDC69BGHH<66;+196FBE;EFFD81'CGFHCFHFFEFGHHHEEC8EHGHHHG@CFD8<-'7388GGBA?6?=A618)59DE@/DBDB @read_150_190/2 ATTATAGACGTGTACCACCATTCCCGGCTAATTTTTTGTACTCTTAGCAGAAGCAGGGTTTCACTATGTTGGCCAGGCTGGTCTTGAACTCCTGACCTCA + GGHHHHHHECDEHHHB8=FHHHHHHFHHHHHFEEEFHHHHHHHFFFFFBHGGGGGGGHBHHHHHHHHE8:BEFBEBDHHHGFHD=<5,59496/:5=C88 @read_150_191/2 GACTCAAAACACACTAATGAGATTCTGAGCAAAATCCCTCTGGATAATGTAGTGAAATATACTCTTCTAAAATATAAAACAGATAACGCCAAAAGATCGG + DCDGHHHHHHHHHHHHFFHHC?G@FHHHHHFGHHHHHHHHHHHHHHHFD;CD8EGHGEDFHFEGGHHHHHHGDCEFB(AEFFD@9<<91'67...5>:@77AHHFG/DEFHHFHFG8CCA>FHHHD@EFHF8B<396=>?@?>DDD;C;DCE=GFEAA @read_150_193/2 TAAGCACAAAAAAATATGCTCAAAATAGTCATTTGGGAAATGCAAATCAAAAGTGTGACATACTTCACACCCACTAGGGTGGCTCTAATAAAAAAGGCAG + EEBDBFHHHHHGFFFHHHHHFHHHEGDDFFHHHHHHHHHFBEEFHEBEEEGHGGCEEED6-DHHHHHHHHHA6GFFDF78C95BEHFEDDB@@ABAFFHF @read_150_194/2 CATGAGACTTTTTCACTACCATGAGAACAGTATGGGGGAAGCTGCCCCCATGATTAAGGTATCTCCCACTGGGTCCCTCCCACAACACTGGGGAATGATG + HHHHHHG=ECEHHHHHHHHDGEGGE;FEHGGHHHHHHHFFD>?CFHFHHHHHHHH@>4724:BBFFHHHHHHHHHHHHHHHHEGBEEB/DBACFEE;A@5 @read_150_195/2 ACGCATCGGTTAAAAAATGTTTTAATTGAACCAGAAAAAAAAAAAACACAATCCAAAGGAAGGCAGTGGGGAAGAAAAGCAGAAAAAGAAACAATGGAAA + )0+/AEHHHHHGFFHHHHHHHHC.BGHHHGDC@HHHHHHHHHHHHHHHHHHHHHHHHHHHDC='=BFHEEEGEHHHHHHHGECEE?GHHHHHHHHHHH@GE@EEHHHHHHHHGGGGFHHHHG=C@AFHHHHHHHHG@HHHA @read_150_199/2 TTCCCGGAGTCTTCTTTGTAACACCCTTGACAACATTTAGTGCAATACCAATAATGTGTAAAAACAAAACACAAATCCATAATAATCTCCCTCAACATCA + HHHHHDCC>CEECFHHHC;7B>>BDDHGDD@EHHHHFHHHFHHFHHHFABHHHHFHHHHHHHHHHHHHHHFHHHHHFF@EEDBHCFHB0&%-(78DD@.C @read_150_200/2 GCCAATGTCATATGTCTTGTCATCCTGCCAGTCTGCATGCCTGCTGGCCTATTCATAGCATAGATATTTTATGGTAAGGGGTGATATTTGAATTGATACT + HHHHHHHHHHGGGFHHHHHHHHHHFGGG8?-2>>=FDEEEDFHHHHHHHECFFFHGBGEHHHHDB8*::+31).>E6.0.3?>@.DGHFDEEHHHHEEA; @read_150_201/2 CCAACCCACCCCAGCCTCGCTCCTCTTCTGAGACTCCCACCTTCCCAGGGGAGAGTGTGCAGTAATTCACTGTCACTGTGCATTATATTTTGCCACCCTC + HHHHHG@A3EGEAC;?GHHHFHHHFGHHHEHF;?FDHGBHH @read_150_204/2 TTGCCTAGTCTTAGTGTCTCATAAACTCTATTCTCTGGCCATAACTGTTACTCATGTTTACGAGATTTAATTCAACTACAAAATCTTTTCTGAAGTTAGT + HEHHHHGGEHHHHHF?:;EFHF=>DGGBAC@>@@HF=FHHHHFEBFFHHHFGIFGGGDHDBDGGFEHHHHGDCBFFBEBCDHHHGHGEEHHED0&%%?BD @read_150_205/2 ATCGGGTGCAAGATACTTCCCTGATCAGCCACCTCTACCTCAGTTCCTGGTAAGAAACGTGGTCACTGGGGACCACGTGAAGTCATTTAGCTGAGGACAG + HHFD=@9BFHHHHHHHEHHHHFHHBHHGB?GBGB096?EHHB65/%53355 @read_150_206/2 TCAAGAAAATGCTGTCTTCATAACTCACTGGAGCCTCTTCCTCTCGATTCTAAAGGCTACTCCCAGTGTTCTAAAACTACACAGATAGATCGGAAGAGCG + E8B<<74DD=EC663?GGGFHHHHFGFFHHHHHBEEHEFBFHFFHHF5EEEGHHHHFGB=GGHFGFFB8DB@HHHEFHFEEFHA@EGHHHFACBFFE-80 @read_150_207/2 AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHFFHHFDDHHHHBDDEFHHHHHHHHHHHEFFAD8=FHHHHEHHHHHGHHHHHHGGGGHHGGGHHGGGGHGEEDEHHHHHGDFBDHCDHHHFB>BHHF?B @read_150_208/2 CTCATTTTTACTCATTTTGATTCTTGTTTTCTGTAGATGAGACTTTCACTGTTCAGCCTTGCTTTACTGTGCCTGGCTGACAAAACTGCATTACATCGCA + HFHHHHHGEGHHHHHHHHHHHHHHHHFHHFFFGHFHHHHH1'''+6EEHHGGGIFHHHHEGGF@8666,DHHHFFDGGGFFA@EGHHFFGGHHHEHHHFF @read_150_209/2 TTGAGTCTAGACTCAAGCTGGATCAATCAGAAGCCTTCCCTGGTGTCAGGCCTCTGAGCCCAAGCAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAG + HHHHHHHFHHHGHHHHHEGBBGHHFEHHHGHHED83@>DFHHHFHD>)1CEGBBBGBEEGDFGGHHHHHHGHHHHHGHGHHHHHHCDBEGGGDEGHHHHH @read_150_210/2 TAAATGGATAAATAACAGTAGAGTGTTTACAACAGTAACTGGTACAGGGCTTGTTCAATAATCATTAACTGACATCATGTATGCTAATTAAGTTACATAG + GEFEGDB,2,*0EBEEE;6EFFEHHHHHHHHDGHHHHHHHGFGDBDA9<'<>DFGHDABFFHHHHABBHHHHEB?@43+AEFGG>9729+.7;.A><<.A?7>*)12-EEEHFHHF;@6,EGGGDDD=?EGEECCEGHHHEGE@FHHDEFGFGGFEE@53,2<9AB=@;@ @read_150_214/2 CTTGAGAAATGTGTTTCCTTTGTTCATCTGAGGAAATCTAAACTCTATTCCAAATAAGCTTTCTAGGCTGCTTCTGGGGCCGGGAACAGGAGGGCATGTG + HHHHHEGEEGGHHHHHHHHHGDB?GEHHFBFFFGEFGFHHHEFHHHHHHHFBCCEDEEG=EBGGGHHHGGHFCDDHHHHH?..AA@=E53)3*;<)/*6' @read_150_215/2 TGCAATATTATTCATAATAGCCAATATATGGAATCAACCCACCATCTCCTAGCTATGTGTTCTTGGCAAATAAAATCCTACTTGCCCTTCCCATCCATTG + HHHHHHHHHHHFDEEHHFEEGBBFGEEB@<2/C>?AFEGHGBC:2'..;2CCGHHHHHHHHHHHFGHHHHE@AHDDB.,;C;77/0-,@BFHFE?A=?>= @read_150_216/2 TTCCCAATCCTACCAAGTAAAGGATGCTAGATAAAAGAAAACCCAAGTCAGGCCAGGTACAGTGGCTCACACCTATAGTTCCAACAGTTTGAGAGGCAGA + HHHHHGGGGGBGHHHHHHHHHHHHHHHHGG0-28/BEE@C&(09)26@B581@;:4AEEHHHHHHFHHHHHHHHHFHFHHCADDHHGD<:DGDEBDD9DE @read_150_217/2 CTTTTGAATGAATATTACAATTGATCCTTATTTAGGTCATTTCTCTTAAGCATACTACATCAGCAATGTTAAAAAGTGCCCAGAAATCAAAATTACCAAA + GG?.;GEHHHHGGEHHHGHHHHHHHF.>=FFGHHHDDEGHHHFF>FHHC?<<>>>;7;CHEEDDD=DBEFBFGHC@BHHEGHHHHHHHHGHHFDE@AGBF @read_150_218/2 TGAGAAGGCCATGGAGCAGGGATGCCTCCAATCCTTGAAAGGCATGTGACATGAGTAGGGAAAATATTTGCTATTGTAAACCACGGAGTTTTTTTCCCTT + HHHHHHHHFFEGFHFHHHHHFDEBHE:2<38:GGHHHHHHEGGFHFFHHHHHHHHHHHHHHHHGHFFFBEFHHHFHGG6?G?>D%7;@DFFGEED<,5F;=D6--B?EADADBC<<FGGFEFGGHHHHHBEEGGHHFBHHHHHFFDFFHHEF9*.@@GDFEFFFCFEE;82 @read_150_221/2 TGCATAATTTGACCACTTAGAGGCCTTCGTTGGAAACGGTTTTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCAT + GGGGGHHHHHHHGGGGFHHHHHHHGHHHHHHHHHFHHHHHHHGFFFHHHHGGFHHGFE@:;3<:=E=EEEHHHHHDDHHHHFHBE=<<<>FHHGHGGDGE=EGECEHHHHHHHHEEHHBBEEEHF9';EEA41566.;82>>=DEFD @read_150_223/2 TGCATATTTTGACATGTGCCCCTCAATACACACACACAAGACACTCTGATTCTCACTAATCATATTTCTGGGGTTTTTTTCTGACATGAACACACAGATT + HHHHHFFIBHGGFFHHHHHHHHHHCGEHHHHHGGGGGHFGEEF?EHFFBAFFDCBD=-+9:34EF?GGHHHHHHHHHHFGHEB363+>A<@@.>CFB>FEIEHHHHFFFEFEEEEEE=;:<<@HHH>=.ADEHHHEGGFHHHE<;<127(=DEBFEE/; @read_150_225/2 CTCAAGGGTAATGCTTTCAACATTTCTGTGTTCAGTATAATGTTGGCTGTGGATTTGTCATAGATGGCTCTTATTACCTTTAGAGATCGGAAGAGCGTCG + HHG=CCFHHGFHHHHHHHHHHHHHHFFFFBGBGHHHHHFHHHHHHHHHFHHHHHHHHHFHHHFHHHHHHGGHHHEFHHHEGHHHHGE,>;DHHHHFB1=> @read_150_226/2 TATACAGTAAAATTCAACAATTAGTGAACTGTCTAGAAAACAAAAAGATTATGCAAGAGGTCAAGAAGAAACATGAGCAGAATGACGGTAGTTTCCCTCC + HHHHHHHHHHB74BBHDGGFFGEEHHHHHHHHHHFHHDEEGE=FHE?FFFHGGGGHHHHHHHHHEGG@GFHHBE;68;>BHGGGG666::166568EEB@DE8@DGFHFFEFFHHFCABEGHHHFE8BHHHHHHHGHGEDB;>A? @read_150_228/2 CAGGGTAATTTATAAAGAAAAAGAGGTTTAATGGACTCACAGTTCCATGTGGCTGGGGAGGCCTCACAATCATAGCAGAAGGTGAAGGAGAAGCAAGACA + HHHFFG;CBDHHGEGHHHHHHHHHHHGEBEGFGG?HFFBGHHHFFGD?EEGGHHHHHHBHHHHHHHHHHHEGD:>@BBA@AEHHHEAEEEHHHHEDCDBE @read_150_229/2 AAGAATTGCCTGAGACAGGGAGATAAAGCTGCAGCGAACTATGACCCTACCAGTATACTCCAGCCTGGGCAACAGAGGAAGACCCTGTCTCAAAAAAATA + HHHHHHHHHHFFFHHHHHHHCF8?EEGFDDGHHFFHHHHHHGGEFHHHHHFHHHFGHDB=1,8FHHHEEEB?DDDFGDBFHGDDC&&45BEFFDD @read_150_230/2 TGTTTGCATCTTCCCAAGACAGAGTTTTCCCTGTGACCACTTGTGCCTACGGATGAGTCTTAAGCCTCCAAGTCTTCCCAAGAAACTGACCTTAACTCAA + BHHFGHHHHHHHHHHHHCA:DCEHHHHHHHHGGHHHFDGEHHGIEFFHHHDDEHHHHHHHHHHED?DD=FGE>CE;<2:0--;5.<>CGGHH@B/<((7A @read_150_231/2 ACCTATGTGTGTTCATAGGCCTAAGGGTAGGAAGTGTGTTTGTTTCCTACTCTTAGAACATCTTGATTCATACTAGGAACTCTGTCTGTTGCTATAGTTA + G@@EHFFHHHHHHHHHGGFFHHHHHHHEFFHCHHHHHHHHHHHHHHHHFFFFHHHGFFFHFFEGGFFG5.*<-84F=EEGHFHHHHHFHFFEEGGEFFDD @read_150_232/2 CTGGCCAACATGGTGAAACCTGGCCTCTACTAAAAATACAAAAATTAGCTGGGCATAGTGGCAAGCACCTATAGTCTCAGCTACTAGATCGGAAGAGCGT + HHHHHHHGGGHHHHHHHHHHHHHHHHHEHHHHHHHHHHHHHHHHEGHHHHHHHHHHHHEDEB?;,33-,>:;@BFHHHHHFFCFFHHGBGGIFBBFFCG; @read_150_233/2 TTAGCTGGGTGTGGTGGCATGCTCATGTAGCCCAGGAATTTGAGGGTGCGGTGGGTTGTGATTCACCACTGCACTCCAGCCTGGGCAACAGAGTTAGATC + HHHHHHHHHHHHHHHHHHHDDC57.C@E:+16FFHHFEFHHFFF7%&8FHHHHHHGHGEG;@@:=HHHH@DFG=30)),6EHHHH?4GHFCEFFFGBCCGEFGHHHH@5--,G?GHHGHF.8-2>D:7:<:<>CFBFBH8-7=<< @read_150_235/2 TGAGTCGGTAATTGTTGAAGCTAGGTATTAGATAATGGGGATATTAATACTATACTGTGTAAATATGTATACGTTTTAAAATTTCCACAAAACTTTTAAA + HHHHHHHHGEGEHGG=FHHHHHHHHHHGFHHHHHHHGHGFHHFF@57>=CCB@=FHHHHHEGHFFHHFF3EHHHGHHHDBE><>?FFHFGHHFEEHHE@F @read_150_236/2 TTGGAGAGCTGAGATGTTATTGTACTTCTCTATGTTTCTTATAGCACCTAGTGCAACACTGAGAAACACTCATTGAAGTTAACTCGACTGAAGATCGGAA + DACD=:?HHHHD8EBDCFFFEG<>>.8F@@BEEGGFGHHFDGEHHHFHHHHHGGDE7@7>5BGE>?;DEEFHDBABEGBBGEHHHHHGFB=3DAB>==<.:4C8F5BGGGGFDC59, @read_150_238/2 CTAAATATGGTAATAGCTGGCAGACAGCCAGCCCAGTAAATTCCAATGATACTTAAGAAAGCATTCATATGGCCTGAAATTACTCTGAACCAAACACTTG + GFFHFFHE=87;GGA8E8:=83EHHCHHHB@GGGGEHHHHHHHHFGGFF?GHHHHHHHHGCEEG@8.?FA@HHG=CAEEFFFHGHHHFC>FE=GGBCDHA @read_150_239/2 GTTCAACATGCCAAAATTCTCATGCTTTCTTTTTTTGGATTTTTCAACTGATCACATGGCAATTATTAGTGAATTTGTTTGCCTAATTTTTTTTTGAGAC + HFD?GHHHHHHHHHHHHHHHHGHHHHFHHGE/2HFDAEED869EEHHFFGFGDD=DC@G=:GHHHHGFHHHEBFFFHHHHHFH@BC@<=AEBCHHHHHH @read_150_241/2 CATCTACCACAATCAAGACATAGAATAGTTCCGTTACTCTAAAAAATTCCCTTATACGTTTTTGTAATCAGTCCTGAGCCTCAGCCCCTGGCAACTGCTG + ..*65;EEFFHHHFHHFFDGBEFDHHHHHEHEGHHHHHHHFFHHEEDFHHHH@EDFGDBCHHHGHHFGDHHHHHG@EEEEGEHA=><;CDHF7).8?-7; @read_150_242/2 AGTGATATTTAGGAAAAATAAACATCACAACTTGATAATAGGCAGCATGTTGCAAGTAAATGACAGAGTAAAGCAAAACAAACAAAAAAAAAACCCCACA + HHHHHHHHGGHHHHHHHFFHHFHHHFGGHHG?GGHGGFDHHHBD=GFC>?@A7*43-->GHHHHGHHHHCB-*6BHHHHHHG:;EDFGFHHHBEBEFHHD @read_150_243/2 TTGAATGCTACAATGGCAAGAAGTCAAGGGAGTCTGATGCATCAAGGTCCAAAAAAAGGATACAAGCCACAAATAAGAATCAAGTCCAGGATACCCAAAA + GHHHHHHHHHHHHHHHHHHHHFFHHHHHHHHHHHHHHHHHHFFHHHHHHDF=DFHHHHHHHHDFGF@BGFEFF>55;=F@GFGHHHHHBC>>DD:A>?@GE?A@D4A?CDEFFHEFFGEEDBCBBD;=EEGFE<;6C8;01,60A9EFHHFEFEEEHG6;D?B>=5CCEF?GEEFDD?7>7FBE?G..* @read_150_249/2 CCTCCCTGGTGAGTCCCAAGAGGGTCAGAGGACACAAGGTGGGGTGATATGCCCTCCCCAGCATGGGCATAGCAGTCCCAGCTGAGGCCTAGATGAGTTT + HHHFFHHHHHHHFEE/78DHHHHHDGGIC@@EHFGHHHHHHHHHHB?F9CHHHHGHHFGHHHHE?A?E::)(*:.(5CCBGGHGD5@@>AFE>,,,+)*? @read_150_250/2 TTTTGCCATTTTTGTCATGAAGTCTTTGCCCATGCCTATGTTCTGAATGGTAATGCCTAGGTTTTCTTCTAGAGTTTTTATGGTTTGGGGTTTTCCATTT + HHHHHHHHHHHHGHHHHHHHHD.DA8CCEHHHHGGE@@BHHFB=FBFFFHDDC@=C=65()9<5AGHHHHHHFHHHHHHHHHHHHHEEEFHHHF(@;4:3 @read_150_251/2 AACATAATGCTTGATGAAGGAATGTTTTTTAGGGCAATTGCCATTTACAATTAAGAAGAATATTTACAACTTGGCTGGGCTCAGTGGCTCACGGCTGTAA + HHHHHHHHHHGGHHFGGGA@@>.7>,48CGHHHHHBFFHHHB9;:=A=:AE<5'-)-,>+ @read_150_252/2 CAAAGAAAGGGTGGGTGAACCACAATCTTAGAAAAATGTCAATGCTGTAAAAGACAAAGACGAGTTGTAGACACGTTCCAGATAACCGGACACTAAAACA + HHHHHHHHHHHHGGGGBGHHFFHHHHHHHHHHHHH@EDCEGEBBEBE4>AHGCCBEBB@ED;GHHHHHHHHHGFHGBGFGFFG=@&'+CGHHHHFHEE@* @read_150_253/2 CTTGAGCCCTGGAGGTCAAGGCTGTAGTGAGCCATGATTGTGCCTGCCTCTGCACTCCAGCCTGGGCAACAGAGTGAAACTTTATCTCAAAAAAAAAAAA + HHHHHHHHHHHHGGGHHHHHHHHHHHHHFGFEBGDFHHHHHHHHHFGGGGGGGAEHHHHCBGGBBEGGHHCD@E/<@<@AHHE>>CDHHHHHHHFD9DGA>CGGFFHFBCFFG=< @read_150_255/2 GACATTGGAAGGTTAGATGAGACTGAACAGGTGAGAAAACTCTTAGGGTCCCCAGACAGCATTGAGATCTCACAGAGGGGCCCCAAGGGCGTGCGACCCC + EHHHHHHHHHHHHHHHFFHHHHHHHGHGAFGDCEHEBEHHHHHHHHGIGFHHHHFHHGGFGHHHHHHHHHHHHHHHHGGCE8:>D?EGHHHHHHHEEEFFHE?HHGFFHHHHHEDDHHHHEFFHFGGHHHHGHHGGEGFCC@;C<7<&(3;??EE@B@CFECDADH07A4008 @read_150_257/2 TGTGAATTTGATCCTGTCATTATGATGGTAGCTGGTTATCTTGCTCATTAATTGATGCAGTTTCTTCATAGCATCAATGATCTTTACAATTTGGCATGTT + HHGGHHEDDBEHEEEFHHGFFFHHFHHHHHHHHHBGEGGFGFHBEHHHHHBA=@@DHHFFHEGEEFHHHHHHFGHHHHBGEFEHFFHHFEEGE9'8118; @read_150_258/2 TGGGAGGCGGAGGCTAGAGTGAGCCGAGATCACCCCACTCTACTCCAGACTGGGCGACAGAGTGAGACTCTGTCTCCAAAAAAAAAAAAAAAAAGGTCCA + 7?DEEDBABBHHHHHHHHHHHFGHHHGGHGGC8=B;>;>)5A3:@EFEHFGFFHHFD8:,639@:++6CBB66?EGGFFHFC=FBFHHHHGHHEEDF<6& @read_150_259/2 GAGTTAAACATACCTCTGATTAGACAATTCCTCTCCTAAATATATTTATCGTGGAGAAATGAAAAACATATATGTCCACAAAAAGATCGGAAGAGCGTCG + G7;<;G:FGHHHHHHHHHHEHF8,:<972/22589EEHE;DCDHHGHHGGHHHHHHF:8=I@@><6<:9BFHHHHGGGFHHBGGFHHHHHGHFDAC-5&( @read_150_260/2 GAAAAATACAGCATCCTAAATGACGAATTTGCCAGTGGCACCCTTATTGACAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGC + DEE89;<=>ACCBB/7BBHHDDE5@GEDHHHECCEDFCDAGFFHFCGHHFGIBDBGHHBDFHHHHHHHHH?.FIDA41<6??A=?2<57?DA8<9DEGD@ @read_150_261/2 TTCCTCAGTTCCCCAACCCATCACCATCTCCCTCAAATCATCGAAATGTGACGTATTAAATCCACGCACAGTCTCAGAAAAGATCGGAAGAGCGTCGGGT + EHEFFHHHHHHGHHHDGFBB=GGGDE@DDCEHHHHHHHHHHHHHHHHHBBB>GHHHHGHHGEGGFHHHHFHHFHFAC=HHHHHHHHHHHHFDGB<38+4A @read_150_262/2 TGAAACAGTGCCACAATTCTAAATATTTCTTCTGTGGTAAGCAGATCACATTTCAATAATCATACTCACTGTAACAACTAGACAATTCTTAAAAACCTAA + GGEGHHHHGHHHHHHFDCDFBB;C==D48FEHHHBHHHHHFHHHHDEFCFHHHHHHHHHFHHGHHHHHHHHHHEHHHFHHHHEHF?G;>CB8GFC5CDDF @read_150_263/2 AAATCATTAAAGAAATTGAGAAGATAGAAGAGCAAATTTGAATGAAGTTGATAATTCATGATAGTATTCTTACAAATATAAAGCTGAGTAGGTTTTTGCT + HHHHHHHHHHHHHHHFHHHHHHHHHHHHEEHHHHBFHFHHHHHFFE/BGBDE:@@EGFFHH??=C;3-5BFBGGHBFHHHGEDEEG?@=8@FDDDDBC>= @read_150_264/2 AATACAAAAAATTAGCCGGGCGTGGTGGCGGGCACCTGTAGTCCCAGCTACTCCGGAGGCTGAGGCAGGAGAATGGCCTGAACGCGGGAGGCGGAGCTTG + DCEFFGHHHGHHHHFHG:5@C=<.BB?FHGGC=DFHHHHHHHFHEHDCABEEEBB3CFFEGBBHHHHFGGHHCFEHHHHF@EEC@%25:12>11/9645' @read_150_265/2 AGGAGTTCATAGTTACAGCGAGCTATGATTGCACTTCTGCATTCCAGCCTGGGCAGCAGAACAAGACCCCATGTCTATAAAATAATGGTAATAATGAACA + HHHDHB5EFGGFBDDDD>9FHHHFHHHHFHHHE4;?GHHGHFFGH6AAEBEEGGEEFHFFHHHHHHHGGHHHHFHHFHEEDCF@@='.8/1/%,4>;?DD @read_150_266/2 GTATATTGTATGTATATATGTATGTAGGTATGTATTTTTCATAAACATTTATTATATATTTATTATGTATACATGTAATCCTCATATTAACTCATTTTGT + @EBFGGG8=2@BHHHHHHHHHHHEEHHHHHHHHHHHFFFHHHED/GGG.:BCDEDGFB;HHEEGHDHHHHHHHFHHEEEFEGEG@<:6EFFHHHFDBGDB @read_150_267/2 CAACTGAAACCATTTAAAAATGTATAAAACTGAAGCTCAGAGGTTAACCTGTTCAATGCTATAAAAGTCAAACCCTCATCTTTTCATTCTAAAACGTATG + HHEEGHHDCCFHHHHHHHHHGHHFGHHHHHFHHHHGHC?>E4?:38GBC@HHHHHHHHHHHHHHHHHHHHHHHHFHHHHHGD@F/<99.BF@<+/7AFFF @read_150_268/2 ACTGTTTGACCATATTTACTGTCTTGTTAGAAGGAACTTCCAAGGGGCATTGATCCTCCCTATTTGTCTTAGACTCTGCACAGATCGGAAGAGCGTCGTG + FHHHHHHHHGF8FD>=DGFEBGFBI<@ADA?FFHHHHHHDCB@C,6::==408E@CEBEFGHHHHFAFFEGHHCHHHHBCFHHHHH @read_150_269/2 AATATCTGCAAACTAAGCATCTGACAAAGGTCTAATATCCAGCATCTATAAGGAACTCAAATCAACAAGTAAAACATGACTCCATTAGAAAGTGGGCAAA + HHHHHHHHHHHFHHB@GBCHHHHHHHHFFBHHHHHHHBGHG>;DE<5;B>DGHFFFFBDDGGFFEBEE??BIHH?DEGF?EEEHHHHD(.AD?AC>BEGG @read_150_270/2 TCTTAAATTTTTCTTTATTATTTAATATACAAGCAAAACTTCTTTATTGTAGAAAAATTAGAATATAGAAATTAACACAAAGGAAAAAAAGTATAGTCCT + C@EGHFHHHFEDDGGEE=@BEGEEHHHHHHHHHFEEBABDHHHHG?GB@DHHFFHHHDHHHHHHHE@CEH@A?HHHHHEH9511GGHFFF>.?GGGGHHH @read_150_271/2 CTAAGACCCTCCTTGCAAACAGGAGTATTATTTCTTTGTTTTTGATCTGCATCTCCTCTTCCCTTTGAATGTAAGGTTAGGCAGGAGCCTTGCCAGTGTT + FDGGBFD=DEHHHHHHHHFFGFFGHHHHHHHHHHHHHGFFHFHHFDDFFEHHHEFHFHHHHFGD2,19?D@FEAA4*8*42(1?DF=77EC? @read_150_272/2 CTCTACCGCCAAAATATATTTAGAACCAGTCTATTTTTCAGCTTCTCTACTGCTTTTATGTTTGTATGAGTCTTCTTCACTTCTAGATCGGAAGAGCGTC + HHHHEBBFEHHHHFGHHHHHHHE.C+)7CHHHHHHHHHHGDFHHHEE@EHHHHHHHHFFHGGE/8CEE>CFFFHHHE@ @read_150_274/2 CAGCGCCAAGGTTAGCACCAGCAATATCCCAGTACTCGAATATAAGGATAAGACAACTCTTGGGGCCACAGAGAAGTGAAGAAACTGTGAGTACATGGTA + 2-24@<:?>DG@??>2;>:=;55.CHFHHGHHHHCHFHHHHHHHHBGGFBGGIGFHGBCHEDEEEGF@GEGF=HHHHHHHHEEEEGGAA6(,,55@CGHHHGFFHGHHHGHGFHHGGHHHHGCDDG;=GGHHFFEHHHHHB5::@DE@99D71CBGHHHGDGDGGGFHHHHHHGD>=8EGDHHHHHHHHHHHHHHHHFFHHHHHH>96BGCEEHHGFDGHHHFE?4FHHHHHH @read_150_278/2 ACAATATGTCTCAGGGATTAGCTGTCCCAAACCTATACTATTAAGCTACAAACATGCAGGCAGGGGAGAACAATGAGAATTTTCTTTCCAAAACGAATGG + HHD?:DGGEHHHHHHHHHHH<466HDG=D@DFFCDEHHHHHHHHHHHHFEGFFHHHHHHHHGGGHHHHHHHEFFHHHHHFGDEHHADIDFHDCHF=FHFH @read_150_279/2 AATAAATACACATATATTTATATATCTATATCTCCCTATATGTTTATTTCTATATATCTTTTACTTATAATATTTACCAATCTCTCGTATTAGTTCTGTT + HHFE8CA@@;.:-@GHHHHGFA=@BHHHHHHHGE>A:EHHHC>>@EEGGGFIGHHDCDHHHHHHHHHHHBEFBB=CHHHFHHG=49.;52)->;EED>:; @read_150_280/2 TGGTAAGATATAGAATGAACAAGGGAAATAGAATCCTATTTTTATGTTTCAATTTTATGGATTGCTGGAAAATTGAAGTGTATAGGAGTCTAGATCGGAA + 9--8;7-0,BGF8GHHHHHHHHHHHHHHHGHHHHHBFHHHHFF?<..:5FGCEEFGFGC5C@EGHHHHHHHFDFFGHFGGHHHDD@8-)4:>.EHHHDB? @read_150_281/2 CCAATGCCCGATATGAAGGGAACACGTCACCTGCAATTCACCACCTCTACCCCAAGCTCTAACAGACATCTCATGTCGAACAAGTCCAACAGAGAATGGC + EHHHGEGHHHHHHHHHHHHHFFHHGGHEHH;@@BHCBHHHHHHHHHD89>FF8::,>1FHFHHHHHHHHHFFFHFDGFGGEAGHFEFF?=EEDEHB?=CC @read_150_282/2 CTCCCAACTCTTCCTTCCTCCCCACCCCCCTCCACCACCCAAATTATTGTGTATAATTCCCTTTGGGCTATATCTTGTTGACTATCTTGGTAATTACTTG + I?EEEHHHHHHFFGGHHHHHHHHHHHHHHHHHE@,9EEEGEFFHHHFEHHHHHHHHHHHHEEGG6;CGHHHHHHHGHHHHHHHFFGD=C5.=65FHHFFA @read_150_283/2 TTTGCATCATGAAATCGTTGAGTCTGGCTGTGGAAGATCCTGTGCTTCTTGCTGTAGAGACTGAACATAGTTGGCCTGTTCCTCTCTTGGCTGGCTGTCC + HHHFIFGGFHHHHHHHDDDDGHEC;@<=G?EFFFFCGHHHHHHHHFHCGGFGGEEGFEB8),+;EFFFHHFFADFC,4DAE6E=8DADFFBA==FHFFFH @read_150_284/2 TCTTCAGAGTGCTTATAAAATACAAACCCACACAGACAATCACAGAAGGTGAAAGTTAGAAGAATGTTTGGATATCATCTTGTCCAACTTCTTCATTTTA + C5FGGHHHHHD=DGFCFGHHHC26DBEHHHEG<@BE>FFHHH03<*1:BGHHEEHHHGFFHHHHHFFEHHHHHHEEHGCB8D,>@B@BDDHHCC@EC @read_150_285/2 TCTAAAACTGACAGGGAAAAAGTTAATGTAAATATTCACAGTCCCTTTGCTTCAGTCATACTCTCTCCCTCTGTCACATATCCTTTCCAGGAGAATTCAG + GBBFGHHDDD;B><<:=><;<-.CCHHHHHHEFCBGGGEBHHHB@4BABDFFD:7DC>8'01->EEF6GBBEHHHHBF @read_150_288/2 CCAGGGTAGATCTGTTTACCCTGTGACTCTTACATACCCACTGAATCCCAGCTCAGCAGCTATAGTTTTCTTTTTTCTTTGGAGACAGAATCTCACTCTG + GFFHHHHHHHHHHHGHHHHHHHHHHHHHHFG;4EEHHFC@DFGHHHEHHHHHHGGHHHHHHFHHB;99CGHHHHHHFFHHHDDD.>.>*:,*<;?=>:BB @read_150_289/2 TGAATAACATGATGCCCTTTGAAAAATATGATAACATAAGGGTATAATGATCAACAAAGTATCTTTGTGGTTAAGAGTCTCAGAATAAAAATTAGACAGA + HHHHHHHHHHHHHHHHHHHHHH<41AFEGFDHB?AGHEEEFFHHHHHHHHHHG@94:GD?.AB2?*; @read_150_290/2 TCCAGATTTGTTCTTTTTGCTCAGGATTACTTTGGCTGTCTGTGCTCTTTTTTTGGTTCTATATGAATTTTAGGATTGTTCGTTCTTTCTTTTTCTTTTC + BB?HHHHHHHHHHHHC@@8B@>CG<5.<; @read_150_292/2 TGACTTTGTTCTTGGTAAATTCTTGATACTGGTAGGCTCTATCACTGTCCATGTCCTGATCTCTACAACCCTCAGGTGGCTGGGTCATTGTCCGTTTGTT + HHHGGEGHHHHHHHHHHHFDHEDDDBGDHFE?8'3DECHHHHHHHHHHHHHHHHHFHHHHHHHHHHHFH@CCDDFHHHHHHHHGFFFFGFHHGF?@::2D @read_150_293/2 TACAAAAATTAGCCAGGCATGGTGGTGTGCGCCTATGATCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATCACTTGAACCCGGAAGGCGGAGGTTGCAG + HHHHHHHHHHHHHHHHHHHHG=D52?A//;EFEEFGHBAAFDDCD>>@73ACA>>FHHHHHFHHHHHGHHB/A9CFDGG=)5,*087.4*19ADCDDB?A @read_150_294/2 TACATCCTCTAGAGGGAACATAAAAAGATACCAATAAAATTTTGTAGCTGAACAGTTATGAAAAAGAAATGCTGTGGGATAGATCGGAAGAGCGTCGTGT + FHHHHHHHHGHHHHHHHHHHHHHFHFEBCFHHGGFG4<>>E><,)45:>526?6>E;@2,5.<8@<):D@BBFHHHHHHHHHHHHEEEDHFBGB???>?> @read_150_295/2 TGTCCTTATTTAGGAGGAAAAAAGAAAGTCAAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAA + HHHEDHDFFEHHFHHEEEFEGFFBFHHHHHEHHHHHHG@>BCGGGA@::B@BEHFGFDGHGHHHGGHHHHHHHHHHEDHHHHD6(BA=>.<79=?E=?HHHHHG@A=CDGGBGHHHHHCDGHHHHHHHHHHHHFHDEEHFFFHCBEEEDC@B8CHHHHHFDCG>>6@@BFBH>DAE @read_150_297/2 GGCCCAGAGAGCCTGCAGGGTGCCCAGCACCAGGCTTGAAACAGCCCTGAAGCAGCTACGTCCCATTTCCCGGTGAGTGGCACAGCCCACCTTTGAACTC + HHHHHHHHHHF@G@@56<55F@E/?83:.=BE401<:?HHHHHHHGAC=;29:;.FHHHHHHHHHHHHHB:6GFHHHHHHGGHHFHHFHGGFDGBD8<<9 @read_150_298/2 TTGTCTGATAGTAGTGCAGTTTGCATTCCAGCTCCTACCAAGAAACATTGGATTCTTGTGCCTCAAGACAGTGTTGCCTTCAGTCTTGGAAAGCCTGAGC + HEGHHHHHHHHHHHDCEHHHHHHH@FFGGFFBGFHHHHHHFDEGHHHHHHHHDFFHHHHHD>@:4B@DC?GFCBEHDBD491);:2,'),22,,)*%',5 @read_150_299/2 TCTTGTTGCCCAGGCTGGAGTGCAGTGGCACAATCTCGGCTTACCGCAACCTCCGCCTCCTGGGTTCAAGCAATTAGGCAATTCTCCTGCCGCAGCCTCC + HHHHHHHHHHGHHGDEFFHHHHHHG.9;@CEGFGHF8E<.5=GHHFFFB<=C7?EEHHHHEHHHHHHHHHBG@DDFHB@HHHHFGGDD=<='699D5?.@BCBC2<>4875CF@ @read_150_303/2 TAGCTTATGCAATTGGCCACTACTGTACCACTGAAACCTGGTACATTGTAGGGACATGATAAGTATTTGTGGAATATATTAACTCTGAATATTGTGTTTC + HHHHHHHHHHHG@>:GEEFFEHHFFFEHHHHHHHFGEBCDDGFHHHHHGBBEHHGDB;?C;CDFEBCHHH@@CHHHHFFDFBA?FHHEGFFHFGHFDEFF @read_150_304/2 TGGTCATTATTCAATAAAGAATAGAGTATAATAACTATTTACATGGCATTTACATTGTATTAGGTATTACAAGCAATCTAGAGATGATTTGATGTATATA + 8@@GFGGGGGD@<173=((2GGFGGFHHHHHHHHHEHHHEHEHHFFFFBDHHC:>EFFHHEEGEHHGG.?EEEGGFHDGF.:22:EFGBD738?D@6AFF @read_150_305/2 CTTGTTTTAATAGCTTTGCTGGGCACATTATTCTTGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAA + HHHFFDFFGFDFEHHEGHHHHHG<>@:FGGGGHEHG8DE<<8DDBC?CCCFBECEBHF @read_150_306/2 TGGCCTTTTTTCACATCAAGTTGTGCTACAGTCAGTTTAGAAAATGACACTTGCATTGTGGAGTGGAAGTTGAGGAGCCAGTGAGTTACATTAATTTATA + HFDHHHHHHHGEHDFD@BCD@GHHHHHHGBEEEHH@CBC8E@6?HE2-33;>;=FFGGGHBGGG?,+<<2FBGEHHH?B;918FEEEHFGFDGGGH;>/B @read_150_307/2 GGGCGCCGAGCAGCTCGGGAGGGCGCGGGCAGGGACAGTAGCGGGGGGGCAGGGGGCTGGGTGTCAGGGACGCCGAAGCCCCGGTAGTCGAAAGTCCCGT + HHFEHHHHHHHHHHHHHHHHHHHHHHHHHBEDDHHHHHG=7.EEF?>::<>AFHHHHHHHHFEGHGFBCFA@@>:EEEEHHHBFC5?FDGEFHHFHHFHEFD @read_150_310/2 GTCCCCAACATAAAGAAATTATAAATGTGTCAGATGATTGATATGCTGATTGCCTGGATCCGTTCTGATCACTATATATCACATGTAGCAAAACCTCATT + GGEDC:><=GGEFFFGGGHHHEFHHHHBD=FGGEFHHFCDEHHHGGHHEAFEEHFFHHGHHHHHHGHDEGFEDAFHHHGFDDHEEDHEEFEEFFD359.) @read_150_311/2 GCCGGGCTGGTCTCAAACTCCTGACCTCAGGTGATCCGCCTGCCCCGGCCTCCCAAAGTGCTGGGATTAGAGATATGAGCCACTGCACTTGGCCTTATTT + HHHHHHHHHHHHHHHHHHDGHHHHHHHFHHGGHHBDGGEEF?AHFHHHH+8>-*9GHEBEDGDHHHHHHHFFGAB<6:>9;9%',;96=D4DFGHHHEFC @read_150_312/2 AAGAGATCGAGACCACCCTGGCCAACATGATGAAACCCCGTCTTTATTAAAAATACAAAAATTAGCTGGGCCTGGTGACACACGAGATCGGAAGAGCGTC + HHHHHHFGEHC8@=HHGHHHHHHHHHEEGHHFFFHHHHHHHHHFF+C=IGDDDDGGFBECD>;BFCFFF?/A?=9DE?:7:@/5FHHHHB<7@D?FFHHC @read_150_313/2 GTTCATTGGGCTCACTCAGCCAAAAGTAGAGGGAAACTTTGTACAGACATCATTAGTTTTTCTCCATTTAGAGATTAATCATGAAGAGCTCTGGCCCTTT + HHHHHHHHHHHHHEBHGFDDA@DFHFHHHHHHHHHHBHHHDGEHA78A@BHFHHHHHHHGECGG<:-CCD=DGHHHHHHH=DA,2>78HG=C;97GHHHHG?@BEEGEGEABBC@?AEGECDDEFFEEFD@?GGGHHHHGBEEHHHHHF?EEFA71=BFCCD==9,1,2 @read_150_315/2 GGTGTGCAAGGTGTCAAAGCAAGTCTGGAGTCATGGAGATCGGAAGAGCGTCGTGTAGGGAGAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAA + FHHFHHHHHHGFHHHHHHHHHHHGH?EDGGE=CBEFFHHHHHHFHF?HFHGHHHHG@GC=G6?B@CE;G87@CHHHHHHBFEHHHGGFHHHGD=?EFEEF @read_150_316/2 ATCTGGGAGGCAGAGGTTGTAGTGAGCTGAGATAGTGCCATTGCACACTCCAGCTGGGTAGTAAGAGTGAAAACACTCAAAAAAAAAAAAAAGAAAGGAA + HHHHHHHHHHHHHGGEGHFHE@<-?BGGEHFHFCHHHHHHEEF?EE?EHHHHHHHGHHHGHGHGHHHG=?BG?EGHHHHFFHHHHHHHFE@D<46<:*8; @read_150_317/2 AGCATATAGTAGCATAAGTATACACATTTGTTTCTTTTAACTCACTTGTCTTACTAACATTTATTAAAAACTTTTATTTTTGCAATGTTATATTATTACA + HHHHHHHHHHHGHHHHHHHGHHHHHHHHC-DGGHHHHF?E;.@HHHGGCABHHHHAGEGGDGEEHHFC6GHHBEGHDBBEACDFFDFE@A,<74>DD>5= @read_150_318/2 GAAGCTGAGACAAGTGAAGCAACTTATCTATGTCCATACAGTTCTTATAACTAGAGGAGGCAAATTCTGATCAATGGATCTAGTAAGTCATCTTGCTTTT + HHHHHHEGFDB@GFHHHHHHB@FHHHHHHHHEFEAB@;<5@**)8?GFGCEG=DGHHHGGHHHHHHHHHHGDC@HHHHHGEEHFFFFFCBCFHD@*5BCB @read_150_319/2 CTGCATCATTCATTTGTTCATTTTGTCATTCATTTGCTTGTTTATTTAGGCATTCATTTACCAAACACTGTGCTTACAGTTTTATGTCAGGCCCTGGGGA + HFHHHHHHHHGHHHEFHHHHHHHDEEEGGEGFECB=DDBDBD:B;>BDHC>=4<=9+3:@<>.DGFCEHHHGEGHHHBEHHFBBBBDEBFA;,A;EB@FD @read_150_320/2 AAACTGAGGCTCACCCAAGTTATGTGCTCAGCTAGAGAGTACGAGTTCAGCAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGC + HHEBHHHHHGHHHHHHHHHHGGHHHHHFFFFF<368>>CA@FHHHD;.DCGIGGGHHHHHHHHHGHHF@GGHFF7EHHHHHEG@HHHHFF@BDA@DHHBE @read_150_321/2 TGTTCGCTGGAGTCCGGACAGTTTGGGCTCGGAAATGGCTCTGCTGCCATTCGGAGCTAAGAGCACAGCCCGTTCGCCCTTTCACTGTCGCCTTCCGGGT + DCDHFGHFDB65CGHHBBCDDHHHHHHHEHHHG@AHHBGHHEGHHHFHHHHHHHE@,07EEFHFEGHHFHHHHHHEEDCD@.5.> @read_150_322/2 TCTCTCACTCTGAGTCATGGCTGGCTTCAAGTTCCCCAGCCTGGCAGGCAGGGCCAGGAGCCATTTCCCAGCCTGTGAGAGTATCTTCCCACACCCCACA + HHF<93*+=GHHHHHHHHHGBHHHHHHHHHGGGGGH?EHHHHHFFHHHEDGFD@A@<:DDD=F.>AC:?EHEGDH3;AEEHHHFDGHFEBHHFEHHHHHE @read_150_323/2 TGGCCTAAAGGAATACAAGTGCTTGGATCAAATATTTTTTAAAGGGAAGATAAAAGCTGTGGTACCTTTTAGTTCACATGACTTTAATCTTTGAGAAATA + HHHHHHHHFHHHHHHHHHHHHHEGIDE9/@>DEGHHHHHHHHHHEGDHHFHHHHHGHFFGDGHEE?GFFEHHFE>G?CCBHHHFEAFHHHHHFH?BEFEE @read_150_324/2 GTTTTTATTTAATACGGCACTGCAGAACAAAGAGGAAATAATAGTTTTTAGAGACAGCTACTGTGGCAACTTCTGGAAGTGAAAAAAAGTCATGTAATTT + 7<:?@EGHHHBGHHHEHHHHHHHF@FFHCCHHGBEFHHFFHGHHHGECHHHHGGGGFBEDCDG>43<<>8<)*(6(:;<91BFHHFHHHHFHHHHHHE*8 @read_150_325/2 TCTTGTTATCTAGTAACTATCAGTTGAGGCAGGGAGGGGATAAATAGACAAAGAATCATACTATATAGCAGTTTCCCAACCACCAGTGTGTTGAGAGGCC + HHHHHHHHHHHHGGGHHHEEEGFHEFGDA@@EFHHHHHHHGHHHHHHEFE673/1+87CBB@AF@AI==>>FFFHHHHEEECDEEDC89FEEEEBFFCA, @read_150_326/2 TCCCAGTGACTGGTCCCCTTGGTTTTAAACTCAGAATCAACCTCGCCGAGCCTCCAGCACATCATAAATGACAGGTTATGTTTTGCTAACCCAATACTGG + FHHHHHHHHHHHHHHHHHFGBCDDDGHHGGFHHHGHHHHFDA(,82)=DGHHHHHHHHE@DCB5@4:DDHHGHHHHHHHHHFHHHB:9'6AADA@EGFGGDDDEEEEEGEGFDFG=EFHHHHHHHHGDHFA>B)>*4.CGEE? @read_150_328/2 GATACTATGAATCATACCCGCCTGAACCCCTCCAAATCCCTTCGGAGCTAAATATCGCTCACATTCAAGAGCAATATCAACCCATCGCCATTCAAACAGA + HHFGHHHHHHHHHHHEB?*(9E86@?FHHHCHECCCGEHE>;CEDEFFHFDBHEGHFHFCCHH @read_150_329/2 AGTTTTTATACGAAGATATTTCCTTTTCTACTATTTACCTCAACACGGATGCAATCTCCACTTGCAAATTCCACAAAACGAGTGTTTCAAAGATCGGAAG + HHDHHHHHHHHHHHHHEG@@93@@6BHHDBFGEGHHHHHHBFEE/1-1*8.'*2*<0'>?6;?DHHHHHHHHFB>.:<=EFFH@B.:,3AC=..3?DFHHFA?%+ @read_150_331/2 GTGAGGTGAACCAGCAAGTGCACTGGCTGAGGGGACTGGAGTTCTAGCCTCTGAACCAGTTTCCTCCTGTGCCAAAGGAGGATAATAATTATCTATTATT + HHHHHHHHHHHHHFHHHHHHHHHHHHEGHHHHHHHHHHHHHFHHHHHHEHEECEE/32'38EA3AEFFEHHHEHHHHHHHHGGEHHFEEDFGGABBE??< @read_150_332/2 AGAGCAGATTTGAAACACTCTTTTTGTGCAATTGGCAAGTGGAGATTTCAAGCGCTTTAAGGTCAATGGCAGAAAAGGAAATATCTTCGTTTCAAAACTA + HHHHHHHHHHHGGHHHHHHHFEBDGGHDGDFB;BBGC;C8EF/HHHHHHHHHHFEGGHHHHHHHHHHHHHHHHHHHHGHHHFA=GG?C>EFHHHHA5.>F @read_150_333/2 TAATGAGCCCATTGAACAATGACAAAGGGGGCTAGGAAAAGAACCTGGAATCCACAGGGTTGGTTATCCTATCCACTTGGTTATTAAAGTTTTCTGCAGA + HHEFHHHHHHHHHHHGHHHHFHH=<5C??AD @read_150_334/2 TTCTTAGATTCTTGCTTGTCTTCCTTTTCATAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAA + HHHHHGB=/@<9@GGBE/@FBBGHHHHHHHHHHBECFHHHHHGFDD8AE6.:8D;GEHE@BHHHHHHHHHHHHHHHHDCC@>5CHHFGGGHHGGEGBDGDFHHGG4FEEFHFFD/)1: @read_150_337/2 TTCACAGCAGCACTGGGAGGTGGGTGTTAGTGCCCCTGTTTTCAAGACCTAGAAGAGTCCCAGGCTCAGGGAGATTAAGTATGTTGTCCAAAGTCAAACA + @:<7@A7/;EHHHHHHEHHHHHHHHHHHHGGGHGGGGHFFHHHHFGGBFHHHHHHHHFHBHHHFHHHHHHHHHHHHHHHHHHEHFDGFB=5,AD?DHHFF @read_150_338/2 GCCCACTAACTAGAAACTGAGAACCTAATACAAAAGTGTAACTCAATAAAAGTGATTCTGAGTGATCCATGAAAGTAGCTTGCTGCCAATCCATCAGAGA + HHG@CHHHHHHHEEDGHHHHBGBHHHGHHHHHGGGFFCEEHHHFFFFGHEHGGGFEHHHHHHEEFFHHHHHEGHHHHFFHDEGFBFHHHHHEDFHHHH:9 @read_150_339/2 GTCATTGCACTTAGTCAAGACCTAGTGGCTTCTGTTTGCTCCACTAACTTTAGAGTAATTATAAAATAATAAGCTTGTATTGGTAATCTATATCTATCAA + HHHHHHHHHHHHGEEEEHHHHC?BFHEEBABGHHHGGF=?GHHHHFEHHFHHFEEHH@7=E@GFFB=?328HHFF+78*;>. @read_150_340/2 AATATCTTTGCCTTTTAAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAA + DBGEDHHHH89=BGFFGGGBBHHHGHHHFGHHHHGHHD@E>BGFFF??FFHHHHGHHHD?GFHHHHHDHFDBBGEGFBE7;A:>FACEHFFFHE0>(0)) @read_150_341/2 GGTAGCAGAGATTGCAGTGAACCAAGATTGCACCACTGCACTCCAGCCTGGGTAACAGAACAAGACCTTGTCTCACCAAAAAAAAAAAAAAAAAAAAGAG + HHHHHHHHHHFFEBGHHHHHGHHHHHHHHHHH=AFHHGFHHFDDF=GFHHEGDEHE @read_150_342/2 TTTGATTTGCAGCATCTTTGAGCCTCTACGACAAAAAAACCGCGAAGCACGCCCAGCCCTCCCCCGGCACCCCGAAAAGCACCCACTCCCTCCCGGGGAC + HHHHHHHGHFEHHHHHHFHHEHHHHFGCFGHFEHHHHHHHA=CEGHHHGHHHHHHHHHGGGFFFGHEHHHHHHHHHHGHHHHHHHGGGDC08==?EEBBH @read_150_343/2 ACAGATGCTCTAGTACAGTGGTATAATCATAGCTCATTGTAGCCTTGACCTTCTGAGCTCAAGTGATCCTCCTGCCTCAGCTGTCCGAGTGGCTGAGACT + DHHHHFDGD?<2-3>?<<>@9->>:A:((6.DCBCGHHHHHHHFHHHHHDGEF<58EHHHHEHHHHHHDFGDHHEC?BEC--->.8>4>AFHF>>@?;CH @read_150_344/2 GCATCGCTATACTCCTTCAAGTCAAATGAATTATTTCTTTATCTTTCATCCTATAGCTCTATGGCAGCGCTCAATGTACTATATGGTGCCTCTATTCTGG + HHGGHHHHHHHHHHHHHHHHGDGHHHH?BFHHHFHHHFEHHHHHHHHHHHHHHHHHG@CBCABEEG=:-0;+(:;DHEHHDBFGFFCGGHHHHEF/+ADE @read_150_345/2 TATCCCTCTAGGCAACCACTAGTAGATCTTTCTGTTTCTAGAGATTTCCCTGTTCTGGACTTTCATATAAGTGAAATAATATAACATATGGTCTCTAGTG + GHDDHHHHHHHFHHHHHHHHEEF@BEABHHHHHHHHHHHHHHHHHHHHHBEHGHHHHHHHHHHHHHHHHHHHHHHB?=EE3C*8.5CC3.:7EBFHG=@5 @read_150_346/2 CAGAACACGACAGCAGTGCAAAGGCCCTGCAGCAGGATGGTGCTTGCTGAGTTTGAGGAAGAGCAGGAGGCCCTTGTAGCTGGAGGAGAGAGTGGTGGAG + B@GFHHHHHHGEHHHHHHHHHHHHHGFHEGHHHEEFEEHHHHHHHGFFFHHHHHHHHHHC:<<>:EGFHHHHB@HHHHHFHHHGD?ICFHHHECE6;B,/ @read_150_347/2 ATTCAATACTTATGAGATATTTAATCAGGTCATTAACTCTAACTTGTGATAAAATTAGTAGCCCTGATGAATTTCTACTTGCAGTTTAAATCAGTGTCAC + HHHHHHHHHHHHHHHFGHHGGHHHFEAG<.BDGGHHHF?CEIGEFHHHHD=BCACFHHHHHHHDGGHHHHHHE63>DCDEEB=CEDGHEFFHHHHHHGGF @read_150_348/2 CAACTATCCTTCATACAACCAAAATGCACCAGTCCCCAACCCAAATACATAAAGTTAACGATACTTAAATGCTAATGTGAAGTCAATAAATCTTATGTCA + FFHHHHHHHEDGHHHHHHHHGHHFFEDEC@B<>>GHHHHHEFEEGHHHFF;7.:EHHHHHHHHFHHHHHHGHFHFFEHEACEEEHFG@?EHGEHFDFE=C @read_150_349/2 ACCAGATGTGGAAACAAGGAAGTGAAGGTACATCTTAGCATTAGAAATTTCCGTGGCCAGAATGGTGGATGGTCAAGGATTCTATGGAGACAAAGTGGCC + HHHHHGGHHHHGHGFG?FHHHGHHHE;DCCEBHHE93EFFHHHHHHHHFC..14;.7 @read_150_350/2 AGTTGTCTTTTCTTTGAAATGTTGGTATTCTTTGATACTCTGTTCTCTTGTCACTCTCTAAATTCCCCATGGGTTATTTTATCCATTTAGTTATTGTGTT + HHHHHHHHHHHHHHGHHEEEFBD6-/@A@@HHHHFHHHHEHHD/CGGEHHHHHHHHHHHHHHHHHHHHHHHGHEHHHEFFGG=ACGA7<5><52DGFHF? @read_150_351/2 TCGCTGAGCAATTTGTTCTTTATTTTTTACACTAAGTTTGTGATTCATAAAGGGATGCAATTGGGGTCACAGCTAAGTTTCAAAGGCTGTTTTTGGGTTT + HHHHHHGHHHHHHHHHHHHHHEF=A@@@EHFEGGGHHHHHHBC>>57>=@BB?46A42*5:6-9-36:??HHHHHHHEFCHGFA?;??-/>:=.0&79EBHH?><:DEFHHHHGGEHHE=B@6>>.>:C@.CHHHHEEEGFFGHFHHD@?BEDGHHFFFDHHHHHHHH @read_150_353/2 CTGCCAGCACTAGAGATGATGTGAAGTGGTTGCATCTGGGATGCATTTTGAAGCTATAATCAACAAAACTTGCTGATGGAGATCGGAAGAGCGTCGTGTA + HHGFGGHHHHHHHHHHHHHHIDBGGAE?>CHEB31>EGEDA>CEEEAGHHF @read_150_354/2 CACTCTCTCTCCTGCCGCCTTGTGAAGAAAGTACCTGCTTCCCTTTCCGCCATGATTGTAAATTTCCTGAGGCCTCCCCAGCCATGCAAAACTGTGAGTC + CCC;<89>?DEEEDGCCHFF3:6.?6@BB4BH?:FHHHHHFHE@+56FEEGEEEGHHHHHHHHHH@FBEDE?<58:EEHHHHFHGGFEA52 @read_150_355/2 TGTGCCTTTTTAAATTGATGGGAAAATGACACCCAGGATAATTTATGGCCATTGTGGGAATTATTGGAAATCTTTAAGACTGTTTTTCTTAGCGAAGCAC + HHHHHHHGGGFHHGHHHHHGFEHFCCDF@<@.6EBBHEGFHHFFHBDCFEEEIEEGGGHHHHHHHHHHHFFDEEEHFHHHHHFDHHEAA.@+-%-5&3EG @read_150_356/2 CATTTTCTTCCTCAAACACACTAAGCTTATTTCTACCTTAGGGGTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATC + HHHHHHHHHHHHHB?@=@>CDDEGGFGGHHHHHHHHFFHHHF?GF?FHHHHHHGHHHHHHD@06FHHBFEHBGGHHGHHHHFHHGBFDEHHHC>>@E=E@ @read_150_357/2 CTTTACCTTTTATTACCTAGCTTCCCTTTTAGGTCTTTAAGACAAAGGTCAAGATCTCATTCCATTACCTAATCTATACCTACAGGACAACTATTTGATA + HHHHGHHHHGHHHHHHGBA.38@EEHHHHC@>A@=>.5,(@C=@=?@EHHHHGDHHHFFHHBGFHHHHHHEEG=HHFBDGHHH?DFEGFDFEEHHFFBEG @read_150_359/2 CACAGCAAGCAAGCGAGCAGTTCTGCAGTGGATACCAGCTGGGCTCCCTCCAATTCTGTTCCAACACTATCTACCTGGCGATAGCAGTAGAAACCACAGG + GHHHHHHHHHHDCGEDHHHHHHHCDHGHHHHHHHGECCFF=:5?FFHEDHHHHHHHHHHF@FEHHF@AGGD@AEEFFEEEHHGFEHHHHGH@=,6;EEDD @read_150_360/2 AATGTTGTGTTTTCTCCTAAACTGGTTTTCATCCAAATCTTGTGTTGCTCAGAAAAACATGGAGCCAGAAAGCCAAATTCCAGAGTCCTCTCTGTGGTCA + HHHHHHFFFHFHHHHHHHHHFHHHHHHHHHHHHHHHHHHHEBDEEFHBGECD@757631:6B9DD:GGB*09A?EGGDDDBDCCEHHHHHHEHEDBA.@. @read_150_361/2 GTTTCCATTCACAGCACATAGGAAAATGTCTTAACCTCCTCCCTCCTCCTTATGTGTGTTTTTCTAAGTGTGTGTCTTTTTTACCTTAATTTTTATCTTA + HHHHGFHHGEEHHHHG@=9965;=DDFHHH<>:B@D5:;5=.>59@DDGFGGHHHHHHHHHFFEGFHHHHHHHHHHHHGGGBHHHGHHHH28EC,+)6); @read_150_362/2 TGTCCTCTGCTTATTTTTTGGTGCATTGGTGTTTTTTTTCTTGTTATAAGATAAATTTTATGTTATAAGAGGACAACAGTTTTCCATATTTGCTGCAAAG + HHHHHHHHHHHHEE9*CFHHHHHHBEEHHFE?BDCGB@BEFE@;=FFHHFGHHHFHHHHHHHFB=64E=EEFDGGFEECBGHHHHHD=?@,,.<7CC@AC @read_150_363/2 AAACAACTAGCTCACATATGAACTACCATAAAAGGAACTCTCTCATTATCACGAGAGGGCACCAAGCCACTCATGAGGGGTCTACCCCATGTCCCAAACA + HFE;;??CBDFB8.@DHHHHG8DDEHCGE?011/%+:DGGBEFDBGHHHFFGGFGHHHHHHHHHHHHHHHHHHEEHHFCEFADFFHHFFFCDFDDCBF?@ @read_150_364/2 CTGCACACCTGCTTAAGGCGATGCCCAATGGCCTGGGCACCCTCCACAGGTGTTTCTGCACCACCCCTCAGGGGCTGGTGTTTTTGGCGGTATGCGAGGT + DHHHHHHHHHHHHHHHHHHHHHHHHCD@5>CEDFGHHHGEDHFHHHHHHHHHFCGHHGHGFHHE3);<,4(D>ECCEG? @read_150_365/2 TTACTTAACATTTAACATTGAAATCAGGGCATACCTTACAATCGATGATGTCAAATTACCAATGCTATAGCATCACTGCCTGCCTACAAGTACTTGGTTA + HEEGGF=EHHHHHHHHHHHHHHHHHF<>8FGGHEDF??(9605DHECF=BGFHHHHHHHHHHHHHEEDEHHHBFBHHHHFHHHHHFFEGB+.=AA@D @read_150_369/2 TTCCCAGAGGAATTGATATTTTAGTGGGATCTTGACAATGGGTCGGAAGGAAAGTAAGAGGCTTCACAAAGAAGGTGATATTTTTTGGTGGGATCTTACA + HHGGBDGFFDGHHHFGCDF85-5-9;A9?BFHHHHFFGGGHHHHHHFEBCB@DEEHHHEHHHHHHHHHHBGI?;GI::FFFHHH?CC<39<@,+.>9C?@ @read_150_370/2 CATGTTGGAATGATACAAAGTTTGTTAACTGAGGGAATGAGTTAAAATATGTAAATTGAAATGTTGCAAATATGCTCATAATTGTAAAATTTCTTTTTGT + HFHHFGG;?9BD@59:6DDGGGGGFDBHG@HHHHHHHHFCFFHGEGGFHHHHHHHHHHHHHGHHHHHHHFFDBGBGBEFHHHFHEEAEFEBA58(>FBBA @read_150_371/2 AATGTGAGTGAGCAGCCAAAGCAGGCGTCCCCGCAATTGACTTGCCACCAAGGGAATGTGGAGATCGGAATAGCGTCGTGTAGGGAAAGAGTGTAGATCT + HHFHDGGEEEEFFGHG9129DHHHHHHHHHG?@?<6:72GE?7)+>=DHHHGHHHHHGGFHEG4>ED><.+6(5D:CHHHHGDH:GHHFFHHHFHDG@DF @read_150_372/2 ACAGGTGTGAGCCACTGAACCCAGCCAAAAATATTTTTTCTAATCTCCTAGAGTCATCTTGCCCATACCTATTTTTTTTACAGATCGGAAGAGCGGCGTG + HHHHHHH?;1@BDDGGGDDDFB@CGE(5?.:EFHE?::7@EHHFGHHEHHHHHHD<=?@CE?=EC;?:C-,;9 @read_150_375/2 GGATTCTTAAATCAACCTTAGCTGTAAAACCTTTACAGAGTAAAGTTGCCAAAATCCCACTCACAATTCTGCTATTACTACAACTAATGATAATAACAGC + HHHHHHHHE?BEHHHHHBAE6634>CEHGFEGFHHH @read_150_376/2 AGCCAATGGCTCATAATAAATGTCTTTCTACATATCTATACCTATCCTGTGGGTTCTGTTTCCCTAGAGAACCTTGAGTAATAGAAATATAGTCCCTATT + HHHHHHHHHHHHHHHFHHHHHEHHHGG8/>,709@EE645EE>*;?GFFDDABGCHHHHHHHHHDHHHHD459;,';??42:.5?CFFHHHHFHFHHHDEFGGDHB<:9-3E9>?CAAA @read_150_379/2 ATGCCACCATCAACAAAGTCAAATTTAGAGCATTTTTATCAGCTCACATAGAACCCCATACACTTTAGGTCTAGATCGGAAGAGCGTCGTGTAGGGAAAG + =8EFEGCDCDEFHEDEEEGGEBHHHF@BFDFDCACG:2<64A*+CE6;;8@B/>8:.=BGCFDDABFFHHHHHHHHE@HHGHFHG@5EEEFFGHEGHHB= @read_150_380/2 CTTACCCATCCTGTACTGTAATTGTTTGTATCTTGTGAGGGCGGGGGTTGTGTCTCACATCCTGGCATTCCCTGGGCACAGCACTGGCCTGGTACACAGA + HHHHHHHHHHHHHHGHH=GGHHHHHHHHDDHHHHHHHHEEBHD?DABC@5AC?GHHHHGGFE?DHHHGCGF=EEFHHHHGD6=<B>47BFHHHHHGHHHHHHEHHGG:<=65937BDH @read_150_382/2 AGGATTATACTTTCACTCAAGCCTTTTCAAAAGATTAATGCTCTATTTATGAAATAGCATTGTTAACATTTTTGGTTCTTAATTTATTCTTTTGATAAAA + HHG=EHHHHFEBGFHEEEEHEFHHHEEDDC@@886BHHHC/DBEFHEDBDEGGCBDFHHFFHFBBHHHHHHHH?;42E=DEDBF@>FHHHHFHHGEHH=:@DB<75:9E @read_150_384/2 TGCCTATTACAAATATATTTCCTGATGATTTCACAGTCAGAATCTTTAACAAAACTAATCTTCATCATTTTGTAACTCGGAGTTCAGATAACAGTTAACC + GGGGABB;577BE:CC@==EEEEEEHHHH@6ED;EHEGGHDECDDHHHHHHHHHHFHHHEDDGEDEAFHHFGGHHHHA;6*4':;BCD7=;>/=EFF@BD @read_150_385/2 AATACAGTCAGTTTTAAATTGAGGACTACAAATATCTAGCAATTTAACTGACTGAGTTACAAACTGTAGAAGCCTCTGACTTCTGAAACTGTTGTGCTGG + :88DBHGHHHHHHHHGHHHHHFBEE?HFF=DBGGGHHHHHHGEHHHEHHHHHHDDFFHGFFFFE=.*&/;CHHHHCD@FFD(>>,,@GHHEHFHHEF@:' @read_150_386/2 GGAACCATGATCCCTCTACTTGTTCCTCATCTTTCCCCTCTTCCTTGAGAAACCCTCTCCTCTGCTTTTCTTTTCTTTTCTTTTGCTTCTGGCCAGAGAA + BBGCCCBDDGGHHGGHHHHHHHHE=DB<<79E@@@?>:??946+8ECFFHHFF@CFEB=@BD.EEDF;@GFAA?@;DDHGDDGHHHHHEEEEEAAEHHHF @read_150_387/2 ATGAACAAGGGCTGATTGATACATAAGCTCTTGAAAATTCTTAAGCTCACTGCATCCCTTCAGGTCTCCAAGGAACACTAAGTTTCCTCCCTGTCATGAG + HHHHHHHHHHHHHFHGHHEHHHHGDEEEHHD?@59EHHGHHHEEBFFHFAGGGGEEEEEEFHHHHHHHHFB:.+*(58ADD@A7@>AAEDHHFDFEE77@ @read_150_388/2 GAGGTCAGGAGTTTGAAACCAGCCTGGCCAACATGGTGAAACCCCTGACTCTACCAAAAAATACAAAATTAGCTGGGCCCACACTGGTGGGTGCCTGTAG + HHHHHHHHHHHHHHHHGF75>2-<@C7@GE9EECDEECCB??GHFE@A@D93;GGGBFHHHGFFEGFHFF@.<354,2*'>AABB8EEHHHHHEG?F??F @read_150_389/2 TACAACATCACTGGAAACTGGGTACTTTATTCCTAAAAAACATTTTTGGGACTGGTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTG + DDDDHHHHHHHGG==:641265>DDBE?6GDFHFGDEDFHHHHHHHHHHFCFHHHHHHHHHHHHHHGFFFHHHHH8>@=FHHGBHGGF5&0EDDGEE5;< @read_150_390/2 ATCCTTCCGTTTGAAGAGCAAGAAAAAAGCAAGAGAAGAGTGTAGAACTTTCAGTGATTAGAGAAGAGCTCTGAATGGTGTGGTACATAGATGTGAGACC + HHHHHHHEFD=CEEEDBBC8DFHHHHHCGHHF<@?D:7FEGHHHHHHFECGGIGHHE@FEHHHHHHHHHGHEHHFHHHHHGEGHHHFD(DD=CDC>=?<= @read_150_391/2 ATCTCCATCCTGGTTTTGGTGTTTGGGGCAAAAATAGTGCCTAATGTTGCACAACACTGTGTGCTCTTGAGTGTAGTTTGCGGATGAGTTATATTAATGA + EHHHGG@;;<08:<=FGHHGHHHHHGEEHHEAGHHHHHHBEFEEDEGHHHHHHBCDCFEGHHHHHGHHFHHHGDF>.6>=EBGEHHFHHHHHHB>D?DD; @read_150_392/2 AGAGACAGATCATGAAAAGATTCTGGTAAATGGTTGGAGTTTCAGTGATTCAAAGCTGAGCACCACACTCAGTACTTTTTATTCTCTTAACCCTAAAGAC + HHHHHHHHHHHHGGGHHHGG7C?GGHHHHHHHHHEHEHHEB?B6.:DFFHEFBBAECC=B9+CEE5BD@HGHGB-8:.9EDAC=B?C@B@GGFHHHHEF4 @read_150_393/2 TGCAGTGGTCGGCTCACTGCAACCTCTGTCCCCCAGGTTCAAGCGATTCTTGTGCCTCACGTAGCTGGGACTACAGGCATGCGCCACCATACCTGGATAA + HHHHHHHHHHHHGHHHHHHHBDGGHHHHHGC>.A@.GHBCEC= @read_150_394/2 AGGTGTTCACAGCCCCCGAGGCTTTGAAAATGGGAGGGCTTTTGAGGTCAAGTAGGATGAGCTGCAGGTCTAATTTGAAAGCAGTGAGCATGCAATATCT + HHHHHHHHHHHHHHHHHHHHHHHHHCDCFCEHGGFHHFEHHGFGGHFD>CD@>CGHHHHHFEHHGGEFHCA@CAC6DHHHCCFHHHHH8.BBDEHEFDFD @read_150_395/2 GAGCCCTCAGAAATAATGCCACACATCTACAACTAACTGATCTTTGACAAAGCTGACAAAAACAAGAAATGGGGAAAGCATTCCCTATTTAAAAAATGGT + DBBEGDFGHHHHHHHHHEECEHHHHGGFHDBD6629C8BB5CCEBEB9;@GGGHHHHHHFHHHFHHHGGFDABGG@BCE@>+>=>CFEEE=B)6;29,4A @read_150_396/2 TAAATGAACTAGAACTTAAATGAACAAGACCTCCCCCACCCCCAGTCAAGAGGTAAAAAGGGCATTTCCAGCACACGACACGGCAAATGCAAAAGTTCAG + HFHGGB?C/;97<68FHHGBF@EHHHHHHGFB>@@HHHHHHHHHFFEFEFHHHHFGGHHH=@ACB@GDC853F98DCDHHEFFFFHFF @read_150_397/2 GCATTAAATGAATTTTGGTAAATCCAAGAGCAGGAAACTGTGTAACCCAGGTAAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCACGGTGGTC + HHFHGGHH@EHHHHHHFHHHGGGHHHFFHEGF*BF@<-=<@@EHHHHHHHGEC<.>>5>EHHEC?EEG@D@CB:AFHHHHGFAB?<>39-,.GHD366BF @read_150_398/2 AGCATGGAGGAGCTTCTGCAGGTCCCGCAGCTGGTGGATGGCAGAGCTTGATTCCCCATTCAAGCCCACACACAAGCCACTCCCCTGGCCTGTAACATCT + HHGGD?@@EEGGHHHHHFGHHGBBA:C8=BHHHHHFHHHHHHHHHEHFHHHHHHHHH@BFFFHHHEBGFFDDDCHHHHHHHHFHHHGGGH=EBDDBB.*, @read_150_399/2 TTTGGGGCTATTTTTCTAGATCTCATAGGTGTGCTTCATTCTTTTTTATTCTTTTTCTTTTTGTTTCCTCTGACTAGATCGGAAGAGCGTCGTGTAGGGA + E?DEDGBEGGGGGB@CDEEDGHHHHHGEHHGGGEDFFHHHHFHHHHHHHHHHHHHEDBD8<5535AB=A@DDEDE@),836BE.3.777(70-2BFFEFCD/HHHE9DFADHHGGHHGFHHHHHHHHHHHFHHHGFFE@AFH=FGEFC?E4DDDEBFGGBHEE6E @read_150_402/2 AAGCATTTTTTAAAAGTAAGAAAGAAAGAAACTCATTGAATTTTAGACCTGGGTGGGCCATAGATATCTCCCATGCTGTCCATTCATTCTGTAGATTGAT + HHHHHHHHHHFHHHFBDHHHHGHHHHHHHHHHHHHHBFGHHEEGHFHHDE0EFGFEHHHHHHHHHHHHHHHCDC>>DDEEEFDFGFHHHHHHHGG>;@E-0:>190<68.EHHHHH@5BHHEA9FF @read_150_404/2 TTTTGATGGGGTTGTTTTTTTCTTGTAAATTTGTTTGAGTTTATTGTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTA + G87BEEBCHHHGDFBEEEHHBG@GGGGGDDHHHFFHHHEEHHHHHHHHHFHHEEDFHHHHHFHHHGFGDD:9:GGHGEHHFHFHHHHHHBBG=D@>/&9? @read_150_405/2 TCCCTGAGGCCCACCTGCTGTCCTAGAGAGCTGTCCCCAAGCCTAAGCCCCTGTCACTGCTGGGAGCCGGATGCCCGGGCCCTCTGCTGGGTAACTGGGG + HHHGGGGFCHHHDGGHHEGCFGFHHHHHDFEGGCHHHHHHGBFHHFDBFCFEFHH@>F,,'0-32257(6;GGHHHHGHEDCHHHFHEBBE@D @read_150_406/2 ACTTTTTTGTGTTTTCAGTAGAGATGGGGTTTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGTCGTATCATTAAAAAAAAAA + GHHHHHHHHHBGGGGFFBD?;>5@D<8629 @read_150_407/2 TTCTTGGATACTATCCTAGAACACCTTTACCTTCTCAGCAAGTATAAGCTGAAACCAGCTGCCAGACCAGGGGGTTAGAGGTCACCAGAAAGGCTTTTAT + HHHHHHHEHGGF7@BGHDDGGFGHHHHFCHFGFF@B53.51-2))*843=FGIGBFHHFHHHHHHGHEHEEBDFHHHB@@EGGGFGFECDFBHHEFHHGB @read_150_408/2 GGAAGGATTGCTTGAGCTTGGAAAATTGAGGCTGCAGTGAGCCATGATTGCACCACTGCATTCTAGCCTGCATGATGGGAATGAGTCCCTGCCTAATTTA + HFCDHHHHHHHHEBCEGEEDBGGFGAGF>>FGGGGFFHFFG@A?HHHHHHHHHHHHHHHHHHHHHHHHHC@@HHHHHDG6EACFEHHFHFD4*7BD29>2 @read_150_409/2 AGGAGAAAGCATTGCCTGGGAATAAAACTTCAGCTGGCAGGAACTGAAGACAGCATGGTATGGTGGTGTCCTGGGGCAGGCTTTCCGACAGCAGCATCAC + HHHHHHHHHHHHHHHHHHHHHGGGB@CFB=FHHHHGEB:BE//8=HHHHFHHHHHHHHHHHHHFHHHHHHHHHCDDHHF@HHHGBD,.4743=FF.91/A @read_150_410/2 GATCTATTGGTTCATTCTGCAGATACTGAGTGCTTGCTATGAGTAGCCACTATTTTAGGTGCCAGGGCTCAGTGGTGTACCAAGGGCTGGGCAAGATCGG + HHHHHHHHHHHHHEHHHHEHFGGHGHHFF?DB@EHDDDAEFFEHHDDGFHHHHHGED84+;*3?BBFHHFEEHHHHEEHHDDEBHGGGFGG9;37@>>>: @read_150_411/2 CCCTCGGTAAGGAGTAGGTTAATGGTCTGTTGTTAGAACTCAGAGACATAACACACTGCTGTTCGTCAGAAATTTTAGATGCAGATCGGAAGAGCGTCGT + GGGHHHHHHHHHHHFG:;/422>EEDD;EEEBFFEE @read_150_412/2 TTTGTAACCAACTTTTGTCATTAACAATTTACTGGACTTGTCAACAAACCTAAATCTGTATCGTCTATAATGGCTACGTTCATTTTGGTATGAATCTTAA + CEEGBGB@@5EHHEGGHB@GFF@DDCC=:?EFGHHEE93ABHHFEEHHHHFGC@?FFGHHHFHCGH@CGEHHHHB41<@DCDDDGGHHHHFDGG?2<>3 @read_150_414/2 CAATCTACGTGATAGCCCTTACACATACACGTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAA + GDC@A@EHF@*3@?,6CEG@FFEFDBGA?CDEFFHCA @read_150_415/2 TGATTGAAACCCAAAAATAAATGAATGAGTCTTGGAACATAAACTCATTTTGCAGTCTGGTCTCATTTGAGATCGGAAGAGCGTCGTGTAGGGAAAAAGT + HED@:BGHHHHHHHHHHHHHHHHHHHC=EDBGGEHHHEFGHHHHHHHHHHHGHHHHHHHHHHHHHHHFHHEHHEEGFEBE>CEFHHHHGHEFC@D>)5D@ @read_150_416/2 GCAAATGAATAAGCAAATTATGGCATTTCCACAAAATGGAATGACACTCAGAGATGAAAGGAATACACTATTGATACAGACAACAGTATGGGCAGATTTC + HHHGEBCEEGGHHHHDHHF8>3(8?HHHGHHHHHGDHHFFHHECBC5DEEFFHHFHHHHHBDDGDGHHEHHHHHHEEE?GFHHF:-388861,=FFEFBA @read_150_417/2 ATTATAGATAGGTGTATACACACAGGTCAGCATATTTCCAGGTTCTGTCAGCTAGGAGCCCATAGAAACAATGATGCCTCAGTAACAATGAGCATACATG + HHDA@=B/66*A.>>C;A?@FGGHHHHHHHHHHC+:<-8)11?EHEA @read_150_419/2 CTACAATGTGGTCACTGATGACTTTCAGTTACAGACAAAGTTCATTTTACTTTCCCAATCTAAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATC + HHHHHEEB8=BHHGC4>;.39>CD=*BHG=:BEEG@D5>=CA@<7EDCFFFGFFFHHHBAGGH=D@FHHB=DD?EGGHF=:>.39=ECCFHHHHGHHH;@ @read_150_420/2 TTGCAAGTGGAGATTTCAGCCGCTTTGGGGGCAATGGTAGAAAAGGAAATATCTTCGTATAAAGACTAGACAGAATGATTCTCAGAAACTCCTTTGAGAT + FFBGGGGF==.75,98@BHEHHHHHHHHHC',DB@@FFEEFHGGFFHHHHHHHHFHGHHHHHHHHFFGEHEHEGEEC9>=:@BFF@>EFFHFHE<.0%)1 @read_150_421/2 AGAGGTCAGGAGATCGAAACCATCCTGACTAACACGGAGAAACCCCATCTCTACTAAAAATACAAAAAAAAACTAGCCGGGCGTGGTGGCGGGCGCCTGT + HHEEGGGFGHHHHEGHHFFFD8,=55<-;CGHHHHHCCEFHE=0.35?==DDGG@>:352FGGGHHHDHHFHHHFFFFEHHHHHFFGHCGGEE@FHHEFF @read_150_422/2 TTTGGTAAGTAGTGTTCTTATTTTCATTAACTTCAAATTTTTTTTATGTATGTCCTAATTTTGATGTTCATCCAGGAGTTATTCAGGAGTAAATTGTTTA + HHHGG?>@FGHHHFFHHGHHHFB=>07;/A,9<67HHHHHHHHFFDDBGGFFFGDEGHHGEFBBB7:;0,:.6@+,-:>6GFGFHHHFHFGD@9,7<>)>?CF @read_150_424/2 GTGGCTTGGGAATTGGAATGCCGGCCTAACTCCAAAGCCCACACTCTTAAAACCACTGCGCTGGGTGGCTGCTCCTGCCGAGCGCTCTCTGCTCCCAGAC + HDE@BHHHHHGGEEHHGHHHG@BEHHHHHHHHHFDDDA.:-49<-ABB=FBFHEGECFHFHHHHGGFHHBBD85>EEHBABDFHEECHFDEEDGDEGFEBBFFHHHEEEG @read_150_427/2 CTTTGAGTTTTTTATTGTATGCAGTAAATGAGATTCTAACCAGTAAAATGCCAAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTC + HHBHHHHHEEGE?@)'9)BHHHHHHHHHHHHHGGFGHHFGHHHFFHDGHHHEHHHABG83.??@HHHHFHHHFCBFEGDHEGGGEGF?ADDDHHHFFFG? @read_150_428/2 AGGAGACATTACCACTGATACCACAGAAATTCAAAGGATCATTAGTGGCTACTATTAGCAACTATATGCCAATAAACTAGAGAATCTAGAGGTATGGATA + HHHHHHEHHHHHHHHFGHHHHHE27EEBHHHHHHHHHHHFHFHHFHFGE?FFFHHHFGFHFHHGHHFHHHHEGHHHHEHHHDEDDFF@A?EHHHFHHHHF @read_150_429/2 GCATGGCATGCCATGTTGGAGGTGGAAGGGGGCACTCTCTTCTCATCCTGTCTTCTAAAAAACAAAACCAAAACTCATCTATTGACCCACTGGCTAAGAA + HHHHHHHHHF@2<=@@DD?:6GGG;<.83CDEEHHHHHHFHD0CACA7B@:EECBGHHH..6>:>@AEHHHFGHF@EECFEHHHHHHHHHHHHHFGG<><@CBE;B=.DEHHHHB:--+2EHHHHHHFGFDDBFEFEECFFEFD/C@A @read_150_431/2 CCTCTGAGACATGTCTCCTGGATGTCCCACTGTACCTCCAACTCAACACGTCCAAGACAGAATCTGCTATCTTCCCCCAAGTGTGTTCCTCCTCCTTGAT + HHHHEFHHH=B@FHHGFHHHHHHECHEFDEEHHHEHHHHHHHHHHHHHFEHHHHHHHHHHDGG=>GFHHHHHEEHFHHGHFGFGACAC>@EBFHHHHHHH @read_150_432/2 TGATTTACCGAAGCCTAAGCGTCTAGATTGAATGGGGAGAAGCAGATCAGAGGATATCATTCCACTACAGTAGACACCCTTATCTATGGGGATATGCTCC + DDDGGHHHHHDDCGFEEEEHHFFEEEHHHHHHHHHHFDGFFFFEEFHHHHGGGHHHHHHHHHHBHHHHDEHHHHHFHHHFFHHH@;:;C/*8>:?7,4:A @read_150_433/2 ACATTTGTGAGCACTCACATGGGATACAAATATCTTTACAGTTTTTGATCACTCAGAAAGGTCCATCCACATACCTCTTGCCCACATTTTTTCATCACCA + FBHHHHHHHHHHHHHHHHHHGGEHBHHHHHIGHHHHHHFFHHHED;D;6:BD@EFF?GEGFE @read_150_437/2 TCTCACAGGACTTAATGGCTTCACTGGTGAAGTCTACCGAACAATTAAAGAAGAATTAATGCTAACCCTTTTCAAACTCTTCCAAAAAGCTGAAGAGGAG + HHHHHHHHHGDD8GE=CBDDEEEHEGGEBG;EFFEHEHHHHHD?:>DFFFHHHHHHHHFHHHHFF?FFHHHHHHEHEFF??7>A;DEFFHFFHEHECCFF @read_150_438/2 TTTTCAACTTCTGCCCTATTGACATTTTGGAATGGAGAATTCTTTGTGTTGGGGGCTGTCCTGTGCATTAGAACAGGTTTGACAGCCCACTGACTTCTAC + HHHHHHFDDEHHFGGGHHHHHHHHHHFEBB8DEEEHHHHHHHEHHHHHHHEHHHHHHHHGBADECE=FHG?@'(,.6.=B;-:.(0H@8AB4<4C<>@=<5>5<:BFFFDEB@:6@DBE?FHHHHHHHHEG=@@HBBDFBEDADHHHFGDHHHFEGHBEHHEEE @read_150_440/2 TTGGAATGAAAACCTCAGTTTAGAGTAAAGCATGTCTGCGCGCTCCAGTTGATTTGCTAGTCCCCACCCTGTGCAGTAATATCCTTAGAAACATTGACAG + HFHHHHHHHHHHHHHHHHHHHHHFHHHHHGGHHHBFF@?@DDDFHHHHEHHHHHFEHDGGHHGF<C@<79>578-9DBCCFFFE/&(/6<, @read_150_445/2 CCTGGAAGTCACGCTGATTTAAAGAAAAAATAAATACAACTTTAGTCTAGCTCTGCAGGCTCTACTGCTCCTTTGTGCCTGTCCTCTGTAGGTACCTCAT + HHHHEEEEGHHHHHDEHHDBDEFHGE?HHHHHHHHHHHHHFEDE@EFEHHFFCHHGEEGGEFGBHHHHHHGHH:GFG>CD>CEGFBEB/,;5;><.9:;@ @read_150_446/2 TGCTGGGATTACAGGTGCGAGCTACTGCACCTGGCTACCAAATGTTTTTAATCTAATCCTTAGAAAGAAATACTTAGGAGAGCTACTTTATGAATATATC + HHHHHHHEEHHHHHHEEEEHHHHHHHHHHFHHHFHHHCHHHHHDGHHHHHHHHHG8A4;HHHHDGD??EGGGEBFE5@@/3;A@;;BHHHFEBF6ECFHHFHHGHHHHHFHHHHHFDBEHHHHBFIGHHHEEC;HHHHGDFEHDFHHHHHE@/...<;?FDHB7BFHHHFEDFF?C9 @read_150_448/2 CTCAATATTAATTCTCACTCTGCCCCCAGCAGAGGGATTTTGTTTGTTTTTAGAGACAAGGTCTCACTGTGTTGCTGGTCTGGCCTTGAATTCCTTGGCT + >><<<;<3@@@=D<:;FDDEHHHFHHGHHHHHHHHHGFIGDHHEG?DA+>7EFAEE>6&0A?GHHHF@CDGEBCG= @read_150_450/2 AGCAGCTGGATGACCTTCATGGGTGTCCATTGCCCTAGCTTAGTGACCCTACCAGTGCCTGGACTGGTTGTGTATAGGCTGGAGGGGACTCTGTGTCTGG + HHHFFFHHHHHHHHHHFHHHHDCGGFFGG;DFFFEGFGFHHHHHHFGEEEHGGHE;DDB8.86A<33,B9BHHHD6.A5EHFECB?@DDDCEHHFDGFHH @read_150_451/2 AAGGAGTATGTTTGTACTTTTCTCAGCTCCTACTACAGGATTTGCCACATGGTGTTTAATAGAGTATTTGTTAAATTGCTAATTGACTTGTATATGGAAC + BCB=?;=EHHHHHHHHFFHHHHHHHHHHHHHHHHHHHHHHFHHFFBFCDIEGDEHHHHBGHHHHFBBCDD@C7<>=@DDAD2.59::@BEGFEBFEFDFH @read_150_452/2 AAGCCAATGGGGAAAAATTTTATTTAATTTTATGCTTCACATTCATATCATGTACATTAAAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTC + BHHHHHHHHHHHHHHHHGGHHGGEHE@HGHHFGFE>1:EBHHHHFEAEGHHHHHHHHHHHDBCGD=EHFD9?EEGHDICEGHHHHDFDHHHHHFFBEEFH @read_150_453/2 GGGCTTCCTGGCCTCCCCTCCTTTTGTTCTAATATGAGATTTTCAATCAGGTGAATCCTGTCTGGAGTAGAGGATGGGATATGTAAAACACCTGCAATGC + HHHEFEGGFHHFFDDFHHG/(01)2=<>DHHHHHGEGHHHHHHHHHHHHCEE@@76>BGBGDDBDFGB>>D9;;7DHHHHGHHHHHHHHHHEFHD>;:,6 @read_150_454/2 ACTTTTGAGAGTTCTTCCTGTATTTGGATACAAGTTGTTTATCAGTTATATGTTTTGCAAGTATTTTCACTTTTCTGTGCCTTCTTTTTATTCTAGATCG + .,.@B/<@B8<=@CBDFFHEBB:6+))6<=@HHHEDGHHGGAGFEEGGGCD=.5--%,,5:--1 @read_150_455/2 GTTTCACCAAATAACTCATTATAGCCAGAAGAGGGTATTGCTTCTTTCATTTGTGGCACTAGATAGGGCCCTATGTTTTTCACTATTTAGTATGTATACA + HHHHGFFDCEFHHHGHHHGGHHHHHHHHFHHFEFHHHHHHHB>E<@DEGEB/1419:<7DCD:CBC.:2E@@878BEGGGHHFAHHHHB:52(4:>E>GF @read_150_456/2 CTGTTATAGTTAGGTTTGTGGGTTCTCTTTTCTCTATTCATCTTCTATTTCTCTCTCCCTCCAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATC + HHHHHHH=E@BEBEABEHHHHFHHHHHHEHHHFHHHC+>,:*346@D9AAEEGGGHHFC@EDAA6+?@FD<@D@<86:DCFGHHHFFEF?GHHHFHHHHE @read_150_457/2 CTATGACACGTACAGAACAAAACATCCAGGTCAAAGCGGAGGGATGTAGAGCCTGGGGAAAGAGGTCTCCTGGGCAAAAGGGGGACTTCCTAGAAAACTT + HHHHHHHHHHHHHHHHHHHHHEEEHFGGFGHHF8FHHHHHBFFFHHHHFGEFGEEHHHHHHHHHHHHEFGGFABGFDFC?A5675DDACB@EF6CA98;: @read_150_458/2 TATTTTTGTACTTACCACATTGTATAAGTTTTGCTTCTACCTCTGAACTCTAAGCATGTATTTTGTCTTATTTTGTACTTCCTATACCTTGTACAGTATT + HHHDEGGHHHHHHHHHHHHHHFFBFHHGFHBGFFHHHHHHHEE5%,4(DEGEEGFHFIHHHHHEEGBEFGFHHEHHHHHEGBEB=.D/?CFA56'>87@/ @read_150_459/2 TGGCCTCAGCCTTTAGAGTAGCTGGGACCACAGGCGGGCACCATTATGCCTGGCTAATTAAAGAACTTTTTTTTTTGGTAGAGTCAGGGTCTTGTTGTGT + HHHHHHHHHHHHEGGHDEEHHHFHHHGFHHGA?=)5'2AAG>FEE?EGFHHF?AED5)26+4 @read_150_460/2 GCTGAAGTACTTAGGATTTGTCCAGAAAATAATTCCCAAGGGAAGATGGAGGATGAATTCATAAATATAATCATGTCCCTTTCTTTTCATCATCCTTCAC + HHHHHHHHHHHHHGGDDAAGHGEEHHGIGHHHHIHHHHHFFHFD9=;.*1FGGHHHHHHHHHHFFHHHHFHFDDD;GEHFHHEDCHFHH>EEEEADDB58 @read_150_461/2 ACTATTTGTTGAAAAGATTATTTTCCCCCATTGAATTATCTTGGTAGTTTGTTGAAAAGCAACTGACCAGATATGCCTGGGTCTATTTCTAGATCGGAAG + HHHHHHHHHC6>BF@GGHHHHHHHEADGHHHHHHHGBEHHHEGHHHH@DDGHHHHHHHHF8EGGHHHHGIHBBBHHDCFB46A7BGGGFHGEEAC.5851 @read_150_462/2 TTTTAAAAAATCAAACCTAATTGCCAAAATCTGATGTTTACACATAGTTAAGAAAAGAAAGAGCTAAATTGATTTTAAACGAGAAAATAATGCTTTGATT + HGGGGC<4>DEEGGHHHHHHHHHHHHHHHHGE6+;GCEFFHHHEBDC;=HGFGGFEHHHDD<4GEGHHHHHHGHGFFDE@:8DFF=C??D1+7DD=EGFF @read_150_463/2 GGGGATTTCAAGGACCTCCCTCTGCATCCCCACCTCACACTCTTCCAGTAAACCCAGTCCCCCGGACTGCCAGACTACAGCCTACCAGGAGTCTCCGCGC + HHHHHHHHHHHHHHFHHHHHHE8FHHF6:?D@FGGHHHHHHHHFHHHD8=FGHGFC=DGGHHHC?18=7FFEE@EFFEGGH<6,*;.DHHHEEBFDBADG @read_150_464/2 CAGTGCCCTGCAATGTGCCTGGCACATTTGGAACTCCCAGAGAGTTTTTTGTTGAATTGAACTGGTGGCCAGATCGGAAGAGCGTCGTGTAGGGAAAGAG + HHHFHHGFHHHHHHE;?>GBDFHHHHHHHHHEFGGDHHHHHFGGBECAHHHHHGIFGBED@6:60,/+2,A;CE7(9<<:EGFGB9- @read_150_465/2 CTCAGTGAGATGAACCAGGTACCTCAGTTGGAAATGCAGAAATCACCCGTCTTCTGCGTCGATCACGCTGGGAGCTGCAGACCAGAGCTGTTCCTATTCA + .66:@B>>BEHHHHHHFHHHHHHHHHHHGFGEHEBGFFD@FD9EEHFFAA:DDC?=6GEEBEEEHHHHEGD@@@45.;1*7CDF5EEECCEEGE4C@/'3 @read_150_466/2 CATCCTGATATACCTAGGACCTACCTACATTTTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAA + HHH=GHHHHHHHE+EACGGGGE;>79?@CEB/BGHHHHHHFHEGGECDAHHGEGGEHHHHHHHHHHHHHHHHHHFDC?DB?GFDGHHHHHHHDFD?E<@) @read_150_467/2 CTCCAGAGAGCCCCTCAGATTCTTTATTGATTCATCATCTTCAAACACCAGAAGGACTAATGGAGAAGCAGAAACATCTAACAATCAACCAGTTGTTCTG + @@EGFHHHHHGEEB@HGHHHHEHHDHHHHGEIGEEEHHHHHHHFFDD<.@*3689E65DAEBD>>4GFHHGFF4&:DBEGGGHHHHHHED5@FDFFHFHHHHFE @read_150_469/2 CTCCTGCCTCAGCCTCCCGAGTAGCTGGGACTACAGGCGCCCGCCACGACGCCCGGCTAATTTTTTGTATTTTTAGTAGAGGCGGGGTTTCACTGTGTTA + HHFC@=EBDEGHH@A@CCDDHHHEEEE*:<@@BGFAFCGFHFHHFHFHHHHHHG8<4(34362-EFBE;A.@ @read_150_470/2 TGGCAACTTCCTCACTCGCCGCTGGGCCAGGATGGATGACTCGATGGGCTTCAGCTGGGGGGTGGGCTTGGAGCTGTTGAGTGCGGAGTACGTGGCAGCC + HHHHHHGGHGHHHFEEFF:BCB=36>B587<=>-63-4-0><36?=EGCC,@@>?FB>BFFHHFDFEEHFE<9AECCA @read_150_472/2 AAAGAGGAATGGGCAGAGATCAACCCAGACTATGAATATTAGATTAAATACATAATTATTTAACGTGCAGACATCAACATGCATCCACATCCATCAAGAA + G=CBDEGGBGHHHHHHGFGGFBEHHGCHB59@74>A*,,1:9><-@GHHHHHHHHHHHHHHG=EC24.-BEHHH86A@BEEHDHHHEDCAD8&-11399A @read_150_473/2 CAGCTCTGGGGTGGGGGGCCTGGCCCACCTAACTGCTTCCATGGTTGAGGCAGGAATGGGAGCATTGCTTAGAGTGCAGCAAGAGGCTGTGTCCATGGTT + GGFDHHHHHGDEE@72:/.09496<+36@@845FFGGDFGHHGHHHHB@@5>>=>BFEHHHEFD<@BFEEDFF@/2<<;75=6EE4+ADE7----(,3': @read_150_474/2 TCATATACTATGAAAAGTAGTTTTGTTTTTTTTTTTTTTAGCAGGGCATGGGGAACCAATGAAGAATTTAAAATAATAGGCCGGGCACAGTGGCTCACGC + HHGEHHGHHHHHHHHHFDEBCFFGGHFHGHHHB@;4*&67=FHD7@DHFFHHHDDEEEHHHHHHFHHHHHHHGGGC22)>CGF=@FFEGHHHFDCD.=A@ @read_150_475/2 GCTAAGTGGAAATTTATAGCACTAAATGCCCACATCGAAAAGCTAGAAAGATATTAAATCAACACCCTAACATCACAACTAAAAGAACTAGGGAACCAAG + HHHFGHHGGGGCDD?BGFHHHHHHHHFHHHHHCCD6B<<15@EBHHFFHHGGGGGHGFHHHHHHGEDEHFDHHHHHFHHHGD9;4*.>;5'73/9>57;1 @read_150_476/2 GTAAAATGATCTTTATTTGCAATTTATATAATTGTGCACAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTACA + GFGFDGFHHHHHHHGHFGFHHHHE@CFFHGHHHHEEECDEHGFHHGHFHHHHHHHHGG<-5,)8CGEEHHEFFIGDCDDCFEECEHE@FA9GF8E*4<.- @read_150_477/2 TTAACTCTCCAGCTGTCTGCAGTTTCTATGGATCCATCAACCATCCTTCTGACATTCCTTTTAGTGCAACACTAAAATGGCCTGAGCCTCTGCAGGTGTG + HHHHHHHBHHFGG=CGGDCBHHHHEG8DHHHHHHFFGGC8+1=DGEEHHHHHHHHHG@1;EE?7DEHHBFGHHHHFHH8>DBEHHHHBDDCFE9:6>EEF @read_150_478/2 TACTTACAATAATGACTAATAAAGATAATAGGACATACCTCACCAACTAGGGGGTTAATTCAGAGATTCAGTAACACATTGTATAGACAGGGGACTACTA + HHGHHGHHHHHHHHGGHHHHEFHFHHHHHFHHDFFFHHHHHHHHHHGHE@4*2(((08EE@@DFHHHHHHFGEHHHHF7EGGGGGGHHHGGHHF@<;BHH @read_150_479/2 ACCTGTCTAGTGCTGTCAGTGGAGTATTAAAGTCCCCCCACAAATGGACTTAACATTTGTTAAGTGATTTATTGTTAACAAATGTTAAGTCCCTTAGCAA + HHHHHHHGGHHHHHHHHHHHHHHHHHGHHHHHHFB=?;ADFFGGHGGFHHHHFFFDCEHHHE@D@GDGGIHHHDFFFB485EHHHFHHGB8>,DEBFE2- @read_150_480/2 TATTTTTTAAACTTTTTGTTAAAAGTGAAGACACAAACACTCACATTAGGCTAGGCTTACAGAGGGTCAAGATAATCAGTATTACCACTGGAAGGTCTCG + IFHHHHHHHHHHHHHHHHHHHHBEEEEEEGGEHFDHEFDHHFFEF @read_150_483/2 AAAAAGTACAGTAAAAATACAGTATTATAATCTTATGGGACCACCATCATAAATGCAGTCAGTCATCGACTGAAATCTCATTATGCTGCCCATGACTATA + HHHBE@EHHHHHHHHHHHHHHHFFHHHF==HE8FGHHFHEFEBFBDCBBHHHHFHFGHHHHHHHHHHHHGCGGF738FFGHFHHAGFHGGFG9=A:??AG @read_150_484/2 CTGGTGTTACTGAGAACTTTAAGGCACTGGCCTGTTCCTCCACTCCTATACATCCCCCAGTTGGGCCTCTTGGCATCGCCTTAATATCAAGATAAGATCG + <;DHHHHHHHHHHHHHGGGGGBGCHHHF@=EGHHHHHHHHHHHHHFFDDDEFFFFFH=7>:GHHHHHHFHHHHHE>7,/;@95CDGHFHHFEFFFFB77@ @read_150_485/2 CTTATGGGGACGCTTTCAAGATGAATAGGATAATGCATGTATCTCCCATAGCCCTGCAGCCTTATGCTTCATCCTGTCAGTGCAATCTTTTTAGGCAGGG + HHHFGHHHHDECBFDFGFEEHHHHHGFHHHHHHHHHGEEEDCEHHHFFF @read_150_486/2 GCGGGGCTGGGGGGAGACTCAGGCAGAATTGTGAAGATATTCAATTGCTCCTGACTTTATCAATAATCTAACATTTCAACCTAACATTGATATCTATTTT + HHHHHHHHHHHHHHHHHHHHHHHHHHHH?AGEGHHFHGHHGHHHGD??B=EEHHGEGGEFCCB>,15793<*15FFFEFH9@@DBD9->@BCEGFHHHHHHHHFDBHHHHD@:9?/;A2:@.=@;D=D>8@555=BHE @read_150_489/2 AGCATATTTCCCTTCCACACTGTGTAGATATATAATACGGGGAACTGAGAAATAAACATGAAAAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGAAGAT + DEHHHHFHHHHHBHEHHFCC<.@C8CDGGGHHHHHHHHHHHA9<>?CFEFEEFGGHHHHHHGGFHHGFHHHHHHH8GHEBADDB?@C9EGHH:6A%'1>B @read_150_490/2 TTTCAAGTGTCTTTAATACTCAACATAGAAGGTTTTTTTTTTTCCTATGTAAAGCCAGGCACATCAATAAAACTCTCCTCAGTGAGATCGGAAGAGCGTC + HHHHHHHGGHHGHDDHHHEHFHHHHHHE8EFFFEGHFBEFHHHHFHGGGDCBEHHFGHFEHHHHHHED@GHHD=CDDEADEGHHF85.=ACFFFHGFD@? @read_150_491/2 TCCAGAGTGAGGGAATGCCTCGCCCTGCTTCGACTCGCGCACGGTGCGTGCACCCACGGCCCTGCGCCCACTGTCTGGCACTCCCTAGTGAGATGAACCC + HHHHF=FEEGDEGHHHHHHHHHGBDBGGHHHEEEFC=EAFHFHFHGHFEFHFGCEFB717;9:>EFHHHHHHHHEGDGFFHHHHHG@AGE?B7GHHFE3< @read_150_492/2 TCATCAAGGTGTCCAAGTTCACCAGGCGTGGTAGCTCGTGCCTGTAATCCCAGATACTCGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGAAGTTATC + HHGGHGHGHHCD@FHHHGGHHHHHHHHDE9:>6=AEEHHFHFFHFDFFFFGGGBHHGHHHHHHFHHHHEE@D=EDEG9:.@=@.*8.8F8:&-2-&158: @read_150_493/2 TCCTCCTTACTCTACCATTGCACTGCTAAGTAGGCTTTTATTTTGCTGTATTTGCCACCTTTAAAATTTATCCTTCGCATCGTAGTCATAACAAGTGAGG + FHHHGEBEHHHHHHHGHHHHHHHHHHGGGHHHFFDHHHBFFHHHHHHHEFHHGHHHHGCECAGGHHHHHHFHHCEEEFFFBFGE2:?C@@?FFBEC==?? @read_150_494/2 TTCTCAGAACCTGGCATCCGCCAACCTCTCCAGCTTTTGCTTTCTTGTCTGTGTCCTTTAAGCTCCTCACTGCCTGGAAGATGCCCCGTTTTTCTCTCTC + 9-8CDFBBBE?IGEEHHHHHHHHHEFHHHHHGG>9,;84+790AHEHDBHHGHHHHGHHHFC8>9DD?@A<@CDCAHHHHHHFBDHHCABHCA*4ACDBD @read_150_495/2 CCTTGACCTCTTGAGCTCCAGTGATCCTCCCACCTTGGCCTCCTGAAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTAT + HHFIGHHHHHHHHHHHHHHHHHHHHHEBBCHHHGFFHHHHEED=6C@FGGGBEGBCCDEEFHHFFHHHGGGGEBECHDGHHHHHHHHEHFHHHBHHHHBHHHFFDC0CEFHHHHHHAA @read_150_497/2 ATTGCTTGATATGTACCACAGATTGAGGTACCGACCTCAATGTACCAAACACACCTGCAAATGTGGTTGGTAACCACCTCAAGATAAATGAATCCAGTGT + HHHHHHHHHHHHHGBBDGFHHHHHHGHHCB@68ABDFCGHHE:7<55;.5:;@BCHHHHHHHHHHHHCEHD8DHFHFHF=;@D;7?FHHFBEFEHHHAE? @read_150_498/2 ATTCTGAGATTTTAGTGCTCCTGTCACCCAAGTAGTGTACATTGTACCTAATATGTAGTTTTTTTATCCGACACCCCTTCCACCTTCCCACTTCTGGCTC + HFGHHHHHHHHHHEFGGF@FHHHDCA>GGGCDEHFHHGFHHHHHHHHFHF?.EEE=CCDGHHHHHGGGFHHHHHEHHH@HFHHFBE<=@>08><.::*4; @read_150_499/2 TTCTTTTAGGGTGTGTCTCTCCTTGGAGAATGTGTTCACATTCATTTTCTATATGGCGCTACTTATTTTGAAATTCTTCTATGATTTGATATAAATGGAC + HHHHHHHHEHGFEFHHHHH>GFHA6CDBHDHHE88CAHHHHDGD=@..7ECGGGHGB8>?BEEFHHGGFCCGGFDE62@>=DBBAFHFHFFGHHHHEFF6 @read_150_500/2 ACAGAATGGGAGAAAATATTTGCAAACTAGGAGGGGAACAACAGACAAAGACTTAATGTCCAGAATCTATAAGGAACTTGAACAAATTTACAAGGAAAAA + EHHHHGDGEEGHHHHHHHHHH@@BEAHHHHEBFHHHHHHHHHHHEHHHHFHHHHHHHFHHHGFDHHGGE>B@?GHFE?ACEHHHHFDHHH<59FFEF. * \*************************************************************************/ #include #include #include #include "adapterset.hpp" #include "debug.hpp" #include "linereader.hpp" #include "strutils.hpp" namespace ar { typedef std::pair named_fastq_row; typedef std::vector fastq_table; typedef fastq_table::const_iterator fastq_table_citer; bool print_parse_error(const std::stringstream& message) { std::cerr << "ERROR READING TABLE:\n" << cli_formatter::fmt(message.str()) << std::endl; return false; } std::string trim_comments(std::string line) { const size_t index = line.find('#'); if (index != std::string::npos) { line.resize(index); } return line; } bool read_table(const std::string& filename, fastq_table& dst, size_t min_col, size_t max_col, bool row_names = false) { AR_DEBUG_ASSERT(min_col <= max_col); AR_DEBUG_ASSERT(min_col >= 1); size_t last_row_size = 0; size_t line_num = 1; try { line_reader adapter_file(filename); for (std::string line; adapter_file.getline(line); ++line_num) { fastq_vec row; std::string name; std::string field; std::stringstream instream(trim_comments(line)); for (size_t index = 1; instream >> field; ++index) { try { if (index == 1 && row_names) { name = field; } else { row.push_back(fastq("sequence", field)); } } catch (const fastq_error& error) { std::stringstream message; message << "Failed to parse sequence in '" << filename << "' at line " << line_num << ", column " << index << ": " << error.what(); return print_parse_error(message); } } if (name.empty() && row.empty()) { // Ignore empty lines, e.g. those containing only comments continue; } else if (row.size() < min_col) { std::stringstream message; message << "Expected at least " << min_col << " columns in " << "table '" << filename << "' at line " << line_num << ", but only found " << row.size() << " column(s)!"; return print_parse_error(message); } else if (row.size() > max_col) { std::stringstream message; message << "Expected at most " << min_col << " columns in " << "table '" << filename << "' at line " << line_num << ", but found " << row.size() << " column(s)!"; return print_parse_error(message); } else if (last_row_size && last_row_size != row.size()) { std::stringstream message; message << "Error reading '" << filename << "' at line " << line_num << "; rows contain unequal number of " << "columns; last row contained " << last_row_size << " column(s) but current row contains " << row.size() << " column(s)!"; return print_parse_error(message); } else { last_row_size = row.size(); } dst.push_back(named_fastq_row(name, row)); } } catch (const std::ios_base::failure& error) { std::stringstream message; message << "IO error reading '" << filename << "' at line " << line_num << ": " << error.what(); return print_parse_error(message); } return true; } bool check_barcodes_sequences(const fastq_pair_vec& barcodes, const std::string& filename, bool paired_end = false) { if (barcodes.empty()) { return true; } const size_t mate_1_len = barcodes.front().first.length(); const size_t mate_2_len = barcodes.front().second.length(); string_pair_vec sequences; for (fastq_pair_vec::const_iterator it = barcodes.begin(); it != barcodes.end(); ++it) { const std::string& mate_1 = it->first.sequence(); const std::string& mate_2 = it->second.sequence(); if (mate_1.find('N') != std::string::npos) { std::stringstream error; error << "Degenerate base (N) found in mate 1 barcode sequence '" << mate_1 << "'. Degenerate bases are not supported for " << "demultiplexing; please remove before continuing!"; return print_parse_error(error); } else if (mate_2.find('N') != std::string::npos) { std::stringstream error; error << "Degenerate base (N) found in mate 2 barcode sequence '" << mate_2 << "'. Degenerate bases are not supported for " << "demultiplexing; please remove before continuing!"; return print_parse_error(error); } else if (mate_1.length() != mate_1_len) { std::stringstream error; error << "Inconsistent mate 1 barcode lengths found; last barcode " "was " << mate_1_len << " basepairs long, but barcode " << (it - barcodes.begin()) + 1 << " mate 1 sequence is " << mate_1.length() << " basepairs long! Variable length " "barcodes are not supported!"; return print_parse_error(error); } else if (mate_2.length() != mate_2_len) { std::stringstream error; error << "Inconsistent mate 2 barcode lengths found; last barcode " "was " << mate_2_len << " basepairs long, but barcode " << (it - barcodes.begin()) + 1 << " mate 2 sequence is " << mate_2.length() << " basepairs long! Variable length " "barcodes are not supported!"; return print_parse_error(error); } sequences.push_back(string_pair(it->first.sequence(), it->second.sequence())); } std::sort(sequences.begin(), sequences.end()); string_pair_vec::const_iterator prev = sequences.begin(); string_pair_vec::const_iterator curr = prev + 1; for (; curr != sequences.end(); ++prev, ++curr) { if (prev->first == curr->first) { if (paired_end) { if (prev->second == curr->second) { std::stringstream error; error << "Duplicate barcode pairs found in '" << filename << "' with barcodes "<< prev->first << " and " << prev->second << ". please verify " "correctness of the barcode table and remove any " "duplicate entries!"; return print_parse_error(error); } } else { std::stringstream error; error << "Duplicate mate 1 barcodes found in '" << filename << "': "<< prev->first << ". Even if these " "are associated with different mate 2 barcodes, it " "is not possible to distinguish between these in " "single-end mode!"; return print_parse_error(error); } } } return true; } bool valid_sample_name(const std::string& name) { for (const char c : name) { if ((c >= 'a' && c <= 'z') || (c >= 'A' && c <= 'Z') || (c >= '0' && c <= '9') || (c == '_')) { continue; } std::stringstream error; error << "The sample name '" << name << "' is not a valid sample " "name; only letters ('a' to 'z' and 'A' to 'Z'), numbers (0 " "to 9) and underscores (_) are allowed."; return print_parse_error(error); } if (name == "unidentified") { std::stringstream error; error << "The sample name '" << name << "' is a reserved name, and " "cannot be used!"; return print_parse_error(error); } return true; } bool check_sample_names(const string_vec& names) { if (names.empty()) { return true; } for (const auto& name : names) { if (!valid_sample_name(name)) { return false; } } string_vec sorted_names = names; std::sort(sorted_names.begin(), sorted_names.end()); string_vec::const_iterator prev = sorted_names.begin(); string_vec::const_iterator curr = prev + 1; for (; curr != sorted_names.end(); ++prev, ++curr) { if (*prev == *curr) { std::stringstream error; error << "Duplicate sample name '" << *prev << "'; combining " "different barcodes for one sample is not supported. " "Please ensure that all sample names are unique!"; return print_parse_error(error); } } return true; } /////////////////////////////////////////////////////////////////////////////// // Implementations for 'adapters' class adapter_set::adapter_set() : m_samples() , m_barcodes() , m_adapters() { // Default name if no barcodes are used m_samples.push_back("main"); } void adapter_set::add_adapters(const std::string& adapter1, const std::string& adapter2, bool adapter2_read_orientation) { fastq adapter1_fq("adapter1", adapter1); fastq adapter2_fq("adapter2", adapter2); if (adapter2_read_orientation) { adapter2_fq.reverse_complement(); } m_adapters.push_back(fastq_pair(adapter1_fq, adapter2_fq)); } bool adapter_set::load_adapters(const std::string& filename, bool paired_end) { fastq_table raw_adapters; if (!read_table(filename, raw_adapters, paired_end ? 2 : 1, 2)) { return false; } for (const auto& row : raw_adapters) { fastq adapter_5p = row.second.at(0); fastq adapter_3p; if (row.second.size() > 1) { adapter_3p = row.second.at(1); } m_adapters.push_back(fastq_pair(adapter_5p, adapter_3p)); } return true; } bool adapter_set::load_barcodes(const std::string& filename, bool paired_end) { fastq_table raw_barcodes; if (!read_table(filename, raw_barcodes, 1, 2, true)) { return false; } m_samples.clear(); m_barcodes.clear(); for (const auto& row : raw_barcodes) { fastq barcode_5p = row.second.at(0); fastq barcode_3p; if (row.second.size() > 1) { barcode_3p = row.second.at(1); } m_samples.push_back(row.first); m_barcodes.push_back(fastq_pair(barcode_5p, barcode_3p)); } return check_barcodes_sequences(m_barcodes, filename, paired_end) && check_sample_names(m_samples); } size_t adapter_set::adapter_count() const { return m_adapters.size(); } size_t adapter_set::adapter_set_count() const { if (m_barcodes.empty()) { return 1; } else { return barcode_count(); } } size_t adapter_set::barcode_count() const { return m_barcodes.size(); } fastq_pair_vec adapter_set::get_adapter_set(size_t nth) const { if (m_barcodes.empty()) { AR_DEBUG_ASSERT(nth == 0); return m_adapters; } fastq_pair barcodes = m_barcodes.at(nth); barcodes.second.reverse_complement(); fastq_pair_vec adapters; for (const auto& adapter_pair : m_adapters) { fastq adapter_1("adapter_1", barcodes.second.sequence() + adapter_pair.first.sequence()); fastq adapter_2("adapter_2", adapter_pair.second.sequence() + barcodes.first.sequence()); adapters.push_back(fastq_pair(adapter_1, adapter_2)); } return adapters; } string_pair_vec adapter_set::get_pretty_adapter_set(size_t nth) const { fastq_pair barcodes; if (m_barcodes.empty()) { AR_DEBUG_ASSERT(nth == 0); } else { barcodes = m_barcodes.at(nth); } string_pair_vec adapters; const fastq_pair_vec adapter_pairs = get_adapter_set(nth); for (const auto& adapter_pair : adapter_pairs) { fastq adapter_1 = adapter_pair.first; fastq adapter_2 = adapter_pair.second; adapter_2.reverse_complement(); std::string seq_1 = adapter_1.sequence(); std::string seq_2 = adapter_2.sequence(); if (barcodes.first.length()) { seq_2.insert(barcodes.first.length(), 1, '_'); } if (barcodes.second.length()) { seq_1.insert(barcodes.second.length(), 1, '_'); } adapters.push_back(string_pair(seq_1, seq_2)); } return adapters; } const fastq_pair_vec& adapter_set::get_raw_adapters() const { return m_adapters; } const fastq_pair_vec& adapter_set::get_barcodes() const { return m_barcodes; } const std::string& adapter_set::get_sample_name(size_t nth) const { return m_samples.at(nth); } } // namespace ar adapterremoval-2.2.2/src/adapterset.hpp000066400000000000000000000104351313314234200201560ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2011 by Stinus Lindgreen - stinus@binf.ku.dk * * Copyright (C) 2014 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #ifndef AR_ADAPTERS_H #define AR_ADAPTERS_H #include "commontypes.hpp" #include "fastq.hpp" namespace ar { /** * Class for reading sets of adapters and barcodes, and for generating * per-barcode sets of adapter sequences as needed. The class further checks * for the correctness of these sequences, and detects duplicate barcode * sequences / pairs of sequences. */ class adapter_set { public: /** Initialize empty adapter list. */ adapter_set(); /** * Adds a pair of adapters to the set; by default it is assumed that * the adapter 2 sequence is in read orientation (e.g. can be found as is * in the raw mate 2 reads). */ void add_adapters(const std::string& adapter1, const std::string& adapter2, bool adapter2_read_orientation = true); /** * Loads barcodes from a table, returning true on success. The value of * 'paired_end_mode' is used to set the expected number of values. */ bool load_adapters(const std::string& filename, bool paired_end_mode); /** * Loads barcodes from a table, returning true on success. The value of * 'paired_end_mode' to correctly identify duplicate sequences. */ bool load_barcodes(const std::string& filename, bool paired_end_mode); /** Returns the number of adapters per set. */ size_t adapter_count() const; /** Returns the number of adapter sets; namely 1 or barcode_count() */ size_t adapter_set_count() const; /** Returns the number of barcodes. */ size_t barcode_count() const; /** * Returns the nth set of adapters; when barcodes are specified, the * raw adapters are merged with the 'nth' barcodes. If no barcodes are * set, the get_adapters(0) == get_raw_adapters(). */ fastq_pair_vec get_adapter_set(size_t nth) const; /** Returns get_adapter_set(nth) formatted for printing. */ string_pair_vec get_pretty_adapter_set(size_t nth) const; /** Returns adapter sequences absent of any barcodes. */ const fastq_pair_vec& get_raw_adapters() const; /** Returns the (pairs of) barcodes. */ const fastq_pair_vec& get_barcodes() const; /** Returns the name associated with the nth set of barcodes. */ const std::string& get_sample_name(size_t nth) const; private: //! Names associated with barcodes string_vec m_samples; //! User-supplied barcodes fastq_pair_vec m_barcodes; //! User-supplied adapter sequences, without barcodes added fastq_pair_vec m_adapters; }; } // namespace ar #endif adapterremoval-2.2.2/src/alignment.cpp000066400000000000000000000473651313314234200200070ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2011 by Stinus Lindgreen - stinus@binf.ku.dk * * Copyright (C) 2014 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #include #include #include #include #include #include #include "alignment.hpp" #include "debug.hpp" #include "fastq.hpp" namespace ar { #if defined(__SSE__) && defined(__SSE2__) #include //! Mask representing those (sparse) bits used when comparing multiple //! nucleotides. These are simply the least significant bit in each byte. const __m128i BIT_MASK_128 = _mm_set1_epi8(1); //! Zero'd 128b integer. const __m128i ZERO_128 = _mm_set1_epi8(0); //! A 0xffff... 128b integer. const __m128i ONES_128 = _mm_set1_epi8(-1); //! Mask of all Ns const __m128i N_MASK_128 = _mm_set1_epi8('N'); /** Counts the number of bits set in a __m128i. **/ inline size_t COUNT_BITS_128(__m128i value) { // Calculates the abs. difference between each pair of bytes in the upper // and lower 64bit integers, and places the sum of these differences in // the 0th and 4th shorts (16b). value = _mm_sad_epu8(ZERO_128, value); // Return the 0th and 4th shorts containing the sums calculated above return _mm_extract_epi16(value, 0) + _mm_extract_epi16(value, 4); } #else #warning SEE optimizations disabled! #endif /** * Compares two subsequences in an alignment to a previous (best) alignment. * * @param best The currently best alignment, used for evaluating this alignment * @param current The current alignment to be evaluated (counts are assumed to be zero'd!) * @param seq_1_ptr Pointer to the first base in the first sequence in the alignment. * @param seq_2_ptr Pointer to the first base in the second sequence in the alignment. * @return True if the current alignment is at least as good as the best alignment, false otherwise. * * If the function returns false, the current alignment cannot be assumed to * have been completely evaluated (due to early termination), and hence counts * and scores are not reliable. The function assumes uppercase nucleotides. */ bool compare_subsequences(const alignment_info& best, alignment_info& current, const char* seq_1_ptr, const char* seq_2_ptr) { int remaining_bases = current.score = current.length; #if defined(__SSE__) && defined(__SSE2__) while (remaining_bases >= 16 && current.score >= best.score) { const __m128i s1 = _mm_loadu_si128(reinterpret_cast(seq_1_ptr)); const __m128i s2 = _mm_loadu_si128(reinterpret_cast(seq_2_ptr)); // Sets 0xFF for every byte where one or both nts is N const __m128i ns_mask = _mm_or_si128(_mm_cmpeq_epi8(s1, N_MASK_128), _mm_cmpeq_epi8(s2, N_MASK_128)); // Sets 0xFF for every byte where bytes differ, but neither is N const __m128i mm_mask = _mm_xor_si128(ONES_128, // This is a bitwise NOT _mm_or_si128(_mm_cmpeq_epi8(s1, s2), ns_mask)); // The oddity above is because SSE doesn't have a bitwise not operator, and // `~(some __m128i)` doesn't work on Intel compilers. XOR(thing, 0xff) // is the same, so we use that current.n_ambiguous += COUNT_BITS_128(_mm_and_si128(ns_mask, BIT_MASK_128)); current.n_mismatches += COUNT_BITS_128(_mm_and_si128(mm_mask, BIT_MASK_128)); // Matches count for 1, Ns for 0, and mismatches for -1 current.score = current.length - current.n_ambiguous - (current.n_mismatches * 2); seq_1_ptr += 16; seq_2_ptr += 16; remaining_bases -= 16; } #endif for (; remaining_bases && current.score >= best.score; --remaining_bases) { const char nt_1 = *seq_1_ptr++; const char nt_2 = *seq_2_ptr++; if (nt_1 == 'N' || nt_2 == 'N') { current.n_ambiguous++; current.score--; } else if (nt_1 != nt_2) { current.n_mismatches++; current.score -= 2; } } return current.is_better_than(best); } alignment_info pairwise_align_sequences(const alignment_info& best_alignment, const std::string& seq1, const std::string& seq2, int min_offset = std::numeric_limits::min(), int max_offset = std::numeric_limits::max()) { const int start_offset = std::max(min_offset, -static_cast(seq2.length()) + 1); const int end_offset = std::min(max_offset, static_cast(seq1.length()) - 1); alignment_info best = best_alignment; for (int offset = start_offset; offset <= end_offset; ++offset) { const size_t initial_seq1_offset = std::max(0, offset); const size_t initial_seq2_offset = std::max(0, -offset); const size_t length = std::min(seq1.length() - initial_seq1_offset, seq2.length() - initial_seq2_offset); if (static_cast(length) >= best.score) { alignment_info current; current.offset = offset; current.length = length; const char* seq_1_ptr = seq1.data() + initial_seq1_offset; const char* seq_2_ptr = seq2.data() + initial_seq2_offset; if (compare_subsequences(best, current, seq_1_ptr, seq_2_ptr)) { best = current; } } } return best; } struct phred_scores { phred_scores() : identical_nts(std::numeric_limits::min()) , different_nts(std::numeric_limits::min()) { } //! Phred score to assign if the two nucleotides are identical char identical_nts; //! Phred score to assign if the two nucleotides differ char different_nts; }; /** * Calculates the phred scores to be assigned to a consensus base based on two * bases, depending on the Phred scores assigned two these two bases. A phred * score is calculated for both the case where the two bases are identical, and * the case where they differ. * * The returned vector is inded by (phred1 * MAX_PHRED_SCORE) + phred2, where * phred1 is assumed to be >= phred2. This is because we always select the base * with the higher Phred score. */ std::vector calculate_phred_score() { std::vector Perror(MAX_PHRED_SCORE + 1, 0.0); std::vector Ptrue(MAX_PHRED_SCORE + 1, 0.0); for (int i = 0; i <= MAX_PHRED_SCORE; ++i) { const double p_err = std::min(0.75, std::pow(10, static_cast(i) / -10.0)); Perror.at(i) = std::log(p_err / 3.0); Ptrue.at(i) = std::log(1.0 - p_err); } std::vector new_scores((MAX_PHRED_SCORE + 1) * (MAX_PHRED_SCORE + 1)); for (int i = 0; i <= MAX_PHRED_SCORE; ++i) { for (int j = 0; j <= i; ++j) { const int index = (i * MAX_PHRED_SCORE) + j; phred_scores& scores = new_scores.at(index); { // When two nucleotides are identical const double ptrue = Ptrue.at(i) + Ptrue.at(j); const double perror = Perror.at(i) + Perror.at(j); const double normconstant = 1.0 + 3.0 * std::exp(perror - ptrue); scores.identical_nts = fastq::p_to_phred_33(1.0 - 1.0 / normconstant); } { // When two nucleotides differ const double ptrue = Ptrue.at(i) + Perror.at(j); const double perror_one = Perror.at(i) + Ptrue.at(j); const double perror_both = Perror.at(i) + Perror.at(j); const double normconstant = 1.0 + 2.0 * std::exp(perror_both - ptrue) + std::exp(perror_one - ptrue); scores.different_nts = fastq::p_to_phred_33(1.0 - 1.0 / normconstant); } } } return new_scores; } const phred_scores& get_updated_phred_scores(char qual_1, char qual_2) { AR_DEBUG_ASSERT(qual_1 >= qual_2); // Cache of pre-calculated Phred scores for consensus bases; see above. static const std::vector updated_phred_scores = calculate_phred_score(); const size_t index = (static_cast(qual_1 - PHRED_OFFSET_33) * MAX_PHRED_SCORE) + static_cast(qual_2 - PHRED_OFFSET_33); return updated_phred_scores.at(index); } string_pair collapse_sequence(const std::string& sequence1, const std::string& sequence2, const std::string& qualities1, const std::string& qualities2, std::mt19937& rng) { AR_DEBUG_ASSERT(sequence1.length() == sequence2.length() && sequence1.length() == qualities1.length() && sequence1.length() == qualities2.length()); std::string collapsed_seq(sequence1.length(), 'X'); std::string collapsed_qual(sequence1.length(), '\0'); for (size_t i = 0; i < collapsed_seq.size(); ++i) { char nt_1 = sequence1.at(i); char nt_2 = sequence2.at(i); char qual_1 = qualities1.at(i); char qual_2 = qualities2.at(i); if (nt_1 == 'N' || nt_2 == 'N') { // If one of the bases are N, then we suppose that we just have (at // most) a single read at that site and choose that. if (nt_1 != 'N') { collapsed_seq.at(i) = nt_1; collapsed_qual.at(i) = qual_1; } else if (nt_2 != 'N') { collapsed_seq.at(i) = nt_2; collapsed_qual.at(i) = qual_2; } else { collapsed_seq.at(i) = 'N'; collapsed_qual.at(i) = PHRED_OFFSET_33; } } else if (nt_1 != nt_2 && qual_1 == qual_2) { const int shuffle = rng() & 1; collapsed_seq.at(i) = shuffle ? nt_1 : nt_2; const phred_scores& new_scores = get_updated_phred_scores(qual_1, qual_2); collapsed_qual.at(i) = new_scores.different_nts; } else { // Ensure that nt_1 / qual_1 always contains the preferred nt / score // This is an assumption of the g_updated_phred_scores cache. if (qual_1 < qual_2) { std::swap(nt_1, nt_2); std::swap(qual_1, qual_2); } const phred_scores& new_scores = get_updated_phred_scores(qual_1, qual_2); collapsed_seq.at(i) = nt_1; collapsed_qual.at(i) = (nt_1 == nt_2) ? new_scores.identical_nts : new_scores.different_nts; } } return string_pair(collapsed_seq, collapsed_qual); } /////////////////////////////////////////////////////////////////////////////// // Public functions alignment_info::alignment_info() : score(0) , offset(0) , length(0) , n_mismatches(0) , n_ambiguous(0) , adapter_id(-1) { } bool alignment_info::is_better_than(const alignment_info& other) const { if (score > other.score) { return true; } else if (score == other.score) { if (length > other.length) { return true; } else if (length == other.length) { return n_ambiguous < other.n_ambiguous; } } return false; } alignment_info align_single_ended_sequence(const fastq& read, const fastq_pair_vec& adapters, int max_shift) { size_t adapter_id = 0; alignment_info best_alignment; for (const auto& adapter_pair : adapters) { const fastq& adapter = adapter_pair.first; const alignment_info alignment = pairwise_align_sequences(best_alignment, read.sequence(), adapter.sequence(), -max_shift, std::numeric_limits::max()); if (alignment.is_better_than(best_alignment)) { best_alignment = alignment; best_alignment.adapter_id = adapter_id; } ++adapter_id; } return best_alignment; } alignment_info align_paired_ended_sequences(const fastq& read1, const fastq& read2, const fastq_pair_vec& adapters, int max_shift) { size_t adapter_id = 0; alignment_info best_alignment; for (const auto& adapter_pair : adapters) { const fastq& adapter1 = adapter_pair.first; const fastq& adapter2 = adapter_pair.second; const std::string sequence1 = adapter2.sequence() + read1.sequence(); const std::string sequence2 = read2.sequence() + adapter1.sequence(); // Only consider alignments where at least one nucleotide from each read // is aligned against the other, included shifted alignments to account // for missing bases at the 5' ends of the reads. const int min_offset = adapter2.length() - read2.length() - max_shift; alignment_info alignment = pairwise_align_sequences(best_alignment, sequence1, sequence2, min_offset, std::numeric_limits::max()); if (alignment.is_better_than(best_alignment)) { best_alignment = alignment; best_alignment.adapter_id = adapter_id; // Convert the alignment into an alignment between read 1 & 2 only best_alignment.offset -= adapter2.length(); } ++adapter_id; } return best_alignment; } void truncate_single_ended_sequence(const alignment_info& alignment, fastq& read) { // Given a shift, the alignment of the adapter may start one or more // bases before the start of the sequence, leading to a negative offset const size_t len = std::max(0, alignment.offset); return read.truncate(0, len); } size_t truncate_paired_ended_sequences(const alignment_info& alignment, fastq& read1, fastq& read2) { size_t had_adapter = 0; const int template_length = std::max(0, static_cast(read2.length()) + alignment.offset); if (alignment.offset > static_cast(read1.length())) { throw std::invalid_argument("invalid offset"); } else if (alignment.offset >= 0) { // Read1 can potentially extend past read2, but by definition read2 // cannot extend past read1 when the offset is not negative, so there // is no need to edit read2. had_adapter += static_cast(template_length) < read1.length(); read1.truncate(0, static_cast(template_length)); } else { had_adapter += static_cast(template_length) < read1.length(); had_adapter += static_cast(template_length) < read2.length(); read1.truncate(0, static_cast(template_length)); read2.truncate(static_cast(static_cast(read2.length()) - template_length)); } return had_adapter; } std::string strip_mate_info(const std::string& header, const char mate_sep) { size_t pos = header.find_first_of(' '); if (pos == std::string::npos) { pos = header.length(); } if (pos >= 2 && header.at(pos - 2) == mate_sep) { const char digit = header.at(pos - 1); if (digit == '1' || digit == '2') { std::string new_header = header; return new_header.erase(pos - 2, 2); } } return header; } fastq collapse_paired_ended_sequences(const alignment_info& alignment, const fastq& read1, const fastq& read2, std::mt19937& rng, const char mate_sep) { if (alignment.offset > static_cast(read1.length())) { // Gap between the two reads is not allowed throw std::invalid_argument("invalid offset"); } // Offset to the first base overlapping read 2 const size_t read_1_offset = static_cast(std::max(0, alignment.offset)); const std::string read_1_seq = read1.sequence().substr(0, read_1_offset); const std::string read_1_qual = read1.qualities().substr(0, read_1_offset); // Offset to the last base overlapping read 1 const size_t read_2_offset = static_cast(read1.length()) - std::max(0, alignment.offset); const std::string read_2_seq = read2.sequence().substr(read_2_offset); const std::string read_2_qual = read2.qualities().substr(read_2_offset); // Collapse only the overlapping parts string_pair collapsed = collapse_sequence(read1.sequence().substr(read_1_offset), read2.sequence().substr(0, read_2_offset), read1.qualities().substr(read_1_offset), read2.qualities().substr(0, read_2_offset), rng); // Remove mate number from read, if present, when building new record return fastq(mate_sep ? strip_mate_info(read1.header(), mate_sep) : read1.header(), read_1_seq + collapsed.first + read_2_seq, read_1_qual + collapsed.second + read_2_qual, FASTQ_ENCODING_SAM); } bool extract_adapter_sequences(const alignment_info& alignment, fastq& read1, fastq& read2) { const int template_length = std::max(0, static_cast(read2.length()) + alignment.offset); if (alignment.offset > static_cast(read1.length())) { throw std::invalid_argument("invalid offset"); } read1.truncate(std::min(read1.length(), template_length)); read2.truncate(0, std::max(0, static_cast(read2.length()) - template_length)); return read1.sequence().length() || read2.sequence().length(); } } // namespace ar adapterremoval-2.2.2/src/alignment.hpp000066400000000000000000000214541313314234200200030ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * Copyright (C) 2011 by Stinus Lindgreen - stinus@binf.ku.dk * * Copyright (C) 2014 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #ifndef ALIGNMENT_H #define ALIGNMENT_H #include #include #include "fastq.hpp" namespace ar { /** * Summarizes an alignment. * * A single offset value is used to represent the alignment between two * sequences, with values ranging from -inf to seq1.len() - 1. The alignment * of the first base in each sequence against each other is defined as having * the offset 0, with each other offset defined as the relative position of * seq 2 base 0 to seq 1 base 0: * * Seq 1: aaaaaaaaa * seq 2: bbbbbbbbbbb * Offset: 0 * * Seq 1: aaaaaaaaa * Seq 2: bbbbbbbbbbb * Offset: -11 * * Seq 1: aaaaaaaaa * Seq 2: bbbbbbbbbbb * Offset: 8 * * The meaning of the offset is slightly different in SE and PE mode; in SE * mode seq2 is the adapter sequence, and the offset therefore unambiguously * shows the starting position of the adapter, regardless of the size of the * adapter sequence. * * In PE mode, while the alignment is between seq1+PCR2 and PCR1+seq2, the * offset returned is relative to to seq1 and seq2 only. Thus, if '1' * represents PCR1 and '2' represents PCR2, the following alignment results * from PE mode (ie. offset = -9 rather than 3): * * Seq 1: 22222222222aaaaaaaaa * Seq 2: bbbbbbbbbbb1111111111 * Offset: -9 * * Note that the offset can never be greater than len(read 1) - 1, but can be * less than -len(seq 2) + 1, if a positive shift is set in PE mode. In PE * mode, an offset <= -len(seq 2) indicates that no non-adapter sequence was * found, while an offset <= 0 indicates the same for SE mode. Offsets less * than -len(seq 2) for PE or less than 0 for SE indicates that bases have been * skipped during sequencing, and are discoverable if a shift is set: * * Read 1: ...22222222222aaaaaaaaa * Read 2: bbbbbbbbbbb1111111111... * Offset: -12 * */ struct alignment_info { /** Defaults to unaligned (len = 0), for adapter_id -1. **/ alignment_info(); /** * Returns true if this is a better alignment than other. * * When selecting among multiple alignments, the follow criteria are used: * 1. The alignment with the highest score is preferred. * 2. If score is equal, the longest alignment is preferred. * 3. If score and length is equal, the alignment with fewest Ns is preferred. */ bool is_better_than(const alignment_info& other) const; //! Alignment score; equal to length - n_ambiguous - 2 * n_mismatches; int score; //! Zero based id of the adapter which offered the best alignment. Is less //! than zero if no alignment was found. int offset; //! The number of base-pairs included in the alignment. This number //! includes both bases aligned between the two mates (in PE mode) and the //! number of bases aligned between mates and adapter sequences. size_t length; //! Number of positions in the alignment in which the two sequences were //! both called (not N) but differed size_t n_mismatches; //! Number of positions in the alignment where one or both bases were N. size_t n_ambiguous; //! Offset describing the alignment between the two sequences (see above). int adapter_id; }; /** * Attempts to align adapters sequences against a SE read. * * @param read A read potentially containing adapter sequences * @param adapters A set of adapter pairs; only the first adapters are used. * @param max_shift Allow up to this number of missing bases at the 5' end of * the read, when aligning the adapter. * @return The best alignment, or a length 0 alignment if not aligned. * * The best alignment is selected using alignment_info::is_better_than. */ alignment_info align_single_ended_sequence(const fastq& read, const fastq_pair_vec& adapters, int max_shift); /** * Attempts to align PE mates, along with any adapter pairs. * * @param read1 A mate 1 read potentially containing adapter sequences * @param read2 A mate 2 read potentially containing adapter sequences * @param adapters A set of adapter pairs; both in each pair adapters are used. * @param max_shift Allow up to this number of missing bases at the 5' end of * both mate reads. * @return The best alignment, or a length 0 alignment if not aligned. * * The alignment is carried out following the concatenation of pcr2 and read1, * and the concatenation of read2 and pcr1, resulting in this alignment: * * pcr2-read1 * read2-pcr1 * * Note the returned offset is relative read1, not to adapter2 + read1, * and can be used to directly infer the alignment between read1 and read2. */ alignment_info align_paired_ended_sequences(const fastq& read1, const fastq& read2, const fastq_pair_vec& adapters, int max_shift); /** * Truncates a SE read according to the alignment, such that the second read * used in the alignment (assumed to represent adapter sequence) is excluded * from the read passed to this function. */ void truncate_single_ended_sequence(const alignment_info& alignment, fastq& read); /** * Truncate a pair of PE reads, such that any adapter sequence inferred from * the alignment is excluded from both mates. * * @return The number of sequences (0 .. 2) which contained adapter sequence. */ size_t truncate_paired_ended_sequences(const alignment_info& alignment, fastq& read1, fastq& read2); /** * Collapses two overlapping PE mates into a single sequence, recalculating the * quality scores to reflect the added support offered by two reads at the same * nucleotides. In the case of different bases at the same position, the * highest quality base is selected; if each base have the same quality score, * a random base is selected. In both cases, the quality score is updated to * reflect the lower quality implied by these observations. * * @return A single FASTQ record representing the collapsed sequence. * * Note that the sequences are assumed to have been trimmed using the * truncate_paired_ended_sequences function, and will produce undefined * results if this is not the case! */ fastq collapse_paired_ended_sequences(const alignment_info& alignment, const fastq& read1, const fastq& read2, std::mt19937& rng, const char mate_sep=MATE_SEPARATOR); /** * Truncates reads such that only adapter sequence remains. * * @return True if either or both reads contained adapter sequence. * * Reads that do not contain any adapter sequence are completely truncated, * such no bases remain of the original sequence. */ bool extract_adapter_sequences(const alignment_info& alignment, fastq& pcr1, fastq& pcr2); } // namespace ar #endif adapterremoval-2.2.2/src/argparse.cpp000066400000000000000000000335611313314234200176260ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2011 by Stinus Lindgreen - stinus@binf.ku.dk * * Copyright (C) 2014 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #include #include #include #include #include #include #include #include #include #include "argparse.hpp" #include "debug.hpp" #include "strutils.hpp" namespace ar { namespace argparse { typedef std::set consumer_set; /** Returns the number of columns available in the terminal. */ size_t get_terminal_columns() { struct winsize params; if (ioctl(STDERR_FILENO, TIOCGWINSZ, ¶ms)) { // Default to 80 columns if the parameters could not be retrieved. return 80; } return std::min(120, std::max(80, params.ws_col)); } parser::parser(const std::string& name, const std::string& version, const std::string& help) : m_keys() , m_parsers() , m_name(name) , m_version(version) , m_help(help) { // Built-in arguments (aliases are not shown!) (*this)["--help"] = new flag(nullptr, "Display this message."); create_alias("--help", "-help"); create_alias("--help", "-h"); (*this)["--version"] = new flag(nullptr, "Print the version string."); create_alias("--version", "-version"); create_alias("--version", "-v"); add_seperator(); } parser::~parser() { // Track set of unique pointers, to handle parsers assigned to multiple keys. consumer_set pointers; for (const auto& parser : m_parsers) { if (pointers.insert(parser.second).second) { delete parser.second; } } } consumer_ptr& parser::operator[](const std::string& key) { AR_DEBUG_ASSERT(!key.empty()); if (m_parsers.find(key) == m_parsers.end()) { m_keys.push_back(key_pair(true, key)); } return m_parsers[key]; } const consumer_ptr& parser::at(const std::string& key) const { return m_parsers.at(key); } parse_result parser::parse_args(int argc, char* argv[]) { const string_vec argvec(argv + 1, argv + argc); string_vec_citer it = argvec.begin(); while (it != argvec.end()) { consumer_map::iterator parser = m_parsers.end(); if (find_argument(parser, *it)) { if (parser->second->is_set()) { std::cerr << "WARNING: Command-line option " << parser->first << " has been specified more than once." << std::endl; } const size_t consumed = parser->second->consume(++it, argvec.end()); if (consumed == static_cast(-1)) { if (it != argvec.end()) { std::cerr << "ERROR: Invalid value for " << *(it - 1) << ": '" << *it << "'; aborting ..." << std::endl; } else { std::cerr << "ERROR: No value supplied for " << *(it - 1) << "; aborting ..." << std::endl; } return parse_result::error; } it += static_cast(consumed); } else { return parse_result::error; } } if (is_set("--help")) { print_help(); return parse_result::exit; } else if (is_set("--version")) { print_version(); return parse_result::exit; } return parse_result::ok; } bool parser::is_set(const std::string& key) const { const consumer_map::const_iterator it = m_parsers.find(key); AR_DEBUG_ASSERT(it != m_parsers.end()); return it->second->is_set(); } void parser::add_seperator() { m_keys.push_back(key_pair(false, std::string())); } void parser::add_header(const std::string& header) { add_seperator(); m_keys.push_back(key_pair(false, header)); } void parser::create_alias(const std::string& key, const std::string& alias) { AR_DEBUG_ASSERT(m_parsers.find(alias) == m_parsers.end()); m_parsers[alias] = m_parsers.at(key); } void parser::print_version() const { std::cerr << m_name << " " << m_version << std::endl; } void parser::print_help() const { print_version(); std::cerr <<"\n" << m_help << "\n\n"; print_arguments(m_keys); } void parser::print_arguments(const key_pair_vec& keys) const { size_t indentation = 0; for (const auto& key_pair : keys) { if (key_pair.first) { const consumer_ptr ptr = m_parsers.at(key_pair.second); const std::string metavar = get_metavar_str(ptr, key_pair.second); size_t current_len = key_pair.second.length(); if (!metavar.empty()) { current_len += metavar.length(); } // For simplicity, we always include the space for the metavar indentation = std::max(indentation, current_len + 1); } } // indentation + 4 space before description indentation = 2 + indentation + 4; std::cerr << std::left << std::setw(indentation) << "Arguments:" << "Description:\n"; cli_formatter fmt; fmt.set_ljust(2); // Indent subsequent lines two spaces fmt.set_indent(indentation); fmt.set_indent_first_line(false); fmt.set_column_width(get_terminal_columns() - indentation - 3); for (const auto& key_pair : keys) { if (!key_pair.first) { std::cerr << key_pair.second << "\n"; continue; } const consumer_ptr ptr = m_parsers.at(key_pair.second); if (ptr->help() == "HIDDEN") { continue; } const std::string metavar = get_metavar_str(ptr, key_pair.second); std::cerr << std::left << std::setw(indentation) << (" " + key_pair.second + " " + metavar); std::string value = ptr->help(); if (!value.empty()) { // Replace "%default" with string representation of current value. size_t index = value.find("%default"); if (index != std::string::npos) { const std::string default_value = ptr->to_str(); value.replace(index, 8, default_value); } // Format into columns and indent lines (except the first line) std::cerr << fmt.format(value) << "\n"; } } std::cerr << std::endl; } bool parser::find_argument(consumer_map::iterator& it, const std::string& str) { it = m_parsers.find(str); if (it != m_parsers.end()) { return true; } // Locate partial arguments by finding arguments with 'str' as prefix if (str != "-" && str != "--") { key_pair_vec matches; consumer_map::iterator cit = m_parsers.begin(); for (; cit != m_parsers.end(); ++cit) { if (cit->first.substr(0, str.size()) == str) { matches.push_back(key_pair(true, cit->first)); } } if (matches.size() == 1) { it = m_parsers.find(matches.front().second); return true; } else if (matches.size() > 1) { std::cerr << "ERROR: Ambiguous argument '" << str << "'; " << "Candidate arguments are\n\n"; print_arguments(matches); return false; } } std::cerr << "ERROR: Unknown argument: '" << str << "'" << std::endl; return false; } std::string parser::get_metavar_str(const consumer_ptr ptr, const std::string& key) const { if (!ptr->metavar().empty()) { return ptr->metavar(); } std::string metavar = key; metavar.erase(0, metavar.find_first_not_of("-")); std::replace(metavar.begin(), metavar.end(), '-', '_'); return toupper(metavar); } /////////////////////////////////////////////////////////////////////////////// consumer_base::consumer_base(const std::string& metavar, const std::string& help) : m_value_set(false) , m_metavar(metavar) , m_help(help) { } consumer_base::~consumer_base() { } bool consumer_base::is_set() const { return m_value_set; } const std::string& consumer_base::metavar() const { return m_metavar; } const std::string& consumer_base::help() const { return m_help; } /////////////////////////////////////////////////////////////////////////////// flag::flag(bool* value, const std::string& help) // Non-empty metavar to avoid auto-generated metavar : consumer_base(" ", help) , m_ptr(value) { m_value_set = m_ptr ? *value : false; } size_t flag::consume(string_vec_citer, const string_vec_citer&) { if (m_ptr) { *m_ptr = true; } m_value_set = true; return 0; } std::string flag::to_str() const { return std::string(m_value_set ? "on" : "off"); } /////////////////////////////////////////////////////////////////////////////// any::any(std::string* value, const std::string& metavar, const std::string& help) : consumer_base(metavar, help) , m_ptr(value) , m_sink() { } size_t any::consume(string_vec_citer start, const string_vec_citer& end) { if (start != end) { m_value_set = true; (m_ptr ? *m_ptr : m_sink) = *start; return 1; } return static_cast(-1); } std::string any::to_str() const { const std::string& result = m_ptr ? *m_ptr : m_sink; if (result.empty()) { return ""; } else { return result; } } /////////////////////////////////////////////////////////////////////////////// many::many(string_vec* value, const std::string& metavar, const std::string& help) : consumer_base(metavar, help) , m_ptr(value) { AR_DEBUG_ASSERT(m_ptr); } size_t many::consume(string_vec_citer start, const string_vec_citer& end) { m_value_set = true; string_vec_citer it = start; for (; it != end; ++it) { if (!it->empty() && it->front() == '-') { break; } } m_ptr->assign(start, it); return static_cast(it - start); } std::string many::to_str() const { if (m_ptr->empty()) { return ""; } else { std::string output; for (const auto& s: *m_ptr) { if (!output.empty()) { output.push_back(';'); } output.append(s); } return output; } } /////////////////////////////////////////////////////////////////////////////// knob::knob(unsigned* value, const std::string& metavar, const std::string& help) : consumer_base(metavar, help) , m_ptr(value) { AR_DEBUG_ASSERT(m_ptr); } size_t knob::consume(string_vec_citer start, const string_vec_citer& end) { if (start != end) { std::stringstream stream(*start); int64_t temp = 0; if (!(stream >> temp)) { return static_cast(-1); } // Failing on trailing, non-numerical values std::string trailing; if (stream >> trailing) { return static_cast(-1); } if (temp >= 0 && temp <= std::numeric_limits::max()) { *m_ptr = static_cast(temp); m_value_set = true; return 1; } } return static_cast(-1); } std::string knob::to_str() const { std::stringstream stream; stream << *m_ptr; return stream.str(); } /////////////////////////////////////////////////////////////////////////////// floaty_knob::floaty_knob(double* value, const std::string& metavar, const std::string& help) : consumer_base(metavar, help) , m_ptr(value) { AR_DEBUG_ASSERT(m_ptr); } size_t floaty_knob::consume(string_vec_citer start, const string_vec_citer& end) { if (start != end) { std::stringstream stream(*start); if (!(stream >> *m_ptr)) { return static_cast(-1); } // Failing on trailing, non-numerical values std::string trailing; if (stream >> trailing) { return static_cast(-1); } m_value_set = true; return 1; } return static_cast(-1); } std::string floaty_knob::to_str() const { if (std::isnan(*m_ptr)) { return ""; } else { std::stringstream stream; stream << *m_ptr; return stream.str(); } } } // namespace argparse } // namespace ar adapterremoval-2.2.2/src/argparse.hpp000066400000000000000000000325321313314234200176300ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2011 by Stinus Lindgreen - stinus@binf.ku.dk * * Copyright (C) 2014 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #ifndef ARGPARSE_H #define ARGPARSE_H #include #include #include #include "commontypes.hpp" namespace ar { namespace argparse { class consumer_base; typedef consumer_base* consumer_ptr; typedef std::map consumer_map; //! Parse results for command-line arguments enum class parse_result { //! Terminate now (e.g. --version or --help used) exit, //! Error occurred parsing arguments / invalid combination of args error, //! No errors parsing commandline arguments ok }; /** * Simple type-safe parsing of command-line options. * * To handle a an argument, an object of type consumer_base is assigned * to the argparse::parser using the [] operator. For example, the parse and * save an integer value to a variable when the user supplies the argument * '--example', the following is done: * * int target = 0; // Must be initialized! * argparse::parser argparser(...); * argparser["--example"] = new argparse::knob(&target); * argparser.parse_args(argc, argv); * * Aliases can be created for command-line arguments simply by assigning the * same parser to multiple keys; for example, to alias '--example' as '-e': * * argparser["-e"] = argparser["--example"]; * * The class automatically handles the following arguments: * --help, --h, -help, -h: Displays the program help * --version, -v: Displays the program name and version string * * In both cases, the parse_args function returns false. * * The assigned consumer_ptrs are owned by and freed by the argparse::parser * upon destruction of the object. Pointers assigned multiple times (i.e. when * used with aliases) are only freed once. */ class parser { public: /** * Arguments: * name: Name of the program; used in --version and --help. * version: Version string (excluding the name); is used by the * arguments --help and --version. * help: General help string used by --help; should not include the * parameters themselves, as this is done automatically. */ parser(const std::string& name, const std::string& version, const std::string& help); /** Deletes all (unique) parsers assigned to the set. */ ~parser(); /** Parses a set of command-line options as passed to main(argc, argv). */ parse_result parse_args(int argc, char* argv[]); /** Returns true if the option with the given key has been set. */ bool is_set(const std::string& key) const; /** * Returns a reference to the pointer for the parser with the given key. * * If an entry does not exist for the given key, it is created upon access. */ consumer_ptr& operator[](const std::string& key); /** * Returns a reference to the pointer for the parser with the given key. * * If an entry does not exist for the given key, out_of_range is thrown. */ const consumer_ptr& at(const std::string& key) const; /** Add a blank line between the previous and the next command. */ void add_seperator(); /** Add a blank line and a header between the previous and next command. */ void add_header(const std::string& header); /** Create alias for key with name alias. */ void create_alias(const std::string& key, const std::string& alias); /** Helper function; prints the program name and version string. */ void print_version() const; /** Helper functions; prints the full set of help-text. */ void print_help() const; //! Copy construction not supported parser(const parser&) = delete; //! Assignment not supported parser& operator=(const parser&) = delete; private: typedef std::pair key_pair; typedef std::vector key_pair_vec; /** Pretty-print the listed arguments. */ void print_arguments(const key_pair_vec& keys) const; /** * Attempt to find argument by similarity. * * @param it If a match is found, is set to iterator of matching parser, otherwise it is set to m_parsers.end(). * @param str String containing expected argument. * @return True if a match is found, false otherwise. * * If an exact match or a single partial match is found, 'it' is set and * true is returned; otherwise it is set to m_parsers.end() and false is * returned. In the case of multiple partial matches, the help string for * each candidate is printed. */ bool find_argument(consumer_map::iterator& it, const std::string& str); /** Generate metavar from argument, namely uppercase without dashes. */ std::string get_metavar_str(const consumer_ptr, const std::string&) const; //! Vector of keys (command-line options), tracking the order of addition. key_pair_vec m_keys; //! Map of keys (command-line args) to parser pointers; multiple //! keys may be associated with the same pointer. consumer_map m_parsers; //! Name of the program std::string m_name; //! Version string for the program (excluding the name) std::string m_version; //! Help text for the program. std::string m_help; }; /** * Base class for argument parsers; * * Each consumer must implement the consume function, which takes iterators to * the arguments following the key for this parser (i.e. not including the * --option). These then consume zero or more values, returning the number * thus consumed, or (size_t)-1 if the values were missing or invalid. */ class consumer_base { public: /** * Base constructor; sets various values used when printing --help. * * metavar - Used to represent the input value; if empty, * argparse::parser will use the current key associated with * the parser to generate a metavar. * help - Help string; the value %default is replaced with the default * value. */ consumer_base(const std::string& metavar, const std::string& help); /* Destructor; does nothing in the base class. */ virtual ~consumer_base(); /** * Attempts to consume a value specified on the command-line; returns the * number of values consumed (if any), or -1 if parsing failed (e.g. due to * the specified value being of the wrong type). * * Parameters: * start - Iterator pointing to the value following the command-line * argument, if any remain to be consumed. * end - Iterator past-the-end of the list of command-line arguments. */ virtual size_t consume(string_vec_citer start, const string_vec_citer& end) = 0; /** Returns true if the consumer has consumed a value. **/ virtual bool is_set() const; /** Returns the metavariable associated with the consumer. **/ virtual const std::string& metavar() const; /** Returns the help string associated with the consumer. **/ virtual const std::string& help() const; /** Returns the value associated with the consumer as a string. **/ virtual std::string to_str() const = 0; //! Copy construction not supported consumer_base(const consumer_base&) = delete; //! Assignment not supported consumer_base& operator=(const consumer_base&) = delete; protected: //! Should be set to true if a value has been consumed in a derived class. bool m_value_set; //! Stores the metavar associated with the consumer std::string m_metavar; //! Stores the optional description of default behavior. std::string m_help; }; /** * Consumer for boolean values (i.e. flags). * * Unlike typical consumers, this consumer does not expected a value associated * with the command-line argument, but instead sets the associated value to * true if the command-line argument is specified one or more times. */ class flag : public consumer_base { public: /** * See consumer_base::consumer_base * * Unlike the base constructor, this class does not take a 'metavar', as * no values are consumed during parsing. */ flag(bool* sink = nullptr, const std::string& help = ""); /** See consumer_base::consume */ virtual size_t consume(string_vec_citer start, const string_vec_citer& end); /** See consumer_base::to_str */ virtual std::string to_str() const; //! Copy construction not supported flag(const flag&) = delete; //! Assignment not supported flag& operator=(const flag&) = delete; private: //! Optional pointer to storage for boolean value; if nullptr, m_value is used. bool* m_ptr; }; /** * Consumer for string values (filenames, etc.). */ class any : public consumer_base { public: /** * See consumer_base::consumer_base */ any(std::string* sink = nullptr, const std::string& metavar = "", const std::string& help = ""); /** See consumer_base::consume */ virtual size_t consume(string_vec_citer start, const string_vec_citer& end); /** See consumer_base::to_str */ virtual std::string to_str() const; //! Copy construction not supported any(const any&) = delete; //! Assignment not supported any& operator=(const any&) = delete; private: //! Optional pointer to storage for string value; if nullptr, m_value is used. std::string* m_ptr; //! Value sink used if a pointer to a sink is not provided. std::string m_sink; }; /** * Consumer for multiple string values; consumes values until another option * (value starting with '-') is encountered. */ class many : public consumer_base { public: /** * See consumer_base::consumer_base */ many(string_vec* sink, const std::string& metavar = "", const std::string& help = ""); /** See consumer_base::consume */ virtual size_t consume(string_vec_citer start, const string_vec_citer& end); /** See consumer_base::to_str */ virtual std::string to_str() const; //! Copy construction not supported many(const many&) = delete; //! Assignment not supported many& operator=(const many&) = delete; private: //! Pointer to storage for string value; if nullptr, m_value is used. string_vec* m_ptr; }; /** * Consumer for unsigned integer values. * * Signed values are rejected. On 32 bit systems, the range of values is * limited to 0 .. 2^31 - 1, on 64 bit systems the range is 0 .. 2^64 - 1. */ class knob : public consumer_base { public: /** * See consumer_base::consumer_base; a sink must be set. */ knob(unsigned* sink, const std::string& metavar = "", const std::string& help = ""); /** See consumer_base::consume */ virtual size_t consume(string_vec_citer start, const string_vec_citer& end); /** See consumer_base::to_str */ virtual std::string to_str() const; //! Copy construction not supported knob(const knob&) = delete; //! Assignment not supported knob& operator=(const knob&) = delete; private: //! Pointer to storage for unsigned value (required). unsigned* m_ptr; }; /** * Consumer for floating point values (doubles). */ class floaty_knob : public consumer_base { public: /** See consumer_base::consumer_base; a sink must be set. */ floaty_knob(double* sink, const std::string& metavar = "", const std::string& help = ""); /** See consumer_base::consume */ virtual size_t consume(string_vec_citer start, const string_vec_citer& end); /** See consumer_base::to_str */ virtual std::string to_str() const; //! Copy construction not supported floaty_knob(const floaty_knob&) = delete; //! Assignment not supported floaty_knob& operator=(const floaty_knob&) = delete; private: //! Pointer to storage for unsigned value (required). double* m_ptr; }; } // namespace argparse } // namespace ar #endif adapterremoval-2.2.2/src/commontypes.hpp000066400000000000000000000075541313314234200204070ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2011 by Stinus Lindgreen - stinus@binf.ku.dk * * Copyright (C) 2014 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #ifndef COMMONTYPES_H #define COMMONTYPES_H #include #include namespace ar { class fastq; typedef std::vector string_vec; typedef string_vec::const_iterator string_vec_citer; typedef std::pair string_pair; typedef std::vector string_pair_vec; typedef std::vector fastq_vec; typedef fastq_vec::iterator fastq_vec_iter; /** Different file-types read / generated by AdapterRemoval. */ enum class read_type { /** Mate 1 reads, either read or written by AR. */ mate_1 = 0, /** Mate 2 reads, either read or written by AR. */ mate_2, /** PE reads for which the mate has been discarded. */ singleton, /** Overlapping PE reads merged into a single sequence. */ collapsed, /** Collapsed reads truncated due to trimming of low-quality bases. */ collapsed_truncated, /** Discarded reads; e.g. too short reads. */ discarded, //! End value; not to be used as an argument. max }; /** Unique IDs for analytical steps. */ enum analyses_id { //! Step for reading of SE or PE reads ai_read_fastq = 0, //! Step for demultiplexing SE or PE reads ai_demultiplex, //! Step for writing mate 1 reads which were not identified ai_write_unidentified_1, //! Step for writing mate 2 reads which were not identified ai_write_unidentified_2, //! Offset for post-demultiplexing analytical steps //! If enabled, the demultiplexing step will forward reads to the //! nth * ai_analyses_offset analytical step, corresponding to the //! barcode number. ai_analyses_offset = 20, //! Step for reading adapter identification ai_identify_adapters = 20, //! Step for trimming of PE reads ai_trim_pe = 20, //! Step for trimming of SE reads ai_trim_se = 20, //! Offset added to write steps when zipping ai_zip_offset = 10, //! Steps for writing of trimmed reads ai_write_mate_1 = 21, ai_write_mate_2 = 22, ai_write_singleton = 23, ai_write_collapsed = 24, ai_write_collapsed_truncated = 25, ai_write_discarded = 26 }; } // namespace ar #endif adapterremoval-2.2.2/src/debug.cpp000066400000000000000000000052511313314234200171030ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2015 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #include "debug.hpp" #include #include #include namespace ar { #ifdef AR_TEST_BUILD assert_failed::assert_failed(const assert_failed& errror) : m_what(errror.m_what) { } assert_failed::assert_failed(const std::string& what) : m_what(what) { } assert_failed::~assert_failed() noexcept { } const char* assert_failed::what() const noexcept { return m_what.c_str(); } #endif void debug_raise_assert(const char* filename, size_t lineno, const char* what) { std::stringstream message; message << "\nFATAL ERROR:\n" << "Debug assertion failed in '" << filename << "', line " << lineno << ": " << what << "\n\n" << "This should not happen! Please file a bug-report at\n " << "https://github.com/MikkelSchubert/adapterremoval/issues/new"; #ifdef AR_TEST_BUILD throw assert_failed(message.str()); #else std::cerr << message.str() << std::endl; std::abort(); #endif } } // namespace ar adapterremoval-2.2.2/src/debug.hpp000066400000000000000000000064241313314234200171130ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2015 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #ifndef AR_DEBUG_H #define AR_DEBUG_H #include #include namespace ar { #ifdef AR_TEST_BUILD /** Exception explaining 'abort' calls when running unit-tests. */ class assert_failed : public std::exception { public: /** Copy constructor. */ assert_failed(const assert_failed& errror); /** Creates exception with the specified error message. */ assert_failed(const std::string& what); /** Does nothing. */ virtual ~assert_failed() noexcept; /** Returns user supplied error message; owned by object. */ virtual const char* what() const noexcept; private: //! User supplied error message const std::string m_what; }; #endif /** * Aborts after printing the filename, line-number, and message, plus * instructions for how to report the problem. */ void debug_raise_assert(const char* filename, size_t lineno, const char* what) __attribute__ ((noreturn)); /** Custom assert which prints various information on failure; always enabled. */ #define AR_DEBUG_ASSERT(test) \ do { \ if (!(test)) { \ debug_raise_assert(__FILE__, __LINE__, #test); \ } \ } while (0) /** Raise an assert failure with a user-specified message. */ #define AR_DEBUG_FAIL(msg) \ debug_raise_assert(__FILE__, __LINE__, msg) /** Raise a failure if a scope is accessed more than once at the same time. */ #define AR_DEBUG_LOCK(lock) \ std::unique_lock locker(lock, std::defer_lock); \ if (!locker.try_lock()) { \ AR_DEBUG_FAIL("race condition detected"); \ }; } // namespace ar #endif adapterremoval-2.2.2/src/demultiplex.cpp000066400000000000000000000356751313314234200203660ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2011 by Stinus Lindgreen - stinus@binf.ku.dk * * Copyright (C) 2014 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #include #include #include "debug.hpp" #include "demultiplex.hpp" #include "commontypes.hpp" #include "fastq_io.hpp" #include "userconfig.hpp" #include "strutils.hpp" namespace ar { typedef std::pair barcode_pair; typedef std::vector barcode_vec; typedef std::vector int_vec; typedef demux_node_vec::iterator node_vec_iter; /////////////////////////////////////////////////////////////////////////////// /** * Struct representing node in quad-tree; children are referenced using the * corresponding indice in the vector representing the tree; -1 is used to * represent unassigned children. */ struct demultiplexer_node { public: demultiplexer_node() : children() , barcodes() { children[0] = -1; children[1] = -1; children[2] = -1; children[3] = -1; } bool has_children() const { for (size_t nt_idx = 0; nt_idx < 4; ++nt_idx) { if (children[nt_idx] != -1) { return true; } } return false; } int children[4]; int_vec barcodes; }; /////////////////////////////////////////////////////////////////////////////// /** * Returns a lexicographically sorted list of mate 1 barcodes, each paired with * the 0-based index of corresponding barcode in the source vector. */ barcode_vec sort_barcodes(const fastq_pair_vec& barcodes) { barcode_vec sorted_barcodes; const size_t max_key_1_len = barcodes.front().first.length(); const size_t max_key_2_len = barcodes.front().second.length(); for (auto it = barcodes.begin(); it != barcodes.end(); ++it) { AR_DEBUG_ASSERT(it->first.length() == max_key_1_len); AR_DEBUG_ASSERT(it->second.length() == max_key_2_len); sorted_barcodes.push_back(barcode_pair(it->first.sequence(), it - barcodes.begin())); } std::sort(sorted_barcodes.begin(), sorted_barcodes.end()); return sorted_barcodes; } /** Adds a nucleotide sequence with a given ID to a quad-tree. */ void add_sequence_to_tree(demux_node_vec& tree, const std::string& sequence, const size_t barcode_id) { size_t node_idx = 0; for (auto nuc: sequence) { auto& node = tree.at(node_idx); const auto nuc_idx = ACGT_TO_IDX(nuc); auto child = node.children[nuc_idx]; if (child == -1) { // New nodes are added to the end of the list; as barcodes are // added in lexicographic order, this helps ensure that a set of // dissimilar barcodes will be placed in mostly contiguous runs // of the vector representation. child = node.children[nuc_idx] = tree.size(); tree.push_back(demultiplexer_node()); } node_idx = child; } tree.at(node_idx).barcodes.push_back(barcode_id); } /** * Builds a sparse quad tree using the first sequence in a set of unique * barcodes pairs; duplicate pairs will negatively impact the identification of * these, since all hits will be considered ambiguous. */ demux_node_vec build_demux_tree(const fastq_pair_vec& barcodes) { // Step 1: Construct list of barcodes sorted by the mate 1 barcode; // this allows construction of the sparse tree in one pass. const barcode_vec sorted_barcodes = sort_barcodes(barcodes); // Step 2: Create empty tree containing just the root node; creating // the root here simplifies the 'add_sequence_to_tree' function. demux_node_vec tree; tree.push_back(demultiplexer_node()); // Step 3: Add each barcode to the tree, in sorted order for (auto& pair: sorted_barcodes) { add_sequence_to_tree(tree, pair.first, pair.second); } return tree; } /////////////////////////////////////////////////////////////////////////////// typedef std::vector > candidate_vec; void rec_lookup_sequence_no_mm(candidate_vec& candidates, const demux_node_vec& tree, const std::string& seq, size_t seq_pos = 0, int parent = 0, size_t mismatches = 0) { const demultiplexer_node& node = tree.at(parent); for (const auto& barcode : node.barcodes) { candidates.emplace_back(barcode, mismatches); } if (seq_pos < seq.length()) { const size_t nt_idx = ACGT_TO_IDX(seq.at(seq_pos)); if (node.children[nt_idx] != -1) { rec_lookup_sequence_no_mm(candidates, tree, seq, seq_pos + 1, node.children[nt_idx], mismatches); } } } void rec_lookup_sequence(candidate_vec& candidates, const demux_node_vec& tree, const std::string& seq, size_t max_mismatches, size_t seq_pos = 0, int parent = 0, size_t mismatches = 0) { const demultiplexer_node& node = tree.at(parent); for (const auto& barcode : node.barcodes) { candidates.emplace_back(barcode, mismatches); } if (seq_pos < seq.length()) { const size_t current_nt = ACGT_TO_IDX(seq.at(seq_pos)); for (size_t nt_idx = 0; nt_idx < 4; ++nt_idx) { if (node.children[nt_idx] != -1) { if (nt_idx == current_nt) { rec_lookup_sequence(candidates, tree, seq, max_mismatches, seq_pos + 1, node.children[nt_idx], mismatches); } else if (mismatches + 1 < max_mismatches) { rec_lookup_sequence(candidates, tree, seq, max_mismatches, seq_pos + 1, node.children[nt_idx], mismatches + 1); } else if (mismatches + 1 == max_mismatches) { rec_lookup_sequence_no_mm(candidates, tree, seq, seq_pos + 1, node.children[nt_idx], mismatches + 1); } } } } } /////////////////////////////////////////////////////////////////////////////// demultiplex_reads::demultiplex_reads(const userconfig* config) : analytical_step(analytical_step::ordering::ordered) , m_barcodes(config->adapters.get_barcodes()) , m_tree(build_demux_tree(m_barcodes)) , m_max_mismatches(config->barcode_mm) , m_max_mismatches_r1(std::min(config->barcode_mm, config->barcode_mm_r1)) , m_max_mismatches_r2(std::min(config->barcode_mm, config->barcode_mm_r2)) , m_config(config) , m_cache() , m_unidentified_1(new fastq_output_chunk()) , m_unidentified_2() , m_statistics(m_barcodes.size()) , m_lock() { AR_DEBUG_ASSERT(!m_barcodes.empty()); if (!config->interleaved_output) { m_unidentified_2.reset(new fastq_output_chunk()); } for (size_t i = 0; i < m_barcodes.size(); ++i) { m_cache.push_back(read_chunk_ptr(new fastq_read_chunk())); } } demultiplex_reads::~demultiplex_reads() { } size_t count_mismatches(const std::string& barcode, const std::string& sequence, const size_t max_mismatches) { std::string::const_iterator b_iter = barcode.begin(); std::string::const_iterator r2_iter = sequence.begin(); size_t mismatches = 0; size_t n_check = std::min(barcode.length(), sequence.length()); if (n_check < barcode.length()) { // Missing bases are considered mismatching mismatches += barcode.length() - n_check; } while (n_check-- && mismatches <= max_mismatches) { if (*b_iter++ != *r2_iter++) { ++mismatches; } } return mismatches; } /** * Returns the best matching barcode (pair) for sequences read_r1 and read_r2 * */ int demultiplex_reads::select_barcode(const fastq& read_r1, const fastq& read_r2) const { candidate_vec candidates; if (m_max_mismatches_r1) { rec_lookup_sequence(candidates, m_tree, read_r1.sequence(), m_max_mismatches_r1); } else { rec_lookup_sequence_no_mm(candidates, m_tree, read_r1.sequence()); } int best_barcode = -1; size_t min_mismatches = m_max_mismatches + 1; for (auto& candidate : candidates) { if (m_config->paired_ended_mode) { const std::string& barcode = m_barcodes.at(candidate.first).second.sequence(); const size_t max_mismatches_r2 = std::min(m_max_mismatches - candidate.second, m_max_mismatches_r2); const size_t mismatches = count_mismatches(barcode, read_r2.sequence(), max_mismatches_r2); if (mismatches > max_mismatches_r2) { continue; } candidate.second += mismatches; } if (candidate.second < min_mismatches) { best_barcode = candidate.first; min_mismatches = candidate.second; } else if (candidate.second == min_mismatches) { // Ambiguous results; multiple best matches best_barcode = -1; } } if (best_barcode >= 0) { return best_barcode; } else if (min_mismatches == m_max_mismatches + 1) { // No viable candidates return -1; } else { // Ambiguous results return -2; } } chunk_vec demultiplex_reads::flush_cache(bool eof) { chunk_vec output; if (eof || m_unidentified_1->count >= FASTQ_CHUNK_SIZE) { m_unidentified_1->eof = eof; output.push_back(chunk_pair(ai_write_unidentified_1, std::move(m_unidentified_1))); m_unidentified_1 = output_chunk_ptr(new fastq_output_chunk()); } if (m_config->paired_ended_mode && !m_config->interleaved_output && (eof || m_unidentified_2->count >= FASTQ_CHUNK_SIZE)) { m_unidentified_2->eof = eof; output.push_back(chunk_pair(ai_write_unidentified_2, std::move(m_unidentified_2))); m_unidentified_2 = output_chunk_ptr(new fastq_output_chunk()); } for (size_t nth = 0; nth < m_cache.size(); ++nth) { read_chunk_ptr& chunk = m_cache.at(nth); if (eof || chunk->reads_1.size() >= FASTQ_CHUNK_SIZE) { chunk->eof = eof; const size_t step_id = (nth + 1) * ai_analyses_offset; output.push_back(chunk_pair(step_id, std::move(chunk))); chunk = read_chunk_ptr(new fastq_read_chunk()); } } return output; } demux_statistics demultiplex_reads::statistics() const { return m_statistics; } /////////////////////////////////////////////////////////////////////////////// demultiplex_se_reads::demultiplex_se_reads(const userconfig* config) : demultiplex_reads(config) { } chunk_vec demultiplex_se_reads::process(analytical_chunk* chunk) { AR_DEBUG_LOCK(m_lock); read_chunk_ptr read_chunk(dynamic_cast(chunk)); const fastq empty_read; for (const auto& read : read_chunk->reads_1) { const int best_barcode = select_barcode(read, empty_read); if (best_barcode < 0) { m_unidentified_1->add(*m_config->quality_output_fmt, read); if (best_barcode == -1) { m_statistics.unidentified += 1; } else { m_statistics.ambiguous += 1; } } else { read_chunk_ptr& dst = m_cache.at(best_barcode); dst->reads_1.push_back(read); dst->reads_1.back().truncate(m_barcodes.at(best_barcode).first.length()); m_statistics.barcodes.at(best_barcode) += 1; } } return flush_cache(read_chunk->eof); } /////////////////////////////////////////////////////////////////////////////// demultiplex_pe_reads::demultiplex_pe_reads(const userconfig* config) : demultiplex_reads(config) { } chunk_vec demultiplex_pe_reads::process(analytical_chunk* chunk) { AR_DEBUG_LOCK(m_lock); read_chunk_ptr read_chunk(dynamic_cast(chunk)); AR_DEBUG_ASSERT(read_chunk->reads_1.size() == read_chunk->reads_2.size()); fastq_vec::iterator it_1 = read_chunk->reads_1.begin(); fastq_vec::iterator it_2 = read_chunk->reads_2.begin(); for (; it_1 != read_chunk->reads_1.end(); ++it_1, ++it_2) { const int best_barcode = select_barcode(*it_1, *it_2); if (best_barcode < 0) { m_unidentified_1->add(*m_config->quality_output_fmt, *it_1); if (m_config->interleaved_output) { m_unidentified_1->add(*m_config->quality_output_fmt, *it_2); } else { m_unidentified_2->add(*m_config->quality_output_fmt, *it_2); } if (best_barcode == -1) { m_statistics.unidentified += 1; } else { m_statistics.ambiguous += 1; } } else { read_chunk_ptr& dst = m_cache.at(best_barcode); it_1->truncate(m_barcodes.at(best_barcode).first.length()); dst->reads_1.push_back(*it_1); it_2->truncate(m_barcodes.at(best_barcode).second.length()); dst->reads_2.push_back(*it_2); m_statistics.barcodes.at(best_barcode) += 1; } } return flush_cache(read_chunk->eof); } } // namespace ar adapterremoval-2.2.2/src/demultiplex.hpp000066400000000000000000000130631313314234200203560ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2011 by Stinus Lindgreen - stinus@binf.ku.dk * * Copyright (C) 2014 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #ifndef DEMULTIPLEX_H #define DEMULTIPLEX_H #include "fastq.hpp" #include "scheduler.hpp" #include "statistics.hpp" #include "fastq_io.hpp" namespace ar { class userconfig; struct demultiplexer_node; typedef std::vector demux_node_vec; /** * Baseclass for demultiplexing of reads; responsible for building the quad-tree * representing the set of adapter sequences, and for maintaining the cache of * demultiplexed reads. */ class demultiplex_reads : public analytical_step { public: /** Setup demultiplexer; keeps pointer to config object. */ demultiplex_reads(const userconfig* config); /** Frees any unflushed caches. */ virtual ~demultiplex_reads(); /** Returns a statistics object summarizing the results up till now. */ demux_statistics statistics() const; //! Copy construction not supported demultiplex_reads(const demultiplex_reads&) = delete; //! Assignment not supported demultiplex_reads& operator=(const demultiplex_reads&) = delete; protected: /** * Returns the id of the best matching barcode(s), or -1 if no matches were * found or if no single best match was found. */ int select_barcode(const fastq& read_r1, const fastq& read_r2) const; //! List of barcode (pairs) supplied by caller const fastq_pair_vec& m_barcodes; //! Quad-tree representing all mate 1 adapters; for search with n mismatches const demux_node_vec m_tree; //! Maximum number of mismatches allowed between the mate 1 and mate 2 read const size_t m_max_mismatches; //! Maximum number of mismatches allowed for the mate 1 read const size_t m_max_mismatches_r1; //! Maximum number of mismatches allowed for the mate 2 read const size_t m_max_mismatches_r2; //! Pointer to user settings used for output format for unidentified reads const userconfig* m_config; //! Returns a chunk-list with any set of reads exceeding the max cache size //! If 'eof' is true, all chunks are returned, and the 'eof' values in the //! chunks are set to true. chunk_vec flush_cache(bool eof = false); typedef std::vector demultiplexed_cache; //! Cache of demultiplex reads; used to reduce the number of output chunks //! generated from each processed chunk, which would otherwise increase //! linearly with the number of barcodes. demultiplexed_cache m_cache; //! Cache of unidentified mate 1 reads output_chunk_ptr m_unidentified_1; //! Cache of unidentified mate 2 reads output_chunk_ptr m_unidentified_2; //! Sink for demultiplexing statistics; used by subclasses. demux_statistics m_statistics; //! Lock used to verify that the analytical_step is only run sequentially. std::mutex m_lock; }; /** Demultiplexer for single-end reads. */ class demultiplex_se_reads : public demultiplex_reads { public: /** See demultiplex_reads::demultiplex_reads. */ demultiplex_se_reads(const userconfig* config); /** * Processes a read chunk, and forwards chunks to downstream steps, with * the IDs corresponding to ai_analyses_offset * (nth + 1) for the nth * barcode (pair). Unidentified reads are sent to ai_write_unidentified_1. */ chunk_vec process(analytical_chunk* chunk); }; /** Demultiplexer for paired-end reads. */ class demultiplex_pe_reads : public demultiplex_reads { public: /** See demultiplex_reads::demultiplex_reads. */ demultiplex_pe_reads(const userconfig* config); /** * Processes a read chunk, and forwards chunks to downstream steps, with * the IDs corresponding to ai_analyses_offset * (nth + 1) for the nth * barcode (pair). Unidentified reads are sent to ai_write_unidentified_1 * and ai_write_unidentified_2. */ chunk_vec process(analytical_chunk* chunk); }; } // namespace ar #endif adapterremoval-2.2.2/src/fastq.cpp000066400000000000000000000325151313314234200171360ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2011 by Stinus Lindgreen - stinus@binf.ku.dk * * Copyright (C) 2014 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #include #include #include #include #include #include "debug.hpp" #include "fastq.hpp" #include "linereader.hpp" namespace ar { enum class read_mate { unknown, mate_1, mate_2, }; struct mate_info { mate_info() : name() , mate(read_mate::unknown) {} std::string desc() const { switch (mate) { case read_mate::unknown: return "unknown"; case read_mate::mate_1: return "mate 1"; case read_mate::mate_2: return "mate 2"; default: AR_DEBUG_FAIL("Invalid mate in mate_info::desc"); } } std::string name; read_mate mate; }; inline mate_info get_and_fix_mate_info(fastq& read, char mate_separator) { mate_info info; std::string& header = read.m_header; size_t pos = header.find_first_of(' '); if (pos == std::string::npos) { pos = header.length(); } if (pos >= 2 && header.at(pos - 2) == mate_separator) { const char digit = header.at(pos - 1); if (digit == '1') { header[pos - 2] = MATE_SEPARATOR; info.mate = read_mate::mate_1; pos -= 2; } else if (digit == '2') { header[pos - 2] = MATE_SEPARATOR; info.mate = read_mate::mate_2; pos -= 2; } } info.name = header.substr(0, pos); return info; } /////////////////////////////////////////////////////////////////////////////// // fastq fastq::fastq() : m_header() , m_sequence() , m_qualities() { } fastq::fastq(const std::string& header, const std::string& sequence, const std::string& qualities, const fastq_encoding& encoding) : m_header(header) , m_sequence(sequence) , m_qualities(qualities) { process_record(encoding); } fastq::fastq(const std::string& header, const std::string& sequence) : m_header(header) , m_sequence(sequence) , m_qualities(std::string(sequence.length(), '!')) { process_record(FASTQ_ENCODING_33); } bool fastq::operator==(const fastq& other) const { return (m_header == other.m_header) && (m_sequence == other.m_sequence) && (m_qualities == other.m_qualities); } size_t fastq::count_ns() const { return static_cast(std::count(m_sequence.begin(), m_sequence.end(), 'N')); } fastq::ntrimmed fastq::trim_trailing_bases(const bool trim_ns, char low_quality) { low_quality += PHRED_OFFSET_33; auto is_quality_base = [&] (size_t i) { return m_qualities.at(i) > low_quality && (!trim_ns || m_sequence.at(i) != 'N'); }; size_t right_exclusive = 0; for (size_t i = m_sequence.length(); i; --i) { if (is_quality_base(i - 1)) { right_exclusive = i; break; } } size_t left_inclusive = 0; for (size_t i = 0; i < right_exclusive; ++i) { if (is_quality_base(i)) { left_inclusive = i; break; } } return trim_sequence_and_qualities(left_inclusive, right_exclusive); } //! Calculates the size of the sliding window for quality trimming given a //! read length and a user-defined window-size (fraction or whole number). size_t calculate_winlen(const size_t read_length, const double window_size) { size_t winlen; if (window_size >= 1.0) { winlen = static_cast(window_size); } else { winlen = static_cast(window_size * read_length); } if (winlen == 0 || winlen > read_length) { winlen = read_length; } return winlen; } fastq::ntrimmed fastq::trim_windowed_bases(const bool trim_ns, char low_quality, const double window_size) { AR_DEBUG_ASSERT(window_size >= 0.0); if (m_sequence.empty()) { return ntrimmed(); } low_quality += PHRED_OFFSET_33; auto is_quality_base = [&] (size_t i) { return m_qualities.at(i) > low_quality && (!trim_ns || m_sequence.at(i) != 'N'); }; const size_t winlen = calculate_winlen(length(), window_size); long running_sum = std::accumulate(m_qualities.begin(), m_qualities.begin() + winlen, 0); size_t left_inclusive = std::string::npos; size_t right_exclusive = std::string::npos; for (size_t offset = 0; offset + winlen <= length(); ++offset) { const long running_avg = running_sum / static_cast(winlen); // We trim away low quality bases and Ns from the start of reads, // **before** we consider windows. if (left_inclusive == std::string::npos && is_quality_base(offset) && running_avg > low_quality) { left_inclusive = offset; } if (left_inclusive != std::string::npos && (running_avg <= low_quality || offset + winlen == length())) { right_exclusive = offset; while (right_exclusive < length() && is_quality_base(right_exclusive)) { right_exclusive++; } break; } running_sum -= m_qualities.at(offset); if (offset + winlen < length()) { running_sum += m_qualities.at(offset + winlen); } } if (left_inclusive == std::string::npos) { // No starting window found. Trim all bases starting from start. return trim_sequence_and_qualities(length(), length()); } AR_DEBUG_ASSERT(right_exclusive != std::string::npos); return trim_sequence_and_qualities(left_inclusive, right_exclusive); } void fastq::truncate(size_t pos, size_t len) { if (pos || len < length()) { m_sequence = m_sequence.substr(pos, len); m_qualities = m_qualities.substr(pos, len); } } void fastq::reverse_complement() { std::reverse(m_sequence.begin(), m_sequence.end()); std::reverse(m_qualities.begin(), m_qualities.end()); // Lookup table for complementary bases based only on the last 4 bits static const char complements[] = "-T-GA--C------N-"; for (auto& nuc : m_sequence) { nuc = complements[nuc & 0xf]; } } void fastq::add_prefix_to_header(const std::string& prefix) { m_header.insert(0, prefix); } void fastq::add_postfix_to_header(const std::string& postfix) { m_header += postfix; } void fastq::discard() { m_sequence = 'N'; m_qualities = '!'; } bool fastq::read(line_reader_base& reader, const fastq_encoding& encoding) { std::string line; if (!reader.getline(line)) { // End of file; terminate gracefully return false; } m_header = line.substr(1); if (m_header.empty() || line.at(0) != '@') { throw fastq_error("Malformed or empty FASTQ header"); } if (!reader.getline(m_sequence)) { throw fastq_error("partial FASTQ record; cut off after header"); } else if (m_sequence.empty()) { throw fastq_error("sequence is empty"); } if (!reader.getline(line)) { throw fastq_error("partial FASTQ record; cut off after sequence"); } else if (line.empty() || line.at(0) != '+') { throw fastq_error("FASTQ record lacks separator character (+)"); } if (!reader.getline(m_qualities)) { throw fastq_error("partial FASTQ record; cut off after separator"); } else if (m_qualities.empty()) { throw fastq_error("no qualities"); } process_record(encoding); return true; } std::string fastq::to_str(const fastq_encoding& encoding) const { std::string result; // Size of header, sequence, qualities, 4 new-lines, '@' and '+' result.reserve(m_header.size() + m_sequence.size() * 2 + 6); result.push_back('@'); result.append(m_header); result.push_back('\n'); result.append(m_sequence); result.append("\n+\n", 3); encoding.encode(m_qualities, result); result.push_back('\n'); return result; } /////////////////////////////////////////////////////////////////////////////// // Public helper functions void fastq::clean_sequence(std::string& sequence) { for (char& nuc : sequence) { switch (nuc) { case 'A': case 'C': case 'G': case 'T': case 'N': break; case 'a': case 'c': case 'g': case 't': case 'n': nuc += 'A' - 'a'; break; case '.': nuc = 'N'; break; default: throw fastq_error("invalid character in FASTQ sequence; " "only A, C, G, T and N are expected!"); } } } char fastq::p_to_phred_33(double p) { // Lowest possible error rate representable is '~' (~5e-10) const auto min_p = std::max(5e-10, p); const auto raw_score = static_cast(-10.0 * std::log10(min_p)); return std::min('~', raw_score + PHRED_OFFSET_33); } void fastq::validate_paired_reads(fastq& mate1, fastq& mate2, char mate_separator) { if (mate1.length() == 0 || mate2.length() == 0) { throw fastq_error("Pair contains empty reads"); } const mate_info info1 = get_and_fix_mate_info(mate1, mate_separator); const mate_info info2 = get_and_fix_mate_info(mate2, mate_separator); if (info1.name != info2.name) { std::stringstream error; error << "Pair contains reads with mismatching names:\n" << " - '" << info1.name << "'\n" << " - '" << info2.name << "'"; if (info1.mate == read_mate::unknown || info2.mate == read_mate::unknown) { error << "\n\nNote that AdapterRemoval by determines the mate " "numbers as the digit found at the end of the read name, " "if this is preceded by the character '" << mate_separator << "'; if these data makes use of a different character to " "separate the mate number from the read name, then you " "will need to set the --mate-separator command-line " "option to the appropriate character."; } throw fastq_error(error.str()); } if (info1.mate != read_mate::unknown || info2.mate != read_mate::unknown) { if (info1.mate != read_mate::mate_1 || info2.mate != read_mate::mate_2) { std::stringstream error; error << "Inconsistent mate numbering; please verify data:\n" << "\nRead 1 identified as " << info1.desc() << ": " << mate1.name() << "\nRead 2 identified as " << info2.desc() << ": " << mate2.name(); throw fastq_error(error.str()); } } } /////////////////////////////////////////////////////////////////////////////// // Private helper functions void fastq::process_record(const fastq_encoding& encoding) { if (m_qualities.length() != m_sequence.length()) { throw fastq_error("invalid FASTQ record; sequence/quality length does not match"); } clean_sequence(m_sequence); encoding.decode(m_qualities); } fastq::ntrimmed fastq::trim_sequence_and_qualities(const size_t left_inclusive, const size_t right_exclusive) { const ntrimmed summary(left_inclusive, length() - right_exclusive); if (summary.first || summary.second) { const size_t retained = right_exclusive - left_inclusive; m_sequence = m_sequence.substr(left_inclusive, retained); m_qualities = m_qualities.substr(left_inclusive, retained); } return summary; } } // namespace ar adapterremoval-2.2.2/src/fastq.hpp000066400000000000000000000231501313314234200171360ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2011 by Stinus Lindgreen - stinus@binf.ku.dk * * Copyright (C) 2014 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #ifndef FASTQ_H #define FASTQ_H #include #include #include "commontypes.hpp" #include "fastq_enc.hpp" namespace ar { class line_reader_base; struct mate_info; /** * Represents a FASTQ record with Phred (offset=33) encoded quality scores. */ class fastq { public: /** Constructs a dummy FASTQ record for which all fields are empty. **/ fastq(); /** * Create a new FASTQ record. * * @param header FASTQ header, including read name and meta information. * @param sequence nucleotide sequence containing the letters "acgtnACGTN." * @param qualities phred or solexa encoded quality scores * @param encoding the encoding used for the quality scores. * * Nucleotides are converted to uppercase, and dots are replaced with N. * Phred scores are calculated from the encoded scores, in the case of * Solexa encoding re-encoded under this scheme, otherwise simply decoded * to Phred+33 scores, if not already in this format. * * The quality scores are expected to be in the range of 0 .. 40, unless * the format is Phred+33, in which case the range 0 .. 41 is accepted. */ fastq(const std::string& header, const std::string& sequence, const std::string& qualities, const fastq_encoding& encoding = FASTQ_ENCODING_33); /** * Create FASTQ record from a sequence alone. * * @param header FASTQ header, including read name and meta information. * @param sequence nucleotide sequence containing the letters "acgtnACGTN." * * Works like the full constructor, except that qualities are all 0 ('!'). */ fastq(const std::string& header, const std::string& sequence); /** Returns true IFF all fields are identical. **/ bool operator==(const fastq& other) const; /** Returns the header (excluding the @) of the record. **/ const std::string& header() const; /** Returns the nucleotide sequence (ACGTN only) of the record. **/ const std::string& sequence() const; /** Returns the Phred+33 encoded scores (0 .. 41) for each base. **/ const std::string& qualities() const; /** Returns the name (excluding the @ and other fields) of the header. **/ std::string name() const; /** Returns the length of the sequence. */ size_t length() const; /** Returns the number of ambiguous nucleotides in the sequence (N). **/ size_t count_ns() const; /** The number of bases trimmmed from the 5p and 3p end respectively. **/ typedef std::pair ntrimmed; /** * Trims consecutive low-quality bases from the 5'/3' ends of the sequence. * * @param trim_ns If true, ambiguous bases ('N') are trimmed. * @param low_quality Trim bases with a quality score at or below this value. * @return A pair containing the number of 5' and 3' bases trimmed. */ ntrimmed trim_trailing_bases(const bool trim_ns = true, char low_quality = -1); /** * Trims low-quality bases using a sliding window approach. * * @param trim_ns If true, ambiguous bases ('N') are trimmed. * @param low_quality Trim bases with a quality score at or below this value. * @param winlen The length of the sliding window. * @return A pair containing the number of 5' and 3' bases trimmed. */ ntrimmed trim_windowed_bases(const bool trim_ns = true, char low_quality = -1, const double window_size = 0.1); /** * Truncates the record in place. * * This function behaves like std::string::substr, except that the * substrings (sequence / qualities) are re-assigned to the record itself. */ void truncate(size_t pos = 0, size_t len = std::string::npos); /** Reverse complements the record in place. */ void reverse_complement(); /** Adds a prefix to the header. */ void add_prefix_to_header(const std::string& prefix); /** Adds a postfix to the header. */ void add_postfix_to_header(const std::string& postfix); /** * Discards read data; the sequence is replaced with a single 'N', and the * and the quality string is replaced with a single '!'. */ void discard(); /** * Reads a FASTQ record from a list of lines (without newlines). * * If a malformed or invalid FASTQ record is encountered, the fastq_error * exception is raised. Note that 'this' record is only valid if read * returned true. Unlike the constructor, this function does not accept * empty headers, or sequences / qualities, as this typically indicates * a problem with the source file. */ bool read(line_reader_base& reader, const fastq_encoding& encoding = FASTQ_ENCODING_33); /** * Converts a FASTQ record to a string ending with a newline. * * Only the phred_33 and phred_64 encodings are supported. For phred_64, * quality bases are truncated to 0 .. 40, while phred_33 supports quality * scores in the range 0 .. 41. */ std::string to_str(const fastq_encoding& encoding = FASTQ_ENCODING_33) const; /** Converts an error-probability to a Phred+33 encoded quality score. **/ static char p_to_phred_33(double p); /** * Validate that two reads form a valid pair. * * The mate separator character is the character expected as the second-to- * last character, if the last character (either '1' or '2') specify the * mate number. Non-standard mate-separators (not '/') are changed to '/'. */ static void validate_paired_reads(fastq& mate1, fastq& mate2, char mate_separator = MATE_SEPARATOR); private: /** * Converting lower-case nucleotides to uppercase, '.' to N. * * If the sequence contains letters other than "acgtnACGTN.", a fastq_error * is thrown. **/ static void clean_sequence(std::string& sequence); /** Initializes record; used by constructor and read function. **/ void process_record(const fastq_encoding& encoding); /** * Trims the read to the specified bases, and returns a pair specifying the * number of 5' and 3' bases removed. */ ntrimmed trim_sequence_and_qualities(const size_t left_inclusive, const size_t right_exclusive); /** Helper function to get mate numbering and fix the separator char. */ friend mate_info get_and_fix_mate_info(fastq& read, char mate_separator); //! Header excluding the @ sigil, but (possibly) including meta-info std::string m_header; //! Nucleotide sequence; contains only uppercase letters "ACGTN" std::string m_sequence; //! Phred+33 encoded quality scores std::string m_qualities; }; /////////////////////////////////////////////////////////////////////////////// /** * Simple hashing function for nucleotides 'A', 'C', 'G', 'T', returning * numbers in the range 0-3. Passing characters other than "ACGT" (uppercase * only) will result in hash collisions. */ inline size_t ACGT_TO_IDX(char nt) { return (nt >> 1) & 0x3; } /////////////////////////////////////////////////////////////////////////////// typedef std::pair fastq_pair; typedef std::vector fastq_pair_vec; /////////////////////////////////////////////////////////////////////////////// inline const std::string& fastq::header() const { return m_header; } inline std::string fastq::name() const { const size_t pos = m_header.find_first_of(' '); if (pos != std::string::npos) { return m_header.substr(0, pos); } return m_header; } inline const std::string& fastq::sequence() const { return m_sequence; } inline const std::string& fastq::qualities() const { return m_qualities; } inline size_t fastq::length() const { return m_sequence.length(); } } // namespace ar #endif adapterremoval-2.2.2/src/fastq_enc.cpp000066400000000000000000000263161313314234200177650ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2011 by Stinus Lindgreen - stinus@binf.ku.dk * * Copyright (C) 2014 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #include #include #include #include #include #include #include "debug.hpp" #include "fastq_enc.hpp" namespace ar { void invalid_solexa(const char offset, const char max_score, const char raw) __attribute__((noreturn)); /////////////////////////////////////////////////////////////////////////////// // fastq_error fastq_error::fastq_error(const std::string& message) : std::exception() , m_message(message) { } fastq_error::fastq_error(const fastq_error& error) : std::exception() , m_message(error.m_message) { } fastq_error::~fastq_error() noexcept { } const char* fastq_error::what() const noexcept { return m_message.c_str(); } /////////////////////////////////////////////////////////////////////////////// // Pre-calculation of Solexa <-> Phred conversions std::string calc_solexa_to_phred() { std::string scores; scores.resize(MAX_PHRED_SCORE - MIN_SOLEXA_SCORE + 1); for (int i = MIN_SOLEXA_SCORE; i <= MAX_PHRED_SCORE; ++i) { const double score = round(10.0 * log10(1.0 + pow(10, (i / 10.0)))); const int transformed = std::max(MIN_PHRED_SCORE, std::min(MAX_PHRED_SCORE, score)); scores.at(i - MIN_SOLEXA_SCORE) = transformed; } return scores; } std::string calc_phred_to_solexa() { std::string scores; scores.resize(MAX_PHRED_SCORE - MIN_PHRED_SCORE + 1); for (int i = MIN_PHRED_SCORE; i <= MAX_PHRED_SCORE; ++i) { const auto min_i = std::max(1, i); const auto score = round(10.0 * log10(pow(10.0, min_i / 10.0) - 1.0)); const auto transformed = std::max(MIN_SOLEXA_SCORE, std::min(MAX_PHRED_SCORE, score)); scores.at(i) = transformed; } return scores; } const std::string g_solexa_to_phred = calc_solexa_to_phred(); const std::string g_phred_to_solexa = calc_phred_to_solexa(); /////////////////////////////////////////////////////////////////////////////// void invalid_phred(const char offset, const char max_score, const char raw) { if (raw < offset) { AR_DEBUG_ASSERT(offset == 33 || offset == 64); if (offset == 33) { throw fastq_error("ASCII value of quality score is less than 33 " "(ASCII < '!'); input is corrupt or not in " "FASTQ format!"); } else if (offset == 64) { if (raw < ';') { throw fastq_error("Phred+64 encoded quality score is less than 0 " "(ASCII < ';'); Are these FASTQ reads actually in " "Phred+33 format? If so, use the command-line " "option \"--qualitybase 33\"\n\n" "See README for more information."); } else if (raw < '@') { // Value not less than -5, which is the lowest Solexa score throw fastq_error("Phred+64 encoded quality score is less than 0 " "(ASCII < '@'); Are these FASTQ reads actually in " "Phred+33 or Solexa format? If so, use the " "command-line option \"--qualitybase 33\" or " "\"--qualitybase solexa\"\n\n" "See README for more information."); } } else { AR_DEBUG_FAIL("Unexpected offset in fastq_encoding::decode"); } } else if (raw > max_score) { if (raw > '~') { throw fastq_error("ASCII value of quality score is greater than " "126 (ASCII > '~'); input is corrupt or not in " "FASTQ format!"); } else if (offset == 33) { std::stringstream ss; ss << "Phred+33 encoded quality score is greater than the " << "expected maximum (" << max_score << " = " << static_cast(offset + max_score) << "). Please " << "verify the format of these files.\n\n" << "If the quality scores are actually Phred+64 encoded, then " << "use the '--qualitybase 64' command-line option.\n\n" << "If the quality scores are Phred+33 encoded, but includes " << "scores in a greater range than expected, then use the " << "'--maxquality' option. Note that this option effects both " << "reading and writing of FASTQ files.\n\n" << "See README for more information."; throw fastq_error(ss.str()); } else if (offset == 64) { std::stringstream ss; ss << "Phred+64 encoded quality score is greater than the " << "expected maximum (" << max_score << " = " << static_cast(offset + max_score) << "). Please " << "verify the format of these files.\n\n" << "If the quality scores are Phred+64 encoded, but includes " << "scores in a greater range than expected, then use the " << "'--maxquality' command-line option. Note that this option " << "effects both reading and writing of FASTQ files.\n\n" << "See README for more information."; throw fastq_error(ss.str()); } else { AR_DEBUG_FAIL("Unexpected offset in fastq_encoding::decode"); } } } void invalid_solexa(const char offset, const char max_score, const char raw) { if (raw < ';') { if (raw < '!') { throw fastq_error("ASCII value of quality score is less than 33 " "(ASCII < '!'); input is corrupt or not in " "FASTQ format!"); } else { throw fastq_error("Solexa score is less than -5 (ASCII = ';'); " "Is this actually Phred+33 data? If so, use " "the '--qualitybase 33' command-line option.\n\n" "See the README for more information."); } } else if (raw > '~') { throw fastq_error("ASCII value of quality score is greater than " "126 (ASCII > '~'); input is corrupt or not in " "FASTQ format!"); } else { std::stringstream ss; ss << "Solaxa encoded quality score is greater than the " << "expected maximum (" << max_score << " = " << static_cast(offset + max_score) << "). Please " << "verify the format of these files.\n\n" << "If the quality scores are Solexa encoded, but includes " << "scores in a greater range than expected, then use the " << "'--maxquality' command-line option. Note that this option " << "effects both reading and writing of FASTQ files.\n\n" << "See README for more information."; throw fastq_error(ss.str()); } } /////////////////////////////////////////////////////////////////////////////// fastq_encoding::fastq_encoding(char offset, char max_score) : m_offset(offset) , m_max_score(std::min('~' - offset, max_score)) { if (offset != 33 && offset != 64) { throw std::invalid_argument("Phred offset must be 33 or 64"); } else if (max_score < 0) { throw std::invalid_argument("Max ASCII encoded Phred score less than 0"); } else if (max_score > '~' - PHRED_OFFSET_33) { throw std::invalid_argument("ASCII value cutoff for quality scores " "lies after printable characters"); } } fastq_encoding::~fastq_encoding() { } void fastq_encoding::encode(const std::string& qualities, std::string& dst) const { const char ascii_max = m_offset + m_max_score; const char offset = m_offset - '!'; for (const auto& quality : qualities) { dst.push_back(std::min(ascii_max, quality + offset)); } } void fastq_encoding::decode(std::string& qualities) const { const char max_score = m_offset + m_max_score; const char offset = PHRED_OFFSET_33 - m_offset; for (auto& quality : qualities) { if (quality < m_offset || quality > max_score) { invalid_phred(m_offset, m_max_score, quality); } quality += offset; } } const char* fastq_encoding::name() const { if (m_offset == 33) { return "Phred+33"; } else if (m_offset == 64) { return "Phred+64"; } else { AR_DEBUG_FAIL("Unexpected offset in fastq_encoding::name"); } } size_t fastq_encoding::max_score() const { return m_max_score; } fastq_encoding_solexa::fastq_encoding_solexa(unsigned max_score) : fastq_encoding(PHRED_OFFSET_64, max_score) { } void fastq_encoding_solexa::encode(const std::string& qualities, std::string& dst) const { const char ascii_max = m_offset + m_max_score; for (const auto& quality : qualities) { dst.push_back(std::min(ascii_max, g_phred_to_solexa.at(quality - '!') + '@')); } } void fastq_encoding_solexa::decode(std::string& qualities) const { const char max_score = m_offset + m_max_score; for (auto& quality : qualities) { if (quality < ';' || quality > max_score) { invalid_phred(m_offset, m_max_score, quality); } quality = g_solexa_to_phred.at(quality - ';') + '!'; } } const char* fastq_encoding_solexa::name() const { return "Solexa"; } } // namespace ar adapterremoval-2.2.2/src/fastq_enc.hpp000066400000000000000000000134361313314234200177710ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2011 by Stinus Lindgreen - stinus@binf.ku.dk * * Copyright (C) 2014 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #ifndef FASTQ_ENC_H #define FASTQ_ENC_H #include namespace ar { //! Offset used by Phred+33 and SAM encodings const int PHRED_OFFSET_33 = '!'; //! Offset used by Phred+64 and Solexa encodings const int PHRED_OFFSET_64 = '@'; //! Minimum Phred score allowed; encodes to '!' const int MIN_PHRED_SCORE = 0; //! Maximum Phred score allowed by default, to ensure backwards compatibility //! with AdapterRemoval v1.x. const int MAX_PHRED_SCORE_DEFAULT = 41; //! Maximum Phred score allowed, as this encodes to the last printable //! character '~', when using an offset of 33. const int MAX_PHRED_SCORE = 93; //! Minimum Solexa score allowed; encodes to ';' with an offset of 64 const int MIN_SOLEXA_SCORE = -5; //! Maximum Solexa score allowed; encodes to 'h' with an offset of 64 const int MAX_SOLEXA_SCORE = 40; //! Default character used to separate mate number const char MATE_SEPARATOR = '/'; /** Exception raised for FASTQ parsing and validation errors. */ class fastq_error : public std::exception { public: fastq_error(const std::string& message); fastq_error(const fastq_error& error); virtual ~fastq_error() noexcept; /** Returns error message; string is owned by exception. */ virtual const char* what() const noexcept; private: //! Error message associated with exception. std::string m_message; }; class fastq_encoding { public: /** * Create FASTQ encoding with a given offset (33 or 64), allowing for * quality-scores up to a given value (0 - N). Input with higher scores * is rejected, and output is truncated to this score. */ fastq_encoding(char offset = PHRED_OFFSET_33, char max_score = MAX_PHRED_SCORE_DEFAULT); virtual ~fastq_encoding(); /** Appends encoded Phred+33/66 quality-scores to dst. */ virtual void encode(const std::string& qualities, std::string& dst) const; /** Decodes a string of ASCII values in-place. */ virtual void decode(std::string& qualities) const; /** Returns the standard name for this encoding. */ virtual const char* name() const; /** * Returns the maximum allowed quality score for input, and the range to * range to which output scores are truncated. */ size_t max_score() const; //! Copy construction not supported fastq_encoding(const fastq_encoding&) = delete; //! Assignment not supported fastq_encoding& operator=(const fastq_encoding&) = delete; protected: //! Character offset for Phred encoded scores (33 or 64) const char m_offset; //! Maximum allowed score; used for checking input / truncating output const char m_max_score; }; /** * Solexa scores encoding by adding '@'; max score is 40. * * Solexa scores are defined as Q = -10 * log10(p / (1 - p)), and differ from * Phred scores for values less than 13. Lossless conversion between the * formats is not possible, and since the fastq class stores quality scores as * Phred+33 internally, this means that reading Solexa scores is a lossy * operation, even if the output is written using Solexa scores. */ class fastq_encoding_solexa : public fastq_encoding { public: /** * Create FASTQ Solexa encoding with offset 64, allowing for quality-scores * up to a given value (0 - N). Input with higher scores is rejected, and * output is truncated to this score. */ fastq_encoding_solexa(unsigned max_score = MAX_PHRED_SCORE_DEFAULT); /** Appends encoded Phred+33/66 quality-scores to dst. */ virtual void encode(const std::string& qualities, std::string& dst) const override; /** Decodes a string of ASCII values in-place. */ virtual void decode(std::string& qualities) const override; /** Returns the standard name for this encoding. */ const char* name() const; }; static const fastq_encoding FASTQ_ENCODING_33(PHRED_OFFSET_33); static const fastq_encoding FASTQ_ENCODING_64(PHRED_OFFSET_64); static const fastq_encoding FASTQ_ENCODING_SAM(PHRED_OFFSET_33, MAX_PHRED_SCORE); static const fastq_encoding_solexa FASTQ_ENCODING_SOLEXA; } // namespace ar #endif adapterremoval-2.2.2/src/fastq_io.cpp000066400000000000000000000523601313314234200176250ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2015 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #include #include #include #include #include "debug.hpp" #include "fastq_io.hpp" #include "userconfig.hpp" namespace ar { size_t read_fastq_reads(fastq_vec& dst, joined_line_readers& reader, size_t offset, const fastq_encoding& encoding) { dst.reserve(FASTQ_CHUNK_SIZE); try { fastq record; for (size_t i = 0; i < FASTQ_CHUNK_SIZE; ++i) { if (record.read(reader, encoding)) { dst.push_back(record); } else { break; } } } catch (const fastq_error& error) { print_locker lock; std::cerr << "Error reading FASTQ record at line " << offset + dst.size() << "; aborting:\n" << cli_formatter::fmt(error.what()) << std::endl; throw thread_abort(); } return dst.size(); } /////////////////////////////////////////////////////////////////////////////// // Implementations for 'fastq_read_chunk' fastq_read_chunk::fastq_read_chunk(bool eof_) : eof(eof_) , reads_1() , reads_2() { } /////////////////////////////////////////////////////////////////////////////// // Implementations for 'fastq_output_chunk' fastq_output_chunk::fastq_output_chunk(bool eof_) : eof(eof_) , count(0) , reads() , buffers() { reads.reserve(FASTQ_CHUNK_SIZE); } fastq_output_chunk::~fastq_output_chunk() { for (auto& buffer : buffers) { delete[] buffer.second; } } void fastq_output_chunk::add(const fastq_encoding& encoding, const fastq& read, size_t count_) { count += count_; reads.push_back(read.to_str(encoding)); } /////////////////////////////////////////////////////////////////////////////// // Implementations for 'read_single_fastq' read_single_fastq::read_single_fastq(const fastq_encoding* encoding, const string_vec& filenames, size_t next_step) : analytical_step(analytical_step::ordering::ordered, true) , m_encoding(encoding) , m_line_offset(1) , m_io_input(filenames) , m_next_step(next_step) , m_eof(false) , m_lock() { AR_DEBUG_ASSERT(!filenames.empty()); } chunk_vec read_single_fastq::process(analytical_chunk* chunk) { AR_DEBUG_LOCK(m_lock); AR_DEBUG_ASSERT(chunk == nullptr); if (m_eof) { return chunk_vec(); } read_chunk_ptr file_chunk(new fastq_read_chunk()); const size_t n_read = read_fastq_reads(file_chunk->reads_1, m_io_input, m_line_offset, *m_encoding); if (!n_read) { // EOF is detected by failure to read any lines, not line_reader::eof, // so that unbalanced files can be caught in all cases. file_chunk->eof = true; m_eof = true; } m_line_offset += n_read; chunk_vec chunks; chunks.push_back(chunk_pair(m_next_step, std::move(file_chunk))); return chunks; } void read_single_fastq::finalize() { AR_DEBUG_LOCK(m_lock); if (!m_eof) { throw thread_error("read_single_fastq::finalize: terminated before EOF"); } } /////////////////////////////////////////////////////////////////////////////// // Implementations for 'read_paired_fastq' read_paired_fastq::read_paired_fastq(const fastq_encoding* encoding, const string_vec& filenames_1, const string_vec& filenames_2, size_t next_step) : analytical_step(analytical_step::ordering::ordered, true) , m_encoding(encoding) , m_line_offset(1) , m_io_input_1(filenames_1) , m_io_input_2(filenames_2) , m_next_step(next_step) , m_eof(false) , m_lock() { AR_DEBUG_ASSERT(filenames_1.size() == filenames_2.size()); } chunk_vec read_paired_fastq::process(analytical_chunk* chunk) { AR_DEBUG_LOCK(m_lock); AR_DEBUG_ASSERT(chunk == nullptr); if (m_eof) { return chunk_vec(); } read_chunk_ptr file_chunk(new fastq_read_chunk()); const size_t n_read_1 = read_fastq_reads(file_chunk->reads_1, m_io_input_1, m_line_offset, *m_encoding); const size_t n_read_2 = read_fastq_reads(file_chunk->reads_2, m_io_input_2, m_line_offset, *m_encoding); if (n_read_1 != n_read_2) { print_locker lock; std::cerr << "ERROR: Input --file1 and --file2 contains different " << "numbers of lines; one or the other file may have been " << "truncated. Please correct before continuing!" << std::endl; throw thread_abort(); } else if (!n_read_1) { // EOF is detected by failure to read any lines, not line_reader::eof, // so that unbalanced files can be caught in all cases. file_chunk->eof = true; m_eof = true; } m_line_offset += n_read_1; chunk_vec chunks; chunks.push_back(chunk_pair(m_next_step, std::move(file_chunk))); return chunks; } void read_paired_fastq::finalize() { AR_DEBUG_LOCK(m_lock); if (!m_eof) { throw thread_error("read_paired_fastq::finalize: terminated before EOF"); } } /////////////////////////////////////////////////////////////////////////////// // Implementations for 'read_interleaved_fastq' read_interleaved_fastq::read_interleaved_fastq(const fastq_encoding* encoding, const string_vec& filenames, size_t next_step) : analytical_step(analytical_step::ordering::ordered, true) , m_encoding(encoding) , m_line_offset(1) , m_io_input(filenames) , m_next_step(next_step) , m_eof(false) , m_lock() { AR_DEBUG_ASSERT(!filenames.empty()); } chunk_vec read_interleaved_fastq::process(analytical_chunk* chunk) { AR_DEBUG_LOCK(m_lock); AR_DEBUG_ASSERT(chunk == nullptr); if (m_eof) { return chunk_vec(); } read_chunk_ptr file_chunk(new fastq_read_chunk()); file_chunk->reads_1.reserve(FASTQ_CHUNK_SIZE); file_chunk->reads_2.reserve(FASTQ_CHUNK_SIZE); try { fastq record; for (size_t i = 0; i < FASTQ_CHUNK_SIZE; ++i) { // Mate 1 reads if (record.read(m_io_input, *m_encoding)) { file_chunk->reads_1.push_back(record); } else { break; } // Mate 2 reads if (record.read(m_io_input, *m_encoding)) { file_chunk->reads_2.push_back(record); } else { break; } } } catch (const fastq_error& error) { const size_t offset = m_line_offset + file_chunk->reads_1.size() * 4 + file_chunk->reads_2.size() * 4; print_locker lock; std::cerr << "Error reading FASTQ record starting at line " << offset << ":\n" << cli_formatter::fmt(error.what()) << std::endl; throw thread_abort(); } const size_t n_read_1 = file_chunk->reads_1.size(); const size_t n_read_2 = file_chunk->reads_2.size(); if (n_read_1 != n_read_2) { print_locker lock; std::cerr << "ERROR: Interleaved FASTQ file contains uneven number of " << "reads; file may have been truncated! Please correct " << "before continuing!" << std::endl; throw thread_abort(); } else if (!n_read_1) { file_chunk->eof = true; m_eof = true; } m_line_offset += (n_read_1 + n_read_2) * 4; chunk_vec chunks; chunks.push_back(chunk_pair(m_next_step, std::move(file_chunk))); return chunks; } void read_interleaved_fastq::finalize() { AR_DEBUG_LOCK(m_lock); if (!m_eof) { throw thread_error("read_interleaved_fastq::finalize: terminated before EOF"); } } /////////////////////////////////////////////////////////////////////////////// // Utility function used by both gzip and bzip compression steps /** * Writes a set of lines into a buffer, and returns the size of the buffer and * the buffer itself as a pair. */ std::pair build_input_buffer(const string_vec& lines) { size_t buffer_size = 0; for (const auto& line : lines) { buffer_size += line.size(); } unsigned char* input_buffer = new unsigned char[buffer_size]; unsigned char* input_buffer_ptr = input_buffer; for (const auto& line : lines) { std::memcpy(input_buffer_ptr, line.data(), line.size()); input_buffer_ptr += line.size(); } return std::pair(buffer_size, input_buffer); } /////////////////////////////////////////////////////////////////////////////// // Implementations for 'gzip_fastq' bzip2_fastq::bzip2_fastq(const userconfig& config, size_t next_step) : analytical_step(analytical_step::ordering::ordered, false) , m_buffered_reads(0) , m_next_step(next_step) , m_stream() , m_eof(false) , m_lock() { m_stream.bzalloc = nullptr; m_stream.bzfree = nullptr; m_stream.opaque = nullptr; const int errorcode = BZ2_bzCompressInit(/* strm = */ &m_stream, /* blockSize100k = */ config.bzip2_level, /* verbosity = */ 0, /* workFactor = */ 0); switch (errorcode) { case BZ_OK: break; case BZ_MEM_ERROR: throw thread_error("bzip2_fastq: not enough memory"); case BZ_CONFIG_ERROR: throw thread_error("bzip2_fastq: miscompiled bzip2 library"); case BZ_PARAM_ERROR: throw thread_error("bzip2_fastq: invalid parameters"); default: throw thread_error("bzip2_fastq: unknown error"); } } void bzip2_fastq::finalize() { AR_DEBUG_LOCK(m_lock); if (!m_eof) { throw thread_error("bzip2_fastq::finalize: terminated before EOF"); } const int errorcode = BZ2_bzCompressEnd(&m_stream); if (errorcode != BZ_OK) { print_locker lock; switch (errorcode) { case BZ_PARAM_ERROR: throw thread_error("bzip2_fastq::finalize: parameter error"); default: throw thread_error("Unknown error in bzip2_fastq::finalize"); } } } chunk_vec bzip2_fastq::process(analytical_chunk* chunk) { AR_DEBUG_LOCK(m_lock); output_chunk_ptr file_chunk(dynamic_cast(chunk)); buffer_vec& buffers = file_chunk->buffers; if (m_eof) { throw thread_error("bzip2_fastq::process: received data after EOF"); } m_eof = file_chunk->eof; if (file_chunk->reads.empty() && !m_eof) { return chunk_vec(); } std::pair input_buffer; std::pair output_buffer; try { input_buffer = build_input_buffer(file_chunk->reads); m_stream.avail_in = input_buffer.first; m_stream.next_in = reinterpret_cast(input_buffer.second); if (m_stream.avail_in || m_eof) { int errorcode = -1; do { output_buffer.first = FASTQ_COMPRESSED_CHUNK; output_buffer.second = new unsigned char[FASTQ_COMPRESSED_CHUNK]; m_stream.avail_out = output_buffer.first; m_stream.next_out = reinterpret_cast(output_buffer.second); errorcode = BZ2_bzCompress(&m_stream, m_eof ? BZ_FINISH : BZ_RUN); switch (errorcode) { case BZ_RUN_OK: case BZ_FINISH_OK: case BZ_STREAM_END: break; case BZ_FLUSH_OK: throw thread_error("bzip2_fastq::process: BZ_FLUSH_OK"); case BZ_PARAM_ERROR: throw thread_error("bzip2_fastq::process: BZ_PARAM_ERROR"); case BZ_SEQUENCE_ERROR: throw thread_error("bzip2_fastq::process: sequence error"); default: throw thread_error("bzip2_fastq::process: unknown error"); } output_buffer.first = FASTQ_COMPRESSED_CHUNK - m_stream.avail_out; if (output_buffer.first) { buffers.push_back(output_buffer); } else { delete[] output_buffer.second; } output_buffer.second = nullptr; } while (m_stream.avail_in || errorcode == BZ_FINISH_OK); } delete[] input_buffer.second; } catch (...) { delete[] input_buffer.second; delete[] output_buffer.second; throw; } chunk_vec chunks; if (!file_chunk->buffers.empty() || m_eof) { file_chunk->count += m_buffered_reads; chunks.push_back(chunk_pair(m_next_step, std::move(file_chunk))); m_buffered_reads = 0; } else { m_buffered_reads += file_chunk->count; } return chunks; } /////////////////////////////////////////////////////////////////////////////// // Implementations for 'gzip_fastq' gzip_fastq::gzip_fastq(const userconfig& config, size_t next_step) : analytical_step(analytical_step::ordering::ordered, false) , m_buffered_reads(0) , m_next_step(next_step) , m_stream() , m_eof(false) , m_lock() { m_stream.zalloc = nullptr; m_stream.zfree = nullptr; m_stream.opaque = nullptr; const int errorcode = deflateInit2(/* strm = */ &m_stream, /* level = */ config.gzip_level, /* method = */ Z_DEFLATED, /* windowBits = */ 15 + 16, /* memLevel = */ 8, /* strategy = */ Z_DEFAULT_STRATEGY); switch (errorcode) { case Z_OK: break; case Z_MEM_ERROR: throw thread_error("gzip_fastq: not enough memory"); case Z_STREAM_ERROR: throw thread_error("gzip_fastq: invalid parameters"); case Z_VERSION_ERROR: throw thread_error("gzip_fastq: incompatible zlib version"); default: throw thread_error("gzip_fastq: unknown error"); } } void gzip_fastq::finalize() { AR_DEBUG_LOCK(m_lock); if (!m_eof) { throw thread_error("gzip_fastq::finalize: terminated before EOF"); } const int errorcode = deflateEnd(&m_stream); if (errorcode != Z_OK) { print_locker lock; switch (errorcode) { case Z_STREAM_ERROR: throw thread_error("gzip_fastq::finalize: stream error"); case Z_DATA_ERROR: throw thread_error("gzip_fastq::finalize: data error"); default: throw thread_error("Unknown error in gzip_fastq::finalize"); } } } chunk_vec gzip_fastq::process(analytical_chunk* chunk) { AR_DEBUG_LOCK(m_lock); output_chunk_ptr file_chunk(dynamic_cast(chunk)); buffer_vec& buffers = file_chunk->buffers; if (m_eof) { throw thread_error("bzip2_fastq::process: received data after EOF"); } m_eof = file_chunk->eof; if (file_chunk->reads.empty() && !m_eof) { return chunk_vec(); } std::pair input_buffer; std::pair output_buffer; try { input_buffer = build_input_buffer(file_chunk->reads); file_chunk->reads.clear(); if (input_buffer.first || m_eof) { m_stream.avail_in = input_buffer.first; m_stream.next_in = input_buffer.second; int returncode = -1; do { output_buffer.first = FASTQ_COMPRESSED_CHUNK; output_buffer.second = new unsigned char[FASTQ_COMPRESSED_CHUNK]; m_stream.avail_out = output_buffer.first; m_stream.next_out = output_buffer.second; returncode = deflate(&m_stream, m_eof ? Z_FINISH : Z_NO_FLUSH); switch (returncode) { case Z_OK: case Z_STREAM_END: break; case Z_BUF_ERROR: throw thread_error("gzip_fastq::process: buf error"); case Z_STREAM_ERROR: throw thread_error("gzip_fastq::process: stream error"); default: throw thread_error("gzip_fastq::process: unknown error"); } output_buffer.first = FASTQ_COMPRESSED_CHUNK - m_stream.avail_out; if (output_buffer.first) { buffers.push_back(output_buffer); } else { delete[] output_buffer.second; } output_buffer.second = nullptr; } while (m_stream.avail_out == 0 || (m_eof && returncode != Z_STREAM_END)); } delete[] input_buffer.second; } catch (...) { delete[] input_buffer.second; delete[] output_buffer.second; throw; } chunk_vec chunks; if (!file_chunk->buffers.empty() || m_eof) { file_chunk->count += m_buffered_reads; chunks.push_back(chunk_pair(m_next_step, std::move(file_chunk))); m_buffered_reads = 0; } else { m_buffered_reads += file_chunk->count; } return chunks; } /////////////////////////////////////////////////////////////////////////////// // Implementations for 'write_fastq' //! Mutex used to control access to s_timer and s_finalized; static std::mutex s_timer_lock; //! Timer used to track trimming progress; accessed by all instances static timer s_timer = timer("reads"); //! Indicates if 'timer::finalize' has been called. static bool s_finalized = false; write_fastq::write_fastq(const std::string& filename) : analytical_step(analytical_step::ordering::ordered, true) , m_output(filename.c_str(), std::ofstream::out | std::ofstream::binary) , m_eof(false) , m_lock() { if (!m_output.is_open()) { std::string message = std::string("Failed to open file '") + filename + "': "; throw std::ofstream::failure(message + std::strerror(errno)); } m_output.exceptions(std::ofstream::failbit | std::ofstream::badbit); } chunk_vec write_fastq::process(analytical_chunk* chunk) { AR_DEBUG_LOCK(m_lock); output_chunk_ptr file_chunk(dynamic_cast(chunk)); const string_vec& lines = file_chunk->reads; if (m_eof) { throw thread_error("write_fastq::process: received data after EOF"); } m_eof = file_chunk->eof; if (file_chunk->buffers.empty()) { for (const auto& line : lines) { m_output << line; } } else { buffer_vec& buffers = file_chunk->buffers; for (const auto& buffer : buffers) { if (buffer.first) { m_output.write(reinterpret_cast(buffer.second), buffer.first); } } } if (m_eof) { m_output.flush(); } std::lock_guard lock(s_timer_lock); s_timer.increment(file_chunk->count); return chunk_vec(); } void write_fastq::finalize() { AR_DEBUG_LOCK(m_lock); std::lock_guard lock(s_timer_lock); if (!s_finalized) { s_timer.finalize(); s_finalized = true; } if (!m_eof) { throw thread_error("write_fastq::finalize: terminated before EOF"); } // Close file to trigger any exceptions due to badbit / failbit m_output.close(); } } // namespace ar adapterremoval-2.2.2/src/fastq_io.hpp000066400000000000000000000275501313314234200176350ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2015 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #ifndef FASTQ_IO_H #define FASTQ_IO_H #include #include #include #include #include "commontypes.hpp" #include "fastq.hpp" #include "linereader_joined.hpp" #include "scheduler.hpp" #include "strutils.hpp" #include "timer.hpp" namespace ar { class userconfig; class fastq_read_chunk; class fastq_output_chunk; typedef std::unique_ptr output_chunk_ptr; typedef std::unique_ptr read_chunk_ptr; typedef std::pair buffer_pair; typedef std::vector buffer_vec; //! Number of FASTQ records to read for each data-chunk const size_t FASTQ_CHUNK_SIZE = 2 * 1024; //! Size of compressed chunks used to transport compressed data const size_t FASTQ_COMPRESSED_CHUNK = 40 * 1024; /** * Container object for (demultiplexed) reads. */ class fastq_read_chunk : public analytical_chunk { public: /** Create chunk representing lines starting at line offset (1-based). */ fastq_read_chunk(bool eof_ = false); //! Indicates that EOF has been reached. bool eof; //! Lines read from the mate 1 files fastq_vec reads_1; //! Lines read from the mate 2 files fastq_vec reads_2; }; /** * Container object for processed reads. */ class fastq_output_chunk : public analytical_chunk { public: /** Constructor; does nothing. */ fastq_output_chunk(bool eof_ = false); /** Destructor; frees buffers. */ ~fastq_output_chunk(); /** Add FASTQ read, accounting for one or more input reads. */ void add(const fastq_encoding& encoding, const fastq& read, size_t count = 1); //! Indicates that EOF has been reached. bool eof; //! The number of reads used to generate this chunk; may differ from the //! the number of reads, in the case of collapsed reads. size_t count; private: friend class gzip_fastq; friend class bzip2_fastq; friend class write_fastq; //! Lines read from the mate 1 and mate 2 files string_vec reads; //! Buffers of compressed lines buffer_vec buffers; }; /** * Simple file reading step. * * Reads from a single FASTQ file, storing the reads in a fastq_file_chunk. * Once the EOF has been reached, a single empty chunk will be returned, * marked using the 'eof' property. */ class read_single_fastq : public analytical_step { public: /** * Constructor. * * @param encoding FASTQ encoding for reading quality scores. * @param filename Path to FASTQ file containing mate 1 / 2 reads. * @param next_step ID of analytical step to which data is forwarded. * * Opens the input file corresponding to the specified mate. */ read_single_fastq(const fastq_encoding* encoding, const string_vec& filenames, size_t next_step); /** Reads N lines from the input file and saves them in an fastq_read_chunk. */ virtual chunk_vec process(analytical_chunk* chunk); /** Finalizer; checks that all input has been processed. */ virtual void finalize(); //! Copy construction not supported read_single_fastq(const read_single_fastq&) = delete; //! Assignment not supported read_single_fastq& operator=(const read_single_fastq&) = delete; private: //! Encoding used to parse FASTQ reads. const fastq_encoding* m_encoding; //! Current line in the input file (1-based) size_t m_line_offset; //! Line reader used to read raw / gzip'd / bzip2'd FASTQ files. joined_line_readers m_io_input; //! The analytical step following this step const size_t m_next_step; //! Used to track whether an EOF block has been received. bool m_eof; //! Lock used to verify that the analytical_step is only run sequentially. std::mutex m_lock; }; /** * Simple file reading step. * * Reads from the mate 1 and the mate 2 files, storing the reads in a * fastq_file_chunk. Once the EOF has been reached, a single empty chunk will * be returned, marked using the 'eof' property. */ class read_paired_fastq : public analytical_step { public: /** * Constructor. */ read_paired_fastq(const fastq_encoding* encoding, const string_vec& filenames_1, const string_vec& filenames_2, size_t next_step); /** Reads N lines from the input file and saves them in an fastq_file_chunk. */ virtual chunk_vec process(analytical_chunk* chunk); /** Finalizer; checks that all input has been processed. */ virtual void finalize(); //! Copy construction not supported read_paired_fastq(const read_paired_fastq&) = delete; //! Assignment not supported read_paired_fastq& operator=(const read_paired_fastq&) = delete; private: //! Encoding used to parse FASTQ reads. const fastq_encoding* m_encoding; //! Current line in the input file (1-based) size_t m_line_offset; //! Line reader used to read raw / gzip'd / bzip2'd FASTQ files. joined_line_readers m_io_input_1; //! Line reader used to read raw / gzip'd / bzip2'd FASTQ files. joined_line_readers m_io_input_2; //! The analytical step following this step const size_t m_next_step; //! Used to track whether an EOF block has been received. bool m_eof; //! Lock used to verify that the analytical_step is only run sequentially. std::mutex m_lock; }; /** * Simple file reading step. * * Reads from an FASTQ file containing interleaved FASTQ reads, storing the * reads in a fastq_file_chunk. Once the EOF has been reached, a single empty * chunk will be returned, marked using the 'eof' property. */ class read_interleaved_fastq : public analytical_step { public: /** * Constructor. */ read_interleaved_fastq(const fastq_encoding* encoding, const string_vec& filenames, size_t next_step); /** Reads N lines from the input file and saves them in an fastq_file_chunk. */ virtual chunk_vec process(analytical_chunk* chunk); /** Finalizer; checks that all input has been processed. */ virtual void finalize(); //! Copy construction not supported read_interleaved_fastq(const read_interleaved_fastq&) = delete; //! Assignment not supported read_interleaved_fastq& operator=(const read_interleaved_fastq&) = delete; private: //! Encoding used to parse FASTQ reads. const fastq_encoding* m_encoding; //! Current line in the input file (1-based) size_t m_line_offset; //! Line reader used to read raw / gzip'd / bzip2'd FASTQ files. joined_line_readers m_io_input; //! The analytical step following this step const size_t m_next_step; //! Used to track whether an EOF block has been received. bool m_eof; //! Lock used to verify that the analytical_step is only run sequentially. std::mutex m_lock; }; /** * BZip2 compression step; takes any lines in the input chunk, compresses them, * and adds them to the buffer list of the chunk, before forwarding it. */ class bzip2_fastq : public analytical_step { public: /** Constructor; 'next_step' sets the destination of compressed chunks. */ bzip2_fastq(const userconfig& config, size_t next_step); /** Compresses input lines, saving compressed chunks to chunk->buffers. */ virtual chunk_vec process(analytical_chunk* chunk); /** Checks that all input has been processed and frees stream. */ virtual void finalize(); //! Copy construction not supported bzip2_fastq(const bzip2_fastq&) = delete; //! Assignment not supported bzip2_fastq& operator=(const bzip2_fastq&) = delete; private: //! N reads which did not result in an output chunk size_t m_buffered_reads; //! The analytical step following this step const size_t m_next_step; //! BZip2 stream object bz_stream m_stream; //! Used to track whether an EOF block has been received. bool m_eof; //! Lock used to verify that the analytical_step is only run sequentially. std::mutex m_lock; }; /** * GZip compression step; takes any lines in the input chunk, compresses them, * and adds them to the buffer list of the chunk, before forwarding it. */ class gzip_fastq : public analytical_step { public: /** Constructor; 'next_step' sets the destination of compressed chunks. */ gzip_fastq(const userconfig& config, size_t next_step); /** Compresses input lines, saving compressed chunks to chunk->buffers. */ virtual chunk_vec process(analytical_chunk* chunk); /** Checks that all input has been processed and frees stream. */ virtual void finalize(); //! Copy construction not supported gzip_fastq(const gzip_fastq&) = delete; //! Assignment not supported gzip_fastq& operator=(const gzip_fastq&) = delete; private: //! N reads which did not result in an output chunk size_t m_buffered_reads; //! The analytical step following this step const size_t m_next_step; //! GZip stream object z_stream m_stream; //! Used to track whether an EOF block has been received. bool m_eof; //! Lock used to verify that the analytical_step is only run sequentially. std::mutex m_lock; }; /** * Simple file reading step. * * The 'process' function takes a fastq_file_chunk object and writes the lines * at the offset corresponding to the 'type' argument to the corresponding * output file. The list of lines is cleared upon writing. */ class write_fastq : public analytical_step { public: /** * Constructor. * * @param filename Filename to which FASTQ reads are written. * * Based on the read-type specified, and SE / PE mode, the corresponding * output file is opened */ write_fastq(const std::string& filename); /** Writes the reads of the type specified in the constructor. */ virtual chunk_vec process(analytical_chunk* chunk); /** Flushes the output file and prints progress report (if enabled). */ virtual void finalize(); private: //! Pointer to output file opened using userconfig::open_with_default_filename. std::ofstream m_output; //! Used to track whether an EOF block has been received. bool m_eof; //! Lock used to verify that the analytical_step is only run sequentially. std::mutex m_lock; }; } // namespace ar #endif adapterremoval-2.2.2/src/linereader.cpp000066400000000000000000000335061313314234200201330ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2015 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #include #include #include #include #include #include #include "linereader.hpp" #include "threads.hpp" namespace ar { //! Size of compressed and uncompressed buffers. const int BUF_SIZE = 10 * BUFSIZ; /////////////////////////////////////////////////////////////////////////////// // Implementations for 'io_error' std::string format_io_msg(const std::string& message, int error_number) { if (error_number) { std::stringstream stream; stream << message << " ('" << std::strerror(error_number) << "')"; return stream.str(); } else { return message; } } io_error::io_error(const std::string& message, int error_number) : std::ios_base::failure(format_io_msg(message, error_number)) { } /////////////////////////////////////////////////////////////////////////////// // Implementations for 'gzip_error' std::string format_gzip_msg(const std::string& message, const char* gzip_msg) { if (gzip_msg) { std::stringstream stream; stream << message << " ('" << gzip_msg << "')"; return stream.str(); } else { return message; } } gzip_error::gzip_error(const std::string& message, const char* gzip_msg) : io_error(format_gzip_msg(message, gzip_msg)) { } /////////////////////////////////////////////////////////////////////////////// // Implementations for 'gzip_error' bzip2_error::bzip2_error(const std::string& message) : io_error(message) { } /////////////////////////////////////////////////////////////////////////////// // Implementations for 'line_reader' line_reader::line_reader(const std::string& fpath) : m_file(fopen(fpath.c_str(), "rb")) , m_gzip_stream(nullptr) , m_bzip2_stream(nullptr) , m_buffer(nullptr) , m_buffer_ptr(nullptr) , m_buffer_end(nullptr) , m_raw_buffer(new char[BUF_SIZE]) , m_raw_buffer_end(m_raw_buffer + BUF_SIZE) , m_eof(false) { if (!m_file) { throw io_error("line_reader::open: failed to open file", errno); } } line_reader::~line_reader() { try { close_buffers_gzip(); close_buffers_bzip2(); delete[] m_raw_buffer; m_raw_buffer = nullptr; if (fclose(m_file)) { throw io_error("line_reader::close: error closing file", errno); } } catch (const std::exception& error) { print_locker lock; std::cerr << "Error closing file: " << error.what() << std::endl; std::exit(1); } } bool line_reader::getline(std::string& dst) { dst.clear(); while (m_file && !m_eof) { const char* start = m_buffer_ptr; char* end = m_buffer_ptr; for (; end != m_buffer_end; ++end) { if (*end == '\n') { // Excluding terminal \n dst.append(start, end - start); if (!dst.empty() && dst.back() == '\r') { // Excluding terminal \r; dst is examined, since the \r may // have been added separately, if the \r was the last // character in the previous buffer fill (see below). dst.pop_back(); } m_buffer_ptr = end + 1; return true; } } // Can potentially introduce a \r; this is handled above. dst.append(start, end - start); refill_buffers(); } return !dst.empty(); } void line_reader::refill_buffers() { if (m_buffer) { if (m_gzip_stream) { refill_buffers_gzip(); } else if (m_bzip2_stream) { refill_buffers_bzip2(); } else { refill_raw_buffer(); refill_buffers_uncompressed(); } } else { refill_raw_buffer(); if (identify_gzip()) { initialize_buffers_gzip(); } else if (identify_bzip2()) { initialize_buffers_bzip2(); } else { refill_buffers_uncompressed(); } } } void line_reader::refill_buffers_uncompressed() { m_buffer = m_raw_buffer; m_buffer_ptr = m_raw_buffer; m_buffer_end = m_raw_buffer_end; } void line_reader::refill_raw_buffer() { const int nread = fread(m_raw_buffer, 1, BUF_SIZE, m_file); if (nread == BUF_SIZE) { m_raw_buffer_end = m_raw_buffer + BUF_SIZE; } else if (ferror(m_file)) { throw io_error("line_reader::refill_buffer: error reading file", errno); } else { // EOF set only once all data has been consumed m_eof = (nread == 0); m_raw_buffer_end = m_raw_buffer + nread; } } bool line_reader::identify_gzip() const { if (m_raw_buffer_end - m_raw_buffer < 2) { return false; } else if (m_raw_buffer[0] != '\x1f' || m_raw_buffer[1] != '\x8b') { return false; } return true; } void line_reader::initialize_buffers_gzip() { m_buffer = new char[BUF_SIZE]; m_buffer_ptr = m_buffer + BUF_SIZE; m_buffer_end = m_buffer + BUF_SIZE; m_gzip_stream = new z_stream(); m_gzip_stream->zalloc = nullptr; m_gzip_stream->zfree = nullptr; m_gzip_stream->opaque = nullptr; m_gzip_stream->avail_in = m_raw_buffer_end - m_raw_buffer; m_gzip_stream->next_in = reinterpret_cast(m_raw_buffer); switch (inflateInit2(m_gzip_stream, 15 + 16)) { case Z_OK: break; case Z_MEM_ERROR: throw gzip_error("line_reader::initialize_buffers_gzip: insufficient memory", m_gzip_stream ? m_gzip_stream->msg : nullptr); case Z_VERSION_ERROR: throw gzip_error("line_reader::initialize_buffers_gzip: incompatible zlib version", m_gzip_stream ? m_gzip_stream->msg : nullptr); case Z_STREAM_ERROR: throw gzip_error("line_reader::initialize_buffers_gzip: invalid parameters", m_gzip_stream ? m_gzip_stream->msg : nullptr); default: throw gzip_error("line_reader::initialize_buffers_gzip: unknown error", m_gzip_stream ? m_gzip_stream->msg : nullptr); } } void line_reader::refill_buffers_gzip() { if (!m_gzip_stream->avail_in) { refill_raw_buffer(); m_gzip_stream->avail_in = m_raw_buffer_end - m_raw_buffer; m_gzip_stream->next_in = reinterpret_cast(m_raw_buffer); } m_gzip_stream->avail_out = BUF_SIZE; m_gzip_stream->next_out = reinterpret_cast(m_buffer); switch (inflate(m_gzip_stream, Z_NO_FLUSH)) { case Z_OK: case Z_BUF_ERROR: /* input buffer empty or output buffer full */ break; case Z_STREAM_END: // Handle concatenated streams; causes unnecessary reset at EOF if (inflateReset(m_gzip_stream) != Z_OK) { throw gzip_error("line_reader::refill_buffers_gzip: failed to reset stream", m_gzip_stream ? m_gzip_stream->msg : nullptr); } break; case Z_STREAM_ERROR: throw gzip_error("line_reader::refill_buffers_gzip: inconsistent stream state", m_gzip_stream ? m_gzip_stream->msg : nullptr); default: throw gzip_error("line_reader::refill_buffers_gzip: unknown error", m_gzip_stream ? m_gzip_stream->msg : nullptr); } m_buffer_ptr = m_buffer; m_buffer_end = m_buffer + (BUF_SIZE - m_gzip_stream->avail_out); } void line_reader::close_buffers_gzip() { if (m_gzip_stream) { switch (inflateEnd(m_gzip_stream)) { case Z_OK: break; case Z_STREAM_ERROR: throw gzip_error("line_reader::close: stream error", m_gzip_stream ? m_gzip_stream->msg : nullptr); default: throw gzip_error("Unknown error in line_reader::close", m_gzip_stream ? m_gzip_stream->msg : nullptr); } delete m_gzip_stream; m_gzip_stream = nullptr; delete[] m_buffer; m_buffer = nullptr; } } void bzip2_initialize_stream(bz_stream* stream) { switch (BZ2_bzDecompressInit(stream, /* verbosity */ 0, /* small */ 0)) { case BZ_OK: break; case BZ_CONFIG_ERROR: throw bzip2_error("bzip2_initialize_buffer: " "bzip2 library is miscompiled"); case BZ_PARAM_ERROR: throw bzip2_error("bzip2_initialize_buffer: " "invalid parameters during initialization"); case BZ_MEM_ERROR: throw bzip2_error("bzip2_initialize_buffer: " "insufficient memory to initialize"); case BZ_SEQUENCE_ERROR: throw bzip2_error("bzip2_initialize_buffer: bzip2 sequence error"); default: throw bzip2_error("bzip2_initialize_buffer: unknown error"); } } void bzip2_close_stream(bz_stream* stream) { switch (BZ2_bzDecompressEnd(stream)) { case BZ_OK: break; case BZ_PARAM_ERROR: throw bzip2_error("bzip2_close_stream: invalid parameters"); case BZ_SEQUENCE_ERROR: throw bzip2_error("bzip2_close_stream: bzip2 sequence error"); default: throw bzip2_error("bzip2_close_stream: unknown bzip2 error"); } } bool line_reader::identify_bzip2() const { if (m_raw_buffer_end - m_raw_buffer < 4) { return false; } else if (m_raw_buffer[0] != 'B' || m_raw_buffer[1] != 'Z') { // Fixed magic header "BZ" return false; } else if (m_raw_buffer[2] != 'h' && m_raw_buffer[2] != '0') { // bzip2 or bzip1 (deprecated) return false; } else if (m_raw_buffer[3] < '1' || m_raw_buffer[3] > '9') { // Blocksizes; '1' - '9' return false; } return true; } void line_reader::initialize_buffers_bzip2() { m_buffer = new char[BUF_SIZE]; m_buffer_ptr = m_buffer + BUF_SIZE; m_buffer_end = m_buffer + BUF_SIZE; m_bzip2_stream = new bz_stream(); m_bzip2_stream->bzalloc = nullptr; m_bzip2_stream->bzfree = nullptr; m_bzip2_stream->opaque = nullptr; m_bzip2_stream->avail_in = m_raw_buffer_end - m_raw_buffer; m_bzip2_stream->next_in = m_raw_buffer; bzip2_initialize_stream(m_bzip2_stream); } void line_reader::refill_buffers_bzip2() { if (!m_bzip2_stream->avail_in) { refill_raw_buffer(); m_bzip2_stream->avail_in = m_raw_buffer_end - m_raw_buffer; m_bzip2_stream->next_in = m_raw_buffer; } m_bzip2_stream->avail_out = BUF_SIZE; m_bzip2_stream->next_out = m_buffer; if (m_bzip2_stream->avail_in) { switch (BZ2_bzDecompress(m_bzip2_stream)) { case BZ_OK: break; case BZ_STREAM_END: // Close an restart stream, to handle concatenated files bzip2_close_stream(m_bzip2_stream); bzip2_initialize_stream(m_bzip2_stream); break; case BZ_PARAM_ERROR: throw bzip2_error("line_reader::refill_buffers_bzip2: " "inconsistent bzip2 parameters"); case BZ_DATA_ERROR: case BZ_DATA_ERROR_MAGIC: throw bzip2_error("line_reader::refill_buffers_bzip2: " "malformed bzip2 file"); case BZ_MEM_ERROR: throw bzip2_error("line_reader::refill_buffers_bzip2: " "insufficient memory to deflate bzip2 stream"); case BZ_SEQUENCE_ERROR: throw bzip2_error("line_reader::refill_buffers_bzip2: " "bzip2 sequence error"); default: throw bzip2_error("line_reader::refill_buffers_bzip2: " "unknown bzip2 error"); } } m_buffer_ptr = m_buffer; m_buffer_end = m_buffer + (BUF_SIZE - m_bzip2_stream->avail_out); } void line_reader::close_buffers_bzip2() { if (m_bzip2_stream) { bzip2_close_stream(m_bzip2_stream); delete m_bzip2_stream; m_bzip2_stream = nullptr; delete[] m_buffer; m_buffer = nullptr; } } } // namespace ar adapterremoval-2.2.2/src/linereader.hpp000066400000000000000000000124601313314234200201340ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2015 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #ifndef GZFILE_H #define GZFILE_H #include #include #include #include #include namespace ar { /** Represents errors during basic IO. */ class io_error : public std::ios_base::failure { public: io_error(const std::string& message, int error_number = 0); }; /** Represents errors during GZip (de)compression. */ class gzip_error : public io_error { public: gzip_error(const std::string& message, const char* gzip_msg = nullptr); }; /** Represents errors during BZip2 (de)compression. */ class bzip2_error : public io_error { public: bzip2_error(const std::string& message); }; /** Base-class for line reading; used by receivers. */ class line_reader_base { public: /** Does nothing. */ line_reader_base(); /** Closes the file, if still open. */ virtual ~line_reader_base(); /** Reads a lien into dst, returning false on EOF. */ virtual bool getline(std::string& dst) = 0; }; /** * Simple line reader. * * Currently reads * - uncompressed files * - gzip compressed files * - bzip2 compressed files * * Errors are reported using either 'io_error' or 'gzip_error'. */ class line_reader : public line_reader_base { public: /** Constructor; opens file and throws on errors. */ line_reader(const std::string& fpath); /** Closes the file, if still open. */ ~line_reader(); /** Reads a lien into dst, returning false on EOF. */ bool getline(std::string& dst); //! Copy construction not supported line_reader(const line_reader&) = delete; //! Assignment not supported line_reader& operator=(const line_reader&) = delete; private: //! Refills 'm_buffer' and sets 'm_buffer_ptr' and 'm_buffer_end'. void refill_buffers(); //! Raw file used to read input. FILE* m_file; /** Refills 'm_raw_buffer'; sets 'm_raw_buffer_ptr' and 'm_raw_buffer_end'. */ void refill_raw_buffer(); /** Points 'm_buffer' and other points to corresponding 'm_raw_buffer's. */ void refill_buffers_uncompressed(); //! GZip stream pointer; used if input it detected to be gzip compressed. z_stream* m_gzip_stream; /** Returns true if the raw buffer contains gzip'd data. */ bool identify_gzip() const; /** Initializes gzip stream and output buffers. */ void initialize_buffers_gzip(); /** Refills 'm_buffer' from compressed data; may refill raw buffers. */ void refill_buffers_gzip(); /** Closes gzip buffers and frees associated memory. */ void close_buffers_gzip(); //! GZip stream pointer; used if input it detected to be gzip compressed. bz_stream* m_bzip2_stream; /** Returns true if the raw buffer contains bzip2'd data. */ bool identify_bzip2() const; /** Initializes bzip2 stream and output buffers. */ void initialize_buffers_bzip2(); /** Refills 'm_buffer' from compressed data; may refill raw buffers. */ void refill_buffers_bzip2(); /** Closes gzip2 buffers and frees associated memory. */ void close_buffers_bzip2(); //! Pointer to buffer of decompressed data. char* m_buffer; //! Pointer to current location in input buffer. char* m_buffer_ptr; //! Pointer to end of current buffer. char* m_buffer_end; //! Pointer to buffer of raw data. char* m_raw_buffer; //! Pointer to end of current raw buffer. char* m_raw_buffer_end; //! Indicates if a read across the EOF has been attempted. bool m_eof; }; /////////////////////////////////////////////////////////////////////////////// inline line_reader_base::line_reader_base() { } inline line_reader_base::~line_reader_base() { } } // namespace ar #endif adapterremoval-2.2.2/src/linereader_joined.cpp000066400000000000000000000053411313314234200214570ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2015 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #include #include #include #include #include #include #include #include "debug.hpp" #include "linereader_joined.hpp" #include "threads.hpp" namespace ar { joined_line_readers::joined_line_readers(const string_vec& filenames) : m_filenames(filenames.rbegin(), filenames.rend()) , m_reader() { } joined_line_readers::~joined_line_readers() { } bool joined_line_readers::getline(std::string& dst) { dst.clear(); while (dst.empty()) { if (m_reader && m_reader->getline(dst)) { break; } else if (!open_next_file()) { break; } } return !dst.empty(); } bool joined_line_readers::open_next_file() { if (m_filenames.empty()) { return false; } auto filename = m_filenames.back(); { print_locker lock; std::cerr << "Opening FASTQ file '" << filename << "'" << std::endl; } m_reader.reset(new line_reader(filename)); m_filenames.pop_back(); return true; } } adapterremoval-2.2.2/src/linereader_joined.hpp000066400000000000000000000062531313314234200214670ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2017 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #ifndef LINEREADER_JOINED_H #define LINEREADER_JOINED_H #include #include "commontypes.hpp" #include "linereader.hpp" namespace ar { /** * Multi-file line-reader * * Wrapper around line_reader that automatically reads through one or more * files, returning the content as a contiguous stream of lines. No assumptions * are made about the format of the individual files. */ class joined_line_readers : public line_reader_base { public: /** Creates line-reader over multiple files in the specified order. */ joined_line_readers(const string_vec& filenames); /** Closes any still open files. */ ~joined_line_readers(); /** * Reads a line from the currently open file; if EOF is encountered, the * currently open file is closed and the next file is opened. Returns true * if a line was successfully read, or false if no files remain. */ bool getline(std::string& dst); //! Copy construction not supported joined_line_readers(const joined_line_readers&) = delete; //! Assignment not supported joined_line_readers& operator=(const joined_line_readers&) = delete; private: /** * Open the next file, removes it from the queue, and returns true; returns * false if no files remain to be processed. */ bool open_next_file(); //! Files left to read; stored in reverse order. string_vec m_filenames; //! Currently open file, if any. std::unique_ptr m_reader; }; } // namespace ar #endif adapterremoval-2.2.2/src/main.cpp000066400000000000000000000066711313314234200167500ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2011 by Stinus Lindgreen - stinus@binf.ku.dk * * Copyright (C) 2014 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #include #include "debug.hpp" #include "main.hpp" #include "userconfig.hpp" namespace ar { // See main_adapter_rm.cpp int remove_adapter_sequences(const userconfig& config); // See main_adapter_id.cpp int identify_adapter_sequences(const userconfig& config); // See main_demultiplex.cpp int demultiplex_sequences(const userconfig& config); } // namespace ar int main(int argc, char *argv[]) { using namespace ar; std::ios_base::sync_with_stdio(false); userconfig config(NAME, VERSION, HELPTEXT); switch (config.parse_args(argc, argv)) { case argparse::parse_result::error: { return 1; } case argparse::parse_result::exit: { // --version, --help, or similar used. return 0; } default: { // Ok } } auto returncode = 0; switch (config.run_type) { case ar_command::trim_adapters: { returncode = remove_adapter_sequences(config); break; } case ar_command::demultiplex_sequences: { returncode = demultiplex_sequences(config); break; } case ar_command::identify_adapters: { return identify_adapter_sequences(config); } default: { std::cerr << "ERROR: Unknown run-type: " << static_cast(config.run_type) << std::endl; return 1; } } if (returncode) { std::cerr << "ERROR: AdapterRemoval did not run to completion;\n" << " do NOT make use of resulting trimmed reads!" << std::endl; } return returncode; } adapterremoval-2.2.2/src/main.hpp000066400000000000000000000052721313314234200167510ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2011 by Stinus Lindgreen - stinus@binf.ku.dk * * Copyright (C) 2014 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #ifndef MAIN_H #define MAIN_H #include namespace ar { const std::string NAME = "AdapterRemoval"; const std::string VERSION = "ver. 2.2.2"; const std::string HELPTEXT = \ "This program searches for and removes remnant adapter sequences from\n" "your read data. The program can analyze both single end and paired end\n" "data. For detailed explanation of the parameters, please refer to the\n" "man page. For comments, suggestions and feedback please contact Stinus\n" "Lindgreen (stinus@binf.ku.dk) and Mikkel Schubert (MikkelSch@gmail.com).\n" "\n" "If you use the program, please cite the paper:\n" " Schubert, Lindgreen, and Orlando (2016). AdapterRemoval v2: rapid\n" " adapter trimming, identification, and read merging.\n" " BMC Research Notes, 12;9(1):88.\n\n" " http://bmcresnotes.biomedcentral.com/articles/10.1186/s13104-016-1900-2\n"; } // namespace ar #endif adapterremoval-2.2.2/src/main_adapter_id.cpp000066400000000000000000000401141313314234200211120ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2015 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #include #include #include #include #include #include #include #include #include "alignment.hpp" #include "debug.hpp" #include "fastq_io.hpp" #include "scheduler.hpp" #include "strutils.hpp" #include "timer.hpp" #include "userconfig.hpp" namespace ar { /////////////////////////////////////////////////////////////////////////////// // KMer related functions and constants //! Length of kmers to collect to find common kmers const size_t KMER_LENGTH = 9; //! Size of vector needed for kmer counts const size_t N_KMERS = 2 << (2 * KMER_LENGTH); //! The N most common kmers to print const size_t TOP_N_KMERS = 5; /** * Hashing function for string consisting of the chars "ACGT" (uppercase only). * Will return a unique number in the range 0 to 4^N - 1 for a given nucleotide * sequence. Passing characters other than "ACGT" (uppercase only) will result * in hash collisions. */ inline size_t kmer_to_size_t(const std::string& kmer) { size_t index = 0; for (size_t i = 0; i < kmer.length(); ++i) { index = (index << 2) | ACGT_TO_IDX(kmer.at(i)); } return index; } /** Translates a hash generated using kmer_to_size_t into a NT sequence. */ inline std::string size_t_to_kmer(size_t kmer) { std::string kmer_s(KMER_LENGTH, 'N'); for (size_t i = 1; i <= KMER_LENGTH; ++i) { kmer_s.at(KMER_LENGTH - i) = "ACTG"[kmer & 0x3]; kmer = kmer >> 2; } return kmer_s; } /** Simple structure for counting the frequency of A, C, G, and Ts. */ struct nt_counts { nt_counts() : counts(4, 0) { } /** Increment count of a nucleotide A, C, G, or T (uppercase only). */ void increment(char nt) { ++counts.at(ACGT_TO_IDX(nt)); } /** Merge count objects. */ nt_counts& operator+=(const nt_counts& other) { merge_vectors(counts, other.counts); return *this; } //! Fixed sized vector (4) std::vector counts; }; typedef std::vector nt_count_vec; typedef std::vector kmer_map; typedef std::pair nt_count; /** Functor for sorting kmers by frequency. */ struct cmp_nt_count { bool operator()(const nt_count& a, const nt_count& b) const { return (a.second > b.second); } }; typedef std::priority_queue, cmp_nt_count> kmer_queue; typedef std::vector kmer_vector; /** Prints the N top kmers in a kmer_map, including sequence and frequency. */ void print_most_common_kmers(const kmer_map& kmers, size_t print_n = TOP_N_KMERS) { size_t total = 0; kmer_queue queue; for (size_t i = 0; i < kmers.size(); ++i) { nt_count value(i, kmers.at(i)); total += value.second; if (queue.size() >= print_n) { // The top value will be the currently lowest value in the queue if (queue.top().second < value.second) { queue.pop(); queue.push(value); } } else if (value.second) { queue.push(value); } } kmer_vector top_n_kmers; while (!queue.empty()) { top_n_kmers.push_back(queue.top()); queue.pop(); } std::cout.precision(2); std::cout << std::fixed; std::cout << " Top 5 most common " << KMER_LENGTH << "-bp 5'-kmers:\n"; std::reverse(top_n_kmers.begin(), top_n_kmers.end()); for (size_t i = 0; i < top_n_kmers.size(); ++i) { const nt_count& count = top_n_kmers.at(i); std::string kmer_s = size_t_to_kmer(count.first); std::cout << std::string(12, ' '); std::cout << i + 1<< ": " << kmer_s << " = " << std::right << std::setw(5) << (100.0 * count.second) / total << "% (" << count.second << ")" << "\n"; } } /////////////////////////////////////////////////////////////////////////////// // Consensus adapter related functions and constants /** * Build representation of identity between an adapter and a consensus sequence. * * The resulting string represents N with wildcards ('*'), matching bases with * pipes ('|') and mismatches with spaces (' '). Only overlapping bases are * compared. */ std::string compare_consensus_with_ref(const std::string& ref, const std::string& consensus) { std::stringstream identity; for (size_t i = 0, size = std::min(consensus.size(), ref.size()); i < size; ++i) { if (ref.at(i) == 'N' || consensus.at(i) == 'N') { identity << '*'; } else { identity << (ref.at(i) == consensus.at(i) ? '|' : ' '); } } return identity.str(); } /** * Takes a nt_counts object, and returns a pair containing the majority nt and * the Phred encoded quality score of the consensus, defined as the proportion * of the bases which match the majority nucleotide (p = m / (N + 1)). If no * majority nucleotide can be found, 'N' is returned instead. */ std::pair get_consensus_nt(const nt_counts& nts) { const char* NTs = "ACGT"; // Always assume one non-consensus observation; this is more reasonable // than allowing an error-rate of 0, especially for few observations. size_t total_count = 1; char best_nt = 'N'; size_t best_count = 0; for (size_t nt_i = 0; nt_i < 4; ++nt_i) { const size_t cur_count = nts.counts.at(ACGT_TO_IDX(NTs[nt_i])); total_count += cur_count; if (cur_count > best_count) { best_nt = NTs[nt_i]; best_count = cur_count; } else if (cur_count == best_count) { best_nt = 'N'; } } const double pvalue = 1.0 - best_count / static_cast(total_count); const char phred = fastq::p_to_phred_33(pvalue); return std::pair(best_nt, phred); } /** * Prints description of consensus adapter sequence. * * @param counts Observed nucleotide frequencies. * @param kmers Observed kmer frequencies. * @param name Argument name for adapter (--adapter1 / adapter2) * @param ref Default sequence for the inferred adapter */ void print_consensus_adapter(const nt_count_vec& counts, const kmer_map& kmers, const std::string& name, const std::string& ref) { std::stringstream sequence; std::stringstream qualities; for(nt_count_vec::const_iterator it = counts.begin(); it != counts.end(); ++it) { const std::pair consensus = get_consensus_nt(*it); sequence << consensus.first; qualities << consensus.second; } const std::string consensus = sequence.str(); const std::string identity = compare_consensus_with_ref(ref, consensus); std::cout << " " << name << ": " << ref << "\n" << " " << identity << "\n" << " Consensus: " << consensus << "\n" << " Quality: " << qualities.str() << "\n\n"; print_most_common_kmers(kmers); } /////////////////////////////////////////////////////////////////////////////// // /** Struct for collecting adapter fragments, kmer frequencies, and read stats. */ struct adapter_stats { public: adapter_stats(const userconfig& config) : pcr1_counts() , pcr2_counts() , pcr1_kmers(N_KMERS, 0) , pcr2_kmers(N_KMERS, 0) , stats(config.create_stats()) { } /** Merge overall statistics, consensus, and k-mer counts. */ adapter_stats& operator+=(const adapter_stats& other) { *stats += *other.stats; merge_vectors(pcr1_counts, other.pcr1_counts); merge_vectors(pcr2_counts, other.pcr2_counts); merge_vectors(pcr1_kmers, other.pcr1_kmers); merge_vectors(pcr2_kmers, other.pcr2_kmers); return *this; } //! Nucleotide frequencies of putative adapter 1 fragments nt_count_vec pcr1_counts; //! Nucleotide frequencies of putative adapter 2 fragments nt_count_vec pcr2_counts; //! 5' KMer frequencies of putative adapter 1 fragments kmer_map pcr1_kmers; //! 5' KMer frequencies of putative adapter 2 fragments kmer_map pcr2_kmers; //! Statistics object for (number of) processed reads statistics_ptr stats; //! Copy construction not supported adapter_stats(const adapter_stats&) = delete; //! Assignment not supported adapter_stats& operator=(const adapter_stats&) = delete; }; /** Class for building (and merging) adapter_stats objects on demand. */ class adapter_sink : public statistics_sink { public: adapter_sink(const userconfig& config) : m_config(config) { } protected: virtual pointer new_sink() const { return pointer(new adapter_stats(m_config)); } virtual void reduce(pointer& dst, const pointer& src) const { (*dst) += (*src); } //! Copy construction not supported adapter_sink(const adapter_sink&) = delete; //! Assignment not supported adapter_sink& operator=(const adapter_sink&) = delete; private: const userconfig& m_config; }; /////////////////////////////////////////////////////////////////////////////// // Threaded adapter identification step class adapter_identification : public analytical_step { public: adapter_identification(const userconfig& config) : analytical_step(analytical_step::ordering::unordered) , m_config(config) , m_timer("reads") , m_sinks(config) { } chunk_vec process(analytical_chunk* chunk) { if (!chunk) { throw std::invalid_argument("sink received nullptr chunk"); } const fastq empty_adapter("dummy", "", ""); fastq_pair_vec adapters; adapters.push_back(fastq_pair(empty_adapter, empty_adapter)); read_chunk_ptr file_chunk(dynamic_cast(chunk)); adapter_sink::pointer sink = m_sinks.get_sink(); statistics& stats = *sink->stats; AR_DEBUG_ASSERT(file_chunk->reads_1.size() == file_chunk->reads_2.size()); fastq_vec::iterator read_1 = file_chunk->reads_1.begin(); fastq_vec::iterator read_2 = file_chunk->reads_2.begin(); while (read_1 != file_chunk->reads_1.end()) { process_reads(adapters, stats, *sink, *read_1++, *read_2++); } m_sinks.return_sink(std::move(sink)); m_timer.increment(file_chunk->reads_1.size() * 2); return chunk_vec(); } /** Prints summary of inferred consensus sequences. */ void finalize() { m_timer.finalize(); std::unique_ptr sink(m_sinks.finalize()); std::cout << " Found " << sink->stats->well_aligned_reads << " overlapping pairs ...\n" << " Of which " << sink->stats->number_of_reads_with_adapter.at(0) << " contained adapter sequence(s) ...\n\n" << "Printing adapter sequences, including poly-A tails:" << std::endl; print_consensus_adapter(sink->pcr1_counts, sink->pcr1_kmers, "--adapter1", m_config.adapters.get_raw_adapters().front().first.sequence()); std::cout << "\n\n"; fastq adapter2 = m_config.adapters.get_raw_adapters().front().second; adapter2.reverse_complement(); print_consensus_adapter(sink->pcr2_counts, sink->pcr2_kmers, "--adapter2", adapter2.sequence()); } private: void process_reads(const fastq_pair_vec& adapters, statistics& stats, adapter_stats& sink, fastq& read1, fastq& read2) { // Throws if read-names or mate numbering does not match fastq::validate_paired_reads(read1, read2); // Reverse complement to match the orientation of read1 read2.reverse_complement(); const alignment_info alignment = align_paired_ended_sequences(read1, read2, adapters, m_config.shift); if (m_config.is_good_alignment(alignment)) { stats.well_aligned_reads++; if (m_config.is_alignment_collapsible(alignment)) { if (extract_adapter_sequences(alignment, read1, read2)) { stats.number_of_reads_with_adapter.at(0)++; process_adapter(read1.sequence(), sink.pcr1_counts, sink.pcr1_kmers); read2.reverse_complement(); process_adapter(read2.sequence(), sink.pcr2_counts, sink.pcr2_kmers); } } } else { stats.unaligned_reads++; } } void process_adapter(const std::string& sequence, nt_count_vec& counts, kmer_map& kmers) { if (counts.size() < sequence.length()) { counts.resize(sequence.length()); } for (size_t i = 0; i < std::min(counts.size(), sequence.length()); ++i) { counts.at(i).increment(sequence.at(i)); } if (sequence.length() >= KMER_LENGTH) { const std::string kmer = sequence.substr(0, KMER_LENGTH); if (!std::count(kmer.begin(), kmer.end(), 'N')) { kmers.at(kmer_to_size_t(kmer)) += 1; } } } const userconfig& m_config; timer m_timer; adapter_sink m_sinks; }; int identify_adapter_sequences(const userconfig& config) { std::cout << "Attempting to identify adapter sequences ..." << std::endl; scheduler sch; try { if (config.interleaved_input) { sch.add_step(ai_read_fastq, "read_interleaved_fastq", new read_interleaved_fastq(config.quality_input_fmt.get(), config.input_files_1, ai_identify_adapters)); } else { sch.add_step(ai_read_fastq, "read_paired_fastq", new read_paired_fastq(config.quality_input_fmt.get(), config.input_files_1, config.input_files_2, ai_identify_adapters)); } } catch (const std::ios_base::failure& error) { std::cerr << "IO error opening file; aborting:\n" << cli_formatter::fmt(error.what()) << std::endl; return 1; } sch.add_step(ai_identify_adapters, "identify_adapters", new adapter_identification(config)); if (!sch.run(config.max_threads)) { return 1; } return 0; } } // namespace ar adapterremoval-2.2.2/src/main_adapter_rm.cpp000066400000000000000000000736511313314234200211500ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2011 by Stinus Lindgreen - stinus@binf.ku.dk * * Copyright (C) 2014 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #include #include #include #include #include #include #include #include #include "alignment.hpp" #include "debug.hpp" #include "demultiplex.hpp" #include "fastq.hpp" #include "fastq_io.hpp" #include "main.hpp" #include "strutils.hpp" #include "trimmed_reads.hpp" #include "userconfig.hpp" namespace ar { typedef std::unique_ptr mt19937_ptr; void write_settings(const userconfig& config, std::ostream& output, int nth) { output << NAME << " " << VERSION << "\nTrimming of "; if (config.adapters.barcode_count()) { if (config.adapters.get_barcodes().front().second.length()) { output << "double-indexed "; } else { output << "single-indexed "; } } if (config.paired_ended_mode) { if (config.interleaved_input) { output << "interleaved "; } output << "paired-end reads\n"; } else { output << "single-end reads\n"; } if (config.adapters.barcode_count()) { output << "\n\n[Demultiplexing]" << "\nMaximum mismatches (total): " << config.barcode_mm; if (config.paired_ended_mode) { output << "\nMaximum mate 1 mismatches: " << config.barcode_mm_r1; output << "\nMaximum mate 2 mismatches: " << config.barcode_mm_r2; } output << "\n\n\n[Demultiplexing samples]" << "\nName\tBarcode_1\tBarcode_2\n"; const fastq_pair_vec barcodes = config.adapters.get_barcodes(); for (size_t idx = 0; idx < barcodes.size(); ++idx) { output << config.adapters.get_sample_name(idx); if (static_cast(idx) == nth) { output << "*"; } const fastq_pair& current = barcodes.at(idx); output << "\t" << current.first.sequence(); if (current.second.length()) { output << "\t" << current.second.sequence() << "\n"; } else { output << "\t*\n"; } } } output << "\n\n[Adapter sequences]"; if (nth == -1) { const fastq_pair_vec adapters = config.adapters.get_raw_adapters(); size_t adapter_id = 0; for (auto it = adapters.cbegin(); it != adapters.cend(); ++it, ++adapter_id) { output << "\nAdapter1[" << adapter_id + 1 << "]: " << it->first.sequence(); fastq adapter_2 = it->second; adapter_2.reverse_complement(); output << "\nAdapter2[" << adapter_id + 1 << "]: " << adapter_2.sequence() << "\n"; } } else { const string_pair_vec adapters = config.adapters.get_pretty_adapter_set(nth); size_t adapter_id = 0; for (auto it = adapters.cbegin(); it != adapters.cend(); ++it, ++adapter_id) { output << "\nAdapter1[" << adapter_id + 1 << "]: " << it->first; output << "\nAdapter2[" << adapter_id + 1 << "]: " << it->second << "\n"; } } output << "\n\n[Adapter trimming]"; if (config.max_threads > 1) { output << "\nRNG seed: NA"; } else { output << "\nRNG seed: " << config.seed; } output << "\nAlignment shift value: " << config.shift << "\nGlobal mismatch threshold: " << config.mismatch_threshold << "\nQuality format (input): " << config.quality_input_fmt->name() << "\nQuality score max (input): " << config.quality_input_fmt->max_score() << "\nQuality format (output): " << config.quality_output_fmt->name() << "\nQuality score max (output): " << config.quality_output_fmt->max_score() << "\nMate-number separator (input): '" << config.mate_separator << "'" << "\nTrimming Ns: " << ((config.trim_ambiguous_bases) ? "Yes" : "No") << "\nTrimming Phred scores <= " << config.low_quality_score << ": " << (config.trim_by_quality ? "Yes" : "No") << "\nTrimming using sliding windows: "; if (config.trim_window_length >= 1) { output << static_cast(config.trim_window_length); } else if (config.trim_window_length >= 0) { output << config.trim_window_length; } else { output << "No"; } output << "\nMinimum genomic length: " << config.min_genomic_length << "\nMaximum genomic length: " << config.max_genomic_length << "\nCollapse overlapping reads: " << ((config.collapse) ? "Yes" : "No") << "\nMinimum overlap (in case of collapse): " << config.min_alignment_length; if (!config.paired_ended_mode) { output << "\nMinimum adapter overlap: " << config.min_adapter_overlap; } } void write_trimming_settings(const userconfig& config, const statistics& stats, size_t nth, std::ostream& settings) { write_settings(config, settings, nth); const std::string reads_type = (config.paired_ended_mode ? "read pairs: " : "reads: "); settings << "\n\n\n[Trimming statistics]" << "\nTotal number of " << reads_type << stats.records << "\nNumber of unaligned " << reads_type << stats.unaligned_reads << "\nNumber of well aligned " << reads_type << stats.well_aligned_reads << "\nNumber of discarded mate 1 reads: " << stats.discard1 << "\nNumber of singleton mate 1 reads: " << stats.keep1; if (config.paired_ended_mode) { settings << "\nNumber of discarded mate 2 reads: " << stats.discard2 << "\nNumber of singleton mate 2 reads: " << stats.keep2; } for (size_t adapter_id = 0; adapter_id < stats.number_of_reads_with_adapter.size(); ++adapter_id) { const size_t count = stats.number_of_reads_with_adapter.at(adapter_id); // Value between 0 and stats.records for SE, and 0 and 2*stats.records // for N PE pairs. For PE reads, mate 1 and mate 2 reads being of // unequal length can cause uneven numbers. settings << "\nNumber of reads with adapters[" << adapter_id + 1 << "]: " << count; } if (config.collapse) { settings << "\nNumber of full-length collapsed pairs: " << stats.number_of_full_length_collapsed << "\nNumber of truncated collapsed pairs: " << stats.number_of_truncated_collapsed; } settings << "\nNumber of retained reads: " << stats.total_number_of_good_reads << "\nNumber of retained nucleotides: " << stats.total_number_of_nucleotides << "\nAverage length of retained reads: " << (stats.total_number_of_good_reads ? ( static_cast(stats.total_number_of_nucleotides) / stats.total_number_of_good_reads) : 0); settings << "\n\n\n[Length distribution]" << "\nLength\tMate1\t"; if (config.paired_ended_mode) { settings << "Mate2\tSingleton\t"; } if (config.collapse) { settings << "Collapsed\tCollapsedTruncated\t"; } settings << "Discarded\tAll\n"; for (size_t length = 0; length < stats.read_lengths.size(); ++length) { const std::vector& lengths = stats.read_lengths.at(length); const size_t total = std::accumulate(lengths.begin(), lengths.end(), 0); settings << length << '\t' << lengths.at(static_cast(read_type::mate_1)); if (config.paired_ended_mode) { settings << '\t' << lengths.at(static_cast(read_type::mate_2)) << '\t' << lengths.at(static_cast(read_type::singleton)); } if (config.collapse) { settings << '\t' << lengths.at(static_cast(read_type::collapsed)) << '\t' << lengths.at(static_cast(read_type::collapsed_truncated)); } settings << '\t' << lengths.at(static_cast(read_type::discarded)) << '\t' << total << '\n'; } settings.flush(); } //! Implemented in main_demultiplex.cpp void write_demultiplex_statistics(std::ofstream& output, const userconfig& config, const demultiplex_reads* step); bool write_demux_settings(const userconfig& config, const demultiplex_reads* step) { if (!step) { // Demultiplexing not enabled; nothing to do return true; } const std::string filename = config.get_output_filename("demux_stats"); try { std::ofstream output(filename.c_str(), std::ofstream::out); if (!output.is_open()) { std::string message = std::string("Failed to open file '") + filename + "': "; throw std::ofstream::failure(message + std::strerror(errno)); } output.exceptions(std::ofstream::failbit | std::ofstream::badbit); write_settings(config, output, -1); output << "\n"; write_demultiplex_statistics(output, config, step); } catch (const std::ios_base::failure& error) { std::cerr << "IO error writing demultiplexing statistics; aborting:\n" << cli_formatter::fmt(error.what()) << std::endl; return false; } return true; } void process_collapsed_read(const userconfig& config, statistics& stats, fastq& collapsed_read, fastq* mate_read, trimmed_reads& chunks) { const fastq::ntrimmed trimmed = config.trim_sequence_by_quality_if_enabled(collapsed_read); // If trimmed, the external coordinates are no longer reliable // for determining the size of the original template. const bool was_trimmed = trimmed.first || trimmed.second; collapsed_read.add_prefix_to_header(was_trimmed ? "MT_" : "M_"); if (mate_read) { mate_read->add_prefix_to_header(was_trimmed ? "MT_" : "M_"); } const size_t read_count = config.paired_ended_mode ? 2 : 1; if (config.is_acceptable_read(collapsed_read)) { stats.total_number_of_nucleotides += collapsed_read.length(); stats.total_number_of_good_reads++; stats.inc_length_count(was_trimmed ? read_type::collapsed_truncated : read_type::collapsed, collapsed_read.length()); if (was_trimmed) { chunks.add_collapsed_truncated_read(collapsed_read, read_status::passed, read_count); stats.number_of_truncated_collapsed++; } else { chunks.add_collapsed_read(collapsed_read, read_status::passed, read_count); stats.number_of_full_length_collapsed++; } } else { stats.discard1++; stats.discard2++; stats.inc_length_count(read_type::discarded, collapsed_read.length()); if (was_trimmed) { chunks.add_collapsed_truncated_read(collapsed_read, read_status::failed, read_count); } else { chunks.add_collapsed_read(collapsed_read, read_status::failed, read_count); } } } class reads_processor : public analytical_step { public: reads_processor(const userconfig& config, size_t nth) : analytical_step(analytical_step::ordering::unordered) , m_config(config) , m_adapters(config.adapters.get_adapter_set(nth)) , m_stats(config) , m_nth(nth) { } statistics_ptr get_final_statistics() { return m_stats.finalize(); } protected: class stats_sink : public statistics_sink { public: stats_sink(const userconfig& config) : m_config(config) { } protected: virtual pointer new_sink() const { return m_config.create_stats(); } virtual void reduce(pointer& dst, const pointer& src) const { (*dst) += (*src); } const userconfig& m_config; }; const userconfig& m_config; const fastq_pair_vec m_adapters; stats_sink m_stats; const size_t m_nth; }; class se_reads_processor : public reads_processor { public: se_reads_processor(const userconfig& config, size_t nth = 0) : reads_processor(config, nth) { } chunk_vec process(analytical_chunk* chunk) { const size_t offset = m_nth * ai_analyses_offset; read_chunk_ptr read_chunk(dynamic_cast(chunk)); trimmed_reads chunks(m_config, offset, read_chunk->eof); stats_sink::pointer stats = m_stats.get_sink(); for (auto& read : read_chunk->reads_1) { const alignment_info alignment = align_single_ended_sequence(read, m_adapters, m_config.shift); if (m_config.is_good_alignment(alignment)) { truncate_single_ended_sequence(alignment, read); stats->number_of_reads_with_adapter.at(alignment.adapter_id)++; stats->well_aligned_reads++; if (m_config.is_alignment_collapsible(alignment)) { process_collapsed_read(m_config, *stats, read, nullptr, chunks); continue; } } else { stats->unaligned_reads++; } m_config.trim_sequence_by_quality_if_enabled(read); if (m_config.is_acceptable_read(read)) { stats->keep1++; stats->total_number_of_good_reads++; stats->total_number_of_nucleotides += read.length(); chunks.add_mate_1_read(read, read_status::passed); stats->inc_length_count(read_type::mate_1, read.length()); } else { stats->discard1++; stats->inc_length_count(read_type::discarded, read.length()); chunks.add_mate_1_read(read, read_status::failed); } } stats->records += read_chunk->reads_1.size(); m_stats.return_sink(std::move(stats)); return chunks.finalize(); } }; /** Class for building RNGs on demand. */ class rng_sink : public statistics_sink { public: rng_sink(unsigned seed) : m_seed(seed) { } protected: virtual pointer new_sink() const { return pointer(new std::mt19937(m_seed())); } virtual void reduce(pointer&, const pointer&) const { // Intentionally left empty } //! Copy construction not supported rng_sink(const rng_sink&) = delete; //! Assignment not supported rng_sink& operator=(const rng_sink&) = delete; private: mutable std::mt19937 m_seed; }; class pe_reads_processor : public reads_processor { public: pe_reads_processor(const userconfig& config, size_t nth) : reads_processor(config, nth) , m_rngs(config.seed) { } chunk_vec process(analytical_chunk* chunk) { const size_t offset = m_nth * ai_analyses_offset; const char mate_separator = m_config.combined_output ? '\0' : m_config.mate_separator; mt19937_ptr rng = m_rngs.get_sink(); read_chunk_ptr read_chunk(dynamic_cast(chunk)); trimmed_reads chunks(m_config, offset, read_chunk->eof); statistics_ptr stats = m_stats.get_sink(); AR_DEBUG_ASSERT(read_chunk->reads_1.size() == read_chunk->reads_2.size()); auto it_1 = read_chunk->reads_1.begin(); auto it_2 = read_chunk->reads_2.begin(); while (it_1 != read_chunk->reads_1.end()) { fastq read_1 = *it_1++; fastq read_2 = *it_2++; // Throws if read-names or mate numbering does not match fastq::validate_paired_reads(read_1, read_2, m_config.mate_separator); // Reverse complement to match the orientation of read_1 read_2.reverse_complement(); const alignment_info alignment = align_paired_ended_sequences(read_1, read_2, m_adapters, m_config.shift); if (m_config.is_good_alignment(alignment)) { stats->well_aligned_reads++; const size_t n_adapters = truncate_paired_ended_sequences(alignment, read_1, read_2); stats->number_of_reads_with_adapter.at(alignment.adapter_id) += n_adapters; if (m_config.is_alignment_collapsible(alignment)) { fastq collapsed_read = collapse_paired_ended_sequences(alignment, read_1, read_2, *rng, mate_separator); process_collapsed_read(m_config, *stats, collapsed_read, // Make sure read_2 header is updated, if needed m_config.combined_output ? &read_2 : nullptr, chunks); if (m_config.combined_output) { // Dummy read with read-count of zero; both mates have // already been accounted for in process_collapsed_read chunks.add_mate_2_read(read_2, read_status::failed, 0); } continue; } } else { stats->unaligned_reads++; } // Reads were not aligned or collapsing is not enabled // Undo reverse complementation (post truncation of adapters) read_2.reverse_complement(); // Are the reads good enough? Not too many Ns? m_config.trim_sequence_by_quality_if_enabled(read_1); m_config.trim_sequence_by_quality_if_enabled(read_2); const bool read_1_acceptable = m_config.is_acceptable_read(read_1); const bool read_2_acceptable = m_config.is_acceptable_read(read_2); stats->total_number_of_nucleotides += read_1_acceptable ? read_1.length() : 0u; stats->total_number_of_nucleotides += read_2_acceptable ? read_2.length() : 0u; stats->total_number_of_good_reads += read_1_acceptable; stats->total_number_of_good_reads += read_2_acceptable; const read_status state_1 = read_1_acceptable ? read_status::passed : read_status::failed; const read_status state_2 = read_2_acceptable ? read_status::passed : read_status::failed; if (read_1_acceptable && read_2_acceptable) { stats->inc_length_count(read_type::mate_1, read_1.length()); stats->inc_length_count(read_type::mate_2, read_2.length()); } else { // Count singleton reads stats->keep1 += read_1_acceptable && !read_2_acceptable; stats->keep2 += read_2_acceptable && !read_1_acceptable; stats->discard1 += !read_1_acceptable; stats->discard2 += !read_2_acceptable; stats->inc_length_count(read_1_acceptable ? read_type::singleton : read_type::discarded, read_1.length()); stats->inc_length_count(read_2_acceptable ? read_type::singleton : read_type::discarded, read_2.length()); } // Queue reads last, since this result in modifications to lengths chunks.add_pe_reads(read_1, state_1, read_2, state_2); } stats->records += read_chunk->reads_1.size(); m_stats.return_sink(std::move(stats)); m_rngs.return_sink(std::move(rng)); return chunks.finalize(); } private: rng_sink m_rngs; }; bool write_settings(const userconfig& config, const std::vector& processors) { for (size_t nth = 0; nth < processors.size(); ++nth) { const std::string filename = config.get_output_filename("--settings", nth); const statistics_ptr stats = processors.at(nth)->get_final_statistics(); try { std::ofstream output(filename.c_str(), std::ofstream::out); if (!output.is_open()) { std::string message = std::string("Failed to open file '") + filename + "': "; throw std::ofstream::failure(message + std::strerror(errno)); } output.exceptions(std::ofstream::failbit | std::ofstream::badbit); write_trimming_settings(config, *stats, nth, output); } catch (const std::ios_base::failure& error) { std::cerr << "IO error writing settings file; aborting:\n" << cli_formatter::fmt(error.what()) << std::endl; return false; } } return true; } void add_write_step(const userconfig& config, scheduler& sch, size_t offset, const std::string& name, analytical_step* step) { if (config.gzip) { sch.add_step(offset + ai_zip_offset, "write_gzip_" + name, step); sch.add_step(offset, "gzip_" + name, new gzip_fastq(config, offset + ai_zip_offset)); } else if (config.bzip2) { sch.add_step(offset + ai_zip_offset, "write_bzip2_" + name, step); sch.add_step(offset, "bzip2_" + name, new bzip2_fastq(config, offset + ai_zip_offset)); } else { sch.add_step(offset, "write_" + name, step); } } int remove_adapter_sequences_se(const userconfig& config) { std::cerr << "Trimming single ended reads ..." << std::endl; scheduler sch; std::vector processors; demultiplex_reads* demultiplexer = nullptr; try { if (config.adapters.barcode_count()) { // Step 1: Read input file sch.add_step(ai_read_fastq, "read_fastq", new read_single_fastq(config.quality_input_fmt.get(), config.input_files_1, ai_demultiplex)); // Step 2: Parse and demultiplex reads based on single or double indices sch.add_step(ai_demultiplex, "demultiplex_se", demultiplexer = new demultiplex_se_reads(&config)); add_write_step(config, sch, ai_write_unidentified_1, "unidentified", new write_fastq(config.get_output_filename("demux_unknown"))); } else { sch.add_step(ai_read_fastq, "read_fastq", new read_single_fastq(config.quality_input_fmt.get(), config.input_files_1, ai_analyses_offset)); } // Step 3 - N: Trim and write demultiplexed reads for (size_t nth = 0; nth < config.adapters.adapter_set_count(); ++nth) { const size_t offset = nth * ai_analyses_offset; const std::string& sample = config.adapters.get_sample_name(nth); processors.push_back(new se_reads_processor(config, nth)); sch.add_step(offset + ai_trim_se, "trim_se_" + sample, processors.back()); add_write_step(config, sch, offset + ai_write_mate_1, sample + "_fastq", new write_fastq(config.get_output_filename("--output1", nth))); if (!config.combined_output) { add_write_step(config, sch, offset + ai_write_discarded, sample + "_discarded", new write_fastq(config.get_output_filename("--discarded", nth))); if (config.collapse) { add_write_step(config, sch, offset + ai_write_collapsed, sample + "_collapsed", new write_fastq(config.get_output_filename("--outputcollapsed", nth))); add_write_step(config, sch, offset + ai_write_collapsed_truncated, sample + "_collapsed_truncated", new write_fastq(config.get_output_filename("--outputcollapsedtruncated", nth))); } } } } catch (const std::ios_base::failure& error) { std::cerr << "IO error opening file; aborting:\n" << cli_formatter::fmt(error.what()) << std::endl; return 1; } if (!sch.run(config.max_threads)) { return 1; } else if (!write_settings(config, processors)) { return 1; } else if (!write_demux_settings(config, demultiplexer)) { return 1; } return 0; } int remove_adapter_sequences_pe(const userconfig& config) { std::cerr << "Trimming paired end reads ..." << std::endl; scheduler sch; std::vector processors; demultiplex_reads* demultiplexer = nullptr; try { // Step 1: Read input file const size_t next_step = config.adapters.barcode_count() ? ai_demultiplex : ai_analyses_offset; if (config.interleaved_input) { sch.add_step(ai_read_fastq, "read_interleaved_fastq", new read_interleaved_fastq(config.quality_input_fmt.get(), config.input_files_1, next_step)); } else { sch.add_step(ai_read_fastq, "read_paired_fastq", new read_paired_fastq(config.quality_input_fmt.get(), config.input_files_1, config.input_files_2, next_step)); } if (config.adapters.barcode_count()) { // Step 2: Parse and demultiplex reads based on single or double indices sch.add_step(ai_demultiplex, "demultiplex_pe", demultiplexer = new demultiplex_pe_reads(&config)); add_write_step(config, sch, ai_write_unidentified_1, "unidentified_mate_1", new write_fastq(config.get_output_filename("demux_unknown", 1))); if (!config.interleaved_output) { add_write_step(config, sch, ai_write_unidentified_2, "unidentified_mate_2", new write_fastq(config.get_output_filename("demux_unknown", 2))); } } // Step 3 - N: Trim and write demultiplexed reads for (size_t nth = 0; nth < config.adapters.adapter_set_count(); ++nth) { const size_t offset = nth * ai_analyses_offset; const std::string& sample = config.adapters.get_sample_name(nth); processors.push_back(new pe_reads_processor(config, nth)); sch.add_step(offset + ai_trim_pe, "trim_pe_" + sample, processors.back()); add_write_step(config, sch, offset + ai_write_mate_1, sample + "_mate_1", new write_fastq(config.get_output_filename("--output1", nth))); if (!config.interleaved_output) { add_write_step(config, sch, offset + ai_write_mate_2, sample + "_mate_2", new write_fastq(config.get_output_filename("--output2", nth))); } if (!config.combined_output) { add_write_step(config, sch, offset + ai_write_discarded, sample + "_discarded", new write_fastq(config.get_output_filename("--discarded", nth))); add_write_step(config, sch, offset + ai_write_singleton, sample + "_singleton", new write_fastq(config.get_output_filename("--singleton", nth))); if (config.collapse) { add_write_step(config, sch, offset + ai_write_collapsed, sample + "_collapsed", new write_fastq(config.get_output_filename("--outputcollapsed", nth))); add_write_step(config, sch, offset + ai_write_collapsed_truncated, sample + "_collapsed_truncated", new write_fastq(config.get_output_filename("--outputcollapsedtruncated", nth))); } } } } catch (const std::ios_base::failure& error) { std::cerr << "IO error opening file; aborting:\n" << cli_formatter::fmt(error.what()) << std::endl; return 1; } if (!sch.run(config.max_threads)) { return 1; } else if (!write_settings(config, processors)) { return 1; } else if (!write_demux_settings(config, demultiplexer)) { return 1; } return 0; } int remove_adapter_sequences(const userconfig& config) { if (config.paired_ended_mode) { return remove_adapter_sequences_pe(config); } else { return remove_adapter_sequences_se(config); } } } // namespace ar adapterremoval-2.2.2/src/main_demultiplex.cpp000066400000000000000000000354641313314234200213660ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2011 by Stinus Lindgreen - stinus@binf.ku.dk * * Copyright (C) 2016 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #include #include #include #include #include #include "debug.hpp" #include "demultiplex.hpp" #include "fastq.hpp" #include "fastq_io.hpp" #include "main.hpp" //#include "strutils.hpp" #include "userconfig.hpp" namespace ar { //! Implemented in main_adapter_rm.cpp void add_write_step(const userconfig& config, scheduler& sch, size_t offset, const std::string& name, analytical_step* step); void write_demultiplex_statistics(std::ofstream& output, const userconfig& config, const demultiplex_reads* step) { const demux_statistics stats = step->statistics(); const size_t total = stats.total(); output.precision(3); output << std::fixed << std::setw(3) << "\n\n[Demultiplexing statistics]" << "\nName\tBarcode_1\tBarcode_2\tHits\tFraction\n" << "unidentified\tNA\tNA\t" << stats.unidentified << "\t" << stats.unidentified / static_cast(total) << "\n" << "ambiguous\tNA\tNA\t" << stats.ambiguous << "\t" << stats.ambiguous / static_cast(total) << "\n"; const fastq_pair_vec barcodes = config.adapters.get_barcodes(); for (size_t nth = 0; nth < barcodes.size(); ++nth) { const fastq_pair& current = barcodes.at(nth); output << config.adapters.get_sample_name(nth) << "\t" << current.first.sequence() << "\t"; if (current.second.length()) { output << current.second.sequence() << "\t"; } else { output << "*\t"; } output << stats.barcodes.at(nth) << "\t" << stats.barcodes.at(nth) / static_cast(total) << "\n"; } output << "*\t*\t*\t" << total << "\t" << 1.0 << std::endl; } bool write_demultiplex_settings(const userconfig& config, const demultiplex_reads* step, int nth = -1) { const std::string filename \ = config.get_output_filename(nth == -1 ? "demux_stats" : "--settings", nth); try { std::ofstream output(filename.c_str(), std::ofstream::out); if (!output.is_open()) { std::string message = std::string("Failed to open file '") + filename + "': "; throw std::ofstream::failure(message + std::strerror(errno)); } output.exceptions(std::ofstream::failbit | std::ofstream::badbit); output << NAME << " " << VERSION << "\nDemultiplexing of "; if (config.adapters.barcode_count()) { if (config.adapters.get_barcodes().front().second.length()) { output << "double-indexed "; } else { output << "single-indexed "; } } if (config.paired_ended_mode) { if (config.interleaved_input) { output << "interleaved "; } output << "paired-end reads"; } else { output << "single-end reads"; } output << "\n\n\n[Demultiplexing]" << "\nMaximum mismatches (total): " << config.barcode_mm; if (config.paired_ended_mode) { output << "\nMaximum mate 1 mismatches: " << config.barcode_mm_r1; output << "\nMaximum mate 2 mismatches: " << config.barcode_mm_r2; } output << "\n\n\n[Demultiplexing samples]" << "\nName\tBarcode_1\tBarcode_2\n"; const fastq_pair_vec barcodes = config.adapters.get_barcodes(); for (size_t idx = 0; idx < barcodes.size(); ++idx) { output << config.adapters.get_sample_name(idx); if (static_cast(nth) == idx) { output << "*"; } const fastq_pair& current = barcodes.at(idx); output << "\t" << current.first.sequence(); if (current.second.length()) { output << "\t" << current.second.sequence() << "\n"; } else { output << "\t*\n"; } } output << "\n\n[Adapter sequences]"; if (nth == -1) { const fastq_pair_vec adapters = config.adapters.get_raw_adapters(); size_t adapter_id = 0; for (fastq_pair_vec::const_iterator it = adapters.begin(); it != adapters.end(); ++it, ++adapter_id) { output << "\nAdapter1[" << adapter_id + 1 << "]: " << it->first.sequence(); fastq adapter_2 = it->second; adapter_2.reverse_complement(); output << "\nAdapter2[" << adapter_id + 1 << "]: " << adapter_2.sequence() << "\n"; } write_demultiplex_statistics(output, config, step); } else { const string_pair_vec adapters = config.adapters.get_pretty_adapter_set(nth); size_t adapter_id = 0; for (string_pair_vec::const_iterator it = adapters.begin(); it != adapters.end(); ++it, ++adapter_id) { output << "\nAdapter1[" << adapter_id + 1 << "]: " << it->first; output << "\nAdapter2[" << adapter_id + 1 << "]: " << it->second << "\n"; } } } catch (const std::ios_base::failure& error) { std::cerr << "IO error writing settings file; aborting:\n" << cli_formatter::fmt(error.what()) << std::endl; return false; } return true; } class se_demultiplexed_reads_processor : public analytical_step { public: se_demultiplexed_reads_processor(const userconfig& config, size_t nth) : analytical_step(analytical_step::ordering::unordered) , m_config(config) , m_nth(nth) { } chunk_vec process(analytical_chunk* chunk) { const size_t offset = m_nth * ai_analyses_offset; read_chunk_ptr read_chunk(dynamic_cast(chunk)); output_chunk_ptr encoded_reads(new fastq_output_chunk(read_chunk->eof)); for (const auto& read : read_chunk->reads_1) { encoded_reads->add(*m_config.quality_output_fmt, read); } chunk_vec chunks; chunks.push_back(chunk_pair(offset + ai_write_mate_1, std::move(encoded_reads))); return chunks; } private: const userconfig& m_config; const size_t m_nth; }; class pe_demultiplexed_reads_processor : public analytical_step { public: pe_demultiplexed_reads_processor(const userconfig& config, size_t nth) : analytical_step(analytical_step::ordering::unordered) , m_config(config) , m_nth(nth) { } chunk_vec process(analytical_chunk* chunk) { const size_t offset = m_nth * ai_analyses_offset; read_chunk_ptr read_chunk(dynamic_cast(chunk)); AR_DEBUG_ASSERT(read_chunk->reads_1.size() == read_chunk->reads_2.size()); output_chunk_ptr encoded_reads_1(new fastq_output_chunk(read_chunk->eof)); output_chunk_ptr encoded_reads_2; if (!m_config.interleaved_output) { encoded_reads_2.reset(new fastq_output_chunk(read_chunk->eof)); } fastq_vec::iterator it_1 = read_chunk->reads_1.begin(); fastq_vec::iterator it_2 = read_chunk->reads_2.begin(); while (it_1 != read_chunk->reads_1.end()) { fastq read_1 = *it_1++; fastq read_2 = *it_2++; encoded_reads_1->add(*m_config.quality_output_fmt, read_1); if (m_config.interleaved_output) { encoded_reads_1->add(*m_config.quality_output_fmt, read_2); } else { encoded_reads_2->add(*m_config.quality_output_fmt, read_2); } } chunk_vec chunks; chunks.push_back(chunk_pair(offset + ai_write_mate_1, std::move(encoded_reads_1))); if (!m_config.interleaved_output) { chunks.push_back(chunk_pair(offset + ai_write_mate_2, std::move(encoded_reads_2))); } return chunks; } private: const userconfig& m_config; const size_t m_nth; }; int demultiplex_sequences_se(const userconfig& config) { std::cerr << "Demultiplexing single ended reads ..." << std::endl; scheduler sch; demultiplex_reads* demultiplexer = nullptr; try { // Step 1: Read input file sch.add_step(ai_read_fastq, "read_fastq", new read_single_fastq(config.quality_input_fmt.get(), config.input_files_1, ai_demultiplex)); // Step 2: Parse and demultiplex reads based on single or double indices sch.add_step(ai_demultiplex, "demultiplex_se", demultiplexer = new demultiplex_se_reads(&config)); add_write_step(config, sch, ai_write_unidentified_1, "unidentified", new write_fastq(config.get_output_filename("demux_unknown"))); // Step 3 - N: Trim and write demultiplexed reads for (size_t nth = 0; nth < config.adapters.adapter_set_count(); ++nth) { const size_t offset = nth * ai_analyses_offset; const std::string& sample = config.adapters.get_sample_name(nth); sch.add_step(offset + ai_trim_se, "process_se_" + sample, new se_demultiplexed_reads_processor(config, nth)); add_write_step(config, sch, offset + ai_write_mate_1, sample + "_fastq", new write_fastq(config.get_output_filename("--output1", nth))); } } catch (const std::ios_base::failure& error) { std::cerr << "IO error opening file; aborting:\n" << cli_formatter::fmt(error.what()) << std::endl; return 1; } if (!sch.run(config.max_threads)) { return 1; } else if (!write_demultiplex_settings(config, demultiplexer)) { return 1; } for (size_t nth = 0; nth < config.adapters.adapter_set_count(); ++nth) { if (!write_demultiplex_settings(config, demultiplexer, nth)) { return 1; } } return 0; } int demultiplex_sequences_pe(const userconfig& config) { std::cerr << "Demultiplexing paired end reads ..." << std::endl; scheduler sch; demultiplex_reads* demultiplexer = nullptr; try { // Step 1: Read input file if (config.interleaved_input) { sch.add_step(ai_read_fastq, "read_interleaved_fastq", new read_interleaved_fastq(config.quality_input_fmt.get(), config.input_files_1, ai_demultiplex)); } else { sch.add_step(ai_read_fastq, "read_paired_fastq", new read_paired_fastq(config.quality_input_fmt.get(), config.input_files_1, config.input_files_2, ai_demultiplex)); } // Step 2: Parse and demultiplex reads based on single or double indices sch.add_step(ai_demultiplex, "demultiplex_pe", demultiplexer = new demultiplex_pe_reads(&config)); add_write_step(config, sch, ai_write_unidentified_1, "unidentified_mate_1", new write_fastq(config.get_output_filename("demux_unknown", 1))); if (!config.interleaved_output) { add_write_step(config, sch, ai_write_unidentified_2, "unidentified_mate_2", new write_fastq(config.get_output_filename("demux_unknown", 2))); } // Step 3 - N: Write demultiplexed reads for (size_t nth = 0; nth < config.adapters.adapter_set_count(); ++nth) { const size_t offset = nth * ai_analyses_offset; const std::string& sample = config.adapters.get_sample_name(nth); sch.add_step(offset + ai_trim_pe, "process_pe_" + sample, new pe_demultiplexed_reads_processor(config, nth)); add_write_step(config, sch, offset + ai_write_mate_1, sample + "_mate_1", new write_fastq(config.get_output_filename("--output1", nth))); if (!config.interleaved_output) { add_write_step(config, sch, offset + ai_write_mate_2, sample + "_mate_2", new write_fastq(config.get_output_filename("--output2", nth))); } } } catch (const std::ios_base::failure& error) { std::cerr << "IO error opening file; aborting:\n" << cli_formatter::fmt(error.what()) << std::endl; return 1; } if (!sch.run(config.max_threads)) { return 1; } else if (!write_demultiplex_settings(config, demultiplexer)) { return 1; } for (size_t nth = 0; nth < config.adapters.adapter_set_count(); ++nth) { if (!write_demultiplex_settings(config, demultiplexer, nth)) { return 1; } } return 0; } int demultiplex_sequences(const userconfig& config) { if (config.paired_ended_mode) { return demultiplex_sequences_pe(config); } else { return demultiplex_sequences_se(config); } } } // namespace ar adapterremoval-2.2.2/src/scheduler.cpp000066400000000000000000000273251313314234200200010ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2015 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #include #include #include #include #include #include #include "debug.hpp" #include "scheduler.hpp" #include "strutils.hpp" namespace ar { /////////////////////////////////////////////////////////////////////////////// // analytical_chunk analytical_chunk::analytical_chunk() { } analytical_chunk::~analytical_chunk() { } /////////////////////////////////////////////////////////////////////////////// // analytical_step analytical_step::analytical_step(ordering step_order, bool file_io) : m_step_order(step_order) , m_file_io(file_io) { } analytical_step::~analytical_step() { } /////////////////////////////////////////////////////////////////////////////// // scheduler struct data_chunk { explicit data_chunk(size_t chunk_id_ = 0) : chunk_id(chunk_id_) , data() , counter(new bool()) { } explicit data_chunk(const data_chunk& parent, chunk_ptr data_) : chunk_id(parent.chunk_id) , data(std::move(data_)) , counter(parent.counter) { } /** Sorts by counter, data, type, in that order. **/ bool operator<(const data_chunk& other) const { if (chunk_id != other.chunk_id) { return chunk_id > other.chunk_id; } else if (data != other.data) { return data > other.data; } else if (counter != other.counter) { return counter > other.counter; } return false; } bool unique() const { return counter.unique(); } //! Strictly increasing counter; used to sort chunks for 'ordered' tasks size_t chunk_id; //! Use generated data; is normally not freed by this struct chunk_ptr data; private: //! Reference counts std::shared_ptr counter; }; /** Simple priority queue; needed to allow moving values out of queue. */ class chunk_queue { public: chunk_queue() : m_chunks() { } void push(data_chunk value) { m_chunks.push_back(std::move(value)); std::push_heap(m_chunks.begin(), m_chunks.end()); } data_chunk pop() { std::pop_heap(m_chunks.begin(), m_chunks.end()); data_chunk value = std::move(m_chunks.back()); m_chunks.pop_back(); return value; } const data_chunk& top() const { return m_chunks.front(); } bool empty() const { return m_chunks.empty(); } size_t size() const { return m_chunks.size(); } private: typedef std::vector chunk_vec; chunk_vec m_chunks; }; struct scheduler_step { scheduler_step(analytical_step* value, const std::string& name_) : lock() , ptr(value) , current_chunk(0) , last_chunk(0) , queue() , name(name_) { } bool can_run(size_t next_chunk) { if (ptr->get_ordering() == analytical_step::ordering::ordered) { return (current_chunk == next_chunk); } return true; } //! Mutex used to control access to step std::mutex lock; //! Analytical step implementation std::unique_ptr ptr; //! The current chunk to be processed size_t current_chunk; //! The last chunk queued to the step; //! Used to correct numbering for sparse output from sequential steps size_t last_chunk; //! (Ordered) vector of chunks to be processed chunk_queue queue; //! Short name for step used for error reporting std::string name; //! Copy construction not supported scheduler_step(const scheduler_step&) = delete; //! Assignment not supported scheduler_step& operator=(const scheduler_step&) = delete; }; scheduler::scheduler() : m_steps() , m_condition() , m_chunk_counter(0) , m_live_chunks(0) , m_queue_lock() , m_queue_calc() , m_queue_io() , m_io_active(false) , m_errors(false) { } scheduler::~scheduler() { } void scheduler::add_step(size_t step_id, const std::string& name, analytical_step* step) { if (m_steps.size() <= step_id) { m_steps.resize(step_id + 1); } AR_DEBUG_ASSERT(step); AR_DEBUG_ASSERT(!m_steps.at(step_id)); m_steps.at(step_id) = step_ptr(new scheduler_step(step, name)); } bool scheduler::run(int nthreads) { AR_DEBUG_ASSERT(!m_steps.empty()); AR_DEBUG_ASSERT(m_steps.front()); AR_DEBUG_ASSERT(nthreads >= 1); AR_DEBUG_ASSERT(!m_chunk_counter); for (size_t task = 3 * static_cast(nthreads); task; --task) { m_steps.front()->queue.push(data_chunk(m_chunk_counter++)); } queue_analytical_step(m_steps.front(), 0); std::vector threads; try { for (int i = 0; i < nthreads - 1; ++i) { threads.emplace_back(run_wrapper, this); } } catch (const std::system_error& error) { print_locker lock; std::cerr << "ERROR: Failed to create threads:\n" << cli_formatter::fmt(error.what()) << std::endl; set_errors_occured(); } // Run the main thread (the only thread in case of non-threaded mode) run_wrapper(this); for (auto& thread: threads) { try { thread.join(); } catch (const std::system_error& error) { std::cerr << "ERROR: Failed to join thread: " << error.what() << std::endl; set_errors_occured(); } } if (errors_occured()) { return false; } for (auto& step: m_steps) { if (step && !step->queue.empty()) { print_locker lock; std::cerr << "ERROR: Not all parts run for step " << step->name << "; " << step->queue.size() << " left ..." << std::endl; set_errors_occured(); } } if (errors_occured()) { return false; } for (auto step: m_steps) { if (step) { try { step->ptr->finalize(); } catch (const std::exception&) { std::cerr << "ERROR: Failed to finalizing task " << step->name << ":\n"; throw; } } } return true; } void scheduler::run_wrapper(scheduler* sch) { try { return sch->do_run(); } catch (const thread_abort&) { print_locker lock; std::cerr << "Aborting thread due to error." << std::endl; } catch (const std::exception& error) { print_locker lock; std::cerr << "ERROR: Unhandled exception in thread:\n" << cli_formatter::fmt(error.what()) << std::endl; } catch (...) { print_locker lock; std::cerr << "ERROR: Unhandled, non-standard exception in thread" << std::endl; } sch->set_errors_occured(); sch->m_condition.notify_all(); } void scheduler::do_run() { std::unique_lock lock(m_queue_lock); while (!errors_occured()) { // Try to keep the disk busy by preferring IO chunks step_ptr current_step; if (m_io_active || m_queue_io.empty()) { if (!m_queue_calc.empty()) { current_step = m_queue_calc.front(); m_queue_calc.pop(); } else if (!m_live_chunks) { // Nothing left to do at all break; } } else { current_step = m_queue_io.front(); m_queue_io.pop(); m_io_active = true; } if (current_step) { lock.unlock(); execute_analytical_step(current_step); lock.lock(); } else { m_condition.wait(lock); } } // Signal any waiting threads m_condition.notify_all(); } void scheduler::execute_analytical_step(const step_ptr& step) { data_chunk chunk; { std::lock_guard lock(step->lock); chunk = step->queue.pop(); } chunk_vec chunks = step->ptr->process(chunk.data.release()); std::lock_guard lock(m_queue_lock); // Schedule each of the resulting blocks for (auto& result: chunks) { step_ptr& other_step = m_steps.at(result.first); AR_DEBUG_ASSERT(other_step != nullptr); std::lock_guard step_lock(other_step->lock); // Inherit reference count from source chunk data_chunk next_chunk(chunk, std::move(result.second)); if (step->ptr->get_ordering() == analytical_step::ordering::ordered) { // Ordered steps are allowed to not return results, so the chunk // numbering is remembered for down-stream steps next_chunk.chunk_id = other_step->last_chunk++; } other_step->queue.push(std::move(next_chunk)); queue_analytical_step(other_step, next_chunk.chunk_id); } // Unlock use of IO steps after finishing processing if (step->ptr->file_io()) { m_io_active = false; if (!m_queue_io.empty()) { m_condition.notify_all(); } } // Reschedule current step if ordered and next chunk is available if (step->ptr->get_ordering() == analytical_step::ordering::ordered) { std::lock_guard step_lock(step->lock); step->current_chunk++; if (!step->queue.empty()) { queue_analytical_step(step, step->queue.top().chunk_id); } } // End of the line for this chunk; re-schedule first step if (chunks.empty() && chunk.unique() && step != m_steps.front()) { step_ptr other_step = m_steps.front(); std::lock_guard step_lock(other_step->lock); other_step->queue.push(data_chunk(m_chunk_counter)); queue_analytical_step(other_step, m_chunk_counter); m_chunk_counter++; } // Decrement counters before releasing lock chunk = data_chunk(0); m_live_chunks--; } void scheduler::queue_analytical_step(const step_ptr& step, size_t current) { if (step->can_run(current)) { if (step->ptr->file_io()) { m_queue_io.push(step); } else { m_queue_calc.push(step); } m_live_chunks++; m_condition.notify_one(); } } } // namespace ar adapterremoval-2.2.2/src/scheduler.hpp000066400000000000000000000257571313314234200200150ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2015 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #ifndef SCHEDULER_H #define SCHEDULER_H #include #include #include #include #include #include #include #include "threads.hpp" namespace ar { struct data_chunk; struct scheduler_step; /** * Base-class for data-chunks produced, processed and consumed by a pipeline. */ class analytical_chunk { public: /** Constructor; does nothing. */ analytical_chunk(); /** Destructor; does nothing. */ virtual ~analytical_chunk(); }; typedef std::unique_ptr chunk_ptr; typedef std::pair chunk_pair; typedef std::vector chunk_vec; /** * Sink for generating in-memory data-sinks of type T on demand, and reducing * these to a single result upon completion of analyses. Using this class * allows multiple threads to collect summary statistics, while the final * consumer sees only a single statistics object. * * The class T must implement the += operator, to allow the reduction of sinks. */ template class statistics_sink { public: typedef std::unique_ptr pointer; /** Constructor; does nothing. */ statistics_sink(); /** Destructor; deletes any remaining sinks. */ virtual ~statistics_sink(); /** Returns unused sink, or a new sink if no unused sinks are available. */ virtual pointer get_sink(); /** Return a sink after it has been used. */ virtual void return_sink(pointer ptr); /** * Return a single sink that is the sum of all sink objects, consuming (and * freeing) all sink objects generated by and returned to the sink. */ virtual pointer finalize(); protected: /** Returns a new sink object; to be implemented in subclasses. */ virtual pointer new_sink() const = 0; /** Called to reduce objects during finalization. */ virtual void reduce(pointer& dst, const pointer& src) const = 0; private: typedef std::queue sink_list; //! Lock used to control access to sink lists std::mutex m_sinks_lock; //! List of inactive sinks sink_list m_sinks; }; /** * Base class for analytical steps in a pipeline. * * Each step must implement the 'process' function as described below; note * that this function may be called simultaneously by multiple threads, and that * thread-safe storage (e.g. statistics_sink) must be used for writable * resources used by the step. */ class analytical_step { public: enum class ordering { //! Data must be consumed in the input order ordered, //! Data may be consumed in any order unordered }; /** * @param step_order Indicates the expected ordering of chunks; processing * steps are typically unordered, while IO is typically * ordered in order to ensure that output order matches * input order. * @param file_io Indicates if the step involves the use of file IO. */ analytical_step(ordering step_order, bool file_io = false); /** Destructor; does nothing in base class. **/ virtual ~analytical_step(); /** * Function called by pipeline to generate / process / consume data chunks. * * Initially, the first step in the pipeline will receive nullptr; during * subsequent cycles, the pipeline will return the value output from the * last step to the initial step, which may re-use it to avoid allocations; * if this is not done, the chunk must be freed by the first step. * * Best performance is therefore obtained if the chunk contains buffers * for all steps, and these can be re-used across cycles, thereby reducing * the number of (de)allocations that must be performed. * * To terminate the pipeline, the first step must cease to return chunks; * however, any other step MUST return valid chunks, even if no input data * was provided. This is to ensure that tracking of chunk ordering can be * maintained across steps. * * The only exceptions to this rule are steps which ONLY has unordered * downstream steps (that is, no chunk generated by this step will be * processed by an ordered step later in the pipeline). */ virtual chunk_vec process(analytical_chunk* chunk) = 0; /** * Called once the pipeline has been run to completion; this function is * called on nodes in the same order as the pipeline. */ virtual void finalize(); /** Returns the expected ordering (ordered / unordered) for input data. **/ ordering get_ordering() const; /** Returns true if the step involves file IO. */ bool file_io() const; //! Copy construction not supported analytical_step(const analytical_step&) = delete; //! Assignment not supported analytical_step& operator=(const analytical_step&) = delete; private: //! Stores the ordering of data chunks expected by the step const ordering m_step_order; //! True if the step involves file IO (read and / or writes) const bool m_file_io; }; /** * Multithreaded scheduler. * * See 'analytical_step' for information on implementing analyses. */ class scheduler { public: /** Constructor. */ scheduler(); /** Frees any object passed via 'add_step'. **/ ~scheduler(); /** * Adds a step to the pipeline. * * @param step_id Unique ID of current step; cannot be used twice. * @param name Textual name for the (type) of step being added. * @param step A analytical step; is deleted when scheduler is destroyed. * * The ID specified here is specified as the first value of 'chunk_pair's * in order to determine to which analytical step a chunk is assigned. **/ void add_step(size_t step_id, const std::string& name, analytical_step* step); /** Runs the pipeline with n threads; return false on error. */ bool run(int nthreads); //! Copy construction not supported scheduler(const scheduler&) = delete; //! Assignment not supported scheduler& operator=(const scheduler&) = delete; private: typedef std::shared_ptr step_ptr; typedef std::queue runables; typedef std::vector pipeline; /** Wrapper function which calls do_run on the provided thread. */ static void run_wrapper(scheduler*); /** Work function; invoked by each thread. */ void do_run(); /** Executes an analytical step. */ void execute_analytical_step(const step_ptr& step); /** Attempts to queue an analytical step given a current chunk. */ void queue_analytical_step(const step_ptr& step, size_t current); /** Returns true if an error has occurred, and the run should terminate. */ bool errors_occured(); /** Mark that an error has occurred, and that the run should terminate. */ void set_errors_occured(); //! Analytical steps pipeline m_steps; //! Condition used to signal the (potential) availability of work std::condition_variable m_condition; //! Counter used for sequential processing of data size_t m_chunk_counter; //! Count of currently live chunks size_t m_live_chunks; //! Lock used to control access to chunks std::mutex m_queue_lock; //! Queue used for currently runnable steps involving only calculations runables m_queue_calc; //! Queue used for currently runnable steps involving IO runables m_queue_io; //! Indicates if a thread is doing IO; access control through 'm_queue_lock' bool m_io_active; //! Set to indicate if errors have occurred std::atomic_bool m_errors; }; /////////////////////////////////////////////////////////////////////////////// // Implementations for 'statistics_sink' template statistics_sink::statistics_sink() : m_sinks_lock() , m_sinks() { } template statistics_sink::~statistics_sink() { } template typename statistics_sink::pointer statistics_sink::get_sink() { std::lock_guard lock(m_sinks_lock); if (m_sinks.empty()) { return new_sink(); } pointer ptr = std::move(m_sinks.front()); m_sinks.pop(); return ptr; } template void statistics_sink::return_sink(pointer ptr) { std::lock_guard lock(m_sinks_lock); m_sinks.push(std::move(ptr)); } template typename statistics_sink::pointer statistics_sink::finalize() { std::lock_guard lock(m_sinks_lock); if (m_sinks.empty()) { return new_sink(); } pointer result(std::move(m_sinks.front())); m_sinks.pop(); while (!m_sinks.empty()) { reduce(result, m_sinks.front()); m_sinks.pop(); } return std::move(result); } /////////////////////////////////////////////////////////////////////////////// // Implementations for 'analytical_step' inline void analytical_step::finalize() { } inline analytical_step::ordering analytical_step::get_ordering() const { return m_step_order; } inline bool analytical_step::file_io() const { return m_file_io; } /////////////////////////////////////////////////////////////////////////////// // Implementations for 'scheduler' inline bool scheduler::errors_occured() { return m_errors.load(); } inline void scheduler::set_errors_occured() { m_errors.store(true); } } // namespace ar #endif adapterremoval-2.2.2/src/statistics.hpp000066400000000000000000000133241313314234200202140ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2011 by Stinus Lindgreen - stinus@binf.ku.dk * * Copyright (C) 2014 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #ifndef STATISTICS_H #define STATISTICS_H #include #include #include "commontypes.hpp" #include "vecutils.hpp" namespace ar { /** Object used to collect summary statistics for trimming and other tasks. */ struct statistics { statistics() : number_of_full_length_collapsed(0) , number_of_truncated_collapsed(0) , total_number_of_nucleotides(0) , total_number_of_good_reads(0) , number_of_reads_with_adapter() , unaligned_reads(0) , well_aligned_reads(0) , poorly_aligned_reads(0) , keep1(0) , discard1(0) , keep2(0) , discard2(0) , records(0) , read_lengths() { } //! Number of collapsed reads which (likely) represent full inserts size_t number_of_full_length_collapsed; //! Number of collapsed reads which were truncated due to low-quality bases size_t number_of_truncated_collapsed; //! Total number of nucleotides left after trimming, collapsing, filtering size_t total_number_of_nucleotides; //! Total number of reads left after trimming, collapsing, filtering size_t total_number_of_good_reads; //! Number of reads / pairs with adapters trimmed std::vector number_of_reads_with_adapter; //! Number of unaligned reads; not enough bases, too many mismatches, etc. size_t unaligned_reads; //! Number of alignments with enough aligned bases, not too many mismatches size_t well_aligned_reads; //! Number of alignments with a zero or lower score size_t poorly_aligned_reads; //! Number of retained mate 1 reads size_t keep1; //! Number of discarded mate 1 reads size_t discard1; //! Number of retained mate 2 reads size_t keep2; //! Number of discarded mate 2 reads size_t discard2; //! Total number of reads / pairs processed size_t records; /** Increment the number of reads with of a given type / length. */ void inc_length_count(read_type type, size_t length) { if (length >= read_lengths.size()) { read_lengths.resize(length + 1, std::vector(static_cast(read_type::max))); } ++read_lengths.at(length).at(static_cast(type)); } //! Per read-type length distributions of reads std::vector > read_lengths; /** Combine statistics objects, e.g. those used by different threads. */ statistics& operator+=(const statistics& other) { number_of_full_length_collapsed += other.number_of_full_length_collapsed; number_of_truncated_collapsed += other.number_of_truncated_collapsed; total_number_of_nucleotides += other.total_number_of_nucleotides; total_number_of_good_reads += other.total_number_of_good_reads; unaligned_reads += other.unaligned_reads; well_aligned_reads += other.well_aligned_reads; poorly_aligned_reads += other.poorly_aligned_reads; keep1 += other.keep1; discard1 += other.discard1; keep2 += other.keep2; discard2 += other.discard2; records += other.records; merge_vectors(number_of_reads_with_adapter, other.number_of_reads_with_adapter); merge_sub_vectors(read_lengths, other.read_lengths); return *this; } }; /** Object used to collect summary statistics for demultiplexing. */ struct demux_statistics { demux_statistics(const size_t n_barcodes) : barcodes(n_barcodes) , unidentified(0) , ambiguous(0) { } size_t total() const { size_t total = unidentified + ambiguous; for (size_t i = 0; i < barcodes.size(); ++i) { total += barcodes.at(i); } return total; } //! Number of reads / pairs identified for a given barcode / pair of barcodes std::vector barcodes; //! Number of reads / pairs with no hits size_t unidentified; //! Number of reads / pairs with no single best hit size_t ambiguous; }; } // namespace ar #endif adapterremoval-2.2.2/src/strutils.cpp000066400000000000000000000135121313314234200177050ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2015 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #include #include #include "strutils.hpp" namespace ar { std::string toupper(const std::string& str) { std::string uppercased = str; for (auto& current : uppercased) { if (current >= 'a' && current <= 'z') { current -= 32; } }; return uppercased; } std::string indent_lines(const std::string& lines, size_t n_indent) { std::string line; std::stringstream lines_out; const std::string indentation = std::string(n_indent, ' '); size_t last_pos = 0; while (true) { const size_t next_pos = lines.find('\n', last_pos); if (next_pos == std::string::npos) { if (lines.size() - last_pos) { lines_out << indentation; } lines_out << lines.substr(last_pos); break; } else { if (next_pos - last_pos) { lines_out << indentation; } lines_out << lines.substr(last_pos, next_pos - last_pos + 1); last_pos = next_pos + 1; } } return lines_out.str(); } std::string columnize_text(const std::string& value, size_t max_width, size_t ljust) { size_t current_width = 0; size_t current_ljust = 0; std::stringstream lines_out; std::stringstream lines_in(value); std::string substr; while (lines_in >> substr) { if (current_width) { if (current_ljust + current_width + 1 + substr.length() > max_width) { current_ljust = ljust; lines_out << "\n" << std::left << std::setw(current_ljust) << "" << substr; current_width = substr.length(); } else { lines_out << " " << substr; current_width += substr.length() + 1; } } else { lines_out << substr; current_width += substr.length(); } } return lines_out.str(); } /////////////////////////////////////////////////////////////////////////////// // Implementations for 'cli_formatter' cli_formatter::cli_formatter() : m_indent_first(true) , m_ljust(0) , m_columns(DEFAULT_MAX_COLUMNS) , m_indentation(4) { struct winsize size; if (!ioctl(STDOUT_FILENO, TIOCGWINSZ, &size)) { m_columns = size.ws_col; } } cli_formatter& cli_formatter::set_column_width(size_t value) { m_columns = value; return *this; } cli_formatter& cli_formatter::set_ljust(size_t value) { m_ljust = value; return *this; } cli_formatter& cli_formatter::set_indent(size_t value) { m_indentation = value; return *this; } cli_formatter& cli_formatter::set_indent_first_line(bool value) { m_indent_first = value; return *this; } std::string cli_formatter::format(const std::string& lines) const { std::string line; std::stringstream lines_out; size_t last_pos = 0; while (true) { const size_t next_pos = lines.find('\n', last_pos); // Current line, excluding terminal newline const size_t end_pos = (next_pos == std::string::npos) ? next_pos : (next_pos - last_pos); line = lines.substr(last_pos, end_pos), // Format into fixed width columns, indenting by ljust after first line line = columnize_text(line, m_columns, m_ljust); // Add fixed width indentation if (m_indentation) { line = indent_lines(line, m_indentation); } lines_out << line; if (next_pos == std::string::npos) { break; } else if (lines.at(next_pos) == '\n') { lines_out << '\n'; last_pos = next_pos + 1; } } line = lines_out.str(); if (!m_indent_first) { line = line.substr(m_indentation); } return line; } std::string cli_formatter::fmt(const std::string& value) { cli_formatter formatter; return formatter.format(value); } std::string cli_formatter::fmt(const std::string& prefix, const std::string& value) { cli_formatter formatter; formatter.set_indent(prefix.size()); formatter.set_indent_first_line(false); return prefix + value; } } // namespace ar adapterremoval-2.2.2/src/strutils.hpp000066400000000000000000000106441313314234200177150ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2015 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #ifndef STRUTILS_H #define STRUTILS_H #include #include #include namespace ar { const size_t DEFAULT_MAX_COLUMNS = 78; const size_t DEFAULT_INDENTATION = 4; /** Uppercases letters in the range a-z */ std::string toupper(const std::string& str); /** Split text by newlines and add fixed indentation following newlines. */ std::string indent_lines(const std::string& lines, size_t identation = DEFAULT_INDENTATION); /** * Formats text into fixed-width columns. * * @param value Text representing a single paragraph to be formatted. * @param max_width Maximum width of output lines in characters. * @param ljust Indent lines after the first line by this amount of characters. * * Note that all whitespace in the input string is consumed; output words are * seperated by a single space, and the terminal line does not end with a * newline. */ std::string columnize_text(const std::string& value, size_t max_width = DEFAULT_MAX_COLUMNS, size_t ljust = 0); /** * Wrapper around 'indent_lines' and 'columnize_text'. * * Defaults to 78 character columns, with 4 character indentation, and * no ljust, corresponding to function defaults. Unlike simply combining * 'indent_lines' and 'columnize_text', the 'format' function preserves * newlines, allowing paragraphs to be printed easily. */ class cli_formatter { public: /** Creates formatter using default parameters (see above). */ cli_formatter(); /** Include (or not) indentation on the first line of output. */ cli_formatter& set_indent_first_line(bool value); /** Maximum number of columns in each line in output. */ cli_formatter& set_column_width(size_t value); /** Number of spaces to indent line 2+ in each paragraph. */ cli_formatter& set_ljust(size_t value); /** Fixed indentation for each line (see also set_indent_first_line). */ cli_formatter& set_indent(size_t value); /** Formats string using the current settings. */ std::string format(const std::string& value) const; /** Format string using default parameters. */ static std::string fmt(const std::string& value); /** * Format string using default parameters, but include prefix on first line * and indent subsequent lines using the width of the prefix. */ static std::string fmt(const std::string& prefix, const std::string& value); private: //! Specifices whether or not to indent the first line of output. bool m_indent_first; //! Number of spaces to indent the 2+ lines in each paragraph. size_t m_ljust; //! The maximum number of columns (in characters). size_t m_columns; //! The number of spaces to indent each line (see also m_indent_first_line) size_t m_indentation; }; } // namespace ar #endif adapterremoval-2.2.2/src/threads.cpp000066400000000000000000000057371313314234200174600ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2015 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #include #include #include #include #include #include #include "threads.hpp" #include namespace ar { /////////////////////////////////////////////////////////////////////////////// // exceptions thread_error::thread_error(const std::string& message) : std::exception() , m_message(message) { } thread_error::thread_error(const thread_error& error) : std::exception() , m_message(error.m_message) { } thread_error::~thread_error() noexcept { } const char* thread_error::what() const noexcept { return m_message.c_str(); } thread_abort::thread_abort() : thread_error("abort thread") { } /////////////////////////////////////////////////////////////////////////////// // print_locker //! Shared mutex for STDOUT / STDERR static std::mutex s_print_mutex; //! Shared bool indicating if STDERR contains a partial line. static bool s_stderr_is_incomplete = false; print_locker::print_locker(bool flush_stderr) : m_lock(s_print_mutex) { if (flush_stderr && s_stderr_is_incomplete) { s_stderr_is_incomplete = false; std::cerr << std::endl; } } print_locker::~print_locker() { } void print_locker::partial_stderr_output() { s_stderr_is_incomplete = true; } } // namespace ar adapterremoval-2.2.2/src/threads.hpp000066400000000000000000000071021313314234200174510ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2015 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #ifndef THREADS_H #define THREADS_H #include #include #include namespace ar { /** * Exception thrown for threading related errors, including errors with * threads, mutexes, and conditionals. */ class thread_error : public std::exception { public: /** Constructor; takes an error-message. */ thread_error(const std::string& message); /** Copy-constructor; takes an exiting error. */ thread_error(const thread_error& error); /** Destructor; does nothing. */ ~thread_error() noexcept; /** Returns error message; lifetime is the same as the object. */ virtual const char* what() const noexcept; private: //! User provided error message std::string m_message; }; /** * This exception may be thrown by a task to abort the thread; error-messages * are assumed to have already been printed by the thrower, and no further * messages are printed. */ class thread_abort : public thread_error { public: thread_abort(); }; /** * Locker for using stdout / stderr. * * Any useage of stdout and / or stderr should be preceded by creating a * print_locker object. This ensures that output from different threads is * not interleaved, regardless of the destination of these pipes. */ class print_locker { public: /* * Locks the mutex (blocking). If flush_stderr is true, and * partial_stderr_output has been called, then a newline is first * written to stderr. */ print_locker(bool flush_stderr=true); //! Unlocks the mutex ~print_locker(); //! Call to indicate that a partial line has been written to STDERR. void partial_stderr_output(); //! Copy construction not supported print_locker(const print_locker&) = delete; //! Assignment not supported print_locker& operator=(const print_locker&) = delete; private: std::lock_guard m_lock; }; } // namespace ar #endif adapterremoval-2.2.2/src/timer.cpp000066400000000000000000000121321313314234200171310ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2011 by Stinus Lindgreen - stinus@binf.ku.dk * * Copyright (C) 2014 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #include #include #include #include #include #include #include "timer.hpp" #include "threads.hpp" namespace ar { //! Print progress report every N items const size_t REPORT_EVERY = 1e6; //! Number of blocks to store for calculating mean rate const size_t AVG_BLOCKS = 10; double get_current_time() { struct timeval timestamp; gettimeofday(×tamp, nullptr); return timestamp.tv_sec + timestamp.tv_usec / 1e6; } std::string thousands_sep(size_t number) { if (!number) { return std::string(1, '0'); } static const std::locale locale; static const std::numpunct& facet = std::use_facet >(locale); std::string str; for (size_t i = 1; number; ++i) { str.append(1, '0' + number % 10); number /= 10; if (number && (i % 3 == 0)) { str.append(1, facet.thousands_sep()); } } return std::string(str.rbegin(), str.rend()); } std::string format_time(double seconds) { std::stringstream stream; stream.precision(1); stream << std::setfill('0'); if (seconds > 60 * 60) { stream << static_cast(seconds) / (60 * 60) << ":"; stream << std::setw(2); } if (seconds > 60) { stream << (static_cast(seconds) % (60 * 60)) / 60 << ":"; stream << std::setw(4) << std::setfill('0'); } stream << std::fixed << (static_cast(seconds * 100) % 6000) / 100.0 << "s"; return stream.str(); } timer::timer(const std::string& what) : m_what(what) , m_total(0) , m_first_time(get_current_time()) , m_counts() { m_counts.push_back(time_count_pair(get_current_time(), 0)); } void timer::increment(size_t inc) { m_total += inc; m_counts.back().second += inc; if (m_counts.back().second >= REPORT_EVERY) { const double current_time = get_current_time(); // Number of seconds since oldest block was created const double seconds = current_time - m_counts.front().first; size_t current_total = 0; for (const auto& time_block : m_counts) { current_total += time_block.second; } do_print(static_cast(current_total / seconds), current_time); m_counts.push_back(time_count_pair(current_time, 0)); while (m_counts.size() > AVG_BLOCKS) { m_counts.pop_front(); } } } void timer::finalize() const { const double current_time = get_current_time(); const double seconds = current_time - m_first_time; do_print(static_cast(m_total / seconds), current_time, true); } void timer::do_print(size_t rate, double current_time, bool finalize) const { print_locker lock(false); if (finalize) { std::cerr << "\rProcessed a total of "; } else { std::cerr << "\rProcessed "; } if (rate > 10000) { rate = (rate / 1000) * 1000; } std::cerr << thousands_sep(m_total) << " " << m_what << " in " << format_time(current_time - m_first_time) << "; " << thousands_sep(rate) << " " << m_what << " per second "; if (finalize) { std::cerr << "on average ..." << std::endl; } else { std::cerr << "..."; std::cerr.flush(); lock.partial_stderr_output(); } } } // namespace ar adapterremoval-2.2.2/src/timer.hpp000066400000000000000000000063431313314234200171450ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2011 by Stinus Lindgreen - stinus@binf.ku.dk * * Copyright (C) 2014 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #ifndef TIMER_H #define TIMER_H #include #include namespace ar { /** * Simply class for reporting current progress of a run. * * Every 1 million records / reads / etc processed, when the counter is * incremented using the 'increment' function, a progress report is printed: * "Processed last 1,000,000 pairs in 14.1s; 2,000,000 pairs in 28.9s ..." * * A final summary is printed using the 'finalize' function: * "Processed a total of 4,000,000 reads in 31.9s ..." */ class timer { public: /* Constructor. * * @param what Short name of what is being processed, for use in reports. */ timer(const std::string& what); /** Increment the progress, and (possibly) print a status report. */ void increment(size_t inc = 1); /** Print final summary based on the number of increments. */ void finalize() const; private: typedef std::pair time_count_pair; typedef std::deque time_count_deque; /** Print summary based on current rate; finalize to end with newline. */ void do_print(size_t rate, double current_time, bool finalize = false) const; //! Description of what is being processed. std::string m_what; //! Total number of items processed size_t m_total; //! Starting time (in seconds) of the timer. double m_first_time; //! Counts for last N updates, for calculating running mean rate. time_count_deque m_counts; }; } // namespace ar #endif adapterremoval-2.2.2/src/trimmed_reads.cpp000066400000000000000000000143061313314234200206350ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2011 by Stinus Lindgreen - stinus@binf.ku.dk * * Copyright (C) 2014 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #include "trimmed_reads.hpp" #include "userconfig.hpp" namespace ar { inline void add_chunk(chunk_vec& chunks, size_t target, output_chunk_ptr chunk) { if (chunk.get()) { chunks.push_back(chunk_pair(target, std::move(chunk))); } } trimmed_reads::trimmed_reads(const userconfig& config, size_t offset, bool eof) : m_config(config) , m_encoding(*config.quality_output_fmt) , m_offset(offset) , m_mate_1() , m_mate_2() , m_singleton() , m_collapsed() , m_collapsed_truncated() , m_discarded() { m_mate_1.reset(new fastq_output_chunk(eof)); if (config.paired_ended_mode && !config.interleaved_output) { m_mate_2.reset(new fastq_output_chunk(eof)); } if (!config.combined_output) { m_discarded.reset(new fastq_output_chunk(eof)); if (config.paired_ended_mode) { m_singleton.reset(new fastq_output_chunk(eof)); } if (config.collapse) { m_collapsed.reset(new fastq_output_chunk(eof)); m_collapsed_truncated.reset(new fastq_output_chunk(eof)); } } } void trimmed_reads::add_mate_1_read(fastq& read, read_status state, size_t read_count) { // Single end reads always go into the mate 1 file or the discarded file distribute_read(m_mate_1, m_mate_1, read, state, read_status::passed, read_count); } void trimmed_reads::add_mate_2_read(fastq& read, read_status state, size_t read_count) { // Single end reads always go into the mate 2 file or the discarded file distribute_read(m_mate_2, m_mate_1, read, state, read_status::passed, read_count); } void trimmed_reads::add_pe_reads(fastq& read_1, read_status state_1, fastq& read_2, read_status state_2) { distribute_read(m_mate_1, m_mate_1, read_1, state_1, state_2); distribute_read(m_mate_2, m_mate_1, read_2, state_2, state_1); } void trimmed_reads::add_collapsed_read(fastq& read, read_status state, size_t read_count) { output_chunk_ptr& destination = m_config.combined_output ? m_mate_1 : m_collapsed; // Collapsed reads may go into the mate 1, mate 2, or discard file distribute_read(destination, destination, read, state, read_status::passed, read_count); } void trimmed_reads::add_collapsed_truncated_read(fastq& read, read_status state, size_t read_count) { output_chunk_ptr& destination = m_config.combined_output ? m_mate_1 : m_collapsed_truncated; // Collapsed tr. reads may go into the mate 1, mate 2, or discard file distribute_read(destination, destination, read, state, read_status::passed, read_count); } chunk_vec trimmed_reads::finalize() { chunk_vec chunks; add_chunk(chunks, m_offset + ai_write_mate_1, std::move(m_mate_1)); add_chunk(chunks, m_offset + ai_write_mate_2, std::move(m_mate_2)); add_chunk(chunks, m_offset + ai_write_singleton, std::move(m_singleton)); add_chunk(chunks, m_offset + ai_write_collapsed, std::move(m_collapsed)); add_chunk(chunks, m_offset + ai_write_collapsed_truncated, std::move(m_collapsed_truncated)); add_chunk(chunks, m_offset + ai_write_discarded, std::move(m_discarded)); return chunks; } void trimmed_reads::distribute_read(output_chunk_ptr& regular, output_chunk_ptr& interleaved, fastq& read, read_status state_1, read_status state_2, size_t read_count) { if (state_1 == read_status::passed) { if (state_2 == read_status::passed || m_config.combined_output) { if (m_config.interleaved_output) { interleaved->add(m_encoding, read, read_count); } else { regular->add(m_encoding, read, read_count); } } else { m_singleton->add(m_encoding, read, read_count); } } else if (m_config.combined_output) { read.discard(); if (m_config.interleaved_output) { interleaved->add(m_encoding, read, read_count); } else { regular->add(m_encoding, read, read_count); } } else { m_discarded->add(m_encoding, read, read_count); } } } // namespace ar adapterremoval-2.2.2/src/trimmed_reads.hpp000066400000000000000000000155661313314234200206530ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2011 by Stinus Lindgreen - stinus@binf.ku.dk * * Copyright (C) 2014 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #ifndef TRIMMED_READS_H #define TRIMMED_READS_H #include #include "fastq_io.hpp" #include "scheduler.hpp" #include "statistics.hpp" class fastq; class userconfig; namespace ar { //! Enum representing the possible states of read processing enum class read_status { //! Read passed all checks, and should be written to the main output file passed, //! Read failed one or more checks, and should be discarded; this may //! include stripping the sequence and qualities, and flagging the read failed, }; /** * Helper-class for directing trimmed reads to the next step in the pipeline. */ class trimmed_reads { public: /** * Constructor. * * @param config Global User-config instance; must outlive instance. * @param config offset The file-offset for the reads being processed. * @param config eof If true, this chunk of reads are at the EOF. */ trimmed_reads(const userconfig& config, size_t offset, bool eof); /** * Encodes and caches the specified mate 1 read. * * @param read Processed FASTQ read. * @param state FAILED or PASSED; determines destination file. * @param read_count Number of actual reads represented by 'read'; for * merged sequences this may be > 1. * * Note that 'read' may be modified (truncated) depending on user options. */ void add_mate_1_read(fastq& read, read_status state, size_t read_count = 1); /** * Encodes and caches the specified mate 2 read. * * @param read Processed FASTQ read. * @param state FAILED or PASSED; determines destination file. * @param read_count Number of actual reads represented by 'read'; for * merged sequences this may be > 1. * * Note that 'read' may be modified (truncated) depending on user options. */ void add_mate_2_read(fastq& read, read_status state, size_t read_count = 1); /** * Encodes and caches the specified pair of reads. * * @param read_1 Processed mate 1 FASTQ read. * @param state_1 FAILED or PASSED; determines destination file for mate 1. * @param read_2 Processed mate 2 FASTQ read. * @param state_2 FAILED or PASSED; determines destination file for mate 2. * * Note that 'read' may be modified (truncated) depending on user options. */ void add_pe_reads(fastq& read_1, read_status state_1, fastq& read_2, read_status state_2); /** * Encodes and caches the specified collapsed read. * * @param read Processed FASTQ read. * @param state FAILED or PASSED; determines destination file. * @param read_count Number of actual reads represented by 'read'; for * merged sequences this may be > 1. * * Note that 'read' may be modified (truncated) depending on user options. */ void add_collapsed_read(fastq& read, read_status, size_t read_count = 1); /** * Encodes and caches the specified collapsed, truncated read. * * @param read Processed FASTQ read. * @param state FAILED or PASSED; determines destination file. * @param read_count Number of actual reads represented by 'read'; for * merged sequences this may be > 1. * * Note that 'read' may be modified (truncated) depending on user options. */ void add_collapsed_truncated_read(fastq& read, read_status state, size_t read_count = 1); /** Returns vector of chunks from all cached reads. */ chunk_vec finalize(); //! Copy construction not supported trimmed_reads(const trimmed_reads&) = delete; //! Assignment not supported trimmed_reads& operator=(const trimmed_reads&) = delete; private: /* * Helper function; assigns a given read to a cache depending on state and * user settings, it's state (state_1) and the state of its mate (state_2). * * If interleaved output is enabled, reads are typically (depending on * state, etc.) written to 'regular', and are otherwise written to * 'interleaved'. */ void distribute_read(output_chunk_ptr& regular, output_chunk_ptr& interleaved, fastq& read, read_status state_1, read_status state_2, size_t read_count = 1); //! User configuration; must outlive instance. const userconfig& m_config; //! Output-encoding used to write reads. const fastq_encoding& m_encoding; //! The offset of this chunk of reads. size_t m_offset; //! Pointer to cached mate 1 reads. output_chunk_ptr m_mate_1; //! Pointer to cached mate 2 reads; may be nullptr. output_chunk_ptr m_mate_2; //! Pointer to cached singleton reads; may be nullptr. output_chunk_ptr m_singleton; //! Pointer to cached collapsed reads; may be nullptr. output_chunk_ptr m_collapsed; //! Pointer to cached collapsed, truncated reads; may be nullptr. output_chunk_ptr m_collapsed_truncated; //! Pointer to cached discarded reads; may be nullptr. output_chunk_ptr m_discarded; }; } // namespace ar #endif adapterremoval-2.2.2/src/userconfig.cpp000066400000000000000000001020021313314234200201510ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2011 by Stinus Lindgreen - stinus@binf.ku.dk * * Copyright (C) 2014 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #include #include #include #include #include #include #include #include "alignment.hpp" #include "debug.hpp" #include "fastq.hpp" #include "strutils.hpp" #include "userconfig.hpp" namespace ar { size_t get_seed() { struct timeval timestamp; gettimeofday(×tamp, nullptr); return (timestamp.tv_sec << 20) | timestamp.tv_usec; } fastq_encoding_ptr select_encoding(const std::string& name, const std::string& value, size_t quality_max = MAX_PHRED_SCORE_DEFAULT) { fastq_encoding_ptr ptr; const std::string uppercase_value = toupper(value); if (uppercase_value == "33") { ptr.reset(new fastq_encoding(PHRED_OFFSET_33, quality_max)); } else if (uppercase_value == "64") { ptr.reset(new fastq_encoding(PHRED_OFFSET_64, quality_max)); } else if (uppercase_value == "SOLEXA") { ptr.reset(new fastq_encoding_solexa(quality_max)); } else { std::cerr << "Error: Invalid value for " << name << ": '" << value << "'\n" << " expected values 33, 64, or solexa." << std::endl; } return ptr; } userconfig::userconfig(const std::string& name, const std::string& version, const std::string& help) : run_type(ar_command::trim_adapters) , basename("your_output") , input_files_1() , input_files_2() , paired_ended_mode(false) , interleaved_input(false) , interleaved_output(false) , combined_output(false) , mate_separator(MATE_SEPARATOR) , min_genomic_length(15) , max_genomic_length(std::numeric_limits::max()) , min_adapter_overlap(0) , min_alignment_length(11) , mismatch_threshold(-1.0) , quality_input_fmt() , quality_output_fmt() , trim_by_quality(false) , trim_window_length(std::numeric_limits::quiet_NaN()) , low_quality_score(2) , trim_ambiguous_bases(false) , max_ambiguous_bases(1000) , collapse(false) , shift(2) , seed(get_seed()) , max_threads(1) , gzip(false) , gzip_level(6) , bzip2(false) , bzip2_level(9) , barcode_mm(0) , barcode_mm_r1(0) , barcode_mm_r2(0) , adapters() , argparser(name, version, help) , adapter_1("AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG") , adapter_2("AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT") , adapter_list() , barcode_list() , quality_input_base("33") , quality_output_base("33") , quality_max(MAX_PHRED_SCORE_DEFAULT) , mate_separator_str(1, MATE_SEPARATOR) , interleaved(false) , identify_adapters(false) , demultiplex_sequences(false) { argparser["--file1"] = new argparse::many(&input_files_1, "FILE [FILE ...]", "Input files containing mate 1 reads or single-ended reads; " "one or more files may be listed [REQUIRED]."); argparser["--file2"] = new argparse::many(&input_files_2, "[FILE ...]", "Input files containing mate 2 reads; if used, then the same " "number of files as --file1 must be listed [OPTIONAL]."); argparser.add_header("FASTQ OPTIONS:"); argparser["--qualitybase"] = new argparse::any(&quality_input_base, "BASE", "Quality base used to encode Phred scores in input; either 33, " "64, or solexa [current: %default]."); argparser["--qualitybase-output"] = new argparse::any(&quality_output_base, "BASE", "Quality base used to encode Phred scores in output; either 33, " "64, or solexa. By default, reads will be written in the same " "format as the that specified using --qualitybase."); argparser["--qualitymax"] = new argparse::knob(&quality_max, "BASE", "Specifies the maximum Phred score expected in input files, and " "used when writing output. ASCII encoded values are limited to " "the characters '!' (ASCII = 33) to '~' (ASCII = 126), meaning " "that possible scores are 0 - 93 with offset 33, and 0 - 62 " "for offset 64 and Solexa scores [default: %default]."); argparser["--mate-separator"] = new argparse::any(&mate_separator_str, "CHAR", "Character separating the mate number (1 or 2) from the read name " "in FASTQ records [default: '%default']."); argparser["--interleaved"] = new argparse::flag(&interleaved, "This option enables both the --interleaved-input option and the " "--interleaved-output option [current: %default]."); argparser["--interleaved-input"] = new argparse::flag(&interleaved_input, "The (single) input file provided contains both the mate 1 and " "mate 2 reads, one pair after the other, with one mate 1 reads " "followed by one mate 2 read. This option is implied by the " "--interleaved option [current: %default]."); argparser["--interleaved-output"] = new argparse::flag(&interleaved_output, "If set, trimmed paired-end reads are written to a single file " "containing mate 1 and mate 2 reads, one pair after the other. " "This option is implied by the --interleaved option [current: " "%default]."); argparser["--combined-output"] = new argparse::flag(&combined_output, "If set, all reads are written to the same file(s), specified by " "--output1 and --output2 (--output1 only if --interleaved-output " "is not set). Each read is further marked by either a \"PASSED\" " "or a \"FAILED\" flag, and any read that has been FAILED " "(including the mate for collapsed reads) are replaced with a " "single 'N' with Phred score 0 [current: %default]."); argparser.add_header("OUTPUT FILES:"); argparser["--basename"] = new argparse::any(&basename, "BASENAME", "Default prefix for all output files for which no filename was " "explicitly set [current: %default]."); argparser["--settings"] = new argparse::any(nullptr, "FILE", "Output file containing information on the parameters used in the " "run as well as overall statistics on the reads after trimming " "[default: BASENAME.settings]"); argparser["--output1"] = new argparse::any(nullptr, "FILE", "Output file containing trimmed mate1 reads [default: " "BASENAME.pair1.truncated (PE), BASENAME.truncated (SE), or " "BASENAME.paired.truncated (interleaved PE)]"); argparser["--output2"] = new argparse::any(nullptr, "FILE", "Output file containing trimmed mate 2 reads [default: " "BASENAME.pair2.truncated (only used in PE mode, but not if " "--interleaved-output is enabled)]"); argparser["--singleton"] = new argparse::any(nullptr, "FILE", "Output file to which containing paired reads for which the mate " "has been discarded [default: BASENAME.singleton.truncated]"); argparser["--outputcollapsed"] = new argparse::any(nullptr, "FILE", "If --collapsed is set, contains overlapping mate-pairs which " "have been merged into a single read (PE mode) or reads for which " "the adapter was identified by a minimum overlap, indicating that " "the entire template molecule is present. This does not include " "which have subsequently been trimmed due to low-quality or " "ambiguous nucleotides [default: BASENAME.collapsed]"); argparser["--outputcollapsedtruncated"] = new argparse::any(nullptr, "FILE", "Collapsed reads (see --outputcollapsed) which were trimmed due " "the presence of low-quality or ambiguous nucleotides " "[default: BASENAME.collapsed.truncated]"); argparser["--discarded"] = new argparse::any(nullptr, "FILE", "Contains reads discarded due to the --minlength, --maxlength or " "--maxns options [default: BASENAME.discarded]"); argparser.add_header("OUTPUT COMPRESSION:"); argparser["--gzip"] = new argparse::flag(&gzip, "Enable gzip compression [current: %default]"); argparser["--gzip-level"] = new argparse::knob(&gzip_level, "LEVEL", "Compression level, 0 - 9 [current: %default]"); argparser["--bzip2"] = new argparse::flag(&bzip2, "Enable bzip2 compression [current: %default]"); argparser["--bzip2-level"] = new argparse::knob(&bzip2_level, "LEVEL", "Compression level, 0 - 9 [current: %default]"); argparser.add_header("TRIMMING SETTINGS:"); // Backwards compatibility with AdapterRemoval v1; not recommended due to // schematicts that differ from most other adapter trimming programs, // namely requiring that the --pcr2 sequence is that which is observed in // the reverse complement of mate 2, rather than in the raw reads. argparser["--pcr1"] = new argparse::any(&adapter_1, "SEQUENCE", "HIDDEN"); argparser["--pcr2"] = new argparse::any(&adapter_2, "SEQUENCE", "HIDDEN"); argparser["--adapter1"] = new argparse::any(&adapter_1, "SEQUENCE", "Adapter sequence expected to be found in mate 1 reads " "[current: %default]."); argparser["--adapter2"] = new argparse::any(&adapter_2, "SEQUENCE", "Adapter sequence expected to be found in mate 2 reads " "[current: %default]."); argparser["--adapter-list"] = new argparse::any(&adapter_list, "FILENAME", "Read table of white-space separated adapters pairs, used as if " "the first column was supplied to --adapter1, and the second " "column was supplied to --adapter2; only the first adapter in " "each pair is required SE trimming mode [current: %default]."); argparser.add_seperator(); argparser["--mm"] = new argparse::floaty_knob(&mismatch_threshold, "MISMATCH_RATE", "Max error-rate when aligning reads and/or adapters. If > 1, the " "max error-rate is set to 1 / MISMATCH_RATE; if < 0, the defaults " "are used, otherwise the user-supplied value is used directly " "[defaults: 1/3 for trimming; 1/10 when identifying adapters]."); argparser["--maxns"] = new argparse::knob(&max_ambiguous_bases, "MAX", "Reads containing more ambiguous bases (N) than this number after " "trimming are discarded [current: %default]."); argparser["--shift"] = new argparse::knob(&shift, "N", "Consider alignments where up to N nucleotides are missing from " "the 5' termini [current: %default]."); argparser.add_seperator(); argparser["--trimns"] = new argparse::flag(&trim_ambiguous_bases, "If set, trim ambiguous bases (N) at 5'/3' termini " "[current: %default]"); argparser["--trimqualities"] = new argparse::flag(&trim_by_quality, "If set, trim bases at 5'/3' termini with quality scores <= to " "--minquality value [current: %default]"); argparser["--trimwindows"] = new argparse::floaty_knob(&trim_window_length, "INT", "If set, quality trimming will be carried out using window based " "approach, where windows with an average quality less than " "--minquality will be trimmed. If >= 1, this value will be used " "as the window size. If the value is < 1, the value will be " "multiplied with the read length to determine a window size per " "read. If the resulting window size is 0 or larger than the read " "length, the read length is used as the window size. This option " "implies --trimqualities [current: %default]."); argparser["--minquality"] = new argparse::knob(&low_quality_score, "PHRED", "Inclusive minimum; see --trimqualities for details " "[current: %default]"); argparser["--minlength"] = new argparse::knob(&min_genomic_length, "LENGTH", "Reads shorter than this length are discarded " "following trimming [current: %default]."); argparser["--maxlength"] = new argparse::knob(&max_genomic_length, "LENGTH", "Reads longer than this length are discarded " "following trimming [current: %default]."); argparser["--collapse"] = new argparse::flag(&collapse, "When set, paired ended read alignments of --minalignmentlength " "or more bases are combined into a single consensus sequence, " "representing the complete insert, and written to either " "basename.collapsed or basename.collapsed.truncated (if trimmed " "due to low-quality bases following collapse); for single-ended " "reads, putative complete inserts are identified as having at " "least --minalignmentlength bases overlap with the adapter " "sequence, and are written to the the same files " "[current: %default]."); argparser["--minalignmentlength"] = new argparse::knob(&min_alignment_length, "LENGTH", "If --collapse is set, paired reads must overlap at least this " "number of bases to be collapsed, and single-ended reads must " "overlap at least this number of bases with the adapter to be " "considered complete template molecules [current: %default]."); argparser["--minadapteroverlap"] = new argparse::knob(&min_adapter_overlap, "LENGTH", "In single-end mode, reads are only trimmed if the overlap " "between read and the adapter is at least X bases long, not " "counting ambiguous nucleotides (N); this is independent of the " "--minalignmentlength when using --collapse, allowing a " "conservative selection of putative complete inserts while " "ensuring that all possible adapter contamination is trimmed " "[current: %default]."); argparser.add_header("DEMULTIPLEXING:"); argparser["--barcode-list"] = new argparse::any(&barcode_list, "FILENAME", "List of barcodes or barcode pairs for single or double-indexed " "demultiplexing. Note that both indexes should be specified for " "both single-end and paired-end trimming, if double-indexed " "multiplexing was used, in order to ensure that the demultiplexed " "reads can be trimmed correctly [current: %default]."); argparser["--barcode-mm"] = new argparse::knob(&barcode_mm, "N", "Maximum number of mismatches allowed when counting mismatches in " "both the mate 1 and the mate 2 barcode for paired reads."); argparser["--barcode-mm-r1"] = new argparse::knob(&barcode_mm_r1, "N", "Maximum number of mismatches allowed for the mate 1 barcode; " "if not set, this value is equal to the '--barcode-mm' value; " "cannot be higher than the '--barcode-mm value'."); argparser["--barcode-mm-r2"] = new argparse::knob(&barcode_mm_r2, "N", "Maximum number of mismatches allowed for the mate 2 barcode; " "if not set, this value is equal to the '--barcode-mm' value; " "cannot be higher than the '--barcode-mm value'."); argparser["--demultiplex-only"] = new argparse::flag(&demultiplex_sequences, "Only carry out demultiplexing using the list of barcodes " "supplied with --barcode-list; do not attempt to trim adapters " "to carry out other processing."); argparser.add_header("MISC:"); argparser["--identify-adapters"] = new argparse::flag(&identify_adapters, "Attempt to identify the adapter pair of PE reads, by searching " "for overlapping reads [current: %default]."); argparser["--seed"] = new argparse::knob(&seed, "SEED", "Sets the RNG seed used when choosing between bases with equal " "Phred scores when collapsing. Note that runs are not " "deterministic if more than one thread is used. If not specified, " "a seed is generated using the current time."); argparser["--threads"] = new argparse::knob(&max_threads, "THREADS", "Maximum number of threads [current: %default]"); } argparse::parse_result userconfig::parse_args(int argc, char *argv[]) { if (argc <= 1) { argparser.print_help(); return argparse::parse_result::error; } const argparse::parse_result result = argparser.parse_args(argc, argv); if (result != argparse::parse_result::ok) { return result; } quality_input_fmt = select_encoding("--qualitybase", quality_input_base, quality_max); if (!quality_input_fmt.get()) { return argparse::parse_result::error; } if (argparser.is_set("--qualitybase-output")) { quality_output_fmt = select_encoding("--qualitybase-out", quality_output_base, quality_max); if (!quality_output_fmt.get()) { return argparse::parse_result::error; } } else { // Default to using the same output encoding as the input quality_output_fmt = select_encoding("--qualitybase", quality_input_base, quality_max); if (!quality_output_fmt.get()) { return argparse::parse_result::error; } } if (mate_separator_str.size() != 1) { std::cerr << "Error: The argument for --mate-separator must be " "exactly one character long, not " << mate_separator_str.size() << " characters!" << std::endl; return argparse::parse_result::error; } else { mate_separator = mate_separator_str.at(0); } // Previous settings are overwritten; this ensures that bad arguments are still caught if (identify_adapters) { // By default quality scores are ignored when inferring adapter // sequences. However, arguments are still checked above. quality_input_fmt.reset(new fastq_encoding(PHRED_OFFSET_33, MAX_PHRED_SCORE)); quality_output_fmt.reset(new fastq_encoding(PHRED_OFFSET_33, MAX_PHRED_SCORE)); run_type = ar_command::identify_adapters; } if (demultiplex_sequences) { if (identify_adapters) { std::cerr << "Error: Cannot use --identify-adapters and " << "--demultiplex-only at the same time!" << std::endl; return argparse::parse_result::error; } else if (!argparser.is_set("--barcode-list")) { std::cerr << "Error: Cannot use --demultiplex-only without specifying " << "a list of barcodes using --barcode-list!" << std::endl; return argparse::parse_result::error; } run_type = ar_command::demultiplex_sequences; } if (low_quality_score > static_cast(MAX_PHRED_SCORE)) { std::cerr << "Error: Invalid value for --minquality: " << low_quality_score << "\n" << " must be in the range 0 .. " << MAX_PHRED_SCORE << std::endl; return argparse::parse_result::error; } else if (trim_window_length >= 0) { trim_by_quality = true; } else if (trim_window_length < 0.0) { std::cerr << "Error: Invalid value for --trimwindows (" << trim_window_length << "); value must be >= 0." << std::endl; return argparse::parse_result::error; } // Check for invalid combinations of settings if (input_files_1.empty() && input_files_2.empty()) { std::cerr << "Error: No input files (--file1 / --file2) specified.\n" << "Please specify at least one input file using --file1 FILENAME." << std::endl; return argparse::parse_result::error; } else if (!input_files_2.empty() && (input_files_1.size() != input_files_2.size())) { std::cerr << "Error: Different number of files specified for --file1 and --file2." << std::endl; return argparse::parse_result::error; } else if (!input_files_2.empty()) { paired_ended_mode = true; min_adapter_overlap = 0; } interleaved_input |= interleaved; interleaved_output |= interleaved; if (interleaved_input) { if (!input_files_2.empty()) { std::cerr << "Error: The options --interleaved and " << "--interleaved-input cannot be used " << "together with the --file2 option; only --file1 must " << "be specified!" << std::endl; return argparse::parse_result::error; } // Enable paired end mode .. other than the FASTQ reader, all other // parts of the pipeline simply run in paired-end mode. paired_ended_mode = true; } if (identify_adapters && !paired_ended_mode) { std::cerr << "Error: Both input files (--file1 / --file2) must be " << "specified when using --identify-adapters, or input must " << "be interleaved FASTQ reads (requires --interleaved)." << std::endl; return argparse::parse_result::error; } // (Optionally) read adapters from file and validate if (!setup_adapter_sequences()) { return argparse::parse_result::error; } // Set mismatch threshold if (mismatch_threshold > 1) { mismatch_threshold = 1.0 / mismatch_threshold; } else if (mismatch_threshold < 0) { if (identify_adapters) { mismatch_threshold = 1.0 / 10.0; } else { // Defaults for PE / SE trimming (changed in v2) mismatch_threshold = 1.0 / 3.0; } } if (gzip_level > 9) { std::cerr << "Error: --gzip-level must be in the range 0 to 9, not " << gzip_level << std::endl; return argparse::parse_result::error; } if (bzip2_level < 1 || bzip2_level > 9) { std::cerr << "Error: --bzip2-level must be in the range 1 to 9, not " << bzip2_level << std::endl; return argparse::parse_result::error; } else if (bzip2 && gzip) { std::cerr << "Error: Cannot enable --gzip and --bzip2 at the same time!" << std::endl; return argparse::parse_result::error; } if (!max_threads) { std::cerr << "Error: --threads must be at least 1!" << std::endl; return argparse::parse_result::error; } else if (max_threads > 1 && argparser.is_set("--seed")) { std::cerr << "Warning: The option --seed should not be used when " << "using multiple threads; multi-threaded behavior is not " << "deterministic even with a fixed seed!" << std::endl; } return argparse::parse_result::ok; } statistics_ptr userconfig::create_stats() const { statistics_ptr stats(new statistics()); stats->number_of_reads_with_adapter.resize(adapters.adapter_count()); return stats; } bool userconfig::is_good_alignment(const alignment_info& alignment) const { if (!alignment.length || alignment.score <= 0) { return false; } // Only pairs of called bases are considered part of the alignment const size_t n_aligned = static_cast(alignment.length - alignment.n_ambiguous); size_t mm_threshold = static_cast(mismatch_threshold * n_aligned); if (n_aligned < min_adapter_overlap) { return false; } if (n_aligned < 6) { mm_threshold = 0; } else if (n_aligned < 10) { // --mm may imply fewer allowed mismatches than 1, so always compare mm_threshold = std::min(1, mm_threshold); } if (alignment.n_mismatches > mm_threshold) { return false; } return true; } bool userconfig::is_alignment_collapsible(const alignment_info& alignment) const { if (alignment.length < alignment.n_ambiguous) { throw std::invalid_argument("#ambiguous bases > read length"); } const size_t n_aligned = alignment.length - alignment.n_ambiguous; if (n_aligned < min_alignment_length) { return false; } return collapse || identify_adapters; } bool userconfig::is_acceptable_read(const fastq& seq) const { const size_t seq_len = seq.length(); return seq_len >= min_genomic_length && seq_len <= max_genomic_length && (max_ambiguous_bases >= seq_len || seq.count_ns() <= max_ambiguous_bases); } std::string userconfig::get_output_filename(const std::string& key, size_t nth) const { std::string filename = basename; if (key == "demux_stats") { return filename += ".settings"; } else if (key == "demux_unknown") { filename += ".unidentified"; AR_DEBUG_ASSERT(nth <= 9); if (!interleaved_output) { if (nth) { filename.push_back('_'); filename.push_back('0' + nth); } } else { filename += ".paired"; } // Currently only when demultiplexing; for backwards compatibility if (run_type == ar_command::demultiplex_sequences) { filename += ".fastq"; } if (gzip) { filename += ".gz"; } else if (bzip2) { filename += ".bz2"; } return filename; } else if (adapters.barcode_count()) { filename.push_back('.'); filename.append(adapters.get_sample_name(nth)); } else if (argparser.is_set(key)) { return argparser.at(key)->to_str(); } if (key == "--settings") { return filename + ".settings"; } else if (key == "--outputcollapsed") { filename += ".collapsed"; } else if (key == "--outputcollapsedtruncated") { filename += ".collapsed.truncated"; } else if (key == "--discarded") { filename += ".discarded"; } else if (paired_ended_mode) { if (key == "--output1") { if (interleaved_output) { filename += ".paired"; } else { filename += ".pair1"; } } else if (key == "--output2") { filename += ".pair2"; } else if (key == "--singleton") { filename += ".singleton"; } else { throw std::invalid_argument("invalid read-type in userconfig::get_output_filename constructor: " + key); } if (run_type != ar_command::demultiplex_sequences) { filename += ".truncated"; } } else if (key == "--output1") { if (run_type != ar_command::demultiplex_sequences) { filename += ".truncated"; } } else if (key != "demux_unknown") { throw std::invalid_argument("invalid read-type in userconfig::get_output_filename constructor: " + key); } // Currently only when demultiplexing; for backwards compatibility if (run_type == ar_command::demultiplex_sequences) { filename += ".fastq"; } if (gzip) { filename += ".gz"; } else if (bzip2) { filename += ".bz2"; } return filename; } fastq::ntrimmed userconfig::trim_sequence_by_quality_if_enabled(fastq& read) const { if (trim_window_length >= 0) { return read.trim_windowed_bases(trim_ambiguous_bases, low_quality_score, trim_window_length); } else if (trim_ambiguous_bases || trim_by_quality) { const char quality_score = trim_by_quality ? low_quality_score : -1; return read.trim_trailing_bases(trim_ambiguous_bases, quality_score); } return fastq::ntrimmed(); } bool check_and_set_barcode_mm(const argparse::parser& argparser, const std::string& key, unsigned barcode_mm, unsigned& dst) { if (!argparser.is_set(key)) { dst = barcode_mm; } else if (dst > barcode_mm) { std::cerr << "The maximum number of errors for " << key << " is set \n" "to a higher value than the total number of mismatches allowed\n" "for barcodes (--barcode-mm). Please correct these settings." << std::endl; return false; } return true; } bool userconfig::setup_adapter_sequences() { const bool pcr_is_set = argparser.is_set("--pcr1") || argparser.is_set("--pcr2"); const bool adapters_is_set = argparser.is_set("--adapter1") || argparser.is_set("--adapter2"); const bool adapter_list_is_set = argparser.is_set("--adapter-list"); if (pcr_is_set) { std::cerr << "WARNING: Command-line options --pcr1 and --pcr2 are deprecated.\n" << " Using --adapter1 and --adapter2 is recommended.\n" << " Please see documentation for more information.\n" << std::endl; } if (pcr_is_set && (adapters_is_set || adapter_list_is_set)) { std::cerr << "ERROR: " << "Either use --pcr1 and --pcr2, or use --adapter1 and " << "--adapter2 / --adapter-list, not both!\n\n" << std::endl; return false; } else if (adapters_is_set && adapter_list_is_set) { std::cerr << "ERROR: " << "Use either --adapter1 and --adapter2, or " << "--adapter-list, not both!" << std::endl; return false; } if (adapter_list_is_set) { if (!adapters.load_adapters(adapter_list, paired_ended_mode)) { return false; } else if (adapters.adapter_count()) { std::cerr << "Read " << adapters.adapter_count() << " adapters / adapter pairs from '" << adapter_list << "'..." << std::endl; } else { std::cerr << "Error: No adapter sequences found in table!" << std::endl; return false; } } else { try { adapters.add_adapters(adapter_1, adapter_2, !pcr_is_set); } catch (const fastq_error& error) { std::cerr << "Error parsing adapter sequence(s):\n" << " " << error.what() << std::endl; return false; } } if (!argparser.is_set("--barcode-mm")) { barcode_mm = barcode_mm_r1 + barcode_mm_r2; } if (!check_and_set_barcode_mm(argparser, "--barcode-mm-r1", barcode_mm, barcode_mm_r1)) { return false; } if (!check_and_set_barcode_mm(argparser, "--barcode-mm-r2", barcode_mm, barcode_mm_r2)) { return false; } if (argparser.is_set("--barcode-list")) { if (!adapters.load_barcodes(barcode_list, paired_ended_mode)) { return false; } else if (adapters.adapter_count()) { std::cerr << "Read " << adapters.barcode_count() << " barcodes / barcode pairs from '" << barcode_list << "' ..." << std::endl; } else { std::cerr << "Error: No barcodes sequences found in table!" << std::endl; return false; } } return true; } } // namespace ar adapterremoval-2.2.2/src/userconfig.hpp000066400000000000000000000205331313314234200201660ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2011 by Stinus Lindgreen - stinus@binf.ku.dk * * Copyright (C) 2014 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #ifndef CONFIG_H #define CONFIG_H #include #include #include "adapterset.hpp" #include "argparse.hpp" #include "commontypes.hpp" #include "fastq.hpp" #include "alignment.hpp" #include "statistics.hpp" namespace ar { struct alignment_info; typedef std::unique_ptr fastq_encoding_ptr; typedef std::unique_ptr statistics_ptr; enum class ar_command { trim_adapters, identify_adapters, demultiplex_sequences, }; /** * Configuration store, containing all user-supplied options / default values, * as well as help-functions using these options. */ class userconfig { public: /** * @param name Name of program. * @param version Version string excluding program name. * @param help Help text describing program. */ userconfig(const std::string& name, const std::string& version, const std::string& help); /** Parses a set of commandline arguments. */ argparse::parse_result parse_args(int argc, char *argv[]); /** Returns new statistics object, initialized using usersettings. */ statistics_ptr create_stats() const; std::string get_output_filename(const std::string& key, size_t nth = 0) const; /** Characterize an alignment based on user settings. */ bool is_good_alignment(const alignment_info& alignment) const; /** Returns true if the alignment is sufficient for collapsing. */ bool is_alignment_collapsible(const alignment_info& alignment) const; /** Returns true if the read matches the quality criteria set by the user. **/ bool is_acceptable_read(const fastq& seq) const; /** Trims a read if enabled, returning the #bases removed from each end. */ fastq::ntrimmed trim_sequence_by_quality_if_enabled(fastq& read) const; //! Type of run to execute; see command ar_command run_type; //! Prefix used for output files for which no filename was explicitly set std::string basename; //! Path to input file containing mate 1 reads (required) string_vec input_files_1; //! Path to input file containing mate 2 reads (for PE reads) string_vec input_files_2; //! Set to true if both --input1 and --input2 are set, or if either of //! --interleaved or --interleaved-input are set. bool paired_ended_mode; //! Set to true if --interleaved or --interleaved-input is set. bool interleaved_input; //! Set to true if --interleaved or --interleaved-output is set. bool interleaved_output; //! Set to true if --combined-output is set. bool combined_output; //! Character separating the mate number from the read name in FASTQ reads. char mate_separator; //! The minimum length of trimmed reads (ie. genomic nts) to be retained unsigned min_genomic_length; //! The maximum length of trimmed reads (ie. genomic nts) to be retained unsigned max_genomic_length; //! The minimum required overlap before trimming single-end reads. unsigned min_adapter_overlap; //! The minimum required genomic overlap before collapsing reads into one. unsigned min_alignment_length; //! Rate of mismatches determining the threshold for a an acceptable //! alignment, depending on the length of the alignment. But see also the //! limits set in the function 'is_good_alignment'. double mismatch_threshold; //! Quality format expected in input files. fastq_encoding_ptr quality_input_fmt; //! Quality format to use when writing FASTQ records. fastq_encoding_ptr quality_output_fmt; //! If true, read termini are trimmed for low-quality bases. bool trim_by_quality; //! Window size for window trimming; a fraction, whole number, or negative. double trim_window_length; //! The highest quality score which is considered low-quality unsigned low_quality_score; //! If true, ambiguous bases (N) at read termini are trimmed. bool trim_ambiguous_bases; //! The maximum number of ambiguous bases (N) in an read; reads exceeding //! this number following trimming (optionally) are discarded. unsigned max_ambiguous_bases; //! If true, PE reads overlapping at least 'min_alignment_length' are //! collapsed to generate a higher quality consensus sequence. bool collapse; // Allow for slipping basepairs by allowing missing bases in adapter unsigned shift; //! RNG seed for randomly selecting between to bases with the same quality //! when collapsing overllapping PE reads. unsigned seed; //! The maximum number of threads used by the program unsigned max_threads; //! GZip compression enabled / disabled bool gzip; //! GZip compression level used for output reads unsigned int gzip_level; //! BZip2 compression enabled / disabled bool bzip2; //! BZip2 compression level used for output reads unsigned int bzip2_level; //! Maximum number of mismatches (considering both barcodes for PE) unsigned barcode_mm; //! Maximum number of mismatches (considering both barcodes for PE) unsigned barcode_mm_r1; //! Maximum number of mismatches (considering both barcodes for PE) unsigned barcode_mm_r2; adapter_set adapters; //! Copy construction not supported userconfig(const userconfig&) = delete; //! Assignment not supported userconfig& operator=(const userconfig&) = delete; private: /** Sets up adapter sequences based on user settings. * * @return True on success, false otherwise. */ bool setup_adapter_sequences(); //! Argument parser setup to parse the arguments expected by AR argparse::parser argparser; //! Sink for --adapter1, adapter sequence expected at 3' of mate 1 reads std::string adapter_1; //! Sink for --adapter2, adapter sequence expected at 3' of mate 2 reads std::string adapter_2; //! Sink for --adapter-list; list of adapter #1 and #2 sequences std::string adapter_list; //! Sink for --barcode-list; list of barcode #1 (and #2 sequences) std::string barcode_list; //! Sink for user-supplied quality score formats; use quality_input_fmt. std::string quality_input_base; //! Sink for user-supplied quality score formats; use quality_output_fmt. std::string quality_output_base; //! Sink for maximum quality score for input / output unsigned quality_max; //! Sink for the mate separator character; use mate separator std::string mate_separator_str; //! Sink for --interleaved bool interleaved; //! Sink for --identify-adapters bool identify_adapters; //! Sink for --identify-adapters bool demultiplex_sequences; }; } // namespace ar #endif adapterremoval-2.2.2/src/vecutils.hpp000066400000000000000000000056041313314234200176620ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2015 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #ifndef UTILS_H #define UTILS_H #include namespace ar { /** * Merge two vectors by adding each value in src to each value in 'dst'. * * If 'dst' is shorter than 'src', it is resized to the same length as 'src'. */ template void merge_vectors(std::vector& dst, const std::vector& src) { if (dst.size() < src.size()) { dst.resize(src.size()); } typename std::vector::iterator dst_it = dst.begin(); typename std::vector::const_iterator src_it = src.begin(); while (src_it != src.end()) { *dst_it++ += *src_it++; } } /** * Merge each pair of value in vectors of vectors using merge_vector. * * If 'dst' is shorter than 'src', it is resized to the same length as 'src'. */ template void merge_sub_vectors(std::vector >& dst, const std::vector >& src) { if (dst.size() < src.size()) { dst.resize(src.size()); } typename std::vector >::iterator dst_it = dst.begin(); typename std::vector >::const_iterator src_it = src.begin(); while (src_it != src.end()) { merge_vectors(*dst_it++, *src_it++); } } } // namespace ar #endif adapterremoval-2.2.2/tests/000077500000000000000000000000001313314234200156615ustar00rootroot00000000000000adapterremoval-2.2.2/tests/alignment_test.cpp000066400000000000000000001302241313314234200214040ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2011 by Stinus Lindgreen - stinus@binf.ku.dk * * Copyright (C) 2014 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #include #include #include #include #include "testing.hpp" #include "alignment.hpp" #include "fastq.hpp" namespace ar { alignment_info new_aln(int score = 0, int offset = 0, size_t length = 0, size_t nmm = 0, size_t nn = 0, int adapter = 0) { alignment_info aln; aln.offset = offset; aln.score = score; aln.length = length; aln.n_mismatches = nmm; aln.n_ambiguous = nn; aln.adapter_id = adapter; return aln; } bool operator==(const alignment_info& first, const alignment_info& second) { return (first.offset == second.offset) && (first.score == second.score) && (first.length == second.length) && (first.n_mismatches == second.n_mismatches) && (first.n_ambiguous == second.n_ambiguous) && (first.adapter_id == second.adapter_id); } std::ostream& operator<<(std::ostream& stream, const alignment_info& aln) { stream << "alignment_info(" << aln.score << ", " << aln.offset << ", " << aln.length << ", " << aln.n_mismatches << ", " << aln.n_ambiguous << ", " << aln.adapter_id << ")"; return stream; } TEST(alignment, alignment_info) { std::stringstream stream; stream << new_aln(1, 2, 3, 4, 5, 6); ASSERT_EQ(stream.str(), "alignment_info(1, 2, 3, 4, 5, 6)"); } void ASSERT_TRUNCATED_PE_IS_UNCHANGED(const alignment_info& alignment, const fastq& record1, const fastq& record2) { fastq tmp_record1 = record1; fastq tmp_record2 = record2; ASSERT_EQ(0, truncate_paired_ended_sequences(alignment, tmp_record1, tmp_record2)); ASSERT_EQ(record1, tmp_record1); ASSERT_EQ(record2, tmp_record2); } fastq_pair_vec create_adapter_vec(const fastq& pcr1, const fastq& pcr2 = fastq()) { fastq_pair_vec adapters; adapters.push_back(fastq_pair(pcr1, pcr2)); return adapters; } std::random_device g_seed; std::mt19937 g_rng(g_seed()); /////////////////////////////////////////////////////////////////////////////// // Cases for SE alignments (a = read 1, b = adapter, o = overlap): // 1. No overlap = aaaaaa bbbbbb // 2. Partial overlap = aaaaaooobbbbbb // 3. Complete overlap = ooooooooo // 4. a contains b = aaaaoooooo // 5. b contains a = ooooobbbbb // 6. a extends past b = aaaaoooooaaaa // 7. b extends past a = bbbbooooobbbb // 8. both extends past other = bbbbooooaaaa /////////////////////////////////////////////////////////////////////////////// // Case 1: No overlap between sequences: // AAAAAAAAAAA // BBBBBBBBBBBBBBB // Expected result = suboptimal alignment or no overlap TEST(alignment_se, unalignable_sequence) { const fastq record("Rec", "AAAA", "!!!!"); const fastq_pair_vec adapters = create_adapter_vec(fastq("Rec", "TTTT", "!!!!")); const alignment_info expected; const alignment_info result = align_single_ended_sequence(record, adapters, 0); ASSERT_EQ(expected, result); } TEST(alignment_se, no_expected_overlap) { const fastq record("Rec", "ACGTAGTA", "!!!!!!!!"); const fastq_pair_vec adapters = create_adapter_vec(fastq("Rec", "TGAGACGGT", "!!!!!!!!!")); const alignment_info expected = new_aln(0, 6, 2, 1); const alignment_info result = align_single_ended_sequence(record, adapters, 0); ASSERT_EQ(expected, result); } /////////////////////////////////////////////////////////////////////////////// // Case 2: Partial overlap between sequences: // AAAAAAAAAAA // BBBBBBBBBBBBBBB // Expected result = optimal alignment between ends TEST(alignment_se, partial_overlap) { const fastq record("Rec", "ACGTAGTAA", "123457890"); const fastq_pair_vec adapters = create_adapter_vec(fastq("Rec", "AGTAAGGT", "!!!!!!!!")); const alignment_info expected = new_aln(5, 4, 5); const alignment_info result = align_single_ended_sequence(record, adapters, 0); ASSERT_EQ(expected, result); fastq tmp_record = record; truncate_single_ended_sequence(result, tmp_record); ASSERT_EQ(fastq("Rec", "ACGT", "1234"), tmp_record); } TEST(alignment_se, partial_overlap_with_mismatch) { const fastq record("Rec", "ACGTAGTAA", "123457890"); const fastq_pair_vec adapters = create_adapter_vec(fastq("Rec", "AGGAAGGT", "!!!!!!!!")); const alignment_info expected = new_aln(3, 4, 5, 1); const alignment_info result = align_single_ended_sequence(record, adapters, 0); ASSERT_EQ(expected, result); fastq tmp_record = record; truncate_single_ended_sequence(result, tmp_record); ASSERT_EQ(fastq("Rec", "ACGT", "1234"), tmp_record); } TEST(alignment_se, partial_overlap_with_n) { const fastq record("Rec", "ACGTAGTAA", "123457890"); const fastq_pair_vec adapters = create_adapter_vec(fastq("Rec", "AGNAAGGT", "!!!!!!!!")); const alignment_info expected = new_aln(4, 4, 5, 0, 1); const alignment_info result = align_single_ended_sequence(record, adapters, 0); ASSERT_EQ(expected, result); fastq tmp_record = record; truncate_single_ended_sequence(result, tmp_record); ASSERT_EQ(fastq("Rec", "ACGT", "1234"), tmp_record); } /////////////////////////////////////////////////////////////////////////////// // Case 3: Complete overlap between sequences: // AAAAAAAAAAA // BBBBBBBBBBB // Expected result = Optimal alignment involving all bases TEST(alignment_se, completely_overlapping_sequences) { const fastq record("Rec", "ACGTAGTA", "!!!!!!!!"); const fastq_pair_vec adapters = create_adapter_vec(record); const alignment_info expected = new_aln(8, 0, 8); const alignment_info result = align_single_ended_sequence(record, adapters, 0); ASSERT_EQ(expected, result); fastq tmp_record = record; truncate_single_ended_sequence(result, tmp_record); ASSERT_EQ(fastq("Rec", "", ""), tmp_record); } TEST(alignment_se, completely_overlapping_sequences_with_1_mismatch) { const fastq record("Rec", "ACGTAGTA", "!!!!!!!!"); const fastq_pair_vec adapters = create_adapter_vec(fastq("Rec", "GCGTAGTA", "!!!!!!!!")); const alignment_info expected = new_aln(6, 0, 8, 1); const alignment_info result = align_single_ended_sequence(record, adapters, 0); ASSERT_EQ(expected, result); fastq tmp_record = record; truncate_single_ended_sequence(result, tmp_record); ASSERT_EQ(fastq("Rec", "", ""), tmp_record); } TEST(alignment_se, completely_overlapping_sequences_with_1_mismatch_and_1_n) { const fastq record("Rec", "ACGTAGTA", "!!!!!!!!"); const fastq_pair_vec adapter = create_adapter_vec(fastq("Rec", "GCGTAGTN", "!!!!!!!!")); const alignment_info expected = new_aln(5, 0, 8, 1, 1); const alignment_info result = align_single_ended_sequence(record, adapter, 0); ASSERT_EQ(expected, result); fastq tmp_record = record; truncate_single_ended_sequence(result, tmp_record); ASSERT_EQ(fastq("Rec", "", ""), tmp_record); } /////////////////////////////////////////////////////////////////////////////// // Cases 4 and 5: Sequence A completely contains sequence B (and vice versa) // AAAAAAAAAAA AAAA // BBBBB BBBBBBBBBB // Expected result = Optimal alignment involving all bases of the shortest read TEST(alignment_se, sequence_a_contains_b) { const fastq record("Rec", "ACGTAGTA", "ABCDEFGH"); const fastq_pair_vec adapters = create_adapter_vec(fastq("Adp", "TAGTA", "!!!!!")); const alignment_info expected = new_aln(5, 3, 5); const alignment_info result = align_single_ended_sequence(record, adapters, 0); ASSERT_EQ(expected, result); fastq tmp_record = record; truncate_single_ended_sequence(result, tmp_record); ASSERT_EQ(fastq("Rec", "ACG", "ABC"), tmp_record); } TEST(alignment_se, sequence_a_contains_b__with_1_mismatch) { const fastq record("Rec", "ACGTAGTA", "ABCDEFGH"); const fastq_pair_vec adapters = create_adapter_vec(fastq("Adp", "TATTA", "!!!!!")); const alignment_info expected = new_aln(3, 3, 5, 1); const alignment_info result = align_single_ended_sequence(record, adapters, 0); ASSERT_EQ(expected, result); fastq tmp_record = record; truncate_single_ended_sequence(result, tmp_record); ASSERT_EQ(fastq("Rec", "ACG", "ABC"), tmp_record); } TEST(alignment_se, sequence_a_contains_b__with_1_n) { const fastq record("Rec", "ACGTAGTA", "ABCDEFGH"); const fastq_pair_vec adapters = create_adapter_vec(fastq("Adp", "TAGNA", "!!!!!")); const alignment_info expected = new_aln(4, 3, 5, 0, 1); const alignment_info result = align_single_ended_sequence(record, adapters, 0); ASSERT_EQ(expected, result); fastq tmp_record = record; truncate_single_ended_sequence(result, tmp_record); ASSERT_EQ(fastq("Rec", "ACG", "ABC"), tmp_record); } TEST(alignment_se, sequence_b_contains_a) { const fastq record("Rec", "ACGT", "!!!!"); const fastq_pair_vec adapters = create_adapter_vec(fastq("Adp", "ACGTAGTA", "!!!!!!!!")); const alignment_info expected = new_aln(4, 0, 4); const alignment_info result = align_single_ended_sequence(record, adapters, 0); ASSERT_EQ(expected, result); fastq tmp_record = record; truncate_single_ended_sequence(result, tmp_record); ASSERT_EQ(fastq("Rec", "", ""), tmp_record); } TEST(alignment_se, sequence_b_contains_a__with_1_mismatch) { const fastq record("Rec", "ACGT", "!!!!"); const fastq_pair_vec adapters = create_adapter_vec(fastq("Adp", "GCGTAGTA", "!!!!!!!!")); const alignment_info expected = new_aln(2, 0, 4, 1); const alignment_info result = align_single_ended_sequence(record, adapters, 0); ASSERT_EQ(expected, result); fastq tmp_record = record; truncate_single_ended_sequence(result, tmp_record); ASSERT_EQ(fastq("Rec", "", ""), tmp_record); } TEST(alignment_se, sequence_b_contains_a__with_1_n) { const fastq record("Rec", "ACGT", "!!!!"); const fastq_pair_vec adapters = create_adapter_vec(fastq("Adp", "ACGNAGTA", "!!!!!!!!")); const alignment_info expected = new_aln(3, 0, 4, 0, 1); const alignment_info result = align_single_ended_sequence(record, adapters, 0); ASSERT_EQ(expected, result); fastq tmp_record = record; truncate_single_ended_sequence(result, tmp_record); ASSERT_EQ(fastq("Rec", "", ""), tmp_record); } /////////////////////////////////////////////////////////////////////////////// // Cases 6 and 7: Sequence A extends past sequence B (and vice versa) // AAAAAAAAAAAAAA AAAA // BBBBB BBBBBBBBBBBBB TEST(alignment_se, sequence_a_extends_past_b) { const fastq record("Rec", "ACGTAGTATA", "0123456789"); const fastq_pair_vec adapters = create_adapter_vec(fastq("Adp", "AGTA", "!!!!")); const alignment_info expected = new_aln(4, 4, 4); const alignment_info result = align_single_ended_sequence(record, adapters, 0); ASSERT_EQ(expected, result); fastq tmp_record = record; truncate_single_ended_sequence(result, tmp_record); ASSERT_EQ(fastq("Rec", "ACGT", "0123"), tmp_record); } TEST(alignment_se, sequence_b_extends_past_a__no_shift) { const fastq record("Rec", "CGTA", "#!%%"); const fastq_pair_vec adapters = create_adapter_vec(fastq("Adp", "ACGTAGTATA", "!!!!!!!!!!")); const alignment_info expected = new_aln(1, 3, 1); const alignment_info result = align_single_ended_sequence(record, adapters, 0); ASSERT_EQ(expected, result); fastq tmp_record = record; truncate_single_ended_sequence(result, tmp_record); ASSERT_EQ(fastq("Rec", "CGT", "#!%"), tmp_record); } TEST(alignment_se, sequence_b_extends_past_a__shift_of_1) { const fastq record("Rec", "CGTA", "#!%%"); const fastq_pair_vec adapters = create_adapter_vec(fastq("Adp", "ACGTAGTATA", "!!!!!!!!!!")); const alignment_info expected = new_aln(4, -1, 4, 0, 0, 0); const alignment_info result = align_single_ended_sequence(record, adapters, 1); ASSERT_EQ(expected, result); fastq tmp_record = record; truncate_single_ended_sequence(result, tmp_record); ASSERT_EQ(fastq("Rec", "", ""), tmp_record); } /////////////////////////////////////////////////////////////////////////////// // Cases 8: Both sequences extends past the other // AAAAAAAAAAAAAAAAAA // BBBBBBBBBBBBBBBBBB // Expected result = Optimal alignment involving all overlapping bases TEST(alignment_se, sequences_extend_past_mate) { const fastq record("Rec", "ACGTAGTATATAGT", "!!!!!!!!!!!!!!"); const fastq_pair_vec adapters = create_adapter_vec(fastq("Adp", "CCGAACGTAGTATA", "!!!!!!!!!!!!!!")); const alignment_info expected = new_aln(10, -4, 10, 0, 0, 0); const alignment_info result = align_single_ended_sequence(record, adapters, 4); ASSERT_EQ(expected, result); fastq tmp_record = record; truncate_single_ended_sequence(result, tmp_record); ASSERT_EQ(fastq("Rec", "", ""), tmp_record); } /////////////////////////////////////////////////////////////////////////////// // Empty sequence or adapter TEST(alignment_se, empty_sequence) { const fastq record; const fastq_pair_vec adapters = create_adapter_vec(fastq("Adp", "CCGAACGTAGTATA", "!!!!!!!!!!!!!!")); const alignment_info expected; const alignment_info result = align_single_ended_sequence(record, adapters, 0); ASSERT_EQ(expected, result); } TEST(alignment_se, empty_adapter) { const fastq record("Rec", "ACGTAGTATATAGT", "!!!!!!!!!!!!!!"); const fastq_pair_vec adapters = create_adapter_vec(fastq()); const alignment_info expected; const alignment_info result = align_single_ended_sequence(record, adapters, 0); ASSERT_EQ(expected, result); } /////////////////////////////////////////////////////////////////////////////// // Misc TEST(alignment_se, shift_is_lower_than_possible) { const fastq record("Rec", "AAAA", "!!!!"); const fastq_pair_vec adapters = create_adapter_vec(fastq("Adp", "TTTT", "!!!!")); const alignment_info expected; const alignment_info result = align_single_ended_sequence(record, adapters, -10); ASSERT_EQ(expected, result); } TEST(alignment_se, only_adapter_1_is_used) { const fastq_pair_vec adapters = create_adapter_vec(fastq("barcode", "AAA", "JJJ"), fastq("barcode", "TTTAAA", "JJJJJJ")); const fastq record("Rec", "CCCCTTTAAA", "0987654321"); const alignment_info expected = new_aln(3, 7, 3); const alignment_info result = align_single_ended_sequence(record, adapters, 0); ASSERT_EQ(expected, result); } TEST(alignment_se, prefer_best_alignement__first) { fastq_pair_vec adapters; adapters.push_back(fastq_pair(fastq("adapter", "TGCTGC", "JJJJJJ"), fastq())); adapters.push_back(fastq_pair(fastq("adapter", "TGCTGA", "JJJJJJ"), fastq())); const fastq record("Read", "TAGTCGCTATGCTGC", "!!!!!!!!!103459"); const alignment_info expected = new_aln(6, 9, 6); const alignment_info result = align_single_ended_sequence(record, adapters, 0); ASSERT_EQ(expected, result); } TEST(alignment_se, prefer_best_alignement__second) { fastq_pair_vec adapters; adapters.push_back(fastq_pair(fastq("adapter", "TGCTGA", "JJJJJJ"), fastq())); adapters.push_back(fastq_pair(fastq("adapter", "TGCTGC", "JJJJJJ"), fastq())); const fastq record("Read", "TAGTCGCTATGCTGC", "!!!!!!!!!103459"); const alignment_info expected = new_aln(6, 9, 6, 0, 0, 1); const alignment_info result = align_single_ended_sequence(record, adapters, 0); ASSERT_EQ(expected, result); } TEST(alignment_se, prefer_best_alignement__neither) { fastq_pair_vec barcodes; barcodes.push_back(fastq_pair(fastq("barcode", "AAAAAA", "JJJJJJ"), fastq())); barcodes.push_back(fastq_pair(fastq("barcode", "CCCCCC", "JJJJJJ"), fastq())); const fastq record = fastq("Read", "AACTGTACGTAGTT", "!!!!!!10345923"); const alignment_info result = align_single_ended_sequence(record, barcodes, 0); ASSERT_EQ(alignment_info(), result); } /////////////////////////////////////////////////////////////////////////////// // Case 1 PE: No overlap between sequences: // AAAAAAAAAAA // BBBBBBBBBBBBBBB // Expected result = suboptimal alignment or no overlap TEST(alignment_pe, unalignable_sequence) { const fastq record1("Rec", "AAAA", "!!!!"); const fastq record2("Rec", "TTTT", "!!!!"); const fastq_pair_vec adapters = create_adapter_vec(fastq("PCR1", "CGCTGA", "!!!!!!"), fastq("PCR2", "TGTAC", "!!!!!")); const alignment_info expected; const alignment_info result = align_paired_ended_sequences(record1, record2, adapters, 0); ASSERT_EQ(expected, result); ASSERT_TRUNCATED_PE_IS_UNCHANGED(result, record1, record2); } TEST(alignment_pe, no_expected_overlap) { const fastq record1("Rec", "ACGTAGTA", "!!!!!!!!"); const fastq record2("Rec", "TGAGACGGT", "!!!!!!!!!"); const fastq_pair_vec adapters = create_adapter_vec(fastq("PCR1", "CGCTGA", "!!!!!!"), fastq("PCR2", "TGTAC", "!!!!!")); const alignment_info expected = new_aln(0, 6, 2, 1); const alignment_info result = align_paired_ended_sequences(record1, record2, adapters, 0); ASSERT_EQ(expected, result); ASSERT_TRUNCATED_PE_IS_UNCHANGED(result, record1, record2); } /////////////////////////////////////////////////////////////////////////////// // Case 2 PE: Partial overlap between sequences: // AAAAAAAAAAA // BBBBBBBBBBBBBBB // Expected result = optimal alignment between ends TEST(alignment_pe, partial_overlap) { const fastq record1("Rec", "ACGTAGTAA", "!!!!!!!!!"); const fastq record2("Rec", "AGTAAGGT", "!!!!!!!!"); const fastq_pair_vec adapters = create_adapter_vec(fastq("PCR1", "CGCTGA", "!!!!!!"), fastq("PCR2", "TGTAC", "!!!!!")); const alignment_info expected = new_aln(5, 4, 5); const alignment_info result = align_paired_ended_sequences(record1, record2, adapters, 0); ASSERT_EQ(expected, result); ASSERT_TRUNCATED_PE_IS_UNCHANGED(result, record1, record2); } /////////////////////////////////////////////////////////////////////////////// // Case 3 PE: Complete overlap between sequences: // AAAAAAAAAAA // BBBBBBBBBBB // Expected result = Optimal alignment involving all bases TEST(alignment_pe, completely_overlapping_sequences) { const fastq record1("Rec", "ACGTAGTA", "!!!!!!!!"); const fastq record2 = record1; const fastq_pair_vec adapters = create_adapter_vec(fastq("PCR1", "CGCTGA", "!!!!!!"), fastq("PCR2", "TGTAC", "!!!!!")); const alignment_info expected = new_aln(8, 0, 8); const alignment_info result = align_paired_ended_sequences(record1, record2, adapters, 0); ASSERT_EQ(expected, result); ASSERT_TRUNCATED_PE_IS_UNCHANGED(result, record1, record2); } /////////////////////////////////////////////////////////////////////////////// // Cases 4 and 5 PE: Sequence A completely contains sequence B (and vice versa) // AAAAAAAAAAA AAAA // BBBBB BBBBBBBBBB // Expected result = Optimal alignment involving all bases of the shortest read TEST(alignment_pe, sequence_a_contains_b) { const fastq record1("Rec1", "ACGTAGTA", "!!!!!!!!"); const fastq record2("Rec2", "TAGTA", "!!!!!"); const fastq_pair_vec adapters = create_adapter_vec(fastq("PCR1", "CGCTGA", "!!!!!!"), fastq("PCR2", "TGTAC", "!!!!!")); const alignment_info expected = new_aln(5, 3, 5); const alignment_info result = align_paired_ended_sequences(record1, record2, adapters, 0); ASSERT_EQ(expected, result); ASSERT_TRUNCATED_PE_IS_UNCHANGED(result, record1, record2); } TEST(alignment_pe, sequence_b_contains_a) { const fastq record1("Rec1", "ACGT", "!!!!"); const fastq record2("Rec2", "ACGTAGTA", "!!!!!!!!"); const fastq_pair_vec adapters = create_adapter_vec(fastq("PCR1", "CGCTGA", "!!!!!!"), fastq("PCR2", "TGTAC", "!!!!!")); const alignment_info expected = new_aln(4, 0, 4); const alignment_info result = align_paired_ended_sequences(record1, record2, adapters, 0); ASSERT_EQ(expected, result); ASSERT_TRUNCATED_PE_IS_UNCHANGED(result, record1, record2); } /////////////////////////////////////////////////////////////////////////////// // Cases 6 and 7 PE: Sequence A extends past sequence B (and vice versa) // AAAAAAAAAAAAAA AAAA // BBBBB BBBBBBBBBBBBB TEST(alignment_pe, sequence_a_extends_past_b) { const fastq record1("Rec1", "ACGTAGTACG", "!!!!!!!!!!"); const fastq record2("Rec2", "AGTA", "!!!!"); const fastq_pair_vec adapters = create_adapter_vec(fastq("PCR1", "CGCTGA", "!!!!!!"), fastq("PCR2", "TGTAC", "!!!!!")); const alignment_info expected = new_aln(6, 4, 6); const alignment_info result = align_paired_ended_sequences(record1, record2, adapters, 0); ASSERT_EQ(expected, result); fastq tmp_record1 = record1; fastq tmp_record2 = record2; ASSERT_EQ(1, truncate_paired_ended_sequences(result, tmp_record1, tmp_record2)); ASSERT_EQ(fastq("Rec1", "ACGTAGTA", "!!!!!!!!"), tmp_record1); ASSERT_EQ(fastq("Rec2", "AGTA", "!!!!"), tmp_record2); } TEST(alignment_pe, sequence_b_extends_past_a) { const fastq record1("Rec1", "CGTA", "!!!!"); const fastq record2("Rec2", "ACCGTAGTAT", "!!!!!!!!!!"); const fastq_pair_vec adapters = create_adapter_vec(fastq("PCR1", "CGCTGA", "!!!!!!"), fastq("PCR2", "TGTAC", "!!!!!")); const alignment_info expected = new_aln(6, -2, 6); const alignment_info result = align_paired_ended_sequences(record1, record2, adapters, 0); ASSERT_EQ(expected, result); fastq tmp_record1 = record1; fastq tmp_record2 = record2; ASSERT_EQ(1, truncate_paired_ended_sequences(result, tmp_record1, tmp_record2)); ASSERT_EQ(fastq("Rec1", "CGTA", "!!!!"), tmp_record1); ASSERT_EQ(fastq("Rec2", "CGTAGTAT", "!!!!!!!!"), tmp_record2); } /////////////////////////////////////////////////////////////////////////////// // Cases 8 PE: Both sequences extends past the other // AAAAAAAAAAAAAAAAAA // BBBBBBBBBBBBBBBBBB // Expected result = Optimal alignment involving all overlapping bases TEST(alignment_pe, sequences_extend_past_mate) { const fastq record1("Rec1", "ACGTAGTATACGCT", "!!!!!!!!!!!!!!"); const fastq record2("Rec2", "GTACACGTAGTATA", "!!!!!!!!!!!!!!"); const fastq_pair_vec adapters = create_adapter_vec(fastq("PCR1", "CGCTGA", "!!!!!!"), fastq("PCR2", "TGTAC", "!!!!!")); const alignment_info expected = new_aln(18, -4, 18); const alignment_info result = align_paired_ended_sequences(record1, record2, adapters, 0); ASSERT_EQ(expected, result); fastq tmp_record1 = record1; fastq tmp_record2 = record2; ASSERT_EQ(2, truncate_paired_ended_sequences(result, tmp_record1, tmp_record2)); ASSERT_EQ(fastq("Rec1", "ACGTAGTATA", "!!!!!!!!!!"), tmp_record1); ASSERT_EQ(fastq("Rec2", "ACGTAGTATA", "!!!!!!!!!!"), tmp_record2); } TEST(alignment_pe, only_adadapter_sequence) { const fastq record1("Rec1", "CCCGAC", "!!!!!!"); const fastq record2("Rec2", "ATGCCTT", "!!!!!!!"); const fastq_pair_vec adapters = create_adapter_vec(fastq("PCR1", "CCCGACCCGT", "!!!!!!!!!!"), fastq("PCR2", "AAGATGCCTT", "!!!!!!!!!!")); ASSERT_EQ(new_aln(13, -7, 13), align_paired_ended_sequences(record1, record2, adapters, 0)); } TEST(alignment_pe, only_adadapter_sequence__missing_base__shift) { // Test the case where both reads are adapters, but are missing a single base // Normally, alignments that do not invovle read1 vs read2 are skipped, but // missing bases may cause some alignments to be missed. const fastq record1("Rec1", "CCGACC", "!!!!!!"); const fastq record2("Rec2", "ATGCCT", "!!!!!!"); const fastq_pair_vec adapters = create_adapter_vec(fastq("PCR1", "CCCGACCCGT", "!!!!!!!!!!"), fastq("PCR2", "AAGATGCCTT", "!!!!!!!!!!")); // Sub-optimal alignment: // aagatgccttCCGACC // ATGCCTcccgacccgt ASSERT_EQ(new_aln( 1, -3, 9, 4), align_paired_ended_sequences(record1, record2, adapters, 0)); // Optimal alignment, only possible with shift // aagatgccttCCGACC // ATGCCTcccgacccgt ASSERT_EQ(new_aln(11, -7, 13, 1), align_paired_ended_sequences(record1, record2, adapters, 1)); } TEST(alignment_pe, invalid_alignment) { fastq record1("Rec", "", ""); fastq record2("Rec", "", ""); const alignment_info alignment = new_aln(0, 1); ASSERT_THROW(truncate_paired_ended_sequences(alignment, record1, record2), std::invalid_argument); } /////////////////////////////////////////////////////////////////////////////// TEST(alignment_pe, empty_mate_1) { const fastq record1("Rec", "ACGTAGTAA", "!!!!!!!!!"); const fastq record2("Rec", "AGTAAGGT", "!!!!!!!!"); const fastq_pair_vec adapters = create_adapter_vec(fastq("PCR1", "CGCTGA", "!!!!!!"), fastq("PCR2", "TGTAC", "!!!!!")); const alignment_info expected = new_aln(5, 4, 5); const alignment_info result = align_paired_ended_sequences(record1, record2, adapters, 0); ASSERT_EQ(expected, result); ASSERT_TRUNCATED_PE_IS_UNCHANGED(result, record1, record2); } /////////////////////////////////////////////////////////////////////////////// // Collapsing of reads TEST(collapsing, partial_overlap) { fastq record1("Rec1", "ATATTATA", "01234567"); fastq record2("Rec2", "NNNNACGT", "ABCDEFGH"); const alignment_info alignment = new_aln(0, 4); ASSERT_EQ(0, truncate_paired_ended_sequences(alignment, record1, record2)); const fastq collapsed_expected = fastq("Rec1", "ATATTATAACGT", "01234567EFGH"); const fastq collapsed_result = collapse_paired_ended_sequences(alignment, record1, record2, g_rng); ASSERT_EQ(collapsed_expected, collapsed_result); } TEST(collapsing, complete_overlap_both_directions) { fastq record1("Rec1", "ATATTATAA", "JJJJJJJJJ"); fastq record2("Rec2", "AATATTATA", "JJJJJJJJJ"); const alignment_info alignment = new_aln(0, -1); ASSERT_EQ(2, truncate_paired_ended_sequences(alignment, record1, record2)); const fastq collapsed_expected = fastq("Rec1", "ATATTATA", "wwwwwwww", FASTQ_ENCODING_SAM); const fastq collapsed_result = collapse_paired_ended_sequences(alignment, record1, record2, g_rng); ASSERT_EQ(collapsed_expected, collapsed_result); } TEST(collapsing, complete_overlap_mate_1) { fastq record1("Rec1", "ATATTATAG", "JJJJJJJJJ"); fastq record2("Rec2", "ATATTATA", "JJJJJJJJ"); const alignment_info alignment = new_aln(); ASSERT_EQ(1, truncate_paired_ended_sequences(alignment, record1, record2)); const fastq collapsed_expected = fastq("Rec1", "ATATTATA", "wwwwwwww", FASTQ_ENCODING_SAM); const fastq collapsed_result = collapse_paired_ended_sequences(alignment, record1, record2, g_rng); ASSERT_EQ(collapsed_expected, collapsed_result); } TEST(collapsing, complete_overlap_mate_2) { fastq record1("Rec1", "ATATTATA", "JJJJJJJJ"); fastq record2("Rec2", "AATATTATA", "JJJJJJJJJ"); const alignment_info alignment = new_aln(0, -1); ASSERT_EQ(1, truncate_paired_ended_sequences(alignment, record1, record2)); const fastq collapsed_expected = fastq("Rec1", "ATATTATA", "wwwwwwww", FASTQ_ENCODING_SAM); const fastq collapsed_result = collapse_paired_ended_sequences(alignment, record1, record2, g_rng); ASSERT_EQ(collapsed_expected, collapsed_result); } TEST(collapsing, unequal_sequence_length__mate_1_shorter) { fastq record1("Rec1", "ATA", "012"); fastq record2("Rec2", "NNNNACGT", "ABCDEFGH"); const alignment_info alignment = new_aln(0, 3); ASSERT_EQ(0, truncate_paired_ended_sequences(alignment, record1, record2)); const fastq collapsed_expected = fastq("Rec1", "ATANNNNACGT", "012ABCDEFGH"); const fastq collapsed_result = collapse_paired_ended_sequences(alignment, record1, record2, g_rng); ASSERT_EQ(collapsed_expected, collapsed_result); } TEST(collapsing, unequal_sequence_length__mate_1_shorter__mate_2_extends_past) { fastq record1("Rec1", "ATA", "012"); fastq record2("Rec2", "AANNNNACGT", "90ABCDEFGH"); const alignment_info alignment = new_aln(0, -2); ASSERT_EQ(1, truncate_paired_ended_sequences(alignment, record1, record2)); const fastq collapsed_expected = fastq("Rec1", "ATANACGT", "012DEFGH"); const fastq collapsed_result = collapse_paired_ended_sequences(alignment, record1, record2, g_rng); ASSERT_EQ(collapsed_expected, collapsed_result); } TEST(collapsing, unequal_sequence_length__mate_2_shorter) { fastq record1("Rec1", "ATATTATA", "01234567"); fastq record2("Rec2", "ACG", "EFG"); const alignment_info alignment = new_aln(0, 8); ASSERT_EQ(0, truncate_paired_ended_sequences(alignment, record1, record2)); const fastq collapsed_expected = fastq("Rec1", "ATATTATAACG", "01234567EFG"); const fastq collapsed_result = collapse_paired_ended_sequences(alignment, record1, record2, g_rng); ASSERT_EQ(collapsed_expected, collapsed_result); } TEST(collapsing, ambiguous_sites_are_filled_from_the_mate) { fastq record1("Rec1", "NNNNNNTATA", "0123456789"); fastq record2("Rec2", "ACGTNNNNNN", "ABCDEFGHIJ"); const alignment_info alignment; ASSERT_EQ(0, truncate_paired_ended_sequences(alignment, record1, record2)); const fastq collapsed_expected = fastq("Rec1", "ACGTNNTATA", "ABCD!!6789"); const fastq collapsed_result = collapse_paired_ended_sequences(alignment, record1, record2, g_rng); ASSERT_EQ(collapsed_expected, collapsed_result); } TEST(collapsing, consensus_bases__identical_nucleotides) { fastq record1("Rec1", "GCATGATATA", "012345!0:A"); fastq record2("Rec2", "TATATACAAC", "(3&?EFGHIJ"); const alignment_info alignment = new_aln(0, 6); ASSERT_EQ(0, truncate_paired_ended_sequences(alignment, record1, record2)); const fastq collapsed_expected = fastq("Rec1", "GCATGATATATACAAC", "012345(FBcEFGHIJ", FASTQ_ENCODING_SAM); const fastq collapsed_result = collapse_paired_ended_sequences(alignment, record1, record2, g_rng); ASSERT_EQ(collapsed_expected, collapsed_result); } TEST(collapsing, consensus_bases__identical_nucleotides__scores_are_capped_at_41) { fastq record1("Rec1", "GCATGATATA", "0123456789"); fastq record2("Rec2", "TATATACAAC", "ABCDEFGHIJ"); const alignment_info alignment = new_aln(0, 6); ASSERT_EQ(0, truncate_paired_ended_sequences(alignment, record1, record2)); const fastq collapsed_expected = fastq("Rec1", "GCATGATATATACAAC", "012345Z\\^`EFGHIJ", FASTQ_ENCODING_SAM); const fastq collapsed_result = collapse_paired_ended_sequences(alignment, record1, record2, g_rng); ASSERT_EQ(collapsed_expected, collapsed_result); } TEST(collapsing, consensus_bases__different_nucleotides) { fastq record1("Rec1", "GCATGAGCAT", "012345!0:A"); fastq record2("Rec2", "TATATACAAC", "(3&?EFGHIJ"); const alignment_info alignment = new_aln(0, 6); ASSERT_EQ(0, truncate_paired_ended_sequences(alignment, record1, record2)); const fastq collapsed_expected = fastq("Rec1", "GCATGATAATTACAAC", "012345(%5%EFGHIJ"); const fastq collapsed_result = collapse_paired_ended_sequences(alignment, record1, record2, g_rng); ASSERT_EQ(collapsed_expected, collapsed_result); } TEST(collapsing, consensus_bases__different_nucleotides__same_quality_1) { const fastq record1("Rec1", "G", "1"); const fastq record2("Rec2", "T", "1"); const alignment_info alignment; std::seed_seq seed{1}; std::mt19937 rng(seed); const fastq collapsed_expected = fastq("Rec1", "G", "#"); const fastq collapsed_result = collapse_paired_ended_sequences(alignment, record1, record2, rng); ASSERT_EQ(collapsed_expected, collapsed_result); } TEST(collapsing, consensus_bases__different_nucleotides__same_quality_2) { const fastq record1("Rec1", "G", "1"); const fastq record2("Rec2", "T", "1"); const alignment_info alignment; std::seed_seq seed{2}; std::mt19937 rng(seed); const fastq collapsed_expected = fastq("Rec1", "T", "#"); const fastq collapsed_result = collapse_paired_ended_sequences(alignment, record1, record2, rng); ASSERT_EQ(collapsed_expected, collapsed_result); } TEST(collapsing, offset_past_the_end) { const fastq record1("Rec1", "G", "1"); const fastq record2("Rec2", "T", "1"); const alignment_info alignment = new_aln(0, 2); ASSERT_THROW(collapse_paired_ended_sequences(alignment, record1, record2, g_rng), std::invalid_argument); } TEST(collapsing, partial_overlap__mate_numbers_removed) { const fastq record1("Read/1", "ATATTATA", "01234567"); const fastq record2("Read/2", "NNNNACGT", "ABCDEFGH"); const alignment_info alignment = new_aln(0, 4); const fastq collapsed_expected = fastq("Read", "ATATTATAACGT", "01234567EFGH"); const fastq collapsed_result = collapse_paired_ended_sequences(alignment, record1, record2, g_rng); ASSERT_EQ(collapsed_expected, collapsed_result); } TEST(collapsing, partial_overlap__mate_numbers_removed__mate_1_meta_kept) { const fastq record1("Read/1 Meta1", "ATATTATA", "01234567"); const fastq record2("Read/2 Meta2", "NNNNACGT", "ABCDEFGH"); const alignment_info alignment = new_aln(0, 4); const fastq collapsed_expected = fastq("Read Meta1", "ATATTATAACGT", "01234567EFGH"); const fastq collapsed_result = collapse_paired_ended_sequences(alignment, record1, record2, g_rng); ASSERT_EQ(collapsed_expected, collapsed_result); } TEST(collapsing, partial_overlap__mate_numbers_removed__non_std_mate_sep) { const fastq record1("Read:1", "ATATTATA", "01234567"); const fastq record2("Read:2", "NNNNACGT", "ABCDEFGH"); const alignment_info alignment = new_aln(0, 4); const fastq collapsed_expected = fastq("Read", "ATATTATAACGT", "01234567EFGH"); const fastq collapsed_result = collapse_paired_ended_sequences(alignment, record1, record2, g_rng, ':'); ASSERT_EQ(collapsed_expected, collapsed_result); } TEST(collapsing, partial_overlap__mate_numbers_removed__non_std_mate_sep__not_set) { const fastq record1("Read:1", "ATATTATA", "01234567"); const fastq record2("Read:2", "NNNNACGT", "ABCDEFGH"); const alignment_info alignment = new_aln(0, 4); const fastq collapsed_expected = fastq("Read:1", "ATATTATAACGT", "01234567EFGH"); const fastq collapsed_result = collapse_paired_ended_sequences(alignment, record1, record2, g_rng); ASSERT_EQ(collapsed_expected, collapsed_result); } /////////////////////////////////////////////////////////////////////////////// // Barcode extraction TEST(extract_adapter_sequences, empty_sequences) { const fastq expected_1 = fastq("read1", "", ""); const fastq expected_2 = fastq("read2", "", ""); fastq read1 = expected_1; fastq read2 = expected_2; extract_adapter_sequences(alignment_info(), read1, read2); ASSERT_EQ(expected_1, read1); ASSERT_EQ(expected_2, read2); } TEST(extract_adapter_sequences, empty_sequence_1) { const fastq expected_1 = fastq("read1", "", ""); const fastq expected_2 = fastq("read2", "GGGGCC", "!!!!!!"); fastq read1 = expected_1; fastq read2 = fastq("read2", "GGGGCC", "!!!!!!"); extract_adapter_sequences(alignment_info(), read1, read2); ASSERT_EQ(fastq("read1", "", ""), read1); ASSERT_EQ(fastq("read2", "", ""), read2); } TEST(extract_adapter_sequences, empty_sequence_2) { const fastq expected_1 = fastq("read1", "AATTTT", "!!!!!!"); const fastq expected_2 = fastq("read2", "", ""); fastq read1 = fastq("read1", "", ""); fastq read2 = expected_2; extract_adapter_sequences(alignment_info(), read1, read2); ASSERT_EQ(fastq("read1", "", ""), read1); ASSERT_EQ(fastq("read2", "", ""), read2); } TEST(extract_adapter_sequences, empty_sequence_3) { const fastq expected_1 = fastq("read1", "", ""); const fastq expected_2 = fastq("read2", "", ""); fastq read1 = expected_1; fastq read2 = expected_2; extract_adapter_sequences(alignment_info(), read1, read2); ASSERT_EQ(fastq("read1", "", ""), read1); ASSERT_EQ(fastq("read2", "", ""), read2); } TEST(extract_adapter_sequences, case_1_no_alignment) { const fastq expected_1 = fastq("read1", "AATTTT", "!!!!!!"); const fastq expected_2 = fastq("read2", "GGGGCC", "!!!!!!"); fastq read1 = expected_1; fastq read2 = expected_2; extract_adapter_sequences(alignment_info(), read1, read2); ASSERT_EQ(fastq("read1", "", ""), read1); ASSERT_EQ(fastq("read2", "", ""), read2); } TEST(extract_adapter_sequences, case_2_partial_overlap) { const fastq expected_1 = fastq("read1", "AATTTT", "!!!!!!"); const fastq expected_2 = fastq("read2", "GGGGCC", "!!!!!!"); fastq read1 = expected_1; fastq read2 = expected_2; extract_adapter_sequences(new_aln(0, 2), read1, read2); ASSERT_EQ(fastq("read1", "", ""), read1); ASSERT_EQ(fastq("read2", "", ""), read2); } TEST(extract_adapter_sequences, case_3_complete_overlap) { const fastq expected_1 = fastq("read1", "AATTTT", "!!!!!!"); const fastq expected_2 = fastq("read2", "GGGGCC", "!!!!!!"); fastq read1 = expected_1; fastq read2 = expected_2; extract_adapter_sequences(new_aln(), read1, read2); ASSERT_EQ(fastq("read1", "", ""), read1); ASSERT_EQ(fastq("read2", "", ""), read2); } TEST(extract_adapter_sequences, case_4_read1_contains_read2) { const fastq expected_1 = fastq("read1", "AATTTT", "!!!!!!"); const fastq expected_2 = fastq("read2", "GGCC", "!!!!"); fastq read1 = expected_1; fastq read2 = expected_2; extract_adapter_sequences(new_aln(0, 2), read1, read2); ASSERT_EQ(fastq("read1", "", ""), read1); ASSERT_EQ(fastq("read2", "", ""), read2); } TEST(extract_adapter_sequences, case_5_read2_contains_read1) { const fastq expected_1 = fastq("read1", "AATT", "!!!!"); const fastq expected_2 = fastq("read2", "GGGGCC", "!!!!!!"); fastq read1 = expected_1; fastq read2 = expected_2; extract_adapter_sequences(new_aln(), read1, read2); ASSERT_EQ(fastq("read1", "", ""), read1); ASSERT_EQ(fastq("read2", "", ""), read2); } TEST(extract_adapter_sequences, case_6_read1_extends_past_read2) { const fastq expected_1 = fastq("read1", "AATTTTCC", "12345678"); const fastq expected_2 = fastq("read2", "GGGGGG", "!!!!!!"); fastq read1 = expected_1; fastq read2 = expected_2; extract_adapter_sequences(new_aln(), read1, read2); ASSERT_EQ(fastq("read1", "CC", "78"), read1); ASSERT_EQ(fastq("read2", "", ""), read2); } TEST(extract_adapter_sequences, case_7_read2_extends_past_read1) { const fastq expected_1 = fastq("read1", "TTTTTT", "!!!!!!"); const fastq expected_2 = fastq("read2", "AAGGGGGG", "12345678"); fastq read1 = expected_1; fastq read2 = expected_2; extract_adapter_sequences(new_aln(0, -2), read1, read2); ASSERT_EQ(fastq("read1", "", ""), read1); ASSERT_EQ(fastq("read2", "AA", "12"), read2); } TEST(extract_adapter_sequences, case_8_reads_extends_past_each_pther) { const fastq expected_1 = fastq("read1", "TTTTTTCCC", "ABCDEFGHI"); const fastq expected_2 = fastq("read2", "AAGGGGGG", "12345678"); fastq read1 = expected_1; fastq read2 = expected_2; extract_adapter_sequences(new_aln(0, -2), read1, read2); ASSERT_EQ(fastq("read1", "CCC", "GHI"), read1); ASSERT_EQ(fastq("read2", "AA", "12"), read2); } /////////////////////////////////////////////////////////////////////////////// // Brute-force checking of alignment calculations // Simply check all combinations involving 3 bases varying, for a range of // sequence lengths to help catch corner cases with the optimizations // The function is not exposed, so a declaration is required bool compare_subsequences(const alignment_info& best, alignment_info& current, const char* seq_1_ptr, const char* seq_2_ptr); /** Naive reimplementation of alignment calculation. **/ void update_alignment(alignment_info& aln, const std::string& a, const std::string& b, size_t nbases) { ASSERT_EQ(a.length(), b.length()); for (size_t i = 0; i < nbases; ++i) { const char nt1 = a.at(i); const char nt2 = b.at(i); if (nt1 == 'N' || nt2 == 'N') { aln.n_ambiguous++; } else if (nt1 == nt2) { aln.score++; } else { aln.n_mismatches++; aln.score--; } } } /** Returns all 3 nt combinations of the bases ACGTN. **/ std::vector get_combinations() { std::vector result; const std::string nts = "ACGTN"; for (size_t i = 0; i < nts.length(); ++i) { for (size_t j = 0; j < nts.length(); ++j) { for (size_t k = 0; k < nts.length(); ++k) { std::string combination(3, 'A'); combination.at(0) = nts.at(i); combination.at(1) = nts.at(j); combination.at(2) = nts.at(k); result.push_back(combination); } } } return result; } TEST(compare_subsequences, brute_force_validation) { const alignment_info best; const std::vector combinations = get_combinations(); for (size_t seqlen = 10; seqlen <= 20; ++seqlen) { for (size_t pos = 0; pos < seqlen; ++pos) { const size_t nbases = std::min(3, seqlen - pos); for (size_t i = 0; i < combinations.size(); ++i) { for (size_t j = 0; j < combinations.size(); ++j) { alignment_info expected; expected.length = seqlen; expected.score = seqlen - nbases; update_alignment(expected, combinations.at(i), combinations.at(j), nbases); std::string mate1 = std::string(seqlen, 'A'); mate1.replace(pos, nbases, combinations.at(i).substr(0, nbases)); std::string mate2 = std::string(seqlen, 'A'); mate2.replace(pos, nbases, combinations.at(j).substr(0, nbases)); alignment_info current; current.length = seqlen; compare_subsequences(best, current, mate1.c_str(), mate2.c_str()); ASSERT_EQ(expected, current); } } } } } } // namespace ar adapterremoval-2.2.2/tests/argparse_test.cpp000066400000000000000000000324241313314234200212350ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2011 by Stinus Lindgreen - stinus@binf.ku.dk * * Copyright (C) 2014 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #include #include #include #include #include "argparse.hpp" #include "debug.hpp" namespace ar { typedef std::unique_ptr consumer_autoptr; /////////////////////////////////////////////////////////////////////////////// // flag -- boolean TEST(flag, defaults) { consumer_autoptr ptr(new argparse::flag()); ASSERT_FALSE(ptr->is_set()); ASSERT_EQ(" ", ptr->metavar()); ASSERT_EQ("", ptr->help()); ASSERT_EQ("off", ptr->to_str()); } TEST(flag, help) { consumer_autoptr ptr(new argparse::flag(NULL, "help! help!")); ASSERT_EQ("help! help!", ptr->help()); } TEST(flag, consumes_zero_arguments) { string_vec arguments; arguments.push_back("--foo"); consumer_autoptr ptr(new argparse::flag()); ASSERT_FALSE(ptr->is_set()); ASSERT_EQ(0, ptr->consume(arguments.begin(), arguments.end())); ASSERT_TRUE(ptr->is_set()); } TEST(flag, consume_past_the_end) { const string_vec arguments; consumer_autoptr ptr(new argparse::flag()); ASSERT_FALSE(ptr->is_set()); ASSERT_EQ(0, ptr->consume(arguments.begin(), arguments.end())); ASSERT_TRUE(ptr->is_set()); } TEST(flag, consume__with_sink__true) { bool sink = true; consumer_autoptr ptr(new argparse::flag(&sink)); ASSERT_EQ("on", ptr->to_str()); const string_vec arguments; ASSERT_EQ(0, ptr->consume(arguments.begin(), arguments.end())); ASSERT_TRUE(ptr->is_set()); ASSERT_TRUE(sink); ASSERT_EQ("on", ptr->to_str()); } TEST(flag, consume__with_sink__false) { bool sink = false; consumer_autoptr ptr(new argparse::flag(&sink)); ASSERT_EQ("off", ptr->to_str()); const string_vec arguments; ASSERT_EQ(0, ptr->consume(arguments.begin(), arguments.end())); ASSERT_TRUE(ptr->is_set()); ASSERT_TRUE(sink); ASSERT_EQ("on", ptr->to_str()); } /////////////////////////////////////////////////////////////////////////////// // any -- string TEST(any, defaults) { consumer_autoptr ptr(new argparse::any()); ASSERT_FALSE(ptr->is_set()); ASSERT_EQ("", ptr->metavar()); ASSERT_EQ("", ptr->help()); ASSERT_EQ("", ptr->to_str()); } TEST(any, args_set) { std::string sink = "kitchensink"; consumer_autoptr ptr(new argparse::any(&sink, "a metavar", "help!")); ASSERT_FALSE(ptr->is_set()); ASSERT_EQ("a metavar", ptr->metavar()); ASSERT_EQ("help!", ptr->help()); ASSERT_EQ("kitchensink", ptr->to_str()); } TEST(any, consumes_one_argument) { string_vec arguments; arguments.push_back("foo"); arguments.push_back("bar"); consumer_autoptr ptr(new argparse::any()); ASSERT_FALSE(ptr->is_set()); ASSERT_EQ(1, ptr->consume(arguments.begin(), arguments.end())); ASSERT_TRUE(ptr->is_set()); ASSERT_EQ("foo", ptr->to_str()); } TEST(any, consume_past_the_end) { const string_vec arguments; consumer_autoptr ptr(new argparse::any()); ASSERT_FALSE(ptr->is_set()); ASSERT_EQ(static_cast(-1), ptr->consume(arguments.begin(), arguments.end())); ASSERT_FALSE(ptr->is_set()); ASSERT_EQ("", ptr->to_str()); } TEST(any, consume__with_sink__empty) { std::string sink; consumer_autoptr ptr(new argparse::any(&sink)); ASSERT_EQ("", ptr->to_str()); string_vec arguments; arguments.push_back("foo"); ASSERT_EQ(1, ptr->consume(arguments.begin(), arguments.end())); ASSERT_TRUE(ptr->is_set()); ASSERT_EQ("foo", sink); ASSERT_EQ("foo", ptr->to_str()); } TEST(any, consume__with_sink__preset) { std::string sink = "kitchensink"; consumer_autoptr ptr(new argparse::any(&sink)); ASSERT_EQ("kitchensink", ptr->to_str()); string_vec arguments; arguments.push_back("foo"); ASSERT_EQ(1, ptr->consume(arguments.begin(), arguments.end())); ASSERT_TRUE(ptr->is_set()); ASSERT_EQ("foo", sink); ASSERT_EQ("foo", ptr->to_str()); } /////////////////////////////////////////////////////////////////////////////// // many -- strings TEST(many, defaults) { string_vec sink; consumer_autoptr ptr(new argparse::many(&sink)); ASSERT_FALSE(ptr->is_set()); ASSERT_EQ("", ptr->metavar()); ASSERT_EQ("", ptr->help()); ASSERT_EQ("", ptr->to_str()); } TEST(many, args_set) { string_vec sink; sink.push_back("kitchensink"); consumer_autoptr ptr(new argparse::many(&sink, "a metavar", "help!")); ASSERT_FALSE(ptr->is_set()); ASSERT_EQ("a metavar", ptr->metavar()); ASSERT_EQ("help!", ptr->help()); ASSERT_EQ("kitchensink", ptr->to_str()); } TEST(many, consumes_one_argument) { string_vec arguments; arguments.push_back("foo"); string_vec sink; consumer_autoptr ptr(new argparse::many(&sink)); ASSERT_FALSE(ptr->is_set()); ASSERT_EQ(1, ptr->consume(arguments.begin(), arguments.end())); ASSERT_TRUE(ptr->is_set()); ASSERT_EQ("foo", ptr->to_str()); } TEST(many, consumes_two_arguments) { string_vec arguments; arguments.push_back("foo"); arguments.push_back("bar"); string_vec sink; consumer_autoptr ptr(new argparse::many(&sink)); ASSERT_FALSE(ptr->is_set()); ASSERT_EQ(2, ptr->consume(arguments.begin(), arguments.end())); ASSERT_TRUE(ptr->is_set()); ASSERT_EQ("foo;bar", ptr->to_str()); } TEST(many, consumes_until_next) { string_vec arguments; arguments.push_back("foo"); arguments.push_back("--zoo"); arguments.push_back("bar"); string_vec sink; consumer_autoptr ptr(new argparse::many(&sink)); ASSERT_FALSE(ptr->is_set()); ASSERT_EQ(1, ptr->consume(arguments.begin(), arguments.end())); ASSERT_TRUE(ptr->is_set()); ASSERT_EQ("foo", ptr->to_str()); } TEST(many, consume_past_the_end) { string_vec sink; const string_vec arguments; consumer_autoptr ptr(new argparse::many(&sink)); ASSERT_FALSE(ptr->is_set()); ASSERT_EQ(0, ptr->consume(arguments.begin(), arguments.end())); ASSERT_TRUE(ptr->is_set()); ASSERT_EQ("", ptr->to_str()); } TEST(many, consume__with_sink__empty) { string_vec sink; string_vec expected; expected.push_back("foo"); consumer_autoptr ptr(new argparse::many(&sink)); ASSERT_EQ("", ptr->to_str()); string_vec arguments; arguments.push_back("foo"); ASSERT_EQ(1, ptr->consume(arguments.begin(), arguments.end())); ASSERT_TRUE(ptr->is_set()); ASSERT_EQ(expected, sink); ASSERT_EQ("foo", ptr->to_str()); } TEST(many, consume__with_sink__preset) { string_vec sink; sink.push_back("kitchensink"); string_vec expected; expected.push_back("foo"); consumer_autoptr ptr(new argparse::many(&sink)); ASSERT_EQ("kitchensink", ptr->to_str()); string_vec arguments; arguments.push_back("foo"); ASSERT_EQ(1, ptr->consume(arguments.begin(), arguments.end())); ASSERT_TRUE(ptr->is_set()); ASSERT_EQ(expected, sink); ASSERT_EQ("foo", ptr->to_str()); } /////////////////////////////////////////////////////////////////////////////// // knob -- unsigned TEST(knob, defaults) { unsigned sink = 0; consumer_autoptr ptr(new argparse::knob(&sink)); ASSERT_FALSE(ptr->is_set()); ASSERT_EQ("", ptr->metavar()); ASSERT_EQ("", ptr->help()); ASSERT_EQ("0", ptr->to_str()); } TEST(knob, defaults__sink_required) { ASSERT_THROW(argparse::knob(NULL), assert_failed); } TEST(knob, args_set) { unsigned sink = 7913; consumer_autoptr ptr(new argparse::knob(&sink, "a metavar", "help!")); ASSERT_FALSE(ptr->is_set()); ASSERT_EQ("a metavar", ptr->metavar()); ASSERT_EQ("help!", ptr->help()); ASSERT_EQ("7913", ptr->to_str()); } TEST(knob, consumes_one_argument) { unsigned sink = 0; string_vec arguments; arguments.push_back("47"); arguments.push_back("bar"); consumer_autoptr ptr(new argparse::knob(&sink)); ASSERT_FALSE(ptr->is_set()); ASSERT_EQ(1, ptr->consume(arguments.begin(), arguments.end())); ASSERT_TRUE(ptr->is_set()); ASSERT_EQ(47, sink); ASSERT_EQ("47", ptr->to_str()); } TEST(knob, consume_past_the_end) { unsigned sink = 13; const string_vec arguments; consumer_autoptr ptr(new argparse::knob(&sink)); ASSERT_FALSE(ptr->is_set()); ASSERT_EQ(static_cast(-1), ptr->consume(arguments.begin(), arguments.end())); ASSERT_FALSE(ptr->is_set()); ASSERT_EQ(13, sink); ASSERT_EQ("13", ptr->to_str()); } TEST(knob, reject_negative_values) { unsigned sink = 13; string_vec arguments; consumer_autoptr ptr(new argparse::knob(&sink)); arguments.push_back("-47"); ASSERT_FALSE(ptr->is_set()); ASSERT_EQ(static_cast(-1), ptr->consume(arguments.begin(), arguments.end())); ASSERT_FALSE(ptr->is_set()); ASSERT_EQ(13, sink); ASSERT_EQ("13", ptr->to_str()); } TEST(knob, accept_zero) { unsigned sink = 13; string_vec arguments; consumer_autoptr ptr(new argparse::knob(&sink)); arguments.push_back("0"); ASSERT_FALSE(ptr->is_set()); ASSERT_EQ(1, ptr->consume(arguments.begin(), arguments.end())); ASSERT_TRUE(ptr->is_set()); ASSERT_EQ(0, sink); ASSERT_EQ("0", ptr->to_str()); } TEST(knob, upper_bound) { unsigned sink = 13; string_vec arguments; consumer_autoptr ptr(new argparse::knob(&sink)); arguments.push_back("4294967295"); ASSERT_FALSE(ptr->is_set()); ASSERT_EQ(1, ptr->consume(arguments.begin(), arguments.end())); ASSERT_TRUE(ptr->is_set()); ASSERT_EQ(4294967295, sink); ASSERT_EQ("4294967295", ptr->to_str()); } TEST(knob, past_upper_bound) { unsigned sink = 13; string_vec arguments; consumer_autoptr ptr(new argparse::knob(&sink)); arguments.push_back("4294967296"); ASSERT_FALSE(ptr->is_set()); ASSERT_EQ(-1, ptr->consume(arguments.begin(), arguments.end())); ASSERT_FALSE(ptr->is_set()); } TEST(knob, trailing_garbage) { unsigned sink = 13; string_vec arguments; consumer_autoptr ptr(new argparse::knob(&sink)); arguments.push_back("7913w"); ASSERT_FALSE(ptr->is_set()); ASSERT_EQ(-1, ptr->consume(arguments.begin(), arguments.end())); ASSERT_FALSE(ptr->is_set()); } /////////////////////////////////////////////////////////////////////////////// // floaty_knob -- double TEST(floaty_knob, defaults) { double sink = 0; consumer_autoptr ptr(new argparse::floaty_knob(&sink)); ASSERT_FALSE(ptr->is_set()); ASSERT_EQ("", ptr->metavar()); ASSERT_EQ("", ptr->help()); ASSERT_EQ("0", ptr->to_str()); } TEST(floaty_knob, default_nan) { double sink = std::numeric_limits::quiet_NaN(); consumer_autoptr ptr(new argparse::floaty_knob(&sink)); ASSERT_FALSE(ptr->is_set()); ASSERT_EQ("", ptr->metavar()); ASSERT_EQ("", ptr->help()); ASSERT_EQ("", ptr->to_str()); } TEST(floaty_knob, defaults__sink_required) { ASSERT_THROW(argparse::floaty_knob(NULL), assert_failed); } TEST(floaty_knob, args_set) { double sink = 3.142; consumer_autoptr ptr(new argparse::floaty_knob(&sink, "a metavar", "help!")); ASSERT_FALSE(ptr->is_set()); ASSERT_EQ("a metavar", ptr->metavar()); ASSERT_EQ("help!", ptr->help()); ASSERT_EQ("3.142", ptr->to_str()); } TEST(floaty_knob, consumes_one_argument) { double sink = 47.0; string_vec arguments; arguments.push_back("-19.84"); arguments.push_back("bar"); consumer_autoptr ptr(new argparse::floaty_knob(&sink)); ASSERT_FALSE(ptr->is_set()); ASSERT_EQ(1, ptr->consume(arguments.begin(), arguments.end())); ASSERT_TRUE(ptr->is_set()); ASSERT_EQ(-19.84, sink); ASSERT_EQ("-19.84", ptr->to_str()); } TEST(floaty_knob, consume_past_the_end) { double sink = 13; const string_vec arguments; consumer_autoptr ptr(new argparse::floaty_knob(&sink)); ASSERT_FALSE(ptr->is_set()); ASSERT_EQ(static_cast(-1), ptr->consume(arguments.begin(), arguments.end())); ASSERT_FALSE(ptr->is_set()); ASSERT_EQ(13, sink); ASSERT_EQ("13", ptr->to_str()); } TEST(floaty_knob, trailing_garbage) { double sink = 47.0; string_vec arguments; arguments.push_back("-19.84wat"); consumer_autoptr ptr(new argparse::floaty_knob(&sink)); ASSERT_FALSE(ptr->is_set()); ASSERT_EQ(-1, ptr->consume(arguments.begin(), arguments.end())); ASSERT_FALSE(ptr->is_set()); } /////////////////////////////////////////////////////////////////////////////// // parser } // namespace ar adapterremoval-2.2.2/tests/fastq_enc_test.cpp000066400000000000000000000044321313314234200213720ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2011 by Stinus Lindgreen - stinus@binf.ku.dk * * Copyright (C) 2014 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #include #include #include #include "testing.hpp" #include "debug.hpp" #include "fastq.hpp" namespace ar { /////////////////////////////////////////////////////////////////////////////// // Names (default objects) TEST(fastq_enc, global_objects__name) { ASSERT_STREQ("Phred+33", FASTQ_ENCODING_33.name()); ASSERT_STREQ("Phred+64", FASTQ_ENCODING_64.name()); ASSERT_STREQ("Phred+33", FASTQ_ENCODING_SAM.name()); ASSERT_STREQ("Solexa", FASTQ_ENCODING_SOLEXA.name()); } } adapterremoval-2.2.2/tests/fastq_test.cpp000066400000000000000000001004431313314234200205440ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2011 by Stinus Lindgreen - stinus@binf.ku.dk * * Copyright (C) 2014 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #include #include #include #include "testing.hpp" #include "debug.hpp" #include "fastq.hpp" #include "linereader.hpp" namespace ar { class vec_reader : public line_reader_base { public: vec_reader(const string_vec& lines) : m_lines(lines) , m_it(m_lines.begin()) { } bool getline(std::string& dst) { if (m_it == m_lines.end()) { return false; } dst = *m_it++; return true; } private: string_vec m_lines; string_vec::const_iterator m_it; }; /////////////////////////////////////////////////////////////////////////////// // Default constructor TEST(fastq, default_constructor) { const fastq record; ASSERT_EQ("", record.header()); ASSERT_EQ("", record.sequence()); ASSERT_EQ("", record.qualities()); } /////////////////////////////////////////////////////////////////////////////// // Primary constructor TEST(fastq, constructor_empty_fields) { const fastq record("", "", ""); ASSERT_EQ("", record.header()); ASSERT_EQ("", record.sequence()); ASSERT_EQ("", record.qualities()); } TEST(fastq, constructor_simple_record_phred_33_encoded) { const fastq record("record_1", "ACGAGTCA", "!7BF8DGI"); ASSERT_EQ("record_1", record.header()); ASSERT_EQ("ACGAGTCA", record.sequence()); ASSERT_EQ("!7BF8DGI", record.qualities()); } TEST(fastq, constructor_simple_record_phred_64_encoded) { const fastq record("record_2", "ACGAGTCA", "@VaeWcfh", FASTQ_ENCODING_64); ASSERT_EQ("record_2", record.header()); ASSERT_EQ("ACGAGTCA", record.sequence()); ASSERT_EQ("!7BF8DGI", record.qualities()); } TEST(fastq, constructor_simple_record_phred_solexa_encoded) { const fastq record("record_3", "AAACGAGTCA", ";h>S\\TCDUJ", FASTQ_ENCODING_SOLEXA); ASSERT_EQ("record_3", record.header()); ASSERT_EQ("AAACGAGTCA", record.sequence()); ASSERT_EQ("\"I#4=5&&6+", record.qualities()); } TEST(fastq, constructor_simple_record_lowercase_to_uppercase) { const fastq record("record_1", "AnGaGtcA", "!7BF8DGI"); ASSERT_EQ("ANGAGTCA", record.sequence()); } TEST(fastq, constructor_simple_record_dots_to_n) { const fastq record("record_1", "AC.AG.C.", "!7BF8DGI"); ASSERT_EQ("ACNAGNCN", record.sequence()); } TEST(fastq, constructor_score_boundries_phred_33) { ASSERT_NO_THROW(fastq("Rec", "CAT", "!!\"", FASTQ_ENCODING_33)); ASSERT_THROW(fastq("Rec", "CAT", " !\"", FASTQ_ENCODING_33), fastq_error); ASSERT_NO_THROW(fastq("Rec", "CAT", "IJJ", FASTQ_ENCODING_33)); ASSERT_THROW(fastq("Rec", "CAT", "IJK", FASTQ_ENCODING_33), fastq_error); } TEST(fastq, constructor_score_boundries_phred_64) { ASSERT_NO_THROW(fastq("Rec", "CAT", "@@A", FASTQ_ENCODING_64)); ASSERT_THROW(fastq("Rec", "CAT", "?@A", FASTQ_ENCODING_64), fastq_error); ASSERT_NO_THROW(fastq("Rec", "CAT", "ghi", FASTQ_ENCODING_64)); ASSERT_THROW(fastq("Rec", "CAT", "ghj", FASTQ_ENCODING_64), fastq_error); } TEST(fastq, constructor_score_boundries_solexa) { ASSERT_NO_THROW(fastq("Rec", "CAT", ";;<", FASTQ_ENCODING_SOLEXA)); ASSERT_THROW(fastq("Rec", "CAT", ":;<", FASTQ_ENCODING_SOLEXA), fastq_error); ASSERT_NO_THROW(fastq("Rec", "CAT", "ghi", FASTQ_ENCODING_SOLEXA)); ASSERT_THROW(fastq("Rec", "CAT", "ghj", FASTQ_ENCODING_SOLEXA), fastq_error); } TEST(fastq, constructor_score_boundries_ignored) { ASSERT_NO_THROW(fastq("Rec", "CAT", "!!\"", FASTQ_ENCODING_SAM)); ASSERT_THROW(fastq("Rec", "CAT", " !\"", FASTQ_ENCODING_SAM), fastq_error); ASSERT_NO_THROW(fastq("Rec", "CAT", "gh~", FASTQ_ENCODING_SAM)); ASSERT_THROW(fastq("Rec", "CAT", "gh\x7f", FASTQ_ENCODING_SAM), fastq_error); } TEST(fastq, constructor_field_lengths) { ASSERT_NO_THROW(fastq("Name", "CAT", "IJJ")); // A non-empty sequence must be specified ASSERT_THROW(fastq("Name", "", "IJJ"), fastq_error); // A non-empty quality string must be specified ASSERT_THROW(fastq("Name", "CAT", ""), fastq_error); // And the length of each must be the same ASSERT_THROW(fastq("Name", "CA", "IJJ"), fastq_error); ASSERT_THROW(fastq("Name", "CAT", "IJ"), fastq_error); } TEST(fastq, constructor_invalid_nucleotides) { ASSERT_NO_THROW(fastq("Name", "CATT", "IJJI")); // Non-alpha characters are not allowed ASSERT_THROW(fastq("Name", "CAT!", "IJJI"), fastq_error); // Numeric charecters are not allowed ASSERT_THROW(fastq("Name", "CAT7", "IJJI"), fastq_error); // But neither are non acgtn/ACGTN allowed ASSERT_THROW(fastq("Name", "CATS", "IJJI"), fastq_error); ASSERT_THROW(fastq("Name", "CATs", "IJJI"), fastq_error); } /////////////////////////////////////////////////////////////////////////////// // Constructor without qualities TEST(fastq, constructor_no_qualities) { const fastq record("record_1", "ACGT"); ASSERT_EQ("record_1", record.header()); ASSERT_EQ("ACGT", record.sequence()); ASSERT_EQ("!!!!", record.qualities()); } TEST(fastq, constructor_no_qualities_no_sequence) { const fastq record("record_1", ""); ASSERT_EQ("record_1", record.header()); ASSERT_EQ("", record.sequence()); ASSERT_EQ("", record.qualities()); } /////////////////////////////////////////////////////////////////////////////// // misc properties TEST(fastq, name) { ASSERT_EQ("name", fastq("name", "", "").name()); ASSERT_EQ("name", fastq("name meta", "", "").name()); ASSERT_EQ("name", fastq("name meta more", "", "").name()); } TEST(fastq, length) { ASSERT_EQ(0, fastq("record_1", "", "").length()); ASSERT_EQ(1, fastq("record_1", "A", "G").length()); ASSERT_EQ(2, fastq("record_1", "AC", "!B").length()); ASSERT_EQ(3, fastq("record_1", "ACG", "!7B").length()); } TEST(fastq, count_ns) { ASSERT_EQ(0, fastq("Rec", "ACGTA", "IJIJI").count_ns()); ASSERT_EQ(1, fastq("Rec", "ANGTA", "IJIJI").count_ns()); ASSERT_EQ(2, fastq("Rec", "ANGTN", "IJIJI").count_ns()); ASSERT_EQ(3, fastq("Rec", "ANGNN", "IJIJI").count_ns()); ASSERT_EQ(4, fastq("Rec", "NNGNN", "IJIJI").count_ns()); ASSERT_EQ(5, fastq("Rec", "NNNNN", "IJIJI").count_ns()); } /////////////////////////////////////////////////////////////////////////////// // trim_trailing_bases TEST(fastq, trim_trailing_bases__empty_record) { fastq record("Empty", "", ""); const fastq::ntrimmed expected(0, 0); ASSERT_EQ(expected, record.trim_trailing_bases(true, 10)); ASSERT_EQ(fastq("Empty", "", ""), record); } TEST(fastq, trim_trailing_bases__trim_nothing) { const fastq reference("Rec", "NNNNN", "!!!!!"); const fastq::ntrimmed expected(0, 0); fastq record = reference; // Trim neither Ns nor low Phred score bases ASSERT_EQ(expected, record.trim_trailing_bases(false, -1)); ASSERT_EQ(reference, record); } TEST(fastq, trim_trailing_bases__trim_ns) { fastq record("Rec", "NNANT", "23456"); const fastq expected_record("Rec", "ANT", "456"); const fastq::ntrimmed expected_ntrim(2, 0); ASSERT_EQ(expected_ntrim, record.trim_trailing_bases(true, -1)); ASSERT_EQ(expected_record, record); } TEST(fastq, trim_trailing_bases__trim_trailing_bases) { const fastq expected_record("Rec", "TN", "%$"); const fastq::ntrimmed expected_ntrim(0, 3); fastq record("Rec", "TNANT", "%$#!\""); ASSERT_EQ(expected_ntrim, record.trim_trailing_bases(false, 2)); ASSERT_EQ(expected_record, record); } TEST(fastq, trim_trailing_bases__trim_mixed) { const fastq expected_record("Rec", "TAG", "$12"); const fastq::ntrimmed expected_ntrim(3, 2); fastq record("Rec", "NTNTAGNT", "1!#$12#\""); ASSERT_EQ(expected_ntrim, record.trim_trailing_bases(true, 2)); ASSERT_EQ(expected_record, record); } TEST(fastq, trim_trailing_bases__trim_mixed__no_low_quality_bases) { const fastq expected_record("Rec", "ACTTAG", "12I$12"); const fastq::ntrimmed expected_ntrim(0, 0); fastq record = expected_record; ASSERT_EQ(expected_ntrim, record.trim_trailing_bases(true, 2)); ASSERT_EQ(expected_record, record); } TEST(fastq, trim_trailing_bases__trim_everything) { fastq record("Rec", "TAG", "!!!"); const fastq expected_record = fastq("Rec", "", ""); const fastq::ntrimmed expected_ntrim(0, 3); ASSERT_EQ(expected_ntrim, record.trim_trailing_bases(true, 2)); ASSERT_EQ(expected_record, record); } /////////////////////////////////////////////////////////////////////////////// // trim_windowed_bases #define PARAMETERIZED_TEST(name, values) \ class name : public ::testing::TestWithParam {}; \ INSTANTIATE_TEST_CASE_P(fastq_windowed_trimming, name, values); \ TEST_P(name, test) // Test for invalid parameters PARAMETERIZED_TEST(invalid_parameters, ::testing::Values(-1.0, std::numeric_limits::quiet_NaN())) { fastq record("Rec", "TAGTGACAT", "111111111"); ASSERT_THROW(record.trim_windowed_bases(false, -1, GetParam()), assert_failed); } // Test for trimming empty reads PARAMETERIZED_TEST(empty_reads, ::testing::Values(1, 0.1, 3)) { fastq record("Empty", "", ""); const fastq::ntrimmed expected(0, 0); ASSERT_EQ(expected, record.trim_windowed_bases(true, 10, GetParam())); ASSERT_EQ(fastq("Empty", "", ""), record); } // Test for when entire read is trimmed PARAMETERIZED_TEST(trim_everything, ::testing::Values(1, 0.2, 4, 10)) { fastq record("Rec", "TAGTGACAT", "111111111"); const fastq expected_record = fastq("Rec", "", ""); const fastq::ntrimmed expected_ntrim(9, 0); ASSERT_EQ(expected_ntrim, record.trim_windowed_bases(false, '2' - '!', GetParam())); ASSERT_EQ(expected_record, record); } // Test for when nothing is trimmed PARAMETERIZED_TEST(trim_nothing, ::testing::Values(0, 1, 0.2, 3, 4, 5, 6, 7, 8, 9, 10, 11)) { fastq record("Rec", "TAGTGACAT", "111111111"); const fastq expected_record = record; const fastq::ntrimmed expected_ntrim(0, 0); ASSERT_EQ(expected_ntrim, record.trim_windowed_bases(false, -1, GetParam())); ASSERT_EQ(expected_record, record); } // Test for trimming of Ns PARAMETERIZED_TEST(trim_ns_1, ::testing::Values(1, 0.2)) { fastq record("Rec", "NNATNT", "234567"); const fastq expected_record("Rec", "ATNT", "4567"); const fastq::ntrimmed expected_ntrim(2, 0); ASSERT_EQ(expected_ntrim, record.trim_windowed_bases(true, -1, GetParam())); ASSERT_EQ(expected_record, record); } // - trimming of Ns - the final window contains Ns and is therefore truncated PARAMETERIZED_TEST(trim_ns_2, ::testing::Values(2, 3, 4)) { fastq record("Rec", "NNATNT", "234567"); const fastq expected_record("Rec", "AT", "45"); const fastq::ntrimmed expected_ntrim(2, 2); ASSERT_EQ(expected_ntrim, record.trim_windowed_bases(true, -1, GetParam())); ASSERT_EQ(expected_record, record); } // - trimming of Ns - No valid window is found TEST(fastq, trim_windowed_bases__trim_ns_5) { fastq record("Rec", "NNATNT", "234567"); const fastq expected_record("Rec", "", ""); const fastq::ntrimmed expected_ntrim(6, 0); ASSERT_EQ(expected_ntrim, record.trim_windowed_bases(true, -1, 5)); ASSERT_EQ(expected_record, record); } // Trimming of 5' only PARAMETERIZED_TEST(trim_5p_1bp, ::testing::Values(1, 0.1)) { fastq record("Rec", "TAACGATCCG", "0123456789"); const fastq expected_record("Rec", "CGATCCG", "3456789"); const fastq::ntrimmed expected_ntrim(3, 0); ASSERT_EQ(expected_ntrim, record.trim_windowed_bases(false, '2' - '!', GetParam())); ASSERT_EQ(expected_record, record); } // Trimming of 5' only PARAMETERIZED_TEST(trim_5p_2bp, ::testing::Values(2, 0.2)) { fastq record("Rec", "TAACGATCCG", "0123456789"); const fastq expected_record("Rec", "CGATCCG", "3456789"); const fastq::ntrimmed expected_ntrim(3, 0); ASSERT_EQ(expected_ntrim, record.trim_windowed_bases(false, '2' - '!', GetParam())); ASSERT_EQ(expected_record, record); } // Trimming of 5' only - lowquality is inclusive PARAMETERIZED_TEST(trim_5p_inclusive_low_quality, ::testing::Values(2, 3)) { fastq record("Rec", "TAACGATCCG", "0123126789"); const fastq expected_record("Rec", "TCCG", "6789"); const fastq::ntrimmed expected_ntrim(6, 0); ASSERT_EQ(expected_ntrim, record.trim_windowed_bases(false, '2' - '!', GetParam())); ASSERT_EQ(expected_record, record); } // Trimming of 3' only - lowquality is inclusive PARAMETERIZED_TEST(trim_3p_inclusive_low_quality, ::testing::Values(3)) { fastq record("Rec", "TAACGATCCG", "9876312333"); const fastq expected_record("Rec", "TAACG", "98763"); const fastq::ntrimmed expected_ntrim(0, 5); ASSERT_EQ(expected_ntrim, record.trim_windowed_bases(false, '2' - '!', GetParam())); ASSERT_EQ(expected_record, record); } PARAMETERIZED_TEST(tiny_and_huge_window_sizes_1, ::testing::Values(0, 0.01, 20)) { fastq record("Rec", "TAACGATC", "23456789"); const fastq expected_record("Rec", "", ""); const fastq::ntrimmed expected_ntrim(8, 0); ASSERT_EQ(expected_ntrim, record.trim_windowed_bases(false, '2' - '!', GetParam())); ASSERT_EQ(expected_record, record); } PARAMETERIZED_TEST(tiny_and_huge_window_sizes_2, ::testing::Values(0, 0.01, 20)) { fastq record("Rec", "TAACGATC", "23456780"); const fastq expected_record("Rec", "TAACGAT", "2345678"); const fastq::ntrimmed expected_ntrim(0, 1); ASSERT_EQ(expected_ntrim, record.trim_windowed_bases(false, '1' - '!', GetParam())); ASSERT_EQ(expected_record, record); } PARAMETERIZED_TEST(last_trailing_window, ::testing::Values(1, 2, 3, 4, 5, 6, 7, 8, 9)) { fastq record("Rec", "TAACGATCC", "234567811"); const fastq expected_record("Rec", "TAACGAT", "2345678"); const fastq::ntrimmed expected_ntrim(0, 2); ASSERT_EQ(expected_ntrim, record.trim_windowed_bases(false, '1' - '!', GetParam())); ASSERT_EQ(expected_record, record); } TEST(fastq, trim_windowed_bases__trim_window) { // Should trim starting at the window of low quality bases in the middle // even with high qual bases at the end. fastq record("Rec", "NNAAAAAAAAATNNNNNNNA", "##EEEEEEEEEE#######E"); const fastq expected_record = fastq("Rec", "AAAAAAAAAT", "EEEEEEEEEE"); const fastq::ntrimmed expected_ntrim(2, 8); ASSERT_EQ(expected_ntrim, record.trim_windowed_bases(true, 10, 5)); ASSERT_EQ(expected_record, record); } /////////////////////////////////////////////////////////////////////////////// // Truncate TEST(fastq, truncate_empty) { fastq record("Empty", "", ""); record.truncate(0, 10); ASSERT_EQ(fastq("Empty", "", ""), record); } TEST(fastq, truncate_zero_bases) { const fastq expected_record("Rec", "ACTTAG", "12I$12"); fastq current_record = expected_record; current_record.truncate(); ASSERT_EQ(expected_record, current_record); } TEST(fastq, truncate_all_bases) { const fastq expected_record("Rec", "", ""); fastq current_record("Rec", "ACTTAG", "12I$12"); current_record.truncate(1, 0); ASSERT_EQ(expected_record, current_record); } TEST(fastq, truncate_5p) { const fastq expected_record("Rec", "TTAG", "I$12"); fastq current_record("Rec", "ACTTAG", "12I$12"); current_record.truncate(2); ASSERT_EQ(expected_record, current_record); } TEST(fastq, truncate_3p) { const fastq expected_record("Rec", "ACT", "12I"); fastq current_record("Rec", "ACTTAG", "12I$12"); current_record.truncate(0, 3); ASSERT_EQ(expected_record, current_record); } TEST(fastq, truncate_middle) { const fastq expected_record("Rec", "TTA", "I$1"); fastq current_record("Rec", "ACTTAG", "12I$12"); current_record.truncate(2, 3); ASSERT_EQ(expected_record, current_record); } TEST(fastq, truncate_len_higher_than_n_bases) { const fastq expected_record("Rec", "TTAG", "I$12"); fastq current_record("Rec", "ACTTAG", "12I$12"); current_record.truncate(2, 1024); ASSERT_EQ(expected_record, current_record); } TEST(fastq, truncate_pos_after_last_base) { // Same behavior as string::substr fastq current_record("Rec", "ACTTAG", "12I$12"); ASSERT_NO_THROW(current_record.truncate(6)); ASSERT_THROW(current_record.truncate(7), std::out_of_range); } /////////////////////////////////////////////////////////////////////////////// // Reverse complement TEST(fastq, reverse_complement__empty) { const fastq expected = fastq("Empty", "", ""); fastq result = fastq("Empty", "", ""); result.reverse_complement(); ASSERT_EQ(expected, result); } TEST(fastq, reverse_complement) { const fastq expected = fastq("Rec", "TACAGANGTN", "0123456789"); fastq result = fastq("Rec", "NACNTCTGTA", "9876543210"); result.reverse_complement(); ASSERT_EQ(expected, result); } /////////////////////////////////////////////////////////////////////////////// // Adding prefixes to the header TEST(fastq, add_prefix_to_header) { const fastq expected("not_my_header", "ACGTA", "12345"); fastq record("my_header", "ACGTA", "12345"); record.add_prefix_to_header("not_"); ASSERT_EQ(expected, record); } TEST(fastq, add_prefix_to_header__empty_prefix) { const fastq expected("my_header", "ACGTA", "12345"); fastq record = expected; record.add_prefix_to_header(""); ASSERT_EQ(expected, record); } TEST(fastq, add_prefix_to_header__header) { const fastq expected("new_header", "ACGTA", "12345"); fastq record("", "ACGTA", "12345"); record.add_prefix_to_header("new_header"); ASSERT_EQ(expected, record); } /////////////////////////////////////////////////////////////////////////////// // Adding postfixes to the header TEST(fastq, add_postfix_to_header) { const fastq expected("my_header new postfix", "ACGTA", "12345"); fastq record("my_header", "ACGTA", "12345"); record.add_postfix_to_header(" new postfix"); ASSERT_EQ(expected, record); } TEST(fastq, add_postfix_to_header__empty_prefix) { const fastq expected("my_header", "ACGTA", "12345"); fastq record = expected; record.add_postfix_to_header(""); ASSERT_EQ(expected, record); } TEST(fastq, add_postfix_to_header__header) { const fastq expected("new_header", "ACGTA", "12345"); fastq record("", "ACGTA", "12345"); record.add_postfix_to_header("new_header"); ASSERT_EQ(expected, record); } /////////////////////////////////////////////////////////////////////////////// // Discarding read, setting seq to N and qual to '!' TEST(fastq, discard_read) { const fastq expected("my_header", "N", "!"); fastq record("my_header", "ACGTA", "12345"); record.discard(); ASSERT_EQ(expected, record); } TEST(fastq, discard_discarded_read) { const fastq expected("my_header", "N", "!"); fastq record("my_header", "N", "!"); record.discard(); ASSERT_EQ(expected, record); } TEST(fastq, discard_empty_read) { const fastq expected("my_header", "N", "!"); fastq record("my_header", "", ""); record.discard(); ASSERT_EQ(expected, record); } /////////////////////////////////////////////////////////////////////////////// // Reading from stream TEST(fastq, simple_fastq_record_1) { string_vec lines; lines.push_back("@record_1"); lines.push_back("ACGAGTCA"); lines.push_back("+"); lines.push_back("!7BF8DGI"); vec_reader reader(lines); fastq record; ASSERT_TRUE(record.read(reader, FASTQ_ENCODING_33)); ASSERT_EQ("record_1", record.header()); ASSERT_EQ("ACGAGTCA", record.sequence()); ASSERT_EQ("!7BF8DGI", record.qualities()); } TEST(fastq, simple_fastq_record_2) { string_vec lines; lines.push_back("@record_1"); lines.push_back("ACGAGTCA"); lines.push_back("+"); lines.push_back("!7BF8DGI"); lines.push_back("@record_2"); lines.push_back("GTCAGGAT"); lines.push_back("+"); lines.push_back("D7BIG!F8"); vec_reader reader(lines); fastq record; ASSERT_TRUE(record.read(reader, FASTQ_ENCODING_33)); ASSERT_EQ("record_1", record.header()); ASSERT_EQ("ACGAGTCA", record.sequence()); ASSERT_EQ("!7BF8DGI", record.qualities()); ASSERT_TRUE(record.read(reader, FASTQ_ENCODING_33)); ASSERT_EQ("record_2", record.header()); ASSERT_EQ("GTCAGGAT", record.sequence()); ASSERT_EQ("D7BIG!F8", record.qualities()); ASSERT_FALSE(record.read(reader, FASTQ_ENCODING_33)); } TEST(fastq, simple_fastq_record__with_extra_header_1) { string_vec lines; lines.push_back("@record_1 Extra header here"); lines.push_back("ACGAGTCA"); lines.push_back("+"); lines.push_back("!7BF8DGI"); vec_reader reader(lines); fastq record; ASSERT_TRUE(record.read(reader, FASTQ_ENCODING_33)); ASSERT_EQ("record_1 Extra header here", record.header()); ASSERT_EQ("ACGAGTCA", record.sequence()); ASSERT_EQ("!7BF8DGI", record.qualities()); ASSERT_FALSE(record.read(reader, FASTQ_ENCODING_33)); } TEST(fastq, simple_fastq_record__with_extra_header_2) { string_vec lines; lines.push_back("@record_1"); lines.push_back("ACGAGTCA"); lines.push_back("+Extra header here"); lines.push_back("!7BF8DGI"); vec_reader reader(lines); fastq record; ASSERT_TRUE(record.read(reader, FASTQ_ENCODING_33)); ASSERT_EQ("record_1", record.header()); ASSERT_EQ("ACGAGTCA", record.sequence()); ASSERT_EQ("!7BF8DGI", record.qualities()); ASSERT_FALSE(record.read(reader, FASTQ_ENCODING_33)); } TEST(fastq, simple_fastq_record__no_header) { string_vec lines; lines.push_back("@"); lines.push_back("ACGAGTCA"); lines.push_back("+"); lines.push_back("!7BF8DGI"); vec_reader reader(lines); fastq record; ASSERT_THROW(record.read(reader, FASTQ_ENCODING_33), fastq_error); } TEST(fastq, simple_fastq_record__no_sequence) { string_vec lines; lines.push_back("@record_1"); lines.push_back(""); lines.push_back("+"); lines.push_back("!7BF8DGI"); vec_reader reader(lines); fastq record; ASSERT_THROW(record.read(reader, FASTQ_ENCODING_33), fastq_error); } TEST(fastq, simple_fastq_record__no_qualities) { string_vec lines; lines.push_back("@"); lines.push_back("ACGAGTCA"); lines.push_back("+"); lines.push_back(""); vec_reader reader(lines); fastq record; ASSERT_THROW(record.read(reader, FASTQ_ENCODING_33), fastq_error); } TEST(fastq, simple_fastq_record__no_qualities_or_sequence) { string_vec lines; lines.push_back("@"); lines.push_back(""); lines.push_back("+"); lines.push_back(""); vec_reader reader(lines); fastq record; ASSERT_THROW(record.read(reader, FASTQ_ENCODING_33), fastq_error); } TEST(fastq, eof_when_starting_to_read_record) { string_vec lines; vec_reader reader(lines); fastq record; ASSERT_FALSE(record.read(reader)); } TEST(fastq, eof_after_header) { string_vec lines; lines.push_back("@record"); vec_reader reader(lines); fastq record; ASSERT_THROW(record.read(reader), fastq_error); } TEST(fastq, eof_after_sequence_1) { string_vec lines; lines.push_back("@record"); lines.push_back("ACGTA"); vec_reader reader(lines); fastq record; ASSERT_THROW(record.read(reader), fastq_error); } TEST(fastq, eof_after_sequence_2) { string_vec lines; lines.push_back("@record"); lines.push_back("ACGTA"); lines.push_back(""); vec_reader reader(lines); fastq record; ASSERT_THROW(record.read(reader), fastq_error); } TEST(fastq, eof_after_sep_1) { string_vec lines; lines.push_back("@record"); lines.push_back("ACGTA"); lines.push_back("+"); vec_reader reader(lines); fastq record; ASSERT_THROW(record.read(reader), fastq_error); } TEST(fastq, eof_after_sep_2) { string_vec lines; lines.push_back("@record"); lines.push_back("ACGTA"); lines.push_back("+"); lines.push_back(""); vec_reader reader(lines); fastq record; ASSERT_THROW(record.read(reader), fastq_error); } TEST(fastq, eof_after_qualities_following_previous_read_1) { string_vec lines; lines.push_back("@record_1"); lines.push_back("ACGTA"); lines.push_back("+"); lines.push_back("!!!!!"); lines.push_back("@record_2"); lines.push_back("ACGTA"); lines.push_back("+"); vec_reader reader(lines); fastq record; ASSERT_NO_THROW(record.read(reader)); ASSERT_THROW(record.read(reader), fastq_error); } TEST(fastq, eof_after_qualities_following_previous_read_2) { string_vec lines; lines.push_back("@record_1"); lines.push_back("ACGTA"); lines.push_back("+"); lines.push_back("!!!!!"); lines.push_back("@record_2"); lines.push_back("ACGTA"); lines.push_back("+"); lines.push_back(""); vec_reader reader(lines); fastq record; ASSERT_NO_THROW(record.read(reader)); ASSERT_THROW(record.read(reader), fastq_error); } /////////////////////////////////////////////////////////////////////////////// // Writing to stream TEST(fastq, Writing_to_stream_phred_33) { const fastq record = fastq("record_1", "ACGTACGATA", "!$#$*68CGJ"); ASSERT_EQ("@record_1\nACGTACGATA\n+\n!$#$*68CGJ\n", record.to_str()); } TEST(fastq, Writing_to_stream_phred_33_explicit) { const fastq record = fastq("record_1", "ACGTACGATA", "!$#$*68CGJ"); ASSERT_EQ("@record_1\nACGTACGATA\n+\n!$#$*68CGJ\n", record.to_str()); } TEST(fastq, Writing_to_stream_phred_64_explicit) { const fastq record = fastq("record_1", "ACGTACGATA", "!$#$*68CGJ"); ASSERT_EQ("@record_1\nACGTACGATA\n+\n@CBCIUWbfi\n", record.to_str(FASTQ_ENCODING_64)); } /////////////////////////////////////////////////////////////////////////////// // Validating pairs TEST(fastq, validate_paired_reads__throws_if_order_or_number_is_wrong) { const fastq ref_mate0 = fastq("Mate/0", "ACGT", "!!#$"); const fastq ref_mate1 = fastq("Mate/1", "ACGT", "!!#$"); const fastq ref_mate2 = fastq("Mate/2", "ACGT", "!!#$"); const fastq ref_mate3 = fastq("Mate/3", "ACGT", "!!#$"); const fastq ref_matea = fastq("Mate/A", "ACGT", "!!#$"); const fastq ref_mateb = fastq("Mate/B", "ACGT", "!!#$"); { fastq mate0 = ref_mate0; fastq mate1 = ref_mate1; ASSERT_THROW(fastq::validate_paired_reads(mate0, mate1), fastq_error); } { fastq mate0 = ref_mate0; fastq mate1 = ref_mate1; ASSERT_THROW(fastq::validate_paired_reads(mate1, mate0), fastq_error); } { fastq mate1 = ref_mate1; fastq mate2 = ref_mate2; fastq::validate_paired_reads(mate1, mate2); } { fastq mate1 = ref_mate1; fastq mate2 = ref_mate2; ASSERT_THROW(fastq::validate_paired_reads(mate2, mate1), fastq_error); } { fastq mate2 = ref_mate2; fastq mate3 = ref_mate3; ASSERT_THROW(fastq::validate_paired_reads(mate2, mate3), fastq_error); } { fastq mate2 = ref_mate2; fastq mate3 = ref_mate3; ASSERT_THROW(fastq::validate_paired_reads(mate3, mate2), fastq_error); } { fastq matea = ref_matea; fastq mateb = ref_mateb; ASSERT_THROW(fastq::validate_paired_reads(matea, mateb), fastq_error); } { fastq matea = ref_matea; fastq mateb = ref_mateb; ASSERT_THROW(fastq::validate_paired_reads(mateb, matea), fastq_error); } } TEST(fastq, validate_paired_reads__allows_other_separators) { const fastq ref_mate1 = fastq("Mate:1", "ACGT", "!!#$"); const fastq ref_mate2 = fastq("Mate:2", "GCTAA", "$!@#$"); { fastq mate1 = ref_mate1; fastq mate2 = ref_mate2; fastq::validate_paired_reads(mate1, mate2, ':'); } { fastq mate1 = ref_mate1; fastq mate2 = ref_mate2; ASSERT_THROW(fastq::validate_paired_reads(mate2, mate1), fastq_error); } } TEST(fastq, validate_paired_reads__mate_separator_is_updated) { const fastq ref_mate_1 = fastq("Mate/1", "ACGT", "!!#$"); const fastq ref_mate_2 = fastq("Mate/2", "GCTAA", "$!@#$"); fastq mate1 = fastq("Mate:1", "ACGT", "!!#$"); fastq mate2 = fastq("Mate:2", "GCTAA", "$!@#$"); fastq::validate_paired_reads(mate1, mate2, ':'); ASSERT_EQ(mate1, ref_mate_1); ASSERT_EQ(mate2, ref_mate_2); } TEST(fastq, validate_paired_reads__throws_if_mate_is_empty) { const fastq ref_mate1 = fastq("Mate", "", ""); const fastq ref_mate2 = fastq("Mate", "ACGT", "!!#$"); { fastq mate1 = ref_mate1; fastq mate2 = ref_mate2; ASSERT_THROW(fastq::validate_paired_reads(mate1, mate2), fastq_error); } { fastq mate1 = ref_mate1; fastq mate2 = ref_mate2; ASSERT_THROW(fastq::validate_paired_reads(mate2, mate1), fastq_error); } { fastq mate1 = ref_mate1; fastq mate2 = ref_mate2; ASSERT_THROW(fastq::validate_paired_reads(mate1, mate1), fastq_error); } } TEST(fastq, validate_paired_reads__throws_if_only_mate_1_is_numbered) { const fastq ref_mate2 = fastq("Mate/1", "GCTAA", "$!@#$"); const fastq ref_mate1 = fastq("Mate", "ACGT", "!!#$"); { fastq mate1 = ref_mate1; fastq mate2 = ref_mate2; ASSERT_THROW(fastq::validate_paired_reads(mate1, mate2), fastq_error); } { fastq mate1 = ref_mate1; fastq mate2 = ref_mate2; ASSERT_THROW(fastq::validate_paired_reads(mate2, mate1), fastq_error); } } TEST(fastq, validate_paired_reads__throws_if_only_mate_2_is_numbered) { const fastq ref_mate1 = fastq("Mate", "GCTAA", "$!@#$"); const fastq ref_mate2 = fastq("Mate/2", "ACGT", "!!#$"); { fastq mate1 = ref_mate1; fastq mate2 = ref_mate2; ASSERT_THROW(fastq::validate_paired_reads(mate1, mate2), fastq_error); } { fastq mate1 = ref_mate1; fastq mate2 = ref_mate2; ASSERT_THROW(fastq::validate_paired_reads(mate2, mate1), fastq_error); } } TEST(fastq, validate_paired_reads__throws_if_mate_is_misnumbered) { fastq mate1 = fastq("Mate/1", "GCTAA", "$!@#$"); fastq mate2 = fastq("Mate/3", "ACGT", "!!#$"); ASSERT_THROW(fastq::validate_paired_reads(mate1, mate2), fastq_error); } TEST(fastq, validate_paired_reads__throws_if_same_mate_numbers) { fastq mate1 = fastq("Mate/1", "GCTAA", "$!@#$"); fastq mate2 = fastq("Mate/1", "ACGT", "!!#$"); ASSERT_THROW(fastq::validate_paired_reads(mate1, mate2), fastq_error); } TEST(fastq, validate_paired_reads__throws_if_name_differs) { fastq mate1 = fastq("Mate/1", "GCTAA", "$!@#$"); fastq mate2 = fastq("WrongName/2", "ACGT", "!!#$"); ASSERT_THROW(fastq::validate_paired_reads(mate1, mate2), fastq_error); } } // namespace ar adapterremoval-2.2.2/tests/strutils_test.cpp000066400000000000000000000127651313314234200213300ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2011 by Stinus Lindgreen - stinus@binf.ku.dk * * Copyright (C) 2014 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #include #include #include #include "strutils.hpp" namespace ar { /////////////////////////////////////////////////////////////////////////////// // Tests for 'toupper' TEST(strutils_toupper, empty_input_empty_output) { ASSERT_EQ("", toupper("")); } TEST(strutils_toupper, mixed_input) { ASSERT_EQ("A1{2BZ`ZADEK", toupper("a1{2BZ`zAdeK")); } /////////////////////////////////////////////////////////////////////////////// // Tests for 'indent_lines' TEST(strutils_indent, empty_input_empty_output) { ASSERT_EQ("", indent_lines("")); } TEST(strutils_indent, empty_line) { ASSERT_EQ("\n", indent_lines("\n")); } TEST(strutils_indent, two_empty_lines) { ASSERT_EQ("\n\n", indent_lines("\n\n")); } TEST(strutils_indent, three_empty_lines) { ASSERT_EQ("\n\n\n", indent_lines("\n\n\n")); } TEST(strutils_indent, single_line_no_trailing_endline) { ASSERT_EQ(" this is a test", indent_lines("this is a test")); } TEST(strutils_indent, single_line_trailing_endline) { ASSERT_EQ(" this is a test\n", indent_lines("this is a test\n")); } TEST(strutils_indent, two_lines_no_trailing_endline) { ASSERT_EQ(" this is a test\n line #2", indent_lines("this is a test\nline #2")); } TEST(strutils_indent, two_lines_trailing_endline) { ASSERT_EQ(" this is a test\n line #2\n", indent_lines("this is a test\nline #2\n")); } TEST(strutils_indent, empty_line_middle) { ASSERT_EQ(" this is a test\n\n line #2\n", indent_lines("this is a test\n\nline #2\n")); } TEST(strutils_indent, empty_line_trailing) { ASSERT_EQ(" this is a test\n line #2\n\n", indent_lines("this is a test\nline #2\n\n")); } TEST(strutils_indent, empty_lines_trailing) { ASSERT_EQ(" this is a test\n line #2\n\n\n", indent_lines("this is a test\nline #2\n\n\n")); } /////////////////////////////////////////////////////////////////////////////// // Tests for 'columnize_text' TEST(strutils_columnize, empty_lines) { ASSERT_EQ("", columnize_text("")); ASSERT_EQ("", columnize_text("\n")); ASSERT_EQ("", columnize_text("\n\n")); ASSERT_EQ("", columnize_text("\n\n\n")); } TEST(strutils_columnize, text_within_empty_lines) { ASSERT_EQ("foo bar", columnize_text("foo bar")); ASSERT_EQ("foo bar", columnize_text("foo\nbar")); ASSERT_EQ("foo bar", columnize_text("foo\nbar\n")); ASSERT_EQ("foo bar", columnize_text("\nfoo\nbar")); ASSERT_EQ("foo bar", columnize_text("foo\nbar\n\n")); ASSERT_EQ("foo bar", columnize_text("\nfoo\nbar\n")); ASSERT_EQ("foo bar", columnize_text("\n\nfoo\nbar\n")); } TEST(strutils_columnize, maximum_width) { ASSERT_EQ("foo bar zood", columnize_text("foo bar\nzood", 12)); ASSERT_EQ("foo bar\nzood", columnize_text("foo bar\nzood", 11)); ASSERT_EQ("foo bar\nzood", columnize_text("foo bar\nzood", 7)); ASSERT_EQ("foo\nbar\nzood", columnize_text("foo bar\nzood", 6)); ASSERT_EQ("foo\nbar\nzood", columnize_text("foo bar\nzood", 3)); ASSERT_EQ("foo\nbar\nzood", columnize_text("foo bar\nzood", 1)); ASSERT_EQ("foo\nbar\nzood", columnize_text("foo bar\nzood", 0)); } TEST(strutils_columnize, ljust) { ASSERT_EQ("foo bar zood", columnize_text("foo bar\nzood", 12, 2)); ASSERT_EQ("foo bar\n zood", columnize_text("foo bar\nzood", 11, 2)); ASSERT_EQ("foo bar\n zood", columnize_text("foo bar\nzood", 7, 2)); ASSERT_EQ("foo\n bar\n zood", columnize_text("foo bar\nzood", 6, 2)); ASSERT_EQ("foo\n bar\n zood", columnize_text("foo bar\nzood", 3, 2)); ASSERT_EQ("foo\n bar\n zood", columnize_text("foo bar\nzood", 1, 2)); ASSERT_EQ("foo\n bar\n zood", columnize_text("foo bar\nzood", 0, 2)); } } // namespace ar adapterremoval-2.2.2/tests/testing.hpp000066400000000000000000000041311313314234200200460ustar00rootroot00000000000000/*************************************************************************\ * AdapterRemoval - cleaning next-generation sequencing reads * * * * Copyright (C) 2011 by Stinus Lindgreen - stinus@binf.ku.dk * * Copyright (C) 2014 by Mikkel Schubert - mikkelsch@gmail.com * * * * If you use the program, please cite the paper: * * S. Lindgreen (2012): AdapterRemoval: Easy Cleaning of Next Generation * * Sequencing Reads, BMC Research Notes, 5:337 * * http://www.biomedcentral.com/1756-0500/5/337/ * * * * This program is free software: you can redistribute it and/or modify * * it under the terms of the GNU General Public License as published by * * the Free Software Foundation, either version 3 of the License, or * * (at your option) any later version. * * * * This program is distributed in the hope that it will be useful, * * but WITHOUT ANY WARRANTY; without even the implied warranty of * * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * * GNU General Public License for more details. * * * * You should have received a copy of the GNU General Public License * * along with this program. If not, see . * \*************************************************************************/ #ifndef TESTING_H #define TESTING_H #include #include "fastq.hpp" namespace ar { inline void PrintTo(const fastq& record, std::ostream* stream) { *stream << "'@" << record.header() << "\\n" << record.sequence() << "\\n+\\n" << record.qualities() << "\\n'"; } } #endifadapterremoval-2.2.2/validation/000077500000000000000000000000001313314234200166515ustar00rootroot00000000000000adapterremoval-2.2.2/validation/README000066400000000000000000000013221313314234200175270ustar00rootroot00000000000000Sequences: No adapter Short adapter Long adapter Complete adapter Filetypes: Unix Windows (\r\n) Automatic variants? - gzip - bzip - uncompressed Single end: x --collapse x --combined-output x --trimns x --trimqualities x --minlength x --maxlength Bad: --interleaved --interleaved-input --interleaved-output Possibilities: - adapter - overlap - collapse (yes, no, yes but too short) - lq trimming TODO: - Single-end - No adapter - No adapter, lq trimming - Single-end - No adapter - No adapter, lq trimming - No adapter, overlapping - No adapter, overlapping, lq trimming - No adapter, overlapping, too short - No adapter, overlapping, too short, lq trimming adapterremoval-2.2.2/validation/demultiplexing/000077500000000000000000000000001313314234200217035ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/000077500000000000000000000000001313314234200246555ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/000077500000000000000000000000001313314234200252615ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/collapse/000077500000000000000000000000001313314234200270635ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/collapse/barcodes.txt000066400000000000000000000000661313314234200314100ustar00rootroot00000000000000sample_1 TGAGTCAT GTTAGTGG sample_2 GCAGAGAT CCTAGGGT adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/collapse/info.json000066400000000000000000000001051313314234200307050ustar00rootroot00000000000000{ "arguments": ["--collapse"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/collapse/input_1.fastq000066400000000000000000000033301313314234200315010ustar00rootroot00000000000000@read_s2_000/1 GCAGAGATACCCTAGGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 GCAGAGATCCTACAAAAGTTAAGTGCGCGTTTGGGCATCGTCCCGACGACTTCCGCTGAGTTGACTTAATGGCTTGTCGGTACACCCTAGGAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/1 TGAGTCATCCACTAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 TGAGTCATGCACAGTTACACTGCCGTTTGTCTGTCCATGTAATTGTCTAATCACTTTAGAATACGGCTCCTGATATCATCACCCCACTAACAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 TGAGTCATACATCCAAGTCGGGCAACCTCTCACATTACTTAGGCCAGGCACTTGCACATCGAAGCAAAGGAGAGATAATTGCCGTATCCTCTGTGCACGT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 GCAGAGATGCCCATAAAATATTGCTCGCAACGGTATGCTAGACCCAGGACATCCGCTTTATCCGTGGTGATAGCAACTGGAGGCATCTAACGTTCACACG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 TGAGTCATAGAATGAGCGGGGTCGACTCGTAACGATCTCTGCAGGGCGATGGTCTACATAGGCCCCACATCCAGATTATCTCGTAAAAGGAAAAACGGTT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 GCAGAGATTAGCCCCCGGGGTGTGGGGTTTTGCTTCCGCCACAAAAATGGTGCGCTAAATGACCATTGCGTACACTCCAACGCGAAATGTAGGGCGCCGA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/collapse/input_2.fastq000066400000000000000000000033301313314234200315020ustar00rootroot00000000000000@read_s2_000/2 CCTAGGGTATCTCTGCAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/2 CCTAGGGTGTACCGACAAGCCATTAAGTCAACTCAGCGGAAGTCGTCGGGACGATGCCCAAACGCGCACTTAACTTTTGTAGGATCTCTGCAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/2 GTTAGTGGATGACTCAAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/2 GTTAGTGGGGTGATGATATCAGGAGCCGTATTCTAAAGTGATTAGACAATTACATGGACAGACAAACGGCAGTGTAACTGTGCATGACTCAAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/2 GTTAGTGGGATAATACGCTCTAGAGAAAAAGAGTGATAAGTGAATAACCGGGCTATAGTGACAAAGAATTCCGCGTTACTAAATCACCCAACCCACCTTC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/2 CCTAGGGTTTACTTTTGATTCAACACCGACTTGGTCCCGCCTCCACGTGCAACACCCCCTTTTAATAGCAACGCGCTCACCGAGGCTCCTCCCATCCACA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/2 GTTAGTGGATGTGGTTATAGCAACCGCTCACTTCTCACGTACTGGTGATACTCCTTTGGTACTTTCAACCGTTTTTCCTTTTACGAGATAATCTGGATGT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/2 CCTAGGGTCCTCTCGATTCGGCAGTACCCAATTGTTGACGATCAGCATATTATTATCTGATTGTGCTCGGCGCCCTACATTTCGCGTTGGAGTGTACGCA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.collapsed000066400000000000000000000007501313314234200350140ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/collapse@M_read_s1_075 GCACAGTTACACTGCCGTTTGTCTGTCCATGTAATTGTCTAATCACTTTAGAATACGGCTCCTGATATCATCACC + JJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJ @M_read_s1_150 AGAATGAGCGGGGTCGACTCGTAACGATCTCTGCAGGGCGATGGTCTACATAGGCCCCACATCCAGATTATCTCGTAAAAGGAAAAACGGTTGAAAGTACCAAAGGAGTATCACCAGTACGTGAGAAGTGAGCGGTTGCTATAACCACAT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@JJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJ@@@AAAAAABBBBBBCCCCCCCDDDDDDDEEEEEEEEEFFFFFFFFFGGGGGGGGGGG your_output.sample_1.collapsed.truncated000066400000000000000000000000001313314234200367700ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/collapseyour_output.sample_1.discarded000066400000000000000000000000231313314234200347610ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/collapse@M_read_s1_000 + your_output.sample_1.pair1.truncated000066400000000000000000000003131313314234200360450ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/collapse@read_s1_200/1 ACATCCAAGTCGGGCAACCTCTCACATTACTTAGGCCAGGCACTTGCACATCGAAGCAAAGGAGAGATAATTGCCGTATCCTCTGTGCACGT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.pair2.truncated000066400000000000000000000003131313314234200360460ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/collapse@read_s1_200/2 GATAATACGCTCTAGAGAAAAAGAGTGATAAGTGAATAACCGGGCTATAGTGACAAAGAATTCCGCGTTACTAAATCACCCAACCCACCTTC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.settings000066400000000000000000000100701313314234200347020ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/collapseAdapterRemoval ver. 2.2.0 Trimming of double-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1* TGAGTCAT GTTAGTGG sample_2 GCAGAGAT CCTAGGGT [Adapter sequences] Adapter1[1]: CCACTAAC_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: ATGACTCA_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 4078236736 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: Yes Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 4 Number of unaligned read pairs: 1 Number of well aligned read pairs: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 4 Number of full-length collapsed pairs: 2 Number of truncated collapsed pairs: 0 Number of retained reads: 4 Number of retained nucleotides: 409 Average length of retained reads: 102.25 [Length distribution] Length Mate1 Mate2 Singleton Collapsed CollapsedTruncated Discarded All 0 0 0 0 0 0 1 1 1 0 0 0 0 0 0 0 2 0 0 0 0 0 0 0 3 0 0 0 0 0 0 0 4 0 0 0 0 0 0 0 5 0 0 0 0 0 0 0 6 0 0 0 0 0 0 0 7 0 0 0 0 0 0 0 8 0 0 0 0 0 0 0 9 0 0 0 0 0 0 0 10 0 0 0 0 0 0 0 11 0 0 0 0 0 0 0 12 0 0 0 0 0 0 0 13 0 0 0 0 0 0 0 14 0 0 0 0 0 0 0 15 0 0 0 0 0 0 0 16 0 0 0 0 0 0 0 17 0 0 0 0 0 0 0 18 0 0 0 0 0 0 0 19 0 0 0 0 0 0 0 20 0 0 0 0 0 0 0 21 0 0 0 0 0 0 0 22 0 0 0 0 0 0 0 23 0 0 0 0 0 0 0 24 0 0 0 0 0 0 0 25 0 0 0 0 0 0 0 26 0 0 0 0 0 0 0 27 0 0 0 0 0 0 0 28 0 0 0 0 0 0 0 29 0 0 0 0 0 0 0 30 0 0 0 0 0 0 0 31 0 0 0 0 0 0 0 32 0 0 0 0 0 0 0 33 0 0 0 0 0 0 0 34 0 0 0 0 0 0 0 35 0 0 0 0 0 0 0 36 0 0 0 0 0 0 0 37 0 0 0 0 0 0 0 38 0 0 0 0 0 0 0 39 0 0 0 0 0 0 0 40 0 0 0 0 0 0 0 41 0 0 0 0 0 0 0 42 0 0 0 0 0 0 0 43 0 0 0 0 0 0 0 44 0 0 0 0 0 0 0 45 0 0 0 0 0 0 0 46 0 0 0 0 0 0 0 47 0 0 0 0 0 0 0 48 0 0 0 0 0 0 0 49 0 0 0 0 0 0 0 50 0 0 0 0 0 0 0 51 0 0 0 0 0 0 0 52 0 0 0 0 0 0 0 53 0 0 0 0 0 0 0 54 0 0 0 0 0 0 0 55 0 0 0 0 0 0 0 56 0 0 0 0 0 0 0 57 0 0 0 0 0 0 0 58 0 0 0 0 0 0 0 59 0 0 0 0 0 0 0 60 0 0 0 0 0 0 0 61 0 0 0 0 0 0 0 62 0 0 0 0 0 0 0 63 0 0 0 0 0 0 0 64 0 0 0 0 0 0 0 65 0 0 0 0 0 0 0 66 0 0 0 0 0 0 0 67 0 0 0 0 0 0 0 68 0 0 0 0 0 0 0 69 0 0 0 0 0 0 0 70 0 0 0 0 0 0 0 71 0 0 0 0 0 0 0 72 0 0 0 0 0 0 0 73 0 0 0 0 0 0 0 74 0 0 0 0 0 0 0 75 0 0 0 1 0 0 1 76 0 0 0 0 0 0 0 77 0 0 0 0 0 0 0 78 0 0 0 0 0 0 0 79 0 0 0 0 0 0 0 80 0 0 0 0 0 0 0 81 0 0 0 0 0 0 0 82 0 0 0 0 0 0 0 83 0 0 0 0 0 0 0 84 0 0 0 0 0 0 0 85 0 0 0 0 0 0 0 86 0 0 0 0 0 0 0 87 0 0 0 0 0 0 0 88 0 0 0 0 0 0 0 89 0 0 0 0 0 0 0 90 0 0 0 0 0 0 0 91 0 0 0 0 0 0 0 92 1 1 0 0 0 0 2 93 0 0 0 0 0 0 0 94 0 0 0 0 0 0 0 95 0 0 0 0 0 0 0 96 0 0 0 0 0 0 0 97 0 0 0 0 0 0 0 98 0 0 0 0 0 0 0 99 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 101 0 0 0 0 0 0 0 102 0 0 0 0 0 0 0 103 0 0 0 0 0 0 0 104 0 0 0 0 0 0 0 105 0 0 0 0 0 0 0 106 0 0 0 0 0 0 0 107 0 0 0 0 0 0 0 108 0 0 0 0 0 0 0 109 0 0 0 0 0 0 0 110 0 0 0 0 0 0 0 111 0 0 0 0 0 0 0 112 0 0 0 0 0 0 0 113 0 0 0 0 0 0 0 114 0 0 0 0 0 0 0 115 0 0 0 0 0 0 0 116 0 0 0 0 0 0 0 117 0 0 0 0 0 0 0 118 0 0 0 0 0 0 0 119 0 0 0 0 0 0 0 120 0 0 0 0 0 0 0 121 0 0 0 0 0 0 0 122 0 0 0 0 0 0 0 123 0 0 0 0 0 0 0 124 0 0 0 0 0 0 0 125 0 0 0 0 0 0 0 126 0 0 0 0 0 0 0 127 0 0 0 0 0 0 0 128 0 0 0 0 0 0 0 129 0 0 0 0 0 0 0 130 0 0 0 0 0 0 0 131 0 0 0 0 0 0 0 132 0 0 0 0 0 0 0 133 0 0 0 0 0 0 0 134 0 0 0 0 0 0 0 135 0 0 0 0 0 0 0 136 0 0 0 0 0 0 0 137 0 0 0 0 0 0 0 138 0 0 0 0 0 0 0 139 0 0 0 0 0 0 0 140 0 0 0 0 0 0 0 141 0 0 0 0 0 0 0 142 0 0 0 0 0 0 0 143 0 0 0 0 0 0 0 144 0 0 0 0 0 0 0 145 0 0 0 0 0 0 0 146 0 0 0 0 0 0 0 147 0 0 0 0 0 0 0 148 0 0 0 0 0 0 0 149 0 0 0 0 0 0 0 150 0 0 0 1 0 0 1 your_output.sample_1.singleton.truncated000066400000000000000000000000001313314234200370240ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/collapseyour_output.sample_2.collapsed000066400000000000000000000007501313314234200350150ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/collapse@M_read_s2_075 CCTACAAAAGTTAAGTGCGCGTTTGGGCATCGTCCCGACGACTTCCGCTGAGTTGACTTAATGGCTTGTCGGTAC + JJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJ @M_read_s2_150 TAGCCCCCGGGGTGTGGGGTTTTGCTTCCGCCACAAAAATGGTGCGCTAAATGACCATTGCGTACACTCCAACGCGAAATGTAGGGCGCCGAGCACAATCAGATAATAATATGCTGATCGTCAACAATTGGGTACTGCCGAATCGAGAGG + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@JJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJ@@@AAAAAABBBBBBCCCCCCCDDDDDDDEEEEEEEEEFFFFFFFFFGGGGGGGGGGG your_output.sample_2.collapsed.truncated000066400000000000000000000000001313314234200367710ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/collapseyour_output.sample_2.discarded000066400000000000000000000000231313314234200347620ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/collapse@M_read_s2_000 + your_output.sample_2.pair1.truncated000066400000000000000000000003131313314234200360460ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/collapse@read_s2_200/1 GCCCATAAAATATTGCTCGCAACGGTATGCTAGACCCAGGACATCCGCTTTATCCGTGGTGATAGCAACTGGAGGCATCTAACGTTCACACG + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.pair2.truncated000066400000000000000000000003131313314234200360470ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/collapse@read_s2_200/2 TTACTTTTGATTCAACACCGACTTGGTCCCGCCTCCACGTGCAACACCCCCTTTTAATAGCAACGCGCTCACCGAGGCTCCTCCCATCCACA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.settings000066400000000000000000000100701313314234200347030ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/collapseAdapterRemoval ver. 2.2.0 Trimming of double-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 TGAGTCAT GTTAGTGG sample_2* GCAGAGAT CCTAGGGT [Adapter sequences] Adapter1[1]: ACCCTAGG_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: ATCTCTGC_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 4078236736 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: Yes Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 4 Number of unaligned read pairs: 1 Number of well aligned read pairs: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 4 Number of full-length collapsed pairs: 2 Number of truncated collapsed pairs: 0 Number of retained reads: 4 Number of retained nucleotides: 409 Average length of retained reads: 102.25 [Length distribution] Length Mate1 Mate2 Singleton Collapsed CollapsedTruncated Discarded All 0 0 0 0 0 0 1 1 1 0 0 0 0 0 0 0 2 0 0 0 0 0 0 0 3 0 0 0 0 0 0 0 4 0 0 0 0 0 0 0 5 0 0 0 0 0 0 0 6 0 0 0 0 0 0 0 7 0 0 0 0 0 0 0 8 0 0 0 0 0 0 0 9 0 0 0 0 0 0 0 10 0 0 0 0 0 0 0 11 0 0 0 0 0 0 0 12 0 0 0 0 0 0 0 13 0 0 0 0 0 0 0 14 0 0 0 0 0 0 0 15 0 0 0 0 0 0 0 16 0 0 0 0 0 0 0 17 0 0 0 0 0 0 0 18 0 0 0 0 0 0 0 19 0 0 0 0 0 0 0 20 0 0 0 0 0 0 0 21 0 0 0 0 0 0 0 22 0 0 0 0 0 0 0 23 0 0 0 0 0 0 0 24 0 0 0 0 0 0 0 25 0 0 0 0 0 0 0 26 0 0 0 0 0 0 0 27 0 0 0 0 0 0 0 28 0 0 0 0 0 0 0 29 0 0 0 0 0 0 0 30 0 0 0 0 0 0 0 31 0 0 0 0 0 0 0 32 0 0 0 0 0 0 0 33 0 0 0 0 0 0 0 34 0 0 0 0 0 0 0 35 0 0 0 0 0 0 0 36 0 0 0 0 0 0 0 37 0 0 0 0 0 0 0 38 0 0 0 0 0 0 0 39 0 0 0 0 0 0 0 40 0 0 0 0 0 0 0 41 0 0 0 0 0 0 0 42 0 0 0 0 0 0 0 43 0 0 0 0 0 0 0 44 0 0 0 0 0 0 0 45 0 0 0 0 0 0 0 46 0 0 0 0 0 0 0 47 0 0 0 0 0 0 0 48 0 0 0 0 0 0 0 49 0 0 0 0 0 0 0 50 0 0 0 0 0 0 0 51 0 0 0 0 0 0 0 52 0 0 0 0 0 0 0 53 0 0 0 0 0 0 0 54 0 0 0 0 0 0 0 55 0 0 0 0 0 0 0 56 0 0 0 0 0 0 0 57 0 0 0 0 0 0 0 58 0 0 0 0 0 0 0 59 0 0 0 0 0 0 0 60 0 0 0 0 0 0 0 61 0 0 0 0 0 0 0 62 0 0 0 0 0 0 0 63 0 0 0 0 0 0 0 64 0 0 0 0 0 0 0 65 0 0 0 0 0 0 0 66 0 0 0 0 0 0 0 67 0 0 0 0 0 0 0 68 0 0 0 0 0 0 0 69 0 0 0 0 0 0 0 70 0 0 0 0 0 0 0 71 0 0 0 0 0 0 0 72 0 0 0 0 0 0 0 73 0 0 0 0 0 0 0 74 0 0 0 0 0 0 0 75 0 0 0 1 0 0 1 76 0 0 0 0 0 0 0 77 0 0 0 0 0 0 0 78 0 0 0 0 0 0 0 79 0 0 0 0 0 0 0 80 0 0 0 0 0 0 0 81 0 0 0 0 0 0 0 82 0 0 0 0 0 0 0 83 0 0 0 0 0 0 0 84 0 0 0 0 0 0 0 85 0 0 0 0 0 0 0 86 0 0 0 0 0 0 0 87 0 0 0 0 0 0 0 88 0 0 0 0 0 0 0 89 0 0 0 0 0 0 0 90 0 0 0 0 0 0 0 91 0 0 0 0 0 0 0 92 1 1 0 0 0 0 2 93 0 0 0 0 0 0 0 94 0 0 0 0 0 0 0 95 0 0 0 0 0 0 0 96 0 0 0 0 0 0 0 97 0 0 0 0 0 0 0 98 0 0 0 0 0 0 0 99 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 101 0 0 0 0 0 0 0 102 0 0 0 0 0 0 0 103 0 0 0 0 0 0 0 104 0 0 0 0 0 0 0 105 0 0 0 0 0 0 0 106 0 0 0 0 0 0 0 107 0 0 0 0 0 0 0 108 0 0 0 0 0 0 0 109 0 0 0 0 0 0 0 110 0 0 0 0 0 0 0 111 0 0 0 0 0 0 0 112 0 0 0 0 0 0 0 113 0 0 0 0 0 0 0 114 0 0 0 0 0 0 0 115 0 0 0 0 0 0 0 116 0 0 0 0 0 0 0 117 0 0 0 0 0 0 0 118 0 0 0 0 0 0 0 119 0 0 0 0 0 0 0 120 0 0 0 0 0 0 0 121 0 0 0 0 0 0 0 122 0 0 0 0 0 0 0 123 0 0 0 0 0 0 0 124 0 0 0 0 0 0 0 125 0 0 0 0 0 0 0 126 0 0 0 0 0 0 0 127 0 0 0 0 0 0 0 128 0 0 0 0 0 0 0 129 0 0 0 0 0 0 0 130 0 0 0 0 0 0 0 131 0 0 0 0 0 0 0 132 0 0 0 0 0 0 0 133 0 0 0 0 0 0 0 134 0 0 0 0 0 0 0 135 0 0 0 0 0 0 0 136 0 0 0 0 0 0 0 137 0 0 0 0 0 0 0 138 0 0 0 0 0 0 0 139 0 0 0 0 0 0 0 140 0 0 0 0 0 0 0 141 0 0 0 0 0 0 0 142 0 0 0 0 0 0 0 143 0 0 0 0 0 0 0 144 0 0 0 0 0 0 0 145 0 0 0 0 0 0 0 146 0 0 0 0 0 0 0 147 0 0 0 0 0 0 0 148 0 0 0 0 0 0 0 149 0 0 0 0 0 0 0 150 0 0 0 1 0 0 1 your_output.sample_2.singleton.truncated000066400000000000000000000000001313314234200370250ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/collapseadapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/collapse/your_output.settings000066400000000000000000000021671313314234200332710ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of double-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 TGAGTCAT GTTAGTGG sample_2 GCAGAGAT CCTAGGGT [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: Yes Minimum overlap (in case of collapse): 11 [Demultiplexing statistics] Name Barcode_1 Barcode_2 Hits Fraction unidentified NA NA 0 0.000 ambiguous NA NA 0 0.000 sample_1 TGAGTCAT GTTAGTGG 4 0.500 sample_2 GCAGAGAT CCTAGGGT 4 0.500 * * * 8 1.000 adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/collapse/your_output.unidentified_1000066400000000000000000000000001313314234200343000ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/collapse/your_output.unidentified_2000066400000000000000000000000001313314234200343010ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/combined_output/000077500000000000000000000000001313314234200304615ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/combined_output/barcodes.txt000066400000000000000000000000661313314234200330060ustar00rootroot00000000000000sample_1 CTTGCCCT ACGTTATT sample_2 CGCCGATG TGCACGGG adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/combined_output/info.json000066400000000000000000000001141313314234200323030ustar00rootroot00000000000000{ "arguments": ["--combined-output"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/combined_output/input_1.fastq000066400000000000000000000033301313314234200330770ustar00rootroot00000000000000@read_s2_000/1 CGCCGATGCCCGTGCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 CGCCGATGGCGTAAGTTGACGTCAGCCTGCGAGGTGCCACGCCAGTGGTTGCGCTCACCCGGGGCGTAGTTGCTCCGCGCAATTTCTTGGCAGTTCGATC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 CTTGCCCTGGTTCTACGTTCTCCATCAGGTGGACGAGGGGATCTTGGCCCCCGTTCCTGCATTGGTATAATTAGACAGGATGAAATAACGTAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 CTTGCCCTGTAGTGCAATAAAAGGATCCTCTTGTGGCCGATTGCAGACCAGCCTCGGGGCTAAACTGATAATCGTATGCTATAGACCCTGGTCGACGCCG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 CTTGCCCTCAGATGTCAGCTCATGTGTTGATATACAGCTAACTAAGGCCCGGGGGTTTAGGCTCAACCCTCTACCTGGTATACCGGCCCAACGCACTCGC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 CGCCGATGTCTTGGGAACGAGAGTGCCACCAATTAAAGTGATGGATATCGAGACGTCCCAAACCACCGCAATAGGACGGGACACCCGTGCAAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 CGCCGATGAGCCCCGAGTGTCCATCACAAGCCACCTCCACTAACCATCTCGGTCCATTATTTGTCACTCGTGGCTAGAAGGGAATAAAGACAACTCTCTC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/1 CTTGCCCTAATAACGTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/combined_output/input_2.fastq000066400000000000000000000033301313314234200331000ustar00rootroot00000000000000@read_s2_000/2 TGCACGGGCATCGGCGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/2 TGCACGGGTAAGGGACGAAGTCACCGGGGGCGTTTCACTTGCGCGATCCATTGTAGTACTGGTGTGTCAATCTTCATCGGCAAAAGGTGCCTATCAAAAT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/2 ACGTTATTTCATCCTGTCTAATTATACCAATGCAGGAACGGGGGCCAAGATCCCCTCGTCCACCTGATGGAGAACGTAGAACCAGGGCAAGAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/2 ACGTTATTAAGGCCCGCCCATCAGGTAAGAGCATGCTCGGGAGCCAACCCCGTGGGGTGGCAGCGATACTCTCCAATCTGTCATGCGTGTCAACGTGCGT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/2 ACGTTATTGTGCTGCGTGAGTTGGAAGGATTGGATCCGGAAAGGCTTGGCCTTTGTAAATTCGACTGCGAGTGCGTTGGGCCGGTATACCAGGTAGAGGG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/2 TGCACGGGTGTCCCGTCCTATTGCGGTGGTTTGGGACGTCTCGATATCCATCACTTTAATTGGTGGCACTCTCGTTCCCAAGACATCGGCGAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/2 TGCACGGGAAGGCTGGGTATACGGGGTAAATGGTGCCGCCTTGTTACACGCGCCGAGGTTTCAGATGAGAGAGTTGTCTTTATTCCCTTCTAGCCACGAG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/2 ACGTTATTAGGGCAAGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.pair1.truncated000066400000000000000000000011241313314234200374440ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/combined_output@read_s1_075/1 GGTTCTACGTTCTCCATCAGGTGGACGAGGGGATCTTGGCCCCCGTTCCTGCATTGGTATAATTAGACAGGATGA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s1_200/1 GTAGTGCAATAAAAGGATCCTCTTGTGGCCGATTGCAGACCAGCCTCGGGGCTAAACTGATAATCGTATGCTATAGACCCTGGTCGACGCCG + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 CAGATGTCAGCTCATGTGTTGATATACAGCTAACTAAGGCCCGGGGGTTTAGGCTCAACCCTCTACCTGGTATACCGGCCCAACGCACTCGC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/1 N + ! your_output.sample_1.pair2.truncated000066400000000000000000000011241313314234200374450ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/combined_output@read_s1_075/2 TCATCCTGTCTAATTATACCAATGCAGGAACGGGGGCCAAGATCCCCTCGTCCACCTGATGGAGAACGTAGAACC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s1_200/2 AAGGCCCGCCCATCAGGTAAGAGCATGCTCGGGAGCCAACCCCGTGGGGTGGCAGCGATACTCTCCAATCTGTCATGCGTGTCAACGTGCGT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/2 GTGCTGCGTGAGTTGGAAGGATTGGATCCGGAAAGGCTTGGCCTTTGTAAATTCGACTGCGAGTGCGTTGGGCCGGTATACCAGGTAGAGGG + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/2 N + ! your_output.sample_1.settings000066400000000000000000000051121313314234200363010ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/combined_outputAdapterRemoval ver. 2.1.7 Trimming of double-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1* CTTGCCCT ACGTTATT sample_2 CGCCGATG TGCACGGG [Adapter sequences] Adapter1[1]: AATAACGT_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGGGCAAG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 4 Number of unaligned read pairs: 1 Number of well aligned read pairs: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 4 Number of retained reads: 6 Number of retained nucleotides: 518 Average length of retained reads: 86.3333 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 2 2 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 1 1 0 0 2 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 2 2 0 0 4 your_output.sample_2.pair1.truncated000066400000000000000000000011241313314234200374450ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/combined_output@read_s2_000/1 N + ! @read_s2_200/1 GCGTAAGTTGACGTCAGCCTGCGAGGTGCCACGCCAGTGGTTGCGCTCACCCGGGGCGTAGTTGCTCCGCGCAATTTCTTGGCAGTTCGATC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 TCTTGGGAACGAGAGTGCCACCAATTAAAGTGATGGATATCGAGACGTCCCAAACCACCGCAATAGGACGGGACA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s2_150/1 AGCCCCGAGTGTCCATCACAAGCCACCTCCACTAACCATCTCGGTCCATTATTTGTCACTCGTGGCTAGAAGGGAATAAAGACAACTCTCTC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.pair2.truncated000066400000000000000000000011241313314234200374460ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/combined_output@read_s2_000/2 N + ! @read_s2_200/2 TAAGGGACGAAGTCACCGGGGGCGTTTCACTTGCGCGATCCATTGTAGTACTGGTGTGTCAATCTTCATCGGCAAAAGGTGCCTATCAAAAT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/2 TGTCCCGTCCTATTGCGGTGGTTTGGGACGTCTCGATATCCATCACTTTAATTGGTGGCACTCTCGTTCCCAAGA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s2_150/2 AAGGCTGGGTATACGGGGTAAATGGTGCCGCCTTGTTACACGCGCCGAGGTTTCAGATGAGAGAGTTGTCTTTATTCCCTTCTAGCCACGAG + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.settings000066400000000000000000000051121313314234200363020ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/combined_outputAdapterRemoval ver. 2.1.7 Trimming of double-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 CTTGCCCT ACGTTATT sample_2* CGCCGATG TGCACGGG [Adapter sequences] Adapter1[1]: CCCGTGCA_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: CATCGGCG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 4 Number of unaligned read pairs: 1 Number of well aligned read pairs: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 4 Number of retained reads: 6 Number of retained nucleotides: 518 Average length of retained reads: 86.3333 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 2 2 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 1 1 0 0 2 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 2 2 0 0 4 your_output.settings000066400000000000000000000021661313314234200346070ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/combined_outputAdapterRemoval ver. 2.1.7 Trimming of double-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 CTTGCCCT ACGTTATT sample_2 CGCCGATG TGCACGGG [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Demultiplexing statistics] Name Barcode_1 Barcode_2 Hits Fraction unidentified NA NA 0 0.000 ambiguous NA NA 0 0.000 sample_1 CTTGCCCT ACGTTATT 4 0.500 sample_2 CGCCGATG TGCACGGG 4 0.500 * * * 8 1.000 your_output.unidentified_1000066400000000000000000000000001313314234200356170ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/combined_outputyour_output.unidentified_2000066400000000000000000000000001313314234200356200ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/combined_outputadapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/defaults/000077500000000000000000000000001313314234200270705ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/defaults/barcodes.txt000066400000000000000000000000661313314234200314150ustar00rootroot00000000000000sample_1 CTTGCCCT ACGTTATT sample_2 CGCCGATG TGCACGGG adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/defaults/info.json000066400000000000000000000000711313314234200307140ustar00rootroot00000000000000{ "arguments": [], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/defaults/input_1.fastq000066400000000000000000000033301313314234200315060ustar00rootroot00000000000000@read_s2_000/1 CGCCGATGCCCGTGCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 CGCCGATGGCGTAAGTTGACGTCAGCCTGCGAGGTGCCACGCCAGTGGTTGCGCTCACCCGGGGCGTAGTTGCTCCGCGCAATTTCTTGGCAGTTCGATC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 CTTGCCCTGGTTCTACGTTCTCCATCAGGTGGACGAGGGGATCTTGGCCCCCGTTCCTGCATTGGTATAATTAGACAGGATGAAATAACGTAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 CTTGCCCTGTAGTGCAATAAAAGGATCCTCTTGTGGCCGATTGCAGACCAGCCTCGGGGCTAAACTGATAATCGTATGCTATAGACCCTGGTCGACGCCG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 CTTGCCCTCAGATGTCAGCTCATGTGTTGATATACAGCTAACTAAGGCCCGGGGGTTTAGGCTCAACCCTCTACCTGGTATACCGGCCCAACGCACTCGC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 CGCCGATGTCTTGGGAACGAGAGTGCCACCAATTAAAGTGATGGATATCGAGACGTCCCAAACCACCGCAATAGGACGGGACACCCGTGCAAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 CGCCGATGAGCCCCGAGTGTCCATCACAAGCCACCTCCACTAACCATCTCGGTCCATTATTTGTCACTCGTGGCTAGAAGGGAATAAAGACAACTCTCTC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/1 CTTGCCCTAATAACGTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/defaults/input_2.fastq000066400000000000000000000033301313314234200315070ustar00rootroot00000000000000@read_s2_000/2 TGCACGGGCATCGGCGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/2 TGCACGGGTAAGGGACGAAGTCACCGGGGGCGTTTCACTTGCGCGATCCATTGTAGTACTGGTGTGTCAATCTTCATCGGCAAAAGGTGCCTATCAAAAT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/2 ACGTTATTTCATCCTGTCTAATTATACCAATGCAGGAACGGGGGCCAAGATCCCCTCGTCCACCTGATGGAGAACGTAGAACCAGGGCAAGAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/2 ACGTTATTAAGGCCCGCCCATCAGGTAAGAGCATGCTCGGGAGCCAACCCCGTGGGGTGGCAGCGATACTCTCCAATCTGTCATGCGTGTCAACGTGCGT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/2 ACGTTATTGTGCTGCGTGAGTTGGAAGGATTGGATCCGGAAAGGCTTGGCCTTTGTAAATTCGACTGCGAGTGCGTTGGGCCGGTATACCAGGTAGAGGG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/2 TGCACGGGTGTCCCGTCCTATTGCGGTGGTTTGGGACGTCTCGATATCCATCACTTTAATTGGTGGCACTCTCGTTCCCAAGACATCGGCGAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/2 TGCACGGGAAGGCTGGGTATACGGGGTAAATGGTGCCGCCTTGTTACACGCGCCGAGGTTTCAGATGAGAGAGTTGTCTTTATTCCCTTCTAGCCACGAG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/2 ACGTTATTAGGGCAAGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.discarded000066400000000000000000000000461313314234200347730ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/defaults@read_s1_000/1 + @read_s1_000/2 + your_output.sample_1.pair1.truncated000066400000000000000000000010771313314234200360620ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/defaults@read_s1_075/1 GGTTCTACGTTCTCCATCAGGTGGACGAGGGGATCTTGGCCCCCGTTCCTGCATTGGTATAATTAGACAGGATGA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s1_200/1 GTAGTGCAATAAAAGGATCCTCTTGTGGCCGATTGCAGACCAGCCTCGGGGCTAAACTGATAATCGTATGCTATAGACCCTGGTCGACGCCG + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 CAGATGTCAGCTCATGTGTTGATATACAGCTAACTAAGGCCCGGGGGTTTAGGCTCAACCCTCTACCTGGTATACCGGCCCAACGCACTCGC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.pair2.truncated000066400000000000000000000010771313314234200360630ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/defaults@read_s1_075/2 TCATCCTGTCTAATTATACCAATGCAGGAACGGGGGCCAAGATCCCCTCGTCCACCTGATGGAGAACGTAGAACC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s1_200/2 AAGGCCCGCCCATCAGGTAAGAGCATGCTCGGGAGCCAACCCCGTGGGGTGGCAGCGATACTCTCCAATCTGTCATGCGTGTCAACGTGCGT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/2 GTGCTGCGTGAGTTGGAAGGATTGGATCCGGAAAGGCTTGGCCTTTGTAAATTCGACTGCGAGTGCGTTGGGCCGGTATACCAGGTAGAGGG + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.settings000066400000000000000000000051121313314234200347100ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/defaultsAdapterRemoval ver. 2.1.7 Trimming of double-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1* CTTGCCCT ACGTTATT sample_2 CGCCGATG TGCACGGG [Adapter sequences] Adapter1[1]: AATAACGT_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGGGCAAG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 4 Number of unaligned read pairs: 1 Number of well aligned read pairs: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 4 Number of retained reads: 6 Number of retained nucleotides: 518 Average length of retained reads: 86.3333 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 2 2 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 1 1 0 0 2 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 2 2 0 0 4 your_output.sample_1.singleton.truncated000066400000000000000000000000001313314234200370310ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/defaultsyour_output.sample_2.discarded000066400000000000000000000000461313314234200347740ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/defaults@read_s2_000/1 + @read_s2_000/2 + your_output.sample_2.pair1.truncated000066400000000000000000000010771313314234200360630ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/defaults@read_s2_200/1 GCGTAAGTTGACGTCAGCCTGCGAGGTGCCACGCCAGTGGTTGCGCTCACCCGGGGCGTAGTTGCTCCGCGCAATTTCTTGGCAGTTCGATC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 TCTTGGGAACGAGAGTGCCACCAATTAAAGTGATGGATATCGAGACGTCCCAAACCACCGCAATAGGACGGGACA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s2_150/1 AGCCCCGAGTGTCCATCACAAGCCACCTCCACTAACCATCTCGGTCCATTATTTGTCACTCGTGGCTAGAAGGGAATAAAGACAACTCTCTC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.pair2.truncated000066400000000000000000000010771313314234200360640ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/defaults@read_s2_200/2 TAAGGGACGAAGTCACCGGGGGCGTTTCACTTGCGCGATCCATTGTAGTACTGGTGTGTCAATCTTCATCGGCAAAAGGTGCCTATCAAAAT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/2 TGTCCCGTCCTATTGCGGTGGTTTGGGACGTCTCGATATCCATCACTTTAATTGGTGGCACTCTCGTTCCCAAGA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s2_150/2 AAGGCTGGGTATACGGGGTAAATGGTGCCGCCTTGTTACACGCGCCGAGGTTTCAGATGAGAGAGTTGTCTTTATTCCCTTCTAGCCACGAG + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.settings000066400000000000000000000051121313314234200347110ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/defaultsAdapterRemoval ver. 2.1.7 Trimming of double-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 CTTGCCCT ACGTTATT sample_2* CGCCGATG TGCACGGG [Adapter sequences] Adapter1[1]: CCCGTGCA_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: CATCGGCG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 4 Number of unaligned read pairs: 1 Number of well aligned read pairs: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 4 Number of retained reads: 6 Number of retained nucleotides: 518 Average length of retained reads: 86.3333 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 2 2 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 1 1 0 0 2 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 2 2 0 0 4 your_output.sample_2.singleton.truncated000066400000000000000000000000001313314234200370320ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/defaultsadapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/defaults/your_output.settings000066400000000000000000000021661313314234200332750ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of double-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 CTTGCCCT ACGTTATT sample_2 CGCCGATG TGCACGGG [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Demultiplexing statistics] Name Barcode_1 Barcode_2 Hits Fraction unidentified NA NA 0 0.000 ambiguous NA NA 0 0.000 sample_1 CTTGCCCT ACGTTATT 4 0.500 sample_2 CGCCGATG TGCACGGG 4 0.500 * * * 8 1.000 adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/defaults/your_output.unidentified_1000066400000000000000000000000001313314234200343050ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/defaults/your_output.unidentified_2000066400000000000000000000000001313314234200343060ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/000077500000000000000000000000001313314234200274445ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/interleaved/000077500000000000000000000000001313314234200317465ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/interleaved/barcodes.txt000066400000000000000000000000661313314234200342730ustar00rootroot00000000000000sample_1 GGCCCCTG CCAAAGCT sample_2 AATCCTAG GTCTAGTT adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/interleaved/info.json000066400000000000000000000001451313314234200335740ustar00rootroot00000000000000{ "arguments": ["--demultiplex-only", "--interleaved-output"], "return_code": 0, "stderr": [ ] } input_1.fastq000066400000000000000000000033301313314234200343050ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/interleaved@read_s2_000/1 AATCCTAGAACTAGACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 GGCCCCTGTTTCTGGACGACGCCCCTATAATGTATGATAATTATTCGATTGACATGGCGAACTTCAGCCATTAGCGCTTTCGCATAATGTCGTTGTATAT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 GGCCCCTGAACCATCTGAGCGGTACTCGGGAAAACACGGACGAGGTGGGATATCTTTCCCTTCTCTTGCCATCGTGTATTTATCTGTATCTAATGCTACT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 AATCCTAGTCGTACAATGCATCAGACACCGCTTTTGTGGCGTTTCGACCGTAATCTACATTTACATCTCGTTAATTCGCGACATTCATCGTGCCGTACTC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 AATCCTAGATACGCTGTGCGTCCTGGAACTGCAACTCTCGGTGTACAGGCCATCGTAAATCGTACCCGATTGCGCTACGTTTCAACTAGACAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 AATCCTAGATACCCCGACACTCGACTTATATTTTCCTCAGCTAGTGCGAGAGTTAATGTAGCGACGAAACACTCCTGCCTCGGTACGAGCATCCCGGTAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/1 GGCCCCTGAGCTTTGGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 GGCCCCTGGGTGGCTATGTAGGGAAAAACTCCGCTAGAACAAAGAACAGCCTCCCTCAATCACCCATGTTCGTGCCTCGACGCAGCTTTGGAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 input_2.fastq000066400000000000000000000033301313314234200343060ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/interleaved@read_s2_000/2 GTCTAGTTCTAGGATTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/2 CCAAAGCTTTTAGACGGCAGACGCATCAACTTCCACATGACTGCTTGAACGACGATACACCTCTATATATACAACGACATTATGCGAAAGCGCTAATGGC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/2 CCAAAGCTTACGGGTCCGTGCGCTTAGGTAAGAGCCCCGTTTTTTACGCGGAAAAGCGCCTGGAAGCTCAGAATTGAGGGAAGGGAAATGAGTCACGGGT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/2 GTCTAGTTAAGCCAGTGCCCGCAAGTGGTACCTCCTTTATGGTACACCGAACACAGCGCTTCGCCTGGCTCAAACTGCAGCAGCAAGTACCTGCTCGATG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/2 GTCTAGTTGAAACGTAGCGCAATCGGGTACGATTTACGATGGCCTGTACACCGAGAGTTGCAGTTCCAGGACGCACAGCGTATCTAGGATTAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/2 GTCTAGTTGACTGAGGGGCGCATTCTTAGTCGAGTCGTTTGTGGATAGTCAGGTCTGGTAAAGGATGTACCGGGATGCTCGTACCGAGGCAGGAGTGTTT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/2 CCAAAGCTCAGGGGCCAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/2 CCAAAGCTGCGTCGAGGCACGAACATGGGTGATTGAGGGAGGCTGTTCTTTGTTCTAGCGGAGTTTTTCCCTACATAGCCACCCAGGGGCCAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.paired.fastq000066400000000000000000000031301313314234200403050ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/interleaved@read_s1_150/1 TTTCTGGACGACGCCCCTATAATGTATGATAATTATTCGATTGACATGGCGAACTTCAGCCATTAGCGCTTTCGCATAATGTCGTTGTATAT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/2 TTTAGACGGCAGACGCATCAACTTCCACATGACTGCTTGAACGACGATACACCTCTATATATACAACGACATTATGCGAAAGCGCTAATGGC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 AACCATCTGAGCGGTACTCGGGAAAACACGGACGAGGTGGGATATCTTTCCCTTCTCTTGCCATCGTGTATTTATCTGTATCTAATGCTACT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/2 TACGGGTCCGTGCGCTTAGGTAAGAGCCCCGTTTTTTACGCGGAAAAGCGCCTGGAAGCTCAGAATTGAGGGAAGGGAAATGAGTCACGGGT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/1 AGCTTTGGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/2 CAGGGGCCAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 GGTGGCTATGTAGGGAAAAACTCCGCTAGAACAAAGAACAGCCTCCCTCAATCACCCATGTTCGTGCCTCGACGCAGCTTTGGAGATCGGAA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/2 GCGTCGAGGCACGAACATGGGTGATTGAGGGAGGCTGTTCTTTGTTCTAGCGGAGTTTTTCCCTACATAGCCACCCAGGGGCCAGATCGGAA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.settings000066400000000000000000000007401313314234200375700ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/interleavedAdapterRemoval ver. 2.1.7 Demultiplexing of double-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1* GGCCCCTG CCAAAGCT sample_2 AATCCTAG GTCTAGTT [Adapter sequences] Adapter1[1]: AGCTTTGG_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: CAGGGGCC_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT your_output.sample_2.paired.fastq000066400000000000000000000031301313314234200403060ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/interleaved@read_s2_000/1 AACTAGACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_000/2 CTAGGATTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 TCGTACAATGCATCAGACACCGCTTTTGTGGCGTTTCGACCGTAATCTACATTTACATCTCGTTAATTCGCGACATTCATCGTGCCGTACTC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/2 AAGCCAGTGCCCGCAAGTGGTACCTCCTTTATGGTACACCGAACACAGCGCTTCGCCTGGCTCAAACTGCAGCAGCAAGTACCTGCTCGATG + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 ATACGCTGTGCGTCCTGGAACTGCAACTCTCGGTGTACAGGCCATCGTAAATCGTACCCGATTGCGCTACGTTTCAACTAGACAGATCGGAA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/2 GAAACGTAGCGCAATCGGGTACGATTTACGATGGCCTGTACACCGAGAGTTGCAGTTCCAGGACGCACAGCGTATCTAGGATTAGATCGGAA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 ATACCCCGACACTCGACTTATATTTTCCTCAGCTAGTGCGAGAGTTAATGTAGCGACGAAACACTCCTGCCTCGGTACGAGCATCCCGGTAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/2 GACTGAGGGGCGCATTCTTAGTCGAGTCGTTTGTGGATAGTCAGGTCTGGTAAAGGATGTACCGGGATGCTCGTACCGAGGCAGGAGTGTTT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.settings000066400000000000000000000007401313314234200375710ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/interleavedAdapterRemoval ver. 2.1.7 Demultiplexing of double-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GGCCCCTG CCAAAGCT sample_2* AATCCTAG GTCTAGTT [Adapter sequences] Adapter1[1]: AACTAGAC_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: CTAGGATT_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT your_output.settings000066400000000000000000000012311313314234200360640ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/interleavedAdapterRemoval ver. 2.1.7 Demultiplexing of double-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GGCCCCTG CCAAAGCT sample_2 AATCCTAG GTCTAGTT [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Demultiplexing statistics] Name Barcode_1 Barcode_2 Hits Fraction unidentified NA NA 0 0.000 ambiguous NA NA 0 0.000 sample_1 GGCCCCTG CCAAAGCT 4 0.500 sample_2 AATCCTAG GTCTAGTT 4 0.500 * * * 8 1.000 your_output.unidentified.paired.fastq000066400000000000000000000000001313314234200412440ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/interleavedadapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/regular/000077500000000000000000000000001313314234200311055ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/regular/barcodes.txt000066400000000000000000000000661313314234200334320ustar00rootroot00000000000000sample_1 GGCCCCTG CCAAAGCT sample_2 AATCCTAG GTCTAGTT adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/regular/info.json000066400000000000000000000001151313314234200327300ustar00rootroot00000000000000{ "arguments": ["--demultiplex-only"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/regular/input_1.fastq000066400000000000000000000033301313314234200335230ustar00rootroot00000000000000@read_s2_000/1 AATCCTAGAACTAGACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 GGCCCCTGTTTCTGGACGACGCCCCTATAATGTATGATAATTATTCGATTGACATGGCGAACTTCAGCCATTAGCGCTTTCGCATAATGTCGTTGTATAT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 GGCCCCTGAACCATCTGAGCGGTACTCGGGAAAACACGGACGAGGTGGGATATCTTTCCCTTCTCTTGCCATCGTGTATTTATCTGTATCTAATGCTACT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 AATCCTAGTCGTACAATGCATCAGACACCGCTTTTGTGGCGTTTCGACCGTAATCTACATTTACATCTCGTTAATTCGCGACATTCATCGTGCCGTACTC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 AATCCTAGATACGCTGTGCGTCCTGGAACTGCAACTCTCGGTGTACAGGCCATCGTAAATCGTACCCGATTGCGCTACGTTTCAACTAGACAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 AATCCTAGATACCCCGACACTCGACTTATATTTTCCTCAGCTAGTGCGAGAGTTAATGTAGCGACGAAACACTCCTGCCTCGGTACGAGCATCCCGGTAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/1 GGCCCCTGAGCTTTGGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 GGCCCCTGGGTGGCTATGTAGGGAAAAACTCCGCTAGAACAAAGAACAGCCTCCCTCAATCACCCATGTTCGTGCCTCGACGCAGCTTTGGAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/regular/input_2.fastq000066400000000000000000000033301313314234200335240ustar00rootroot00000000000000@read_s2_000/2 GTCTAGTTCTAGGATTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/2 CCAAAGCTTTTAGACGGCAGACGCATCAACTTCCACATGACTGCTTGAACGACGATACACCTCTATATATACAACGACATTATGCGAAAGCGCTAATGGC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/2 CCAAAGCTTACGGGTCCGTGCGCTTAGGTAAGAGCCCCGTTTTTTACGCGGAAAAGCGCCTGGAAGCTCAGAATTGAGGGAAGGGAAATGAGTCACGGGT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/2 GTCTAGTTAAGCCAGTGCCCGCAAGTGGTACCTCCTTTATGGTACACCGAACACAGCGCTTCGCCTGGCTCAAACTGCAGCAGCAAGTACCTGCTCGATG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/2 GTCTAGTTGAAACGTAGCGCAATCGGGTACGATTTACGATGGCCTGTACACCGAGAGTTGCAGTTCCAGGACGCACAGCGTATCTAGGATTAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/2 GTCTAGTTGACTGAGGGGCGCATTCTTAGTCGAGTCGTTTGTGGATAGTCAGGTCTGGTAAAGGATGTACCGGGATGCTCGTACCGAGGCAGGAGTGTTT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/2 CCAAAGCTCAGGGGCCAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/2 CCAAAGCTGCGTCGAGGCACGAACATGGGTGATTGAGGGAGGCTGTTCTTTGTTCTAGCGGAGTTTTTCCCTACATAGCCACCCAGGGGCCAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.pair1.fastq000066400000000000000000000014541313314234200372230ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/regular@read_s1_150/1 TTTCTGGACGACGCCCCTATAATGTATGATAATTATTCGATTGACATGGCGAACTTCAGCCATTAGCGCTTTCGCATAATGTCGTTGTATAT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 AACCATCTGAGCGGTACTCGGGAAAACACGGACGAGGTGGGATATCTTTCCCTTCTCTTGCCATCGTGTATTTATCTGTATCTAATGCTACT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/1 AGCTTTGGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 GGTGGCTATGTAGGGAAAAACTCCGCTAGAACAAAGAACAGCCTCCCTCAATCACCCATGTTCGTGCCTCGACGCAGCTTTGGAGATCGGAA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.pair2.fastq000066400000000000000000000014541313314234200372240ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/regular@read_s1_150/2 TTTAGACGGCAGACGCATCAACTTCCACATGACTGCTTGAACGACGATACACCTCTATATATACAACGACATTATGCGAAAGCGCTAATGGC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/2 TACGGGTCCGTGCGCTTAGGTAAGAGCCCCGTTTTTTACGCGGAAAAGCGCCTGGAAGCTCAGAATTGAGGGAAGGGAAATGAGTCACGGGT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/2 CAGGGGCCAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/2 GCGTCGAGGCACGAACATGGGTGATTGAGGGAGGCTGTTCTTTGTTCTAGCGGAGTTTTTCCCTACATAGCCACCCAGGGGCCAGATCGGAA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.settings000066400000000000000000000007401313314234200367270ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/regularAdapterRemoval ver. 2.1.7 Demultiplexing of double-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1* GGCCCCTG CCAAAGCT sample_2 AATCCTAG GTCTAGTT [Adapter sequences] Adapter1[1]: AGCTTTGG_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: CAGGGGCC_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT your_output.sample_2.pair1.fastq000066400000000000000000000014541313314234200372240ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/regular@read_s2_000/1 AACTAGACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 TCGTACAATGCATCAGACACCGCTTTTGTGGCGTTTCGACCGTAATCTACATTTACATCTCGTTAATTCGCGACATTCATCGTGCCGTACTC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 ATACGCTGTGCGTCCTGGAACTGCAACTCTCGGTGTACAGGCCATCGTAAATCGTACCCGATTGCGCTACGTTTCAACTAGACAGATCGGAA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 ATACCCCGACACTCGACTTATATTTTCCTCAGCTAGTGCGAGAGTTAATGTAGCGACGAAACACTCCTGCCTCGGTACGAGCATCCCGGTAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.pair2.fastq000066400000000000000000000014541313314234200372250ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/regular@read_s2_000/2 CTAGGATTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/2 AAGCCAGTGCCCGCAAGTGGTACCTCCTTTATGGTACACCGAACACAGCGCTTCGCCTGGCTCAAACTGCAGCAGCAAGTACCTGCTCGATG + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/2 GAAACGTAGCGCAATCGGGTACGATTTACGATGGCCTGTACACCGAGAGTTGCAGTTCCAGGACGCACAGCGTATCTAGGATTAGATCGGAA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/2 GACTGAGGGGCGCATTCTTAGTCGAGTCGTTTGTGGATAGTCAGGTCTGGTAAAGGATGTACCGGGATGCTCGTACCGAGGCAGGAGTGTTT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.settings000066400000000000000000000007401313314234200367300ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/regularAdapterRemoval ver. 2.1.7 Demultiplexing of double-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GGCCCCTG CCAAAGCT sample_2* AATCCTAG GTCTAGTT [Adapter sequences] Adapter1[1]: AACTAGAC_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: CTAGGATT_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT your_output.settings000066400000000000000000000012311313314234200352230ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/regularAdapterRemoval ver. 2.1.7 Demultiplexing of double-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GGCCCCTG CCAAAGCT sample_2 AATCCTAG GTCTAGTT [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Demultiplexing statistics] Name Barcode_1 Barcode_2 Hits Fraction unidentified NA NA 0 0.000 ambiguous NA NA 0 0.000 sample_1 GGCCCCTG CCAAAGCT 4 0.500 sample_2 AATCCTAG GTCTAGTT 4 0.500 * * * 8 1.000 your_output.unidentified_1.fastq000066400000000000000000000000001313314234200373600ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/regularyour_output.unidentified_2.fastq000066400000000000000000000000001313314234200373610ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/regularadapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/unidentified/000077500000000000000000000000001313314234200321135ustar00rootroot00000000000000barcodes.txt000066400000000000000000000000661313314234200343610ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/unidentifiedsample_1 GGCCCCTG CCAAAGCT sample_2 AATCCTAG GTCTAGTT adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/unidentified/info.json000066400000000000000000000001151313314234200337360ustar00rootroot00000000000000{ "arguments": ["--demultiplex-only"], "return_code": 0, "stderr": [ ] } input_1.fastq000066400000000000000000000033301313314234200344520ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/unidentified@read_s2_000/1 AATCCTAGAACTAGACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 GGCCCCTGTTTCTGGACGACGCCCCTATAATGTATGATAATTATTCGATTGACATGGCGAACTTCAGCCATTAGCGCTTTCGCATAATGTCGTTGTATAT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 TGCCCCTGAACCATCTGAGCGGTACTCGGGAAAACACGGACGAGGTGGGATATCTTTCCCTTCTCTTGCCATCGTGTATTTATCTGTATCTAATGCTACT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 AATCCTAGTCGTACAATGCATCAGACACCGCTTTTGTGGCGTTTCGACCGTAATCTACATTTACATCTCGTTAATTCGCGACATTCATCGTGCCGTACTC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 AATCCTAGATACGCTGTGCGTCCTGGAACTGCAACTCTCGGTGTACAGGCCATCGTAAATCGTACCCGATTGCGCTACGTTTCAACTAGACAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 AATCCTAGATACCCCGACACTCGACTTATATTTTCCTCAGCTAGTGCGAGAGTTAATGTAGCGACGAAACACTCCTGCCTCGGTACGAGCATCCCGGTAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/1 GGCCCCTGAGCTTTGGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 GGCCCCTGGGTGGCTATGTAGGGAAAAACTCCGCTAGAACAAAGAACAGCCTCCCTCAATCACCCATGTTCGTGCCTCGACGCAGCTTTGGAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 input_2.fastq000066400000000000000000000033301313314234200344530ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/unidentified@read_s2_000/2 GTCTAGTTCTAGGATTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/2 CCAAAGCTTTTAGACGGCAGACGCATCAACTTCCACATGACTGCTTGAACGACGATACACCTCTATATATACAACGACATTATGCGAAAGCGCTAATGGC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/2 CCAAAGCTTACGGGTCCGTGCGCTTAGGTAAGAGCCCCGTTTTTTACGCGGAAAAGCGCCTGGAAGCTCAGAATTGAGGGAAGGGAAATGAGTCACGGGT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/2 GTCTAGTTAAGCCAGTGCCCGCAAGTGGTACCTCCTTTATGGTACACCGAACACAGCGCTTCGCCTGGCTCAAACTGCAGCAGCAAGTACCTGCTCGATG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/2 ATCTAGTTGAAACGTAGCGCAATCGGGTACGATTTACGATGGCCTGTACACCGAGAGTTGCAGTTCCAGGACGCACAGCGTATCTAGGATTAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/2 GTCTAGTTGACTGAGGGGCGCATTCTTAGTCGAGTCGTTTGTGGATAGTCAGGTCTGGTAAAGGATGTACCGGGATGCTCGTACCGAGGCAGGAGTGTTT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/2 CCAAAGCTCAGGGGCCAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/2 CCAAAGCTGCGTCGAGGCACGAACATGGGTGATTGAGGGAGGCTGTTCTTTGTTCTAGCGGAGTTTTTCCCTACATAGCCACCCAGGGGCCAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.pair1.fastq000066400000000000000000000011411313314234200402220ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/unidentified@read_s1_150/1 TTTCTGGACGACGCCCCTATAATGTATGATAATTATTCGATTGACATGGCGAACTTCAGCCATTAGCGCTTTCGCATAATGTCGTTGTATAT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/1 AGCTTTGGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 GGTGGCTATGTAGGGAAAAACTCCGCTAGAACAAAGAACAGCCTCCCTCAATCACCCATGTTCGTGCCTCGACGCAGCTTTGGAGATCGGAA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.pair2.fastq000066400000000000000000000011411313314234200402230ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/unidentified@read_s1_150/2 TTTAGACGGCAGACGCATCAACTTCCACATGACTGCTTGAACGACGATACACCTCTATATATACAACGACATTATGCGAAAGCGCTAATGGC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/2 CAGGGGCCAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/2 GCGTCGAGGCACGAACATGGGTGATTGAGGGAGGCTGTTCTTTGTTCTAGCGGAGTTTTTCCCTACATAGCCACCCAGGGGCCAGATCGGAA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.settings000066400000000000000000000007401313314234200377350ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/unidentifiedAdapterRemoval ver. 2.1.7 Demultiplexing of double-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1* GGCCCCTG CCAAAGCT sample_2 AATCCTAG GTCTAGTT [Adapter sequences] Adapter1[1]: AGCTTTGG_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: CAGGGGCC_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT your_output.sample_2.pair1.fastq000066400000000000000000000011411313314234200402230ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/unidentified@read_s2_000/1 AACTAGACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 TCGTACAATGCATCAGACACCGCTTTTGTGGCGTTTCGACCGTAATCTACATTTACATCTCGTTAATTCGCGACATTCATCGTGCCGTACTC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 ATACCCCGACACTCGACTTATATTTTCCTCAGCTAGTGCGAGAGTTAATGTAGCGACGAAACACTCCTGCCTCGGTACGAGCATCCCGGTAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.pair2.fastq000066400000000000000000000011411313314234200402240ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/unidentified@read_s2_000/2 CTAGGATTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/2 AAGCCAGTGCCCGCAAGTGGTACCTCCTTTATGGTACACCGAACACAGCGCTTCGCCTGGCTCAAACTGCAGCAGCAAGTACCTGCTCGATG + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/2 GACTGAGGGGCGCATTCTTAGTCGAGTCGTTTGTGGATAGTCAGGTCTGGTAAAGGATGTACCGGGATGCTCGTACCGAGGCAGGAGTGTTT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.settings000066400000000000000000000007401313314234200377360ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/unidentifiedAdapterRemoval ver. 2.1.7 Demultiplexing of double-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GGCCCCTG CCAAAGCT sample_2* AATCCTAG GTCTAGTT [Adapter sequences] Adapter1[1]: AACTAGAC_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: CTAGGATT_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT your_output.settings000066400000000000000000000012311313314234200362310ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/unidentifiedAdapterRemoval ver. 2.1.7 Demultiplexing of double-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GGCCCCTG CCAAAGCT sample_2 AATCCTAG GTCTAGTT [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Demultiplexing statistics] Name Barcode_1 Barcode_2 Hits Fraction unidentified NA NA 2 0.250 ambiguous NA NA 0 0.000 sample_1 GGCCCCTG CCAAAGCT 3 0.375 sample_2 AATCCTAG GTCTAGTT 3 0.375 * * * 8 1.000 your_output.unidentified_1.fastq000066400000000000000000000006661313314234200404100ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/unidentified@read_s1_200/1 TGCCCCTGAACCATCTGAGCGGTACTCGGGAAAACACGGACGAGGTGGGATATCTTTCCCTTCTCTTGCCATCGTGTATTTATCTGTATCTAATGCTACT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 AATCCTAGATACGCTGTGCGTCCTGGAACTGCAACTCTCGGTGTACAGGCCATCGTAAATCGTACCCGATTGCGCTACGTTTCAACTAGACAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.unidentified_2.fastq000066400000000000000000000006661313314234200404110ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/demux_only/unidentified@read_s1_200/2 CCAAAGCTTACGGGTCCGTGCGCTTAGGTAAGAGCCCCGTTTTTTACGCGGAAAAGCGCCTGGAAGCTCAGAATTGAGGGAAGGGAAATGAGTCACGGGT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/2 ATCTAGTTGAAACGTAGCGCAATCGGGTACGATTTACGATGGCCTGTACACCGAGAGTTGCAGTTCCAGGACGCACAGCGTATCTAGGATTAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/interleaved/000077500000000000000000000000001313314234200275635ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/interleaved/both/000077500000000000000000000000001313314234200305175ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/interleaved/both/barcodes.txt000066400000000000000000000000661313314234200330440ustar00rootroot00000000000000sample_1 TTTTCAAC TAGATGGC sample_2 CTTTACAG GGGCTGCT adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/interleaved/both/info.json000066400000000000000000000001101313314234200323350ustar00rootroot00000000000000{ "arguments": ["--interleaved"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/interleaved/both/input_1.fastq000066400000000000000000000066601313314234200331460ustar00rootroot00000000000000@read_s2_000/1 CTTTACAGAGCAGCCCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_000/2 GGGCTGCTCTGTAAAGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 TTTTCAACTTGACTTACACCCAGACGCTTCCGAACGAGGGGACGTGGCAAAGCGACAATCCTGTCAACACTATAATGCTTCCGAACGCAATATAAAGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/2 TAGATGGCGTACTTTACGAGATTGAGTGGATGAATCGGCGTTGCCCAAGCAGAGGCTCGGCTTTCGTTCCTTTATATTGCGTTCGGAAGCATTATAGTGT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 CTTTACAGCCTAATAACTTGTTAATGACATCCTAAGCCCTTTGAAAAACTTTTCGTTGGATACGGTCCAGTCAGAAACTTTCAAAATCGGCCCGGGCGCG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/2 GGGCTGCTAATACCCCTTAGTGTAGCTGGCGACTTCATCCAGACTGTATGTCTCTAGAGTTCATAACTCCGCGCACCGTCAACGTCTGATCATGCTGGGG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 TTTTCAACTCGATATCTTTTGAGCAGGGATGCTTCCAGCACGTGAACCCAGGAAAATGCACGCGCGCGCACTGCACCCCCCCAGCCATCTAAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/2 TAGATGGCTGGGGGGGTGCAGTGCGCGCGCGTGCATTTTCCTGGGTTCACGTGCTGGAAGCATCCCTGCTCAAAAGATATCGAGTTGAAAAAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 CTTTACAGCCTGGAATCGCTGGTTACGGATGGTATTTAGATTATGGTACATCTAACAACATATGTCACACATTCCGGATCGGCAGCAGCCCAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/2 GGGCTGCTGCCGATCCGGAATGTGTGACATATGTTGTTAGATGTACCATAATCTAAATACCATCCGTAACCAGCGATTCCAGGCTGTAAAGAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/1 TTTTCAACGCCATCTAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/2 TAGATGGCGTTGAAAAAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 CTTTACAGTTAGCGCTTTTGCGCCGACTCATGAGTTTAGGGGAGGGATCTCACTCTACCCGACTACGGGCTCGAGTATCCGATACTTGCACAGATGAATA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/2 GGGCTGCTGTGGTTGGTCGAATATCCTGACTACCAACTCCTGGTACAATGGAGAATCTGACGGTGGTATTCATCTGTGCAAGTATCGGATACTCGAGCCC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 TTTTCAACCAGGGTGGTGAACTACTCGTCCCATTCTTATCGCCGTCTTAACTCGGGACAGTAGTGCTCGAATCGCTCGCGGGGCTCCTCGGCCTTCAATG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/2 TAGATGGCTAACTGGACGGTGACATTCTGCCGGTACCTAGACTGATCTTAAAACAGCCCGCACTCCGTATGTTCTAGGACAAGGTGGCATCTAGAACGAG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.discarded000066400000000000000000000000461313314234200364220ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/interleaved/both@read_s1_000/1 + @read_s1_000/2 + your_output.sample_1.paired.truncated000066400000000000000000000021761313314234200377420ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/interleaved/both@read_s1_150/1 TTGACTTACACCCAGACGCTTCCGAACGAGGGGACGTGGCAAAGCGACAATCCTGTCAACACTATAATGCTTCCGAACGCAATATAAAGGAA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/2 GTACTTTACGAGATTGAGTGGATGAATCGGCGTTGCCCAAGCAGAGGCTCGGCTTTCGTTCCTTTATATTGCGTTCGGAAGCATTATAGTGT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 TCGATATCTTTTGAGCAGGGATGCTTCCAGCACGTGAACCCAGGAAAATGCACGCGCGCGCACTGCACCCCCCCA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s1_075/2 TGGGGGGGTGCAGTGCGCGCGCGTGCATTTTCCTGGGTTCACGTGCTGGAAGCATCCCTGCTCAAAAGATATCGA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s1_200/1 CAGGGTGGTGAACTACTCGTCCCATTCTTATCGCCGTCTTAACTCGGGACAGTAGTGCTCGAATCGCTCGCGGGGCTCCTCGGCCTTCAATG + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/2 TAACTGGACGGTGACATTCTGCCGGTACCTAGACTGATCTTAAAACAGCCCGCACTCCGTATGTTCTAGGACAAGGTGGCATCTAGAACGAG + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.settings000066400000000000000000000051121313314234200363370ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/interleaved/bothAdapterRemoval ver. 2.1.7 Trimming of double-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1* TTTTCAAC TAGATGGC sample_2 CTTTACAG GGGCTGCT [Adapter sequences] Adapter1[1]: GCCATCTA_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: GTTGAAAA_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 4 Number of unaligned read pairs: 1 Number of well aligned read pairs: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 4 Number of retained reads: 6 Number of retained nucleotides: 518 Average length of retained reads: 86.3333 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 2 2 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 1 1 0 0 2 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 2 2 0 0 4 your_output.sample_1.singleton.truncated000066400000000000000000000000001313314234200404600ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/interleaved/bothyour_output.sample_2.discarded000066400000000000000000000000461313314234200364230ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/interleaved/both@read_s2_000/1 + @read_s2_000/2 + your_output.sample_2.paired.truncated000066400000000000000000000021761313314234200377430ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/interleaved/both@read_s2_200/1 CCTAATAACTTGTTAATGACATCCTAAGCCCTTTGAAAAACTTTTCGTTGGATACGGTCCAGTCAGAAACTTTCAAAATCGGCCCGGGCGCG + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/2 AATACCCCTTAGTGTAGCTGGCGACTTCATCCAGACTGTATGTCTCTAGAGTTCATAACTCCGCGCACCGTCAACGTCTGATCATGCTGGGG + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 CCTGGAATCGCTGGTTACGGATGGTATTTAGATTATGGTACATCTAACAACATATGTCACACATTCCGGATCGGC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s2_075/2 GCCGATCCGGAATGTGTGACATATGTTGTTAGATGTACCATAATCTAAATACCATCCGTAACCAGCGATTCCAGG + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s2_150/1 TTAGCGCTTTTGCGCCGACTCATGAGTTTAGGGGAGGGATCTCACTCTACCCGACTACGGGCTCGAGTATCCGATACTTGCACAGATGAATA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/2 GTGGTTGGTCGAATATCCTGACTACCAACTCCTGGTACAATGGAGAATCTGACGGTGGTATTCATCTGTGCAAGTATCGGATACTCGAGCCC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.settings000066400000000000000000000051121313314234200363400ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/interleaved/bothAdapterRemoval ver. 2.1.7 Trimming of double-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 TTTTCAAC TAGATGGC sample_2* CTTTACAG GGGCTGCT [Adapter sequences] Adapter1[1]: AGCAGCCC_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: CTGTAAAG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 4 Number of unaligned read pairs: 1 Number of well aligned read pairs: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 4 Number of retained reads: 6 Number of retained nucleotides: 518 Average length of retained reads: 86.3333 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 2 2 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 1 1 0 0 2 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 2 2 0 0 4 your_output.sample_2.singleton.truncated000066400000000000000000000000001313314234200404610ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/interleaved/bothyour_output.settings000066400000000000000000000021661313314234200346450ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/interleaved/bothAdapterRemoval ver. 2.1.7 Trimming of double-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 TTTTCAAC TAGATGGC sample_2 CTTTACAG GGGCTGCT [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Demultiplexing statistics] Name Barcode_1 Barcode_2 Hits Fraction unidentified NA NA 0 0.000 ambiguous NA NA 0 0.000 sample_1 TTTTCAAC TAGATGGC 4 0.500 sample_2 CTTTACAG GGGCTGCT 4 0.500 * * * 8 1.000 your_output.unidentified.paired000066400000000000000000000000001313314234200367000ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/interleaved/bothadapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/interleaved/output/000077500000000000000000000000001313314234200311235ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/interleaved/output/barcodes.txt000066400000000000000000000000661313314234200334500ustar00rootroot00000000000000sample_1 TGTAACGC CTCCTTAG sample_2 GGGGACTC GTATATGC adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/interleaved/output/info.json000066400000000000000000000001171313314234200327500ustar00rootroot00000000000000{ "arguments": ["--interleaved-output"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/interleaved/output/input_1.fastq000066400000000000000000000033301313314234200335410ustar00rootroot00000000000000@read_s1_150/1 TGTAACGCGAAAGCTTGCCAACTCTCAGATTACAGTTTAGCAATTCTCCGATAGACGTAGATAATAGTTGCGTTGACCGCTTTTCGGGGCACGGAAGTCA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/1 TGTAACGCCTAAGGAGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 GGGGACTCAAGAATCCGAGGCATAGCGAATCAATGTCACTTTGGTTCTGTCAGAACGACCTGCGAATCAAAACATGCCACGGGGCATATACAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_000/1 GGGGACTCGCATATACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 TGTAACGCCCAGCATCAAACATAACGTGATAGATACTCAACCATTTTCGGAGTAAACAATGAGAATAACCATGCGGCATGGGACGTGACACCAACGAACA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 TGTAACGCTGATGTGGCTCTAAAAGACCGGACGTTTCGCGTCCTTTGGAGCGGGTAGTGCGGTAGTAAAAATTTACACTAGCCCTAAGGAGAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 GGGGACTCCATTAGCCCACGCAACGGCTTAGGCGTCGAGGACATTAACAAGGGCGCGAGGGCCTTCACTTACATGGTATCTATCTCATCCAGTGCACGAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 GGGGACTCATCTCAAGCTCAAGATTAGCAGAAGGATTGTAGGCCCGGATCCGATAATCGATAAAGCCGTGATGTCAATACGGTCCCGGTCTGTCCAGCTA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/interleaved/output/input_2.fastq000066400000000000000000000033301313314234200335420ustar00rootroot00000000000000@read_s1_150/2 CTCCTTAGTGGATGGGCAGAGAGATTCCCATTTGGCAGCGAGCGAGCCCCGTAGATAGCTGCTCTCTGACTTCCGTGCCCCGAAAAGCGGTCAACGCAAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/2 CTCCTTAGGCGTTACAAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/2 GTATATGCCCCGTGGCATGTTTTGATTCGCAGGTCGTTCTGACAGAACCAAAGTGACATTGATTCGCTATGCCTCGGATTCTTGAGTCCCCAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_000/2 GTATATGCGAGTCCCCAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/2 CTCCTTAGGTCCGAGCGCTAGGACCAGTCCCGTGTACCCAAATAGCGCGACCCCGTCCACGGTGTATGGGCAGTTACGGTAATCTTATGTTCAAAATGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/2 CTCCTTAGGGCTAGTGTAAATTTTTACTACCGCACTACCCGCTCCAAAGGACGCGAAACGTCCGGTCTTTTAGAGCCACATCAGCGTTACAAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/2 GTATATGCCGAACTAGGTAGTCGCTTTACATAGGAGAGGTCGTTATGTATTACGTCACCGCGTTTCGTCGTGCACTGGATGAGATAGATACCATGTAAGT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/2 GTATATGCAGATGCAGTACTGATTGAGAACTTTCAAATAACCCAAACAAGCGTACCAATGTATACTAGCCCACCGGCCTTCATCATCTAATTAATAGCAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.discarded000066400000000000000000000000461313314234200370260ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/interleaved/output@read_s1_000/1 + @read_s1_000/2 + your_output.sample_1.paired.truncated000066400000000000000000000021761313314234200403460ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/interleaved/output@read_s1_150/1 GAAAGCTTGCCAACTCTCAGATTACAGTTTAGCAATTCTCCGATAGACGTAGATAATAGTTGCGTTGACCGCTTTTCGGGGCACGGAAGTCA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/2 TGGATGGGCAGAGAGATTCCCATTTGGCAGCGAGCGAGCCCCGTAGATAGCTGCTCTCTGACTTCCGTGCCCCGAAAAGCGGTCAACGCAAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 CCAGCATCAAACATAACGTGATAGATACTCAACCATTTTCGGAGTAAACAATGAGAATAACCATGCGGCATGGGACGTGACACCAACGAACA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/2 GTCCGAGCGCTAGGACCAGTCCCGTGTACCCAAATAGCGCGACCCCGTCCACGGTGTATGGGCAGTTACGGTAATCTTATGTTCAAAATGAA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 TGATGTGGCTCTAAAAGACCGGACGTTTCGCGTCCTTTGGAGCGGGTAGTGCGGTAGTAAAAATTTACACTAGCC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s1_075/2 GGCTAGTGTAAATTTTTACTACCGCACTACCCGCTCCAAAGGACGCGAAACGTCCGGTCTTTTAGAGCCACATCA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; your_output.sample_1.settings000066400000000000000000000051121313314234200367430ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/interleaved/outputAdapterRemoval ver. 2.1.7 Trimming of double-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1* TGTAACGC CTCCTTAG sample_2 GGGGACTC GTATATGC [Adapter sequences] Adapter1[1]: CTAAGGAG_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: GCGTTACA_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 4 Number of unaligned read pairs: 1 Number of well aligned read pairs: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 4 Number of retained reads: 6 Number of retained nucleotides: 518 Average length of retained reads: 86.3333 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 2 2 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 1 1 0 0 2 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 2 2 0 0 4 your_output.sample_1.singleton.truncated000066400000000000000000000000001313314234200410640ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/interleaved/outputyour_output.sample_2.discarded000066400000000000000000000000461313314234200370270ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/interleaved/output@read_s2_000/1 + @read_s2_000/2 + your_output.sample_2.paired.truncated000066400000000000000000000021761313314234200403470ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/interleaved/output@read_s2_075/1 AAGAATCCGAGGCATAGCGAATCAATGTCACTTTGGTTCTGTCAGAACGACCTGCGAATCAAAACATGCCACGGG + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s2_075/2 CCCGTGGCATGTTTTGATTCGCAGGTCGTTCTGACAGAACCAAAGTGACATTGATTCGCTATGCCTCGGATTCTT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s2_150/1 CATTAGCCCACGCAACGGCTTAGGCGTCGAGGACATTAACAAGGGCGCGAGGGCCTTCACTTACATGGTATCTATCTCATCCAGTGCACGAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/2 CGAACTAGGTAGTCGCTTTACATAGGAGAGGTCGTTATGTATTACGTCACCGCGTTTCGTCGTGCACTGGATGAGATAGATACCATGTAAGT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 ATCTCAAGCTCAAGATTAGCAGAAGGATTGTAGGCCCGGATCCGATAATCGATAAAGCCGTGATGTCAATACGGTCCCGGTCTGTCCAGCTA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/2 AGATGCAGTACTGATTGAGAACTTTCAAATAACCCAAACAAGCGTACCAATGTATACTAGCCCACCGGCCTTCATCATCTAATTAATAGCAA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.settings000066400000000000000000000051121313314234200367440ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/interleaved/outputAdapterRemoval ver. 2.1.7 Trimming of double-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 TGTAACGC CTCCTTAG sample_2* GGGGACTC GTATATGC [Adapter sequences] Adapter1[1]: GCATATAC_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: GAGTCCCC_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 4 Number of unaligned read pairs: 1 Number of well aligned read pairs: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 4 Number of retained reads: 6 Number of retained nucleotides: 518 Average length of retained reads: 86.3333 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 2 2 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 1 1 0 0 2 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 2 2 0 0 4 your_output.sample_2.singleton.truncated000066400000000000000000000000001313314234200410650ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/interleaved/outputyour_output.settings000066400000000000000000000021661313314234200352510ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/interleaved/outputAdapterRemoval ver. 2.1.7 Trimming of double-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 TGTAACGC CTCCTTAG sample_2 GGGGACTC GTATATGC [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Demultiplexing statistics] Name Barcode_1 Barcode_2 Hits Fraction unidentified NA NA 0 0.000 ambiguous NA NA 0 0.000 sample_1 TGTAACGC CTCCTTAG 4 0.500 sample_2 GGGGACTC GTATATGC 4 0.500 * * * 8 1.000 your_output.unidentified.paired000066400000000000000000000000001313314234200373040ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/interleaved/outputadapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/multiple_input/000077500000000000000000000000001313314234200303335ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/multiple_input/barcodes.txt000066400000000000000000000000661313314234200326600ustar00rootroot00000000000000sample_1 CTTGCCCT ACGTTATT sample_2 CGCCGATG TGCACGGG adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/multiple_input/info.json000066400000000000000000000000711313314234200321570ustar00rootroot00000000000000{ "arguments": [], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/multiple_input/input_1a.fastq000066400000000000000000000012211313314234200331070ustar00rootroot00000000000000@read_s2_000/1 CGCCGATGCCCGTGCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 CGCCGATGGCGTAAGTTGACGTCAGCCTGCGAGGTGCCACGCCAGTGGTTGCGCTCACCCGGGGCGTAGTTGCTCCGCGCAATTTCTTGGCAGTTCGATC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 CTTGCCCTGGTTCTACGTTCTCCATCAGGTGGACGAGGGGATCTTGGCCCCCGTTCCTGCATTGGTATAATTAGACAGGATGAAATAACGTAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/multiple_input/input_1b.fastq000066400000000000000000000012211313314234200331100ustar00rootroot00000000000000@read_s1_200/1 CTTGCCCTGTAGTGCAATAAAAGGATCCTCTTGTGGCCGATTGCAGACCAGCCTCGGGGCTAAACTGATAATCGTATGCTATAGACCCTGGTCGACGCCG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 CTTGCCCTCAGATGTCAGCTCATGTGTTGATATACAGCTAACTAAGGCCCGGGGGTTTAGGCTCAACCCTCTACCTGGTATACCGGCCCAACGCACTCGC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 CGCCGATGTCTTGGGAACGAGAGTGCCACCAATTAAAGTGATGGATATCGAGACGTCCCAAACCACCGCAATAGGACGGGACACCCGTGCAAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/multiple_input/input_1c.fastq000066400000000000000000000006661313314234200331250ustar00rootroot00000000000000@read_s2_150/1 CGCCGATGAGCCCCGAGTGTCCATCACAAGCCACCTCCACTAACCATCTCGGTCCATTATTTGTCACTCGTGGCTAGAAGGGAATAAAGACAACTCTCTC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/1 CTTGCCCTAATAACGTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/multiple_input/input_2a.fastq000066400000000000000000000012211313314234200331100ustar00rootroot00000000000000@read_s2_000/2 TGCACGGGCATCGGCGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/2 TGCACGGGTAAGGGACGAAGTCACCGGGGGCGTTTCACTTGCGCGATCCATTGTAGTACTGGTGTGTCAATCTTCATCGGCAAAAGGTGCCTATCAAAAT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/2 ACGTTATTTCATCCTGTCTAATTATACCAATGCAGGAACGGGGGCCAAGATCCCCTCGTCCACCTGATGGAGAACGTAGAACCAGGGCAAGAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/multiple_input/input_2b.fastq000066400000000000000000000012211313314234200331110ustar00rootroot00000000000000@read_s1_200/2 ACGTTATTAAGGCCCGCCCATCAGGTAAGAGCATGCTCGGGAGCCAACCCCGTGGGGTGGCAGCGATACTCTCCAATCTGTCATGCGTGTCAACGTGCGT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/2 ACGTTATTGTGCTGCGTGAGTTGGAAGGATTGGATCCGGAAAGGCTTGGCCTTTGTAAATTCGACTGCGAGTGCGTTGGGCCGGTATACCAGGTAGAGGG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/2 TGCACGGGTGTCCCGTCCTATTGCGGTGGTTTGGGACGTCTCGATATCCATCACTTTAATTGGTGGCACTCTCGTTCCCAAGACATCGGCGAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/multiple_input/input_2c.fastq000066400000000000000000000006661313314234200331260ustar00rootroot00000000000000@read_s2_150/2 TGCACGGGAAGGCTGGGTATACGGGGTAAATGGTGCCGCCTTGTTACACGCGCCGAGGTTTCAGATGAGAGAGTTGTCTTTATTCCCTTCTAGCCACGAG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/2 ACGTTATTAGGGCAAGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.discarded000066400000000000000000000000461313314234200362360ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/multiple_input@read_s1_000/1 + @read_s1_000/2 + your_output.sample_1.pair1.truncated000066400000000000000000000010771313314234200373250ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/multiple_input@read_s1_075/1 GGTTCTACGTTCTCCATCAGGTGGACGAGGGGATCTTGGCCCCCGTTCCTGCATTGGTATAATTAGACAGGATGA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s1_200/1 GTAGTGCAATAAAAGGATCCTCTTGTGGCCGATTGCAGACCAGCCTCGGGGCTAAACTGATAATCGTATGCTATAGACCCTGGTCGACGCCG + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 CAGATGTCAGCTCATGTGTTGATATACAGCTAACTAAGGCCCGGGGGTTTAGGCTCAACCCTCTACCTGGTATACCGGCCCAACGCACTCGC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.pair2.truncated000066400000000000000000000010771313314234200373260ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/multiple_input@read_s1_075/2 TCATCCTGTCTAATTATACCAATGCAGGAACGGGGGCCAAGATCCCCTCGTCCACCTGATGGAGAACGTAGAACC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s1_200/2 AAGGCCCGCCCATCAGGTAAGAGCATGCTCGGGAGCCAACCCCGTGGGGTGGCAGCGATACTCTCCAATCTGTCATGCGTGTCAACGTGCGT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/2 GTGCTGCGTGAGTTGGAAGGATTGGATCCGGAAAGGCTTGGCCTTTGTAAATTCGACTGCGAGTGCGTTGGGCCGGTATACCAGGTAGAGGG + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.settings000066400000000000000000000051121313314234200361530ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/multiple_inputAdapterRemoval ver. 2.1.7 Trimming of double-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1* CTTGCCCT ACGTTATT sample_2 CGCCGATG TGCACGGG [Adapter sequences] Adapter1[1]: AATAACGT_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGGGCAAG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 4 Number of unaligned read pairs: 1 Number of well aligned read pairs: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 4 Number of retained reads: 6 Number of retained nucleotides: 518 Average length of retained reads: 86.3333 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 2 2 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 1 1 0 0 2 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 2 2 0 0 4 your_output.sample_1.singleton.truncated000066400000000000000000000000001313314234200402740ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/multiple_inputyour_output.sample_2.discarded000066400000000000000000000000461313314234200362370ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/multiple_input@read_s2_000/1 + @read_s2_000/2 + your_output.sample_2.pair1.truncated000066400000000000000000000010771313314234200373260ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/multiple_input@read_s2_200/1 GCGTAAGTTGACGTCAGCCTGCGAGGTGCCACGCCAGTGGTTGCGCTCACCCGGGGCGTAGTTGCTCCGCGCAATTTCTTGGCAGTTCGATC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 TCTTGGGAACGAGAGTGCCACCAATTAAAGTGATGGATATCGAGACGTCCCAAACCACCGCAATAGGACGGGACA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s2_150/1 AGCCCCGAGTGTCCATCACAAGCCACCTCCACTAACCATCTCGGTCCATTATTTGTCACTCGTGGCTAGAAGGGAATAAAGACAACTCTCTC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.pair2.truncated000066400000000000000000000010771313314234200373270ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/multiple_input@read_s2_200/2 TAAGGGACGAAGTCACCGGGGGCGTTTCACTTGCGCGATCCATTGTAGTACTGGTGTGTCAATCTTCATCGGCAAAAGGTGCCTATCAAAAT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/2 TGTCCCGTCCTATTGCGGTGGTTTGGGACGTCTCGATATCCATCACTTTAATTGGTGGCACTCTCGTTCCCAAGA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s2_150/2 AAGGCTGGGTATACGGGGTAAATGGTGCCGCCTTGTTACACGCGCCGAGGTTTCAGATGAGAGAGTTGTCTTTATTCCCTTCTAGCCACGAG + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.settings000066400000000000000000000051121313314234200361540ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/multiple_inputAdapterRemoval ver. 2.1.7 Trimming of double-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 CTTGCCCT ACGTTATT sample_2* CGCCGATG TGCACGGG [Adapter sequences] Adapter1[1]: CCCGTGCA_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: CATCGGCG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 4 Number of unaligned read pairs: 1 Number of well aligned read pairs: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 4 Number of retained reads: 6 Number of retained nucleotides: 518 Average length of retained reads: 86.3333 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 2 2 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 1 1 0 0 2 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 2 2 0 0 4 your_output.sample_2.singleton.truncated000066400000000000000000000000001313314234200402750ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/multiple_inputadapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/multiple_input/your_output.settings000066400000000000000000000021661313314234200345400ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of double-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 CTTGCCCT ACGTTATT sample_2 CGCCGATG TGCACGGG [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Demultiplexing statistics] Name Barcode_1 Barcode_2 Hits Fraction unidentified NA NA 0 0.000 ambiguous NA NA 0 0.000 sample_1 CTTGCCCT ACGTTATT 4 0.500 sample_2 CGCCGATG TGCACGGG 4 0.500 * * * 8 1.000 your_output.unidentified_1000066400000000000000000000000001313314234200354710ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/multiple_inputyour_output.unidentified_2000066400000000000000000000000001313314234200354720ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/multiple_inputadapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/000077500000000000000000000000001313314234200267135ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/one/000077500000000000000000000000001313314234200274745ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/one/barcodes.txt000066400000000000000000000000661313314234200320210ustar00rootroot00000000000000sample_1 CTTGCCCT ACGTTATT sample_2 CGCCGATG TGCACGGG adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/one/info.json000066400000000000000000000001111313314234200313130ustar00rootroot00000000000000{ "arguments": ["--threads", "1"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/one/input_1.fastq000066400000000000000000000033301313314234200321120ustar00rootroot00000000000000@read_s2_000/1 CGCCGATGCCCGTGCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 CGCCGATGGCGTAAGTTGACGTCAGCCTGCGAGGTGCCACGCCAGTGGTTGCGCTCACCCGGGGCGTAGTTGCTCCGCGCAATTTCTTGGCAGTTCGATC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 CTTGCCCTGGTTCTACGTTCTCCATCAGGTGGACGAGGGGATCTTGGCCCCCGTTCCTGCATTGGTATAATTAGACAGGATGAAATAACGTAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 CTTGCCCTGTAGTGCAATAAAAGGATCCTCTTGTGGCCGATTGCAGACCAGCCTCGGGGCTAAACTGATAATCGTATGCTATAGACCCTGGTCGACGCCG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 CTTGCCCTCAGATGTCAGCTCATGTGTTGATATACAGCTAACTAAGGCCCGGGGGTTTAGGCTCAACCCTCTACCTGGTATACCGGCCCAACGCACTCGC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 CGCCGATGTCTTGGGAACGAGAGTGCCACCAATTAAAGTGATGGATATCGAGACGTCCCAAACCACCGCAATAGGACGGGACACCCGTGCAAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 CGCCGATGAGCCCCGAGTGTCCATCACAAGCCACCTCCACTAACCATCTCGGTCCATTATTTGTCACTCGTGGCTAGAAGGGAATAAAGACAACTCTCTC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/1 CTTGCCCTAATAACGTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/one/input_2.fastq000066400000000000000000000033301313314234200321130ustar00rootroot00000000000000@read_s2_000/2 TGCACGGGCATCGGCGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/2 TGCACGGGTAAGGGACGAAGTCACCGGGGGCGTTTCACTTGCGCGATCCATTGTAGTACTGGTGTGTCAATCTTCATCGGCAAAAGGTGCCTATCAAAAT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/2 ACGTTATTTCATCCTGTCTAATTATACCAATGCAGGAACGGGGGCCAAGATCCCCTCGTCCACCTGATGGAGAACGTAGAACCAGGGCAAGAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/2 ACGTTATTAAGGCCCGCCCATCAGGTAAGAGCATGCTCGGGAGCCAACCCCGTGGGGTGGCAGCGATACTCTCCAATCTGTCATGCGTGTCAACGTGCGT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/2 ACGTTATTGTGCTGCGTGAGTTGGAAGGATTGGATCCGGAAAGGCTTGGCCTTTGTAAATTCGACTGCGAGTGCGTTGGGCCGGTATACCAGGTAGAGGG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/2 TGCACGGGTGTCCCGTCCTATTGCGGTGGTTTGGGACGTCTCGATATCCATCACTTTAATTGGTGGCACTCTCGTTCCCAAGACATCGGCGAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/2 TGCACGGGAAGGCTGGGTATACGGGGTAAATGGTGCCGCCTTGTTACACGCGCCGAGGTTTCAGATGAGAGAGTTGTCTTTATTCCCTTCTAGCCACGAG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/2 ACGTTATTAGGGCAAGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.discarded000066400000000000000000000000461313314234200353770ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/one@read_s1_000/1 + @read_s1_000/2 + your_output.sample_1.pair1.truncated000066400000000000000000000010771313314234200364660ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/one@read_s1_075/1 GGTTCTACGTTCTCCATCAGGTGGACGAGGGGATCTTGGCCCCCGTTCCTGCATTGGTATAATTAGACAGGATGA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s1_200/1 GTAGTGCAATAAAAGGATCCTCTTGTGGCCGATTGCAGACCAGCCTCGGGGCTAAACTGATAATCGTATGCTATAGACCCTGGTCGACGCCG + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 CAGATGTCAGCTCATGTGTTGATATACAGCTAACTAAGGCCCGGGGGTTTAGGCTCAACCCTCTACCTGGTATACCGGCCCAACGCACTCGC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.pair2.truncated000066400000000000000000000010771313314234200364670ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/one@read_s1_075/2 TCATCCTGTCTAATTATACCAATGCAGGAACGGGGGCCAAGATCCCCTCGTCCACCTGATGGAGAACGTAGAACC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s1_200/2 AAGGCCCGCCCATCAGGTAAGAGCATGCTCGGGAGCCAACCCCGTGGGGTGGCAGCGATACTCTCCAATCTGTCATGCGTGTCAACGTGCGT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/2 GTGCTGCGTGAGTTGGAAGGATTGGATCCGGAAAGGCTTGGCCTTTGTAAATTCGACTGCGAGTGCGTTGGGCCGGTATACCAGGTAGAGGG + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.settings000066400000000000000000000051121313314234200353140ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/oneAdapterRemoval ver. 2.1.7 Trimming of double-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1* CTTGCCCT ACGTTATT sample_2 CGCCGATG TGCACGGG [Adapter sequences] Adapter1[1]: AATAACGT_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGGGCAAG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 4 Number of unaligned read pairs: 1 Number of well aligned read pairs: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 4 Number of retained reads: 6 Number of retained nucleotides: 518 Average length of retained reads: 86.3333 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 2 2 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 1 1 0 0 2 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 2 2 0 0 4 your_output.sample_1.singleton.truncated000066400000000000000000000000001313314234200374350ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/oneyour_output.sample_2.discarded000066400000000000000000000000461313314234200354000ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/one@read_s2_000/1 + @read_s2_000/2 + your_output.sample_2.pair1.truncated000066400000000000000000000010771313314234200364670ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/one@read_s2_200/1 GCGTAAGTTGACGTCAGCCTGCGAGGTGCCACGCCAGTGGTTGCGCTCACCCGGGGCGTAGTTGCTCCGCGCAATTTCTTGGCAGTTCGATC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 TCTTGGGAACGAGAGTGCCACCAATTAAAGTGATGGATATCGAGACGTCCCAAACCACCGCAATAGGACGGGACA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s2_150/1 AGCCCCGAGTGTCCATCACAAGCCACCTCCACTAACCATCTCGGTCCATTATTTGTCACTCGTGGCTAGAAGGGAATAAAGACAACTCTCTC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.pair2.truncated000066400000000000000000000010771313314234200364700ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/one@read_s2_200/2 TAAGGGACGAAGTCACCGGGGGCGTTTCACTTGCGCGATCCATTGTAGTACTGGTGTGTCAATCTTCATCGGCAAAAGGTGCCTATCAAAAT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/2 TGTCCCGTCCTATTGCGGTGGTTTGGGACGTCTCGATATCCATCACTTTAATTGGTGGCACTCTCGTTCCCAAGA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s2_150/2 AAGGCTGGGTATACGGGGTAAATGGTGCCGCCTTGTTACACGCGCCGAGGTTTCAGATGAGAGAGTTGTCTTTATTCCCTTCTAGCCACGAG + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.settings000066400000000000000000000051121313314234200353150ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/oneAdapterRemoval ver. 2.1.7 Trimming of double-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 CTTGCCCT ACGTTATT sample_2* CGCCGATG TGCACGGG [Adapter sequences] Adapter1[1]: CCCGTGCA_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: CATCGGCG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 4 Number of unaligned read pairs: 1 Number of well aligned read pairs: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 4 Number of retained reads: 6 Number of retained nucleotides: 518 Average length of retained reads: 86.3333 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 2 2 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 1 1 0 0 2 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 2 2 0 0 4 your_output.sample_2.singleton.truncated000066400000000000000000000000001313314234200374360ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/oneadapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/one/your_output.settings000066400000000000000000000021661313314234200337010ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of double-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 CTTGCCCT ACGTTATT sample_2 CGCCGATG TGCACGGG [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Demultiplexing statistics] Name Barcode_1 Barcode_2 Hits Fraction unidentified NA NA 0 0.000 ambiguous NA NA 0 0.000 sample_1 CTTGCCCT ACGTTATT 4 0.500 sample_2 CGCCGATG TGCACGGG 4 0.500 * * * 8 1.000 your_output.unidentified_1000066400000000000000000000000001313314234200346320ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/oneyour_output.unidentified_2000066400000000000000000000000001313314234200346330ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/oneadapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/three/000077500000000000000000000000001313314234200300225ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/three/barcodes.txt000066400000000000000000000000661313314234200323470ustar00rootroot00000000000000sample_1 CTTGCCCT ACGTTATT sample_2 CGCCGATG TGCACGGG adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/three/info.json000066400000000000000000000001111313314234200316410ustar00rootroot00000000000000{ "arguments": ["--threads", "3"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/three/input_1.fastq000066400000000000000000000033301313314234200324400ustar00rootroot00000000000000@read_s2_000/1 CGCCGATGCCCGTGCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 CGCCGATGGCGTAAGTTGACGTCAGCCTGCGAGGTGCCACGCCAGTGGTTGCGCTCACCCGGGGCGTAGTTGCTCCGCGCAATTTCTTGGCAGTTCGATC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 CTTGCCCTGGTTCTACGTTCTCCATCAGGTGGACGAGGGGATCTTGGCCCCCGTTCCTGCATTGGTATAATTAGACAGGATGAAATAACGTAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 CTTGCCCTGTAGTGCAATAAAAGGATCCTCTTGTGGCCGATTGCAGACCAGCCTCGGGGCTAAACTGATAATCGTATGCTATAGACCCTGGTCGACGCCG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 CTTGCCCTCAGATGTCAGCTCATGTGTTGATATACAGCTAACTAAGGCCCGGGGGTTTAGGCTCAACCCTCTACCTGGTATACCGGCCCAACGCACTCGC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 CGCCGATGTCTTGGGAACGAGAGTGCCACCAATTAAAGTGATGGATATCGAGACGTCCCAAACCACCGCAATAGGACGGGACACCCGTGCAAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 CGCCGATGAGCCCCGAGTGTCCATCACAAGCCACCTCCACTAACCATCTCGGTCCATTATTTGTCACTCGTGGCTAGAAGGGAATAAAGACAACTCTCTC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/1 CTTGCCCTAATAACGTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/three/input_2.fastq000066400000000000000000000033301313314234200324410ustar00rootroot00000000000000@read_s2_000/2 TGCACGGGCATCGGCGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/2 TGCACGGGTAAGGGACGAAGTCACCGGGGGCGTTTCACTTGCGCGATCCATTGTAGTACTGGTGTGTCAATCTTCATCGGCAAAAGGTGCCTATCAAAAT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/2 ACGTTATTTCATCCTGTCTAATTATACCAATGCAGGAACGGGGGCCAAGATCCCCTCGTCCACCTGATGGAGAACGTAGAACCAGGGCAAGAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/2 ACGTTATTAAGGCCCGCCCATCAGGTAAGAGCATGCTCGGGAGCCAACCCCGTGGGGTGGCAGCGATACTCTCCAATCTGTCATGCGTGTCAACGTGCGT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/2 ACGTTATTGTGCTGCGTGAGTTGGAAGGATTGGATCCGGAAAGGCTTGGCCTTTGTAAATTCGACTGCGAGTGCGTTGGGCCGGTATACCAGGTAGAGGG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/2 TGCACGGGTGTCCCGTCCTATTGCGGTGGTTTGGGACGTCTCGATATCCATCACTTTAATTGGTGGCACTCTCGTTCCCAAGACATCGGCGAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/2 TGCACGGGAAGGCTGGGTATACGGGGTAAATGGTGCCGCCTTGTTACACGCGCCGAGGTTTCAGATGAGAGAGTTGTCTTTATTCCCTTCTAGCCACGAG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/2 ACGTTATTAGGGCAAGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.discarded000066400000000000000000000000461313314234200357250ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/three@read_s1_000/1 + @read_s1_000/2 + your_output.sample_1.pair1.truncated000066400000000000000000000010771313314234200370140ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/three@read_s1_075/1 GGTTCTACGTTCTCCATCAGGTGGACGAGGGGATCTTGGCCCCCGTTCCTGCATTGGTATAATTAGACAGGATGA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s1_200/1 GTAGTGCAATAAAAGGATCCTCTTGTGGCCGATTGCAGACCAGCCTCGGGGCTAAACTGATAATCGTATGCTATAGACCCTGGTCGACGCCG + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 CAGATGTCAGCTCATGTGTTGATATACAGCTAACTAAGGCCCGGGGGTTTAGGCTCAACCCTCTACCTGGTATACCGGCCCAACGCACTCGC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.pair2.truncated000066400000000000000000000010771313314234200370150ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/three@read_s1_075/2 TCATCCTGTCTAATTATACCAATGCAGGAACGGGGGCCAAGATCCCCTCGTCCACCTGATGGAGAACGTAGAACC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s1_200/2 AAGGCCCGCCCATCAGGTAAGAGCATGCTCGGGAGCCAACCCCGTGGGGTGGCAGCGATACTCTCCAATCTGTCATGCGTGTCAACGTGCGT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/2 GTGCTGCGTGAGTTGGAAGGATTGGATCCGGAAAGGCTTGGCCTTTGTAAATTCGACTGCGAGTGCGTTGGGCCGGTATACCAGGTAGAGGG + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.settings000066400000000000000000000051121313314234200356420ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/threeAdapterRemoval ver. 2.1.7 Trimming of double-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1* CTTGCCCT ACGTTATT sample_2 CGCCGATG TGCACGGG [Adapter sequences] Adapter1[1]: AATAACGT_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGGGCAAG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 4 Number of unaligned read pairs: 1 Number of well aligned read pairs: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 4 Number of retained reads: 6 Number of retained nucleotides: 518 Average length of retained reads: 86.3333 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 2 2 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 1 1 0 0 2 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 2 2 0 0 4 your_output.sample_1.singleton.truncated000066400000000000000000000000001313314234200377630ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/threeyour_output.sample_2.discarded000066400000000000000000000000461313314234200357260ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/three@read_s2_000/1 + @read_s2_000/2 + your_output.sample_2.pair1.truncated000066400000000000000000000010771313314234200370150ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/three@read_s2_200/1 GCGTAAGTTGACGTCAGCCTGCGAGGTGCCACGCCAGTGGTTGCGCTCACCCGGGGCGTAGTTGCTCCGCGCAATTTCTTGGCAGTTCGATC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 TCTTGGGAACGAGAGTGCCACCAATTAAAGTGATGGATATCGAGACGTCCCAAACCACCGCAATAGGACGGGACA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s2_150/1 AGCCCCGAGTGTCCATCACAAGCCACCTCCACTAACCATCTCGGTCCATTATTTGTCACTCGTGGCTAGAAGGGAATAAAGACAACTCTCTC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.pair2.truncated000066400000000000000000000010771313314234200370160ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/three@read_s2_200/2 TAAGGGACGAAGTCACCGGGGGCGTTTCACTTGCGCGATCCATTGTAGTACTGGTGTGTCAATCTTCATCGGCAAAAGGTGCCTATCAAAAT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/2 TGTCCCGTCCTATTGCGGTGGTTTGGGACGTCTCGATATCCATCACTTTAATTGGTGGCACTCTCGTTCCCAAGA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s2_150/2 AAGGCTGGGTATACGGGGTAAATGGTGCCGCCTTGTTACACGCGCCGAGGTTTCAGATGAGAGAGTTGTCTTTATTCCCTTCTAGCCACGAG + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.settings000066400000000000000000000051121313314234200356430ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/threeAdapterRemoval ver. 2.1.7 Trimming of double-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 CTTGCCCT ACGTTATT sample_2* CGCCGATG TGCACGGG [Adapter sequences] Adapter1[1]: CCCGTGCA_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: CATCGGCG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 4 Number of unaligned read pairs: 1 Number of well aligned read pairs: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 4 Number of retained reads: 6 Number of retained nucleotides: 518 Average length of retained reads: 86.3333 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 2 2 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 1 1 0 0 2 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 2 2 0 0 4 your_output.sample_2.singleton.truncated000066400000000000000000000000001313314234200377640ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/threeadapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/three/your_output.settings000066400000000000000000000021661313314234200342270ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of double-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 CTTGCCCT ACGTTATT sample_2 CGCCGATG TGCACGGG [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Demultiplexing statistics] Name Barcode_1 Barcode_2 Hits Fraction unidentified NA NA 0 0.000 ambiguous NA NA 0 0.000 sample_1 CTTGCCCT ACGTTATT 4 0.500 sample_2 CGCCGATG TGCACGGG 4 0.500 * * * 8 1.000 your_output.unidentified_1000066400000000000000000000000001313314234200351600ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/threeyour_output.unidentified_2000066400000000000000000000000001313314234200351610ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/threeadapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/two/000077500000000000000000000000001313314234200275245ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/two/barcodes.txt000066400000000000000000000000661313314234200320510ustar00rootroot00000000000000sample_1 CTTGCCCT ACGTTATT sample_2 CGCCGATG TGCACGGG adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/two/info.json000066400000000000000000000001111313314234200313430ustar00rootroot00000000000000{ "arguments": ["--threads", "2"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/two/input_1.fastq000066400000000000000000000033301313314234200321420ustar00rootroot00000000000000@read_s2_000/1 CGCCGATGCCCGTGCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 CGCCGATGGCGTAAGTTGACGTCAGCCTGCGAGGTGCCACGCCAGTGGTTGCGCTCACCCGGGGCGTAGTTGCTCCGCGCAATTTCTTGGCAGTTCGATC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 CTTGCCCTGGTTCTACGTTCTCCATCAGGTGGACGAGGGGATCTTGGCCCCCGTTCCTGCATTGGTATAATTAGACAGGATGAAATAACGTAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 CTTGCCCTGTAGTGCAATAAAAGGATCCTCTTGTGGCCGATTGCAGACCAGCCTCGGGGCTAAACTGATAATCGTATGCTATAGACCCTGGTCGACGCCG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 CTTGCCCTCAGATGTCAGCTCATGTGTTGATATACAGCTAACTAAGGCCCGGGGGTTTAGGCTCAACCCTCTACCTGGTATACCGGCCCAACGCACTCGC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 CGCCGATGTCTTGGGAACGAGAGTGCCACCAATTAAAGTGATGGATATCGAGACGTCCCAAACCACCGCAATAGGACGGGACACCCGTGCAAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 CGCCGATGAGCCCCGAGTGTCCATCACAAGCCACCTCCACTAACCATCTCGGTCCATTATTTGTCACTCGTGGCTAGAAGGGAATAAAGACAACTCTCTC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/1 CTTGCCCTAATAACGTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/two/input_2.fastq000066400000000000000000000033301313314234200321430ustar00rootroot00000000000000@read_s2_000/2 TGCACGGGCATCGGCGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/2 TGCACGGGTAAGGGACGAAGTCACCGGGGGCGTTTCACTTGCGCGATCCATTGTAGTACTGGTGTGTCAATCTTCATCGGCAAAAGGTGCCTATCAAAAT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/2 ACGTTATTTCATCCTGTCTAATTATACCAATGCAGGAACGGGGGCCAAGATCCCCTCGTCCACCTGATGGAGAACGTAGAACCAGGGCAAGAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/2 ACGTTATTAAGGCCCGCCCATCAGGTAAGAGCATGCTCGGGAGCCAACCCCGTGGGGTGGCAGCGATACTCTCCAATCTGTCATGCGTGTCAACGTGCGT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/2 ACGTTATTGTGCTGCGTGAGTTGGAAGGATTGGATCCGGAAAGGCTTGGCCTTTGTAAATTCGACTGCGAGTGCGTTGGGCCGGTATACCAGGTAGAGGG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/2 TGCACGGGTGTCCCGTCCTATTGCGGTGGTTTGGGACGTCTCGATATCCATCACTTTAATTGGTGGCACTCTCGTTCCCAAGACATCGGCGAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/2 TGCACGGGAAGGCTGGGTATACGGGGTAAATGGTGCCGCCTTGTTACACGCGCCGAGGTTTCAGATGAGAGAGTTGTCTTTATTCCCTTCTAGCCACGAG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/2 ACGTTATTAGGGCAAGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.discarded000066400000000000000000000000461313314234200354270ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/two@read_s1_000/1 + @read_s1_000/2 + your_output.sample_1.pair1.truncated000066400000000000000000000010771313314234200365160ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/two@read_s1_075/1 GGTTCTACGTTCTCCATCAGGTGGACGAGGGGATCTTGGCCCCCGTTCCTGCATTGGTATAATTAGACAGGATGA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s1_200/1 GTAGTGCAATAAAAGGATCCTCTTGTGGCCGATTGCAGACCAGCCTCGGGGCTAAACTGATAATCGTATGCTATAGACCCTGGTCGACGCCG + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 CAGATGTCAGCTCATGTGTTGATATACAGCTAACTAAGGCCCGGGGGTTTAGGCTCAACCCTCTACCTGGTATACCGGCCCAACGCACTCGC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.pair2.truncated000066400000000000000000000010771313314234200365170ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/two@read_s1_075/2 TCATCCTGTCTAATTATACCAATGCAGGAACGGGGGCCAAGATCCCCTCGTCCACCTGATGGAGAACGTAGAACC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s1_200/2 AAGGCCCGCCCATCAGGTAAGAGCATGCTCGGGAGCCAACCCCGTGGGGTGGCAGCGATACTCTCCAATCTGTCATGCGTGTCAACGTGCGT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/2 GTGCTGCGTGAGTTGGAAGGATTGGATCCGGAAAGGCTTGGCCTTTGTAAATTCGACTGCGAGTGCGTTGGGCCGGTATACCAGGTAGAGGG + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.settings000066400000000000000000000051121313314234200353440ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/twoAdapterRemoval ver. 2.1.7 Trimming of double-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1* CTTGCCCT ACGTTATT sample_2 CGCCGATG TGCACGGG [Adapter sequences] Adapter1[1]: AATAACGT_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGGGCAAG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 4 Number of unaligned read pairs: 1 Number of well aligned read pairs: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 4 Number of retained reads: 6 Number of retained nucleotides: 518 Average length of retained reads: 86.3333 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 2 2 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 1 1 0 0 2 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 2 2 0 0 4 your_output.sample_1.singleton.truncated000066400000000000000000000000001313314234200374650ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/twoyour_output.sample_2.discarded000066400000000000000000000000461313314234200354300ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/two@read_s2_000/1 + @read_s2_000/2 + your_output.sample_2.pair1.truncated000066400000000000000000000010771313314234200365170ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/two@read_s2_200/1 GCGTAAGTTGACGTCAGCCTGCGAGGTGCCACGCCAGTGGTTGCGCTCACCCGGGGCGTAGTTGCTCCGCGCAATTTCTTGGCAGTTCGATC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 TCTTGGGAACGAGAGTGCCACCAATTAAAGTGATGGATATCGAGACGTCCCAAACCACCGCAATAGGACGGGACA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s2_150/1 AGCCCCGAGTGTCCATCACAAGCCACCTCCACTAACCATCTCGGTCCATTATTTGTCACTCGTGGCTAGAAGGGAATAAAGACAACTCTCTC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.pair2.truncated000066400000000000000000000010771313314234200365200ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/two@read_s2_200/2 TAAGGGACGAAGTCACCGGGGGCGTTTCACTTGCGCGATCCATTGTAGTACTGGTGTGTCAATCTTCATCGGCAAAAGGTGCCTATCAAAAT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/2 TGTCCCGTCCTATTGCGGTGGTTTGGGACGTCTCGATATCCATCACTTTAATTGGTGGCACTCTCGTTCCCAAGA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s2_150/2 AAGGCTGGGTATACGGGGTAAATGGTGCCGCCTTGTTACACGCGCCGAGGTTTCAGATGAGAGAGTTGTCTTTATTCCCTTCTAGCCACGAG + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.settings000066400000000000000000000051121313314234200353450ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/twoAdapterRemoval ver. 2.1.7 Trimming of double-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 CTTGCCCT ACGTTATT sample_2* CGCCGATG TGCACGGG [Adapter sequences] Adapter1[1]: CCCGTGCA_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: CATCGGCG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 4 Number of unaligned read pairs: 1 Number of well aligned read pairs: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 4 Number of retained reads: 6 Number of retained nucleotides: 518 Average length of retained reads: 86.3333 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 2 2 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 1 1 0 0 2 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 2 2 0 0 4 your_output.sample_2.singleton.truncated000066400000000000000000000000001313314234200374660ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/twoadapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/two/your_output.settings000066400000000000000000000021661313314234200337310ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of double-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 CTTGCCCT ACGTTATT sample_2 CGCCGATG TGCACGGG [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Demultiplexing statistics] Name Barcode_1 Barcode_2 Hits Fraction unidentified NA NA 0 0.000 ambiguous NA NA 0 0.000 sample_1 CTTGCCCT ACGTTATT 4 0.500 sample_2 CGCCGATG TGCACGGG 4 0.500 * * * 8 1.000 your_output.unidentified_1000066400000000000000000000000001313314234200346620ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/twoyour_output.unidentified_2000066400000000000000000000000001313314234200346630ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/pe/threads/twoadapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/000077500000000000000000000000001313314234200252645ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/collapse/000077500000000000000000000000001313314234200270665ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/collapse/barcodes.txt000066400000000000000000000000661313314234200314130ustar00rootroot00000000000000sample_1 CTTGCCCT ACGTTATT sample_2 CGCCGATG TGCACGGG adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/collapse/info.json000066400000000000000000000001051313314234200307100ustar00rootroot00000000000000{ "arguments": ["--collapse"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/collapse/input_1.fastq000066400000000000000000000033301313314234200315040ustar00rootroot00000000000000@read_s2_000/1 CGCCGATGCCCGTGCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 CGCCGATGGCGTAAGTTGACGTCAGCCTGCGAGGTGCCACGCCAGTGGTTGCGCTCACCCGGGGCGTAGTTGCTCCGCGCAATTTCTTGGCAGTTCGATC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 CTTGCCCTGGTTCTACGTTCTCCATCAGGTGGACGAGGGGATCTTGGCCCCCGTTCCTGCATTGGTATAATTAGACAGGATGAAATAACGTAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 CTTGCCCTGTAGTGCAATAAAAGGATCCTCTTGTGGCCGATTGCAGACCAGCCTCGGGGCTAAACTGATAATCGTATGCTATAGACCCTGGTCGACGCCG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 CTTGCCCTCAGATGTCAGCTCATGTGTTGATATACAGCTAACTAAGGCCCGGGGGTTTAGGCTCAACCCTCTACCTGGTATACCGGCCCAACGCACTCGC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 CGCCGATGTCTTGGGAACGAGAGTGCCACCAATTAAAGTGATGGATATCGAGACGTCCCAAACCACCGCAATAGGACGGGACACCCGTGCAAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 CGCCGATGAGCCCCGAGTGTCCATCACAAGCCACCTCCACTAACCATCTCGGTCCATTATTTGTCACTCGTGGCTAGAAGGGAATAAAGACAACTCTCTC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/1 CTTGCCCTAATAACGTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.collapsed000066400000000000000000000002531313314234200350150ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/collapse@M_read_s1_075/1 GGTTCTACGTTCTCCATCAGGTGGACGAGGGGATCTTGGCCCCCGTTCCTGCATTGGTATAATTAGACAGGATGA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; your_output.sample_1.collapsed.truncated000066400000000000000000000000001313314234200367730ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/collapseyour_output.sample_1.discarded000066400000000000000000000000251313314234200347660ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/collapse@M_read_s1_000/1 + your_output.sample_1.settings000066400000000000000000000050611313314234200347110ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/collapseAdapterRemoval ver. 2.2.0 Trimming of double-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1* CTTGCCCT ACGTTATT sample_2 CGCCGATG TGCACGGG [Adapter sequences] Adapter1[1]: AATAACGT_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGGGCAAG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 935224950 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: Yes Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 4 Number of unaligned reads: 2 Number of well aligned reads: 2 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 2 Number of reads with adapters[1]: 2 Number of full-length collapsed pairs: 1 Number of truncated collapsed pairs: 0 Number of retained reads: 3 Number of retained nucleotides: 259 Average length of retained reads: 86.3333 [Length distribution] Length Mate1 Collapsed CollapsedTruncated Discarded All 0 0 0 0 1 1 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 1 0 0 1 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 2 0 0 0 2 your_output.sample_1.truncated000066400000000000000000000006261313314234200350440ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/collapse@read_s1_200/1 GTAGTGCAATAAAAGGATCCTCTTGTGGCCGATTGCAGACCAGCCTCGGGGCTAAACTGATAATCGTATGCTATAGACCCTGGTCGACGCCG + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 CAGATGTCAGCTCATGTGTTGATATACAGCTAACTAAGGCCCGGGGGTTTAGGCTCAACCCTCTACCTGGTATACCGGCCCAACGCACTCGC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.collapsed000066400000000000000000000002531313314234200350160ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/collapse@M_read_s2_075/1 TCTTGGGAACGAGAGTGCCACCAATTAAAGTGATGGATATCGAGACGTCCCAAACCACCGCAATAGGACGGGACA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; your_output.sample_2.collapsed.truncated000066400000000000000000000000001313314234200367740ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/collapseyour_output.sample_2.discarded000066400000000000000000000000251313314234200347670ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/collapse@M_read_s2_000/1 + your_output.sample_2.settings000066400000000000000000000050541313314234200347140ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/collapseAdapterRemoval ver. 2.2.0 Trimming of double-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 CTTGCCCT ACGTTATT sample_2* CGCCGATG TGCACGGG [Adapter sequences] Adapter1[1]: CCCGTGCA_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: CATCGGCG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 935224950 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: Yes Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 4 Number of unaligned reads: 1 Number of well aligned reads: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 2 Number of reads with adapters[1]: 3 Number of full-length collapsed pairs: 1 Number of truncated collapsed pairs: 0 Number of retained reads: 3 Number of retained nucleotides: 258 Average length of retained reads: 86 [Length distribution] Length Mate1 Collapsed CollapsedTruncated Discarded All 0 0 0 0 1 1 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 1 0 0 1 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 1 0 0 0 1 92 1 0 0 0 1 your_output.sample_2.truncated000066400000000000000000000006241313314234200350430ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/collapse@read_s2_200/1 GCGTAAGTTGACGTCAGCCTGCGAGGTGCCACGCCAGTGGTTGCGCTCACCCGGGGCGTAGTTGCTCCGCGCAATTTCTTGGCAGTTCGAT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::998876654321 @read_s2_150/1 AGCCCCGAGTGTCCATCACAAGCCACCTCCACTAACCATCTCGGTCCATTATTTGTCACTCGTGGCTAGAAGGGAATAAAGACAACTCTCTC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/collapse/your_output.settings000066400000000000000000000021301313314234200332620ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of double-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 CTTGCCCT ACGTTATT sample_2 CGCCGATG TGCACGGG [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: Yes Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Demultiplexing statistics] Name Barcode_1 Barcode_2 Hits Fraction unidentified NA NA 0 0.000 ambiguous NA NA 0 0.000 sample_1 CTTGCCCT ACGTTATT 4 0.500 sample_2 CGCCGATG TGCACGGG 4 0.500 * * * 8 1.000 adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/collapse/your_output.unidentified000066400000000000000000000000001313314234200340630ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/combined_output/000077500000000000000000000000001313314234200304645ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/combined_output/barcodes.txt000066400000000000000000000000661313314234200330110ustar00rootroot00000000000000sample_1 CTTGCCCT ACGTTATT sample_2 CGCCGATG TGCACGGG adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/combined_output/info.json000066400000000000000000000001141313314234200323060ustar00rootroot00000000000000{ "arguments": ["--combined-output"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/combined_output/input_1.fastq000066400000000000000000000033301313314234200331020ustar00rootroot00000000000000@read_s2_000/1 CGCCGATGCCCGTGCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 CGCCGATGGCGTAAGTTGACGTCAGCCTGCGAGGTGCCACGCCAGTGGTTGCGCTCACCCGGGGCGTAGTTGCTCCGCGCAATTTCTTGGCAGTTCGATC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 CTTGCCCTGGTTCTACGTTCTCCATCAGGTGGACGAGGGGATCTTGGCCCCCGTTCCTGCATTGGTATAATTAGACAGGATGAAATAACGTAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 CTTGCCCTGTAGTGCAATAAAAGGATCCTCTTGTGGCCGATTGCAGACCAGCCTCGGGGCTAAACTGATAATCGTATGCTATAGACCCTGGTCGACGCCG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 CTTGCCCTCAGATGTCAGCTCATGTGTTGATATACAGCTAACTAAGGCCCGGGGGTTTAGGCTCAACCCTCTACCTGGTATACCGGCCCAACGCACTCGC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 CGCCGATGTCTTGGGAACGAGAGTGCCACCAATTAAAGTGATGGATATCGAGACGTCCCAAACCACCGCAATAGGACGGGACACCCGTGCAAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 CGCCGATGAGCCCCGAGTGTCCATCACAAGCCACCTCCACTAACCATCTCGGTCCATTATTTGTCACTCGTGGCTAGAAGGGAATAAAGACAACTCTCTC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/1 CTTGCCCTAATAACGTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.settings000066400000000000000000000041201313314234200363020ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/combined_outputAdapterRemoval ver. 2.2.0 Trimming of double-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1* CTTGCCCT ACGTTATT sample_2 CGCCGATG TGCACGGG [Adapter sequences] Adapter1[1]: AATAACGT_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGGGCAAG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 4115144913 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 4 Number of unaligned reads: 2 Number of well aligned reads: 2 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 3 Number of reads with adapters[1]: 2 Number of retained reads: 3 Number of retained nucleotides: 259 Average length of retained reads: 86.3333 [Length distribution] Length Mate1 Discarded All 0 0 1 1 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 0 0 0 51 0 0 0 52 0 0 0 53 0 0 0 54 0 0 0 55 0 0 0 56 0 0 0 57 0 0 0 58 0 0 0 59 0 0 0 60 0 0 0 61 0 0 0 62 0 0 0 63 0 0 0 64 0 0 0 65 0 0 0 66 0 0 0 67 0 0 0 68 0 0 0 69 0 0 0 70 0 0 0 71 0 0 0 72 0 0 0 73 0 0 0 74 0 0 0 75 1 0 1 76 0 0 0 77 0 0 0 78 0 0 0 79 0 0 0 80 0 0 0 81 0 0 0 82 0 0 0 83 0 0 0 84 0 0 0 85 0 0 0 86 0 0 0 87 0 0 0 88 0 0 0 89 0 0 0 90 0 0 0 91 0 0 0 92 2 0 2 your_output.sample_1.truncated000066400000000000000000000011241313314234200364340ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/combined_output@read_s1_075/1 GGTTCTACGTTCTCCATCAGGTGGACGAGGGGATCTTGGCCCCCGTTCCTGCATTGGTATAATTAGACAGGATGA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s1_200/1 GTAGTGCAATAAAAGGATCCTCTTGTGGCCGATTGCAGACCAGCCTCGGGGCTAAACTGATAATCGTATGCTATAGACCCTGGTCGACGCCG + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 CAGATGTCAGCTCATGTGTTGATATACAGCTAACTAAGGCCCGGGGGTTTAGGCTCAACCCTCTACCTGGTATACCGGCCCAACGCACTCGC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/1 N + ! your_output.sample_2.settings000066400000000000000000000041121313314234200363040ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/combined_outputAdapterRemoval ver. 2.2.0 Trimming of double-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 CTTGCCCT ACGTTATT sample_2* CGCCGATG TGCACGGG [Adapter sequences] Adapter1[1]: CCCGTGCA_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: CATCGGCG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 356769071 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 4 Number of unaligned reads: 1 Number of well aligned reads: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 3 Number of reads with adapters[1]: 3 Number of retained reads: 3 Number of retained nucleotides: 258 Average length of retained reads: 86 [Length distribution] Length Mate1 Discarded All 0 0 1 1 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 0 0 0 51 0 0 0 52 0 0 0 53 0 0 0 54 0 0 0 55 0 0 0 56 0 0 0 57 0 0 0 58 0 0 0 59 0 0 0 60 0 0 0 61 0 0 0 62 0 0 0 63 0 0 0 64 0 0 0 65 0 0 0 66 0 0 0 67 0 0 0 68 0 0 0 69 0 0 0 70 0 0 0 71 0 0 0 72 0 0 0 73 0 0 0 74 0 0 0 75 1 0 1 76 0 0 0 77 0 0 0 78 0 0 0 79 0 0 0 80 0 0 0 81 0 0 0 82 0 0 0 83 0 0 0 84 0 0 0 85 0 0 0 86 0 0 0 87 0 0 0 88 0 0 0 89 0 0 0 90 0 0 0 91 1 0 1 92 1 0 1 your_output.sample_2.truncated000066400000000000000000000011221313314234200364330ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/combined_output@read_s2_000/1 N + ! @read_s2_200/1 GCGTAAGTTGACGTCAGCCTGCGAGGTGCCACGCCAGTGGTTGCGCTCACCCGGGGCGTAGTTGCTCCGCGCAATTTCTTGGCAGTTCGAT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::998876654321 @read_s2_075/1 TCTTGGGAACGAGAGTGCCACCAATTAAAGTGATGGATATCGAGACGTCCCAAACCACCGCAATAGGACGGGACA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s2_150/1 AGCCCCGAGTGTCCATCACAAGCCACCTCCACTAACCATCTCGGTCCATTATTTGTCACTCGTGGCTAGAAGGGAATAAAGACAACTCTCTC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.settings000066400000000000000000000021271313314234200346070ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/combined_outputAdapterRemoval ver. 2.1.7 Trimming of double-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 CTTGCCCT ACGTTATT sample_2 CGCCGATG TGCACGGG [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Demultiplexing statistics] Name Barcode_1 Barcode_2 Hits Fraction unidentified NA NA 0 0.000 ambiguous NA NA 0 0.000 sample_1 CTTGCCCT ACGTTATT 4 0.500 sample_2 CGCCGATG TGCACGGG 4 0.500 * * * 8 1.000 your_output.unidentified000066400000000000000000000000001313314234200354020ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/combined_outputadapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/defaults/000077500000000000000000000000001313314234200270735ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/defaults/barcodes.txt000066400000000000000000000000661313314234200314200ustar00rootroot00000000000000sample_1 CTTGCCCT ACGTTATT sample_2 CGCCGATG TGCACGGG adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/defaults/info.json000066400000000000000000000000711313314234200307170ustar00rootroot00000000000000{ "arguments": [], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/defaults/input_1.fastq000066400000000000000000000033301313314234200315110ustar00rootroot00000000000000@read_s2_000/1 CGCCGATGCCCGTGCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 CGCCGATGGCGTAAGTTGACGTCAGCCTGCGAGGTGCCACGCCAGTGGTTGCGCTCACCCGGGGCGTAGTTGCTCCGCGCAATTTCTTGGCAGTTCGATC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 CTTGCCCTGGTTCTACGTTCTCCATCAGGTGGACGAGGGGATCTTGGCCCCCGTTCCTGCATTGGTATAATTAGACAGGATGAAATAACGTAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 CTTGCCCTGTAGTGCAATAAAAGGATCCTCTTGTGGCCGATTGCAGACCAGCCTCGGGGCTAAACTGATAATCGTATGCTATAGACCCTGGTCGACGCCG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 CTTGCCCTCAGATGTCAGCTCATGTGTTGATATACAGCTAACTAAGGCCCGGGGGTTTAGGCTCAACCCTCTACCTGGTATACCGGCCCAACGCACTCGC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 CGCCGATGTCTTGGGAACGAGAGTGCCACCAATTAAAGTGATGGATATCGAGACGTCCCAAACCACCGCAATAGGACGGGACACCCGTGCAAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 CGCCGATGAGCCCCGAGTGTCCATCACAAGCCACCTCCACTAACCATCTCGGTCCATTATTTGTCACTCGTGGCTAGAAGGGAATAAAGACAACTCTCTC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/1 CTTGCCCTAATAACGTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.discarded000066400000000000000000000000231313314234200347710ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/defaults@read_s1_000/1 + your_output.sample_1.settings000066400000000000000000000041201313314234200347110ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/defaultsAdapterRemoval ver. 2.2.0 Trimming of double-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1* CTTGCCCT ACGTTATT sample_2 CGCCGATG TGCACGGG [Adapter sequences] Adapter1[1]: AATAACGT_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGGGCAAG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 4115144913 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 4 Number of unaligned reads: 2 Number of well aligned reads: 2 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 3 Number of reads with adapters[1]: 2 Number of retained reads: 3 Number of retained nucleotides: 259 Average length of retained reads: 86.3333 [Length distribution] Length Mate1 Discarded All 0 0 1 1 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 0 0 0 51 0 0 0 52 0 0 0 53 0 0 0 54 0 0 0 55 0 0 0 56 0 0 0 57 0 0 0 58 0 0 0 59 0 0 0 60 0 0 0 61 0 0 0 62 0 0 0 63 0 0 0 64 0 0 0 65 0 0 0 66 0 0 0 67 0 0 0 68 0 0 0 69 0 0 0 70 0 0 0 71 0 0 0 72 0 0 0 73 0 0 0 74 0 0 0 75 1 0 1 76 0 0 0 77 0 0 0 78 0 0 0 79 0 0 0 80 0 0 0 81 0 0 0 82 0 0 0 83 0 0 0 84 0 0 0 85 0 0 0 86 0 0 0 87 0 0 0 88 0 0 0 89 0 0 0 90 0 0 0 91 0 0 0 92 2 0 2 your_output.sample_1.truncated000066400000000000000000000010771313314234200350520ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/defaults@read_s1_075/1 GGTTCTACGTTCTCCATCAGGTGGACGAGGGGATCTTGGCCCCCGTTCCTGCATTGGTATAATTAGACAGGATGA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s1_200/1 GTAGTGCAATAAAAGGATCCTCTTGTGGCCGATTGCAGACCAGCCTCGGGGCTAAACTGATAATCGTATGCTATAGACCCTGGTCGACGCCG + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 CAGATGTCAGCTCATGTGTTGATATACAGCTAACTAAGGCCCGGGGGTTTAGGCTCAACCCTCTACCTGGTATACCGGCCCAACGCACTCGC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.discarded000066400000000000000000000000231313314234200347720ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/defaults@read_s2_000/1 + your_output.sample_2.settings000066400000000000000000000041121313314234200347130ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/defaultsAdapterRemoval ver. 2.2.0 Trimming of double-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 CTTGCCCT ACGTTATT sample_2* CGCCGATG TGCACGGG [Adapter sequences] Adapter1[1]: CCCGTGCA_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: CATCGGCG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 356769071 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 4 Number of unaligned reads: 1 Number of well aligned reads: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 3 Number of reads with adapters[1]: 3 Number of retained reads: 3 Number of retained nucleotides: 258 Average length of retained reads: 86 [Length distribution] Length Mate1 Discarded All 0 0 1 1 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 0 0 0 51 0 0 0 52 0 0 0 53 0 0 0 54 0 0 0 55 0 0 0 56 0 0 0 57 0 0 0 58 0 0 0 59 0 0 0 60 0 0 0 61 0 0 0 62 0 0 0 63 0 0 0 64 0 0 0 65 0 0 0 66 0 0 0 67 0 0 0 68 0 0 0 69 0 0 0 70 0 0 0 71 0 0 0 72 0 0 0 73 0 0 0 74 0 0 0 75 1 0 1 76 0 0 0 77 0 0 0 78 0 0 0 79 0 0 0 80 0 0 0 81 0 0 0 82 0 0 0 83 0 0 0 84 0 0 0 85 0 0 0 86 0 0 0 87 0 0 0 88 0 0 0 89 0 0 0 90 0 0 0 91 1 0 1 92 1 0 1 your_output.sample_2.truncated000066400000000000000000000010751313314234200350510ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/defaults@read_s2_200/1 GCGTAAGTTGACGTCAGCCTGCGAGGTGCCACGCCAGTGGTTGCGCTCACCCGGGGCGTAGTTGCTCCGCGCAATTTCTTGGCAGTTCGAT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::998876654321 @read_s2_075/1 TCTTGGGAACGAGAGTGCCACCAATTAAAGTGATGGATATCGAGACGTCCCAAACCACCGCAATAGGACGGGACA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s2_150/1 AGCCCCGAGTGTCCATCACAAGCCACCTCCACTAACCATCTCGGTCCATTATTTGTCACTCGTGGCTAGAAGGGAATAAAGACAACTCTCTC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/defaults/your_output.settings000066400000000000000000000021271313314234200332750ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of double-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 CTTGCCCT ACGTTATT sample_2 CGCCGATG TGCACGGG [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Demultiplexing statistics] Name Barcode_1 Barcode_2 Hits Fraction unidentified NA NA 0 0.000 ambiguous NA NA 0 0.000 sample_1 CTTGCCCT ACGTTATT 4 0.500 sample_2 CGCCGATG TGCACGGG 4 0.500 * * * 8 1.000 adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/defaults/your_output.unidentified000066400000000000000000000000001313314234200340700ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/demux_only/000077500000000000000000000000001313314234200274475ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/demux_only/regular/000077500000000000000000000000001313314234200311105ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/demux_only/regular/barcodes.txt000066400000000000000000000000661313314234200334350ustar00rootroot00000000000000sample_1 GGCCCCTG CCAAAGCT sample_2 AATCCTAG GTCTAGTT adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/demux_only/regular/info.json000066400000000000000000000001151313314234200327330ustar00rootroot00000000000000{ "arguments": ["--demultiplex-only"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/demux_only/regular/input_1.fastq000066400000000000000000000033301313314234200335260ustar00rootroot00000000000000@read_s2_000/1 AATCCTAGAACTAGACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 GGCCCCTGTTTCTGGACGACGCCCCTATAATGTATGATAATTATTCGATTGACATGGCGAACTTCAGCCATTAGCGCTTTCGCATAATGTCGTTGTATAT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 GGCCCCTGAACCATCTGAGCGGTACTCGGGAAAACACGGACGAGGTGGGATATCTTTCCCTTCTCTTGCCATCGTGTATTTATCTGTATCTAATGCTACT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 AATCCTAGTCGTACAATGCATCAGACACCGCTTTTGTGGCGTTTCGACCGTAATCTACATTTACATCTCGTTAATTCGCGACATTCATCGTGCCGTACTC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 AATCCTAGATACGCTGTGCGTCCTGGAACTGCAACTCTCGGTGTACAGGCCATCGTAAATCGTACCCGATTGCGCTACGTTTCAACTAGACAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 AATCCTAGATACCCCGACACTCGACTTATATTTTCCTCAGCTAGTGCGAGAGTTAATGTAGCGACGAAACACTCCTGCCTCGGTACGAGCATCCCGGTAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/1 GGCCCCTGAGCTTTGGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 GGCCCCTGGGTGGCTATGTAGGGAAAAACTCCGCTAGAACAAAGAACAGCCTCCCTCAATCACCCATGTTCGTGCCTCGACGCAGCTTTGGAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.fastq000066400000000000000000000014541313314234200362130ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/demux_only/regular@read_s1_150/1 TTTCTGGACGACGCCCCTATAATGTATGATAATTATTCGATTGACATGGCGAACTTCAGCCATTAGCGCTTTCGCATAATGTCGTTGTATAT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 AACCATCTGAGCGGTACTCGGGAAAACACGGACGAGGTGGGATATCTTTCCCTTCTCTTGCCATCGTGTATTTATCTGTATCTAATGCTACT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/1 AGCTTTGGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 GGTGGCTATGTAGGGAAAAACTCCGCTAGAACAAAGAACAGCCTCCCTCAATCACCCATGTTCGTGCCTCGACGCAGCTTTGGAGATCGGAA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.settings000066400000000000000000000006461313314234200367370ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/demux_only/regularAdapterRemoval ver. 2.1.7 Demultiplexing of double-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1* GGCCCCTG CCAAAGCT sample_2 AATCCTAG GTCTAGTT [Adapter sequences] Adapter1[1]: AGCTTTGG_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: CAGGGGCC_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT your_output.sample_2.fastq000066400000000000000000000014541313314234200362140ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/demux_only/regular@read_s2_000/1 AACTAGACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 TCGTACAATGCATCAGACACCGCTTTTGTGGCGTTTCGACCGTAATCTACATTTACATCTCGTTAATTCGCGACATTCATCGTGCCGTACTC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 ATACGCTGTGCGTCCTGGAACTGCAACTCTCGGTGTACAGGCCATCGTAAATCGTACCCGATTGCGCTACGTTTCAACTAGACAGATCGGAA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 ATACCCCGACACTCGACTTATATTTTCCTCAGCTAGTGCGAGAGTTAATGTAGCGACGAAACACTCCTGCCTCGGTACGAGCATCCCGGTAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.settings000066400000000000000000000006461313314234200367400ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/demux_only/regularAdapterRemoval ver. 2.1.7 Demultiplexing of double-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GGCCCCTG CCAAAGCT sample_2* AATCCTAG GTCTAGTT [Adapter sequences] Adapter1[1]: AACTAGAC_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: CTAGGATT_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT your_output.settings000066400000000000000000000011371313314234200352330ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/demux_only/regularAdapterRemoval ver. 2.1.7 Demultiplexing of double-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GGCCCCTG CCAAAGCT sample_2 AATCCTAG GTCTAGTT [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Demultiplexing statistics] Name Barcode_1 Barcode_2 Hits Fraction unidentified NA NA 0 0.000 ambiguous NA NA 0 0.000 sample_1 GGCCCCTG CCAAAGCT 4 0.500 sample_2 AATCCTAG GTCTAGTT 4 0.500 * * * 8 1.000 your_output.unidentified.fastq000066400000000000000000000000001313314234200371430ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/demux_only/regularadapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/demux_only/unidentified/000077500000000000000000000000001313314234200321165ustar00rootroot00000000000000barcodes.txt000066400000000000000000000000661313314234200343640ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/demux_only/unidentifiedsample_1 GGCCCCTG CCAAAGCT sample_2 AATCCTAG GTCTAGTT adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/demux_only/unidentified/info.json000066400000000000000000000001151313314234200337410ustar00rootroot00000000000000{ "arguments": ["--demultiplex-only"], "return_code": 0, "stderr": [ ] } input_1.fastq000066400000000000000000000033301313314234200344550ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/demux_only/unidentified@read_s2_000/1 AATCCTAGAACTAGACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 GGCCCCTGTTTCTGGACGACGCCCCTATAATGTATGATAATTATTCGATTGACATGGCGAACTTCAGCCATTAGCGCTTTCGCATAATGTCGTTGTATAT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 TGCCCCTGAACCATCTGAGCGGTACTCGGGAAAACACGGACGAGGTGGGATATCTTTCCCTTCTCTTGCCATCGTGTATTTATCTGTATCTAATGCTACT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 AATCCTAGTCGTACAATGCATCAGACACCGCTTTTGTGGCGTTTCGACCGTAATCTACATTTACATCTCGTTAATTCGCGACATTCATCGTGCCGTACTC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 AATCCTAGATACGCTGTGCGTCCTGGAACTGCAACTCTCGGTGTACAGGCCATCGTAAATCGTACCCGATTGCGCTACGTTTCAACTAGACAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 AATCCTAGATACCCCGACACTCGACTTATATTTTCCTCAGCTAGTGCGAGAGTTAATGTAGCGACGAAACACTCCTGCCTCGGTACGAGCATCCCGGTAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/1 GGCCCCTGAGCTTTGGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 GGCCCCTGGGTGGCTATGTAGGGAAAAACTCCGCTAGAACAAAGAACAGCCTCCCTCAATCACCCATGTTCGTGCCTCGACGCAGCTTTGGAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.fastq000066400000000000000000000011411313314234200372120ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/demux_only/unidentified@read_s1_150/1 TTTCTGGACGACGCCCCTATAATGTATGATAATTATTCGATTGACATGGCGAACTTCAGCCATTAGCGCTTTCGCATAATGTCGTTGTATAT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/1 AGCTTTGGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 GGTGGCTATGTAGGGAAAAACTCCGCTAGAACAAAGAACAGCCTCCCTCAATCACCCATGTTCGTGCCTCGACGCAGCTTTGGAGATCGGAA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.settings000066400000000000000000000006461313314234200377450ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/demux_only/unidentifiedAdapterRemoval ver. 2.1.7 Demultiplexing of double-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1* GGCCCCTG CCAAAGCT sample_2 AATCCTAG GTCTAGTT [Adapter sequences] Adapter1[1]: AGCTTTGG_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: CAGGGGCC_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT your_output.sample_2.fastq000066400000000000000000000014541313314234200372220ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/demux_only/unidentified@read_s2_000/1 AACTAGACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 TCGTACAATGCATCAGACACCGCTTTTGTGGCGTTTCGACCGTAATCTACATTTACATCTCGTTAATTCGCGACATTCATCGTGCCGTACTC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 ATACGCTGTGCGTCCTGGAACTGCAACTCTCGGTGTACAGGCCATCGTAAATCGTACCCGATTGCGCTACGTTTCAACTAGACAGATCGGAA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 ATACCCCGACACTCGACTTATATTTTCCTCAGCTAGTGCGAGAGTTAATGTAGCGACGAAACACTCCTGCCTCGGTACGAGCATCCCGGTAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.settings000066400000000000000000000006461313314234200377460ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/demux_only/unidentifiedAdapterRemoval ver. 2.1.7 Demultiplexing of double-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GGCCCCTG CCAAAGCT sample_2* AATCCTAG GTCTAGTT [Adapter sequences] Adapter1[1]: AACTAGAC_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: CTAGGATT_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT your_output.settings000066400000000000000000000011371313314234200362410ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/demux_only/unidentifiedAdapterRemoval ver. 2.1.7 Demultiplexing of double-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GGCCCCTG CCAAAGCT sample_2 AATCCTAG GTCTAGTT [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Demultiplexing statistics] Name Barcode_1 Barcode_2 Hits Fraction unidentified NA NA 1 0.125 ambiguous NA NA 0 0.000 sample_1 GGCCCCTG CCAAAGCT 3 0.375 sample_2 AATCCTAG GTCTAGTT 4 0.500 * * * 8 1.000 your_output.unidentified.fastq000066400000000000000000000003331313314234200401620ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/demux_only/unidentified@read_s1_200/1 TGCCCCTGAACCATCTGAGCGGTACTCGGGAAAACACGGACGAGGTGGGATATCTTTCCCTTCTCTTGCCATCGTGTATTTATCTGTATCTAATGCTACT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/multiple_input/000077500000000000000000000000001313314234200303365ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/multiple_input/barcodes.txt000066400000000000000000000000661313314234200326630ustar00rootroot00000000000000sample_1 CTTGCCCT ACGTTATT sample_2 CGCCGATG TGCACGGG adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/multiple_input/info.json000066400000000000000000000000711313314234200321620ustar00rootroot00000000000000{ "arguments": [], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/multiple_input/input_1a.fastq000066400000000000000000000012221313314234200331130ustar00rootroot00000000000000@read_s2_000/1 CGCCGATGCCCGTGCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 CGCCGATGGCGTAAGTTGACGTCAGCCTGCGAGGTGCCACGCCAGTGGTTGCGCTCACCCGGGGCGTAGTTGCTCCGCGCAATTTCTTGGCAGTTCGATC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 CTTGCCCTGGTTCTACGTTCTCCATCAGGTGGACGAGGGGATCTTGGCCCCCGTTCCTGCATTGGTATAATTAGACAGGATGAAATAACGTAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/multiple_input/input_1b.fastq000066400000000000000000000012211313314234200331130ustar00rootroot00000000000000@read_s1_200/1 CTTGCCCTGTAGTGCAATAAAAGGATCCTCTTGTGGCCGATTGCAGACCAGCCTCGGGGCTAAACTGATAATCGTATGCTATAGACCCTGGTCGACGCCG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 CTTGCCCTCAGATGTCAGCTCATGTGTTGATATACAGCTAACTAAGGCCCGGGGGTTTAGGCTCAACCCTCTACCTGGTATACCGGCCCAACGCACTCGC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 CGCCGATGTCTTGGGAACGAGAGTGCCACCAATTAAAGTGATGGATATCGAGACGTCCCAAACCACCGCAATAGGACGGGACACCCGTGCAAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/multiple_input/input_1c.fastq000066400000000000000000000006661313314234200331300ustar00rootroot00000000000000@read_s2_150/1 CGCCGATGAGCCCCGAGTGTCCATCACAAGCCACCTCCACTAACCATCTCGGTCCATTATTTGTCACTCGTGGCTAGAAGGGAATAAAGACAACTCTCTC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/1 CTTGCCCTAATAACGTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.discarded000066400000000000000000000000231313314234200362340ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/multiple_input@read_s1_000/1 + your_output.sample_1.settings000066400000000000000000000041201313314234200361540ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/multiple_inputAdapterRemoval ver. 2.2.0 Trimming of double-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1* CTTGCCCT ACGTTATT sample_2 CGCCGATG TGCACGGG [Adapter sequences] Adapter1[1]: AATAACGT_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGGGCAAG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 4115144913 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 4 Number of unaligned reads: 2 Number of well aligned reads: 2 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 3 Number of reads with adapters[1]: 2 Number of retained reads: 3 Number of retained nucleotides: 259 Average length of retained reads: 86.3333 [Length distribution] Length Mate1 Discarded All 0 0 1 1 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 0 0 0 51 0 0 0 52 0 0 0 53 0 0 0 54 0 0 0 55 0 0 0 56 0 0 0 57 0 0 0 58 0 0 0 59 0 0 0 60 0 0 0 61 0 0 0 62 0 0 0 63 0 0 0 64 0 0 0 65 0 0 0 66 0 0 0 67 0 0 0 68 0 0 0 69 0 0 0 70 0 0 0 71 0 0 0 72 0 0 0 73 0 0 0 74 0 0 0 75 1 0 1 76 0 0 0 77 0 0 0 78 0 0 0 79 0 0 0 80 0 0 0 81 0 0 0 82 0 0 0 83 0 0 0 84 0 0 0 85 0 0 0 86 0 0 0 87 0 0 0 88 0 0 0 89 0 0 0 90 0 0 0 91 0 0 0 92 2 0 2 your_output.sample_1.truncated000066400000000000000000000010771313314234200363150ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/multiple_input@read_s1_075/1 GGTTCTACGTTCTCCATCAGGTGGACGAGGGGATCTTGGCCCCCGTTCCTGCATTGGTATAATTAGACAGGATGA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s1_200/1 GTAGTGCAATAAAAGGATCCTCTTGTGGCCGATTGCAGACCAGCCTCGGGGCTAAACTGATAATCGTATGCTATAGACCCTGGTCGACGCCG + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 CAGATGTCAGCTCATGTGTTGATATACAGCTAACTAAGGCCCGGGGGTTTAGGCTCAACCCTCTACCTGGTATACCGGCCCAACGCACTCGC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.discarded000066400000000000000000000000231313314234200362350ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/multiple_input@read_s2_000/1 + your_output.sample_2.settings000066400000000000000000000041121313314234200361560ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/multiple_inputAdapterRemoval ver. 2.2.0 Trimming of double-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 CTTGCCCT ACGTTATT sample_2* CGCCGATG TGCACGGG [Adapter sequences] Adapter1[1]: CCCGTGCA_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: CATCGGCG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 356769071 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 4 Number of unaligned reads: 1 Number of well aligned reads: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 3 Number of reads with adapters[1]: 3 Number of retained reads: 3 Number of retained nucleotides: 258 Average length of retained reads: 86 [Length distribution] Length Mate1 Discarded All 0 0 1 1 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 0 0 0 51 0 0 0 52 0 0 0 53 0 0 0 54 0 0 0 55 0 0 0 56 0 0 0 57 0 0 0 58 0 0 0 59 0 0 0 60 0 0 0 61 0 0 0 62 0 0 0 63 0 0 0 64 0 0 0 65 0 0 0 66 0 0 0 67 0 0 0 68 0 0 0 69 0 0 0 70 0 0 0 71 0 0 0 72 0 0 0 73 0 0 0 74 0 0 0 75 1 0 1 76 0 0 0 77 0 0 0 78 0 0 0 79 0 0 0 80 0 0 0 81 0 0 0 82 0 0 0 83 0 0 0 84 0 0 0 85 0 0 0 86 0 0 0 87 0 0 0 88 0 0 0 89 0 0 0 90 0 0 0 91 1 0 1 92 1 0 1 your_output.sample_2.truncated000066400000000000000000000010751313314234200363140ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/multiple_input@read_s2_200/1 GCGTAAGTTGACGTCAGCCTGCGAGGTGCCACGCCAGTGGTTGCGCTCACCCGGGGCGTAGTTGCTCCGCGCAATTTCTTGGCAGTTCGAT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::998876654321 @read_s2_075/1 TCTTGGGAACGAGAGTGCCACCAATTAAAGTGATGGATATCGAGACGTCCCAAACCACCGCAATAGGACGGGACA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s2_150/1 AGCCCCGAGTGTCCATCACAAGCCACCTCCACTAACCATCTCGGTCCATTATTTGTCACTCGTGGCTAGAAGGGAATAAAGACAACTCTCTC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/multiple_input/your_output.settings000066400000000000000000000021271313314234200345400ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of double-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 CTTGCCCT ACGTTATT sample_2 CGCCGATG TGCACGGG [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Demultiplexing statistics] Name Barcode_1 Barcode_2 Hits Fraction unidentified NA NA 0 0.000 ambiguous NA NA 0 0.000 sample_1 CTTGCCCT ACGTTATT 4 0.500 sample_2 CGCCGATG TGCACGGG 4 0.500 * * * 8 1.000 your_output.unidentified000066400000000000000000000000001313314234200352540ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/multiple_inputadapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/threads/000077500000000000000000000000001313314234200267165ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/threads/one/000077500000000000000000000000001313314234200274775ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/threads/one/barcodes.txt000066400000000000000000000000661313314234200320240ustar00rootroot00000000000000sample_1 CTTGCCCT ACGTTATT sample_2 CGCCGATG TGCACGGG adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/threads/one/info.json000066400000000000000000000001111313314234200313160ustar00rootroot00000000000000{ "arguments": ["--threads", "1"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/threads/one/input_1.fastq000066400000000000000000000033301313314234200321150ustar00rootroot00000000000000@read_s2_000/1 CGCCGATGCCCGTGCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 CGCCGATGGCGTAAGTTGACGTCAGCCTGCGAGGTGCCACGCCAGTGGTTGCGCTCACCCGGGGCGTAGTTGCTCCGCGCAATTTCTTGGCAGTTCGATC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 CTTGCCCTGGTTCTACGTTCTCCATCAGGTGGACGAGGGGATCTTGGCCCCCGTTCCTGCATTGGTATAATTAGACAGGATGAAATAACGTAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 CTTGCCCTGTAGTGCAATAAAAGGATCCTCTTGTGGCCGATTGCAGACCAGCCTCGGGGCTAAACTGATAATCGTATGCTATAGACCCTGGTCGACGCCG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 CTTGCCCTCAGATGTCAGCTCATGTGTTGATATACAGCTAACTAAGGCCCGGGGGTTTAGGCTCAACCCTCTACCTGGTATACCGGCCCAACGCACTCGC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 CGCCGATGTCTTGGGAACGAGAGTGCCACCAATTAAAGTGATGGATATCGAGACGTCCCAAACCACCGCAATAGGACGGGACACCCGTGCAAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 CGCCGATGAGCCCCGAGTGTCCATCACAAGCCACCTCCACTAACCATCTCGGTCCATTATTTGTCACTCGTGGCTAGAAGGGAATAAAGACAACTCTCTC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/1 CTTGCCCTAATAACGTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.discarded000066400000000000000000000000231313314234200353750ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/threads/one@read_s1_000/1 + your_output.sample_1.settings000066400000000000000000000041201313314234200353150ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/threads/oneAdapterRemoval ver. 2.2.0 Trimming of double-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1* CTTGCCCT ACGTTATT sample_2 CGCCGATG TGCACGGG [Adapter sequences] Adapter1[1]: AATAACGT_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGGGCAAG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 4115144913 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 4 Number of unaligned reads: 2 Number of well aligned reads: 2 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 3 Number of reads with adapters[1]: 2 Number of retained reads: 3 Number of retained nucleotides: 259 Average length of retained reads: 86.3333 [Length distribution] Length Mate1 Discarded All 0 0 1 1 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 0 0 0 51 0 0 0 52 0 0 0 53 0 0 0 54 0 0 0 55 0 0 0 56 0 0 0 57 0 0 0 58 0 0 0 59 0 0 0 60 0 0 0 61 0 0 0 62 0 0 0 63 0 0 0 64 0 0 0 65 0 0 0 66 0 0 0 67 0 0 0 68 0 0 0 69 0 0 0 70 0 0 0 71 0 0 0 72 0 0 0 73 0 0 0 74 0 0 0 75 1 0 1 76 0 0 0 77 0 0 0 78 0 0 0 79 0 0 0 80 0 0 0 81 0 0 0 82 0 0 0 83 0 0 0 84 0 0 0 85 0 0 0 86 0 0 0 87 0 0 0 88 0 0 0 89 0 0 0 90 0 0 0 91 0 0 0 92 2 0 2 your_output.sample_1.truncated000066400000000000000000000010771313314234200354560ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/threads/one@read_s1_075/1 GGTTCTACGTTCTCCATCAGGTGGACGAGGGGATCTTGGCCCCCGTTCCTGCATTGGTATAATTAGACAGGATGA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s1_200/1 GTAGTGCAATAAAAGGATCCTCTTGTGGCCGATTGCAGACCAGCCTCGGGGCTAAACTGATAATCGTATGCTATAGACCCTGGTCGACGCCG + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 CAGATGTCAGCTCATGTGTTGATATACAGCTAACTAAGGCCCGGGGGTTTAGGCTCAACCCTCTACCTGGTATACCGGCCCAACGCACTCGC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.discarded000066400000000000000000000000231313314234200353760ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/threads/one@read_s2_000/1 + your_output.sample_2.settings000066400000000000000000000041121313314234200353170ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/threads/oneAdapterRemoval ver. 2.2.0 Trimming of double-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 CTTGCCCT ACGTTATT sample_2* CGCCGATG TGCACGGG [Adapter sequences] Adapter1[1]: CCCGTGCA_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: CATCGGCG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 356769071 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 4 Number of unaligned reads: 1 Number of well aligned reads: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 3 Number of reads with adapters[1]: 3 Number of retained reads: 3 Number of retained nucleotides: 258 Average length of retained reads: 86 [Length distribution] Length Mate1 Discarded All 0 0 1 1 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 0 0 0 51 0 0 0 52 0 0 0 53 0 0 0 54 0 0 0 55 0 0 0 56 0 0 0 57 0 0 0 58 0 0 0 59 0 0 0 60 0 0 0 61 0 0 0 62 0 0 0 63 0 0 0 64 0 0 0 65 0 0 0 66 0 0 0 67 0 0 0 68 0 0 0 69 0 0 0 70 0 0 0 71 0 0 0 72 0 0 0 73 0 0 0 74 0 0 0 75 1 0 1 76 0 0 0 77 0 0 0 78 0 0 0 79 0 0 0 80 0 0 0 81 0 0 0 82 0 0 0 83 0 0 0 84 0 0 0 85 0 0 0 86 0 0 0 87 0 0 0 88 0 0 0 89 0 0 0 90 0 0 0 91 1 0 1 92 1 0 1 your_output.sample_2.truncated000066400000000000000000000010751313314234200354550ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/threads/one@read_s2_200/1 GCGTAAGTTGACGTCAGCCTGCGAGGTGCCACGCCAGTGGTTGCGCTCACCCGGGGCGTAGTTGCTCCGCGCAATTTCTTGGCAGTTCGAT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::998876654321 @read_s2_075/1 TCTTGGGAACGAGAGTGCCACCAATTAAAGTGATGGATATCGAGACGTCCCAAACCACCGCAATAGGACGGGACA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s2_150/1 AGCCCCGAGTGTCCATCACAAGCCACCTCCACTAACCATCTCGGTCCATTATTTGTCACTCGTGGCTAGAAGGGAATAAAGACAACTCTCTC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/threads/one/your_output.settings000066400000000000000000000021271313314234200337010ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of double-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 CTTGCCCT ACGTTATT sample_2 CGCCGATG TGCACGGG [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Demultiplexing statistics] Name Barcode_1 Barcode_2 Hits Fraction unidentified NA NA 0 0.000 ambiguous NA NA 0 0.000 sample_1 CTTGCCCT ACGTTATT 4 0.500 sample_2 CGCCGATG TGCACGGG 4 0.500 * * * 8 1.000 your_output.unidentified000066400000000000000000000000001313314234200344150ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/threads/oneadapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/threads/three/000077500000000000000000000000001313314234200300255ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/threads/three/barcodes.txt000066400000000000000000000000661313314234200323520ustar00rootroot00000000000000sample_1 CTTGCCCT ACGTTATT sample_2 CGCCGATG TGCACGGG adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/threads/three/info.json000066400000000000000000000001111313314234200316440ustar00rootroot00000000000000{ "arguments": ["--threads", "3"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/threads/three/input_1.fastq000066400000000000000000000033301313314234200324430ustar00rootroot00000000000000@read_s2_000/1 CGCCGATGCCCGTGCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 CGCCGATGGCGTAAGTTGACGTCAGCCTGCGAGGTGCCACGCCAGTGGTTGCGCTCACCCGGGGCGTAGTTGCTCCGCGCAATTTCTTGGCAGTTCGATC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 CTTGCCCTGGTTCTACGTTCTCCATCAGGTGGACGAGGGGATCTTGGCCCCCGTTCCTGCATTGGTATAATTAGACAGGATGAAATAACGTAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 CTTGCCCTGTAGTGCAATAAAAGGATCCTCTTGTGGCCGATTGCAGACCAGCCTCGGGGCTAAACTGATAATCGTATGCTATAGACCCTGGTCGACGCCG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 CTTGCCCTCAGATGTCAGCTCATGTGTTGATATACAGCTAACTAAGGCCCGGGGGTTTAGGCTCAACCCTCTACCTGGTATACCGGCCCAACGCACTCGC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 CGCCGATGTCTTGGGAACGAGAGTGCCACCAATTAAAGTGATGGATATCGAGACGTCCCAAACCACCGCAATAGGACGGGACACCCGTGCAAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 CGCCGATGAGCCCCGAGTGTCCATCACAAGCCACCTCCACTAACCATCTCGGTCCATTATTTGTCACTCGTGGCTAGAAGGGAATAAAGACAACTCTCTC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/1 CTTGCCCTAATAACGTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.discarded000066400000000000000000000000231313314234200357230ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/threads/three@read_s1_000/1 + your_output.sample_1.settings000066400000000000000000000041201313314234200356430ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/threads/threeAdapterRemoval ver. 2.2.0 Trimming of double-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1* CTTGCCCT ACGTTATT sample_2 CGCCGATG TGCACGGG [Adapter sequences] Adapter1[1]: AATAACGT_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGGGCAAG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 4115144913 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 4 Number of unaligned reads: 2 Number of well aligned reads: 2 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 3 Number of reads with adapters[1]: 2 Number of retained reads: 3 Number of retained nucleotides: 259 Average length of retained reads: 86.3333 [Length distribution] Length Mate1 Discarded All 0 0 1 1 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 0 0 0 51 0 0 0 52 0 0 0 53 0 0 0 54 0 0 0 55 0 0 0 56 0 0 0 57 0 0 0 58 0 0 0 59 0 0 0 60 0 0 0 61 0 0 0 62 0 0 0 63 0 0 0 64 0 0 0 65 0 0 0 66 0 0 0 67 0 0 0 68 0 0 0 69 0 0 0 70 0 0 0 71 0 0 0 72 0 0 0 73 0 0 0 74 0 0 0 75 1 0 1 76 0 0 0 77 0 0 0 78 0 0 0 79 0 0 0 80 0 0 0 81 0 0 0 82 0 0 0 83 0 0 0 84 0 0 0 85 0 0 0 86 0 0 0 87 0 0 0 88 0 0 0 89 0 0 0 90 0 0 0 91 0 0 0 92 2 0 2 your_output.sample_1.truncated000066400000000000000000000010771313314234200360040ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/threads/three@read_s1_075/1 GGTTCTACGTTCTCCATCAGGTGGACGAGGGGATCTTGGCCCCCGTTCCTGCATTGGTATAATTAGACAGGATGA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s1_200/1 GTAGTGCAATAAAAGGATCCTCTTGTGGCCGATTGCAGACCAGCCTCGGGGCTAAACTGATAATCGTATGCTATAGACCCTGGTCGACGCCG + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 CAGATGTCAGCTCATGTGTTGATATACAGCTAACTAAGGCCCGGGGGTTTAGGCTCAACCCTCTACCTGGTATACCGGCCCAACGCACTCGC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.discarded000066400000000000000000000000231313314234200357240ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/threads/three@read_s2_000/1 + your_output.sample_2.settings000066400000000000000000000041121313314234200356450ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/threads/threeAdapterRemoval ver. 2.2.0 Trimming of double-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 CTTGCCCT ACGTTATT sample_2* CGCCGATG TGCACGGG [Adapter sequences] Adapter1[1]: CCCGTGCA_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: CATCGGCG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 356769071 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 4 Number of unaligned reads: 1 Number of well aligned reads: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 3 Number of reads with adapters[1]: 3 Number of retained reads: 3 Number of retained nucleotides: 258 Average length of retained reads: 86 [Length distribution] Length Mate1 Discarded All 0 0 1 1 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 0 0 0 51 0 0 0 52 0 0 0 53 0 0 0 54 0 0 0 55 0 0 0 56 0 0 0 57 0 0 0 58 0 0 0 59 0 0 0 60 0 0 0 61 0 0 0 62 0 0 0 63 0 0 0 64 0 0 0 65 0 0 0 66 0 0 0 67 0 0 0 68 0 0 0 69 0 0 0 70 0 0 0 71 0 0 0 72 0 0 0 73 0 0 0 74 0 0 0 75 1 0 1 76 0 0 0 77 0 0 0 78 0 0 0 79 0 0 0 80 0 0 0 81 0 0 0 82 0 0 0 83 0 0 0 84 0 0 0 85 0 0 0 86 0 0 0 87 0 0 0 88 0 0 0 89 0 0 0 90 0 0 0 91 1 0 1 92 1 0 1 your_output.sample_2.truncated000066400000000000000000000010751313314234200360030ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/threads/three@read_s2_200/1 GCGTAAGTTGACGTCAGCCTGCGAGGTGCCACGCCAGTGGTTGCGCTCACCCGGGGCGTAGTTGCTCCGCGCAATTTCTTGGCAGTTCGAT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::998876654321 @read_s2_075/1 TCTTGGGAACGAGAGTGCCACCAATTAAAGTGATGGATATCGAGACGTCCCAAACCACCGCAATAGGACGGGACA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s2_150/1 AGCCCCGAGTGTCCATCACAAGCCACCTCCACTAACCATCTCGGTCCATTATTTGTCACTCGTGGCTAGAAGGGAATAAAGACAACTCTCTC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/threads/three/your_output.settings000066400000000000000000000021271313314234200342270ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of double-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 CTTGCCCT ACGTTATT sample_2 CGCCGATG TGCACGGG [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Demultiplexing statistics] Name Barcode_1 Barcode_2 Hits Fraction unidentified NA NA 0 0.000 ambiguous NA NA 0 0.000 sample_1 CTTGCCCT ACGTTATT 4 0.500 sample_2 CGCCGATG TGCACGGG 4 0.500 * * * 8 1.000 your_output.unidentified000066400000000000000000000000001313314234200347430ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/threads/threeadapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/threads/two/000077500000000000000000000000001313314234200275275ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/threads/two/barcodes.txt000066400000000000000000000000661313314234200320540ustar00rootroot00000000000000sample_1 CTTGCCCT ACGTTATT sample_2 CGCCGATG TGCACGGG adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/threads/two/info.json000066400000000000000000000001111313314234200313460ustar00rootroot00000000000000{ "arguments": ["--threads", "2"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/threads/two/input_1.fastq000066400000000000000000000033301313314234200321450ustar00rootroot00000000000000@read_s2_000/1 CGCCGATGCCCGTGCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 CGCCGATGGCGTAAGTTGACGTCAGCCTGCGAGGTGCCACGCCAGTGGTTGCGCTCACCCGGGGCGTAGTTGCTCCGCGCAATTTCTTGGCAGTTCGATC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 CTTGCCCTGGTTCTACGTTCTCCATCAGGTGGACGAGGGGATCTTGGCCCCCGTTCCTGCATTGGTATAATTAGACAGGATGAAATAACGTAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 CTTGCCCTGTAGTGCAATAAAAGGATCCTCTTGTGGCCGATTGCAGACCAGCCTCGGGGCTAAACTGATAATCGTATGCTATAGACCCTGGTCGACGCCG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 CTTGCCCTCAGATGTCAGCTCATGTGTTGATATACAGCTAACTAAGGCCCGGGGGTTTAGGCTCAACCCTCTACCTGGTATACCGGCCCAACGCACTCGC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 CGCCGATGTCTTGGGAACGAGAGTGCCACCAATTAAAGTGATGGATATCGAGACGTCCCAAACCACCGCAATAGGACGGGACACCCGTGCAAGATCGGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 CGCCGATGAGCCCCGAGTGTCCATCACAAGCCACCTCCACTAACCATCTCGGTCCATTATTTGTCACTCGTGGCTAGAAGGGAATAAAGACAACTCTCTC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/1 CTTGCCCTAATAACGTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.discarded000066400000000000000000000000231313314234200354250ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/threads/two@read_s1_000/1 + your_output.sample_1.settings000066400000000000000000000041201313314234200353450ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/threads/twoAdapterRemoval ver. 2.2.0 Trimming of double-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1* CTTGCCCT ACGTTATT sample_2 CGCCGATG TGCACGGG [Adapter sequences] Adapter1[1]: AATAACGT_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGGGCAAG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 4115144913 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 4 Number of unaligned reads: 2 Number of well aligned reads: 2 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 3 Number of reads with adapters[1]: 2 Number of retained reads: 3 Number of retained nucleotides: 259 Average length of retained reads: 86.3333 [Length distribution] Length Mate1 Discarded All 0 0 1 1 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 0 0 0 51 0 0 0 52 0 0 0 53 0 0 0 54 0 0 0 55 0 0 0 56 0 0 0 57 0 0 0 58 0 0 0 59 0 0 0 60 0 0 0 61 0 0 0 62 0 0 0 63 0 0 0 64 0 0 0 65 0 0 0 66 0 0 0 67 0 0 0 68 0 0 0 69 0 0 0 70 0 0 0 71 0 0 0 72 0 0 0 73 0 0 0 74 0 0 0 75 1 0 1 76 0 0 0 77 0 0 0 78 0 0 0 79 0 0 0 80 0 0 0 81 0 0 0 82 0 0 0 83 0 0 0 84 0 0 0 85 0 0 0 86 0 0 0 87 0 0 0 88 0 0 0 89 0 0 0 90 0 0 0 91 0 0 0 92 2 0 2 your_output.sample_1.truncated000066400000000000000000000010771313314234200355060ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/threads/two@read_s1_075/1 GGTTCTACGTTCTCCATCAGGTGGACGAGGGGATCTTGGCCCCCGTTCCTGCATTGGTATAATTAGACAGGATGA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s1_200/1 GTAGTGCAATAAAAGGATCCTCTTGTGGCCGATTGCAGACCAGCCTCGGGGCTAAACTGATAATCGTATGCTATAGACCCTGGTCGACGCCG + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 CAGATGTCAGCTCATGTGTTGATATACAGCTAACTAAGGCCCGGGGGTTTAGGCTCAACCCTCTACCTGGTATACCGGCCCAACGCACTCGC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.discarded000066400000000000000000000000231313314234200354260ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/threads/two@read_s2_000/1 + your_output.sample_2.settings000066400000000000000000000041121313314234200353470ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/threads/twoAdapterRemoval ver. 2.2.0 Trimming of double-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 CTTGCCCT ACGTTATT sample_2* CGCCGATG TGCACGGG [Adapter sequences] Adapter1[1]: CCCGTGCA_AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: CATCGGCG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 356769071 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 4 Number of unaligned reads: 1 Number of well aligned reads: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 3 Number of reads with adapters[1]: 3 Number of retained reads: 3 Number of retained nucleotides: 258 Average length of retained reads: 86 [Length distribution] Length Mate1 Discarded All 0 0 1 1 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 0 0 0 51 0 0 0 52 0 0 0 53 0 0 0 54 0 0 0 55 0 0 0 56 0 0 0 57 0 0 0 58 0 0 0 59 0 0 0 60 0 0 0 61 0 0 0 62 0 0 0 63 0 0 0 64 0 0 0 65 0 0 0 66 0 0 0 67 0 0 0 68 0 0 0 69 0 0 0 70 0 0 0 71 0 0 0 72 0 0 0 73 0 0 0 74 0 0 0 75 1 0 1 76 0 0 0 77 0 0 0 78 0 0 0 79 0 0 0 80 0 0 0 81 0 0 0 82 0 0 0 83 0 0 0 84 0 0 0 85 0 0 0 86 0 0 0 87 0 0 0 88 0 0 0 89 0 0 0 90 0 0 0 91 1 0 1 92 1 0 1 your_output.sample_2.truncated000066400000000000000000000010751313314234200355050ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/threads/two@read_s2_200/1 GCGTAAGTTGACGTCAGCCTGCGAGGTGCCACGCCAGTGGTTGCGCTCACCCGGGGCGTAGTTGCTCCGCGCAATTTCTTGGCAGTTCGAT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::998876654321 @read_s2_075/1 TCTTGGGAACGAGAGTGCCACCAATTAAAGTGATGGATATCGAGACGTCCCAAACCACCGCAATAGGACGGGACA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s2_150/1 AGCCCCGAGTGTCCATCACAAGCCACCTCCACTAACCATCTCGGTCCATTATTTGTCACTCGTGGCTAGAAGGGAATAAAGACAACTCTCTC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/threads/two/your_output.settings000066400000000000000000000021271313314234200337310ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of double-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 CTTGCCCT ACGTTATT sample_2 CGCCGATG TGCACGGG [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Demultiplexing statistics] Name Barcode_1 Barcode_2 Hits Fraction unidentified NA NA 0 0.000 ambiguous NA NA 0 0.000 sample_1 CTTGCCCT ACGTTATT 4 0.500 sample_2 CGCCGATG TGCACGGG 4 0.500 * * * 8 1.000 your_output.unidentified000066400000000000000000000000001313314234200344450ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/double_indexed/se/threads/twoadapterremoval-2.2.2/validation/demultiplexing/single_indexed/000077500000000000000000000000001313314234200246645ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/000077500000000000000000000000001313314234200252705ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/collapse/000077500000000000000000000000001313314234200270725ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/collapse/barcodes.txt000066400000000000000000000000461313314234200314150ustar00rootroot00000000000000sample_1 CAAGCACG sample_2 ATTTTGAG adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/collapse/info.json000066400000000000000000000001051313314234200307140ustar00rootroot00000000000000{ "arguments": ["--collapse"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/collapse/input_1.fastq000066400000000000000000000033301313314234200315100ustar00rootroot00000000000000@read_s2_200/1 ATTTTGAGCTCAATAAGCTGTGCTAGAAGGAAGAGTCTAAGGCGACGACGACATTTGGCGTCGCCTCGCCGAGGCTAGTGATCTAGCTGGCAGTACCCCT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_000/1 ATTTTGAGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 ATTTTGAGGATCTAACTGGATCGAGATAGGGCTGAGTGTGGCCGACGTTTTTGCCGCCCCTAAATAGTAGACAGTGACATCGTGAGGACCGCAGACTTAG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 CAAGCACGAAGCGAGTCTCGGTTGCGTGTCTTAAAGACAAAGGGACTCCATACTGGCCGGAAGTCCGATATCGCTTAGTAACTCACTCTCGCAGTATTTA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 ATTTTGAGCTTGAAAAGACTTCCTCTTGGTCATTTTAGGGCATGCGTGACGGAATCTAATCGTGGTTCCCTGACACAACCCTTAGATCGGAAGAGCACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/1 CAAGCACGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 CAAGCACGTCAATCCAAGGGATAAGCATGCGCCCATATAGTGGTAGCACAGCAATCTTCCGTCAATGCAGTGGGGCGCTCGGATCGCGGCTGTGCATGAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 CAAGCACGTCGTAGTCTCGGTGGGCAATTCCTACATGGTACCCGGCACGACAAAGTAGACAGCCCATGCCTAGCTCCCAACCGAGATCGGAAGAGCACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/collapse/input_2.fastq000066400000000000000000000033301313314234200315110ustar00rootroot00000000000000@read_s2_200/2 ACCTAATGCAAGTTCCTTGTGATGTTAGAATATCCTAAGTCTATGGAATTCTTTTGCTTGGGAATTGTTGGCCTAAGTAGGTGGGTCGCCTTAGCGTGAT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_000/2 CTCAAAATAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/2 ACTATGGTTGTCTGAATCACAAATGGCTAAACGGCTTCATAATAGTGTGGTATGCGTACTAAGTCTGCGGTCCTCACGATGTCACTGTCTACTATTTAGG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/2 ATTTCACTGCCGGTTTGCTGTTCGGAATTTCTGTGAATTCGTGATTGCCATTGGGGAGGTTAAGGCAAACTATGAGATTGTTCCGGGTCAAGTAACTGGG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/2 AAGGGTTGTGTCAGGGAACCACGATTAGATTCCGTCACGCATGCCCTAAAATGACCAAGAGGAAGTCTTTTCAAGCTCAAAATAGATCGGAAGAGCGTCG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/2 CGTGCTTGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/2 TCGCGCGAACGGCGCTGGGCCCCATGCGAAAAAGCGATACCATGAAGCGAGTATAATGTTCATGCACAGCCGCGATCCGAGCGCCCCACTGCATTGACGG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/2 CGGTTGGGAGCTAGGCATGGGCTGTCTACTTTGTCGTGCCGGGTACCATGTAGGAATTGCCCACCGAGACTACGACGTGCTTGAGATCGGAAGAGCGTCG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.collapsed000066400000000000000000000007501313314234200350230ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/collapse@M_read_s1_150 TCAATCCAAGGGATAAGCATGCGCCCATATAGTGGTAGCACAGCAATCTTCCGTCAATGCAGTGGGGCGCTCGGATCGCGGCTGTGCATGAACATTATACTCGCTTCATGGTATCGCTTTTTCGCATGGGGCCCAGCGCCGTTCGCGCGA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJABBBBBBCCCCCCCDDDDDDDEEEEEEEEEFFFFFFFFFGGGGGGGGGGGHHHHHHHH @M_read_s1_075 TCGTAGTCTCGGTGGGCAATTCCTACATGGTACCCGGCACGACAAAGTAGACAGCCCATGCCTAGCTCCCAACCG + JJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJ your_output.sample_1.collapsed.truncated000066400000000000000000000000001313314234200367770ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/collapseyour_output.sample_1.discarded000066400000000000000000000000231313314234200347700ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/collapse@M_read_s1_000 + your_output.sample_1.pair1.truncated000066400000000000000000000003131313314234200360540ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/collapse@read_s1_200/1 AAGCGAGTCTCGGTTGCGTGTCTTAAAGACAAAGGGACTCCATACTGGCCGGAAGTCCGATATCGCTTAGTAACTCACTCTCGCAGTATTTA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.pair2.truncated000066400000000000000000000003331313314234200360570ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/collapse@read_s1_200/2 ATTTCACTGCCGGTTTGCTGTTCGGAATTTCTGTGAATTCGTGATTGCCATTGGGGAGGTTAAGGCAAACTATGAGATTGTTCCGGGTCAAGTAACTGGG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.settings000066400000000000000000000100411313314234200347070ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/collapseAdapterRemoval ver. 2.2.0 Trimming of single-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1* CAAGCACG * sample_2 ATTTTGAG * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: CGTGCTTG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2769367494 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: Yes Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 4 Number of unaligned read pairs: 1 Number of well aligned read pairs: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 4 Number of full-length collapsed pairs: 2 Number of truncated collapsed pairs: 0 Number of retained reads: 4 Number of retained nucleotides: 417 Average length of retained reads: 104.25 [Length distribution] Length Mate1 Mate2 Singleton Collapsed CollapsedTruncated Discarded All 0 0 0 0 0 0 1 1 1 0 0 0 0 0 0 0 2 0 0 0 0 0 0 0 3 0 0 0 0 0 0 0 4 0 0 0 0 0 0 0 5 0 0 0 0 0 0 0 6 0 0 0 0 0 0 0 7 0 0 0 0 0 0 0 8 0 0 0 0 0 0 0 9 0 0 0 0 0 0 0 10 0 0 0 0 0 0 0 11 0 0 0 0 0 0 0 12 0 0 0 0 0 0 0 13 0 0 0 0 0 0 0 14 0 0 0 0 0 0 0 15 0 0 0 0 0 0 0 16 0 0 0 0 0 0 0 17 0 0 0 0 0 0 0 18 0 0 0 0 0 0 0 19 0 0 0 0 0 0 0 20 0 0 0 0 0 0 0 21 0 0 0 0 0 0 0 22 0 0 0 0 0 0 0 23 0 0 0 0 0 0 0 24 0 0 0 0 0 0 0 25 0 0 0 0 0 0 0 26 0 0 0 0 0 0 0 27 0 0 0 0 0 0 0 28 0 0 0 0 0 0 0 29 0 0 0 0 0 0 0 30 0 0 0 0 0 0 0 31 0 0 0 0 0 0 0 32 0 0 0 0 0 0 0 33 0 0 0 0 0 0 0 34 0 0 0 0 0 0 0 35 0 0 0 0 0 0 0 36 0 0 0 0 0 0 0 37 0 0 0 0 0 0 0 38 0 0 0 0 0 0 0 39 0 0 0 0 0 0 0 40 0 0 0 0 0 0 0 41 0 0 0 0 0 0 0 42 0 0 0 0 0 0 0 43 0 0 0 0 0 0 0 44 0 0 0 0 0 0 0 45 0 0 0 0 0 0 0 46 0 0 0 0 0 0 0 47 0 0 0 0 0 0 0 48 0 0 0 0 0 0 0 49 0 0 0 0 0 0 0 50 0 0 0 0 0 0 0 51 0 0 0 0 0 0 0 52 0 0 0 0 0 0 0 53 0 0 0 0 0 0 0 54 0 0 0 0 0 0 0 55 0 0 0 0 0 0 0 56 0 0 0 0 0 0 0 57 0 0 0 0 0 0 0 58 0 0 0 0 0 0 0 59 0 0 0 0 0 0 0 60 0 0 0 0 0 0 0 61 0 0 0 0 0 0 0 62 0 0 0 0 0 0 0 63 0 0 0 0 0 0 0 64 0 0 0 0 0 0 0 65 0 0 0 0 0 0 0 66 0 0 0 0 0 0 0 67 0 0 0 0 0 0 0 68 0 0 0 0 0 0 0 69 0 0 0 0 0 0 0 70 0 0 0 0 0 0 0 71 0 0 0 0 0 0 0 72 0 0 0 0 0 0 0 73 0 0 0 0 0 0 0 74 0 0 0 0 0 0 0 75 0 0 0 1 0 0 1 76 0 0 0 0 0 0 0 77 0 0 0 0 0 0 0 78 0 0 0 0 0 0 0 79 0 0 0 0 0 0 0 80 0 0 0 0 0 0 0 81 0 0 0 0 0 0 0 82 0 0 0 0 0 0 0 83 0 0 0 0 0 0 0 84 0 0 0 0 0 0 0 85 0 0 0 0 0 0 0 86 0 0 0 0 0 0 0 87 0 0 0 0 0 0 0 88 0 0 0 0 0 0 0 89 0 0 0 0 0 0 0 90 0 0 0 0 0 0 0 91 0 0 0 0 0 0 0 92 1 0 0 0 0 0 1 93 0 0 0 0 0 0 0 94 0 0 0 0 0 0 0 95 0 0 0 0 0 0 0 96 0 0 0 0 0 0 0 97 0 0 0 0 0 0 0 98 0 0 0 0 0 0 0 99 0 0 0 0 0 0 0 100 0 1 0 0 0 0 1 101 0 0 0 0 0 0 0 102 0 0 0 0 0 0 0 103 0 0 0 0 0 0 0 104 0 0 0 0 0 0 0 105 0 0 0 0 0 0 0 106 0 0 0 0 0 0 0 107 0 0 0 0 0 0 0 108 0 0 0 0 0 0 0 109 0 0 0 0 0 0 0 110 0 0 0 0 0 0 0 111 0 0 0 0 0 0 0 112 0 0 0 0 0 0 0 113 0 0 0 0 0 0 0 114 0 0 0 0 0 0 0 115 0 0 0 0 0 0 0 116 0 0 0 0 0 0 0 117 0 0 0 0 0 0 0 118 0 0 0 0 0 0 0 119 0 0 0 0 0 0 0 120 0 0 0 0 0 0 0 121 0 0 0 0 0 0 0 122 0 0 0 0 0 0 0 123 0 0 0 0 0 0 0 124 0 0 0 0 0 0 0 125 0 0 0 0 0 0 0 126 0 0 0 0 0 0 0 127 0 0 0 0 0 0 0 128 0 0 0 0 0 0 0 129 0 0 0 0 0 0 0 130 0 0 0 0 0 0 0 131 0 0 0 0 0 0 0 132 0 0 0 0 0 0 0 133 0 0 0 0 0 0 0 134 0 0 0 0 0 0 0 135 0 0 0 0 0 0 0 136 0 0 0 0 0 0 0 137 0 0 0 0 0 0 0 138 0 0 0 0 0 0 0 139 0 0 0 0 0 0 0 140 0 0 0 0 0 0 0 141 0 0 0 0 0 0 0 142 0 0 0 0 0 0 0 143 0 0 0 0 0 0 0 144 0 0 0 0 0 0 0 145 0 0 0 0 0 0 0 146 0 0 0 0 0 0 0 147 0 0 0 0 0 0 0 148 0 0 0 0 0 0 0 149 0 0 0 0 0 0 0 150 0 0 0 1 0 0 1 your_output.sample_1.singleton.truncated000066400000000000000000000000001313314234200370330ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/collapseyour_output.sample_2.collapsed000066400000000000000000000007501313314234200350240ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/collapse@M_read_s2_150 GATCTAACTGGATCGAGATAGGGCTGAGTGTGGCCGACGTTTTTGCCGCCCCTAAATAGTAGACAGTGACATCGTGAGGACCGCAGACTTAGTACGCATACCACACTATTATGAAGCCGTTTAGCCATTTGTGATTCAGACAACCATAGT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJABBBBBBCCCCCCCDDDDDDDEEEEEEEEEFFFFFFFFFGGGGGGGGGGGHHHHHHHH @M_read_s2_075 CTTGAAAAGACTTCCTCTTGGTCATTTTAGGGCATGCGTGACGGAATCTAATCGTGGTTCCCTGACACAACCCTT + JJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJ your_output.sample_2.collapsed.truncated000066400000000000000000000000001313314234200370000ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/collapseyour_output.sample_2.discarded000066400000000000000000000000231313314234200347710ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/collapse@M_read_s2_000 + your_output.sample_2.pair1.truncated000066400000000000000000000003131313314234200360550ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/collapse@read_s2_200/1 CTCAATAAGCTGTGCTAGAAGGAAGAGTCTAAGGCGACGACGACATTTGGCGTCGCCTCGCCGAGGCTAGTGATCTAGCTGGCAGTACCCCT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.pair2.truncated000066400000000000000000000003331313314234200360600ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/collapse@read_s2_200/2 ACCTAATGCAAGTTCCTTGTGATGTTAGAATATCCTAAGTCTATGGAATTCTTTTGCTTGGGAATTGTTGGCCTAAGTAGGTGGGTCGCCTTAGCGTGAT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.settings000066400000000000000000000100411313314234200347100ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/collapseAdapterRemoval ver. 2.2.0 Trimming of single-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 CAAGCACG * sample_2* ATTTTGAG * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: CTCAAAAT_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2769367494 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: Yes Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 4 Number of unaligned read pairs: 1 Number of well aligned read pairs: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 4 Number of full-length collapsed pairs: 2 Number of truncated collapsed pairs: 0 Number of retained reads: 4 Number of retained nucleotides: 417 Average length of retained reads: 104.25 [Length distribution] Length Mate1 Mate2 Singleton Collapsed CollapsedTruncated Discarded All 0 0 0 0 0 0 1 1 1 0 0 0 0 0 0 0 2 0 0 0 0 0 0 0 3 0 0 0 0 0 0 0 4 0 0 0 0 0 0 0 5 0 0 0 0 0 0 0 6 0 0 0 0 0 0 0 7 0 0 0 0 0 0 0 8 0 0 0 0 0 0 0 9 0 0 0 0 0 0 0 10 0 0 0 0 0 0 0 11 0 0 0 0 0 0 0 12 0 0 0 0 0 0 0 13 0 0 0 0 0 0 0 14 0 0 0 0 0 0 0 15 0 0 0 0 0 0 0 16 0 0 0 0 0 0 0 17 0 0 0 0 0 0 0 18 0 0 0 0 0 0 0 19 0 0 0 0 0 0 0 20 0 0 0 0 0 0 0 21 0 0 0 0 0 0 0 22 0 0 0 0 0 0 0 23 0 0 0 0 0 0 0 24 0 0 0 0 0 0 0 25 0 0 0 0 0 0 0 26 0 0 0 0 0 0 0 27 0 0 0 0 0 0 0 28 0 0 0 0 0 0 0 29 0 0 0 0 0 0 0 30 0 0 0 0 0 0 0 31 0 0 0 0 0 0 0 32 0 0 0 0 0 0 0 33 0 0 0 0 0 0 0 34 0 0 0 0 0 0 0 35 0 0 0 0 0 0 0 36 0 0 0 0 0 0 0 37 0 0 0 0 0 0 0 38 0 0 0 0 0 0 0 39 0 0 0 0 0 0 0 40 0 0 0 0 0 0 0 41 0 0 0 0 0 0 0 42 0 0 0 0 0 0 0 43 0 0 0 0 0 0 0 44 0 0 0 0 0 0 0 45 0 0 0 0 0 0 0 46 0 0 0 0 0 0 0 47 0 0 0 0 0 0 0 48 0 0 0 0 0 0 0 49 0 0 0 0 0 0 0 50 0 0 0 0 0 0 0 51 0 0 0 0 0 0 0 52 0 0 0 0 0 0 0 53 0 0 0 0 0 0 0 54 0 0 0 0 0 0 0 55 0 0 0 0 0 0 0 56 0 0 0 0 0 0 0 57 0 0 0 0 0 0 0 58 0 0 0 0 0 0 0 59 0 0 0 0 0 0 0 60 0 0 0 0 0 0 0 61 0 0 0 0 0 0 0 62 0 0 0 0 0 0 0 63 0 0 0 0 0 0 0 64 0 0 0 0 0 0 0 65 0 0 0 0 0 0 0 66 0 0 0 0 0 0 0 67 0 0 0 0 0 0 0 68 0 0 0 0 0 0 0 69 0 0 0 0 0 0 0 70 0 0 0 0 0 0 0 71 0 0 0 0 0 0 0 72 0 0 0 0 0 0 0 73 0 0 0 0 0 0 0 74 0 0 0 0 0 0 0 75 0 0 0 1 0 0 1 76 0 0 0 0 0 0 0 77 0 0 0 0 0 0 0 78 0 0 0 0 0 0 0 79 0 0 0 0 0 0 0 80 0 0 0 0 0 0 0 81 0 0 0 0 0 0 0 82 0 0 0 0 0 0 0 83 0 0 0 0 0 0 0 84 0 0 0 0 0 0 0 85 0 0 0 0 0 0 0 86 0 0 0 0 0 0 0 87 0 0 0 0 0 0 0 88 0 0 0 0 0 0 0 89 0 0 0 0 0 0 0 90 0 0 0 0 0 0 0 91 0 0 0 0 0 0 0 92 1 0 0 0 0 0 1 93 0 0 0 0 0 0 0 94 0 0 0 0 0 0 0 95 0 0 0 0 0 0 0 96 0 0 0 0 0 0 0 97 0 0 0 0 0 0 0 98 0 0 0 0 0 0 0 99 0 0 0 0 0 0 0 100 0 1 0 0 0 0 1 101 0 0 0 0 0 0 0 102 0 0 0 0 0 0 0 103 0 0 0 0 0 0 0 104 0 0 0 0 0 0 0 105 0 0 0 0 0 0 0 106 0 0 0 0 0 0 0 107 0 0 0 0 0 0 0 108 0 0 0 0 0 0 0 109 0 0 0 0 0 0 0 110 0 0 0 0 0 0 0 111 0 0 0 0 0 0 0 112 0 0 0 0 0 0 0 113 0 0 0 0 0 0 0 114 0 0 0 0 0 0 0 115 0 0 0 0 0 0 0 116 0 0 0 0 0 0 0 117 0 0 0 0 0 0 0 118 0 0 0 0 0 0 0 119 0 0 0 0 0 0 0 120 0 0 0 0 0 0 0 121 0 0 0 0 0 0 0 122 0 0 0 0 0 0 0 123 0 0 0 0 0 0 0 124 0 0 0 0 0 0 0 125 0 0 0 0 0 0 0 126 0 0 0 0 0 0 0 127 0 0 0 0 0 0 0 128 0 0 0 0 0 0 0 129 0 0 0 0 0 0 0 130 0 0 0 0 0 0 0 131 0 0 0 0 0 0 0 132 0 0 0 0 0 0 0 133 0 0 0 0 0 0 0 134 0 0 0 0 0 0 0 135 0 0 0 0 0 0 0 136 0 0 0 0 0 0 0 137 0 0 0 0 0 0 0 138 0 0 0 0 0 0 0 139 0 0 0 0 0 0 0 140 0 0 0 0 0 0 0 141 0 0 0 0 0 0 0 142 0 0 0 0 0 0 0 143 0 0 0 0 0 0 0 144 0 0 0 0 0 0 0 145 0 0 0 0 0 0 0 146 0 0 0 0 0 0 0 147 0 0 0 0 0 0 0 148 0 0 0 0 0 0 0 149 0 0 0 0 0 0 0 150 0 0 0 1 0 0 1 your_output.sample_2.singleton.truncated000066400000000000000000000000001313314234200370340ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/collapseadapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/collapse/your_output.settings000066400000000000000000000021331313314234200332710ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 CAAGCACG * sample_2 ATTTTGAG * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: Yes Minimum overlap (in case of collapse): 11 [Demultiplexing statistics] Name Barcode_1 Barcode_2 Hits Fraction unidentified NA NA 0 0.000 ambiguous NA NA 0 0.000 sample_1 CAAGCACG * 4 0.500 sample_2 ATTTTGAG * 4 0.500 * * * 8 1.000 adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/collapse/your_output.unidentified_1000066400000000000000000000000001313314234200343070ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/collapse/your_output.unidentified_2000066400000000000000000000000001313314234200343100ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/combined_output/000077500000000000000000000000001313314234200304705ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/combined_output/barcodes.txt000066400000000000000000000000461313314234200330130ustar00rootroot00000000000000sample_1 GCGCCGGA sample_2 CAGGACAT adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/combined_output/info.json000066400000000000000000000001141313314234200323120ustar00rootroot00000000000000{ "arguments": ["--combined-output"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/combined_output/input_1.fastq000066400000000000000000000033301313314234200331060ustar00rootroot00000000000000@read_s1_000/1 GCGCCGGAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_000/1 CAGGACATAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 GCGCCGGAGACGGTCCCATTAATGCACTATCGGATTTACACATTTGCGTGAATAAATCGACAGATGAATCATTAAGCTCCTACAGATCGGAAGAGCACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 CAGGACATTGATCTCATACATTTAAACAAAGTATGCCTTACGCATGCCTTAATGATACGTAACCTAGGCAACAGAGTCTTTACTTGTACCTGCTACACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 GCGCCGGATCCATCAGGATCGTATTATACTAAGCTAGGACTGTGCAGTGCACAGAGAGGAGATGACCATGATCCTCGAGCAAGTTGCCGCAGGCTCGGGC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 GCGCCGGATGCACCGTAGCCATATGGGCTGTTGGGGACACAGGGCGTCGGCATTCCTTTATTACTGACGCCGCTAGAGTCTATGCAAGGTTATAACGTAT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 CAGGACATTCGCTAGCCCAAGATCACGCTTTCCGCGACGTTTTAGAGCGTGCATACCGGGGCGTTTCTCAGATAGGTATTTCAAGATCGGAAGAGCACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 CAGGACATACCCTCACGCTTGCACGACGACAGCGGTCCCCTATAAATGTATGTTGACGCAGCGAGAGGCCAGGACCCGGGCGTGTTACCACTAAGACCCT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/combined_output/input_2.fastq000066400000000000000000000033301313314234200331070ustar00rootroot00000000000000@read_s1_000/2 TCCGGCGCAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_000/2 ATGTCCTGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/2 GTAGGAGCTTAATGATTCATCTGTCGATTTATTCACGCAAATGTGTAAATCCGATAGTGCATTAATGGGACCGTCTCCGGCGCAGATCGGAAGAGCGTCG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/2 AGAACAGGATACAATGAAAATGCATCGCGTTGGCAACTCTCACCTTGCTCTTGGACCCGTGTGTAGCAGGTACAAGTAAAGACTCTGTTGCCTAGGTTAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/2 CCTTCTTATGCTCGACTGGCTCTGTATAAGCCCAAGACATTATGAAAGGTCTCGCGTTTGTCTACCAGGCTCCGTTACGGATACAAGTGCCCTACTGTCA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/2 ATCAAGGGAGGTCACGTGAATTTTGCCTTCTAGACTAGCGTACATGACCGCGAATTAGATACGTTATAACCTTGCATAGACTCTAGCGGCGTCAGTAATA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/2 TGAAATACCTATCTGAGAAACGCCCCGGTATGCACGCTCTAAAACGTCGCGGAAAGCGTGATCTTGGGCTAGCGAATGTCCTGAGATCGGAAGAGCGTCG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/2 ATGCTGATTAGATATGTCTTTCATCGGCTTGTGACCGAGGAGTGGTACGGCCGTTCCATATTGGGTGATTAGGAAGATGTCCCGGCTTGCTGCTTCTCGT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.pair1.truncated000066400000000000000000000011241313314234200374530ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/combined_output@read_s1_000/1 N + ! @read_s1_075/1 GACGGTCCCATTAATGCACTATCGGATTTACACATTTGCGTGAATAAATCGACAGATGAATCATTAAGCTCCTAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s1_200/1 TCCATCAGGATCGTATTATACTAAGCTAGGACTGTGCAGTGCACAGAGAGGAGATGACCATGATCCTCGAGCAAGTTGCCGCAGGCTCGGGC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 TGCACCGTAGCCATATGGGCTGTTGGGGACACAGGGCGTCGGCATTCCTTTATTACTGACGCCGCTAGAGTCTATGCAAGGTTATAACGTAT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.pair2.truncated000066400000000000000000000011641313314234200374600ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/combined_output@read_s1_000/2 N + ! @read_s1_075/2 GTAGGAGCTTAATGATTCATCTGTCGATTTATTCACGCAAATGTGTAAATCCGATAGTGCATTAATGGGACCGTC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>> @read_s1_200/2 CCTTCTTATGCTCGACTGGCTCTGTATAAGCCCAAGACATTATGAAAGGTCTCGCGTTTGTCTACCAGGCTCCGTTACGGATACAAGTGCCCTACTGTCA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/2 ATCAAGGGAGGTCACGTGAATTTTGCCTTCTAGACTAGCGTACATGACCGCGAATTAGATACGTTATAACCTTGCATAGACTCTAGCGGCGTCAGTAATA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.settings000066400000000000000000000052271313314234200363170ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/combined_outputAdapterRemoval ver. 2.2.0 Trimming of single-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1* GCGCCGGA * sample_2 CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: TCCGGCGC_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2459456692 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 4 Number of unaligned read pairs: 1 Number of well aligned read pairs: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 4 Number of retained reads: 6 Number of retained nucleotides: 534 Average length of retained reads: 89 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 2 2 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 1 1 0 0 2 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 2 0 0 0 2 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 0 0 100 0 2 0 0 2 your_output.sample_2.pair1.truncated000066400000000000000000000011241313314234200374540ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/combined_output@read_s2_000/1 N + ! @read_s2_150/1 TGATCTCATACATTTAAACAAAGTATGCCTTACGCATGCCTTAATGATACGTAACCTAGGCAACAGAGTCTTTACTTGTACCTGCTACACAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 TCGCTAGCCCAAGATCACGCTTTCCGCGACGTTTTAGAGCGTGCATACCGGGGCGTTTCTCAGATAGGTATTTCA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s2_200/1 ACCCTCACGCTTGCACGACGACAGCGGTCCCCTATAAATGTATGTTGACGCAGCGAGAGGCCAGGACCCGGGCGTGTTACCACTAAGACCCT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.pair2.truncated000066400000000000000000000011641313314234200374610ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/combined_output@read_s2_000/2 N + ! @read_s2_150/2 AGAACAGGATACAATGAAAATGCATCGCGTTGGCAACTCTCACCTTGCTCTTGGACCCGTGTGTAGCAGGTACAAGTAAAGACTCTGTTGCCTAGGTTAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/2 TGAAATACCTATCTGAGAAACGCCCCGGTATGCACGCTCTAAAACGTCGCGGAAAGCGTGATCTTGGGCTAGCGA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>> @read_s2_200/2 ATGCTGATTAGATATGTCTTTCATCGGCTTGTGACCGAGGAGTGGTACGGCCGTTCCATATTGGGTGATTAGGAAGATGTCCCGGCTTGCTGCTTCTCGT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.settings000066400000000000000000000052271313314234200363200ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/combined_outputAdapterRemoval ver. 2.2.0 Trimming of single-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GCGCCGGA * sample_2* CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: ATGTCCTG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2459456692 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 4 Number of unaligned read pairs: 1 Number of well aligned read pairs: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 4 Number of retained reads: 6 Number of retained nucleotides: 534 Average length of retained reads: 89 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 2 2 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 1 1 0 0 2 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 2 0 0 0 2 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 0 0 100 0 2 0 0 2 your_output.settings000066400000000000000000000021321313314234200346070ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/combined_outputAdapterRemoval ver. 2.1.7 Trimming of single-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GCGCCGGA * sample_2 CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Demultiplexing statistics] Name Barcode_1 Barcode_2 Hits Fraction unidentified NA NA 0 0.000 ambiguous NA NA 0 0.000 sample_1 GCGCCGGA * 4 0.500 sample_2 CAGGACAT * 4 0.500 * * * 8 1.000 your_output.unidentified_1000066400000000000000000000000001313314234200356260ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/combined_outputyour_output.unidentified_2000066400000000000000000000000001313314234200356270ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/combined_outputadapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/defaults/000077500000000000000000000000001313314234200270775ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/defaults/barcodes.txt000066400000000000000000000000461313314234200314220ustar00rootroot00000000000000sample_1 GCGCCGGA sample_2 CAGGACAT adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/defaults/info.json000066400000000000000000000000711313314234200307230ustar00rootroot00000000000000{ "arguments": [], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/defaults/input_1.fastq000066400000000000000000000033301313314234200315150ustar00rootroot00000000000000@read_s1_000/1 GCGCCGGAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_000/1 CAGGACATAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 GCGCCGGAGACGGTCCCATTAATGCACTATCGGATTTACACATTTGCGTGAATAAATCGACAGATGAATCATTAAGCTCCTACAGATCGGAAGAGCACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 CAGGACATTGATCTCATACATTTAAACAAAGTATGCCTTACGCATGCCTTAATGATACGTAACCTAGGCAACAGAGTCTTTACTTGTACCTGCTACACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 GCGCCGGATCCATCAGGATCGTATTATACTAAGCTAGGACTGTGCAGTGCACAGAGAGGAGATGACCATGATCCTCGAGCAAGTTGCCGCAGGCTCGGGC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 GCGCCGGATGCACCGTAGCCATATGGGCTGTTGGGGACACAGGGCGTCGGCATTCCTTTATTACTGACGCCGCTAGAGTCTATGCAAGGTTATAACGTAT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 CAGGACATTCGCTAGCCCAAGATCACGCTTTCCGCGACGTTTTAGAGCGTGCATACCGGGGCGTTTCTCAGATAGGTATTTCAAGATCGGAAGAGCACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 CAGGACATACCCTCACGCTTGCACGACGACAGCGGTCCCCTATAAATGTATGTTGACGCAGCGAGAGGCCAGGACCCGGGCGTGTTACCACTAAGACCCT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/defaults/input_2.fastq000066400000000000000000000033301313314234200315160ustar00rootroot00000000000000@read_s1_000/2 TCCGGCGCAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_000/2 ATGTCCTGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/2 GTAGGAGCTTAATGATTCATCTGTCGATTTATTCACGCAAATGTGTAAATCCGATAGTGCATTAATGGGACCGTCTCCGGCGCAGATCGGAAGAGCGTCG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/2 AGAACAGGATACAATGAAAATGCATCGCGTTGGCAACTCTCACCTTGCTCTTGGACCCGTGTGTAGCAGGTACAAGTAAAGACTCTGTTGCCTAGGTTAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/2 CCTTCTTATGCTCGACTGGCTCTGTATAAGCCCAAGACATTATGAAAGGTCTCGCGTTTGTCTACCAGGCTCCGTTACGGATACAAGTGCCCTACTGTCA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/2 ATCAAGGGAGGTCACGTGAATTTTGCCTTCTAGACTAGCGTACATGACCGCGAATTAGATACGTTATAACCTTGCATAGACTCTAGCGGCGTCAGTAATA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/2 TGAAATACCTATCTGAGAAACGCCCCGGTATGCACGCTCTAAAACGTCGCGGAAAGCGTGATCTTGGGCTAGCGAATGTCCTGAGATCGGAAGAGCGTCG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/2 ATGCTGATTAGATATGTCTTTCATCGGCTTGTGACCGAGGAGTGGTACGGCCGTTCCATATTGGGTGATTAGGAAGATGTCCCGGCTTGCTGCTTCTCGT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.discarded000066400000000000000000000000461313314234200350020ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/defaults@read_s1_000/1 + @read_s1_000/2 + your_output.sample_1.pair1.truncated000066400000000000000000000010771313314234200360710ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/defaults@read_s1_075/1 GACGGTCCCATTAATGCACTATCGGATTTACACATTTGCGTGAATAAATCGACAGATGAATCATTAAGCTCCTAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s1_200/1 TCCATCAGGATCGTATTATACTAAGCTAGGACTGTGCAGTGCACAGAGAGGAGATGACCATGATCCTCGAGCAAGTTGCCGCAGGCTCGGGC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 TGCACCGTAGCCATATGGGCTGTTGGGGACACAGGGCGTCGGCATTCCTTTATTACTGACGCCGCTAGAGTCTATGCAAGGTTATAACGTAT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.pair2.truncated000066400000000000000000000011371313314234200360670ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/defaults@read_s1_075/2 GTAGGAGCTTAATGATTCATCTGTCGATTTATTCACGCAAATGTGTAAATCCGATAGTGCATTAATGGGACCGTC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>> @read_s1_200/2 CCTTCTTATGCTCGACTGGCTCTGTATAAGCCCAAGACATTATGAAAGGTCTCGCGTTTGTCTACCAGGCTCCGTTACGGATACAAGTGCCCTACTGTCA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/2 ATCAAGGGAGGTCACGTGAATTTTGCCTTCTAGACTAGCGTACATGACCGCGAATTAGATACGTTATAACCTTGCATAGACTCTAGCGGCGTCAGTAATA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.settings000066400000000000000000000052271313314234200347260ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/defaultsAdapterRemoval ver. 2.2.0 Trimming of single-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1* GCGCCGGA * sample_2 CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: TCCGGCGC_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2459456692 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 4 Number of unaligned read pairs: 1 Number of well aligned read pairs: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 4 Number of retained reads: 6 Number of retained nucleotides: 534 Average length of retained reads: 89 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 2 2 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 1 1 0 0 2 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 2 0 0 0 2 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 0 0 100 0 2 0 0 2 your_output.sample_1.singleton.truncated000066400000000000000000000000001313314234200370400ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/defaultsyour_output.sample_2.discarded000066400000000000000000000000461313314234200350030ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/defaults@read_s2_000/1 + @read_s2_000/2 + your_output.sample_2.pair1.truncated000066400000000000000000000010771313314234200360720ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/defaults@read_s2_150/1 TGATCTCATACATTTAAACAAAGTATGCCTTACGCATGCCTTAATGATACGTAACCTAGGCAACAGAGTCTTTACTTGTACCTGCTACACAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 TCGCTAGCCCAAGATCACGCTTTCCGCGACGTTTTAGAGCGTGCATACCGGGGCGTTTCTCAGATAGGTATTTCA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s2_200/1 ACCCTCACGCTTGCACGACGACAGCGGTCCCCTATAAATGTATGTTGACGCAGCGAGAGGCCAGGACCCGGGCGTGTTACCACTAAGACCCT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.pair2.truncated000066400000000000000000000011371313314234200360700ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/defaults@read_s2_150/2 AGAACAGGATACAATGAAAATGCATCGCGTTGGCAACTCTCACCTTGCTCTTGGACCCGTGTGTAGCAGGTACAAGTAAAGACTCTGTTGCCTAGGTTAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/2 TGAAATACCTATCTGAGAAACGCCCCGGTATGCACGCTCTAAAACGTCGCGGAAAGCGTGATCTTGGGCTAGCGA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>> @read_s2_200/2 ATGCTGATTAGATATGTCTTTCATCGGCTTGTGACCGAGGAGTGGTACGGCCGTTCCATATTGGGTGATTAGGAAGATGTCCCGGCTTGCTGCTTCTCGT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.settings000066400000000000000000000052271313314234200347270ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/defaultsAdapterRemoval ver. 2.2.0 Trimming of single-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GCGCCGGA * sample_2* CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: ATGTCCTG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2459456692 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 4 Number of unaligned read pairs: 1 Number of well aligned read pairs: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 4 Number of retained reads: 6 Number of retained nucleotides: 534 Average length of retained reads: 89 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 2 2 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 1 1 0 0 2 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 2 0 0 0 2 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 0 0 100 0 2 0 0 2 your_output.sample_2.singleton.truncated000066400000000000000000000000001313314234200370410ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/defaultsadapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/defaults/your_output.settings000066400000000000000000000021321313314234200332750ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GCGCCGGA * sample_2 CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Demultiplexing statistics] Name Barcode_1 Barcode_2 Hits Fraction unidentified NA NA 0 0.000 ambiguous NA NA 0 0.000 sample_1 GCGCCGGA * 4 0.500 sample_2 CAGGACAT * 4 0.500 * * * 8 1.000 adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/defaults/your_output.unidentified_1000066400000000000000000000000001313314234200343140ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/defaults/your_output.unidentified_2000066400000000000000000000000001313314234200343150ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/demux_only/000077500000000000000000000000001313314234200274535ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/demux_only/barcodes.txt000066400000000000000000000000461313314234200317760ustar00rootroot00000000000000sample_1 GCGCCGGA sample_2 CAGGACAT adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/demux_only/info.json000066400000000000000000000001151313314234200312760ustar00rootroot00000000000000{ "arguments": ["--demultiplex-only"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/demux_only/input_1.fastq000066400000000000000000000033301313314234200320710ustar00rootroot00000000000000@read_s1_000/1 GCGCCGGAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_000/1 CAGGACATAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 GCGCCGGAGACGGTCCCATTAATGCACTATCGGATTTACACATTTGCGTGAATAAATCGACAGATGAATCATTAAGCTCCTACAGATCGGAAGAGCACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 CAGGACATTGATCTCATACATTTAAACAAAGTATGCCTTACGCATGCCTTAATGATACGTAACCTAGGCAACAGAGTCTTTACTTGTACCTGCTACACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 GCGCCGGATCCATCAGGATCGTATTATACTAAGCTAGGACTGTGCAGTGCACAGAGAGGAGATGACCATGATCCTCGAGCAAGTTGCCGCAGGCTCGGGC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 GCGCCGGATGCACCGTAGCCATATGGGCTGTTGGGGACACAGGGCGTCGGCATTCCTTTATTACTGACGCCGCTAGAGTCTATGCAAGGTTATAACGTAT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 CAGGACATTCGCTAGCCCAAGATCACGCTTTCCGCGACGTTTTAGAGCGTGCATACCGGGGCGTTTCTCAGATAGGTATTTCAAGATCGGAAGAGCACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 CAGGACATACCCTCACGCTTGCACGACGACAGCGGTCCCCTATAAATGTATGTTGACGCAGCGAGAGGCCAGGACCCGGGCGTGTTACCACTAAGACCCT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/demux_only/input_2.fastq000066400000000000000000000033301313314234200320720ustar00rootroot00000000000000@read_s1_000/2 TCCGGCGCAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_000/2 ATGTCCTGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/2 GTAGGAGCTTAATGATTCATCTGTCGATTTATTCACGCAAATGTGTAAATCCGATAGTGCATTAATGGGACCGTCTCCGGCGCAGATCGGAAGAGCGTCG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/2 AGAACAGGATACAATGAAAATGCATCGCGTTGGCAACTCTCACCTTGCTCTTGGACCCGTGTGTAGCAGGTACAAGTAAAGACTCTGTTGCCTAGGTTAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/2 CCTTCTTATGCTCGACTGGCTCTGTATAAGCCCAAGACATTATGAAAGGTCTCGCGTTTGTCTACCAGGCTCCGTTACGGATACAAGTGCCCTACTGTCA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/2 ATCAAGGGAGGTCACGTGAATTTTGCCTTCTAGACTAGCGTACATGACCGCGAATTAGATACGTTATAACCTTGCATAGACTCTAGCGGCGTCAGTAATA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/2 TGAAATACCTATCTGAGAAACGCCCCGGTATGCACGCTCTAAAACGTCGCGGAAAGCGTGATCTTGGGCTAGCGAATGTCCTGAGATCGGAAGAGCGTCG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/2 ATGCTGATTAGATATGTCTTTCATCGGCTTGTGACCGAGGAGTGGTACGGCCGTTCCATATTGGGTGATTAGGAAGATGTCCCGGCTTGCTGCTTCTCGT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.pair1.fastq000066400000000000000000000014541313314234200355710ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/demux_only@read_s1_000/1 AGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 GACGGTCCCATTAATGCACTATCGGATTTACACATTTGCGTGAATAAATCGACAGATGAATCATTAAGCTCCTACAGATCGGAAGAGCACAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 TCCATCAGGATCGTATTATACTAAGCTAGGACTGTGCAGTGCACAGAGAGGAGATGACCATGATCCTCGAGCAAGTTGCCGCAGGCTCGGGC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 TGCACCGTAGCCATATGGGCTGTTGGGGACACAGGGCGTCGGCATTCCTTTATTACTGACGCCGCTAGAGTCTATGCAAGGTTATAACGTAT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.pair2.fastq000066400000000000000000000015541313314234200355730ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/demux_only@read_s1_000/2 TCCGGCGCAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/2 GTAGGAGCTTAATGATTCATCTGTCGATTTATTCACGCAAATGTGTAAATCCGATAGTGCATTAATGGGACCGTCTCCGGCGCAGATCGGAAGAGCGTCG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/2 CCTTCTTATGCTCGACTGGCTCTGTATAAGCCCAAGACATTATGAAAGGTCTCGCGTTTGTCTACCAGGCTCCGTTACGGATACAAGTGCCCTACTGTCA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/2 ATCAAGGGAGGTCACGTGAATTTTGCCTTCTAGACTAGCGTACATGACCGCGAATTAGATACGTTATAACCTTGCATAGACTCTAGCGGCGTCAGTAATA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.settings000066400000000000000000000007111313314234200352730ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/demux_onlyAdapterRemoval ver. 2.2.0 Demultiplexing of single-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1* GCGCCGGA * sample_2 CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: TCCGGCGC_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT your_output.sample_2.pair1.fastq000066400000000000000000000014541313314234200355720ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/demux_only@read_s2_000/1 AGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 TGATCTCATACATTTAAACAAAGTATGCCTTACGCATGCCTTAATGATACGTAACCTAGGCAACAGAGTCTTTACTTGTACCTGCTACACAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 TCGCTAGCCCAAGATCACGCTTTCCGCGACGTTTTAGAGCGTGCATACCGGGGCGTTTCTCAGATAGGTATTTCAAGATCGGAAGAGCACAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 ACCCTCACGCTTGCACGACGACAGCGGTCCCCTATAAATGTATGTTGACGCAGCGAGAGGCCAGGACCCGGGCGTGTTACCACTAAGACCCT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.pair2.fastq000066400000000000000000000015541313314234200355740ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/demux_only@read_s2_000/2 ATGTCCTGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/2 AGAACAGGATACAATGAAAATGCATCGCGTTGGCAACTCTCACCTTGCTCTTGGACCCGTGTGTAGCAGGTACAAGTAAAGACTCTGTTGCCTAGGTTAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/2 TGAAATACCTATCTGAGAAACGCCCCGGTATGCACGCTCTAAAACGTCGCGGAAAGCGTGATCTTGGGCTAGCGAATGTCCTGAGATCGGAAGAGCGTCG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/2 ATGCTGATTAGATATGTCTTTCATCGGCTTGTGACCGAGGAGTGGTACGGCCGTTCCATATTGGGTGATTAGGAAGATGTCCCGGCTTGCTGCTTCTCGT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.settings000066400000000000000000000007111313314234200352740ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/demux_onlyAdapterRemoval ver. 2.2.0 Demultiplexing of single-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GCGCCGGA * sample_2* CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: ATGTCCTG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/demux_only/your_output.settings000066400000000000000000000011751313314234200336570ustar00rootroot00000000000000AdapterRemoval ver. 2.2.0 Demultiplexing of single-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GCGCCGGA * sample_2 CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Demultiplexing statistics] Name Barcode_1 Barcode_2 Hits Fraction unidentified NA NA 0 0.000 ambiguous NA NA 0 0.000 sample_1 GCGCCGGA * 4 0.500 sample_2 CAGGACAT * 4 0.500 * * * 8 1.000 your_output.unidentified_1.fastq000066400000000000000000000000001313314234200357260ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/demux_onlyyour_output.unidentified_2.fastq000066400000000000000000000000001313314234200357270ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/demux_onlyadapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/interleaved/000077500000000000000000000000001313314234200275725ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/interleaved/both/000077500000000000000000000000001313314234200305265ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/interleaved/both/barcodes.txt000066400000000000000000000000461313314234200330510ustar00rootroot00000000000000sample_1 GCGCCGGA sample_2 CAGGACAT adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/interleaved/both/info.json000066400000000000000000000001101313314234200323440ustar00rootroot00000000000000{ "arguments": ["--interleaved"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/interleaved/both/input_1.fastq000066400000000000000000000066601313314234200331550ustar00rootroot00000000000000@read_s1_000/1 GCGCCGGAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_000/2 TCCGGCGCAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_000/1 CAGGACATAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_000/2 ATGTCCTGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 GCGCCGGAGACGGTCCCATTAATGCACTATCGGATTTACACATTTGCGTGAATAAATCGACAGATGAATCATTAAGCTCCTACAGATCGGAAGAGCACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/2 GTAGGAGCTTAATGATTCATCTGTCGATTTATTCACGCAAATGTGTAAATCCGATAGTGCATTAATGGGACCGTCTCCGGCGCAGATCGGAAGAGCGTCG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 CAGGACATTGATCTCATACATTTAAACAAAGTATGCCTTACGCATGCCTTAATGATACGTAACCTAGGCAACAGAGTCTTTACTTGTACCTGCTACACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/2 AGAACAGGATACAATGAAAATGCATCGCGTTGGCAACTCTCACCTTGCTCTTGGACCCGTGTGTAGCAGGTACAAGTAAAGACTCTGTTGCCTAGGTTAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 GCGCCGGATCCATCAGGATCGTATTATACTAAGCTAGGACTGTGCAGTGCACAGAGAGGAGATGACCATGATCCTCGAGCAAGTTGCCGCAGGCTCGGGC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/2 CCTTCTTATGCTCGACTGGCTCTGTATAAGCCCAAGACATTATGAAAGGTCTCGCGTTTGTCTACCAGGCTCCGTTACGGATACAAGTGCCCTACTGTCA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 GCGCCGGATGCACCGTAGCCATATGGGCTGTTGGGGACACAGGGCGTCGGCATTCCTTTATTACTGACGCCGCTAGAGTCTATGCAAGGTTATAACGTAT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/2 ATCAAGGGAGGTCACGTGAATTTTGCCTTCTAGACTAGCGTACATGACCGCGAATTAGATACGTTATAACCTTGCATAGACTCTAGCGGCGTCAGTAATA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 CAGGACATTCGCTAGCCCAAGATCACGCTTTCCGCGACGTTTTAGAGCGTGCATACCGGGGCGTTTCTCAGATAGGTATTTCAAGATCGGAAGAGCACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/2 TGAAATACCTATCTGAGAAACGCCCCGGTATGCACGCTCTAAAACGTCGCGGAAAGCGTGATCTTGGGCTAGCGAATGTCCTGAGATCGGAAGAGCGTCG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 CAGGACATACCCTCACGCTTGCACGACGACAGCGGTCCCCTATAAATGTATGTTGACGCAGCGAGAGGCCAGGACCCGGGCGTGTTACCACTAAGACCCT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/2 ATGCTGATTAGATATGTCTTTCATCGGCTTGTGACCGAGGAGTGGTACGGCCGTTCCATATTGGGTGATTAGGAAGATGTCCCGGCTTGCTGCTTCTCGT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.discarded000066400000000000000000000000461313314234200364310ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/interleaved/both@read_s1_000/1 + @read_s1_000/2 + your_output.sample_1.paired.truncated000066400000000000000000000022361313314234200377460ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/interleaved/both@read_s1_075/1 GACGGTCCCATTAATGCACTATCGGATTTACACATTTGCGTGAATAAATCGACAGATGAATCATTAAGCTCCTAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s1_075/2 GTAGGAGCTTAATGATTCATCTGTCGATTTATTCACGCAAATGTGTAAATCCGATAGTGCATTAATGGGACCGTC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>> @read_s1_200/1 TCCATCAGGATCGTATTATACTAAGCTAGGACTGTGCAGTGCACAGAGAGGAGATGACCATGATCCTCGAGCAAGTTGCCGCAGGCTCGGGC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/2 CCTTCTTATGCTCGACTGGCTCTGTATAAGCCCAAGACATTATGAAAGGTCTCGCGTTTGTCTACCAGGCTCCGTTACGGATACAAGTGCCCTACTGTCA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 TGCACCGTAGCCATATGGGCTGTTGGGGACACAGGGCGTCGGCATTCCTTTATTACTGACGCCGCTAGAGTCTATGCAAGGTTATAACGTAT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/2 ATCAAGGGAGGTCACGTGAATTTTGCCTTCTAGACTAGCGTACATGACCGCGAATTAGATACGTTATAACCTTGCATAGACTCTAGCGGCGTCAGTAATA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.settings000066400000000000000000000052271313314234200363550ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/interleaved/bothAdapterRemoval ver. 2.2.0 Trimming of single-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1* GCGCCGGA * sample_2 CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: TCCGGCGC_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2459456692 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 4 Number of unaligned read pairs: 1 Number of well aligned read pairs: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 4 Number of retained reads: 6 Number of retained nucleotides: 534 Average length of retained reads: 89 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 2 2 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 1 1 0 0 2 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 2 0 0 0 2 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 0 0 100 0 2 0 0 2 your_output.sample_1.singleton.truncated000066400000000000000000000000001313314234200404670ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/interleaved/bothyour_output.sample_2.discarded000066400000000000000000000000461313314234200364320ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/interleaved/both@read_s2_000/1 + @read_s2_000/2 + your_output.sample_2.paired.truncated000066400000000000000000000022361313314234200377470ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/interleaved/both@read_s2_150/1 TGATCTCATACATTTAAACAAAGTATGCCTTACGCATGCCTTAATGATACGTAACCTAGGCAACAGAGTCTTTACTTGTACCTGCTACACAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/2 AGAACAGGATACAATGAAAATGCATCGCGTTGGCAACTCTCACCTTGCTCTTGGACCCGTGTGTAGCAGGTACAAGTAAAGACTCTGTTGCCTAGGTTAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 TCGCTAGCCCAAGATCACGCTTTCCGCGACGTTTTAGAGCGTGCATACCGGGGCGTTTCTCAGATAGGTATTTCA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s2_075/2 TGAAATACCTATCTGAGAAACGCCCCGGTATGCACGCTCTAAAACGTCGCGGAAAGCGTGATCTTGGGCTAGCGA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>> @read_s2_200/1 ACCCTCACGCTTGCACGACGACAGCGGTCCCCTATAAATGTATGTTGACGCAGCGAGAGGCCAGGACCCGGGCGTGTTACCACTAAGACCCT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/2 ATGCTGATTAGATATGTCTTTCATCGGCTTGTGACCGAGGAGTGGTACGGCCGTTCCATATTGGGTGATTAGGAAGATGTCCCGGCTTGCTGCTTCTCGT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.settings000066400000000000000000000052271313314234200363560ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/interleaved/bothAdapterRemoval ver. 2.2.0 Trimming of single-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GCGCCGGA * sample_2* CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: ATGTCCTG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2459456692 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 4 Number of unaligned read pairs: 1 Number of well aligned read pairs: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 4 Number of retained reads: 6 Number of retained nucleotides: 534 Average length of retained reads: 89 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 2 2 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 1 1 0 0 2 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 2 0 0 0 2 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 0 0 100 0 2 0 0 2 your_output.sample_2.singleton.truncated000066400000000000000000000000001313314234200404700ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/interleaved/bothyour_output.settings000066400000000000000000000021321313314234200346450ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/interleaved/bothAdapterRemoval ver. 2.1.7 Trimming of single-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GCGCCGGA * sample_2 CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Demultiplexing statistics] Name Barcode_1 Barcode_2 Hits Fraction unidentified NA NA 0 0.000 ambiguous NA NA 0 0.000 sample_1 GCGCCGGA * 4 0.500 sample_2 CAGGACAT * 4 0.500 * * * 8 1.000 your_output.unidentified.paired000066400000000000000000000000001313314234200367070ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/interleaved/bothadapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/interleaved/output/000077500000000000000000000000001313314234200311325ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/interleaved/output/barcodes.txt000066400000000000000000000000461313314234200334550ustar00rootroot00000000000000sample_1 GCGCCGGA sample_2 CAGGACAT adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/interleaved/output/info.json000066400000000000000000000001171313314234200327570ustar00rootroot00000000000000{ "arguments": ["--interleaved-output"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/interleaved/output/input_1.fastq000066400000000000000000000033301313314234200335500ustar00rootroot00000000000000@read_s1_000/1 GCGCCGGAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_000/1 CAGGACATAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 GCGCCGGAGACGGTCCCATTAATGCACTATCGGATTTACACATTTGCGTGAATAAATCGACAGATGAATCATTAAGCTCCTACAGATCGGAAGAGCACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 CAGGACATTGATCTCATACATTTAAACAAAGTATGCCTTACGCATGCCTTAATGATACGTAACCTAGGCAACAGAGTCTTTACTTGTACCTGCTACACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 GCGCCGGATCCATCAGGATCGTATTATACTAAGCTAGGACTGTGCAGTGCACAGAGAGGAGATGACCATGATCCTCGAGCAAGTTGCCGCAGGCTCGGGC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 GCGCCGGATGCACCGTAGCCATATGGGCTGTTGGGGACACAGGGCGTCGGCATTCCTTTATTACTGACGCCGCTAGAGTCTATGCAAGGTTATAACGTAT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 CAGGACATTCGCTAGCCCAAGATCACGCTTTCCGCGACGTTTTAGAGCGTGCATACCGGGGCGTTTCTCAGATAGGTATTTCAAGATCGGAAGAGCACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 CAGGACATACCCTCACGCTTGCACGACGACAGCGGTCCCCTATAAATGTATGTTGACGCAGCGAGAGGCCAGGACCCGGGCGTGTTACCACTAAGACCCT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/interleaved/output/input_2.fastq000066400000000000000000000033301313314234200335510ustar00rootroot00000000000000@read_s1_000/2 TCCGGCGCAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_000/2 ATGTCCTGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/2 GTAGGAGCTTAATGATTCATCTGTCGATTTATTCACGCAAATGTGTAAATCCGATAGTGCATTAATGGGACCGTCTCCGGCGCAGATCGGAAGAGCGTCG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/2 AGAACAGGATACAATGAAAATGCATCGCGTTGGCAACTCTCACCTTGCTCTTGGACCCGTGTGTAGCAGGTACAAGTAAAGACTCTGTTGCCTAGGTTAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/2 CCTTCTTATGCTCGACTGGCTCTGTATAAGCCCAAGACATTATGAAAGGTCTCGCGTTTGTCTACCAGGCTCCGTTACGGATACAAGTGCCCTACTGTCA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/2 ATCAAGGGAGGTCACGTGAATTTTGCCTTCTAGACTAGCGTACATGACCGCGAATTAGATACGTTATAACCTTGCATAGACTCTAGCGGCGTCAGTAATA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/2 TGAAATACCTATCTGAGAAACGCCCCGGTATGCACGCTCTAAAACGTCGCGGAAAGCGTGATCTTGGGCTAGCGAATGTCCTGAGATCGGAAGAGCGTCG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/2 ATGCTGATTAGATATGTCTTTCATCGGCTTGTGACCGAGGAGTGGTACGGCCGTTCCATATTGGGTGATTAGGAAGATGTCCCGGCTTGCTGCTTCTCGT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.discarded000066400000000000000000000000461313314234200370350ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/interleaved/output@read_s1_000/1 + @read_s1_000/2 + your_output.sample_1.paired.truncated000066400000000000000000000022361313314234200403520ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/interleaved/output@read_s1_075/1 GACGGTCCCATTAATGCACTATCGGATTTACACATTTGCGTGAATAAATCGACAGATGAATCATTAAGCTCCTAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s1_075/2 GTAGGAGCTTAATGATTCATCTGTCGATTTATTCACGCAAATGTGTAAATCCGATAGTGCATTAATGGGACCGTC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>> @read_s1_200/1 TCCATCAGGATCGTATTATACTAAGCTAGGACTGTGCAGTGCACAGAGAGGAGATGACCATGATCCTCGAGCAAGTTGCCGCAGGCTCGGGC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/2 CCTTCTTATGCTCGACTGGCTCTGTATAAGCCCAAGACATTATGAAAGGTCTCGCGTTTGTCTACCAGGCTCCGTTACGGATACAAGTGCCCTACTGTCA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 TGCACCGTAGCCATATGGGCTGTTGGGGACACAGGGCGTCGGCATTCCTTTATTACTGACGCCGCTAGAGTCTATGCAAGGTTATAACGTAT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/2 ATCAAGGGAGGTCACGTGAATTTTGCCTTCTAGACTAGCGTACATGACCGCGAATTAGATACGTTATAACCTTGCATAGACTCTAGCGGCGTCAGTAATA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.settings000066400000000000000000000052271313314234200367610ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/interleaved/outputAdapterRemoval ver. 2.2.0 Trimming of single-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1* GCGCCGGA * sample_2 CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: TCCGGCGC_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2459456692 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 4 Number of unaligned read pairs: 1 Number of well aligned read pairs: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 4 Number of retained reads: 6 Number of retained nucleotides: 534 Average length of retained reads: 89 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 2 2 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 1 1 0 0 2 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 2 0 0 0 2 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 0 0 100 0 2 0 0 2 your_output.sample_1.singleton.truncated000066400000000000000000000000001313314234200410730ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/interleaved/outputyour_output.sample_2.discarded000066400000000000000000000000461313314234200370360ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/interleaved/output@read_s2_000/1 + @read_s2_000/2 + your_output.sample_2.paired.truncated000066400000000000000000000022361313314234200403530ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/interleaved/output@read_s2_150/1 TGATCTCATACATTTAAACAAAGTATGCCTTACGCATGCCTTAATGATACGTAACCTAGGCAACAGAGTCTTTACTTGTACCTGCTACACAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/2 AGAACAGGATACAATGAAAATGCATCGCGTTGGCAACTCTCACCTTGCTCTTGGACCCGTGTGTAGCAGGTACAAGTAAAGACTCTGTTGCCTAGGTTAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 TCGCTAGCCCAAGATCACGCTTTCCGCGACGTTTTAGAGCGTGCATACCGGGGCGTTTCTCAGATAGGTATTTCA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s2_075/2 TGAAATACCTATCTGAGAAACGCCCCGGTATGCACGCTCTAAAACGTCGCGGAAAGCGTGATCTTGGGCTAGCGA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>> @read_s2_200/1 ACCCTCACGCTTGCACGACGACAGCGGTCCCCTATAAATGTATGTTGACGCAGCGAGAGGCCAGGACCCGGGCGTGTTACCACTAAGACCCT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/2 ATGCTGATTAGATATGTCTTTCATCGGCTTGTGACCGAGGAGTGGTACGGCCGTTCCATATTGGGTGATTAGGAAGATGTCCCGGCTTGCTGCTTCTCGT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.settings000066400000000000000000000052271313314234200367620ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/interleaved/outputAdapterRemoval ver. 2.2.0 Trimming of single-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GCGCCGGA * sample_2* CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: ATGTCCTG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2459456692 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 4 Number of unaligned read pairs: 1 Number of well aligned read pairs: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 4 Number of retained reads: 6 Number of retained nucleotides: 534 Average length of retained reads: 89 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 2 2 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 1 1 0 0 2 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 2 0 0 0 2 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 0 0 100 0 2 0 0 2 your_output.sample_2.singleton.truncated000066400000000000000000000000001313314234200410740ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/interleaved/outputyour_output.settings000066400000000000000000000021321313314234200352510ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/interleaved/outputAdapterRemoval ver. 2.1.7 Trimming of single-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GCGCCGGA * sample_2 CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Demultiplexing statistics] Name Barcode_1 Barcode_2 Hits Fraction unidentified NA NA 0 0.000 ambiguous NA NA 0 0.000 sample_1 GCGCCGGA * 4 0.500 sample_2 CAGGACAT * 4 0.500 * * * 8 1.000 your_output.unidentified.paired000066400000000000000000000000001313314234200373130ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/interleaved/outputadapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/multiple_input/000077500000000000000000000000001313314234200303425ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/multiple_input/barcodes.txt000066400000000000000000000000461313314234200326650ustar00rootroot00000000000000sample_1 GCGCCGGA sample_2 CAGGACAT adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/multiple_input/info.json000066400000000000000000000000711313314234200321660ustar00rootroot00000000000000{ "arguments": [], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/multiple_input/input_1a.fastq000066400000000000000000000012211313314234200331160ustar00rootroot00000000000000@read_s1_000/1 GCGCCGGAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_000/1 CAGGACATAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 GCGCCGGAGACGGTCCCATTAATGCACTATCGGATTTACACATTTGCGTGAATAAATCGACAGATGAATCATTAAGCTCCTACAGATCGGAAGAGCACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/multiple_input/input_1b.fastq000066400000000000000000000012211313314234200331170ustar00rootroot00000000000000@read_s2_150/1 CAGGACATTGATCTCATACATTTAAACAAAGTATGCCTTACGCATGCCTTAATGATACGTAACCTAGGCAACAGAGTCTTTACTTGTACCTGCTACACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 GCGCCGGATCCATCAGGATCGTATTATACTAAGCTAGGACTGTGCAGTGCACAGAGAGGAGATGACCATGATCCTCGAGCAAGTTGCCGCAGGCTCGGGC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 GCGCCGGATGCACCGTAGCCATATGGGCTGTTGGGGACACAGGGCGTCGGCATTCCTTTATTACTGACGCCGCTAGAGTCTATGCAAGGTTATAACGTAT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/multiple_input/input_1c.fastq000066400000000000000000000006661313314234200331340ustar00rootroot00000000000000@read_s2_075/1 CAGGACATTCGCTAGCCCAAGATCACGCTTTCCGCGACGTTTTAGAGCGTGCATACCGGGGCGTTTCTCAGATAGGTATTTCAAGATCGGAAGAGCACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 CAGGACATACCCTCACGCTTGCACGACGACAGCGGTCCCCTATAAATGTATGTTGACGCAGCGAGAGGCCAGGACCCGGGCGTGTTACCACTAAGACCCT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/multiple_input/input_2a.fastq000066400000000000000000000012211313314234200331170ustar00rootroot00000000000000@read_s1_000/2 TCCGGCGCAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_000/2 ATGTCCTGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/2 GTAGGAGCTTAATGATTCATCTGTCGATTTATTCACGCAAATGTGTAAATCCGATAGTGCATTAATGGGACCGTCTCCGGCGCAGATCGGAAGAGCGTCG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/multiple_input/input_2b.fastq000066400000000000000000000012211313314234200331200ustar00rootroot00000000000000@read_s2_150/2 AGAACAGGATACAATGAAAATGCATCGCGTTGGCAACTCTCACCTTGCTCTTGGACCCGTGTGTAGCAGGTACAAGTAAAGACTCTGTTGCCTAGGTTAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/2 CCTTCTTATGCTCGACTGGCTCTGTATAAGCCCAAGACATTATGAAAGGTCTCGCGTTTGTCTACCAGGCTCCGTTACGGATACAAGTGCCCTACTGTCA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/2 ATCAAGGGAGGTCACGTGAATTTTGCCTTCTAGACTAGCGTACATGACCGCGAATTAGATACGTTATAACCTTGCATAGACTCTAGCGGCGTCAGTAATA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/multiple_input/input_2c.fastq000066400000000000000000000006661313314234200331350ustar00rootroot00000000000000@read_s2_075/2 TGAAATACCTATCTGAGAAACGCCCCGGTATGCACGCTCTAAAACGTCGCGGAAAGCGTGATCTTGGGCTAGCGAATGTCCTGAGATCGGAAGAGCGTCG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/2 ATGCTGATTAGATATGTCTTTCATCGGCTTGTGACCGAGGAGTGGTACGGCCGTTCCATATTGGGTGATTAGGAAGATGTCCCGGCTTGCTGCTTCTCGT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.discarded000066400000000000000000000000461313314234200362450ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/multiple_input@read_s1_000/1 + @read_s1_000/2 + your_output.sample_1.pair1.truncated000066400000000000000000000010771313314234200373340ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/multiple_input@read_s1_075/1 GACGGTCCCATTAATGCACTATCGGATTTACACATTTGCGTGAATAAATCGACAGATGAATCATTAAGCTCCTAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s1_200/1 TCCATCAGGATCGTATTATACTAAGCTAGGACTGTGCAGTGCACAGAGAGGAGATGACCATGATCCTCGAGCAAGTTGCCGCAGGCTCGGGC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 TGCACCGTAGCCATATGGGCTGTTGGGGACACAGGGCGTCGGCATTCCTTTATTACTGACGCCGCTAGAGTCTATGCAAGGTTATAACGTAT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.pair2.truncated000066400000000000000000000011371313314234200373320ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/multiple_input@read_s1_075/2 GTAGGAGCTTAATGATTCATCTGTCGATTTATTCACGCAAATGTGTAAATCCGATAGTGCATTAATGGGACCGTC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>> @read_s1_200/2 CCTTCTTATGCTCGACTGGCTCTGTATAAGCCCAAGACATTATGAAAGGTCTCGCGTTTGTCTACCAGGCTCCGTTACGGATACAAGTGCCCTACTGTCA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/2 ATCAAGGGAGGTCACGTGAATTTTGCCTTCTAGACTAGCGTACATGACCGCGAATTAGATACGTTATAACCTTGCATAGACTCTAGCGGCGTCAGTAATA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.settings000066400000000000000000000052271313314234200361710ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/multiple_inputAdapterRemoval ver. 2.2.0 Trimming of single-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1* GCGCCGGA * sample_2 CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: TCCGGCGC_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2459456692 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 4 Number of unaligned read pairs: 1 Number of well aligned read pairs: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 4 Number of retained reads: 6 Number of retained nucleotides: 534 Average length of retained reads: 89 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 2 2 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 1 1 0 0 2 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 2 0 0 0 2 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 0 0 100 0 2 0 0 2 your_output.sample_1.singleton.truncated000066400000000000000000000000001313314234200403030ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/multiple_inputyour_output.sample_2.discarded000066400000000000000000000000461313314234200362460ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/multiple_input@read_s2_000/1 + @read_s2_000/2 + your_output.sample_2.pair1.truncated000066400000000000000000000010771313314234200373350ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/multiple_input@read_s2_150/1 TGATCTCATACATTTAAACAAAGTATGCCTTACGCATGCCTTAATGATACGTAACCTAGGCAACAGAGTCTTTACTTGTACCTGCTACACAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 TCGCTAGCCCAAGATCACGCTTTCCGCGACGTTTTAGAGCGTGCATACCGGGGCGTTTCTCAGATAGGTATTTCA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s2_200/1 ACCCTCACGCTTGCACGACGACAGCGGTCCCCTATAAATGTATGTTGACGCAGCGAGAGGCCAGGACCCGGGCGTGTTACCACTAAGACCCT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.pair2.truncated000066400000000000000000000011371313314234200373330ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/multiple_input@read_s2_150/2 AGAACAGGATACAATGAAAATGCATCGCGTTGGCAACTCTCACCTTGCTCTTGGACCCGTGTGTAGCAGGTACAAGTAAAGACTCTGTTGCCTAGGTTAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/2 TGAAATACCTATCTGAGAAACGCCCCGGTATGCACGCTCTAAAACGTCGCGGAAAGCGTGATCTTGGGCTAGCGA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>> @read_s2_200/2 ATGCTGATTAGATATGTCTTTCATCGGCTTGTGACCGAGGAGTGGTACGGCCGTTCCATATTGGGTGATTAGGAAGATGTCCCGGCTTGCTGCTTCTCGT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.settings000066400000000000000000000052271313314234200361720ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/multiple_inputAdapterRemoval ver. 2.2.0 Trimming of single-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GCGCCGGA * sample_2* CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: ATGTCCTG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2459456692 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 4 Number of unaligned read pairs: 1 Number of well aligned read pairs: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 4 Number of retained reads: 6 Number of retained nucleotides: 534 Average length of retained reads: 89 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 2 2 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 1 1 0 0 2 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 2 0 0 0 2 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 0 0 100 0 2 0 0 2 your_output.sample_2.singleton.truncated000066400000000000000000000000001313314234200403040ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/multiple_inputadapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/multiple_input/your_output.settings000066400000000000000000000021321313314234200345400ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GCGCCGGA * sample_2 CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Demultiplexing statistics] Name Barcode_1 Barcode_2 Hits Fraction unidentified NA NA 0 0.000 ambiguous NA NA 0 0.000 sample_1 GCGCCGGA * 4 0.500 sample_2 CAGGACAT * 4 0.500 * * * 8 1.000 your_output.unidentified_1000066400000000000000000000000001313314234200355000ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/multiple_inputyour_output.unidentified_2000066400000000000000000000000001313314234200355010ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/multiple_inputadapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/000077500000000000000000000000001313314234200267225ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/one/000077500000000000000000000000001313314234200275035ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/one/barcodes.txt000066400000000000000000000000461313314234200320260ustar00rootroot00000000000000sample_1 GCGCCGGA sample_2 CAGGACAT adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/one/info.json000066400000000000000000000001111313314234200313220ustar00rootroot00000000000000{ "arguments": ["--threads", "1"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/one/input_1.fastq000066400000000000000000000033301313314234200321210ustar00rootroot00000000000000@read_s1_000/1 GCGCCGGAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_000/1 CAGGACATAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 GCGCCGGAGACGGTCCCATTAATGCACTATCGGATTTACACATTTGCGTGAATAAATCGACAGATGAATCATTAAGCTCCTACAGATCGGAAGAGCACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 CAGGACATTGATCTCATACATTTAAACAAAGTATGCCTTACGCATGCCTTAATGATACGTAACCTAGGCAACAGAGTCTTTACTTGTACCTGCTACACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 GCGCCGGATCCATCAGGATCGTATTATACTAAGCTAGGACTGTGCAGTGCACAGAGAGGAGATGACCATGATCCTCGAGCAAGTTGCCGCAGGCTCGGGC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 GCGCCGGATGCACCGTAGCCATATGGGCTGTTGGGGACACAGGGCGTCGGCATTCCTTTATTACTGACGCCGCTAGAGTCTATGCAAGGTTATAACGTAT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 CAGGACATTCGCTAGCCCAAGATCACGCTTTCCGCGACGTTTTAGAGCGTGCATACCGGGGCGTTTCTCAGATAGGTATTTCAAGATCGGAAGAGCACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 CAGGACATACCCTCACGCTTGCACGACGACAGCGGTCCCCTATAAATGTATGTTGACGCAGCGAGAGGCCAGGACCCGGGCGTGTTACCACTAAGACCCT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/one/input_2.fastq000066400000000000000000000033301313314234200321220ustar00rootroot00000000000000@read_s1_000/2 TCCGGCGCAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_000/2 ATGTCCTGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/2 GTAGGAGCTTAATGATTCATCTGTCGATTTATTCACGCAAATGTGTAAATCCGATAGTGCATTAATGGGACCGTCTCCGGCGCAGATCGGAAGAGCGTCG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/2 AGAACAGGATACAATGAAAATGCATCGCGTTGGCAACTCTCACCTTGCTCTTGGACCCGTGTGTAGCAGGTACAAGTAAAGACTCTGTTGCCTAGGTTAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/2 CCTTCTTATGCTCGACTGGCTCTGTATAAGCCCAAGACATTATGAAAGGTCTCGCGTTTGTCTACCAGGCTCCGTTACGGATACAAGTGCCCTACTGTCA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/2 ATCAAGGGAGGTCACGTGAATTTTGCCTTCTAGACTAGCGTACATGACCGCGAATTAGATACGTTATAACCTTGCATAGACTCTAGCGGCGTCAGTAATA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/2 TGAAATACCTATCTGAGAAACGCCCCGGTATGCACGCTCTAAAACGTCGCGGAAAGCGTGATCTTGGGCTAGCGAATGTCCTGAGATCGGAAGAGCGTCG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/2 ATGCTGATTAGATATGTCTTTCATCGGCTTGTGACCGAGGAGTGGTACGGCCGTTCCATATTGGGTGATTAGGAAGATGTCCCGGCTTGCTGCTTCTCGT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.discarded000066400000000000000000000000461313314234200354060ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/one@read_s1_000/1 + @read_s1_000/2 + your_output.sample_1.pair1.truncated000066400000000000000000000010771313314234200364750ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/one@read_s1_075/1 GACGGTCCCATTAATGCACTATCGGATTTACACATTTGCGTGAATAAATCGACAGATGAATCATTAAGCTCCTAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s1_200/1 TCCATCAGGATCGTATTATACTAAGCTAGGACTGTGCAGTGCACAGAGAGGAGATGACCATGATCCTCGAGCAAGTTGCCGCAGGCTCGGGC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 TGCACCGTAGCCATATGGGCTGTTGGGGACACAGGGCGTCGGCATTCCTTTATTACTGACGCCGCTAGAGTCTATGCAAGGTTATAACGTAT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.pair2.truncated000066400000000000000000000011371313314234200364730ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/one@read_s1_075/2 GTAGGAGCTTAATGATTCATCTGTCGATTTATTCACGCAAATGTGTAAATCCGATAGTGCATTAATGGGACCGTC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>> @read_s1_200/2 CCTTCTTATGCTCGACTGGCTCTGTATAAGCCCAAGACATTATGAAAGGTCTCGCGTTTGTCTACCAGGCTCCGTTACGGATACAAGTGCCCTACTGTCA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/2 ATCAAGGGAGGTCACGTGAATTTTGCCTTCTAGACTAGCGTACATGACCGCGAATTAGATACGTTATAACCTTGCATAGACTCTAGCGGCGTCAGTAATA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.settings000066400000000000000000000052271313314234200353320ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/oneAdapterRemoval ver. 2.2.0 Trimming of single-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1* GCGCCGGA * sample_2 CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: TCCGGCGC_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2459456692 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 4 Number of unaligned read pairs: 1 Number of well aligned read pairs: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 4 Number of retained reads: 6 Number of retained nucleotides: 534 Average length of retained reads: 89 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 2 2 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 1 1 0 0 2 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 2 0 0 0 2 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 0 0 100 0 2 0 0 2 your_output.sample_1.singleton.truncated000066400000000000000000000000001313314234200374440ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/oneyour_output.sample_2.discarded000066400000000000000000000000461313314234200354070ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/one@read_s2_000/1 + @read_s2_000/2 + your_output.sample_2.pair1.truncated000066400000000000000000000010771313314234200364760ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/one@read_s2_150/1 TGATCTCATACATTTAAACAAAGTATGCCTTACGCATGCCTTAATGATACGTAACCTAGGCAACAGAGTCTTTACTTGTACCTGCTACACAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 TCGCTAGCCCAAGATCACGCTTTCCGCGACGTTTTAGAGCGTGCATACCGGGGCGTTTCTCAGATAGGTATTTCA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s2_200/1 ACCCTCACGCTTGCACGACGACAGCGGTCCCCTATAAATGTATGTTGACGCAGCGAGAGGCCAGGACCCGGGCGTGTTACCACTAAGACCCT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.pair2.truncated000066400000000000000000000011371313314234200364740ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/one@read_s2_150/2 AGAACAGGATACAATGAAAATGCATCGCGTTGGCAACTCTCACCTTGCTCTTGGACCCGTGTGTAGCAGGTACAAGTAAAGACTCTGTTGCCTAGGTTAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/2 TGAAATACCTATCTGAGAAACGCCCCGGTATGCACGCTCTAAAACGTCGCGGAAAGCGTGATCTTGGGCTAGCGA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>> @read_s2_200/2 ATGCTGATTAGATATGTCTTTCATCGGCTTGTGACCGAGGAGTGGTACGGCCGTTCCATATTGGGTGATTAGGAAGATGTCCCGGCTTGCTGCTTCTCGT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.settings000066400000000000000000000052271313314234200353330ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/oneAdapterRemoval ver. 2.2.0 Trimming of single-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GCGCCGGA * sample_2* CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: ATGTCCTG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2459456692 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 4 Number of unaligned read pairs: 1 Number of well aligned read pairs: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 4 Number of retained reads: 6 Number of retained nucleotides: 534 Average length of retained reads: 89 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 2 2 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 1 1 0 0 2 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 2 0 0 0 2 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 0 0 100 0 2 0 0 2 your_output.sample_2.singleton.truncated000066400000000000000000000000001313314234200374450ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/oneadapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/one/your_output.settings000066400000000000000000000021321313314234200337010ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GCGCCGGA * sample_2 CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Demultiplexing statistics] Name Barcode_1 Barcode_2 Hits Fraction unidentified NA NA 0 0.000 ambiguous NA NA 0 0.000 sample_1 GCGCCGGA * 4 0.500 sample_2 CAGGACAT * 4 0.500 * * * 8 1.000 your_output.unidentified_1000066400000000000000000000000001313314234200346410ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/oneyour_output.unidentified_2000066400000000000000000000000001313314234200346420ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/oneadapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/three/000077500000000000000000000000001313314234200300315ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/three/barcodes.txt000066400000000000000000000000461313314234200323540ustar00rootroot00000000000000sample_1 GCGCCGGA sample_2 CAGGACAT adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/three/info.json000066400000000000000000000001101313314234200316470ustar00rootroot00000000000000{ "arguments": ["--thread", "3"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/three/input_1.fastq000066400000000000000000000033301313314234200324470ustar00rootroot00000000000000@read_s1_000/1 GCGCCGGAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_000/1 CAGGACATAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 GCGCCGGAGACGGTCCCATTAATGCACTATCGGATTTACACATTTGCGTGAATAAATCGACAGATGAATCATTAAGCTCCTACAGATCGGAAGAGCACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 CAGGACATTGATCTCATACATTTAAACAAAGTATGCCTTACGCATGCCTTAATGATACGTAACCTAGGCAACAGAGTCTTTACTTGTACCTGCTACACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 GCGCCGGATCCATCAGGATCGTATTATACTAAGCTAGGACTGTGCAGTGCACAGAGAGGAGATGACCATGATCCTCGAGCAAGTTGCCGCAGGCTCGGGC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 GCGCCGGATGCACCGTAGCCATATGGGCTGTTGGGGACACAGGGCGTCGGCATTCCTTTATTACTGACGCCGCTAGAGTCTATGCAAGGTTATAACGTAT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 CAGGACATTCGCTAGCCCAAGATCACGCTTTCCGCGACGTTTTAGAGCGTGCATACCGGGGCGTTTCTCAGATAGGTATTTCAAGATCGGAAGAGCACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 CAGGACATACCCTCACGCTTGCACGACGACAGCGGTCCCCTATAAATGTATGTTGACGCAGCGAGAGGCCAGGACCCGGGCGTGTTACCACTAAGACCCT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/three/input_2.fastq000066400000000000000000000033301313314234200324500ustar00rootroot00000000000000@read_s1_000/2 TCCGGCGCAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_000/2 ATGTCCTGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/2 GTAGGAGCTTAATGATTCATCTGTCGATTTATTCACGCAAATGTGTAAATCCGATAGTGCATTAATGGGACCGTCTCCGGCGCAGATCGGAAGAGCGTCG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/2 AGAACAGGATACAATGAAAATGCATCGCGTTGGCAACTCTCACCTTGCTCTTGGACCCGTGTGTAGCAGGTACAAGTAAAGACTCTGTTGCCTAGGTTAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/2 CCTTCTTATGCTCGACTGGCTCTGTATAAGCCCAAGACATTATGAAAGGTCTCGCGTTTGTCTACCAGGCTCCGTTACGGATACAAGTGCCCTACTGTCA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/2 ATCAAGGGAGGTCACGTGAATTTTGCCTTCTAGACTAGCGTACATGACCGCGAATTAGATACGTTATAACCTTGCATAGACTCTAGCGGCGTCAGTAATA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/2 TGAAATACCTATCTGAGAAACGCCCCGGTATGCACGCTCTAAAACGTCGCGGAAAGCGTGATCTTGGGCTAGCGAATGTCCTGAGATCGGAAGAGCGTCG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/2 ATGCTGATTAGATATGTCTTTCATCGGCTTGTGACCGAGGAGTGGTACGGCCGTTCCATATTGGGTGATTAGGAAGATGTCCCGGCTTGCTGCTTCTCGT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.discarded000066400000000000000000000000461313314234200357340ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/three@read_s1_000/1 + @read_s1_000/2 + your_output.sample_1.pair1.truncated000066400000000000000000000010771313314234200370230ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/three@read_s1_075/1 GACGGTCCCATTAATGCACTATCGGATTTACACATTTGCGTGAATAAATCGACAGATGAATCATTAAGCTCCTAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s1_200/1 TCCATCAGGATCGTATTATACTAAGCTAGGACTGTGCAGTGCACAGAGAGGAGATGACCATGATCCTCGAGCAAGTTGCCGCAGGCTCGGGC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 TGCACCGTAGCCATATGGGCTGTTGGGGACACAGGGCGTCGGCATTCCTTTATTACTGACGCCGCTAGAGTCTATGCAAGGTTATAACGTAT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.pair2.truncated000066400000000000000000000011371313314234200370210ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/three@read_s1_075/2 GTAGGAGCTTAATGATTCATCTGTCGATTTATTCACGCAAATGTGTAAATCCGATAGTGCATTAATGGGACCGTC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>> @read_s1_200/2 CCTTCTTATGCTCGACTGGCTCTGTATAAGCCCAAGACATTATGAAAGGTCTCGCGTTTGTCTACCAGGCTCCGTTACGGATACAAGTGCCCTACTGTCA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/2 ATCAAGGGAGGTCACGTGAATTTTGCCTTCTAGACTAGCGTACATGACCGCGAATTAGATACGTTATAACCTTGCATAGACTCTAGCGGCGTCAGTAATA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.settings000066400000000000000000000052271313314234200356600ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/threeAdapterRemoval ver. 2.2.0 Trimming of single-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1* GCGCCGGA * sample_2 CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: TCCGGCGC_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2459456692 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 4 Number of unaligned read pairs: 1 Number of well aligned read pairs: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 4 Number of retained reads: 6 Number of retained nucleotides: 534 Average length of retained reads: 89 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 2 2 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 1 1 0 0 2 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 2 0 0 0 2 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 0 0 100 0 2 0 0 2 your_output.sample_1.singleton.truncated000066400000000000000000000000001313314234200377720ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/threeyour_output.sample_2.discarded000066400000000000000000000000461313314234200357350ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/three@read_s2_000/1 + @read_s2_000/2 + your_output.sample_2.pair1.truncated000066400000000000000000000010771313314234200370240ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/three@read_s2_150/1 TGATCTCATACATTTAAACAAAGTATGCCTTACGCATGCCTTAATGATACGTAACCTAGGCAACAGAGTCTTTACTTGTACCTGCTACACAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 TCGCTAGCCCAAGATCACGCTTTCCGCGACGTTTTAGAGCGTGCATACCGGGGCGTTTCTCAGATAGGTATTTCA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s2_200/1 ACCCTCACGCTTGCACGACGACAGCGGTCCCCTATAAATGTATGTTGACGCAGCGAGAGGCCAGGACCCGGGCGTGTTACCACTAAGACCCT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.pair2.truncated000066400000000000000000000011371313314234200370220ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/three@read_s2_150/2 AGAACAGGATACAATGAAAATGCATCGCGTTGGCAACTCTCACCTTGCTCTTGGACCCGTGTGTAGCAGGTACAAGTAAAGACTCTGTTGCCTAGGTTAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/2 TGAAATACCTATCTGAGAAACGCCCCGGTATGCACGCTCTAAAACGTCGCGGAAAGCGTGATCTTGGGCTAGCGA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>> @read_s2_200/2 ATGCTGATTAGATATGTCTTTCATCGGCTTGTGACCGAGGAGTGGTACGGCCGTTCCATATTGGGTGATTAGGAAGATGTCCCGGCTTGCTGCTTCTCGT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.settings000066400000000000000000000052271313314234200356610ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/threeAdapterRemoval ver. 2.2.0 Trimming of single-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GCGCCGGA * sample_2* CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: ATGTCCTG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2459456692 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 4 Number of unaligned read pairs: 1 Number of well aligned read pairs: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 4 Number of retained reads: 6 Number of retained nucleotides: 534 Average length of retained reads: 89 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 2 2 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 1 1 0 0 2 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 2 0 0 0 2 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 0 0 100 0 2 0 0 2 your_output.sample_2.singleton.truncated000066400000000000000000000000001313314234200377730ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/threeadapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/three/your_output.settings000066400000000000000000000021321313314234200342270ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GCGCCGGA * sample_2 CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Demultiplexing statistics] Name Barcode_1 Barcode_2 Hits Fraction unidentified NA NA 0 0.000 ambiguous NA NA 0 0.000 sample_1 GCGCCGGA * 4 0.500 sample_2 CAGGACAT * 4 0.500 * * * 8 1.000 your_output.unidentified_1000066400000000000000000000000001313314234200351670ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/threeyour_output.unidentified_2000066400000000000000000000000001313314234200351700ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/threeadapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/two/000077500000000000000000000000001313314234200275335ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/two/barcodes.txt000066400000000000000000000000461313314234200320560ustar00rootroot00000000000000sample_1 GCGCCGGA sample_2 CAGGACAT adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/two/info.json000066400000000000000000000001111313314234200313520ustar00rootroot00000000000000{ "arguments": ["--threads", "2"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/two/input_1.fastq000066400000000000000000000033301313314234200321510ustar00rootroot00000000000000@read_s1_000/1 GCGCCGGAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_000/1 CAGGACATAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 GCGCCGGAGACGGTCCCATTAATGCACTATCGGATTTACACATTTGCGTGAATAAATCGACAGATGAATCATTAAGCTCCTACAGATCGGAAGAGCACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 CAGGACATTGATCTCATACATTTAAACAAAGTATGCCTTACGCATGCCTTAATGATACGTAACCTAGGCAACAGAGTCTTTACTTGTACCTGCTACACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 GCGCCGGATCCATCAGGATCGTATTATACTAAGCTAGGACTGTGCAGTGCACAGAGAGGAGATGACCATGATCCTCGAGCAAGTTGCCGCAGGCTCGGGC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 GCGCCGGATGCACCGTAGCCATATGGGCTGTTGGGGACACAGGGCGTCGGCATTCCTTTATTACTGACGCCGCTAGAGTCTATGCAAGGTTATAACGTAT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 CAGGACATTCGCTAGCCCAAGATCACGCTTTCCGCGACGTTTTAGAGCGTGCATACCGGGGCGTTTCTCAGATAGGTATTTCAAGATCGGAAGAGCACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 CAGGACATACCCTCACGCTTGCACGACGACAGCGGTCCCCTATAAATGTATGTTGACGCAGCGAGAGGCCAGGACCCGGGCGTGTTACCACTAAGACCCT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/two/input_2.fastq000066400000000000000000000033301313314234200321520ustar00rootroot00000000000000@read_s1_000/2 TCCGGCGCAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_000/2 ATGTCCTGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/2 GTAGGAGCTTAATGATTCATCTGTCGATTTATTCACGCAAATGTGTAAATCCGATAGTGCATTAATGGGACCGTCTCCGGCGCAGATCGGAAGAGCGTCG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/2 AGAACAGGATACAATGAAAATGCATCGCGTTGGCAACTCTCACCTTGCTCTTGGACCCGTGTGTAGCAGGTACAAGTAAAGACTCTGTTGCCTAGGTTAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/2 CCTTCTTATGCTCGACTGGCTCTGTATAAGCCCAAGACATTATGAAAGGTCTCGCGTTTGTCTACCAGGCTCCGTTACGGATACAAGTGCCCTACTGTCA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/2 ATCAAGGGAGGTCACGTGAATTTTGCCTTCTAGACTAGCGTACATGACCGCGAATTAGATACGTTATAACCTTGCATAGACTCTAGCGGCGTCAGTAATA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/2 TGAAATACCTATCTGAGAAACGCCCCGGTATGCACGCTCTAAAACGTCGCGGAAAGCGTGATCTTGGGCTAGCGAATGTCCTGAGATCGGAAGAGCGTCG + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/2 ATGCTGATTAGATATGTCTTTCATCGGCTTGTGACCGAGGAGTGGTACGGCCGTTCCATATTGGGTGATTAGGAAGATGTCCCGGCTTGCTGCTTCTCGT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.discarded000066400000000000000000000000461313314234200354360ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/two@read_s1_000/1 + @read_s1_000/2 + your_output.sample_1.pair1.truncated000066400000000000000000000010771313314234200365250ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/two@read_s1_075/1 GACGGTCCCATTAATGCACTATCGGATTTACACATTTGCGTGAATAAATCGACAGATGAATCATTAAGCTCCTAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s1_200/1 TCCATCAGGATCGTATTATACTAAGCTAGGACTGTGCAGTGCACAGAGAGGAGATGACCATGATCCTCGAGCAAGTTGCCGCAGGCTCGGGC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 TGCACCGTAGCCATATGGGCTGTTGGGGACACAGGGCGTCGGCATTCCTTTATTACTGACGCCGCTAGAGTCTATGCAAGGTTATAACGTAT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.pair2.truncated000066400000000000000000000011371313314234200365230ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/two@read_s1_075/2 GTAGGAGCTTAATGATTCATCTGTCGATTTATTCACGCAAATGTGTAAATCCGATAGTGCATTAATGGGACCGTC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>> @read_s1_200/2 CCTTCTTATGCTCGACTGGCTCTGTATAAGCCCAAGACATTATGAAAGGTCTCGCGTTTGTCTACCAGGCTCCGTTACGGATACAAGTGCCCTACTGTCA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/2 ATCAAGGGAGGTCACGTGAATTTTGCCTTCTAGACTAGCGTACATGACCGCGAATTAGATACGTTATAACCTTGCATAGACTCTAGCGGCGTCAGTAATA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.settings000066400000000000000000000052271313314234200353620ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/twoAdapterRemoval ver. 2.2.0 Trimming of single-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1* GCGCCGGA * sample_2 CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: TCCGGCGC_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2459456692 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 4 Number of unaligned read pairs: 1 Number of well aligned read pairs: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 4 Number of retained reads: 6 Number of retained nucleotides: 534 Average length of retained reads: 89 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 2 2 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 1 1 0 0 2 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 2 0 0 0 2 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 0 0 100 0 2 0 0 2 your_output.sample_1.singleton.truncated000066400000000000000000000000001313314234200374740ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/twoyour_output.sample_2.discarded000066400000000000000000000000461313314234200354370ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/two@read_s2_000/1 + @read_s2_000/2 + your_output.sample_2.pair1.truncated000066400000000000000000000010771313314234200365260ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/two@read_s2_150/1 TGATCTCATACATTTAAACAAAGTATGCCTTACGCATGCCTTAATGATACGTAACCTAGGCAACAGAGTCTTTACTTGTACCTGCTACACAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 TCGCTAGCCCAAGATCACGCTTTCCGCGACGTTTTAGAGCGTGCATACCGGGGCGTTTCTCAGATAGGTATTTCA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s2_200/1 ACCCTCACGCTTGCACGACGACAGCGGTCCCCTATAAATGTATGTTGACGCAGCGAGAGGCCAGGACCCGGGCGTGTTACCACTAAGACCCT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.pair2.truncated000066400000000000000000000011371313314234200365240ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/two@read_s2_150/2 AGAACAGGATACAATGAAAATGCATCGCGTTGGCAACTCTCACCTTGCTCTTGGACCCGTGTGTAGCAGGTACAAGTAAAGACTCTGTTGCCTAGGTTAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/2 TGAAATACCTATCTGAGAAACGCCCCGGTATGCACGCTCTAAAACGTCGCGGAAAGCGTGATCTTGGGCTAGCGA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>> @read_s2_200/2 ATGCTGATTAGATATGTCTTTCATCGGCTTGTGACCGAGGAGTGGTACGGCCGTTCCATATTGGGTGATTAGGAAGATGTCCCGGCTTGCTGCTTCTCGT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.settings000066400000000000000000000052271313314234200353630ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/twoAdapterRemoval ver. 2.2.0 Trimming of single-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GCGCCGGA * sample_2* CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: ATGTCCTG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2459456692 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 4 Number of unaligned read pairs: 1 Number of well aligned read pairs: 3 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 4 Number of retained reads: 6 Number of retained nucleotides: 534 Average length of retained reads: 89 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 2 2 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 1 1 0 0 2 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 2 0 0 0 2 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 0 0 100 0 2 0 0 2 your_output.sample_2.singleton.truncated000066400000000000000000000000001313314234200374750ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/twoadapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/two/your_output.settings000066400000000000000000000021321313314234200337310ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-indexed paired-end reads [Demultiplexing] Maximum mismatches (total): 0 Maximum mate 1 mismatches: 0 Maximum mate 2 mismatches: 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GCGCCGGA * sample_2 CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1157297082 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Demultiplexing statistics] Name Barcode_1 Barcode_2 Hits Fraction unidentified NA NA 0 0.000 ambiguous NA NA 0 0.000 sample_1 GCGCCGGA * 4 0.500 sample_2 CAGGACAT * 4 0.500 * * * 8 1.000 your_output.unidentified_1000066400000000000000000000000001313314234200346710ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/twoyour_output.unidentified_2000066400000000000000000000000001313314234200346720ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/pe/threads/twoadapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/000077500000000000000000000000001313314234200252735ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/collapse/000077500000000000000000000000001313314234200270755ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/collapse/barcodes.txt000066400000000000000000000000461313314234200314200ustar00rootroot00000000000000sample_1 GCGCCGGA sample_2 CAGGACAT adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/collapse/info.json000066400000000000000000000001051313314234200307170ustar00rootroot00000000000000{ "arguments": ["--collapse"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/collapse/input_1.fastq000066400000000000000000000033301313314234200315130ustar00rootroot00000000000000@read_s1_000/1 GCGCCGGAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_000/1 CAGGACATAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 GCGCCGGAGACGGTCCCATTAATGCACTATCGGATTTACACATTTGCGTGAATAAATCGACAGATGAATCATTAAGCTCCTACAGATCGGAAGAGCACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 CAGGACATTGATCTCATACATTTAAACAAAGTATGCCTTACGCATGCCTTAATGATACGTAACCTAGGCAACAGAGTCTTTACTTGTACCTGCTACACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 GCGCCGGATCCATCAGGATCGTATTATACTAAGCTAGGACTGTGCAGTGCACAGAGAGGAGATGACCATGATCCTCGAGCAAGTTGCCGCAGGCTCGGGC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 GCGCCGGATGCACCGTAGCCATATGGGCTGTTGGGGACACAGGGCGTCGGCATTCCTTTATTACTGACGCCGCTAGAGTCTATGCAAGGTTATAACGTAT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 CAGGACATTCGCTAGCCCAAGATCACGCTTTCCGCGACGTTTTAGAGCGTGCATACCGGGGCGTTTCTCAGATAGGTATTTCAAGATCGGAAGAGCACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 CAGGACATACCCTCACGCTTGCACGACGACAGCGGTCCCCTATAAATGTATGTTGACGCAGCGAGAGGCCAGGACCCGGGCGTGTTACCACTAAGACCCT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.collapsed000066400000000000000000000002531313314234200350240ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/collapse@M_read_s1_075/1 GACGGTCCCATTAATGCACTATCGGATTTACACATTTGCGTGAATAAATCGACAGATGAATCATTAAGCTCCTAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; your_output.sample_1.collapsed.truncated000066400000000000000000000000001313314234200370020ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/collapseyour_output.sample_1.discarded000066400000000000000000000000251313314234200347750ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/collapse@M_read_s1_000/1 + your_output.sample_1.settings000066400000000000000000000050331313314234200347170ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/collapseAdapterRemoval ver. 2.2.0 Trimming of single-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1* GCGCCGGA * sample_2 CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: TCCGGCGC_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3843883243 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: Yes Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 4 Number of unaligned reads: 2 Number of well aligned reads: 2 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 2 Number of reads with adapters[1]: 2 Number of full-length collapsed pairs: 1 Number of truncated collapsed pairs: 0 Number of retained reads: 3 Number of retained nucleotides: 259 Average length of retained reads: 86.3333 [Length distribution] Length Mate1 Collapsed CollapsedTruncated Discarded All 0 0 0 0 1 1 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 1 0 0 1 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 2 0 0 0 2 your_output.sample_1.truncated000066400000000000000000000006261313314234200350530ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/collapse@read_s1_200/1 TCCATCAGGATCGTATTATACTAAGCTAGGACTGTGCAGTGCACAGAGAGGAGATGACCATGATCCTCGAGCAAGTTGCCGCAGGCTCGGGC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 TGCACCGTAGCCATATGGGCTGTTGGGGACACAGGGCGTCGGCATTCCTTTATTACTGACGCCGCTAGAGTCTATGCAAGGTTATAACGTAT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.collapsed000066400000000000000000000002531313314234200350250ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/collapse@M_read_s2_075/1 TCGCTAGCCCAAGATCACGCTTTCCGCGACGTTTTAGAGCGTGCATACCGGGGCGTTTCTCAGATAGGTATTTCA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; your_output.sample_2.collapsed.truncated000066400000000000000000000000001313314234200370030ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/collapseyour_output.sample_2.discarded000066400000000000000000000000251313314234200347760ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/collapse@M_read_s2_000/1 + your_output.sample_2.settings000066400000000000000000000050331313314234200347200ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/collapseAdapterRemoval ver. 2.2.0 Trimming of single-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GCGCCGGA * sample_2* CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: ATGTCCTG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3843883243 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: Yes Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 4 Number of unaligned reads: 2 Number of well aligned reads: 2 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 2 Number of reads with adapters[1]: 2 Number of full-length collapsed pairs: 1 Number of truncated collapsed pairs: 0 Number of retained reads: 3 Number of retained nucleotides: 259 Average length of retained reads: 86.3333 [Length distribution] Length Mate1 Collapsed CollapsedTruncated Discarded All 0 0 0 0 1 1 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 1 0 0 1 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 2 0 0 0 2 your_output.sample_2.truncated000066400000000000000000000006261313314234200350540ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/collapse@read_s2_150/1 TGATCTCATACATTTAAACAAAGTATGCCTTACGCATGCCTTAATGATACGTAACCTAGGCAACAGAGTCTTTACTTGTACCTGCTACACAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 ACCCTCACGCTTGCACGACGACAGCGGTCCCCTATAAATGTATGTTGACGCAGCGAGAGGCCAGGACCCGGGCGTGTTACCACTAAGACCCT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/collapse/your_output.settings000066400000000000000000000020741313314234200333000ustar00rootroot00000000000000AdapterRemoval ver. 2.2.0 Trimming of single-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GCGCCGGA * sample_2 CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3717807245 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: Yes Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Demultiplexing statistics] Name Barcode_1 Barcode_2 Hits Fraction unidentified NA NA 0 0.000 ambiguous NA NA 0 0.000 sample_1 GCGCCGGA * 4 0.500 sample_2 CAGGACAT * 4 0.500 * * * 8 1.000 adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/collapse/your_output.unidentified000066400000000000000000000000001313314234200340720ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/combined_output/000077500000000000000000000000001313314234200304735ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/combined_output/barcodes.txt000066400000000000000000000000461313314234200330160ustar00rootroot00000000000000sample_1 GCGCCGGA sample_2 CAGGACAT adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/combined_output/info.json000066400000000000000000000001141313314234200323150ustar00rootroot00000000000000{ "arguments": ["--combined-output"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/combined_output/input_1.fastq000066400000000000000000000033301313314234200331110ustar00rootroot00000000000000@read_s1_000/1 GCGCCGGAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_000/1 CAGGACATAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 GCGCCGGAGACGGTCCCATTAATGCACTATCGGATTTACACATTTGCGTGAATAAATCGACAGATGAATCATTAAGCTCCTACAGATCGGAAGAGCACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 CAGGACATTGATCTCATACATTTAAACAAAGTATGCCTTACGCATGCCTTAATGATACGTAACCTAGGCAACAGAGTCTTTACTTGTACCTGCTACACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 GCGCCGGATCCATCAGGATCGTATTATACTAAGCTAGGACTGTGCAGTGCACAGAGAGGAGATGACCATGATCCTCGAGCAAGTTGCCGCAGGCTCGGGC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 GCGCCGGATGCACCGTAGCCATATGGGCTGTTGGGGACACAGGGCGTCGGCATTCCTTTATTACTGACGCCGCTAGAGTCTATGCAAGGTTATAACGTAT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 CAGGACATTCGCTAGCCCAAGATCACGCTTTCCGCGACGTTTTAGAGCGTGCATACCGGGGCGTTTCTCAGATAGGTATTTCAAGATCGGAAGAGCACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 CAGGACATACCCTCACGCTTGCACGACGACAGCGGTCCCCTATAAATGTATGTTGACGCAGCGAGAGGCCAGGACCCGGGCGTGTTACCACTAAGACCCT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.settings000066400000000000000000000040711313314234200363160ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/combined_outputAdapterRemoval ver. 2.2.0 Trimming of single-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1* GCGCCGGA * sample_2 CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: TCCGGCGC_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3717807245 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 4 Number of unaligned reads: 2 Number of well aligned reads: 2 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 3 Number of reads with adapters[1]: 2 Number of retained reads: 3 Number of retained nucleotides: 259 Average length of retained reads: 86.3333 [Length distribution] Length Mate1 Discarded All 0 0 1 1 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 0 0 0 51 0 0 0 52 0 0 0 53 0 0 0 54 0 0 0 55 0 0 0 56 0 0 0 57 0 0 0 58 0 0 0 59 0 0 0 60 0 0 0 61 0 0 0 62 0 0 0 63 0 0 0 64 0 0 0 65 0 0 0 66 0 0 0 67 0 0 0 68 0 0 0 69 0 0 0 70 0 0 0 71 0 0 0 72 0 0 0 73 0 0 0 74 0 0 0 75 1 0 1 76 0 0 0 77 0 0 0 78 0 0 0 79 0 0 0 80 0 0 0 81 0 0 0 82 0 0 0 83 0 0 0 84 0 0 0 85 0 0 0 86 0 0 0 87 0 0 0 88 0 0 0 89 0 0 0 90 0 0 0 91 0 0 0 92 2 0 2 your_output.sample_1.truncated000066400000000000000000000011241313314234200364430ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/combined_output@read_s1_000/1 N + ! @read_s1_075/1 GACGGTCCCATTAATGCACTATCGGATTTACACATTTGCGTGAATAAATCGACAGATGAATCATTAAGCTCCTAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s1_200/1 TCCATCAGGATCGTATTATACTAAGCTAGGACTGTGCAGTGCACAGAGAGGAGATGACCATGATCCTCGAGCAAGTTGCCGCAGGCTCGGGC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 TGCACCGTAGCCATATGGGCTGTTGGGGACACAGGGCGTCGGCATTCCTTTATTACTGACGCCGCTAGAGTCTATGCAAGGTTATAACGTAT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.settings000066400000000000000000000040711313314234200363170ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/combined_outputAdapterRemoval ver. 2.2.0 Trimming of single-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GCGCCGGA * sample_2* CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: ATGTCCTG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3717807245 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 4 Number of unaligned reads: 2 Number of well aligned reads: 2 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 3 Number of reads with adapters[1]: 2 Number of retained reads: 3 Number of retained nucleotides: 259 Average length of retained reads: 86.3333 [Length distribution] Length Mate1 Discarded All 0 0 1 1 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 0 0 0 51 0 0 0 52 0 0 0 53 0 0 0 54 0 0 0 55 0 0 0 56 0 0 0 57 0 0 0 58 0 0 0 59 0 0 0 60 0 0 0 61 0 0 0 62 0 0 0 63 0 0 0 64 0 0 0 65 0 0 0 66 0 0 0 67 0 0 0 68 0 0 0 69 0 0 0 70 0 0 0 71 0 0 0 72 0 0 0 73 0 0 0 74 0 0 0 75 1 0 1 76 0 0 0 77 0 0 0 78 0 0 0 79 0 0 0 80 0 0 0 81 0 0 0 82 0 0 0 83 0 0 0 84 0 0 0 85 0 0 0 86 0 0 0 87 0 0 0 88 0 0 0 89 0 0 0 90 0 0 0 91 0 0 0 92 2 0 2 your_output.sample_2.truncated000066400000000000000000000011241313314234200364440ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/combined_output@read_s2_000/1 N + ! @read_s2_150/1 TGATCTCATACATTTAAACAAAGTATGCCTTACGCATGCCTTAATGATACGTAACCTAGGCAACAGAGTCTTTACTTGTACCTGCTACACAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 TCGCTAGCCCAAGATCACGCTTTCCGCGACGTTTTAGAGCGTGCATACCGGGGCGTTTCTCAGATAGGTATTTCA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s2_200/1 ACCCTCACGCTTGCACGACGACAGCGGTCCCCTATAAATGTATGTTGACGCAGCGAGAGGCCAGGACCCGGGCGTGTTACCACTAAGACCCT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.settings000066400000000000000000000020731313314234200346160ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/combined_outputAdapterRemoval ver. 2.2.0 Trimming of single-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GCGCCGGA * sample_2 CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3717807245 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Demultiplexing statistics] Name Barcode_1 Barcode_2 Hits Fraction unidentified NA NA 0 0.000 ambiguous NA NA 0 0.000 sample_1 GCGCCGGA * 4 0.500 sample_2 CAGGACAT * 4 0.500 * * * 8 1.000 your_output.unidentified000066400000000000000000000000001313314234200354110ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/combined_outputadapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/defaults/000077500000000000000000000000001313314234200271025ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/defaults/barcodes.txt000066400000000000000000000000461313314234200314250ustar00rootroot00000000000000sample_1 GCGCCGGA sample_2 CAGGACAT adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/defaults/info.json000066400000000000000000000000711313314234200307260ustar00rootroot00000000000000{ "arguments": [], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/defaults/input_1.fastq000066400000000000000000000033301313314234200315200ustar00rootroot00000000000000@read_s1_000/1 GCGCCGGAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_000/1 CAGGACATAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 GCGCCGGAGACGGTCCCATTAATGCACTATCGGATTTACACATTTGCGTGAATAAATCGACAGATGAATCATTAAGCTCCTACAGATCGGAAGAGCACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 CAGGACATTGATCTCATACATTTAAACAAAGTATGCCTTACGCATGCCTTAATGATACGTAACCTAGGCAACAGAGTCTTTACTTGTACCTGCTACACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 GCGCCGGATCCATCAGGATCGTATTATACTAAGCTAGGACTGTGCAGTGCACAGAGAGGAGATGACCATGATCCTCGAGCAAGTTGCCGCAGGCTCGGGC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 GCGCCGGATGCACCGTAGCCATATGGGCTGTTGGGGACACAGGGCGTCGGCATTCCTTTATTACTGACGCCGCTAGAGTCTATGCAAGGTTATAACGTAT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 CAGGACATTCGCTAGCCCAAGATCACGCTTTCCGCGACGTTTTAGAGCGTGCATACCGGGGCGTTTCTCAGATAGGTATTTCAAGATCGGAAGAGCACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 CAGGACATACCCTCACGCTTGCACGACGACAGCGGTCCCCTATAAATGTATGTTGACGCAGCGAGAGGCCAGGACCCGGGCGTGTTACCACTAAGACCCT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.discarded000066400000000000000000000000231313314234200350000ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/defaults@read_s1_000/1 + your_output.sample_1.settings000066400000000000000000000040711313314234200347250ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/defaultsAdapterRemoval ver. 2.2.0 Trimming of single-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1* GCGCCGGA * sample_2 CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: TCCGGCGC_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3717807245 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 4 Number of unaligned reads: 2 Number of well aligned reads: 2 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 3 Number of reads with adapters[1]: 2 Number of retained reads: 3 Number of retained nucleotides: 259 Average length of retained reads: 86.3333 [Length distribution] Length Mate1 Discarded All 0 0 1 1 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 0 0 0 51 0 0 0 52 0 0 0 53 0 0 0 54 0 0 0 55 0 0 0 56 0 0 0 57 0 0 0 58 0 0 0 59 0 0 0 60 0 0 0 61 0 0 0 62 0 0 0 63 0 0 0 64 0 0 0 65 0 0 0 66 0 0 0 67 0 0 0 68 0 0 0 69 0 0 0 70 0 0 0 71 0 0 0 72 0 0 0 73 0 0 0 74 0 0 0 75 1 0 1 76 0 0 0 77 0 0 0 78 0 0 0 79 0 0 0 80 0 0 0 81 0 0 0 82 0 0 0 83 0 0 0 84 0 0 0 85 0 0 0 86 0 0 0 87 0 0 0 88 0 0 0 89 0 0 0 90 0 0 0 91 0 0 0 92 2 0 2 your_output.sample_1.truncated000066400000000000000000000010771313314234200350610ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/defaults@read_s1_075/1 GACGGTCCCATTAATGCACTATCGGATTTACACATTTGCGTGAATAAATCGACAGATGAATCATTAAGCTCCTAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s1_200/1 TCCATCAGGATCGTATTATACTAAGCTAGGACTGTGCAGTGCACAGAGAGGAGATGACCATGATCCTCGAGCAAGTTGCCGCAGGCTCGGGC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 TGCACCGTAGCCATATGGGCTGTTGGGGACACAGGGCGTCGGCATTCCTTTATTACTGACGCCGCTAGAGTCTATGCAAGGTTATAACGTAT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.discarded000066400000000000000000000000231313314234200350010ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/defaults@read_s2_000/1 + your_output.sample_2.settings000066400000000000000000000040711313314234200347260ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/defaultsAdapterRemoval ver. 2.2.0 Trimming of single-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GCGCCGGA * sample_2* CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: ATGTCCTG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3717807245 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 4 Number of unaligned reads: 2 Number of well aligned reads: 2 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 3 Number of reads with adapters[1]: 2 Number of retained reads: 3 Number of retained nucleotides: 259 Average length of retained reads: 86.3333 [Length distribution] Length Mate1 Discarded All 0 0 1 1 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 0 0 0 51 0 0 0 52 0 0 0 53 0 0 0 54 0 0 0 55 0 0 0 56 0 0 0 57 0 0 0 58 0 0 0 59 0 0 0 60 0 0 0 61 0 0 0 62 0 0 0 63 0 0 0 64 0 0 0 65 0 0 0 66 0 0 0 67 0 0 0 68 0 0 0 69 0 0 0 70 0 0 0 71 0 0 0 72 0 0 0 73 0 0 0 74 0 0 0 75 1 0 1 76 0 0 0 77 0 0 0 78 0 0 0 79 0 0 0 80 0 0 0 81 0 0 0 82 0 0 0 83 0 0 0 84 0 0 0 85 0 0 0 86 0 0 0 87 0 0 0 88 0 0 0 89 0 0 0 90 0 0 0 91 0 0 0 92 2 0 2 your_output.sample_2.truncated000066400000000000000000000010771313314234200350620ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/defaults@read_s2_150/1 TGATCTCATACATTTAAACAAAGTATGCCTTACGCATGCCTTAATGATACGTAACCTAGGCAACAGAGTCTTTACTTGTACCTGCTACACAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 TCGCTAGCCCAAGATCACGCTTTCCGCGACGTTTTAGAGCGTGCATACCGGGGCGTTTCTCAGATAGGTATTTCA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s2_200/1 ACCCTCACGCTTGCACGACGACAGCGGTCCCCTATAAATGTATGTTGACGCAGCGAGAGGCCAGGACCCGGGCGTGTTACCACTAAGACCCT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/defaults/your_output.settings000066400000000000000000000020731313314234200333040ustar00rootroot00000000000000AdapterRemoval ver. 2.2.0 Trimming of single-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GCGCCGGA * sample_2 CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3717807245 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Demultiplexing statistics] Name Barcode_1 Barcode_2 Hits Fraction unidentified NA NA 0 0.000 ambiguous NA NA 0 0.000 sample_1 GCGCCGGA * 4 0.500 sample_2 CAGGACAT * 4 0.500 * * * 8 1.000 adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/defaults/your_output.unidentified000066400000000000000000000000001313314234200340770ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/demux_only/000077500000000000000000000000001313314234200274565ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/demux_only/barcodes.txt000066400000000000000000000000461313314234200320010ustar00rootroot00000000000000sample_1 GCGCCGGA sample_2 CAGGACAT adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/demux_only/info.json000066400000000000000000000001151313314234200313010ustar00rootroot00000000000000{ "arguments": ["--demultiplex-only"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/demux_only/input_1.fastq000066400000000000000000000033301313314234200320740ustar00rootroot00000000000000@read_s1_000/1 GCGCCGGAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_000/1 CAGGACATAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 GCGCCGGAGACGGTCCCATTAATGCACTATCGGATTTACACATTTGCGTGAATAAATCGACAGATGAATCATTAAGCTCCTACAGATCGGAAGAGCACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 CAGGACATTGATCTCATACATTTAAACAAAGTATGCCTTACGCATGCCTTAATGATACGTAACCTAGGCAACAGAGTCTTTACTTGTACCTGCTACACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 GCGCCGGATCCATCAGGATCGTATTATACTAAGCTAGGACTGTGCAGTGCACAGAGAGGAGATGACCATGATCCTCGAGCAAGTTGCCGCAGGCTCGGGC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 GCGCCGGATGCACCGTAGCCATATGGGCTGTTGGGGACACAGGGCGTCGGCATTCCTTTATTACTGACGCCGCTAGAGTCTATGCAAGGTTATAACGTAT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 CAGGACATTCGCTAGCCCAAGATCACGCTTTCCGCGACGTTTTAGAGCGTGCATACCGGGGCGTTTCTCAGATAGGTATTTCAAGATCGGAAGAGCACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 CAGGACATACCCTCACGCTTGCACGACGACAGCGGTCCCCTATAAATGTATGTTGACGCAGCGAGAGGCCAGGACCCGGGCGTGTTACCACTAAGACCCT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.fastq000066400000000000000000000014541313314234200345610ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/demux_only@read_s1_000/1 AGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 GACGGTCCCATTAATGCACTATCGGATTTACACATTTGCGTGAATAAATCGACAGATGAATCATTAAGCTCCTACAGATCGGAAGAGCACAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 TCCATCAGGATCGTATTATACTAAGCTAGGACTGTGCAGTGCACAGAGAGGAGATGACCATGATCCTCGAGCAAGTTGCCGCAGGCTCGGGC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 TGCACCGTAGCCATATGGGCTGTTGGGGACACAGGGCGTCGGCATTCCTTTATTACTGACGCCGCTAGAGTCTATGCAAGGTTATAACGTAT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.settings000066400000000000000000000006171313314234200353030ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/demux_onlyAdapterRemoval ver. 2.2.0 Demultiplexing of single-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1* GCGCCGGA * sample_2 CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: TCCGGCGC_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT your_output.sample_2.fastq000066400000000000000000000014541313314234200345620ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/demux_only@read_s2_000/1 AGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 TGATCTCATACATTTAAACAAAGTATGCCTTACGCATGCCTTAATGATACGTAACCTAGGCAACAGAGTCTTTACTTGTACCTGCTACACAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 TCGCTAGCCCAAGATCACGCTTTCCGCGACGTTTTAGAGCGTGCATACCGGGGCGTTTCTCAGATAGGTATTTCAAGATCGGAAGAGCACAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 ACCCTCACGCTTGCACGACGACAGCGGTCCCCTATAAATGTATGTTGACGCAGCGAGAGGCCAGGACCCGGGCGTGTTACCACTAAGACCCT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.settings000066400000000000000000000006171313314234200353040ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/demux_onlyAdapterRemoval ver. 2.2.0 Demultiplexing of single-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GCGCCGGA * sample_2* CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: ATGTCCTG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/demux_only/your_output.settings000066400000000000000000000011031313314234200336510ustar00rootroot00000000000000AdapterRemoval ver. 2.2.0 Demultiplexing of single-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GCGCCGGA * sample_2 CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Demultiplexing statistics] Name Barcode_1 Barcode_2 Hits Fraction unidentified NA NA 0 0.000 ambiguous NA NA 0 0.000 sample_1 GCGCCGGA * 4 0.500 sample_2 CAGGACAT * 4 0.500 * * * 8 1.000 your_output.unidentified.fastq000066400000000000000000000000001313314234200355110ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/demux_onlyadapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/multiple_input/000077500000000000000000000000001313314234200303455ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/multiple_input/barcodes.txt000066400000000000000000000000461313314234200326700ustar00rootroot00000000000000sample_1 GCGCCGGA sample_2 CAGGACAT adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/multiple_input/info.json000066400000000000000000000000711313314234200321710ustar00rootroot00000000000000{ "arguments": [], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/multiple_input/input_1a.fastq000066400000000000000000000006661313314234200331350ustar00rootroot00000000000000@read_s1_000/1 GCGCCGGAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_000/1 CAGGACATAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/multiple_input/input_1b.fastq000066400000000000000000000012211313314234200331220ustar00rootroot00000000000000@read_s1_075/1 GCGCCGGAGACGGTCCCATTAATGCACTATCGGATTTACACATTTGCGTGAATAAATCGACAGATGAATCATTAAGCTCCTACAGATCGGAAGAGCACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 CAGGACATTGATCTCATACATTTAAACAAAGTATGCCTTACGCATGCCTTAATGATACGTAACCTAGGCAACAGAGTCTTTACTTGTACCTGCTACACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 GCGCCGGATCCATCAGGATCGTATTATACTAAGCTAGGACTGTGCAGTGCACAGAGAGGAGATGACCATGATCCTCGAGCAAGTTGCCGCAGGCTCGGGC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/multiple_input/input_1c.fastq000066400000000000000000000012211313314234200331230ustar00rootroot00000000000000@read_s1_150/1 GCGCCGGATGCACCGTAGCCATATGGGCTGTTGGGGACACAGGGCGTCGGCATTCCTTTATTACTGACGCCGCTAGAGTCTATGCAAGGTTATAACGTAT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 CAGGACATTCGCTAGCCCAAGATCACGCTTTCCGCGACGTTTTAGAGCGTGCATACCGGGGCGTTTCTCAGATAGGTATTTCAAGATCGGAAGAGCACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 CAGGACATACCCTCACGCTTGCACGACGACAGCGGTCCCCTATAAATGTATGTTGACGCAGCGAGAGGCCAGGACCCGGGCGTGTTACCACTAAGACCCT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.discarded000066400000000000000000000000231313314234200362430ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/multiple_input@read_s1_000/1 + your_output.sample_1.settings000066400000000000000000000040711313314234200361700ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/multiple_inputAdapterRemoval ver. 2.2.0 Trimming of single-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1* GCGCCGGA * sample_2 CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: TCCGGCGC_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3717807245 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 4 Number of unaligned reads: 2 Number of well aligned reads: 2 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 3 Number of reads with adapters[1]: 2 Number of retained reads: 3 Number of retained nucleotides: 259 Average length of retained reads: 86.3333 [Length distribution] Length Mate1 Discarded All 0 0 1 1 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 0 0 0 51 0 0 0 52 0 0 0 53 0 0 0 54 0 0 0 55 0 0 0 56 0 0 0 57 0 0 0 58 0 0 0 59 0 0 0 60 0 0 0 61 0 0 0 62 0 0 0 63 0 0 0 64 0 0 0 65 0 0 0 66 0 0 0 67 0 0 0 68 0 0 0 69 0 0 0 70 0 0 0 71 0 0 0 72 0 0 0 73 0 0 0 74 0 0 0 75 1 0 1 76 0 0 0 77 0 0 0 78 0 0 0 79 0 0 0 80 0 0 0 81 0 0 0 82 0 0 0 83 0 0 0 84 0 0 0 85 0 0 0 86 0 0 0 87 0 0 0 88 0 0 0 89 0 0 0 90 0 0 0 91 0 0 0 92 2 0 2 your_output.sample_1.truncated000066400000000000000000000010771313314234200363240ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/multiple_input@read_s1_075/1 GACGGTCCCATTAATGCACTATCGGATTTACACATTTGCGTGAATAAATCGACAGATGAATCATTAAGCTCCTAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s1_200/1 TCCATCAGGATCGTATTATACTAAGCTAGGACTGTGCAGTGCACAGAGAGGAGATGACCATGATCCTCGAGCAAGTTGCCGCAGGCTCGGGC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 TGCACCGTAGCCATATGGGCTGTTGGGGACACAGGGCGTCGGCATTCCTTTATTACTGACGCCGCTAGAGTCTATGCAAGGTTATAACGTAT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.discarded000066400000000000000000000000231313314234200362440ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/multiple_input@read_s2_000/1 + your_output.sample_2.settings000066400000000000000000000040711313314234200361710ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/multiple_inputAdapterRemoval ver. 2.2.0 Trimming of single-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GCGCCGGA * sample_2* CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: ATGTCCTG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3717807245 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 4 Number of unaligned reads: 2 Number of well aligned reads: 2 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 3 Number of reads with adapters[1]: 2 Number of retained reads: 3 Number of retained nucleotides: 259 Average length of retained reads: 86.3333 [Length distribution] Length Mate1 Discarded All 0 0 1 1 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 0 0 0 51 0 0 0 52 0 0 0 53 0 0 0 54 0 0 0 55 0 0 0 56 0 0 0 57 0 0 0 58 0 0 0 59 0 0 0 60 0 0 0 61 0 0 0 62 0 0 0 63 0 0 0 64 0 0 0 65 0 0 0 66 0 0 0 67 0 0 0 68 0 0 0 69 0 0 0 70 0 0 0 71 0 0 0 72 0 0 0 73 0 0 0 74 0 0 0 75 1 0 1 76 0 0 0 77 0 0 0 78 0 0 0 79 0 0 0 80 0 0 0 81 0 0 0 82 0 0 0 83 0 0 0 84 0 0 0 85 0 0 0 86 0 0 0 87 0 0 0 88 0 0 0 89 0 0 0 90 0 0 0 91 0 0 0 92 2 0 2 your_output.sample_2.truncated000066400000000000000000000010771313314234200363250ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/multiple_input@read_s2_150/1 TGATCTCATACATTTAAACAAAGTATGCCTTACGCATGCCTTAATGATACGTAACCTAGGCAACAGAGTCTTTACTTGTACCTGCTACACAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 TCGCTAGCCCAAGATCACGCTTTCCGCGACGTTTTAGAGCGTGCATACCGGGGCGTTTCTCAGATAGGTATTTCA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s2_200/1 ACCCTCACGCTTGCACGACGACAGCGGTCCCCTATAAATGTATGTTGACGCAGCGAGAGGCCAGGACCCGGGCGTGTTACCACTAAGACCCT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/multiple_input/your_output.settings000066400000000000000000000020731313314234200345470ustar00rootroot00000000000000AdapterRemoval ver. 2.2.0 Trimming of single-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GCGCCGGA * sample_2 CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3717807245 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Demultiplexing statistics] Name Barcode_1 Barcode_2 Hits Fraction unidentified NA NA 0 0.000 ambiguous NA NA 0 0.000 sample_1 GCGCCGGA * 4 0.500 sample_2 CAGGACAT * 4 0.500 * * * 8 1.000 your_output.unidentified000066400000000000000000000000001313314234200352630ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/multiple_inputadapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/threads/000077500000000000000000000000001313314234200267255ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/threads/one/000077500000000000000000000000001313314234200275065ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/threads/one/barcodes.txt000066400000000000000000000000461313314234200320310ustar00rootroot00000000000000sample_1 GCGCCGGA sample_2 CAGGACAT adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/threads/one/info.json000066400000000000000000000001111313314234200313250ustar00rootroot00000000000000{ "arguments": ["--threads", "1"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/threads/one/input_1.fastq000066400000000000000000000033301313314234200321240ustar00rootroot00000000000000@read_s1_000/1 GCGCCGGAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_000/1 CAGGACATAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 GCGCCGGAGACGGTCCCATTAATGCACTATCGGATTTACACATTTGCGTGAATAAATCGACAGATGAATCATTAAGCTCCTACAGATCGGAAGAGCACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 CAGGACATTGATCTCATACATTTAAACAAAGTATGCCTTACGCATGCCTTAATGATACGTAACCTAGGCAACAGAGTCTTTACTTGTACCTGCTACACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 GCGCCGGATCCATCAGGATCGTATTATACTAAGCTAGGACTGTGCAGTGCACAGAGAGGAGATGACCATGATCCTCGAGCAAGTTGCCGCAGGCTCGGGC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 GCGCCGGATGCACCGTAGCCATATGGGCTGTTGGGGACACAGGGCGTCGGCATTCCTTTATTACTGACGCCGCTAGAGTCTATGCAAGGTTATAACGTAT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 CAGGACATTCGCTAGCCCAAGATCACGCTTTCCGCGACGTTTTAGAGCGTGCATACCGGGGCGTTTCTCAGATAGGTATTTCAAGATCGGAAGAGCACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 CAGGACATACCCTCACGCTTGCACGACGACAGCGGTCCCCTATAAATGTATGTTGACGCAGCGAGAGGCCAGGACCCGGGCGTGTTACCACTAAGACCCT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.discarded000066400000000000000000000000231313314234200354040ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/threads/one@read_s1_000/1 + your_output.sample_1.settings000066400000000000000000000040711313314234200353310ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/threads/oneAdapterRemoval ver. 2.2.0 Trimming of single-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1* GCGCCGGA * sample_2 CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: TCCGGCGC_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3717807245 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 4 Number of unaligned reads: 2 Number of well aligned reads: 2 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 3 Number of reads with adapters[1]: 2 Number of retained reads: 3 Number of retained nucleotides: 259 Average length of retained reads: 86.3333 [Length distribution] Length Mate1 Discarded All 0 0 1 1 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 0 0 0 51 0 0 0 52 0 0 0 53 0 0 0 54 0 0 0 55 0 0 0 56 0 0 0 57 0 0 0 58 0 0 0 59 0 0 0 60 0 0 0 61 0 0 0 62 0 0 0 63 0 0 0 64 0 0 0 65 0 0 0 66 0 0 0 67 0 0 0 68 0 0 0 69 0 0 0 70 0 0 0 71 0 0 0 72 0 0 0 73 0 0 0 74 0 0 0 75 1 0 1 76 0 0 0 77 0 0 0 78 0 0 0 79 0 0 0 80 0 0 0 81 0 0 0 82 0 0 0 83 0 0 0 84 0 0 0 85 0 0 0 86 0 0 0 87 0 0 0 88 0 0 0 89 0 0 0 90 0 0 0 91 0 0 0 92 2 0 2 your_output.sample_1.truncated000066400000000000000000000010771313314234200354650ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/threads/one@read_s1_075/1 GACGGTCCCATTAATGCACTATCGGATTTACACATTTGCGTGAATAAATCGACAGATGAATCATTAAGCTCCTAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s1_200/1 TCCATCAGGATCGTATTATACTAAGCTAGGACTGTGCAGTGCACAGAGAGGAGATGACCATGATCCTCGAGCAAGTTGCCGCAGGCTCGGGC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 TGCACCGTAGCCATATGGGCTGTTGGGGACACAGGGCGTCGGCATTCCTTTATTACTGACGCCGCTAGAGTCTATGCAAGGTTATAACGTAT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.discarded000066400000000000000000000000231313314234200354050ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/threads/one@read_s2_000/1 + your_output.sample_2.settings000066400000000000000000000040711313314234200353320ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/threads/oneAdapterRemoval ver. 2.2.0 Trimming of single-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GCGCCGGA * sample_2* CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: ATGTCCTG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3717807245 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 4 Number of unaligned reads: 2 Number of well aligned reads: 2 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 3 Number of reads with adapters[1]: 2 Number of retained reads: 3 Number of retained nucleotides: 259 Average length of retained reads: 86.3333 [Length distribution] Length Mate1 Discarded All 0 0 1 1 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 0 0 0 51 0 0 0 52 0 0 0 53 0 0 0 54 0 0 0 55 0 0 0 56 0 0 0 57 0 0 0 58 0 0 0 59 0 0 0 60 0 0 0 61 0 0 0 62 0 0 0 63 0 0 0 64 0 0 0 65 0 0 0 66 0 0 0 67 0 0 0 68 0 0 0 69 0 0 0 70 0 0 0 71 0 0 0 72 0 0 0 73 0 0 0 74 0 0 0 75 1 0 1 76 0 0 0 77 0 0 0 78 0 0 0 79 0 0 0 80 0 0 0 81 0 0 0 82 0 0 0 83 0 0 0 84 0 0 0 85 0 0 0 86 0 0 0 87 0 0 0 88 0 0 0 89 0 0 0 90 0 0 0 91 0 0 0 92 2 0 2 your_output.sample_2.truncated000066400000000000000000000010771313314234200354660ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/threads/one@read_s2_150/1 TGATCTCATACATTTAAACAAAGTATGCCTTACGCATGCCTTAATGATACGTAACCTAGGCAACAGAGTCTTTACTTGTACCTGCTACACAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 TCGCTAGCCCAAGATCACGCTTTCCGCGACGTTTTAGAGCGTGCATACCGGGGCGTTTCTCAGATAGGTATTTCA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s2_200/1 ACCCTCACGCTTGCACGACGACAGCGGTCCCCTATAAATGTATGTTGACGCAGCGAGAGGCCAGGACCCGGGCGTGTTACCACTAAGACCCT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/threads/one/your_output.settings000066400000000000000000000020731313314234200337100ustar00rootroot00000000000000AdapterRemoval ver. 2.2.0 Trimming of single-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GCGCCGGA * sample_2 CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3717807245 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Demultiplexing statistics] Name Barcode_1 Barcode_2 Hits Fraction unidentified NA NA 0 0.000 ambiguous NA NA 0 0.000 sample_1 GCGCCGGA * 4 0.500 sample_2 CAGGACAT * 4 0.500 * * * 8 1.000 your_output.unidentified000066400000000000000000000000001313314234200344240ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/threads/oneadapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/threads/three/000077500000000000000000000000001313314234200300345ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/threads/three/barcodes.txt000066400000000000000000000000461313314234200323570ustar00rootroot00000000000000sample_1 GCGCCGGA sample_2 CAGGACAT adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/threads/three/info.json000066400000000000000000000001111313314234200316530ustar00rootroot00000000000000{ "arguments": ["--threads", "3"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/threads/three/input_1.fastq000066400000000000000000000033301313314234200324520ustar00rootroot00000000000000@read_s1_000/1 GCGCCGGAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_000/1 CAGGACATAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 GCGCCGGAGACGGTCCCATTAATGCACTATCGGATTTACACATTTGCGTGAATAAATCGACAGATGAATCATTAAGCTCCTACAGATCGGAAGAGCACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 CAGGACATTGATCTCATACATTTAAACAAAGTATGCCTTACGCATGCCTTAATGATACGTAACCTAGGCAACAGAGTCTTTACTTGTACCTGCTACACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 GCGCCGGATCCATCAGGATCGTATTATACTAAGCTAGGACTGTGCAGTGCACAGAGAGGAGATGACCATGATCCTCGAGCAAGTTGCCGCAGGCTCGGGC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 GCGCCGGATGCACCGTAGCCATATGGGCTGTTGGGGACACAGGGCGTCGGCATTCCTTTATTACTGACGCCGCTAGAGTCTATGCAAGGTTATAACGTAT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 CAGGACATTCGCTAGCCCAAGATCACGCTTTCCGCGACGTTTTAGAGCGTGCATACCGGGGCGTTTCTCAGATAGGTATTTCAAGATCGGAAGAGCACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 CAGGACATACCCTCACGCTTGCACGACGACAGCGGTCCCCTATAAATGTATGTTGACGCAGCGAGAGGCCAGGACCCGGGCGTGTTACCACTAAGACCCT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.discarded000066400000000000000000000000231313314234200357320ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/threads/three@read_s1_000/1 + your_output.sample_1.settings000066400000000000000000000040711313314234200356570ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/threads/threeAdapterRemoval ver. 2.2.0 Trimming of single-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1* GCGCCGGA * sample_2 CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: TCCGGCGC_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3717807245 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 4 Number of unaligned reads: 2 Number of well aligned reads: 2 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 3 Number of reads with adapters[1]: 2 Number of retained reads: 3 Number of retained nucleotides: 259 Average length of retained reads: 86.3333 [Length distribution] Length Mate1 Discarded All 0 0 1 1 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 0 0 0 51 0 0 0 52 0 0 0 53 0 0 0 54 0 0 0 55 0 0 0 56 0 0 0 57 0 0 0 58 0 0 0 59 0 0 0 60 0 0 0 61 0 0 0 62 0 0 0 63 0 0 0 64 0 0 0 65 0 0 0 66 0 0 0 67 0 0 0 68 0 0 0 69 0 0 0 70 0 0 0 71 0 0 0 72 0 0 0 73 0 0 0 74 0 0 0 75 1 0 1 76 0 0 0 77 0 0 0 78 0 0 0 79 0 0 0 80 0 0 0 81 0 0 0 82 0 0 0 83 0 0 0 84 0 0 0 85 0 0 0 86 0 0 0 87 0 0 0 88 0 0 0 89 0 0 0 90 0 0 0 91 0 0 0 92 2 0 2 your_output.sample_1.truncated000066400000000000000000000010771313314234200360130ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/threads/three@read_s1_075/1 GACGGTCCCATTAATGCACTATCGGATTTACACATTTGCGTGAATAAATCGACAGATGAATCATTAAGCTCCTAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s1_200/1 TCCATCAGGATCGTATTATACTAAGCTAGGACTGTGCAGTGCACAGAGAGGAGATGACCATGATCCTCGAGCAAGTTGCCGCAGGCTCGGGC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 TGCACCGTAGCCATATGGGCTGTTGGGGACACAGGGCGTCGGCATTCCTTTATTACTGACGCCGCTAGAGTCTATGCAAGGTTATAACGTAT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.discarded000066400000000000000000000000231313314234200357330ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/threads/three@read_s2_000/1 + your_output.sample_2.settings000066400000000000000000000040711313314234200356600ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/threads/threeAdapterRemoval ver. 2.2.0 Trimming of single-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GCGCCGGA * sample_2* CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: ATGTCCTG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3717807245 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 4 Number of unaligned reads: 2 Number of well aligned reads: 2 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 3 Number of reads with adapters[1]: 2 Number of retained reads: 3 Number of retained nucleotides: 259 Average length of retained reads: 86.3333 [Length distribution] Length Mate1 Discarded All 0 0 1 1 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 0 0 0 51 0 0 0 52 0 0 0 53 0 0 0 54 0 0 0 55 0 0 0 56 0 0 0 57 0 0 0 58 0 0 0 59 0 0 0 60 0 0 0 61 0 0 0 62 0 0 0 63 0 0 0 64 0 0 0 65 0 0 0 66 0 0 0 67 0 0 0 68 0 0 0 69 0 0 0 70 0 0 0 71 0 0 0 72 0 0 0 73 0 0 0 74 0 0 0 75 1 0 1 76 0 0 0 77 0 0 0 78 0 0 0 79 0 0 0 80 0 0 0 81 0 0 0 82 0 0 0 83 0 0 0 84 0 0 0 85 0 0 0 86 0 0 0 87 0 0 0 88 0 0 0 89 0 0 0 90 0 0 0 91 0 0 0 92 2 0 2 your_output.sample_2.truncated000066400000000000000000000010771313314234200360140ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/threads/three@read_s2_150/1 TGATCTCATACATTTAAACAAAGTATGCCTTACGCATGCCTTAATGATACGTAACCTAGGCAACAGAGTCTTTACTTGTACCTGCTACACAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 TCGCTAGCCCAAGATCACGCTTTCCGCGACGTTTTAGAGCGTGCATACCGGGGCGTTTCTCAGATAGGTATTTCA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s2_200/1 ACCCTCACGCTTGCACGACGACAGCGGTCCCCTATAAATGTATGTTGACGCAGCGAGAGGCCAGGACCCGGGCGTGTTACCACTAAGACCCT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/threads/three/your_output.settings000066400000000000000000000020731313314234200342360ustar00rootroot00000000000000AdapterRemoval ver. 2.2.0 Trimming of single-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GCGCCGGA * sample_2 CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3717807245 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Demultiplexing statistics] Name Barcode_1 Barcode_2 Hits Fraction unidentified NA NA 0 0.000 ambiguous NA NA 0 0.000 sample_1 GCGCCGGA * 4 0.500 sample_2 CAGGACAT * 4 0.500 * * * 8 1.000 your_output.unidentified000066400000000000000000000000001313314234200347520ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/threads/threeadapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/threads/two/000077500000000000000000000000001313314234200275365ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/threads/two/barcodes.txt000066400000000000000000000000461313314234200320610ustar00rootroot00000000000000sample_1 GCGCCGGA sample_2 CAGGACAT adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/threads/two/info.json000066400000000000000000000001111313314234200313550ustar00rootroot00000000000000{ "arguments": ["--threads", "2"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/threads/two/input_1.fastq000066400000000000000000000033301313314234200321540ustar00rootroot00000000000000@read_s1_000/1 GCGCCGGAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_000/1 CAGGACATAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAA + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_075/1 GCGCCGGAGACGGTCCCATTAATGCACTATCGGATTTACACATTTGCGTGAATAAATCGACAGATGAATCATTAAGCTCCTACAGATCGGAAGAGCACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_150/1 CAGGACATTGATCTCATACATTTAAACAAAGTATGCCTTACGCATGCCTTAATGATACGTAACCTAGGCAACAGAGTCTTTACTTGTACCTGCTACACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_200/1 GCGCCGGATCCATCAGGATCGTATTATACTAAGCTAGGACTGTGCAGTGCACAGAGAGGAGATGACCATGATCCTCGAGCAAGTTGCCGCAGGCTCGGGC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 GCGCCGGATGCACCGTAGCCATATGGGCTGTTGGGGACACAGGGCGTCGGCATTCCTTTATTACTGACGCCGCTAGAGTCTATGCAAGGTTATAACGTAT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 CAGGACATTCGCTAGCCCAAGATCACGCTTTCCGCGACGTTTTAGAGCGTGCATACCGGGGCGTTTCTCAGATAGGTATTTCAAGATCGGAAGAGCACAC + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_200/1 CAGGACATACCCTCACGCTTGCACGACGACAGCGGTCCCCTATAAATGTATGTTGACGCAGCGAGAGGCCAGGACCCGGGCGTGTTACCACTAAGACCCT + HHHHHHHHGGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_1.discarded000066400000000000000000000000231313314234200354340ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/threads/two@read_s1_000/1 + your_output.sample_1.settings000066400000000000000000000040711313314234200353610ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/threads/twoAdapterRemoval ver. 2.2.0 Trimming of single-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1* GCGCCGGA * sample_2 CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: TCCGGCGC_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3717807245 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 4 Number of unaligned reads: 2 Number of well aligned reads: 2 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 3 Number of reads with adapters[1]: 2 Number of retained reads: 3 Number of retained nucleotides: 259 Average length of retained reads: 86.3333 [Length distribution] Length Mate1 Discarded All 0 0 1 1 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 0 0 0 51 0 0 0 52 0 0 0 53 0 0 0 54 0 0 0 55 0 0 0 56 0 0 0 57 0 0 0 58 0 0 0 59 0 0 0 60 0 0 0 61 0 0 0 62 0 0 0 63 0 0 0 64 0 0 0 65 0 0 0 66 0 0 0 67 0 0 0 68 0 0 0 69 0 0 0 70 0 0 0 71 0 0 0 72 0 0 0 73 0 0 0 74 0 0 0 75 1 0 1 76 0 0 0 77 0 0 0 78 0 0 0 79 0 0 0 80 0 0 0 81 0 0 0 82 0 0 0 83 0 0 0 84 0 0 0 85 0 0 0 86 0 0 0 87 0 0 0 88 0 0 0 89 0 0 0 90 0 0 0 91 0 0 0 92 2 0 2 your_output.sample_1.truncated000066400000000000000000000010771313314234200355150ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/threads/two@read_s1_075/1 GACGGTCCCATTAATGCACTATCGGATTTACACATTTGCGTGAATAAATCGACAGATGAATCATTAAGCTCCTAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s1_200/1 TCCATCAGGATCGTATTATACTAAGCTAGGACTGTGCAGTGCACAGAGAGGAGATGACCATGATCCTCGAGCAAGTTGCCGCAGGCTCGGGC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s1_150/1 TGCACCGTAGCCATATGGGCTGTTGGGGACACAGGGCGTCGGCATTCCTTTATTACTGACGCCGCTAGAGTCTATGCAAGGTTATAACGTAT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 your_output.sample_2.discarded000066400000000000000000000000231313314234200354350ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/threads/two@read_s2_000/1 + your_output.sample_2.settings000066400000000000000000000040711313314234200353620ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/threads/twoAdapterRemoval ver. 2.2.0 Trimming of single-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GCGCCGGA * sample_2* CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: ATGTCCTG_AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3717807245 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 4 Number of unaligned reads: 2 Number of well aligned reads: 2 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 3 Number of reads with adapters[1]: 2 Number of retained reads: 3 Number of retained nucleotides: 259 Average length of retained reads: 86.3333 [Length distribution] Length Mate1 Discarded All 0 0 1 1 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 0 0 0 51 0 0 0 52 0 0 0 53 0 0 0 54 0 0 0 55 0 0 0 56 0 0 0 57 0 0 0 58 0 0 0 59 0 0 0 60 0 0 0 61 0 0 0 62 0 0 0 63 0 0 0 64 0 0 0 65 0 0 0 66 0 0 0 67 0 0 0 68 0 0 0 69 0 0 0 70 0 0 0 71 0 0 0 72 0 0 0 73 0 0 0 74 0 0 0 75 1 0 1 76 0 0 0 77 0 0 0 78 0 0 0 79 0 0 0 80 0 0 0 81 0 0 0 82 0 0 0 83 0 0 0 84 0 0 0 85 0 0 0 86 0 0 0 87 0 0 0 88 0 0 0 89 0 0 0 90 0 0 0 91 0 0 0 92 2 0 2 your_output.sample_2.truncated000066400000000000000000000010771313314234200355160ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/threads/two@read_s2_150/1 TGATCTCATACATTTAAACAAAGTATGCCTTACGCATGCCTTAATGATACGTAACCTAGGCAACAGAGTCTTTACTTGTACCTGCTACACAC + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 @read_s2_075/1 TCGCTAGCCCAAGATCACGCTTTCCGCGACGTTTTAGAGCGTGCATACCGGGGCGTTTCTCAGATAGGTATTTCA + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<; @read_s2_200/1 ACCCTCACGCTTGCACGACGACAGCGGTCCCCTATAAATGTATGTTGACGCAGCGAGAGGCCAGGACCCGGGCGTGTTACCACTAAGACCCT + GGGGGGGGGGGFFFFFFFFFEEEEEEEEEDDDDDDDCCCCCCCBBBBBBAAAAAA@@@@?????>>>====<<<;;:::9988766543210 adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/threads/two/your_output.settings000066400000000000000000000020731313314234200337400ustar00rootroot00000000000000AdapterRemoval ver. 2.2.0 Trimming of single-indexed single-end reads [Demultiplexing] Maximum mismatches (total): 0 [Demultiplexing samples] Name Barcode_1 Barcode_2 sample_1 GCGCCGGA * sample_2 CAGGACAT * [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3717807245 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Demultiplexing statistics] Name Barcode_1 Barcode_2 Hits Fraction unidentified NA NA 0 0.000 ambiguous NA NA 0 0.000 sample_1 GCGCCGGA * 4 0.500 sample_2 CAGGACAT * 4 0.500 * * * 8 1.000 your_output.unidentified000066400000000000000000000000001313314234200344540ustar00rootroot00000000000000adapterremoval-2.2.2/validation/demultiplexing/single_indexed/se/threads/twoadapterremoval-2.2.2/validation/misc/000077500000000000000000000000001313314234200176045ustar00rootroot00000000000000adapterremoval-2.2.2/validation/misc/bad_args/000077500000000000000000000000001313314234200213465ustar00rootroot00000000000000adapterremoval-2.2.2/validation/misc/bad_args/demux_without_barcodes/000077500000000000000000000000001313314234200261155ustar00rootroot00000000000000adapterremoval-2.2.2/validation/misc/bad_args/demux_without_barcodes/info.json000066400000000000000000000002531313314234200277430ustar00rootroot00000000000000{ "arguments": ["--demultiplex-only"], "return_code": 1, "stderr": [ "Cannot use --demultiplex-only without specifying a list of barcodes using --barcode-list!" ] } adapterremoval-2.2.2/validation/misc/bad_args/demux_without_barcodes/input_1.fastq000066400000000000000000000003551313314234200305370ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/misc/bad_args/demux_without_barcodes/input_2.fastq000066400000000000000000000003551313314234200305400ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCC + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDEDBDBCBCCBBAA?ADAAA@@@>>>><=><<;<:<;87:78753420/,+)! adapterremoval-2.2.2/validation/misc/bad_args/fewer_file1/000077500000000000000000000000001313314234200235365ustar00rootroot00000000000000adapterremoval-2.2.2/validation/misc/bad_args/fewer_file1/info.json000066400000000000000000000002011313314234200253550ustar00rootroot00000000000000{ "arguments": [], "return_code": 1, "stderr": [ "Error: Different number of files specified for --file1 and --file2." ] } adapterremoval-2.2.2/validation/misc/bad_args/fewer_file1/input_1a.fastq000066400000000000000000000015501313314234200263170ustar00rootroot00000000000000@read_150_1/1 CTTGGGTACTCAGCCTTAGGGTACCACATAGAGTTATCTTATATATTATAATTGCTCTTTTAACATAATTTTAAAAAATTTATATTAAACTTTCTCTGTT + HHHFFFFBBDGGGGGHHHHHGGFCDHGEE<@;+@C792A.CEEGGFFFFDEFGFHHHH@C2;@F;EDDHFDCCC@.DEEEG=BGEDC5>:=2@GFHHHFF @read_150_2/1 GAGTGGGCTTCATCCCTGGGATGCAAGGCTGGTTCAATATATGCAAATCAATAAATGTAATCCAGCATATAAACAGAACCAAAGAAGATCGGAAGAGCAC + HHHHHHHHHHHHHHHHHHHHHHHGC.@CFGHHHHHHHHFBFFHEHHHHFBGHFFFFFFHEDE@EBHHFHB<<>099BEB@=?*59/''.CCFHFHHHHHH @read_150_3/1 TATGTAATGACATAACTCTTATGGGCAACTTCACAAAAACACAGAAGAAAGCCCTCCTAAAGAATGAAATTCCAAAAAAAATCAGGTTACTGCTCACTGA + HHE=EE@DBBBGHGBFGGDDDDFFFHHHHHGHHHHHHGHHHE7BFHHHHHHG@4FEHHFHHHHFHHHHHHFFFE?EGCDE>CD:9=>+*;=37::ADDHF @read_150_4/1 CTCCTATATAAAGATAGCTCTGTAAAACAGGCCAAAAAGCAGAGTGGGGTGTGGGAAGGCAGGGAAAACTGTCCAGGAATAAAGGCATGAAATGAAACAA + HHHHHHHHHHHHHHHHEG@:EEB4DFHHEHFHHHHEGFFEEFCDHEFF:+1;?GFFCFHHHHHHHHHFHBB>>BEDGCDHHHHF adapterremoval-2.2.2/validation/misc/bad_args/fewer_file1/input_1b.fastq000066400000000000000000000015501313314234200263200ustar00rootroot00000000000000@read_150_5/1 TACTCACGGACAAAGAATAAATATAGCTCCTCCAGGAGCTTAATAACTCAGTGCTGTCTAAACTCCTTACACCTGATGTTGATGCCATGGTTAGATAGTT + HHFFGGFDBHHEHHHHHHHHHHHHFHHHHFHHFEEDFD8=GHFFHHDHHHCHHFDHBHD:> @read_150_7/1 TAAGTAAGGTAGACAGCTAAGTCTAGTTTGTTCCCAGTGTTGTACCAGTCTCATCAGTGCCGTGTCTGGGTCTCACAGCCTCTGGTGTTCTATGCTGGAT + GFFEEDHHGHHHHHHHHB?GG77-/:>>@?6AC5GIB?BEBHHHHHHHHHHHHFGFHHHHHHEFEGF9?EHHHE@8BB12BEHHH @read_150_8/1 TAAAAACAAAAACCCTGATGAGAGTATTGATGTGTGCATAAACAAAGAAAAACATAATAGGAATAGAATGGTGAATTAAATTTTGTGAATTTTGGAAACC + HGGGGGHHHHHFHHGHHHHHHHEHHHHHHFHHEEHHHHHFE:/CGBHHHHHGFFGHHHHCEHEFECEFHHFEEE>E6,735@GG @read_150_3/2 GTCATTAACATTCACGAAGATAAATTTCTCCATTTTAAACAGAGACACTCAGTGAGCAGTAACCTGATTTTTTTTGGAATTTCATTCTTCAGGAGGGCTT + HHHHHHHHHHHHHHHHHH?GF5:@AFHHHGHFDDGGFFFHHFGHHHGGHHHHHHHHFGHFGEGC.18984>1BC=GFFAC<>E?..59&&-81:<<5.@ABCDBCE>:>@CDGHHHGEBFE/38@EEFBFGHHHHHHEGH?DHHHH>'9DEC**'*6 adapterremoval-2.2.2/validation/misc/bad_args/fewer_file1/input_2b.fastq000066400000000000000000000015501313314234200263210ustar00rootroot00000000000000@read_150_5/2 TGGGGCCATCAGGAATTTTGCAGTGGTAATGGGGGACATTTTAGCTGAGACTTGGAAAAATGGTAGAATTTGCTCCAACATGAGGAAATATGAGCATTGA + HHHHGEGHHHHGEG;/FHHHHHHHHE;@==G=DC>DGFHHHHHHHHHHHHHHFD;>A5<(@<4 @read_150_7/2 ACTTGCACCTCTTCATCAGAGGAGCAGATCCAGGAACAGAAGTCCTGCATTTACAGGCTCTTCATATCTTGTGCCGGGTTTGGCTGCCAGGTGGCCAGCT + HHHHG=BDEDFFGGHHHHHHHHHHHHFHHFHHHCGHHHHHEBHHHHHHHHHHHHHHGEEE??6BCFHE624@7=1AFGBDHHHFFE<<.>,1349EEHHHHHHHGFHFHHHHHEHHD=:>-7@BC2BHHHHHHHGBHEFFHHGGHFGFHHEEFHFBEBEFHHFFBCA?B adapterremoval-2.2.2/validation/misc/bad_args/fewer_file1/input_2c.fastq000066400000000000000000000006651313314234200263300ustar00rootroot00000000000000@read_150_9/2 GCCTTCCCTCTTCACTCCCTCCCTTATCCCAAACCTGCCTAGGTGGGGCTGATACAGACAGCAGGCCTGGCTCTACTTGTTTTGACAAAATATATGCCCT + GGGEBGHHHHHHHHHHHHHHHHHHHHFADHHHFHHHF?DEF@B>C;CDGEHGGHHHE@@DBFGHHHHGB>BBFEGEGHFHF8ADCFDEE4D?>H@:>DD= @read_150_10/2 TAGTCTTCTCTTTCCTGAGAATATTTTTATTGCAAATATGTAGTCATATATACGTAAGATAAGGATATTTTAAATACTACTTTAAAAGTTATTACTATAA + HHHHHHHHHHHHHHHHHHHHHHHHHHHHHFFFGHHHHHHHHHHHHEBDG>CCBB?FHFHHDEFHGDDGHHHHHH@BECHHEHGDHHHHHFHHHGEHHHHH adapterremoval-2.2.2/validation/misc/bad_args/fewer_file2/000077500000000000000000000000001313314234200235375ustar00rootroot00000000000000adapterremoval-2.2.2/validation/misc/bad_args/fewer_file2/info.json000066400000000000000000000002011313314234200253560ustar00rootroot00000000000000{ "arguments": [], "return_code": 1, "stderr": [ "Error: Different number of files specified for --file1 and --file2." ] } adapterremoval-2.2.2/validation/misc/bad_args/fewer_file2/input_1a.fastq000066400000000000000000000015501313314234200263200ustar00rootroot00000000000000@read_150_1/1 CTTGGGTACTCAGCCTTAGGGTACCACATAGAGTTATCTTATATATTATAATTGCTCTTTTAACATAATTTTAAAAAATTTATATTAAACTTTCTCTGTT + HHHFFFFBBDGGGGGHHHHHGGFCDHGEE<@;+@C792A.CEEGGFFFFDEFGFHHHH@C2;@F;EDDHFDCCC@.DEEEG=BGEDC5>:=2@GFHHHFF @read_150_2/1 GAGTGGGCTTCATCCCTGGGATGCAAGGCTGGTTCAATATATGCAAATCAATAAATGTAATCCAGCATATAAACAGAACCAAAGAAGATCGGAAGAGCAC + HHHHHHHHHHHHHHHHHHHHHHHGC.@CFGHHHHHHHHFBFFHEHHHHFBGHFFFFFFHEDE@EBHHFHB<<>099BEB@=?*59/''.CCFHFHHHHHH @read_150_3/1 TATGTAATGACATAACTCTTATGGGCAACTTCACAAAAACACAGAAGAAAGCCCTCCTAAAGAATGAAATTCCAAAAAAAATCAGGTTACTGCTCACTGA + HHE=EE@DBBBGHGBFGGDDDDFFFHHHHHGHHHHHHGHHHE7BFHHHHHHG@4FEHHFHHHHFHHHHHHFFFE?EGCDE>CD:9=>+*;=37::ADDHF @read_150_4/1 CTCCTATATAAAGATAGCTCTGTAAAACAGGCCAAAAAGCAGAGTGGGGTGTGGGAAGGCAGGGAAAACTGTCCAGGAATAAAGGCATGAAATGAAACAA + HHHHHHHHHHHHHHHHEG@:EEB4DFHHEHFHHHHEGFFEEFCDHEFF:+1;?GFFCFHHHHHHHHHFHBB>>BEDGCDHHHHF adapterremoval-2.2.2/validation/misc/bad_args/fewer_file2/input_1b.fastq000066400000000000000000000015501313314234200263210ustar00rootroot00000000000000@read_150_5/1 TACTCACGGACAAAGAATAAATATAGCTCCTCCAGGAGCTTAATAACTCAGTGCTGTCTAAACTCCTTACACCTGATGTTGATGCCATGGTTAGATAGTT + HHFFGGFDBHHEHHHHHHHHHHHHFHHHHFHHFEEDFD8=GHFFHHDHHHCHHFDHBHD:> @read_150_7/1 TAAGTAAGGTAGACAGCTAAGTCTAGTTTGTTCCCAGTGTTGTACCAGTCTCATCAGTGCCGTGTCTGGGTCTCACAGCCTCTGGTGTTCTATGCTGGAT + GFFEEDHHGHHHHHHHHB?GG77-/:>>@?6AC5GIB?BEBHHHHHHHHHHHHFGFHHHHHHEFEGF9?EHHHE@8BB12BEHHH @read_150_8/1 TAAAAACAAAAACCCTGATGAGAGTATTGATGTGTGCATAAACAAAGAAAAACATAATAGGAATAGAATGGTGAATTAAATTTTGTGAATTTTGGAAACC + HGGGGGHHHHHFHHGHHHHHHHEHHHHHHFHHEEHHHHHFE:/CGBHHHHHGFFGHHHHCEHEFECEFHHFEEE>E6,735@GG @read_150_3/2 GTCATTAACATTCACGAAGATAAATTTCTCCATTTTAAACAGAGACACTCAGTGAGCAGTAACCTGATTTTTTTTGGAATTTCATTCTTCAGGAGGGCTT + HHHHHHHHHHHHHHHHHH?GF5:@AFHHHGHFDDGGFFFHHFGHHHGGHHHHHHHHFGHFGEGC.18984>1BC=GFFAC<>E?..59&&-81:<<5.@ABCDBCE>:>@CDGHHHGEBFE/38@EEFBFGHHHHHHEGH?DHHHH>'9DEC**'*6 adapterremoval-2.2.2/validation/misc/bad_args/file2_only/000077500000000000000000000000001313314234200234105ustar00rootroot00000000000000adapterremoval-2.2.2/validation/misc/bad_args/file2_only/info.json000066400000000000000000000002011313314234200252270ustar00rootroot00000000000000{ "arguments": [], "return_code": 1, "stderr": [ "Error: Different number of files specified for --file1 and --file2." ] } adapterremoval-2.2.2/validation/misc/bad_args/file2_only/input_2.fastq000066400000000000000000000000001313314234200260160ustar00rootroot00000000000000adapterremoval-2.2.2/validation/misc/bad_args/ident_and_demux/000077500000000000000000000000001313314234200244755ustar00rootroot00000000000000adapterremoval-2.2.2/validation/misc/bad_args/ident_and_demux/info.json000066400000000000000000000002601313314234200263210ustar00rootroot00000000000000{ "arguments": ["--identify-adapters", "--demultiplex-only"], "return_code": 1, "stderr": [ "Cannot use --identify-adapters and --demultiplex-only at the same time!" ] } adapterremoval-2.2.2/validation/misc/bad_args/ident_and_demux/input_1.fastq000066400000000000000000000003551313314234200271170ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/misc/bad_args/ident_and_demux/input_2.fastq000066400000000000000000000003551313314234200271200ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCC + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDEDBDBCBCCBBAA?ADAAA@@@>>>><=><<;<:<;87:78753420/,+)! adapterremoval-2.2.2/validation/misc/bad_args/negative_window/000077500000000000000000000000001313314234200245375ustar00rootroot00000000000000adapterremoval-2.2.2/validation/misc/bad_args/negative_window/info.json000066400000000000000000000001711313314234200263640ustar00rootroot00000000000000{ "arguments": ["--trimwindows", "-1"], "return_code": 1, "stderr": [ "Error: Invalid value for --trimwindows" ] } adapterremoval-2.2.2/validation/misc/bad_args/negative_window/input_1.fastq000066400000000000000000000007341313314234200271620ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500_1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! @ATAGCCSeq_1_2959_500_2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAAT + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! adapterremoval-2.2.2/validation/misc/bad_args/se_interleaved/000077500000000000000000000000001313314234200243375ustar00rootroot00000000000000adapterremoval-2.2.2/validation/misc/bad_args/se_interleaved/info.json000066400000000000000000000001701313314234200261630ustar00rootroot00000000000000{ "arguments": ["--interleaved"], "return_code": 1, "stderr": [ "Pair contains reads with mismatching names:" ] } adapterremoval-2.2.2/validation/misc/bad_args/se_interleaved/input_1.fastq000066400000000000000000000007341313314234200267620ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500_1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! @ATAGCCSeq_1_2959_500_2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAAT + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! adapterremoval-2.2.2/validation/misc/bad_args/se_interleaved/your_output.discarded000066400000000000000000000000001313314234200306070ustar00rootroot00000000000000adapterremoval-2.2.2/validation/misc/bad_args/se_interleaved/your_output.paired.truncated000066400000000000000000000000001313314234200321210ustar00rootroot00000000000000adapterremoval-2.2.2/validation/misc/bad_args/se_interleaved/your_output.singleton.truncated000066400000000000000000000000001313314234200326570ustar00rootroot00000000000000adapterremoval-2.2.2/validation/misc/bad_args/se_interleaved_input/000077500000000000000000000000001313314234200255565ustar00rootroot00000000000000adapterremoval-2.2.2/validation/misc/bad_args/se_interleaved_input/info.json000066400000000000000000000001761313314234200274100ustar00rootroot00000000000000{ "arguments": ["--interleaved-input"], "return_code": 1, "stderr": [ "Pair contains reads with mismatching names:" ] } adapterremoval-2.2.2/validation/misc/bad_args/se_interleaved_input/input_1.fastq000066400000000000000000000007341313314234200302010ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500_1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! @ATAGCCSeq_1_2959_500_2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAAT + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! adapterremoval-2.2.2/validation/misc/bad_args/se_interleaved_input/your_output.discarded000066400000000000000000000000001313314234200320260ustar00rootroot00000000000000adapterremoval-2.2.2/validation/misc/bad_args/se_interleaved_input/your_output.pair1.truncated000066400000000000000000000000001313314234200331100ustar00rootroot00000000000000adapterremoval-2.2.2/validation/misc/bad_args/se_interleaved_input/your_output.pair2.truncated000066400000000000000000000000001313314234200331110ustar00rootroot00000000000000adapterremoval-2.2.2/validation/misc/bad_args/se_interleaved_input/your_output.singleton.truncated000066400000000000000000000000001313314234200340760ustar00rootroot00000000000000adapterremoval-2.2.2/validation/misc/empty/000077500000000000000000000000001313314234200207425ustar00rootroot00000000000000adapterremoval-2.2.2/validation/misc/empty/pe/000077500000000000000000000000001313314234200213465ustar00rootroot00000000000000adapterremoval-2.2.2/validation/misc/empty/pe/info.json000066400000000000000000000000711313314234200231720ustar00rootroot00000000000000{ "arguments": [], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/misc/empty/pe/input_1.fastq000066400000000000000000000000001313314234200237530ustar00rootroot00000000000000adapterremoval-2.2.2/validation/misc/empty/pe/input_2.fastq000066400000000000000000000000001313314234200237540ustar00rootroot00000000000000adapterremoval-2.2.2/validation/misc/empty/pe/your_output.discarded000066400000000000000000000000001313314234200256160ustar00rootroot00000000000000adapterremoval-2.2.2/validation/misc/empty/pe/your_output.pair1.truncated000066400000000000000000000000001313314234200267000ustar00rootroot00000000000000adapterremoval-2.2.2/validation/misc/empty/pe/your_output.pair2.truncated000066400000000000000000000000001313314234200267010ustar00rootroot00000000000000adapterremoval-2.2.2/validation/misc/empty/pe/your_output.settings000066400000000000000000000022331313314234200255460ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 220897227 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 0 Number of unaligned read pairs: 0 Number of well aligned read pairs: 0 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 0 Number of retained nucleotides: 0 Average length of retained reads: 0 [Length distribution] Length Mate1 Mate2 Singleton Discarded All adapterremoval-2.2.2/validation/misc/empty/pe/your_output.singleton.truncated000066400000000000000000000000001313314234200276660ustar00rootroot00000000000000adapterremoval-2.2.2/validation/misc/empty/se/000077500000000000000000000000001313314234200213515ustar00rootroot00000000000000adapterremoval-2.2.2/validation/misc/empty/se/info.json000066400000000000000000000000711313314234200231750ustar00rootroot00000000000000{ "arguments": [], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/misc/empty/se/input_1.fastq000066400000000000000000000000001313314234200237560ustar00rootroot00000000000000adapterremoval-2.2.2/validation/misc/empty/se/your_output.discarded000066400000000000000000000000001313314234200256210ustar00rootroot00000000000000adapterremoval-2.2.2/validation/misc/empty/se/your_output.settings000066400000000000000000000021201313314234200255440ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2121675954 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 0 Number of unaligned reads: 0 Number of well aligned reads: 0 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 0 Number of retained nucleotides: 0 Average length of retained reads: 0 [Length distribution] Length Mate1 Discarded All adapterremoval-2.2.2/validation/misc/empty/se/your_output.truncated000066400000000000000000000000001313314234200256700ustar00rootroot00000000000000adapterremoval-2.2.2/validation/misc/no_arguments/000077500000000000000000000000001313314234200223055ustar00rootroot00000000000000adapterremoval-2.2.2/validation/misc/no_arguments/info.json000066400000000000000000000001271313314234200241330ustar00rootroot00000000000000{ "arguments": [], "return_code": 1, "stderr": [ "This program searches for" ] } adapterremoval-2.2.2/validation/pe/000077500000000000000000000000001313314234200172555ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/000077500000000000000000000000001313314234200217105ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/000077500000000000000000000000001313314234200251105ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/collapse/000077500000000000000000000000001313314234200267125ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/collapse/info.json000066400000000000000000000001051313314234200305340ustar00rootroot00000000000000{ "arguments": ["--collapse"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/collapse/input_1.fastq000066400000000000000000000003561313314234200313350ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/collapse/input_2.fastq000066400000000000000000000003561313314234200313360ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAAT + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/collapse/your_output.collapsed000066400000000000000000000000001313314234200332060ustar00rootroot00000000000000your_output.collapsed.truncated000066400000000000000000000000001313314234200351170ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/collapseadapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/collapse/your_output.discarded000066400000000000000000000000001313314234200331620ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/collapse/your_output.pair1.truncated000066400000000000000000000003561313314234200342620ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/collapse/your_output.pair2.truncated000066400000000000000000000003561313314234200342630ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAAT + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/collapse/your_output.settings000066400000000000000000000056721313314234200331240ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1203911406 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: Yes Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 1 Number of well aligned read pairs: 0 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of full-length collapsed pairs: 0 Number of truncated collapsed pairs: 0 Number of retained reads: 2 Number of retained nucleotides: 200 Average length of retained reads: 100 [Length distribution] Length Mate1 Mate2 Singleton Collapsed CollapsedTruncated Discarded All 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 2 0 0 0 0 0 0 0 3 0 0 0 0 0 0 0 4 0 0 0 0 0 0 0 5 0 0 0 0 0 0 0 6 0 0 0 0 0 0 0 7 0 0 0 0 0 0 0 8 0 0 0 0 0 0 0 9 0 0 0 0 0 0 0 10 0 0 0 0 0 0 0 11 0 0 0 0 0 0 0 12 0 0 0 0 0 0 0 13 0 0 0 0 0 0 0 14 0 0 0 0 0 0 0 15 0 0 0 0 0 0 0 16 0 0 0 0 0 0 0 17 0 0 0 0 0 0 0 18 0 0 0 0 0 0 0 19 0 0 0 0 0 0 0 20 0 0 0 0 0 0 0 21 0 0 0 0 0 0 0 22 0 0 0 0 0 0 0 23 0 0 0 0 0 0 0 24 0 0 0 0 0 0 0 25 0 0 0 0 0 0 0 26 0 0 0 0 0 0 0 27 0 0 0 0 0 0 0 28 0 0 0 0 0 0 0 29 0 0 0 0 0 0 0 30 0 0 0 0 0 0 0 31 0 0 0 0 0 0 0 32 0 0 0 0 0 0 0 33 0 0 0 0 0 0 0 34 0 0 0 0 0 0 0 35 0 0 0 0 0 0 0 36 0 0 0 0 0 0 0 37 0 0 0 0 0 0 0 38 0 0 0 0 0 0 0 39 0 0 0 0 0 0 0 40 0 0 0 0 0 0 0 41 0 0 0 0 0 0 0 42 0 0 0 0 0 0 0 43 0 0 0 0 0 0 0 44 0 0 0 0 0 0 0 45 0 0 0 0 0 0 0 46 0 0 0 0 0 0 0 47 0 0 0 0 0 0 0 48 0 0 0 0 0 0 0 49 0 0 0 0 0 0 0 50 0 0 0 0 0 0 0 51 0 0 0 0 0 0 0 52 0 0 0 0 0 0 0 53 0 0 0 0 0 0 0 54 0 0 0 0 0 0 0 55 0 0 0 0 0 0 0 56 0 0 0 0 0 0 0 57 0 0 0 0 0 0 0 58 0 0 0 0 0 0 0 59 0 0 0 0 0 0 0 60 0 0 0 0 0 0 0 61 0 0 0 0 0 0 0 62 0 0 0 0 0 0 0 63 0 0 0 0 0 0 0 64 0 0 0 0 0 0 0 65 0 0 0 0 0 0 0 66 0 0 0 0 0 0 0 67 0 0 0 0 0 0 0 68 0 0 0 0 0 0 0 69 0 0 0 0 0 0 0 70 0 0 0 0 0 0 0 71 0 0 0 0 0 0 0 72 0 0 0 0 0 0 0 73 0 0 0 0 0 0 0 74 0 0 0 0 0 0 0 75 0 0 0 0 0 0 0 76 0 0 0 0 0 0 0 77 0 0 0 0 0 0 0 78 0 0 0 0 0 0 0 79 0 0 0 0 0 0 0 80 0 0 0 0 0 0 0 81 0 0 0 0 0 0 0 82 0 0 0 0 0 0 0 83 0 0 0 0 0 0 0 84 0 0 0 0 0 0 0 85 0 0 0 0 0 0 0 86 0 0 0 0 0 0 0 87 0 0 0 0 0 0 0 88 0 0 0 0 0 0 0 89 0 0 0 0 0 0 0 90 0 0 0 0 0 0 0 91 0 0 0 0 0 0 0 92 0 0 0 0 0 0 0 93 0 0 0 0 0 0 0 94 0 0 0 0 0 0 0 95 0 0 0 0 0 0 0 96 0 0 0 0 0 0 0 97 0 0 0 0 0 0 0 98 0 0 0 0 0 0 0 99 0 0 0 0 0 0 0 100 1 1 0 0 0 0 2 your_output.singleton.truncated000066400000000000000000000000001313314234200351530ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/collapseadapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/000077500000000000000000000000001313314234200303105ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/collapse/000077500000000000000000000000001313314234200321125ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/collapse/info.json000066400000000000000000000001321313314234200337340ustar00rootroot00000000000000{ "arguments": ["--combined-output", "--collapse"], "return_code": 0, "stderr": [ ] } input_1.fastq000066400000000000000000000003561313314234200344560ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/collapse@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! input_2.fastq000066400000000000000000000003561313314234200344570ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/collapse@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAAT + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.pair1.truncated000066400000000000000000000003561313314234200374030ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/collapse@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! your_output.pair2.truncated000066400000000000000000000003561313314234200374040ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/collapse@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAAT + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.settings000066400000000000000000000056721313314234200362450ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/collapseAdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2579970730 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: Yes Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 1 Number of well aligned read pairs: 0 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of full-length collapsed pairs: 0 Number of truncated collapsed pairs: 0 Number of retained reads: 2 Number of retained nucleotides: 200 Average length of retained reads: 100 [Length distribution] Length Mate1 Mate2 Singleton Collapsed CollapsedTruncated Discarded All 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 2 0 0 0 0 0 0 0 3 0 0 0 0 0 0 0 4 0 0 0 0 0 0 0 5 0 0 0 0 0 0 0 6 0 0 0 0 0 0 0 7 0 0 0 0 0 0 0 8 0 0 0 0 0 0 0 9 0 0 0 0 0 0 0 10 0 0 0 0 0 0 0 11 0 0 0 0 0 0 0 12 0 0 0 0 0 0 0 13 0 0 0 0 0 0 0 14 0 0 0 0 0 0 0 15 0 0 0 0 0 0 0 16 0 0 0 0 0 0 0 17 0 0 0 0 0 0 0 18 0 0 0 0 0 0 0 19 0 0 0 0 0 0 0 20 0 0 0 0 0 0 0 21 0 0 0 0 0 0 0 22 0 0 0 0 0 0 0 23 0 0 0 0 0 0 0 24 0 0 0 0 0 0 0 25 0 0 0 0 0 0 0 26 0 0 0 0 0 0 0 27 0 0 0 0 0 0 0 28 0 0 0 0 0 0 0 29 0 0 0 0 0 0 0 30 0 0 0 0 0 0 0 31 0 0 0 0 0 0 0 32 0 0 0 0 0 0 0 33 0 0 0 0 0 0 0 34 0 0 0 0 0 0 0 35 0 0 0 0 0 0 0 36 0 0 0 0 0 0 0 37 0 0 0 0 0 0 0 38 0 0 0 0 0 0 0 39 0 0 0 0 0 0 0 40 0 0 0 0 0 0 0 41 0 0 0 0 0 0 0 42 0 0 0 0 0 0 0 43 0 0 0 0 0 0 0 44 0 0 0 0 0 0 0 45 0 0 0 0 0 0 0 46 0 0 0 0 0 0 0 47 0 0 0 0 0 0 0 48 0 0 0 0 0 0 0 49 0 0 0 0 0 0 0 50 0 0 0 0 0 0 0 51 0 0 0 0 0 0 0 52 0 0 0 0 0 0 0 53 0 0 0 0 0 0 0 54 0 0 0 0 0 0 0 55 0 0 0 0 0 0 0 56 0 0 0 0 0 0 0 57 0 0 0 0 0 0 0 58 0 0 0 0 0 0 0 59 0 0 0 0 0 0 0 60 0 0 0 0 0 0 0 61 0 0 0 0 0 0 0 62 0 0 0 0 0 0 0 63 0 0 0 0 0 0 0 64 0 0 0 0 0 0 0 65 0 0 0 0 0 0 0 66 0 0 0 0 0 0 0 67 0 0 0 0 0 0 0 68 0 0 0 0 0 0 0 69 0 0 0 0 0 0 0 70 0 0 0 0 0 0 0 71 0 0 0 0 0 0 0 72 0 0 0 0 0 0 0 73 0 0 0 0 0 0 0 74 0 0 0 0 0 0 0 75 0 0 0 0 0 0 0 76 0 0 0 0 0 0 0 77 0 0 0 0 0 0 0 78 0 0 0 0 0 0 0 79 0 0 0 0 0 0 0 80 0 0 0 0 0 0 0 81 0 0 0 0 0 0 0 82 0 0 0 0 0 0 0 83 0 0 0 0 0 0 0 84 0 0 0 0 0 0 0 85 0 0 0 0 0 0 0 86 0 0 0 0 0 0 0 87 0 0 0 0 0 0 0 88 0 0 0 0 0 0 0 89 0 0 0 0 0 0 0 90 0 0 0 0 0 0 0 91 0 0 0 0 0 0 0 92 0 0 0 0 0 0 0 93 0 0 0 0 0 0 0 94 0 0 0 0 0 0 0 95 0 0 0 0 0 0 0 96 0 0 0 0 0 0 0 97 0 0 0 0 0 0 0 98 0 0 0 0 0 0 0 99 0 0 0 0 0 0 0 100 1 1 0 0 0 0 2 adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/interleaved/000077500000000000000000000000001313314234200326125ustar00rootroot00000000000000000077500000000000000000000000001313314234200343355ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/interleaved/collapseinfo.json000066400000000000000000000001621313314234200361620ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/interleaved/collapse{ "arguments": ["--combined-output", "--collapse", "--interleaved-output"], "return_code": 0, "stderr": [ ] } input_1.fastq000066400000000000000000000003561313314234200367600ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/interleaved/collapse@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! input_2.fastq000066400000000000000000000003561313314234200367610ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/interleaved/collapse@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAAT + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.paired.truncated000066400000000000000000000007341313314234200421350ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/interleaved/collapse@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! @ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAAT + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.settings000066400000000000000000000056721313314234200405470ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/interleaved/collapseAdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2579970730 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: Yes Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 1 Number of well aligned read pairs: 0 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of full-length collapsed pairs: 0 Number of truncated collapsed pairs: 0 Number of retained reads: 2 Number of retained nucleotides: 200 Average length of retained reads: 100 [Length distribution] Length Mate1 Mate2 Singleton Collapsed CollapsedTruncated Discarded All 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 2 0 0 0 0 0 0 0 3 0 0 0 0 0 0 0 4 0 0 0 0 0 0 0 5 0 0 0 0 0 0 0 6 0 0 0 0 0 0 0 7 0 0 0 0 0 0 0 8 0 0 0 0 0 0 0 9 0 0 0 0 0 0 0 10 0 0 0 0 0 0 0 11 0 0 0 0 0 0 0 12 0 0 0 0 0 0 0 13 0 0 0 0 0 0 0 14 0 0 0 0 0 0 0 15 0 0 0 0 0 0 0 16 0 0 0 0 0 0 0 17 0 0 0 0 0 0 0 18 0 0 0 0 0 0 0 19 0 0 0 0 0 0 0 20 0 0 0 0 0 0 0 21 0 0 0 0 0 0 0 22 0 0 0 0 0 0 0 23 0 0 0 0 0 0 0 24 0 0 0 0 0 0 0 25 0 0 0 0 0 0 0 26 0 0 0 0 0 0 0 27 0 0 0 0 0 0 0 28 0 0 0 0 0 0 0 29 0 0 0 0 0 0 0 30 0 0 0 0 0 0 0 31 0 0 0 0 0 0 0 32 0 0 0 0 0 0 0 33 0 0 0 0 0 0 0 34 0 0 0 0 0 0 0 35 0 0 0 0 0 0 0 36 0 0 0 0 0 0 0 37 0 0 0 0 0 0 0 38 0 0 0 0 0 0 0 39 0 0 0 0 0 0 0 40 0 0 0 0 0 0 0 41 0 0 0 0 0 0 0 42 0 0 0 0 0 0 0 43 0 0 0 0 0 0 0 44 0 0 0 0 0 0 0 45 0 0 0 0 0 0 0 46 0 0 0 0 0 0 0 47 0 0 0 0 0 0 0 48 0 0 0 0 0 0 0 49 0 0 0 0 0 0 0 50 0 0 0 0 0 0 0 51 0 0 0 0 0 0 0 52 0 0 0 0 0 0 0 53 0 0 0 0 0 0 0 54 0 0 0 0 0 0 0 55 0 0 0 0 0 0 0 56 0 0 0 0 0 0 0 57 0 0 0 0 0 0 0 58 0 0 0 0 0 0 0 59 0 0 0 0 0 0 0 60 0 0 0 0 0 0 0 61 0 0 0 0 0 0 0 62 0 0 0 0 0 0 0 63 0 0 0 0 0 0 0 64 0 0 0 0 0 0 0 65 0 0 0 0 0 0 0 66 0 0 0 0 0 0 0 67 0 0 0 0 0 0 0 68 0 0 0 0 0 0 0 69 0 0 0 0 0 0 0 70 0 0 0 0 0 0 0 71 0 0 0 0 0 0 0 72 0 0 0 0 0 0 0 73 0 0 0 0 0 0 0 74 0 0 0 0 0 0 0 75 0 0 0 0 0 0 0 76 0 0 0 0 0 0 0 77 0 0 0 0 0 0 0 78 0 0 0 0 0 0 0 79 0 0 0 0 0 0 0 80 0 0 0 0 0 0 0 81 0 0 0 0 0 0 0 82 0 0 0 0 0 0 0 83 0 0 0 0 0 0 0 84 0 0 0 0 0 0 0 85 0 0 0 0 0 0 0 86 0 0 0 0 0 0 0 87 0 0 0 0 0 0 0 88 0 0 0 0 0 0 0 89 0 0 0 0 0 0 0 90 0 0 0 0 0 0 0 91 0 0 0 0 0 0 0 92 0 0 0 0 0 0 0 93 0 0 0 0 0 0 0 94 0 0 0 0 0 0 0 95 0 0 0 0 0 0 0 96 0 0 0 0 0 0 0 97 0 0 0 0 0 0 0 98 0 0 0 0 0 0 0 99 0 0 0 0 0 0 0 100 1 1 0 0 0 0 2 000077500000000000000000000000001313314234200344735ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/interleaved/keep_bothinfo.json000066400000000000000000000001441313314234200363200ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/interleaved/keep_both{ "arguments": ["--combined-output", "--interleaved-output"], "return_code": 0, "stderr": [ ] } input_1.fastq000066400000000000000000000003561313314234200371160ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/interleaved/keep_both@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! input_2.fastq000066400000000000000000000003561313314234200371170ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/interleaved/keep_both@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAAT + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.paired.truncated000066400000000000000000000007341313314234200422730ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/interleaved/keep_both@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! @ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAAT + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.settings000066400000000000000000000046701313314234200407020ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/interleaved/keep_bothAdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2644350168 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 1 Number of well aligned read pairs: 0 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 2 Number of retained nucleotides: 200 Average length of retained reads: 100 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 0 0 100 1 1 0 0 2 000077500000000000000000000000001313314234200345465ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/interleaved/keep_mate1info.json000066400000000000000000000002061313314234200363720ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/interleaved/keep_mate1{ "arguments": ["--combined-output", "--minlength", "100", "--trimns", "--interleaved-output"], "return_code": 0, "stderr": [ ] } input_1.fastq000066400000000000000000000003561313314234200371710ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/interleaved/keep_mate1@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! input_2.fastq000066400000000000000000000003561313314234200371720ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/interleaved/keep_mate1@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAAN + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.paired.truncated000066400000000000000000000004261313314234200423440ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/interleaved/keep_mate1@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! @ATAGCCSeq_1_2959_500/2 data meta N + ! your_output.settings000066400000000000000000000046721313314234200407570ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/interleaved/keep_mate1AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2806715714 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 100 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 1 Number of well aligned read pairs: 0 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 1 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 1 Number of retained nucleotides: 100 Average length of retained reads: 100 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 1 1 100 0 0 1 0 1 000077500000000000000000000000001313314234200345475ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/interleaved/keep_mate2info.json000066400000000000000000000002061313314234200363730ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/interleaved/keep_mate2{ "arguments": ["--combined-output", "--minlength", "100", "--trimns", "--interleaved-output"], "return_code": 0, "stderr": [ ] } input_1.fastq000066400000000000000000000003561313314234200371720ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/interleaved/keep_mate2@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTN + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! input_2.fastq000066400000000000000000000003561313314234200371730ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/interleaved/keep_mate2@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAAT + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.paired.truncated000066400000000000000000000004261313314234200423450ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/interleaved/keep_mate2@ATAGCCSeq_1_2959_500/1 meta data N + ! @ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAAT + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.settings000066400000000000000000000046721313314234200407600ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/interleaved/keep_mate2AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3115920885 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 100 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 1 Number of reads with adapters[1]: 0 Number of retained reads: 1 Number of retained nucleotides: 100 Average length of retained reads: 100 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 1 1 100 0 0 1 0 1 000077500000000000000000000000001313314234200351755ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/interleaved/keep_neitherinfo.json000066400000000000000000000002061313314234200370210ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/interleaved/keep_neither{ "arguments": ["--combined-output", "--minlength", "100", "--trimns", "--interleaved-output"], "return_code": 0, "stderr": [ ] } input_1.fastq000066400000000000000000000003561313314234200376200ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/interleaved/keep_neither@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTN + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! input_2.fastq000066400000000000000000000003561313314234200376210ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/interleaved/keep_neither@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAAN + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.paired.truncated000066400000000000000000000001201313314234200427620ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/interleaved/keep_neither@ATAGCCSeq_1_2959_500/1 meta data N + ! @ATAGCCSeq_1_2959_500/2 data meta N + ! your_output.settings000066400000000000000000000046501313314234200414020ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/interleaved/keep_neitherAdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2416745148 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 100 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 1 Number of well aligned read pairs: 0 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 0 Number of retained nucleotides: 0 Average length of retained reads: 0 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 2 2 adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/keep_both/000077500000000000000000000000001313314234200322505ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/keep_both/info.json000066400000000000000000000001141313314234200340720ustar00rootroot00000000000000{ "arguments": ["--combined-output"], "return_code": 0, "stderr": [ ] } input_1.fastq000066400000000000000000000003561313314234200346140ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/keep_both@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! input_2.fastq000066400000000000000000000003561313314234200346150ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/keep_both@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAAT + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.pair1.truncated000066400000000000000000000003561313314234200375410ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/keep_both@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! your_output.pair2.truncated000066400000000000000000000003561313314234200375420ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/keep_both@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAAT + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.settings000066400000000000000000000046701313314234200364000ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/keep_bothAdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2644350168 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 1 Number of well aligned read pairs: 0 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 2 Number of retained nucleotides: 200 Average length of retained reads: 100 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 0 0 100 1 1 0 0 2 adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/keep_mate1/000077500000000000000000000000001313314234200323235ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/keep_mate1/info.json000066400000000000000000000001561313314234200341530ustar00rootroot00000000000000{ "arguments": ["--combined-output", "--minlength", "100", "--trimns"], "return_code": 0, "stderr": [ ] } input_1.fastq000066400000000000000000000003561313314234200346670ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/keep_mate1@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! input_2.fastq000066400000000000000000000003561313314234200346700ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/keep_mate1@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAAN + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.pair1.truncated000066400000000000000000000003561313314234200376140ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/keep_mate1@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! your_output.pair2.truncated000066400000000000000000000000501313314234200376040ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/keep_mate1@ATAGCCSeq_1_2959_500/2 data meta N + ! your_output.settings000066400000000000000000000046721313314234200364550ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/keep_mate1AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2806715714 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 100 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 1 Number of well aligned read pairs: 0 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 1 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 1 Number of retained nucleotides: 100 Average length of retained reads: 100 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 1 1 100 0 0 1 0 1 adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/keep_mate2/000077500000000000000000000000001313314234200323245ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/keep_mate2/info.json000066400000000000000000000001561313314234200341540ustar00rootroot00000000000000{ "arguments": ["--combined-output", "--minlength", "100", "--trimns"], "return_code": 0, "stderr": [ ] } input_1.fastq000066400000000000000000000003561313314234200346700ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/keep_mate2@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTN + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! input_2.fastq000066400000000000000000000003561313314234200346710ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/keep_mate2@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAAT + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.pair1.truncated000066400000000000000000000000501313314234200376040ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/keep_mate2@ATAGCCSeq_1_2959_500/1 meta data N + ! your_output.pair2.truncated000066400000000000000000000003561313314234200376160ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/keep_mate2@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAAT + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.settings000066400000000000000000000046721313314234200364560ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/keep_mate2AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3115920885 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 100 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 1 Number of reads with adapters[1]: 0 Number of retained reads: 1 Number of retained nucleotides: 100 Average length of retained reads: 100 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 1 1 100 0 0 1 0 1 adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/keep_neither/000077500000000000000000000000001313314234200327525ustar00rootroot00000000000000info.json000066400000000000000000000001561313314234200345230ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/keep_neither{ "arguments": ["--combined-output", "--minlength", "100", "--trimns"], "return_code": 0, "stderr": [ ] } input_1.fastq000066400000000000000000000003561313314234200353160ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/keep_neither@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTN + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! input_2.fastq000066400000000000000000000003561313314234200353170ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/keep_neither@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAAN + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.pair1.truncated000066400000000000000000000000501313314234200402320ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/keep_neither@ATAGCCSeq_1_2959_500/1 meta data N + ! your_output.pair2.truncated000066400000000000000000000000501313314234200402330ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/keep_neither@ATAGCCSeq_1_2959_500/2 data meta N + ! your_output.settings000066400000000000000000000046501313314234200371000ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/combined_output/keep_neitherAdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2543753157 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 100 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 1 Number of well aligned read pairs: 0 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 0 Number of retained nucleotides: 0 Average length of retained reads: 0 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 2 2 adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/crlf_newlines/000077500000000000000000000000001313314234200277425ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/crlf_newlines/info.json000066400000000000000000000000711313314234200315660ustar00rootroot00000000000000{ "arguments": [], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/crlf_newlines/input_1.fastq000066400000000000000000000003621313314234200323620ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/crlf_newlines/input_2.fastq000066400000000000000000000003621313314234200323630ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAAT + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/crlf_newlines/your_output.discarded000066400000000000000000000000001313314234200342120ustar00rootroot00000000000000your_output.pair1.truncated000066400000000000000000000003561313314234200352330ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/crlf_newlines@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! your_output.pair2.truncated000066400000000000000000000003561313314234200352340ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/crlf_newlines@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAAT + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/crlf_newlines/your_output.settings000066400000000000000000000046671313314234200341570ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 981230521 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 1 Number of well aligned read pairs: 0 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 2 Number of retained nucleotides: 200 Average length of retained reads: 100 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 0 0 100 1 1 0 0 2 your_output.singleton.truncated000066400000000000000000000000001313314234200362030ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/crlf_newlinesadapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/defaults/000077500000000000000000000000001313314234200267175ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/defaults/info.json000066400000000000000000000000711313314234200305430ustar00rootroot00000000000000{ "arguments": [], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/defaults/input_1.fastq000066400000000000000000000003561313314234200313420ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/defaults/input_2.fastq000066400000000000000000000003561313314234200313430ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAAT + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/defaults/your_output.discarded000066400000000000000000000000001313314234200331670ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/defaults/your_output.pair1.truncated000066400000000000000000000003561313314234200342670ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/defaults/your_output.pair2.truncated000066400000000000000000000003561313314234200342700ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAAT + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/defaults/your_output.settings000066400000000000000000000046671313314234200331340ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 981230521 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 1 Number of well aligned read pairs: 0 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 2 Number of retained nucleotides: 200 Average length of retained reads: 100 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 0 0 100 1 1 0 0 2 your_output.singleton.truncated000066400000000000000000000000001313314234200351600ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/defaultsadapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/interleaved/000077500000000000000000000000001313314234200274125ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/interleaved/both/000077500000000000000000000000001313314234200303465ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/interleaved/both/info.json000066400000000000000000000001101313314234200321640ustar00rootroot00000000000000{ "arguments": ["--interleaved"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/interleaved/both/input_1.fastq000066400000000000000000000007341313314234200327710ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! @ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAAT + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.discarded000066400000000000000000000000001313314234200345370ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/interleaved/bothyour_output.paired.truncated000066400000000000000000000007341313314234200360670ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/interleaved/both@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! @ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAAT + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.settings000066400000000000000000000046671313314234200345040ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/interleaved/bothAdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 108917414 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 1 Number of well aligned read pairs: 0 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 2 Number of retained nucleotides: 200 Average length of retained reads: 100 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 0 0 100 1 1 0 0 2 your_output.singleton.truncated000066400000000000000000000000001313314234200366070ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/interleaved/bothadapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/interleaved/output/000077500000000000000000000000001313314234200307525ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/interleaved/output/info.json000066400000000000000000000001171313314234200325770ustar00rootroot00000000000000{ "arguments": ["--interleaved-output"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/interleaved/output/input_1.fastq000066400000000000000000000003561313314234200333750ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/interleaved/output/input_2.fastq000066400000000000000000000003561313314234200333760ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAAT + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.discarded000066400000000000000000000000001313314234200351430ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/interleaved/outputyour_output.paired.truncated000066400000000000000000000007341313314234200364730ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/interleaved/output@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! @ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAAT + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.settings000066400000000000000000000046671313314234200351100ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/interleaved/outputAdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 108917414 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 1 Number of well aligned read pairs: 0 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 2 Number of retained nucleotides: 200 Average length of retained reads: 100 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 0 0 100 1 1 0 0 2 your_output.singleton.truncated000066400000000000000000000000001313314234200372130ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/interleaved/outputadapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/maxlength/000077500000000000000000000000001313314234200270775ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/maxlength/both/000077500000000000000000000000001313314234200300335ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/maxlength/both/info.json000066400000000000000000000001301313314234200316530ustar00rootroot00000000000000{ "arguments": ["--maxlength", "99", "--trimns"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/maxlength/both/input_1.fastq000066400000000000000000000003561313314234200324560ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/maxlength/both/input_2.fastq000066400000000000000000000003561313314234200324570ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAAT + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/maxlength/both/your_output.discarded000066400000000000000000000007341313314234200343210ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! @ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAAT + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.pair1.truncated000066400000000000000000000000001313314234200353060ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/maxlength/bothyour_output.pair2.truncated000066400000000000000000000000001313314234200353070ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/maxlength/bothadapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/maxlength/both/your_output.settings000066400000000000000000000046551313314234200342450ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2294078498 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 99 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 1 Number of well aligned read pairs: 0 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 0 Number of retained nucleotides: 0 Average length of retained reads: 0 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 0 0 100 0 0 0 2 2 your_output.singleton.truncated000066400000000000000000000000001313314234200362740ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/maxlength/bothadapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/maxlength/mate1/000077500000000000000000000000001313314234200301065ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/maxlength/mate1/info.json000066400000000000000000000001301313314234200317260ustar00rootroot00000000000000{ "arguments": ["--maxlength", "99", "--trimns"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/maxlength/mate1/input_1.fastq000066400000000000000000000003561313314234200325310ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/maxlength/mate1/input_2.fastq000066400000000000000000000003541313314234200325300ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAA + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*& your_output.discarded000066400000000000000000000003561313314234200343150ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/maxlength/mate1@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! your_output.pair1.truncated000066400000000000000000000000001313314234200353610ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/maxlength/mate1your_output.pair2.truncated000066400000000000000000000000001313314234200353620ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/maxlength/mate1adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/maxlength/mate1/your_output.settings000066400000000000000000000046571313314234200343220ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2378184469 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 99 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 1 Number of well aligned read pairs: 0 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 1 Number of reads with adapters[1]: 0 Number of retained reads: 1 Number of retained nucleotides: 99 Average length of retained reads: 99 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 1 0 1 100 0 0 0 1 1 your_output.singleton.truncated000066400000000000000000000003541313314234200363630ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/maxlength/mate1@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAA + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*& adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/maxlength/mate2/000077500000000000000000000000001313314234200301075ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/maxlength/mate2/info.json000066400000000000000000000001301313314234200317270ustar00rootroot00000000000000{ "arguments": ["--maxlength", "99", "--trimns"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/maxlength/mate2/input_1.fastq000066400000000000000000000003541313314234200325300ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCT + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)' adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/maxlength/mate2/input_2.fastq000066400000000000000000000003561313314234200325330ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAAT + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.discarded000066400000000000000000000003561313314234200343160ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/maxlength/mate2@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAAT + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.pair1.truncated000066400000000000000000000000001313314234200353620ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/maxlength/mate2your_output.pair2.truncated000066400000000000000000000000001313314234200353630ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/maxlength/mate2adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/maxlength/mate2/your_output.settings000066400000000000000000000046571313314234200343230ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2394981856 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 99 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 1 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 1 Number of retained nucleotides: 99 Average length of retained reads: 99 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 1 0 1 100 0 0 0 1 1 your_output.singleton.truncated000066400000000000000000000003541313314234200363640ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/maxlength/mate2@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCT + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)' adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/minlength/000077500000000000000000000000001313314234200270755ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/minlength/both/000077500000000000000000000000001313314234200300315ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/minlength/both/info.json000066400000000000000000000001301313314234200316510ustar00rootroot00000000000000{ "arguments": ["--minlength", "50", "--trimns"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/minlength/both/input_1.fastq000066400000000000000000000003561313314234200324540ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/minlength/both/input_2.fastq000066400000000000000000000003561313314234200324550ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/minlength/both/your_output.discarded000066400000000000000000000003521313314234200343130ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEE @ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTAC + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEF your_output.pair1.truncated000066400000000000000000000000001313314234200353040ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/minlength/bothyour_output.pair2.truncated000066400000000000000000000000001313314234200353050ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/minlength/bothadapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/minlength/both/your_output.settings000066400000000000000000000033171313314234200342350ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2027572855 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 50 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 1 Number of well aligned read pairs: 0 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 0 Number of retained nucleotides: 0 Average length of retained reads: 0 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 1 1 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 1 1 your_output.singleton.truncated000066400000000000000000000000001313314234200362720ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/minlength/bothadapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/minlength/mate1/000077500000000000000000000000001313314234200301045ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/minlength/mate1/info.json000066400000000000000000000001301313314234200317240ustar00rootroot00000000000000{ "arguments": ["--minlength", "50", "--trimns"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/minlength/mate1/input_1.fastq000066400000000000000000000003561313314234200325270ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/minlength/mate1/input_2.fastq000066400000000000000000000003561313314234200325300ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAAT + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.discarded000066400000000000000000000001741313314234200343110ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/minlength/mate1@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEE your_output.pair1.truncated000066400000000000000000000000001313314234200353570ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/minlength/mate1your_output.pair2.truncated000066400000000000000000000000001313314234200353600ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/minlength/mate1adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/minlength/mate1/your_output.settings000066400000000000000000000046711313314234200343140ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2010319782 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 50 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 1 Number of well aligned read pairs: 0 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 1 Number of reads with adapters[1]: 0 Number of retained reads: 1 Number of retained nucleotides: 100 Average length of retained reads: 100 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 1 1 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 0 0 100 0 0 1 0 1 your_output.singleton.truncated000066400000000000000000000003561313314234200363630ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/minlength/mate1@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAAT + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/minlength/mate2/000077500000000000000000000000001313314234200301055ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/minlength/mate2/info.json000066400000000000000000000001301313314234200317250ustar00rootroot00000000000000{ "arguments": ["--minlength", "50", "--trimns"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/minlength/mate2/input_1.fastq000066400000000000000000000003561313314234200325300ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/minlength/mate2/input_2.fastq000066400000000000000000000003561313314234200325310ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.discarded000066400000000000000000000001561313314234200343120ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/minlength/mate2@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTAC + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEF your_output.pair1.truncated000066400000000000000000000000001313314234200353600ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/minlength/mate2your_output.pair2.truncated000066400000000000000000000000001313314234200353610ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/minlength/mate2adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/minlength/mate2/your_output.settings000066400000000000000000000046711313314234200343150ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2024298981 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 50 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 1 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 1 Number of retained nucleotides: 100 Average length of retained reads: 100 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 1 1 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 0 0 100 0 0 1 0 1 your_output.singleton.truncated000066400000000000000000000003561313314234200363640ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/minlength/mate2@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/trimns/000077500000000000000000000000001313314234200264245ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/trimns/excl_ns/000077500000000000000000000000001313314234200300575ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/trimns/excl_ns/info.json000066400000000000000000000001031313314234200316770ustar00rootroot00000000000000{ "arguments": ["--trimns"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/trimns/excl_ns/input_1.fastq000066400000000000000000000003561313314234200325020ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/trimns/excl_ns/input_2.fastq000066400000000000000000000003561313314234200325030ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAAT + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/trimns/excl_ns/your_output.discarded000066400000000000000000000000001313314234200343270ustar00rootroot00000000000000your_output.pair1.truncated000066400000000000000000000003561313314234200353500ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/trimns/excl_ns@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! your_output.pair2.truncated000066400000000000000000000003561313314234200353510ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/trimns/excl_ns@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAAT + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/trimns/excl_ns/your_output.settings000066400000000000000000000046701313314234200342660ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 981230521 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 1 Number of well aligned read pairs: 0 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 2 Number of retained nucleotides: 200 Average length of retained reads: 100 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 0 0 100 1 1 0 0 2 your_output.singleton.truncated000066400000000000000000000000001313314234200363200ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/trimns/excl_nsadapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/trimns/incl_ns/000077500000000000000000000000001313314234200300515ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/trimns/incl_ns/info.json000066400000000000000000000001031313314234200316710ustar00rootroot00000000000000{ "arguments": ["--trimns"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/trimns/incl_ns/input_1.fastq000066400000000000000000000003561313314234200324740ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCATN + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/trimns/incl_ns/input_2.fastq000066400000000000000000000003561313314234200324750ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGNNN + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/trimns/incl_ns/your_output.discarded000066400000000000000000000000001313314234200343210ustar00rootroot00000000000000your_output.pair1.truncated000066400000000000000000000003541313314234200353400ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/trimns/incl_ns@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCAT + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)' your_output.pair2.truncated000066400000000000000000000003501313314234200353350ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/trimns/incl_ns@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGG + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220. adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/trimns/incl_ns/your_output.settings000066400000000000000000000046511313314234200342570ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 981230521 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 1 Number of well aligned read pairs: 0 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 2 Number of retained nucleotides: 196 Average length of retained reads: 98 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 1 0 0 1 98 0 0 0 0 0 99 1 0 0 0 1 your_output.singleton.truncated000066400000000000000000000000001313314234200363120ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/trimns/incl_nsadapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/trimqualities/000077500000000000000000000000001313314234200300045ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/trimqualities/default/000077500000000000000000000000001313314234200314305ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/trimqualities/default/info.json000066400000000000000000000001121313314234200332500ustar00rootroot00000000000000{ "arguments": ["--trimqualities"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/trimqualities/default/input_1.fastq000066400000000000000000000003561313314234200340530ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/trimqualities/default/input_2.fastq000066400000000000000000000003561313314234200340540ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAAT + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.discarded000066400000000000000000000000001313314234200356210ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/trimqualities/defaultyour_output.pair1.truncated000066400000000000000000000003541313314234200367170ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/trimqualities/default@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCT + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)' your_output.pair2.truncated000066400000000000000000000003541313314234200367200ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/trimqualities/default@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAA + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*& your_output.settings000066400000000000000000000046521313314234200355600ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/trimqualities/defaultAdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3198577441 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: Yes Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 1 Number of well aligned read pairs: 0 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 2 Number of retained nucleotides: 198 Average length of retained reads: 99 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 1 1 0 0 2 your_output.singleton.truncated000066400000000000000000000000001313314234200376710ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/trimqualities/defaultadapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/trimqualities/minq31/000077500000000000000000000000001313314234200311145ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/trimqualities/minq31/info.json000066400000000000000000000001401313314234200327350ustar00rootroot00000000000000{ "arguments": ["--trimqualities", "--minquality", "31"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/trimqualities/minq31/input_1.fastq000066400000000000000000000003561313314234200335370ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/trimqualities/minq31/input_2.fastq000066400000000000000000000003561313314234200335400ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGCCTAGAATTTTTCGTTCGGTAAGCATTAGGAAT + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@BB?@>>?@@=>><=;:9:9:9866852220.*&! your_output.discarded000066400000000000000000000000001313314234200353050ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/trimqualities/minq31your_output.pair1.truncated000066400000000000000000000002541313314234200364020ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/trimqualities/minq31@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTAT + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A your_output.pair2.truncated000066400000000000000000000002561313314234200364050ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/trimqualities/minq31@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTAGCCCGTAGGGGCCTACAACGTTGGGGCCTTTGCGTAGTTGTATATAGC + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@BB your_output.settings000066400000000000000000000040321313314234200352340ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/trimqualities/minq31AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3418474566 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 31: Yes Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 1 Number of well aligned read pairs: 0 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 2 Number of retained nucleotides: 135 Average length of retained reads: 67.5 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 1 0 0 0 1 68 0 1 0 0 1 your_output.singleton.truncated000066400000000000000000000000001313314234200373550ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/non_overlapping/trimqualities/minq31adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/000077500000000000000000000000001313314234200242365ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/collapse/000077500000000000000000000000001313314234200260405ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/collapse/info.json000066400000000000000000000001051313314234200276620ustar00rootroot00000000000000{ "arguments": ["--collapse"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/collapse/input_1.fastq000066400000000000000000000003561313314234200304630ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACACGCTAGACCA + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/collapse/input_2.fastq000066400000000000000000000003561313314234200304640ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAACAAGCGTCGATG + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/collapse/your_output.collapsed000066400000000000000000000005221313314234200323450ustar00rootroot00000000000000@M_ATAGCCSeq_1_2959_500 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACACGCTAGACCACTACAAAAGAAAAACCCGGCTAGTGGTGGCAGCGATCGACAATCCAGATG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJCEBCEDECDEEEFFFFEFDGFIFFFHIIIGIHHGJGIGJJJIHJHJIIJHJ adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/collapse/your_output.collapsed.truncated000066400000000000000000000000001313314234200343240ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/collapse/your_output.discarded000066400000000000000000000000001313314234200323100ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/collapse/your_output.pair1.truncated000066400000000000000000000000001313314234200333720ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/collapse/your_output.pair2.truncated000066400000000000000000000000001313314234200333730ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/collapse/your_output.settings000066400000000000000000000074751313314234200322550ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 664708214 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: Yes Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of full-length collapsed pairs: 1 Number of truncated collapsed pairs: 0 Number of retained reads: 1 Number of retained nucleotides: 150 Average length of retained reads: 150 [Length distribution] Length Mate1 Mate2 Singleton Collapsed CollapsedTruncated Discarded All 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 2 0 0 0 0 0 0 0 3 0 0 0 0 0 0 0 4 0 0 0 0 0 0 0 5 0 0 0 0 0 0 0 6 0 0 0 0 0 0 0 7 0 0 0 0 0 0 0 8 0 0 0 0 0 0 0 9 0 0 0 0 0 0 0 10 0 0 0 0 0 0 0 11 0 0 0 0 0 0 0 12 0 0 0 0 0 0 0 13 0 0 0 0 0 0 0 14 0 0 0 0 0 0 0 15 0 0 0 0 0 0 0 16 0 0 0 0 0 0 0 17 0 0 0 0 0 0 0 18 0 0 0 0 0 0 0 19 0 0 0 0 0 0 0 20 0 0 0 0 0 0 0 21 0 0 0 0 0 0 0 22 0 0 0 0 0 0 0 23 0 0 0 0 0 0 0 24 0 0 0 0 0 0 0 25 0 0 0 0 0 0 0 26 0 0 0 0 0 0 0 27 0 0 0 0 0 0 0 28 0 0 0 0 0 0 0 29 0 0 0 0 0 0 0 30 0 0 0 0 0 0 0 31 0 0 0 0 0 0 0 32 0 0 0 0 0 0 0 33 0 0 0 0 0 0 0 34 0 0 0 0 0 0 0 35 0 0 0 0 0 0 0 36 0 0 0 0 0 0 0 37 0 0 0 0 0 0 0 38 0 0 0 0 0 0 0 39 0 0 0 0 0 0 0 40 0 0 0 0 0 0 0 41 0 0 0 0 0 0 0 42 0 0 0 0 0 0 0 43 0 0 0 0 0 0 0 44 0 0 0 0 0 0 0 45 0 0 0 0 0 0 0 46 0 0 0 0 0 0 0 47 0 0 0 0 0 0 0 48 0 0 0 0 0 0 0 49 0 0 0 0 0 0 0 50 0 0 0 0 0 0 0 51 0 0 0 0 0 0 0 52 0 0 0 0 0 0 0 53 0 0 0 0 0 0 0 54 0 0 0 0 0 0 0 55 0 0 0 0 0 0 0 56 0 0 0 0 0 0 0 57 0 0 0 0 0 0 0 58 0 0 0 0 0 0 0 59 0 0 0 0 0 0 0 60 0 0 0 0 0 0 0 61 0 0 0 0 0 0 0 62 0 0 0 0 0 0 0 63 0 0 0 0 0 0 0 64 0 0 0 0 0 0 0 65 0 0 0 0 0 0 0 66 0 0 0 0 0 0 0 67 0 0 0 0 0 0 0 68 0 0 0 0 0 0 0 69 0 0 0 0 0 0 0 70 0 0 0 0 0 0 0 71 0 0 0 0 0 0 0 72 0 0 0 0 0 0 0 73 0 0 0 0 0 0 0 74 0 0 0 0 0 0 0 75 0 0 0 0 0 0 0 76 0 0 0 0 0 0 0 77 0 0 0 0 0 0 0 78 0 0 0 0 0 0 0 79 0 0 0 0 0 0 0 80 0 0 0 0 0 0 0 81 0 0 0 0 0 0 0 82 0 0 0 0 0 0 0 83 0 0 0 0 0 0 0 84 0 0 0 0 0 0 0 85 0 0 0 0 0 0 0 86 0 0 0 0 0 0 0 87 0 0 0 0 0 0 0 88 0 0 0 0 0 0 0 89 0 0 0 0 0 0 0 90 0 0 0 0 0 0 0 91 0 0 0 0 0 0 0 92 0 0 0 0 0 0 0 93 0 0 0 0 0 0 0 94 0 0 0 0 0 0 0 95 0 0 0 0 0 0 0 96 0 0 0 0 0 0 0 97 0 0 0 0 0 0 0 98 0 0 0 0 0 0 0 99 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 101 0 0 0 0 0 0 0 102 0 0 0 0 0 0 0 103 0 0 0 0 0 0 0 104 0 0 0 0 0 0 0 105 0 0 0 0 0 0 0 106 0 0 0 0 0 0 0 107 0 0 0 0 0 0 0 108 0 0 0 0 0 0 0 109 0 0 0 0 0 0 0 110 0 0 0 0 0 0 0 111 0 0 0 0 0 0 0 112 0 0 0 0 0 0 0 113 0 0 0 0 0 0 0 114 0 0 0 0 0 0 0 115 0 0 0 0 0 0 0 116 0 0 0 0 0 0 0 117 0 0 0 0 0 0 0 118 0 0 0 0 0 0 0 119 0 0 0 0 0 0 0 120 0 0 0 0 0 0 0 121 0 0 0 0 0 0 0 122 0 0 0 0 0 0 0 123 0 0 0 0 0 0 0 124 0 0 0 0 0 0 0 125 0 0 0 0 0 0 0 126 0 0 0 0 0 0 0 127 0 0 0 0 0 0 0 128 0 0 0 0 0 0 0 129 0 0 0 0 0 0 0 130 0 0 0 0 0 0 0 131 0 0 0 0 0 0 0 132 0 0 0 0 0 0 0 133 0 0 0 0 0 0 0 134 0 0 0 0 0 0 0 135 0 0 0 0 0 0 0 136 0 0 0 0 0 0 0 137 0 0 0 0 0 0 0 138 0 0 0 0 0 0 0 139 0 0 0 0 0 0 0 140 0 0 0 0 0 0 0 141 0 0 0 0 0 0 0 142 0 0 0 0 0 0 0 143 0 0 0 0 0 0 0 144 0 0 0 0 0 0 0 145 0 0 0 0 0 0 0 146 0 0 0 0 0 0 0 147 0 0 0 0 0 0 0 148 0 0 0 0 0 0 0 149 0 0 0 0 0 0 0 150 0 0 0 1 0 0 1 adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/collapse/your_output.singleton.truncated000066400000000000000000000000001313314234200343600ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/000077500000000000000000000000001313314234200274365ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/collapse/000077500000000000000000000000001313314234200312405ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/collapse/info.json000066400000000000000000000001321313314234200330620ustar00rootroot00000000000000{ "arguments": ["--combined-output", "--collapse"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/collapse/input_1.fastq000066400000000000000000000003561313314234200336630ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACACGCTAGACCA + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/collapse/input_2.fastq000066400000000000000000000003561313314234200336640ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAACAAGCGTCGATG + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.pair1.truncated000066400000000000000000000005241313314234200365260ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/collapse@M_ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACACGCTAGACCACTACAAAAGAAAAACCCGGCTAGTGGTGGCAGCGATCGACAATCCAGATG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJCEBCEDECDEEEFFFFEFDGFIFFFHIIIGIHHGJGIGJJJIHJHJIIJHJ your_output.pair2.truncated000066400000000000000000000000521313314234200365230ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/collapse@M_ATAGCCSeq_1_2959_500/2 data meta N + ! your_output.settings000066400000000000000000000074761313314234200353770ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/collapseAdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1520646958 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: Yes Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of full-length collapsed pairs: 1 Number of truncated collapsed pairs: 0 Number of retained reads: 1 Number of retained nucleotides: 150 Average length of retained reads: 150 [Length distribution] Length Mate1 Mate2 Singleton Collapsed CollapsedTruncated Discarded All 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 2 0 0 0 0 0 0 0 3 0 0 0 0 0 0 0 4 0 0 0 0 0 0 0 5 0 0 0 0 0 0 0 6 0 0 0 0 0 0 0 7 0 0 0 0 0 0 0 8 0 0 0 0 0 0 0 9 0 0 0 0 0 0 0 10 0 0 0 0 0 0 0 11 0 0 0 0 0 0 0 12 0 0 0 0 0 0 0 13 0 0 0 0 0 0 0 14 0 0 0 0 0 0 0 15 0 0 0 0 0 0 0 16 0 0 0 0 0 0 0 17 0 0 0 0 0 0 0 18 0 0 0 0 0 0 0 19 0 0 0 0 0 0 0 20 0 0 0 0 0 0 0 21 0 0 0 0 0 0 0 22 0 0 0 0 0 0 0 23 0 0 0 0 0 0 0 24 0 0 0 0 0 0 0 25 0 0 0 0 0 0 0 26 0 0 0 0 0 0 0 27 0 0 0 0 0 0 0 28 0 0 0 0 0 0 0 29 0 0 0 0 0 0 0 30 0 0 0 0 0 0 0 31 0 0 0 0 0 0 0 32 0 0 0 0 0 0 0 33 0 0 0 0 0 0 0 34 0 0 0 0 0 0 0 35 0 0 0 0 0 0 0 36 0 0 0 0 0 0 0 37 0 0 0 0 0 0 0 38 0 0 0 0 0 0 0 39 0 0 0 0 0 0 0 40 0 0 0 0 0 0 0 41 0 0 0 0 0 0 0 42 0 0 0 0 0 0 0 43 0 0 0 0 0 0 0 44 0 0 0 0 0 0 0 45 0 0 0 0 0 0 0 46 0 0 0 0 0 0 0 47 0 0 0 0 0 0 0 48 0 0 0 0 0 0 0 49 0 0 0 0 0 0 0 50 0 0 0 0 0 0 0 51 0 0 0 0 0 0 0 52 0 0 0 0 0 0 0 53 0 0 0 0 0 0 0 54 0 0 0 0 0 0 0 55 0 0 0 0 0 0 0 56 0 0 0 0 0 0 0 57 0 0 0 0 0 0 0 58 0 0 0 0 0 0 0 59 0 0 0 0 0 0 0 60 0 0 0 0 0 0 0 61 0 0 0 0 0 0 0 62 0 0 0 0 0 0 0 63 0 0 0 0 0 0 0 64 0 0 0 0 0 0 0 65 0 0 0 0 0 0 0 66 0 0 0 0 0 0 0 67 0 0 0 0 0 0 0 68 0 0 0 0 0 0 0 69 0 0 0 0 0 0 0 70 0 0 0 0 0 0 0 71 0 0 0 0 0 0 0 72 0 0 0 0 0 0 0 73 0 0 0 0 0 0 0 74 0 0 0 0 0 0 0 75 0 0 0 0 0 0 0 76 0 0 0 0 0 0 0 77 0 0 0 0 0 0 0 78 0 0 0 0 0 0 0 79 0 0 0 0 0 0 0 80 0 0 0 0 0 0 0 81 0 0 0 0 0 0 0 82 0 0 0 0 0 0 0 83 0 0 0 0 0 0 0 84 0 0 0 0 0 0 0 85 0 0 0 0 0 0 0 86 0 0 0 0 0 0 0 87 0 0 0 0 0 0 0 88 0 0 0 0 0 0 0 89 0 0 0 0 0 0 0 90 0 0 0 0 0 0 0 91 0 0 0 0 0 0 0 92 0 0 0 0 0 0 0 93 0 0 0 0 0 0 0 94 0 0 0 0 0 0 0 95 0 0 0 0 0 0 0 96 0 0 0 0 0 0 0 97 0 0 0 0 0 0 0 98 0 0 0 0 0 0 0 99 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 101 0 0 0 0 0 0 0 102 0 0 0 0 0 0 0 103 0 0 0 0 0 0 0 104 0 0 0 0 0 0 0 105 0 0 0 0 0 0 0 106 0 0 0 0 0 0 0 107 0 0 0 0 0 0 0 108 0 0 0 0 0 0 0 109 0 0 0 0 0 0 0 110 0 0 0 0 0 0 0 111 0 0 0 0 0 0 0 112 0 0 0 0 0 0 0 113 0 0 0 0 0 0 0 114 0 0 0 0 0 0 0 115 0 0 0 0 0 0 0 116 0 0 0 0 0 0 0 117 0 0 0 0 0 0 0 118 0 0 0 0 0 0 0 119 0 0 0 0 0 0 0 120 0 0 0 0 0 0 0 121 0 0 0 0 0 0 0 122 0 0 0 0 0 0 0 123 0 0 0 0 0 0 0 124 0 0 0 0 0 0 0 125 0 0 0 0 0 0 0 126 0 0 0 0 0 0 0 127 0 0 0 0 0 0 0 128 0 0 0 0 0 0 0 129 0 0 0 0 0 0 0 130 0 0 0 0 0 0 0 131 0 0 0 0 0 0 0 132 0 0 0 0 0 0 0 133 0 0 0 0 0 0 0 134 0 0 0 0 0 0 0 135 0 0 0 0 0 0 0 136 0 0 0 0 0 0 0 137 0 0 0 0 0 0 0 138 0 0 0 0 0 0 0 139 0 0 0 0 0 0 0 140 0 0 0 0 0 0 0 141 0 0 0 0 0 0 0 142 0 0 0 0 0 0 0 143 0 0 0 0 0 0 0 144 0 0 0 0 0 0 0 145 0 0 0 0 0 0 0 146 0 0 0 0 0 0 0 147 0 0 0 0 0 0 0 148 0 0 0 0 0 0 0 149 0 0 0 0 0 0 0 150 0 0 0 1 0 0 1 adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/interleaved/000077500000000000000000000000001313314234200317405ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/interleaved/collapse/000077500000000000000000000000001313314234200335425ustar00rootroot00000000000000info.json000066400000000000000000000001621313314234200353100ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/interleaved/collapse{ "arguments": ["--combined-output", "--collapse", "--interleaved-output"], "return_code": 0, "stderr": [ ] } input_1.fastq000066400000000000000000000003561313314234200361060ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/interleaved/collapse@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACACGCTAGACCA + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! input_2.fastq000066400000000000000000000003561313314234200361070ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/interleaved/collapse@ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAACAAGCGTCGATG + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.paired.truncated000066400000000000000000000005761313314234200412670ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/interleaved/collapse@M_ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACACGCTAGACCACTACAAAAGAAAAACCCGGCTAGTGGTGGCAGCGATCGACAATCCAGATG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJCEBCEDECDEEEFFFFEFDGFIFFFHIIIGIHHGJGIGJJJIHJHJIIJHJ @M_ATAGCCSeq_1_2959_500/2 data meta N + ! your_output.settings000066400000000000000000000074761313314234200377010ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/interleaved/collapseAdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1520646958 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: Yes Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of full-length collapsed pairs: 1 Number of truncated collapsed pairs: 0 Number of retained reads: 1 Number of retained nucleotides: 150 Average length of retained reads: 150 [Length distribution] Length Mate1 Mate2 Singleton Collapsed CollapsedTruncated Discarded All 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 2 0 0 0 0 0 0 0 3 0 0 0 0 0 0 0 4 0 0 0 0 0 0 0 5 0 0 0 0 0 0 0 6 0 0 0 0 0 0 0 7 0 0 0 0 0 0 0 8 0 0 0 0 0 0 0 9 0 0 0 0 0 0 0 10 0 0 0 0 0 0 0 11 0 0 0 0 0 0 0 12 0 0 0 0 0 0 0 13 0 0 0 0 0 0 0 14 0 0 0 0 0 0 0 15 0 0 0 0 0 0 0 16 0 0 0 0 0 0 0 17 0 0 0 0 0 0 0 18 0 0 0 0 0 0 0 19 0 0 0 0 0 0 0 20 0 0 0 0 0 0 0 21 0 0 0 0 0 0 0 22 0 0 0 0 0 0 0 23 0 0 0 0 0 0 0 24 0 0 0 0 0 0 0 25 0 0 0 0 0 0 0 26 0 0 0 0 0 0 0 27 0 0 0 0 0 0 0 28 0 0 0 0 0 0 0 29 0 0 0 0 0 0 0 30 0 0 0 0 0 0 0 31 0 0 0 0 0 0 0 32 0 0 0 0 0 0 0 33 0 0 0 0 0 0 0 34 0 0 0 0 0 0 0 35 0 0 0 0 0 0 0 36 0 0 0 0 0 0 0 37 0 0 0 0 0 0 0 38 0 0 0 0 0 0 0 39 0 0 0 0 0 0 0 40 0 0 0 0 0 0 0 41 0 0 0 0 0 0 0 42 0 0 0 0 0 0 0 43 0 0 0 0 0 0 0 44 0 0 0 0 0 0 0 45 0 0 0 0 0 0 0 46 0 0 0 0 0 0 0 47 0 0 0 0 0 0 0 48 0 0 0 0 0 0 0 49 0 0 0 0 0 0 0 50 0 0 0 0 0 0 0 51 0 0 0 0 0 0 0 52 0 0 0 0 0 0 0 53 0 0 0 0 0 0 0 54 0 0 0 0 0 0 0 55 0 0 0 0 0 0 0 56 0 0 0 0 0 0 0 57 0 0 0 0 0 0 0 58 0 0 0 0 0 0 0 59 0 0 0 0 0 0 0 60 0 0 0 0 0 0 0 61 0 0 0 0 0 0 0 62 0 0 0 0 0 0 0 63 0 0 0 0 0 0 0 64 0 0 0 0 0 0 0 65 0 0 0 0 0 0 0 66 0 0 0 0 0 0 0 67 0 0 0 0 0 0 0 68 0 0 0 0 0 0 0 69 0 0 0 0 0 0 0 70 0 0 0 0 0 0 0 71 0 0 0 0 0 0 0 72 0 0 0 0 0 0 0 73 0 0 0 0 0 0 0 74 0 0 0 0 0 0 0 75 0 0 0 0 0 0 0 76 0 0 0 0 0 0 0 77 0 0 0 0 0 0 0 78 0 0 0 0 0 0 0 79 0 0 0 0 0 0 0 80 0 0 0 0 0 0 0 81 0 0 0 0 0 0 0 82 0 0 0 0 0 0 0 83 0 0 0 0 0 0 0 84 0 0 0 0 0 0 0 85 0 0 0 0 0 0 0 86 0 0 0 0 0 0 0 87 0 0 0 0 0 0 0 88 0 0 0 0 0 0 0 89 0 0 0 0 0 0 0 90 0 0 0 0 0 0 0 91 0 0 0 0 0 0 0 92 0 0 0 0 0 0 0 93 0 0 0 0 0 0 0 94 0 0 0 0 0 0 0 95 0 0 0 0 0 0 0 96 0 0 0 0 0 0 0 97 0 0 0 0 0 0 0 98 0 0 0 0 0 0 0 99 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 101 0 0 0 0 0 0 0 102 0 0 0 0 0 0 0 103 0 0 0 0 0 0 0 104 0 0 0 0 0 0 0 105 0 0 0 0 0 0 0 106 0 0 0 0 0 0 0 107 0 0 0 0 0 0 0 108 0 0 0 0 0 0 0 109 0 0 0 0 0 0 0 110 0 0 0 0 0 0 0 111 0 0 0 0 0 0 0 112 0 0 0 0 0 0 0 113 0 0 0 0 0 0 0 114 0 0 0 0 0 0 0 115 0 0 0 0 0 0 0 116 0 0 0 0 0 0 0 117 0 0 0 0 0 0 0 118 0 0 0 0 0 0 0 119 0 0 0 0 0 0 0 120 0 0 0 0 0 0 0 121 0 0 0 0 0 0 0 122 0 0 0 0 0 0 0 123 0 0 0 0 0 0 0 124 0 0 0 0 0 0 0 125 0 0 0 0 0 0 0 126 0 0 0 0 0 0 0 127 0 0 0 0 0 0 0 128 0 0 0 0 0 0 0 129 0 0 0 0 0 0 0 130 0 0 0 0 0 0 0 131 0 0 0 0 0 0 0 132 0 0 0 0 0 0 0 133 0 0 0 0 0 0 0 134 0 0 0 0 0 0 0 135 0 0 0 0 0 0 0 136 0 0 0 0 0 0 0 137 0 0 0 0 0 0 0 138 0 0 0 0 0 0 0 139 0 0 0 0 0 0 0 140 0 0 0 0 0 0 0 141 0 0 0 0 0 0 0 142 0 0 0 0 0 0 0 143 0 0 0 0 0 0 0 144 0 0 0 0 0 0 0 145 0 0 0 0 0 0 0 146 0 0 0 0 0 0 0 147 0 0 0 0 0 0 0 148 0 0 0 0 0 0 0 149 0 0 0 0 0 0 0 150 0 0 0 1 0 0 1 adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/interleaved/keep_both/000077500000000000000000000000001313314234200337005ustar00rootroot00000000000000info.json000066400000000000000000000001441313314234200354460ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/interleaved/keep_both{ "arguments": ["--combined-output", "--interleaved-output"], "return_code": 0, "stderr": [ ] } input_1.fastq000066400000000000000000000003561313314234200362440ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/interleaved/keep_both@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACACGCTAGACCA + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! input_2.fastq000066400000000000000000000003561313314234200362450ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/interleaved/keep_both@ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAACAAGCGTCGATG + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.paired.truncated000066400000000000000000000007341313314234200414210ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/interleaved/keep_both@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACACGCTAGACCA + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! @ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAACAAGCGTCGATG + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.settings000066400000000000000000000046701313314234200400300ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/interleaved/keep_bothAdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1638235704 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 2 Number of retained nucleotides: 200 Average length of retained reads: 100 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 0 0 100 1 1 0 0 2 adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/interleaved/keep_mate1/000077500000000000000000000000001313314234200337535ustar00rootroot00000000000000info.json000066400000000000000000000002061313314234200355200ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/interleaved/keep_mate1{ "arguments": ["--combined-output", "--minlength", "100", "--trimns", "--interleaved-output"], "return_code": 0, "stderr": [ ] } input_1.fastq000066400000000000000000000003561313314234200363170ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/interleaved/keep_mate1@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACACGCTAGACCA + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! input_2.fastq000066400000000000000000000003561313314234200363200ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/interleaved/keep_mate1@ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAACAAGCGTCGATN + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.paired.truncated000066400000000000000000000004261313314234200414720ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/interleaved/keep_mate1@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACACGCTAGACCA + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! @ATAGCCSeq_1_2959_500/2 data meta N + ! your_output.settings000066400000000000000000000046721313314234200401050ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/interleaved/keep_mate1AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2898275634 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 100 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 1 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 1 Number of retained nucleotides: 100 Average length of retained reads: 100 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 1 1 100 0 0 1 0 1 adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/interleaved/keep_mate2/000077500000000000000000000000001313314234200337545ustar00rootroot00000000000000info.json000066400000000000000000000002061313314234200355210ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/interleaved/keep_mate2{ "arguments": ["--combined-output", "--minlength", "100", "--trimns", "--interleaved-output"], "return_code": 0, "stderr": [ ] } input_1.fastq000066400000000000000000000003561313314234200363200ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/interleaved/keep_mate2@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACACGCTAGACCN + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! input_2.fastq000066400000000000000000000003561313314234200363210ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/interleaved/keep_mate2@ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAACAAGCGTCGATG + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.paired.truncated000066400000000000000000000004261313314234200414730ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/interleaved/keep_mate2@ATAGCCSeq_1_2959_500/1 meta data N + ! @ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAACAAGCGTCGATG + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.settings000066400000000000000000000046721313314234200401060ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/interleaved/keep_mate2AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1902493234 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 100 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 1 Number of reads with adapters[1]: 0 Number of retained reads: 1 Number of retained nucleotides: 100 Average length of retained reads: 100 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 1 1 100 0 0 1 0 1 000077500000000000000000000000001313314234200343235ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/interleaved/keep_neitherinfo.json000066400000000000000000000002061313314234200361470ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/interleaved/keep_neither{ "arguments": ["--combined-output", "--minlength", "100", "--trimns", "--interleaved-output"], "return_code": 0, "stderr": [ ] } input_1.fastq000066400000000000000000000003561313314234200367460ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/interleaved/keep_neither@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACACGCTAGACCN + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! input_2.fastq000066400000000000000000000003561313314234200367470ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/interleaved/keep_neither@ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAACAAGCGTCGATN + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.paired.truncated000066400000000000000000000001201313314234200421100ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/interleaved/keep_neither@ATAGCCSeq_1_2959_500/1 meta data N + ! @ATAGCCSeq_1_2959_500/2 data meta N + ! your_output.settings000066400000000000000000000046501313314234200405300ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/interleaved/keep_neitherAdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 4016683054 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 100 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 0 Number of retained nucleotides: 0 Average length of retained reads: 0 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 2 2 adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/keep_both/000077500000000000000000000000001313314234200313765ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/keep_both/info.json000066400000000000000000000001141313314234200332200ustar00rootroot00000000000000{ "arguments": ["--combined-output"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/keep_both/input_1.fastq000066400000000000000000000003561313314234200340210ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACACGCTAGACCA + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/keep_both/input_2.fastq000066400000000000000000000003561313314234200340220ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAACAAGCGTCGATG + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.pair1.truncated000066400000000000000000000003561313314234200366670ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/keep_both@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACACGCTAGACCA + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! your_output.pair2.truncated000066400000000000000000000003561313314234200366700ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/keep_both@ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAACAAGCGTCGATG + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.settings000066400000000000000000000046701313314234200355260ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/keep_bothAdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1638235704 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 2 Number of retained nucleotides: 200 Average length of retained reads: 100 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 0 0 100 1 1 0 0 2 adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/keep_mate1/000077500000000000000000000000001313314234200314515ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/keep_mate1/info.json000066400000000000000000000001561313314234200333010ustar00rootroot00000000000000{ "arguments": ["--combined-output", "--minlength", "100", "--trimns"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/keep_mate1/input_1.fastq000066400000000000000000000003561313314234200340740ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACACGCTAGACCA + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/keep_mate1/input_2.fastq000066400000000000000000000003561313314234200340750ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAACAAGCGTCGATN + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.pair1.truncated000066400000000000000000000003561313314234200367420ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/keep_mate1@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACACGCTAGACCA + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! your_output.pair2.truncated000066400000000000000000000000501313314234200367320ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/keep_mate1@ATAGCCSeq_1_2959_500/2 data meta N + ! your_output.settings000066400000000000000000000046721313314234200356030ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/keep_mate1AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2898275634 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 100 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 1 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 1 Number of retained nucleotides: 100 Average length of retained reads: 100 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 1 1 100 0 0 1 0 1 adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/keep_mate2/000077500000000000000000000000001313314234200314525ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/keep_mate2/info.json000066400000000000000000000001561313314234200333020ustar00rootroot00000000000000{ "arguments": ["--combined-output", "--minlength", "100", "--trimns"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/keep_mate2/input_1.fastq000066400000000000000000000003561313314234200340750ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACACGCTAGACCN + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/keep_mate2/input_2.fastq000066400000000000000000000003561313314234200340760ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAACAAGCGTCGATG + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.pair1.truncated000066400000000000000000000000501313314234200367320ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/keep_mate2@ATAGCCSeq_1_2959_500/1 meta data N + ! your_output.pair2.truncated000066400000000000000000000003561313314234200367440ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/keep_mate2@ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAACAAGCGTCGATG + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.settings000066400000000000000000000046721313314234200356040ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/keep_mate2AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1902493234 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 100 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 1 Number of reads with adapters[1]: 0 Number of retained reads: 1 Number of retained nucleotides: 100 Average length of retained reads: 100 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 1 1 100 0 0 1 0 1 adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/keep_neither/000077500000000000000000000000001313314234200321005ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/keep_neither/info.json000066400000000000000000000001561313314234200337300ustar00rootroot00000000000000{ "arguments": ["--combined-output", "--minlength", "100", "--trimns"], "return_code": 0, "stderr": [ ] } input_1.fastq000066400000000000000000000003561313314234200344440ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/keep_neither@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACACGCTAGACCN + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! input_2.fastq000066400000000000000000000003561313314234200344450ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/keep_neither@ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAACAAGCGTCGATN + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.pair1.truncated000066400000000000000000000000501313314234200373600ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/keep_neither@ATAGCCSeq_1_2959_500/1 meta data N + ! your_output.pair2.truncated000066400000000000000000000000501313314234200373610ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/keep_neither@ATAGCCSeq_1_2959_500/2 data meta N + ! your_output.settings000066400000000000000000000046501313314234200362260ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/combined_output/keep_neitherAdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 4016683054 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 100 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 0 Number of retained nucleotides: 0 Average length of retained reads: 0 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 2 2 adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/crlf_newlines/000077500000000000000000000000001313314234200270705ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/crlf_newlines/info.json000066400000000000000000000000711313314234200307140ustar00rootroot00000000000000{ "arguments": [], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/crlf_newlines/input_1.fastq000066400000000000000000000003621313314234200315100ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACACGCTAGACCA + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/crlf_newlines/input_2.fastq000066400000000000000000000003621313314234200315110ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAACAAGCGTCGATG + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/crlf_newlines/your_output.discarded000066400000000000000000000000001313314234200333400ustar00rootroot00000000000000your_output.pair1.truncated000066400000000000000000000003561313314234200343610ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/crlf_newlines@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACACGCTAGACCA + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! your_output.pair2.truncated000066400000000000000000000003561313314234200343620ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/crlf_newlines@ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAACAAGCGTCGATG + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/crlf_newlines/your_output.settings000066400000000000000000000046661313314234200333040ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 11384421 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 2 Number of retained nucleotides: 200 Average length of retained reads: 100 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 0 0 100 1 1 0 0 2 your_output.singleton.truncated000066400000000000000000000000001313314234200353310ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/crlf_newlinesadapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/defaults/000077500000000000000000000000001313314234200260455ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/defaults/info.json000066400000000000000000000000711313314234200276710ustar00rootroot00000000000000{ "arguments": [], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/defaults/input_1.fastq000066400000000000000000000003561313314234200304700ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACACGCTAGACCA + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/defaults/input_2.fastq000066400000000000000000000003561313314234200304710ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAACAAGCGTCGATG + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/defaults/your_output.discarded000066400000000000000000000000001313314234200323150ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/defaults/your_output.pair1.truncated000066400000000000000000000003561313314234200334150ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACACGCTAGACCA + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/defaults/your_output.pair2.truncated000066400000000000000000000003561313314234200334160ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAACAAGCGTCGATG + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/defaults/your_output.settings000066400000000000000000000046661313314234200322610ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 11384421 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 2 Number of retained nucleotides: 200 Average length of retained reads: 100 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 0 0 100 1 1 0 0 2 adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/defaults/your_output.singleton.truncated000066400000000000000000000000001313314234200343650ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/interleaved/000077500000000000000000000000001313314234200265405ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/interleaved/both/000077500000000000000000000000001313314234200274745ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/interleaved/both/info.json000066400000000000000000000001101313314234200313120ustar00rootroot00000000000000{ "arguments": ["--interleaved"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/interleaved/both/input_1.fastq000066400000000000000000000007341313314234200321170ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACACGCTAGACCA + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! @ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAACAAGCGTCGATG + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/interleaved/both/your_output.discarded000066400000000000000000000000001313314234200337440ustar00rootroot00000000000000your_output.paired.truncated000066400000000000000000000007341313314234200352150ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/interleaved/both@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACACGCTAGACCA + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! @ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAACAAGCGTCGATG + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/interleaved/both/your_output.settings000066400000000000000000000047021313314234200336770ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of interleaved paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 36753401 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 2 Number of retained nucleotides: 200 Average length of retained reads: 100 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 0 0 100 1 1 0 0 2 your_output.singleton.truncated000066400000000000000000000000001313314234200357350ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/interleaved/bothadapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/interleaved/output/000077500000000000000000000000001313314234200301005ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/interleaved/output/info.json000066400000000000000000000001171313314234200317250ustar00rootroot00000000000000{ "arguments": ["--interleaved-output"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/interleaved/output/input_1.fastq000066400000000000000000000003561313314234200325230ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACACGCTAGACCA + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/interleaved/output/input_2.fastq000066400000000000000000000003561313314234200325240ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAACAAGCGTCGATG + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/interleaved/output/your_output.discarded000066400000000000000000000000001313314234200343500ustar00rootroot00000000000000your_output.paired.truncated000066400000000000000000000007341313314234200356210ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/interleaved/output@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACACGCTAGACCA + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! @ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAACAAGCGTCGATG + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/interleaved/output/your_output.settings000066400000000000000000000046661313314234200343140ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 32142888 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 2 Number of retained nucleotides: 200 Average length of retained reads: 100 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 0 0 100 1 1 0 0 2 your_output.singleton.truncated000066400000000000000000000000001313314234200363410ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/interleaved/outputadapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/maxlength/000077500000000000000000000000001313314234200262255ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/maxlength/both/000077500000000000000000000000001313314234200271615ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/maxlength/both/info.json000066400000000000000000000001301313314234200310010ustar00rootroot00000000000000{ "arguments": ["--maxlength", "99", "--trimns"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/maxlength/both/input_1.fastq000066400000000000000000000003561313314234200316040ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACACGCTAGACCA + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/maxlength/both/input_2.fastq000066400000000000000000000003561313314234200316050ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAACAAGCGTCGATG + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/maxlength/both/your_output.discarded000066400000000000000000000007341313314234200334470ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACACGCTAGACCA + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! @ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAACAAGCGTCGATG + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.pair1.truncated000066400000000000000000000000001313314234200344340ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/maxlength/bothyour_output.pair2.truncated000066400000000000000000000000001313314234200344350ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/maxlength/bothadapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/maxlength/both/your_output.settings000066400000000000000000000046551313314234200333730ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2714819290 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 99 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 0 Number of retained nucleotides: 0 Average length of retained reads: 0 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 0 0 100 0 0 0 2 2 your_output.singleton.truncated000066400000000000000000000000001313314234200354220ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/maxlength/bothadapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/maxlength/mate1/000077500000000000000000000000001313314234200272345ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/maxlength/mate1/info.json000066400000000000000000000001301313314234200310540ustar00rootroot00000000000000{ "arguments": ["--maxlength", "99", "--trimns"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/maxlength/mate1/input_1.fastq000066400000000000000000000003561313314234200316570ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACACGCTAGACCN + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/maxlength/mate1/input_2.fastq000066400000000000000000000003561313314234200316600ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAACAAGCGTCGATG + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/maxlength/mate1/your_output.discarded000066400000000000000000000003561313314234200335220ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAACAAGCGTCGATG + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.pair1.truncated000066400000000000000000000000001313314234200345070ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/maxlength/mate1your_output.pair2.truncated000066400000000000000000000000001313314234200345100ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/maxlength/mate1adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/maxlength/mate1/your_output.settings000066400000000000000000000046571313314234200334500ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3802049955 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 99 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 1 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 1 Number of retained nucleotides: 99 Average length of retained reads: 99 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 1 0 1 100 0 0 0 1 1 your_output.singleton.truncated000066400000000000000000000003541313314234200355110ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/maxlength/mate1@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACACGCTAGACC + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)' adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/maxlength/mate2/000077500000000000000000000000001313314234200272355ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/maxlength/mate2/info.json000066400000000000000000000001301313314234200310550ustar00rootroot00000000000000{ "arguments": ["--maxlength", "99", "--trimns"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/maxlength/mate2/input_1.fastq000066400000000000000000000003561313314234200316600ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACACGCTAGACCA + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/maxlength/mate2/input_2.fastq000066400000000000000000000003561313314234200316610ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAACAAGCGTCGATN + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/maxlength/mate2/your_output.discarded000066400000000000000000000003561313314234200335230ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACACGCTAGACCA + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! your_output.pair1.truncated000066400000000000000000000000001313314234200345100ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/maxlength/mate2your_output.pair2.truncated000066400000000000000000000000001313314234200345110ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/maxlength/mate2adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/maxlength/mate2/your_output.settings000066400000000000000000000046571313314234200334510ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3867243128 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 99 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 1 Number of reads with adapters[1]: 0 Number of retained reads: 1 Number of retained nucleotides: 99 Average length of retained reads: 99 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 1 0 1 100 0 0 0 1 1 your_output.singleton.truncated000066400000000000000000000003541313314234200355120ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/maxlength/mate2@ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAACAAGCGTCGAT + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*& adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/minlength/000077500000000000000000000000001313314234200262235ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/minlength/both/000077500000000000000000000000001313314234200271575ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/minlength/both/info.json000066400000000000000000000001301313314234200307770ustar00rootroot00000000000000{ "arguments": ["--minlength", "90", "--trimns"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/minlength/both/input_1.fastq000066400000000000000000000003561313314234200316020ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACNNNNNNNNNNN + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/minlength/both/input_2.fastq000066400000000000000000000003561313314234200316030ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAANNNNNNNNNNNN + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/minlength/both/your_output.discarded000066400000000000000000000006561313314234200334500ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTAC + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777 @ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAA + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:98 your_output.pair1.truncated000066400000000000000000000000001313314234200344320ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/minlength/bothyour_output.pair2.truncated000066400000000000000000000000001313314234200344330ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/minlength/bothadapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/minlength/both/your_output.settings000066400000000000000000000044451313314234200333660ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 4291984462 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 90 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 0 Number of retained nucleotides: 0 Average length of retained reads: 0 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 1 1 89 0 0 0 1 1 your_output.singleton.truncated000066400000000000000000000000001313314234200354200ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/minlength/bothadapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/minlength/mate1/000077500000000000000000000000001313314234200272325ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/minlength/mate1/info.json000066400000000000000000000001301313314234200310520ustar00rootroot00000000000000{ "arguments": ["--minlength", "90", "--trimns"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/minlength/mate1/input_1.fastq000066400000000000000000000003561313314234200316550ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACNNNNNNNNNNN + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/minlength/mate1/input_2.fastq000066400000000000000000000003561313314234200316560ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAACAAGCGTCGATG + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/minlength/mate1/your_output.discarded000066400000000000000000000003301313314234200335100ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTAC + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777 your_output.pair1.truncated000066400000000000000000000000001313314234200345050ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/minlength/mate1your_output.pair2.truncated000066400000000000000000000000001313314234200345060ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/minlength/mate1adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/minlength/mate1/your_output.settings000066400000000000000000000046711313314234200334420ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 4294353461 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 90 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 1 Number of reads with adapters[1]: 0 Number of retained reads: 1 Number of retained nucleotides: 100 Average length of retained reads: 100 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 1 1 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 0 0 100 0 0 1 0 1 your_output.singleton.truncated000066400000000000000000000003561313314234200355110ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/minlength/mate1@ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAACAAGCGTCGATG + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/minlength/mate2/000077500000000000000000000000001313314234200272335ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/minlength/mate2/info.json000066400000000000000000000001301313314234200310530ustar00rootroot00000000000000{ "arguments": ["--minlength", "90", "--trimns"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/minlength/mate2/input_1.fastq000066400000000000000000000003561313314234200316560ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACACGCTAGACCA + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/minlength/mate2/input_2.fastq000066400000000000000000000003561313314234200316570ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAANNNNNNNNNNNN + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/minlength/mate2/your_output.discarded000066400000000000000000000003261313314234200335160ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAA + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:98 your_output.pair1.truncated000066400000000000000000000000001313314234200345060ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/minlength/mate2your_output.pair2.truncated000066400000000000000000000000001313314234200345070ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/minlength/mate2adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/minlength/mate2/your_output.settings000066400000000000000000000046661313314234200334470ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1485681 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 90 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 1 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 1 Number of retained nucleotides: 100 Average length of retained reads: 100 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 1 1 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 0 0 100 0 0 1 0 1 your_output.singleton.truncated000066400000000000000000000003561313314234200355120ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/minlength/mate2@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACACGCTAGACCA + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/trimns/000077500000000000000000000000001313314234200255525ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/trimns/excl_ns/000077500000000000000000000000001313314234200272055ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/trimns/excl_ns/info.json000066400000000000000000000001031313314234200310250ustar00rootroot00000000000000{ "arguments": ["--trimns"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/trimns/excl_ns/input_1.fastq000066400000000000000000000003561313314234200316300ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACACGCTAGACCA + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/trimns/excl_ns/input_2.fastq000066400000000000000000000003561313314234200316310ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAACAAGCGTCGATG + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/trimns/excl_ns/your_output.discarded000066400000000000000000000000001313314234200334550ustar00rootroot00000000000000your_output.pair1.truncated000066400000000000000000000003561313314234200344760ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/trimns/excl_ns@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACACGCTAGACCA + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! your_output.pair2.truncated000066400000000000000000000003561313314234200344770ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/trimns/excl_ns@ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAACAAGCGTCGATG + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/trimns/excl_ns/your_output.settings000066400000000000000000000046701313314234200334140ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 242897042 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 2 Number of retained nucleotides: 200 Average length of retained reads: 100 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 0 0 100 1 1 0 0 2 your_output.singleton.truncated000066400000000000000000000000001313314234200354460ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/trimns/excl_nsadapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/trimns/incl_ns/000077500000000000000000000000001313314234200271775ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/trimns/incl_ns/info.json000066400000000000000000000001031313314234200310170ustar00rootroot00000000000000{ "arguments": ["--trimns"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/trimns/incl_ns/input_1.fastq000066400000000000000000000003561313314234200316220ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGNNNNNNNNNNNNNNN + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/trimns/incl_ns/input_2.fastq000066400000000000000000000003561313314234200316230ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAACAAGCNNNNNNN + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/trimns/incl_ns/your_output.discarded000066400000000000000000000000001313314234200334470ustar00rootroot00000000000000your_output.pair1.truncated000066400000000000000000000003201313314234200344570ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/trimns/incl_ns@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<: your_output.pair2.truncated000066400000000000000000000003401313314234200344620ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/trimns/incl_ns@ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAACAAGC + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852 adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/trimns/incl_ns/your_output.settings000066400000000000000000000045331313314234200334040ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 236123159 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 2 Number of retained nucleotides: 178 Average length of retained reads: 89 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 1 0 0 0 1 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 1 0 0 1 your_output.singleton.truncated000066400000000000000000000000001313314234200354400ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/trimns/incl_nsadapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/trimqualities/000077500000000000000000000000001313314234200271325ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/trimqualities/default/000077500000000000000000000000001313314234200305565ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/trimqualities/default/info.json000066400000000000000000000001121313314234200323760ustar00rootroot00000000000000{ "arguments": ["--trimqualities"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/trimqualities/default/input_1.fastq000066400000000000000000000003561313314234200332010ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACACGCTAGACCA + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/trimqualities/default/input_2.fastq000066400000000000000000000003561313314234200332020ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAACAAGCGTCGATG + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.discarded000066400000000000000000000000001313314234200347470ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/trimqualities/defaultyour_output.pair1.truncated000066400000000000000000000003541313314234200360450ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/trimqualities/default@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACACGCTAGACC + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)' your_output.pair2.truncated000066400000000000000000000003541313314234200360460ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/trimqualities/default@ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAACAAGCGTCGAT + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*& your_output.settings000066400000000000000000000046511313314234200347050ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/trimqualities/defaultAdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 727785539 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: Yes Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 2 Number of retained nucleotides: 198 Average length of retained reads: 99 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 1 1 0 0 2 your_output.singleton.truncated000066400000000000000000000000001313314234200370170ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/trimqualities/defaultadapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/trimqualities/minq31/000077500000000000000000000000001313314234200302425ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/trimqualities/minq31/info.json000066400000000000000000000001401313314234200320630ustar00rootroot00000000000000{ "arguments": ["--trimqualities", "--minquality", "31"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/trimqualities/minq31/input_1.fastq000066400000000000000000000003561313314234200326650ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATTCCGGCCTCATATTGGAAGCTACACGCTAGACCA + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/trimqualities/minq31/input_2.fastq000066400000000000000000000003561313314234200326660ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCTTCCAATATGAGGCCGGAATAACAAGCGTCGATG + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B@?@>>?@@=>><=;:9:9:9866852220.*&! your_output.discarded000066400000000000000000000000001313314234200344330ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/trimqualities/minq31your_output.pair1.truncated000066400000000000000000000002541313314234200355300ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/trimqualities/minq31@ATAGCCSeq_1_2959_500/1 meta data TATCGAGCAACTCACCAAGTTCCTTTGATCCGAGGAACTACCCTTACGCCCATCGACGCTTGTTATT + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A your_output.pair2.truncated000066400000000000000000000002541313314234200355310ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/trimqualities/minq31@ATAGCCSeq_1_2959_500/2 data meta CATCTGGATTGTCGATCGCTGCCACCACTAGCCGGGTTTTTCTTTTGTAGTGGTCTAGCGTGTAGCT + JHJIIJHJHIJJJGIGJGHHIGIIIHFFFIFGDFEFFFFEEEDCEDECBECCEDCAABBBBA@AA@B your_output.settings000066400000000000000000000040121313314234200343600ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/trimqualities/minq31AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 737094053 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 31: Yes Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 2 Number of retained nucleotides: 134 Average length of retained reads: 67 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 1 1 0 0 2 your_output.singleton.truncated000066400000000000000000000000001313314234200365030ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/excl_adapter/overlapping/trimqualities/minq31adapterremoval-2.2.2/validation/pe/incl_adapter/000077500000000000000000000000001313314234200217025ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/collapse/000077500000000000000000000000001313314234200235045ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/collapse/info.json000066400000000000000000000001051313314234200253260ustar00rootroot00000000000000{ "arguments": ["--collapse"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/incl_adapter/collapse/input_1.fastq000066400000000000000000000003551313314234200261260ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/pe/incl_adapter/collapse/input_2.fastq000066400000000000000000000003551313314234200261270ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCC + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDEDBDBCBCCBBAA?ADAAA@@@>>>><=><<;<:<;87:78753420/,+)! adapterremoval-2.2.2/validation/pe/incl_adapter/collapse/your_output.collapsed000066400000000000000000000002111313314234200300040ustar00rootroot00000000000000@M_AAGGGCSeq_1_5180_50 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGGAGGCCT + JJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJ&JJJJJJ adapterremoval-2.2.2/validation/pe/incl_adapter/collapse/your_output.collapsed.truncated000066400000000000000000000000001313314234200317700ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/collapse/your_output.discarded000066400000000000000000000000001313314234200277540ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/collapse/your_output.pair1.truncated000066400000000000000000000000001313314234200310360ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/collapse/your_output.pair2.truncated000066400000000000000000000000001313314234200310370ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/collapse/your_output.settings000066400000000000000000000041441313314234200277070ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 429139444 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: Yes Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 2 Number of full-length collapsed pairs: 1 Number of truncated collapsed pairs: 0 Number of retained reads: 1 Number of retained nucleotides: 50 Average length of retained reads: 50 [Length distribution] Length Mate1 Mate2 Singleton Collapsed CollapsedTruncated Discarded All 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 2 0 0 0 0 0 0 0 3 0 0 0 0 0 0 0 4 0 0 0 0 0 0 0 5 0 0 0 0 0 0 0 6 0 0 0 0 0 0 0 7 0 0 0 0 0 0 0 8 0 0 0 0 0 0 0 9 0 0 0 0 0 0 0 10 0 0 0 0 0 0 0 11 0 0 0 0 0 0 0 12 0 0 0 0 0 0 0 13 0 0 0 0 0 0 0 14 0 0 0 0 0 0 0 15 0 0 0 0 0 0 0 16 0 0 0 0 0 0 0 17 0 0 0 0 0 0 0 18 0 0 0 0 0 0 0 19 0 0 0 0 0 0 0 20 0 0 0 0 0 0 0 21 0 0 0 0 0 0 0 22 0 0 0 0 0 0 0 23 0 0 0 0 0 0 0 24 0 0 0 0 0 0 0 25 0 0 0 0 0 0 0 26 0 0 0 0 0 0 0 27 0 0 0 0 0 0 0 28 0 0 0 0 0 0 0 29 0 0 0 0 0 0 0 30 0 0 0 0 0 0 0 31 0 0 0 0 0 0 0 32 0 0 0 0 0 0 0 33 0 0 0 0 0 0 0 34 0 0 0 0 0 0 0 35 0 0 0 0 0 0 0 36 0 0 0 0 0 0 0 37 0 0 0 0 0 0 0 38 0 0 0 0 0 0 0 39 0 0 0 0 0 0 0 40 0 0 0 0 0 0 0 41 0 0 0 0 0 0 0 42 0 0 0 0 0 0 0 43 0 0 0 0 0 0 0 44 0 0 0 0 0 0 0 45 0 0 0 0 0 0 0 46 0 0 0 0 0 0 0 47 0 0 0 0 0 0 0 48 0 0 0 0 0 0 0 49 0 0 0 0 0 0 0 50 0 0 0 1 0 0 1 adapterremoval-2.2.2/validation/pe/incl_adapter/collapse/your_output.singleton.truncated000066400000000000000000000000001313314234200320240ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/collapse_truncated/000077500000000000000000000000001313314234200255555ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/collapse_truncated/info.json000066400000000000000000000001211313314234200273750ustar00rootroot00000000000000{ "arguments": ["--collapse", "--trimns"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/incl_adapter/collapse_truncated/input_1.fastq000066400000000000000000000003551313314234200301770ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data NCATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/pe/incl_adapter/collapse_truncated/input_2.fastq000066400000000000000000000003551313314234200302000ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGNAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCC + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDEDBDBCBCCBBAA?ADAAA@@@>>>><=><<;<:<;87:78753420/,+)! adapterremoval-2.2.2/validation/pe/incl_adapter/collapse_truncated/your_output.collapsed000066400000000000000000000000001313314234200320510ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/collapse_truncated/your_output.collapsed.truncated000066400000000000000000000002101313314234200340440ustar00rootroot00000000000000@MT_AAGGGCSeq_1_5180_50 meta data CATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGGAGGCCT + JJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJ&JJJJJJ adapterremoval-2.2.2/validation/pe/incl_adapter/collapse_truncated/your_output.discarded000066400000000000000000000000001313314234200320250ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/collapse_truncated/your_output.pair1.truncated000066400000000000000000000000001313314234200331070ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/collapse_truncated/your_output.pair2.truncated000066400000000000000000000000001313314234200331100ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/collapse_truncated/your_output.settings000066400000000000000000000041241313314234200317560ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 505768950 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: Yes Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 2 Number of full-length collapsed pairs: 0 Number of truncated collapsed pairs: 1 Number of retained reads: 1 Number of retained nucleotides: 49 Average length of retained reads: 49 [Length distribution] Length Mate1 Mate2 Singleton Collapsed CollapsedTruncated Discarded All 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 2 0 0 0 0 0 0 0 3 0 0 0 0 0 0 0 4 0 0 0 0 0 0 0 5 0 0 0 0 0 0 0 6 0 0 0 0 0 0 0 7 0 0 0 0 0 0 0 8 0 0 0 0 0 0 0 9 0 0 0 0 0 0 0 10 0 0 0 0 0 0 0 11 0 0 0 0 0 0 0 12 0 0 0 0 0 0 0 13 0 0 0 0 0 0 0 14 0 0 0 0 0 0 0 15 0 0 0 0 0 0 0 16 0 0 0 0 0 0 0 17 0 0 0 0 0 0 0 18 0 0 0 0 0 0 0 19 0 0 0 0 0 0 0 20 0 0 0 0 0 0 0 21 0 0 0 0 0 0 0 22 0 0 0 0 0 0 0 23 0 0 0 0 0 0 0 24 0 0 0 0 0 0 0 25 0 0 0 0 0 0 0 26 0 0 0 0 0 0 0 27 0 0 0 0 0 0 0 28 0 0 0 0 0 0 0 29 0 0 0 0 0 0 0 30 0 0 0 0 0 0 0 31 0 0 0 0 0 0 0 32 0 0 0 0 0 0 0 33 0 0 0 0 0 0 0 34 0 0 0 0 0 0 0 35 0 0 0 0 0 0 0 36 0 0 0 0 0 0 0 37 0 0 0 0 0 0 0 38 0 0 0 0 0 0 0 39 0 0 0 0 0 0 0 40 0 0 0 0 0 0 0 41 0 0 0 0 0 0 0 42 0 0 0 0 0 0 0 43 0 0 0 0 0 0 0 44 0 0 0 0 0 0 0 45 0 0 0 0 0 0 0 46 0 0 0 0 0 0 0 47 0 0 0 0 0 0 0 48 0 0 0 0 0 0 0 49 0 0 0 0 1 0 1 adapterremoval-2.2.2/validation/pe/incl_adapter/collapse_truncated/your_output.singleton.truncated000066400000000000000000000000001313314234200340750ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/000077500000000000000000000000001313314234200251025ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/collapse/000077500000000000000000000000001313314234200267045ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/collapse/info.json000066400000000000000000000001321313314234200305260ustar00rootroot00000000000000{ "arguments": ["--combined-output", "--collapse"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/collapse/input_1.fastq000066400000000000000000000003551313314234200313260ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/collapse/input_2.fastq000066400000000000000000000003551313314234200313270ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCC + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDEDBDBCBCCBBAA?ADAAA@@@>>>><=><<;<:<;87:78753420/,+)! adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/collapse/your_output.pair1.truncated000066400000000000000000000002131313314234200342440ustar00rootroot00000000000000@M_AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGGAGGCCT + JJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJ&JJJJJJ adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/collapse/your_output.pair2.truncated000066400000000000000000000000511313314234200342450ustar00rootroot00000000000000@M_AAGGGCSeq_1_5180_50/2 data meta N + ! adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/collapse/your_output.settings000066400000000000000000000041441313314234200331070ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 429139444 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: Yes Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 2 Number of full-length collapsed pairs: 1 Number of truncated collapsed pairs: 0 Number of retained reads: 1 Number of retained nucleotides: 50 Average length of retained reads: 50 [Length distribution] Length Mate1 Mate2 Singleton Collapsed CollapsedTruncated Discarded All 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 2 0 0 0 0 0 0 0 3 0 0 0 0 0 0 0 4 0 0 0 0 0 0 0 5 0 0 0 0 0 0 0 6 0 0 0 0 0 0 0 7 0 0 0 0 0 0 0 8 0 0 0 0 0 0 0 9 0 0 0 0 0 0 0 10 0 0 0 0 0 0 0 11 0 0 0 0 0 0 0 12 0 0 0 0 0 0 0 13 0 0 0 0 0 0 0 14 0 0 0 0 0 0 0 15 0 0 0 0 0 0 0 16 0 0 0 0 0 0 0 17 0 0 0 0 0 0 0 18 0 0 0 0 0 0 0 19 0 0 0 0 0 0 0 20 0 0 0 0 0 0 0 21 0 0 0 0 0 0 0 22 0 0 0 0 0 0 0 23 0 0 0 0 0 0 0 24 0 0 0 0 0 0 0 25 0 0 0 0 0 0 0 26 0 0 0 0 0 0 0 27 0 0 0 0 0 0 0 28 0 0 0 0 0 0 0 29 0 0 0 0 0 0 0 30 0 0 0 0 0 0 0 31 0 0 0 0 0 0 0 32 0 0 0 0 0 0 0 33 0 0 0 0 0 0 0 34 0 0 0 0 0 0 0 35 0 0 0 0 0 0 0 36 0 0 0 0 0 0 0 37 0 0 0 0 0 0 0 38 0 0 0 0 0 0 0 39 0 0 0 0 0 0 0 40 0 0 0 0 0 0 0 41 0 0 0 0 0 0 0 42 0 0 0 0 0 0 0 43 0 0 0 0 0 0 0 44 0 0 0 0 0 0 0 45 0 0 0 0 0 0 0 46 0 0 0 0 0 0 0 47 0 0 0 0 0 0 0 48 0 0 0 0 0 0 0 49 0 0 0 0 0 0 0 50 0 0 0 1 0 0 1 adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/collapse_truncated/000077500000000000000000000000001313314234200307555ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/collapse_truncated/info.json000066400000000000000000000001461313314234200326040ustar00rootroot00000000000000{ "arguments": ["--combined-output", "--collapse", "--trimns"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/collapse_truncated/input_1.fastq000066400000000000000000000003551313314234200333770ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data NCATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/collapse_truncated/input_2.fastq000066400000000000000000000003551313314234200334000ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGNAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCC + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDEDBDBCBCCBBAA?ADAAA@@@>>>><=><<;<:<;87:78753420/,+)! your_output.pair1.truncated000066400000000000000000000002121313314234200362350ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/collapse_truncated@MT_AAGGGCSeq_1_5180_50/1 meta data CATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGGAGGCCT + JJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJ&JJJJJJ your_output.pair2.truncated000066400000000000000000000000521313314234200362400ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/collapse_truncated@MT_AAGGGCSeq_1_5180_50/2 data meta N + ! your_output.settings000066400000000000000000000041241313314234200350770ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/collapse_truncatedAdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 505768950 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: Yes Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 2 Number of full-length collapsed pairs: 0 Number of truncated collapsed pairs: 1 Number of retained reads: 1 Number of retained nucleotides: 49 Average length of retained reads: 49 [Length distribution] Length Mate1 Mate2 Singleton Collapsed CollapsedTruncated Discarded All 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 2 0 0 0 0 0 0 0 3 0 0 0 0 0 0 0 4 0 0 0 0 0 0 0 5 0 0 0 0 0 0 0 6 0 0 0 0 0 0 0 7 0 0 0 0 0 0 0 8 0 0 0 0 0 0 0 9 0 0 0 0 0 0 0 10 0 0 0 0 0 0 0 11 0 0 0 0 0 0 0 12 0 0 0 0 0 0 0 13 0 0 0 0 0 0 0 14 0 0 0 0 0 0 0 15 0 0 0 0 0 0 0 16 0 0 0 0 0 0 0 17 0 0 0 0 0 0 0 18 0 0 0 0 0 0 0 19 0 0 0 0 0 0 0 20 0 0 0 0 0 0 0 21 0 0 0 0 0 0 0 22 0 0 0 0 0 0 0 23 0 0 0 0 0 0 0 24 0 0 0 0 0 0 0 25 0 0 0 0 0 0 0 26 0 0 0 0 0 0 0 27 0 0 0 0 0 0 0 28 0 0 0 0 0 0 0 29 0 0 0 0 0 0 0 30 0 0 0 0 0 0 0 31 0 0 0 0 0 0 0 32 0 0 0 0 0 0 0 33 0 0 0 0 0 0 0 34 0 0 0 0 0 0 0 35 0 0 0 0 0 0 0 36 0 0 0 0 0 0 0 37 0 0 0 0 0 0 0 38 0 0 0 0 0 0 0 39 0 0 0 0 0 0 0 40 0 0 0 0 0 0 0 41 0 0 0 0 0 0 0 42 0 0 0 0 0 0 0 43 0 0 0 0 0 0 0 44 0 0 0 0 0 0 0 45 0 0 0 0 0 0 0 46 0 0 0 0 0 0 0 47 0 0 0 0 0 0 0 48 0 0 0 0 0 0 0 49 0 0 0 0 1 0 1 adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/interleaved/000077500000000000000000000000001313314234200274045ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/interleaved/collapse/000077500000000000000000000000001313314234200312065ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/interleaved/collapse/info.json000066400000000000000000000001621313314234200330330ustar00rootroot00000000000000{ "arguments": ["--combined-output", "--collapse", "--interleaved-output"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/interleaved/collapse/input_1.fastq000066400000000000000000000003551313314234200336300ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/interleaved/collapse/input_2.fastq000066400000000000000000000003551313314234200336310ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCC + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDEDBDBCBCCBBAA?ADAAA@@@>>>><=><<;<:<;87:78753420/,+)! your_output.paired.truncated000066400000000000000000000002641313314234200367250ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/interleaved/collapse@M_AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGGAGGCCT + JJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJ&JJJJJJ @M_AAGGGCSeq_1_5180_50/2 data meta N + ! your_output.settings000066400000000000000000000041441313314234200353320ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/interleaved/collapseAdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 429139444 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: Yes Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 2 Number of full-length collapsed pairs: 1 Number of truncated collapsed pairs: 0 Number of retained reads: 1 Number of retained nucleotides: 50 Average length of retained reads: 50 [Length distribution] Length Mate1 Mate2 Singleton Collapsed CollapsedTruncated Discarded All 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 2 0 0 0 0 0 0 0 3 0 0 0 0 0 0 0 4 0 0 0 0 0 0 0 5 0 0 0 0 0 0 0 6 0 0 0 0 0 0 0 7 0 0 0 0 0 0 0 8 0 0 0 0 0 0 0 9 0 0 0 0 0 0 0 10 0 0 0 0 0 0 0 11 0 0 0 0 0 0 0 12 0 0 0 0 0 0 0 13 0 0 0 0 0 0 0 14 0 0 0 0 0 0 0 15 0 0 0 0 0 0 0 16 0 0 0 0 0 0 0 17 0 0 0 0 0 0 0 18 0 0 0 0 0 0 0 19 0 0 0 0 0 0 0 20 0 0 0 0 0 0 0 21 0 0 0 0 0 0 0 22 0 0 0 0 0 0 0 23 0 0 0 0 0 0 0 24 0 0 0 0 0 0 0 25 0 0 0 0 0 0 0 26 0 0 0 0 0 0 0 27 0 0 0 0 0 0 0 28 0 0 0 0 0 0 0 29 0 0 0 0 0 0 0 30 0 0 0 0 0 0 0 31 0 0 0 0 0 0 0 32 0 0 0 0 0 0 0 33 0 0 0 0 0 0 0 34 0 0 0 0 0 0 0 35 0 0 0 0 0 0 0 36 0 0 0 0 0 0 0 37 0 0 0 0 0 0 0 38 0 0 0 0 0 0 0 39 0 0 0 0 0 0 0 40 0 0 0 0 0 0 0 41 0 0 0 0 0 0 0 42 0 0 0 0 0 0 0 43 0 0 0 0 0 0 0 44 0 0 0 0 0 0 0 45 0 0 0 0 0 0 0 46 0 0 0 0 0 0 0 47 0 0 0 0 0 0 0 48 0 0 0 0 0 0 0 49 0 0 0 0 0 0 0 50 0 0 0 1 0 0 1 adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/interleaved/collapse_truncated/000077500000000000000000000000001313314234200332575ustar00rootroot00000000000000info.json000066400000000000000000000001761313314234200350320ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/interleaved/collapse_truncated{ "arguments": ["--combined-output", "--collapse", "--trimns", "--interleaved-output"], "return_code": 0, "stderr": [ ] } input_1.fastq000066400000000000000000000003551313314234200356220ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/interleaved/collapse_truncated@AAGGGCSeq_1_5180_50/1 meta data NCATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! input_2.fastq000066400000000000000000000003551313314234200356230ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/interleaved/collapse_truncated@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGNAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCC + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDEDBDBCBCCBBAA?ADAAA@@@>>>><=><<;<:<;87:78753420/,+)! your_output.paired.truncated000066400000000000000000000002641313314234200407760ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/interleaved/collapse_truncated@MT_AAGGGCSeq_1_5180_50/1 meta data CATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGGAGGCCT + JJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJ&JJJJJJ @MT_AAGGGCSeq_1_5180_50/2 data meta N + ! your_output.settings000066400000000000000000000041241313314234200374010ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/interleaved/collapse_truncatedAdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 505768950 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: Yes Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 2 Number of full-length collapsed pairs: 0 Number of truncated collapsed pairs: 1 Number of retained reads: 1 Number of retained nucleotides: 49 Average length of retained reads: 49 [Length distribution] Length Mate1 Mate2 Singleton Collapsed CollapsedTruncated Discarded All 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 2 0 0 0 0 0 0 0 3 0 0 0 0 0 0 0 4 0 0 0 0 0 0 0 5 0 0 0 0 0 0 0 6 0 0 0 0 0 0 0 7 0 0 0 0 0 0 0 8 0 0 0 0 0 0 0 9 0 0 0 0 0 0 0 10 0 0 0 0 0 0 0 11 0 0 0 0 0 0 0 12 0 0 0 0 0 0 0 13 0 0 0 0 0 0 0 14 0 0 0 0 0 0 0 15 0 0 0 0 0 0 0 16 0 0 0 0 0 0 0 17 0 0 0 0 0 0 0 18 0 0 0 0 0 0 0 19 0 0 0 0 0 0 0 20 0 0 0 0 0 0 0 21 0 0 0 0 0 0 0 22 0 0 0 0 0 0 0 23 0 0 0 0 0 0 0 24 0 0 0 0 0 0 0 25 0 0 0 0 0 0 0 26 0 0 0 0 0 0 0 27 0 0 0 0 0 0 0 28 0 0 0 0 0 0 0 29 0 0 0 0 0 0 0 30 0 0 0 0 0 0 0 31 0 0 0 0 0 0 0 32 0 0 0 0 0 0 0 33 0 0 0 0 0 0 0 34 0 0 0 0 0 0 0 35 0 0 0 0 0 0 0 36 0 0 0 0 0 0 0 37 0 0 0 0 0 0 0 38 0 0 0 0 0 0 0 39 0 0 0 0 0 0 0 40 0 0 0 0 0 0 0 41 0 0 0 0 0 0 0 42 0 0 0 0 0 0 0 43 0 0 0 0 0 0 0 44 0 0 0 0 0 0 0 45 0 0 0 0 0 0 0 46 0 0 0 0 0 0 0 47 0 0 0 0 0 0 0 48 0 0 0 0 0 0 0 49 0 0 0 0 1 0 1 adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/interleaved/keep_both/000077500000000000000000000000001313314234200313445ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/interleaved/keep_both/info.json000066400000000000000000000001441313314234200331710ustar00rootroot00000000000000{ "arguments": ["--combined-output", "--interleaved-output"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/interleaved/keep_both/input_1.fastq000066400000000000000000000003551313314234200337660ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/interleaved/keep_both/input_2.fastq000066400000000000000000000003551313314234200337670ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCC + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDEDBDBCBCCBBAA?ADAAA@@@>>>><=><<;<:<;87:78753420/,+)! your_output.paired.truncated000066400000000000000000000004221313314234200370570ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/interleaved/keep_both@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCT + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECC @AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGT + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDED your_output.settings000066400000000000000000000034531313314234200354720ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/interleaved/keep_bothAdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 372265332 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 2 Number of retained reads: 2 Number of retained nucleotides: 100 Average length of retained reads: 50 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 1 1 0 0 2 adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/interleaved/keep_mate1/000077500000000000000000000000001313314234200314175ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/interleaved/keep_mate1/info.json000066400000000000000000000002051313314234200332420ustar00rootroot00000000000000{ "arguments": ["--combined-output", "--trimns", "--minlength", "50", "--interleaved-output"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/interleaved/keep_mate1/input_1.fastq000066400000000000000000000003551313314234200340410ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/interleaved/keep_mate1/input_2.fastq000066400000000000000000000003551313314234200340420ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGNAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCC + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDEDBDBCBCCBBAA?ADAAA@@@>>>><=><<;<:<;87:78753420/,+)! your_output.paired.truncated000066400000000000000000000002601313314234200371320ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/interleaved/keep_mate1@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCT + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECC @AAGGGCSeq_1_5180_50/2 data meta N + ! your_output.settings000066400000000000000000000034541313314234200355460ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/interleaved/keep_mate1AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3738807510 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 50 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 1 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 2 Number of retained reads: 1 Number of retained nucleotides: 50 Average length of retained reads: 50 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 1 1 50 0 0 1 0 1 adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/interleaved/keep_mate2/000077500000000000000000000000001313314234200314205ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/interleaved/keep_mate2/info.json000066400000000000000000000002051313314234200332430ustar00rootroot00000000000000{ "arguments": ["--combined-output", "--trimns", "--minlength", "50", "--interleaved-output"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/interleaved/keep_mate2/input_1.fastq000066400000000000000000000003551313314234200340420ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCNAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/interleaved/keep_mate2/input_2.fastq000066400000000000000000000003551313314234200340430ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCC + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDEDBDBCBCCBBAA?ADAAA@@@>>>><=><<;<:<;87:78753420/,+)! your_output.paired.truncated000066400000000000000000000002601313314234200371330ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/interleaved/keep_mate2@AAGGGCSeq_1_5180_50/1 meta data N + ! @AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGT + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDED your_output.settings000066400000000000000000000034541313314234200355470ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/interleaved/keep_mate2AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3854997780 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 50 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 1 Number of reads with adapters[1]: 2 Number of retained reads: 1 Number of retained nucleotides: 50 Average length of retained reads: 50 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 1 1 50 0 0 1 0 1 adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/interleaved/keep_neither/000077500000000000000000000000001313314234200320465ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/interleaved/keep_neither/info.json000066400000000000000000000002051313314234200336710ustar00rootroot00000000000000{ "arguments": ["--combined-output", "--trimns", "--minlength", "50", "--interleaved-output"], "return_code": 0, "stderr": [ ] } input_1.fastq000066400000000000000000000003551313314234200344110ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/interleaved/keep_neither@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCNAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! input_2.fastq000066400000000000000000000003551313314234200344120ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/interleaved/keep_neither@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGNAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCC + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDEDBDBCBCCBBAA?ADAAA@@@>>>><=><<;<:<;87:78753420/,+)! your_output.paired.truncated000066400000000000000000000001161313314234200375610ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/interleaved/keep_neither@AAGGGCSeq_1_5180_50/1 meta data N + ! @AAGGGCSeq_1_5180_50/2 data meta N + ! your_output.settings000066400000000000000000000034351313314234200361740ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/interleaved/keep_neitherAdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3934188119 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 50 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 2 Number of retained reads: 0 Number of retained nucleotides: 0 Average length of retained reads: 0 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 2 2 adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/keep_both/000077500000000000000000000000001313314234200270425ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/keep_both/info.json000066400000000000000000000001141313314234200306640ustar00rootroot00000000000000{ "arguments": ["--combined-output"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/keep_both/input_1.fastq000066400000000000000000000003551313314234200314640ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/keep_both/input_2.fastq000066400000000000000000000003551313314234200314650ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCC + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDEDBDBCBCCBBAA?ADAAA@@@>>>><=><<;<:<;87:78753420/,+)! your_output.pair1.truncated000066400000000000000000000002111313314234200343210ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/keep_both@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCT + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECC your_output.pair2.truncated000066400000000000000000000002111313314234200343220ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/keep_both@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGT + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDED adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/keep_both/your_output.settings000066400000000000000000000034531313314234200332470ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 372265332 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 2 Number of retained reads: 2 Number of retained nucleotides: 100 Average length of retained reads: 50 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 1 1 0 0 2 adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/keep_mate1/000077500000000000000000000000001313314234200271155ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/keep_mate1/info.json000066400000000000000000000001551313314234200307440ustar00rootroot00000000000000{ "arguments": ["--combined-output", "--trimns", "--minlength", "50"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/keep_mate1/input_1.fastq000066400000000000000000000003551313314234200315370ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/keep_mate1/input_2.fastq000066400000000000000000000003551313314234200315400ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGNAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCC + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDEDBDBCBCCBBAA?ADAAA@@@>>>><=><<;<:<;87:78753420/,+)! your_output.pair1.truncated000066400000000000000000000002111313314234200343740ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/keep_mate1@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCT + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECC your_output.pair2.truncated000066400000000000000000000000471313314234200344040ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/keep_mate1@AAGGGCSeq_1_5180_50/2 data meta N + ! adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/keep_mate1/your_output.settings000066400000000000000000000034541313314234200333230ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3738807510 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 50 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 1 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 2 Number of retained reads: 1 Number of retained nucleotides: 50 Average length of retained reads: 50 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 1 1 50 0 0 1 0 1 adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/keep_mate2/000077500000000000000000000000001313314234200271165ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/keep_mate2/info.json000066400000000000000000000001551313314234200307450ustar00rootroot00000000000000{ "arguments": ["--combined-output", "--trimns", "--minlength", "50"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/keep_mate2/input_1.fastq000066400000000000000000000003551313314234200315400ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCNAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/keep_mate2/input_2.fastq000066400000000000000000000003551313314234200315410ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCC + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDEDBDBCBCCBBAA?ADAAA@@@>>>><=><<;<:<;87:78753420/,+)! your_output.pair1.truncated000066400000000000000000000000471313314234200344040ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/keep_mate2@AAGGGCSeq_1_5180_50/1 meta data N + ! your_output.pair2.truncated000066400000000000000000000002111313314234200343760ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/keep_mate2@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGT + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDED adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/keep_mate2/your_output.settings000066400000000000000000000034541313314234200333240ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3854997780 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 50 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 1 Number of reads with adapters[1]: 2 Number of retained reads: 1 Number of retained nucleotides: 50 Average length of retained reads: 50 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 1 1 50 0 0 1 0 1 adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/keep_neither/000077500000000000000000000000001313314234200275445ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/keep_neither/info.json000066400000000000000000000001551313314234200313730ustar00rootroot00000000000000{ "arguments": ["--combined-output", "--trimns", "--minlength", "50"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/keep_neither/input_1.fastq000066400000000000000000000003551313314234200321660ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCNAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/keep_neither/input_2.fastq000066400000000000000000000003551313314234200321670ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGNAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCC + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDEDBDBCBCCBBAA?ADAAA@@@>>>><=><<;<:<;87:78753420/,+)! your_output.pair1.truncated000066400000000000000000000000471313314234200350320ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/keep_neither@AAGGGCSeq_1_5180_50/1 meta data N + ! your_output.pair2.truncated000066400000000000000000000000471313314234200350330ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/keep_neither@AAGGGCSeq_1_5180_50/2 data meta N + ! adapterremoval-2.2.2/validation/pe/incl_adapter/combined_output/keep_neither/your_output.settings000066400000000000000000000034351313314234200337510ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3934188119 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 50 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 2 Number of retained reads: 0 Number of retained nucleotides: 0 Average length of retained reads: 0 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 2 2 adapterremoval-2.2.2/validation/pe/incl_adapter/crlf_newlines/000077500000000000000000000000001313314234200245345ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/crlf_newlines/info.json000066400000000000000000000000711313314234200263600ustar00rootroot00000000000000{ "arguments": [], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/incl_adapter/crlf_newlines/input_1.fastq000066400000000000000000000003611313314234200271530ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/pe/incl_adapter/crlf_newlines/input_2.fastq000066400000000000000000000003611313314234200271540ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCC + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDEDBDBCBCCBBAA?ADAAA@@@>>>><=><<;<:<;87:78753420/,+)! adapterremoval-2.2.2/validation/pe/incl_adapter/crlf_newlines/your_output.discarded000066400000000000000000000000001313314234200310040ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/crlf_newlines/your_output.pair1.truncated000066400000000000000000000002111313314234200320720ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCT + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECC adapterremoval-2.2.2/validation/pe/incl_adapter/crlf_newlines/your_output.pair2.truncated000066400000000000000000000002111313314234200320730ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGT + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDED adapterremoval-2.2.2/validation/pe/incl_adapter/crlf_newlines/your_output.settings000066400000000000000000000034531313314234200307410ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 372265332 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 2 Number of retained reads: 2 Number of retained nucleotides: 100 Average length of retained reads: 50 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 1 1 0 0 2 adapterremoval-2.2.2/validation/pe/incl_adapter/crlf_newlines/your_output.singleton.truncated000066400000000000000000000000001313314234200330540ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/defaults/000077500000000000000000000000001313314234200235115ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/defaults/info.json000066400000000000000000000000711313314234200253350ustar00rootroot00000000000000{ "arguments": [], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/incl_adapter/defaults/input_1.fastq000066400000000000000000000003551313314234200261330ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/pe/incl_adapter/defaults/input_2.fastq000066400000000000000000000003551313314234200261340ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCC + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDEDBDBCBCCBBAA?ADAAA@@@>>>><=><<;<:<;87:78753420/,+)! adapterremoval-2.2.2/validation/pe/incl_adapter/defaults/your_output.discarded000066400000000000000000000000001313314234200277610ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/defaults/your_output.pair1.truncated000066400000000000000000000002111313314234200310470ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCT + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECC adapterremoval-2.2.2/validation/pe/incl_adapter/defaults/your_output.pair2.truncated000066400000000000000000000002111313314234200310500ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGT + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDED adapterremoval-2.2.2/validation/pe/incl_adapter/defaults/your_output.settings000066400000000000000000000034531313314234200277160ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 372265332 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 2 Number of retained reads: 2 Number of retained nucleotides: 100 Average length of retained reads: 50 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 1 1 0 0 2 adapterremoval-2.2.2/validation/pe/incl_adapter/defaults/your_output.singleton.truncated000066400000000000000000000000001313314234200320310ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/maxlength/000077500000000000000000000000001313314234200236715ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/maxlength/both/000077500000000000000000000000001313314234200246255ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/maxlength/both/info.json000066400000000000000000000001141313314234200264470ustar00rootroot00000000000000{ "arguments": ["--maxlength", "49"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/incl_adapter/maxlength/both/input_1.fastq000066400000000000000000000003551313314234200272470ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/pe/incl_adapter/maxlength/both/input_2.fastq000066400000000000000000000003551313314234200272500ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCC + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDEDBDBCBCCBBAA?ADAAA@@@>>>><=><<;<:<;87:78753420/,+)! adapterremoval-2.2.2/validation/pe/incl_adapter/maxlength/both/your_output.discarded000066400000000000000000000004221313314234200311050ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCT + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECC @AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGT + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDED adapterremoval-2.2.2/validation/pe/incl_adapter/maxlength/both/your_output.pair1.truncated000066400000000000000000000000001313314234200321570ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/maxlength/both/your_output.pair2.truncated000066400000000000000000000000001313314234200321600ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/maxlength/both/your_output.settings000066400000000000000000000034411313314234200310270ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1200660835 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 49 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 2 Number of retained reads: 0 Number of retained nucleotides: 0 Average length of retained reads: 0 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 2 2 adapterremoval-2.2.2/validation/pe/incl_adapter/maxlength/both/your_output.singleton.truncated000066400000000000000000000000001313314234200331450ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/maxlength/mate1/000077500000000000000000000000001313314234200247005ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/maxlength/mate1/info.json000066400000000000000000000001301313314234200265200ustar00rootroot00000000000000{ "arguments": ["--maxlength", "49", "--trimns"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/incl_adapter/maxlength/mate1/input_1.fastq000066400000000000000000000003551313314234200273220ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/pe/incl_adapter/maxlength/mate1/input_2.fastq000066400000000000000000000003551313314234200273230ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGNAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCC + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDEDBDBCBCCBBAA?ADAAA@@@>>>><=><<;<:<;87:78753420/,+)! adapterremoval-2.2.2/validation/pe/incl_adapter/maxlength/mate1/your_output.discarded000066400000000000000000000002111313314234200311540ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCT + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECC adapterremoval-2.2.2/validation/pe/incl_adapter/maxlength/mate1/your_output.pair1.truncated000066400000000000000000000000001313314234200322320ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/maxlength/mate1/your_output.pair2.truncated000066400000000000000000000000001313314234200322330ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/maxlength/mate1/your_output.settings000066400000000000000000000034441313314234200311050ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1359054103 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 49 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 1 Number of reads with adapters[1]: 2 Number of retained reads: 1 Number of retained nucleotides: 49 Average length of retained reads: 49 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 1 0 1 50 0 0 0 1 1 adapterremoval-2.2.2/validation/pe/incl_adapter/maxlength/mate1/your_output.singleton.truncated000066400000000000000000000002071313314234200332310ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATG + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDE adapterremoval-2.2.2/validation/pe/incl_adapter/maxlength/mate2/000077500000000000000000000000001313314234200247015ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/maxlength/mate2/info.json000066400000000000000000000001301313314234200265210ustar00rootroot00000000000000{ "arguments": ["--maxlength", "49", "--trimns"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/incl_adapter/maxlength/mate2/input_1.fastq000066400000000000000000000003551313314234200273230ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCNAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/pe/incl_adapter/maxlength/mate2/input_2.fastq000066400000000000000000000003551313314234200273240ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCC + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDEDBDBCBCCBBAA?ADAAA@@@>>>><=><<;<:<;87:78753420/,+)! adapterremoval-2.2.2/validation/pe/incl_adapter/maxlength/mate2/your_output.discarded000066400000000000000000000002111313314234200311550ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGT + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDED adapterremoval-2.2.2/validation/pe/incl_adapter/maxlength/mate2/your_output.pair1.truncated000066400000000000000000000000001313314234200322330ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/maxlength/mate2/your_output.pair2.truncated000066400000000000000000000000001313314234200322340ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/maxlength/mate2/your_output.settings000066400000000000000000000034441313314234200311060ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1361295368 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 49 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 1 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 2 Number of retained reads: 1 Number of retained nucleotides: 49 Average length of retained reads: 49 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 1 0 1 50 0 0 0 1 1 adapterremoval-2.2.2/validation/pe/incl_adapter/maxlength/mate2/your_output.singleton.truncated000066400000000000000000000002071313314234200332320ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCC + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDEC adapterremoval-2.2.2/validation/pe/incl_adapter/minlength/000077500000000000000000000000001313314234200236675ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/minlength/both/000077500000000000000000000000001313314234200246235ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/minlength/both/info.json000066400000000000000000000001141313314234200264450ustar00rootroot00000000000000{ "arguments": ["--minlength", "50"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/incl_adapter/minlength/both/input_1.fastq000066400000000000000000000003531313314234200272430ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/pe/incl_adapter/minlength/both/input_2.fastq000066400000000000000000000003531313314234200272440ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCC + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDEBDBCBCCBBAA?ADAAA@@@>>>><=><<;<:<;87:78753420/,+)! adapterremoval-2.2.2/validation/pe/incl_adapter/minlength/both/your_output.discarded000066400000000000000000000004161313314234200311060ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCC + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDEC @AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATG + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDE adapterremoval-2.2.2/validation/pe/incl_adapter/minlength/both/your_output.pair1.truncated000066400000000000000000000000001313314234200321550ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/minlength/both/your_output.pair2.truncated000066400000000000000000000000001313314234200321560ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/minlength/both/your_output.settings000066400000000000000000000034341313314234200310270ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1436203328 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 50 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 2 Number of retained reads: 0 Number of retained nucleotides: 0 Average length of retained reads: 0 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 2 2 adapterremoval-2.2.2/validation/pe/incl_adapter/minlength/both/your_output.singleton.truncated000066400000000000000000000000001313314234200331430ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/minlength/mate1/000077500000000000000000000000001313314234200246765ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/minlength/mate1/info.json000066400000000000000000000001301313314234200265160ustar00rootroot00000000000000{ "arguments": ["--minlength", "50", "--trimns"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/incl_adapter/minlength/mate1/input_1.fastq000066400000000000000000000003551313314234200273200ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data NCATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/pe/incl_adapter/minlength/mate1/input_2.fastq000066400000000000000000000003551313314234200273210ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCC + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDEDBDBCBCCBBAA?ADAAA@@@>>>><=><<;<:<;87:78753420/,+)! adapterremoval-2.2.2/validation/pe/incl_adapter/minlength/mate1/your_output.discarded000066400000000000000000000002071313314234200311570ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data CATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCT + JJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECC adapterremoval-2.2.2/validation/pe/incl_adapter/minlength/mate1/your_output.pair1.truncated000066400000000000000000000000001313314234200322300ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/minlength/mate1/your_output.pair2.truncated000066400000000000000000000000001313314234200322310ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/minlength/mate1/your_output.settings000066400000000000000000000034541313314234200311040ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1647601792 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 50 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 1 Number of reads with adapters[1]: 2 Number of retained reads: 1 Number of retained nucleotides: 50 Average length of retained reads: 50 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 1 1 50 0 0 1 0 1 adapterremoval-2.2.2/validation/pe/incl_adapter/minlength/mate1/your_output.singleton.truncated000066400000000000000000000002111313314234200332220ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGT + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDED adapterremoval-2.2.2/validation/pe/incl_adapter/minlength/mate2/000077500000000000000000000000001313314234200246775ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/minlength/mate2/info.json000066400000000000000000000001301313314234200265170ustar00rootroot00000000000000{ "arguments": ["--minlength", "50", "--trimns"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/incl_adapter/minlength/mate2/input_1.fastq000066400000000000000000000003551313314234200273210ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/pe/incl_adapter/minlength/mate2/input_2.fastq000066400000000000000000000003551313314234200273220ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta NGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCC + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDEDBDBCBCCBBAA?ADAAA@@@>>>><=><<;<:<;87:78753420/,+)! adapterremoval-2.2.2/validation/pe/incl_adapter/minlength/mate2/your_output.discarded000066400000000000000000000002071313314234200311600ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta GGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGT + IHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDED adapterremoval-2.2.2/validation/pe/incl_adapter/minlength/mate2/your_output.pair1.truncated000066400000000000000000000000001313314234200322310ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/minlength/mate2/your_output.pair2.truncated000066400000000000000000000000001313314234200322320ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/minlength/mate2/your_output.settings000066400000000000000000000034541313314234200311050ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1757553206 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 50 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 1 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 2 Number of retained reads: 1 Number of retained nucleotides: 50 Average length of retained reads: 50 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 1 1 50 0 0 1 0 1 adapterremoval-2.2.2/validation/pe/incl_adapter/minlength/mate2/your_output.singleton.truncated000066400000000000000000000002111313314234200332230ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCT + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECC adapterremoval-2.2.2/validation/pe/incl_adapter/multiple_input/000077500000000000000000000000001313314234200247545ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/multiple_input/info.json000066400000000000000000000000711313314234200266000ustar00rootroot00000000000000{ "arguments": [], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/incl_adapter/multiple_input/input_1a.fastq000066400000000000000000000015501313314234200275350ustar00rootroot00000000000000@read_150_1/1 CTTGGGTACTCAGCCTTAGGGTACCACATAGAGTTATCTTATATATTATAATTGCTCTTTTAACATAATTTTAAAAAATTTATATTAAACTTTCTCTGTT + HHHFFFFBBDGGGGGHHHHHGGFCDHGEE<@;+@C792A.CEEGGFFFFDEFGFHHHH@C2;@F;EDDHFDCCC@.DEEEG=BGEDC5>:=2@GFHHHFF @read_150_2/1 GAGTGGGCTTCATCCCTGGGATGCAAGGCTGGTTCAATATATGCAAATCAATAAATGTAATCCAGCATATAAACAGAACCAAAGAAGATCGGAAGAGCAC + HHHHHHHHHHHHHHHHHHHHHHHGC.@CFGHHHHHHHHFBFFHEHHHHFBGHFFFFFFHEDE@EBHHFHB<<>099BEB@=?*59/''.CCFHFHHHHHH @read_150_3/1 TATGTAATGACATAACTCTTATGGGCAACTTCACAAAAACACAGAAGAAAGCCCTCCTAAAGAATGAAATTCCAAAAAAAATCAGGTTACTGCTCACTGA + HHE=EE@DBBBGHGBFGGDDDDFFFHHHHHGHHHHHHGHHHE7BFHHHHHHG@4FEHHFHHHHFHHHHHHFFFE?EGCDE>CD:9=>+*;=37::ADDHF @read_150_4/1 CTCCTATATAAAGATAGCTCTGTAAAACAGGCCAAAAAGCAGAGTGGGGTGTGGGAAGGCAGGGAAAACTGTCCAGGAATAAAGGCATGAAATGAAACAA + HHHHHHHHHHHHHHHHEG@:EEB4DFHHEHFHHHHEGFFEEFCDHEFF:+1;?GFFCFHHHHHHHHHFHBB>>BEDGCDHHHHF adapterremoval-2.2.2/validation/pe/incl_adapter/multiple_input/input_1b.fastq000066400000000000000000000015501313314234200275360ustar00rootroot00000000000000@read_150_5/1 TACTCACGGACAAAGAATAAATATAGCTCCTCCAGGAGCTTAATAACTCAGTGCTGTCTAAACTCCTTACACCTGATGTTGATGCCATGGTTAGATAGTT + HHFFGGFDBHHEHHHHHHHHHHHHFHHHHFHHFEEDFD8=GHFFHHDHHHCHHFDHBHD:> @read_150_7/1 TAAGTAAGGTAGACAGCTAAGTCTAGTTTGTTCCCAGTGTTGTACCAGTCTCATCAGTGCCGTGTCTGGGTCTCACAGCCTCTGGTGTTCTATGCTGGAT + GFFEEDHHGHHHHHHHHB?GG77-/:>>@?6AC5GIB?BEBHHHHHHHHHHHHFGFHHHHHHEFEGF9?EHHHE@8BB12BEHHH @read_150_8/1 TAAAAACAAAAACCCTGATGAGAGTATTGATGTGTGCATAAACAAAGAAAAACATAATAGGAATAGAATGGTGAATTAAATTTTGTGAATTTTGGAAACC + HGGGGGHHHHHFHHGHHHHHHHEHHHHHHFHHEEHHHHHFE:/CGBHHHHHGFFGHHHHCEHEFECEFHHFEEE>CFFFCE?DEBD @read_150_10/1 TATAGATGAACTCTGATTTAGAATTTGTATAAGCTAAAGCATTATAGTAATAACTTTTAAAGTAGTATTTAAAATATCCTTATCTTACGTATATATGACT + <506@6?GHHHHGFHGFCFHHHHHHHHHHFGFF<3@C43F>AAEEFBFDFFHHHHHHHHED(0DAEBEFC?BFBEHHHHHC@85@GBGGFDCHEHHFCFB adapterremoval-2.2.2/validation/pe/incl_adapter/multiple_input/input_2a.fastq000066400000000000000000000015501313314234200275360ustar00rootroot00000000000000@read_150_1/2 AGAAACCACAGTGACTTAAACAGAGAAAGTTTAATATAAATTTTTTAAAATTATGTTAAAAGAGCAATTATAATATATAAGTTAACTCTATGTGGTACCC + HHHFFHHHHHHGFBGHHEFBDG?B=GHHFGFHFHHHHHHHFBFHHHHHGGEEG=DGGGGCHHHHHHHGEA%5ADHHHH=G&&*>>E6,735@GG @read_150_3/2 GTCATTAACATTCACGAAGATAAATTTCTCCATTTTAAACAGAGACACTCAGTGAGCAGTAACCTGATTTTTTTTGGAATTTCATTCTTCAGGAGGGCTT + HHHHHHHHHHHHHHHHHH?GF5:@AFHHHGHFDDGGFFFHHFGHHHGGHHHHHHHHFGHFGEGC.18984>1BC=GFFAC<>E?..59&&-81:<<5.@ABCDBCE>:>@CDGHHHGEBFE/38@EEFBFGHHHHHHEGH?DHHHH>'9DEC**'*6 adapterremoval-2.2.2/validation/pe/incl_adapter/multiple_input/input_2b.fastq000066400000000000000000000015501313314234200275370ustar00rootroot00000000000000@read_150_5/2 TGGGGCCATCAGGAATTTTGCAGTGGTAATGGGGGACATTTTAGCTGAGACTTGGAAAAATGGTAGAATTTGCTCCAACATGAGGAAATATGAGCATTGA + HHHHGEGHHHHGEG;/FHHHHHHHHE;@==G=DC>DGFHHHHHHHHHHHHHHFD;>A5<(@<4 @read_150_7/2 ACTTGCACCTCTTCATCAGAGGAGCAGATCCAGGAACAGAAGTCCTGCATTTACAGGCTCTTCATATCTTGTGCCGGGTTTGGCTGCCAGGTGGCCAGCT + HHHHG=BDEDFFGGHHHHHHHHHHHHFHHFHHHCGHHHHHEBHHHHHHHHHHHHHHGEEE??6BCFHE624@7=1AFGBDHHHFFE<<.>,1349EEHHHHHHHGFHFHHHHHEHHD=:>-7@BC2BHHHHHHHGBHEFFHHGGHFGFHHEEFHFBEBEFHHFFBCA?B adapterremoval-2.2.2/validation/pe/incl_adapter/multiple_input/input_2c.fastq000066400000000000000000000006651313314234200275460ustar00rootroot00000000000000@read_150_9/2 GCCTTCCCTCTTCACTCCCTCCCTTATCCCAAACCTGCCTAGGTGGGGCTGATACAGACAGCAGGCCTGGCTCTACTTGTTTTGACAAAATATATGCCCT + GGGEBGHHHHHHHHHHHHHHHHHHHHFADHHHFHHHF?DEF@B>C;CDGEHGGHHHE@@DBFGHHHHGB>BBFEGEGHFHF8ADCFDEE4D?>H@:>DD= @read_150_10/2 TAGTCTTCTCTTTCCTGAGAATATTTTTATTGCAAATATGTAGTCATATATACGTAAGATAAGGATATTTTAAATACTACTTTAAAAGTTATTACTATAA + HHHHHHHHHHHHHHHHHHHHHHHHHHHHHFFFGHHHHHHHHHHHHEBDG>CCBB?FHFHHDEFHGDDGHHHHHH@BECHHEHGDHHHHHFHHHGEHHHHH adapterremoval-2.2.2/validation/pe/incl_adapter/multiple_input/your_output.discarded000066400000000000000000000000001313314234200312240ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/multiple_input/your_output.pair1.truncated000066400000000000000000000041471313314234200323260ustar00rootroot00000000000000@read_150_1/1 CTTGGGTACTCAGCCTTAGGGTACCACATAGAGTTATCTTATATATTATAATTGCTCTTTTAACATAATTTTAAAAAATTTATATTAAACTTTCTCTGTT + HHHFFFFBBDGGGGGHHHHHGGFCDHGEE<@;+@C792A.CEEGGFFFFDEFGFHHHH@C2;@F;EDDHFDCCC@.DEEEG=BGEDC5>:=2@GFHHHFF @read_150_2/1 GAGTGGGCTTCATCCCTGGGATGCAAGGCTGGTTCAATATATGCAAATCAATAAATGTAATCCAGCATATAAACAGAACCAAAGA + HHHHHHHHHHHHHHHHHHHHHHHGC.@CFGHHHHHHHHFBFFHEHHHHFBGHFFFFFFHEDE@EBHHFHB<<>099BEB@=?*59 @read_150_3/1 TATGTAATGACATAACTCTTATGGGCAACTTCACAAAAACACAGAAGAAAGCCCTCCTAAAGAATGAAATTCCAAAAAAAATCAGGTTACTGCTCACTGA + HHE=EE@DBBBGHGBFGGDDDDFFFHHHHHGHHHHHHGHHHE7BFHHHHHHG@4FEHHFHHHHFHHHHHHFFFE?EGCDE>CD:9=>+*;=37::ADDHF @read_150_4/1 CTCCTATATAAAGATAGCTCTGTAAAACAGGCCAAAAAGCAGAGTGGGGTGTGGGAAGGCAGGGAAAACTGTCCAGGAATAAAGGCATGAAATGAAACAA + HHHHHHHHHHHHHHHHEG@:EEB4DFHHEHFHHHHEGFFEEFCDHEFF:+1;?GFFCFHHHHHHHHHFHBB>>BEDGCDHHHHF @read_150_5/1 TACTCACGGACAAAGAATAAATATAGCTCCTCCAGGAGCTTAATAACTCAGTGCTGTCTAAACTCCTTACACCTGATGTTGATGCCATGGTTAGATAGTT + HHFFGGFDBHHEHHHHHHHHHHHHFHHHHFHHFEEDFD8=GHFFHHDHHHCHHFDHBHD:> @read_150_7/1 TAAGTAAGGTAGACAGCTAAGTCTAGTTTGTTCCCAGTGTTGTACCAGTCTCATCAGTGCCGTGTCTGGGTCTCACAGCCTCTGGTGTTCTATGCTGGAT + GFFEEDHHGHHHHHHHHB?GG77-/:>>@?6AC5GIB?BEBHHHHHHHHHHHHFGFHHHHHHEFEGF9?EHHHE@8BB12BEHHH @read_150_8/1 TAAAAACAAAAACCCTGATGAGAGTATTGATGTGTGCATAAACAAAGAAAAACATAATAGGAATAGAATGGTGAATTAAATTTTGTGAATTTTGGAAACC + HGGGGGHHHHHFHHGHHHHHHHEHHHHHHFHHEEHHHHHFE:/CGBHHHHHGFFGHHHHCEHEFECEFHHFEEE>CFFFCE?DEBD @read_150_10/1 TATAGATGAACTCTGATTTAGAATTTGTATAAGCTAAAGCATTATAGTAATAACTTTTAAAGTAGTATTTAAAATATCCTTATCTTACGTATATATGACT + <506@6?GHHHHGFHGFCFHHHHHHHHHHFGFF<3@C43F>AAEEFBFDFFHHHHHHHHED(0DAEBEFC?BFBEHHHHHC@85@GBGGFDCHEHHFCFB adapterremoval-2.2.2/validation/pe/incl_adapter/multiple_input/your_output.pair2.truncated000066400000000000000000000041471313314234200323270ustar00rootroot00000000000000@read_150_1/2 AGAAACCACAGTGACTTAAACAGAGAAAGTTTAATATAAATTTTTTAAAATTATGTTAAAAGAGCAATTATAATATATAAGTTAACTCTATGTGGTACCC + HHHFFHHHHHHGFBGHHEFBDG?B=GHHFGFHFHHHHHHHFBFHHHHHGGEEG=DGGGGCHHHHHHHGEA%5ADHHHH=G&&*>>1BC=GFFAC<>E?..59&&-81:<<5.@ABCDBCE>:>@CDGHHHGEBFE/38@EEFBFGHHHHHHEGH?DHHHH>'9DEC**'*6 @read_150_5/2 TGGGGCCATCAGGAATTTTGCAGTGGTAATGGGGGACATTTTAGCTGAGACTTGGAAAAATGGTAGAATTTGCTCCAACATGAGGAAATATGAGCATTGA + HHHHGEGHHHHGEG;/FHHHHHHHHE;@==G=DC>DGFHHHHHHHHHHHHHHFD;>A5<(@<4 @read_150_7/2 ACTTGCACCTCTTCATCAGAGGAGCAGATCCAGGAACAGAAGTCCTGCATTTACAGGCTCTTCATATCTTGTGCCGGGTTTGGCTGCCAGGTGGCCAGCT + HHHHG=BDEDFFGGHHHHHHHHHHHHFHHFHHHCGHHHHHEBHHHHHHHHHHHHHHGEEE??6BCFHE624@7=1AFGBDHHHFFE<<.>,1349EEHHHHHHHGFHFHHHHHEHHD=:>-7@BC2BHHHHHHHGBHEFFHHGGHFGFHHEEFHFBEBEFHHFFBCA?B @read_150_9/2 GCCTTCCCTCTTCACTCCCTCCCTTATCCCAAACCTGCCTAGGTGGGGCTGATACAGACAGCAGGCCTGGCTCTACTTGTTTTGACAAAATATATGCCCT + GGGEBGHHHHHHHHHHHHHHHHHHHHFADHHHFHHHF?DEF@B>C;CDGEHGGHHHE@@DBFGHHHHGB>BBFEGEGHFHF8ADCFDEE4D?>H@:>DD= @read_150_10/2 TAGTCTTCTCTTTCCTGAGAATATTTTTATTGCAAATATGTAGTCATATATACGTAAGATAAGGATATTTTAAATACTACTTTAAAAGTTATTACTATAA + HHHHHHHHHHHHHHHHHHHHHHHHHHHHHFFFGHHHHHHHHHHHHEBDG>CCBB?FHFHHDEFHGDDGHHHHHH@BECHHEHGDHHHHHFHHHGEHHHHH adapterremoval-2.2.2/validation/pe/incl_adapter/multiple_input/your_output.settings000066400000000000000000000046751313314234200311700ustar00rootroot00000000000000AdapterRemoval ver. 2.2.0 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 4274826581 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 10 Number of unaligned read pairs: 4 Number of well aligned read pairs: 6 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 2 Number of retained reads: 20 Number of retained nucleotides: 1970 Average length of retained reads: 98.5 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 1 1 0 0 2 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 0 0 100 9 9 0 0 18 adapterremoval-2.2.2/validation/pe/incl_adapter/multiple_input/your_output.singleton.truncated000066400000000000000000000000001313314234200332740ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/threads/000077500000000000000000000000001313314234200233345ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/threads/one/000077500000000000000000000000001313314234200241155ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/threads/one/info.json000066400000000000000000000001111313314234200257340ustar00rootroot00000000000000{ "arguments": ["--threads", "1"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/incl_adapter/threads/one/input_1.fastq000066400000000000000000000003551313314234200265370ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/pe/incl_adapter/threads/one/input_2.fastq000066400000000000000000000003551313314234200265400ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCC + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDEDBDBCBCCBBAA?ADAAA@@@>>>><=><<;<:<;87:78753420/,+)! adapterremoval-2.2.2/validation/pe/incl_adapter/threads/one/your_output.discarded000066400000000000000000000000001313314234200303650ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/threads/one/your_output.pair1.truncated000066400000000000000000000002111313314234200314530ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCT + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECC adapterremoval-2.2.2/validation/pe/incl_adapter/threads/one/your_output.pair2.truncated000066400000000000000000000002111313314234200314540ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGT + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDED adapterremoval-2.2.2/validation/pe/incl_adapter/threads/one/your_output.settings000066400000000000000000000034531313314234200303220ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 372265332 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 2 Number of retained reads: 2 Number of retained nucleotides: 100 Average length of retained reads: 50 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 1 1 0 0 2 adapterremoval-2.2.2/validation/pe/incl_adapter/threads/one/your_output.singleton.truncated000066400000000000000000000000001313314234200324350ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/threads/three/000077500000000000000000000000001313314234200244435ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/threads/three/info.json000066400000000000000000000001111313314234200262620ustar00rootroot00000000000000{ "arguments": ["--threads", "3"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/incl_adapter/threads/three/input_1.fastq000066400000000000000000000003551313314234200270650ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/pe/incl_adapter/threads/three/input_2.fastq000066400000000000000000000003551313314234200270660ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCC + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDEDBDBCBCCBBAA?ADAAA@@@>>>><=><<;<:<;87:78753420/,+)! adapterremoval-2.2.2/validation/pe/incl_adapter/threads/three/your_output.discarded000066400000000000000000000000001313314234200307130ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/threads/three/your_output.pair1.truncated000066400000000000000000000002111313314234200320010ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCT + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECC adapterremoval-2.2.2/validation/pe/incl_adapter/threads/three/your_output.pair2.truncated000066400000000000000000000002111313314234200320020ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGT + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDED adapterremoval-2.2.2/validation/pe/incl_adapter/threads/three/your_output.settings000066400000000000000000000034531313314234200306500ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 372265332 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 2 Number of retained reads: 2 Number of retained nucleotides: 100 Average length of retained reads: 50 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 1 1 0 0 2 adapterremoval-2.2.2/validation/pe/incl_adapter/threads/three/your_output.singleton.truncated000066400000000000000000000000001313314234200327630ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/threads/two/000077500000000000000000000000001313314234200241455ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/threads/two/info.json000066400000000000000000000001111313314234200257640ustar00rootroot00000000000000{ "arguments": ["--threads", "2"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/incl_adapter/threads/two/input_1.fastq000066400000000000000000000003551313314234200265670ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/pe/incl_adapter/threads/two/input_2.fastq000066400000000000000000000003551313314234200265700ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCC + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDEDBDBCBCCBBAA?ADAAA@@@>>>><=><<;<:<;87:78753420/,+)! adapterremoval-2.2.2/validation/pe/incl_adapter/threads/two/your_output.discarded000066400000000000000000000000001313314234200304150ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/threads/two/your_output.pair1.truncated000066400000000000000000000002111313314234200315030ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCT + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECC adapterremoval-2.2.2/validation/pe/incl_adapter/threads/two/your_output.pair2.truncated000066400000000000000000000002111313314234200315040ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGT + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDED adapterremoval-2.2.2/validation/pe/incl_adapter/threads/two/your_output.settings000066400000000000000000000034531313314234200303520ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 372265332 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 2 Number of retained reads: 2 Number of retained nucleotides: 100 Average length of retained reads: 50 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 1 1 0 0 2 adapterremoval-2.2.2/validation/pe/incl_adapter/threads/two/your_output.singleton.truncated000066400000000000000000000000001313314234200324650ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/trimns/000077500000000000000000000000001313314234200232165ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/trimns/excl_ns/000077500000000000000000000000001313314234200246515ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/trimns/excl_ns/info.json000066400000000000000000000001031313314234200264710ustar00rootroot00000000000000{ "arguments": ["--trimns"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/incl_adapter/trimns/excl_ns/input_1.fastq000066400000000000000000000003551313314234200272730ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/pe/incl_adapter/trimns/excl_ns/input_2.fastq000066400000000000000000000003551313314234200272740ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCC + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDEDBDBCBCCBBAA?ADAAA@@@>>>><=><<;<:<;87:78753420/,+)! adapterremoval-2.2.2/validation/pe/incl_adapter/trimns/excl_ns/your_output.discarded000066400000000000000000000000001313314234200311210ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/trimns/excl_ns/your_output.pair1.truncated000066400000000000000000000002111313314234200322070ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCT + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECC adapterremoval-2.2.2/validation/pe/incl_adapter/trimns/excl_ns/your_output.pair2.truncated000066400000000000000000000002111313314234200322100ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGT + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDED adapterremoval-2.2.2/validation/pe/incl_adapter/trimns/excl_ns/your_output.settings000066400000000000000000000034551313314234200310600ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2986012581 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 2 Number of retained reads: 2 Number of retained nucleotides: 100 Average length of retained reads: 50 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 1 1 0 0 2 adapterremoval-2.2.2/validation/pe/incl_adapter/trimns/excl_ns/your_output.singleton.truncated000066400000000000000000000000001313314234200331710ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/trimns/incl_ns/000077500000000000000000000000001313314234200246435ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/trimns/incl_ns/info.json000066400000000000000000000001031313314234200264630ustar00rootroot00000000000000{ "arguments": ["--trimns"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/incl_adapter/trimns/incl_ns/input_1.fastq000066400000000000000000000003551313314234200272650ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCNAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/pe/incl_adapter/trimns/incl_ns/input_2.fastq000066400000000000000000000003551313314234200272660ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGNNNNNNAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCC + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDEDBDBCBCCBBAA?ADAAA@@@>>>><=><<;<:<;87:78753420/,+)! adapterremoval-2.2.2/validation/pe/incl_adapter/trimns/incl_ns/your_output.discarded000066400000000000000000000000001313314234200311130ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/trimns/incl_ns/your_output.pair1.truncated000066400000000000000000000002071313314234200322060ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCC + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDEC adapterremoval-2.2.2/validation/pe/incl_adapter/trimns/incl_ns/your_output.pair2.truncated000066400000000000000000000001751313314234200322130ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAG + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBE adapterremoval-2.2.2/validation/pe/incl_adapter/trimns/incl_ns/your_output.settings000066400000000000000000000034411313314234200310450ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3028896355 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 2 Number of retained reads: 2 Number of retained nucleotides: 93 Average length of retained reads: 46.5 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 1 0 0 1 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 1 0 0 0 1 adapterremoval-2.2.2/validation/pe/incl_adapter/trimns/incl_ns/your_output.singleton.truncated000066400000000000000000000000001313314234200331630ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/trimqualities/000077500000000000000000000000001313314234200245765ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/trimqualities/default/000077500000000000000000000000001313314234200262225ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/trimqualities/default/info.json000066400000000000000000000001121313314234200300420ustar00rootroot00000000000000{ "arguments": ["--trimqualities"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/incl_adapter/trimqualities/default/input_1.fastq000066400000000000000000000003551313314234200306440ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/pe/incl_adapter/trimqualities/default/input_2.fastq000066400000000000000000000003551313314234200306450ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCC + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDEDBDBCBCCBBAA?ADAAA@@@>>>><=><<;<:<;87:78753420/,+)! adapterremoval-2.2.2/validation/pe/incl_adapter/trimqualities/default/your_output.discarded000066400000000000000000000000001313314234200324720ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/trimqualities/default/your_output.pair1.truncated000066400000000000000000000002111313314234200335600ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCT + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECC adapterremoval-2.2.2/validation/pe/incl_adapter/trimqualities/default/your_output.pair2.truncated000066400000000000000000000002111313314234200335610ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGT + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDED adapterremoval-2.2.2/validation/pe/incl_adapter/trimqualities/default/your_output.settings000066400000000000000000000034551313314234200324310ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3078066396 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: Yes Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 2 Number of retained reads: 2 Number of retained nucleotides: 100 Average length of retained reads: 50 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 1 1 0 0 2 your_output.singleton.truncated000066400000000000000000000000001313314234200344630ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/trimqualities/defaultadapterremoval-2.2.2/validation/pe/incl_adapter/trimqualities/minq35/000077500000000000000000000000001313314234200257125ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/trimqualities/minq35/info.json000066400000000000000000000001401313314234200275330ustar00rootroot00000000000000{ "arguments": ["--trimqualities", "--minquality", "35"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/incl_adapter/trimqualities/minq35/input_1.fastq000066400000000000000000000003551313314234200303340ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/pe/incl_adapter/trimqualities/minq35/input_2.fastq000066400000000000000000000003551313314234200303350ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATGTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCC + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDEDBDBCBCCBBAA?ADAAA@@@>>>><=><<;<:<;87:78753420/,+)! adapterremoval-2.2.2/validation/pe/incl_adapter/trimqualities/minq35/your_output.discarded000066400000000000000000000000001313314234200321620ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/incl_adapter/trimqualities/minq35/your_output.pair1.truncated000066400000000000000000000002051313314234200332530ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGC + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDE adapterremoval-2.2.2/validation/pe/incl_adapter/trimqualities/minq35/your_output.pair2.truncated000066400000000000000000000002071313314234200332560ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/2 data meta AGGCCTCCTAGGGAGAGGAGGGTGGATGGAATTAAGGGTGTTAGTCATG + JIHJJIJJJJJIHIHJHJHHJFGIHHHGHGGEGFIHEEDEEFBEDFEDE adapterremoval-2.2.2/validation/pe/incl_adapter/trimqualities/minq35/your_output.settings000066400000000000000000000034421313314234200321150ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3153498613 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 35: Yes Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 2 Number of retained reads: 2 Number of retained nucleotides: 97 Average length of retained reads: 48.5 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 1 0 0 0 1 49 0 1 0 0 1 adapterremoval-2.2.2/validation/pe/incl_adapter/trimqualities/minq35/your_output.singleton.truncated000066400000000000000000000000001313314234200342320ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/only_adapter/000077500000000000000000000000001313314234200217365ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/only_adapter/collapse/000077500000000000000000000000001313314234200235405ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/only_adapter/collapse/info.json000066400000000000000000000001051313314234200253620ustar00rootroot00000000000000{ "arguments": ["--collapse"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/only_adapter/collapse/input_1.fastq000066400000000000000000000003551313314234200261620ustar00rootroot00000000000000@CTTTGTSeq_1_14286_0/1 meta data AGATCGGAAGAGCACACGTCTGAACTCCATTCACCTTTGTATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + JGIJJJIJIJJGJGJIHHHGGIGIHGHGGGHEHEGFDFGEEEEGCFDDCCECDCBBCBBACCAA@BACB?>>>>?;=<;=<<::;:9777664010.-)! adapterremoval-2.2.2/validation/pe/only_adapter/collapse/input_2.fastq000066400000000000000000000003551313314234200261630ustar00rootroot00000000000000@CTTTGTSeq_1_14286_0/2 data meta AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT + JJJJJJHJIHHHHJJHIHJIGHIJHHIGHFHDFFGFFFGEDDFCDEDDEDCCCEDDBBB@CCAABA@@>@?>>?=?>=<;;<:99:7974554410-*'" adapterremoval-2.2.2/validation/pe/only_adapter/collapse/your_output.collapsed000066400000000000000000000000001313314234200300340ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/only_adapter/collapse/your_output.collapsed.truncated000066400000000000000000000000001313314234200320240ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/only_adapter/collapse/your_output.discarded000066400000000000000000000000451313314234200300210ustar00rootroot00000000000000@M_CTTTGTSeq_1_14286_0 meta data + adapterremoval-2.2.2/validation/pe/only_adapter/collapse/your_output.pair1.truncated000066400000000000000000000000001313314234200310720ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/only_adapter/collapse/your_output.pair2.truncated000066400000000000000000000000001313314234200310730ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/only_adapter/collapse/your_output.settings000066400000000000000000000024311313314234200277400ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 416750178 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: Yes Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 2 Number of full-length collapsed pairs: 0 Number of truncated collapsed pairs: 0 Number of retained reads: 0 Number of retained nucleotides: 0 Average length of retained reads: 0 [Length distribution] Length Mate1 Mate2 Singleton Collapsed CollapsedTruncated Discarded All 0 0 0 0 0 0 1 1 adapterremoval-2.2.2/validation/pe/only_adapter/collapse/your_output.singleton.truncated000066400000000000000000000000001313314234200320600ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/only_adapter/combined_output/000077500000000000000000000000001313314234200251365ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/only_adapter/combined_output/collapse/000077500000000000000000000000001313314234200267405ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/only_adapter/combined_output/collapse/info.json000066400000000000000000000001321313314234200305620ustar00rootroot00000000000000{ "arguments": ["--combined-output", "--collapse"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/only_adapter/combined_output/collapse/input_1.fastq000066400000000000000000000003551313314234200313620ustar00rootroot00000000000000@CTTTGTSeq_1_14286_0/1 meta data AGATCGGAAGAGCACACGTCTGAACTCCATTCACCTTTGTATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + JGIJJJIJIJJGJGJIHHHGGIGIHGHGGGHEHEGFDFGEEEEGCFDDCCECDCBBCBBACCAA@BACB?>>>>?;=<;=<<::;:9777664010.-)! adapterremoval-2.2.2/validation/pe/only_adapter/combined_output/collapse/input_2.fastq000066400000000000000000000003551313314234200313630ustar00rootroot00000000000000@CTTTGTSeq_1_14286_0/2 data meta AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT + JJJJJJHJIHHHHJJHIHJIGHIJHHIGHFHDFFGFFFGEDDFCDEDDEDCCCEDDBBB@CCAABA@@>@?>>?=?>=<;;<:99:7974554410-*'" adapterremoval-2.2.2/validation/pe/only_adapter/combined_output/collapse/your_output.pair1.truncated000066400000000000000000000000511313314234200343000ustar00rootroot00000000000000@M_CTTTGTSeq_1_14286_0/1 meta data N + ! adapterremoval-2.2.2/validation/pe/only_adapter/combined_output/collapse/your_output.pair2.truncated000066400000000000000000000000511313314234200343010ustar00rootroot00000000000000@M_CTTTGTSeq_1_14286_0/2 data meta N + ! adapterremoval-2.2.2/validation/pe/only_adapter/combined_output/collapse/your_output.settings000066400000000000000000000024311313314234200331400ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 416750178 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: Yes Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 2 Number of full-length collapsed pairs: 0 Number of truncated collapsed pairs: 0 Number of retained reads: 0 Number of retained nucleotides: 0 Average length of retained reads: 0 [Length distribution] Length Mate1 Mate2 Singleton Collapsed CollapsedTruncated Discarded All 0 0 0 0 0 0 1 1 adapterremoval-2.2.2/validation/pe/only_adapter/combined_output/defaults/000077500000000000000000000000001313314234200267455ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/only_adapter/combined_output/defaults/info.json000066400000000000000000000001141313314234200305670ustar00rootroot00000000000000{ "arguments": ["--combined-output"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/only_adapter/combined_output/defaults/input_1.fastq000066400000000000000000000003551313314234200313670ustar00rootroot00000000000000@CTTTGTSeq_1_14286_0/1 meta data AGATCGGAAGAGCACACGTCTGAACTCCATTCACCTTTGTATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + JGIJJJIJIJJGJGJIHHHGGIGIHGHGGGHEHEGFDFGEEEEGCFDDCCECDCBBCBBACCAA@BACB?>>>>?;=<;=<<::;:9777664010.-)! adapterremoval-2.2.2/validation/pe/only_adapter/combined_output/defaults/input_2.fastq000066400000000000000000000003551313314234200313700ustar00rootroot00000000000000@CTTTGTSeq_1_14286_0/2 data meta AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT + JJJJJJHJIHHHHJJHIHJIGHIJHHIGHFHDFFGFFFGEDDFCDEDDEDCCCEDDBBB@CCAABA@@>@?>>?=?>=<;;<:99:7974554410-*'" adapterremoval-2.2.2/validation/pe/only_adapter/combined_output/defaults/your_output.pair1.truncated000066400000000000000000000000471313314234200343120ustar00rootroot00000000000000@CTTTGTSeq_1_14286_0/1 meta data N + ! adapterremoval-2.2.2/validation/pe/only_adapter/combined_output/defaults/your_output.pair2.truncated000066400000000000000000000000471313314234200343130ustar00rootroot00000000000000@CTTTGTSeq_1_14286_0/2 data meta N + ! adapterremoval-2.2.2/validation/pe/only_adapter/combined_output/defaults/your_output.settings000066400000000000000000000022471313314234200331520ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 688407609 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 2 Number of retained reads: 0 Number of retained nucleotides: 0 Average length of retained reads: 0 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 2 2 adapterremoval-2.2.2/validation/pe/only_adapter/crlf_newlines/000077500000000000000000000000001313314234200245705ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/only_adapter/crlf_newlines/info.json000066400000000000000000000000711313314234200264140ustar00rootroot00000000000000{ "arguments": [], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/only_adapter/crlf_newlines/input_1.fastq000066400000000000000000000003611313314234200272070ustar00rootroot00000000000000@CTTTGTSeq_1_14286_0/1 meta data AGATCGGAAGAGCACACGTCTGAACTCCATTCACCTTTGTATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + JGIJJJIJIJJGJGJIHHHGGIGIHGHGGGHEHEGFDFGEEEEGCFDDCCECDCBBCBBACCAA@BACB?>>>>?;=<;=<<::;:9777664010.-)! adapterremoval-2.2.2/validation/pe/only_adapter/crlf_newlines/input_2.fastq000066400000000000000000000003611313314234200272100ustar00rootroot00000000000000@CTTTGTSeq_1_14286_0/2 data meta AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT + JJJJJJHJIHHHHJJHIHJIGHIJHHIGHFHDFFGFFFGEDDFCDEDDEDCCCEDDBBB@CCAABA@@>@?>>?=?>=<;;<:99:7974554410-*'" adapterremoval-2.2.2/validation/pe/only_adapter/crlf_newlines/your_output.discarded000066400000000000000000000001121313314234200310440ustar00rootroot00000000000000@CTTTGTSeq_1_14286_0/1 meta data + @CTTTGTSeq_1_14286_0/2 data meta + adapterremoval-2.2.2/validation/pe/only_adapter/crlf_newlines/your_output.pair1.truncated000066400000000000000000000000001313314234200321220ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/only_adapter/crlf_newlines/your_output.pair2.truncated000066400000000000000000000000001313314234200321230ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/only_adapter/crlf_newlines/your_output.settings000066400000000000000000000022471313314234200307750ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 861004460 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 2 Number of retained reads: 0 Number of retained nucleotides: 0 Average length of retained reads: 0 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 2 2 adapterremoval-2.2.2/validation/pe/only_adapter/crlf_newlines/your_output.singleton.truncated000066400000000000000000000000001313314234200331100ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/only_adapter/defaults/000077500000000000000000000000001313314234200235455ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/only_adapter/defaults/info.json000066400000000000000000000000711313314234200253710ustar00rootroot00000000000000{ "arguments": [], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/only_adapter/defaults/input_1.fastq000066400000000000000000000003551313314234200261670ustar00rootroot00000000000000@CTTTGTSeq_1_14286_0/1 meta data AGATCGGAAGAGCACACGTCTGAACTCCATTCACCTTTGTATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + JGIJJJIJIJJGJGJIHHHGGIGIHGHGGGHEHEGFDFGEEEEGCFDDCCECDCBBCBBACCAA@BACB?>>>>?;=<;=<<::;:9777664010.-)! adapterremoval-2.2.2/validation/pe/only_adapter/defaults/input_2.fastq000066400000000000000000000003551313314234200261700ustar00rootroot00000000000000@CTTTGTSeq_1_14286_0/2 data meta AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT + JJJJJJHJIHHHHJJHIHJIGHIJHHIGHFHDFFGFFFGEDDFCDEDDEDCCCEDDBBB@CCAABA@@>@?>>?=?>=<;;<:99:7974554410-*'" adapterremoval-2.2.2/validation/pe/only_adapter/defaults/your_output.discarded000066400000000000000000000001121313314234200300210ustar00rootroot00000000000000@CTTTGTSeq_1_14286_0/1 meta data + @CTTTGTSeq_1_14286_0/2 data meta + adapterremoval-2.2.2/validation/pe/only_adapter/defaults/your_output.pair1.truncated000066400000000000000000000000001313314234200310770ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/only_adapter/defaults/your_output.pair2.truncated000066400000000000000000000000001313314234200311000ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/only_adapter/defaults/your_output.settings000066400000000000000000000022471313314234200277520ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 861004460 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 2 Number of retained reads: 0 Number of retained nucleotides: 0 Average length of retained reads: 0 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 2 2 adapterremoval-2.2.2/validation/pe/only_adapter/defaults/your_output.singleton.truncated000066400000000000000000000000001313314234200320650ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/only_adapter/minlength/000077500000000000000000000000001313314234200237235ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/only_adapter/minlength/info.json000066400000000000000000000001131313314234200255440ustar00rootroot00000000000000{ "arguments": ["--minlength", "0"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/pe/only_adapter/minlength/input_1.fastq000066400000000000000000000003551313314234200263450ustar00rootroot00000000000000@CTTTGTSeq_1_14286_0/1 meta data AGATCGGAAGAGCACACGTCTGAACTCCATTCACCTTTGTATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + JGIJJJIJIJJGJGJIHHHGGIGIHGHGGGHEHEGFDFGEEEEGCFDDCCECDCBBCBBACCAA@BACB?>>>>?;=<;=<<::;:9777664010.-)! adapterremoval-2.2.2/validation/pe/only_adapter/minlength/input_2.fastq000066400000000000000000000003551313314234200263460ustar00rootroot00000000000000@CTTTGTSeq_1_14286_0/2 data meta AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT + JJJJJJHJIHHHHJJHIHJIGHIJHHIGHFHDFFGFFFGEDDFCDEDDEDCCCEDDBBB@CCAABA@@>@?>>?=?>=<;;<:99:7974554410-*'" adapterremoval-2.2.2/validation/pe/only_adapter/minlength/your_output.discarded000066400000000000000000000000001313314234200301730ustar00rootroot00000000000000adapterremoval-2.2.2/validation/pe/only_adapter/minlength/your_output.pair1.truncated000066400000000000000000000000451313314234200312660ustar00rootroot00000000000000@CTTTGTSeq_1_14286_0/1 meta data + adapterremoval-2.2.2/validation/pe/only_adapter/minlength/your_output.pair2.truncated000066400000000000000000000000451313314234200312670ustar00rootroot00000000000000@CTTTGTSeq_1_14286_0/2 data meta + adapterremoval-2.2.2/validation/pe/only_adapter/minlength/your_output.settings000066400000000000000000000022461313314234200301270ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 934075502 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 0 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of discarded mate 2 reads: 0 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 2 Number of retained reads: 2 Number of retained nucleotides: 0 Average length of retained reads: 0 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 1 1 0 0 2 adapterremoval-2.2.2/validation/pe/only_adapter/minlength/your_output.singleton.truncated000066400000000000000000000000001313314234200322430ustar00rootroot00000000000000adapterremoval-2.2.2/validation/run000077500000000000000000000441041313314234200174060ustar00rootroot00000000000000#!/usr/bin/python # -*- coding: utf-8 -*- # Copyright (c) 2016 Mikkel Schubert # # Permission is hereby granted, free of charge, to any person obtaining a copy # of this software and associated documentation files (the "Software"), to deal # in the Software without restriction, including without limitation the rights # to use, copy, modify, merge, publish, distribute, sublicense, and/or sell # copies of the Software, and to permit persons to whom the Software is # furnished to do so, subject to the following conditions: # # The above copyright notice and this permission notice shall be included in # all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR # IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, # FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE # AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER # LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE # SOFTWARE. from __future__ import print_function import argparse import bz2 import cStringIO import difflib import gzip import json import os import re import subprocess import sys import tempfile import types ############################################################################# _COLORS_ENABLED = True def _do_print_color(*vargs, **kwargs): """Utility function: Prints using shell colors.""" colorcode = kwargs.pop("colorcode") destination = kwargs.pop("file", sys.stdout) # No colors if output is redirected (e.g. less, file, etc.) if _COLORS_ENABLED and destination.isatty(): vargs = list(vargs) for (index, varg) in enumerate(vargs): varg_lines = [] # Newlines terminate the color-code for e.g. 'less', so ensure that # each line is color-coded, while preserving the list of arguments for line in str(varg).split("\n"): varg_lines.append("\033[00;%im%s\033[00m" % (colorcode, line)) vargs[index] = "\n".join(varg_lines) print(*vargs, file=destination, **kwargs) if '\n' in kwargs.get('end', '\n'): destination.flush() def print_ok(*vargs, **kwargs): """Equivalent to print, but prints using shell colorcodes (green).""" _do_print_color(*vargs, colorcode=32, **kwargs) def print_err(*vargs, **kwargs): """Equivalent to print, but prints using shell colorcodes (red).""" _do_print_color(*vargs, colorcode=31, **kwargs) ############################################################################# UNCOMPRESSED, GZIP, BZIP2 = "raw", "gz", "bz2" def compress(value, compression): fileobj = cStringIO.StringIO() if compression == GZIP: handle = gzip.GzipFile('', 'w', 9, fileobj) handle.write(value) handle.close() return fileobj.getvalue() elif compression == BZIP2: return bz2.compress(value) else: assert False, compression def decompress(filename): with open(filename) as handle: value = handle.read() if value and filename.endswith(".bz2"): if not value.startswith("BZ"): raise TestError("Expected bz2 file at %r, but header is %r" % (filename, value[:2])) value = bz2.decompress(value) elif value and filename.endswith(".gz"): if not value.startswith("\x1f\x8b"): raise TestError("Expected gzip file at %r, but header is %r" % (filename, value[:2])) fileobj = cStringIO.StringIO(value) handle = gzip.GzipFile('', 'r', 9, fileobj) value = handle.read() return cStringIO.StringIO(value).readlines() ############################################################################# _EXEC = './build/AdapterRemoval' _INFO_FILE = "info.json" _INFO_FIELDS = { 'arguments': types.ListType, 'return_code': types.IntType, 'stderr': types.ListType, } def pretty_output(s, padding=0, max_lines=float("inf")): padding = " " * padding lines = s.split("\n") if len(lines) > max_lines: lines = lines[:max_lines] lines.append("...") result = [] for line in lines: result.append("%s> %s" % (padding, line)) return "\n".join(result) def interleave(texts_1, texts_2): files = [] for text_1, text_2 in zip(texts_1, texts_2): lines_1 = text_1.split("\n") lines_2 = text_2.split("\n") iters = (iter(lines_1).next, iter(lines_2).next) assert len(lines_1) == len(lines_2) result = [] while True: try: for it in iters: for _ in xrange(4): result.append(it()) except StopIteration: break files.append("\n".join(result)) return files class TestError(StandardError): pass class TestCase(object): def __init__(self, root, path): self.root = root self.path = path self.name = " :: ".join(path) self._files = self._collect_files(root) self._info = self._read_info(os.path.join(root, _INFO_FILE)) def __repr__(self): return "TestCase(%r)" % ({'root': self.root, 'name': self.name, 'info': self._info, 'files': self._files}) def run(self, root): root = os.path.join(root, *self.path) interleaved_tests = [False] if self._is_properly_paired(): interleaved_tests.append(True) for in_compression in (UNCOMPRESSED, GZIP, BZIP2): for out_compression in (UNCOMPRESSED, GZIP, BZIP2): for interleaved in interleaved_tests: yield "%s>%s%s" % (in_compression, out_compression, ",intl" if interleaved else "") postfix = "%s_%s%s" % (in_compression, out_compression, "_intl" if interleaved else "") self._do_run(os.path.join(root, postfix), in_compression, out_compression, interleaved) def _do_run(self, root, in_compression=UNCOMPRESSED, out_compression=UNCOMPRESSED, interleaved=False): assert in_compression in (UNCOMPRESSED, BZIP2, GZIP) assert out_compression in (UNCOMPRESSED, BZIP2, GZIP) os.makedirs(root) input_1, input_2 = self._setup_input(root, in_compression, interleaved) self._do_call(root, input_1, input_2, out_compression, interleaved) self._check_file_creation(root, input_1, input_2, out_compression) self._check_file_contents(root, out_compression) def _setup_input(self, root, compression, interleaved): input_files = {} for key in ("input_1", "input_2"): input_files[key] = [open(filename).read() for filename in self._files[key]] if interleaved: input_files = {"input_1": interleave(input_files["input_1"], input_files["input_2"]), "input_2": []} final_files = {} for key, values in input_files.iteritems(): filenames = [] for idx, value in enumerate(values): filename = '%s%s.fastq' % (key, chr(ord('a') + idx)) if compression != UNCOMPRESSED: filename += "." + compression value = compress(value, compression) with open(os.path.join(root, filename), "w") as handle: handle.write(value) filenames.append(filename) final_files[key] = filenames if 'barcodes' in self._files: with open(os.path.join(root, 'barcodes.txt'), 'w') as handle: handle.writelines(self._files['barcodes']) return final_files["input_1"], final_files["input_2"] def _do_call(self, root, input_1, input_2, compression, interleaved): command = self._build_command(root, input_1, input_2, compression, interleaved) with open(os.devnull, "w") as dev_null: proc = subprocess.Popen(command, stdin=dev_null, stdout=subprocess.PIPE, stderr=subprocess.PIPE, close_fds=True, preexec_fn=os.setsid, cwd=root) stdout, stderr = proc.communicate() if stdout: raise TestError("Unexpected output to STDOUT: %r" % (stdout,)) for value in self._info["stderr"]: if re.search(value, stderr) is None: raise TestError("Expected value not found in output:\n" " Searching for:\n%s\n STDERR:\n%s" % (pretty_output(value, 4), pretty_output(stderr, 4, 5))) if proc.returncode != self._info["return_code"]: raise TestError("ERROR: Expected return-code %i, but " "AdapterRemoval returned %i:\n%s" % (self._info["return_code"], proc.returncode, pretty_output(stderr, 2, 5))) def _check_file_creation(self, root, input_1, input_2, compression): expected_files = set(self._files["output"]) if 'barcodes' in self._files: expected_files.add('barcodes.txt') if compression != UNCOMPRESSED: expected_files_ = set() for value in expected_files: if not value.endswith(".settings") and value != 'barcodes.txt': expected_files_.add(value + "." + compression) else: expected_files_.add(value) expected_files = expected_files_ observed_files = frozenset(os.listdir(root)) \ - frozenset(input_1) - frozenset(input_2) if expected_files - observed_files: raise TestError("ERROR: Expected output file(s) not created:\n" " Expected: %r\n Observed: %r" % (sorted(expected_files), sorted(observed_files))) elif observed_files - expected_files: raise TestError("ERROR: Unexpected output file(s) created: %r" % (sorted(observed_files - expected_files))) def _check_file_contents(self, root, compression): for filename, exp_data in sorted(self._files["output"].iteritems()): obs_filename = os.path.join(root, filename) if compression != UNCOMPRESSED: if not filename.endswith(".settings"): obs_filename += "." + compression exp_data = exp_data obs_data = decompress(obs_filename) if filename.endswith(".settings"): exp_data = self._mangle_settings(exp_data) obs_data = self._mangle_settings(obs_data) self._diff_file_pair_contents(os.path.join(self.root, filename), os.path.join(root, filename), exp_data, obs_data) def _diff_file_pair_contents(self, exp_filename, obs_filename, exp_data, obs_data): if exp_data != obs_data: lines = "".join(difflib.unified_diff(exp_data, obs_data, "expected", "observed")) raise TestError("ERROR: Output file(s) differ:\n" " Expected: %r\n Observed: %r\n Diff:\n%s" % (exp_filename, obs_filename, pretty_output(lines, 4))) def _build_command(self, root, input_1, input_2, compression, interleaved): command = [os.path.abspath(_EXEC)] if interleaved: command.append("--interleaved-input") if 'barcodes' in self._files: command.extend(('--barcode-list', 'barcodes.txt')) if input_1 or input_2: if compression == BZIP2: command.append("--bzip2") elif compression == GZIP: command.append("--gzip") if input_1: command.append('--file1') command.extend(input_1) if input_2: command.append('--file2') command.extend(input_2) command.extend(self._info['arguments']) return [field % {"ROOT": root} for field in command] def _is_properly_paired(self): input_1 = self._files["input_1"] input_2 = self._files["input_2"] return input_1 and len(input_1) == len(input_2) @classmethod def _mangle_settings(cls, handle): result = [] for line in handle: line = re.sub(r"RNG seed: [0-9]+", "RNG seed: NA", line) line = re.sub(r"AdapterRemoval ver. [0-9]+.[0-9]+.[0-9]+[a-zA-Z]?", "AdapterRemoval ver. X.Y.Z", line) # Removed keyword to allow automatic interleaved tests line = re.sub(r" interleaved paired-end reads", r" paired-end reads", line) result.append(line) return result @classmethod def _collect_files(cls, root): result = { "input_1": [], "input_2": [], "output": {}, } def read_lines(root, filename): return open(os.path.join(root, filename)).readlines() abs_root = os.path.abspath(root) for filename in sorted(os.listdir(root)): if filename.startswith("input_1"): result["input_1"].append(os.path.join(abs_root, filename)) elif filename.startswith("input_2"): result["input_2"].append(os.path.join(abs_root, filename)) elif filename not in ('info.json', 'README', 'barcodes.txt'): result["output"][filename] = read_lines(root, filename) elif filename == 'barcodes.txt': result["barcodes"] = read_lines(root, filename) return result @classmethod def _read_info(cls, filename): with open(filename) as handle: text = handle.read() raw_info = json.loads(text) if not isinstance(raw_info, types.DictType): raise TestError('\'info.json\' does not contain dictionary.') elif set(raw_info) - set(_INFO_FIELDS): raise TestError('\'info.json\' does contains unexpected fields; ' 'expected keys %r, but found keys unknown keys %r.' % (sorted(_INFO_FIELDS), sorted(set(raw_info) - set(_INFO_FIELDS)))) info = {"arguments": [], "return_code": 0, "stderr": []} info.update(raw_info) for key, expected_type in _INFO_FIELDS.items(): if not isinstance(info[key], expected_type): raise TestError('Type of %r in \'info.json\' is %s, not a %s.' % (key, type(info[key]), expected_type)) elif isinstance(info[key], types.ListType): for value in info[key]: if not isinstance(value, types.StringTypes): raise TestError('Type of value in %r in \'info.json\' ' 'is %s, not a string.' % (key, type(value))) return info @classmethod def collect(cls, root, path=()): tests = [] for filename in sorted(os.listdir(root)): filepath = os.path.join(root, filename) if os.path.isdir(filepath): tests.extend(cls.collect(filepath, path + (filename,))) elif filename == 'info.json': try: test = TestCase(root, path) except StandardError, error: print_err("ERROR: %s reading test %r: %s" % (error.__class__.__name__, ' :: '.join(path), error)) continue tests.append(test) return tests def parse_args(argv): parser = argparse.ArgumentParser() parser.add_argument('work_dir', help="Directory in which to run test-cases.") parser.add_argument('source_dir', help="Directory containing test-cases.") return parser.parse_args(argv) def main(argv): args = parse_args(argv) if not os.path.exists(_EXEC): print_err("ERROR: Executable does not exist: %r" % (_EXEC,)) return 1 print('Reading test-cases from %r' % (args.source_dir,)) tests = TestCase.collect(args.source_dir) if not os.path.exists(args.work_dir): os.makedirs(args.work_dir) args.work_dir = tempfile.mkdtemp(dir=args.work_dir) print('Writing test-cases results to %r' % (args.work_dir,)) n_failures = 0 print('\nRunning tests:') for idx, test in enumerate(tests, start=1): print(" %i of %i: %s " % (idx, len(tests), test.name), end='') label = 'unknown' try: for label in test.run(args.work_dir): print_ok(".", end="") sys.stdout.flush() except TestError, error: n_failures += 1 message = "\n ".join(str(error).split("\n")) print_err(" %s for %s:\n %s" % (error.__class__.__name__, label, message)) else: print_ok(" [OK]") if n_failures: print_err("\n%i of %i tests failed .." % (n_failures, len(tests))) else: print_ok("\nAll %i tests succeeded .." % (len(tests),)) return n_failures if __name__ == '__main__': sys.exit(main(sys.argv[1:])) adapterremoval-2.2.2/validation/se/000077500000000000000000000000001313314234200172605ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/excl_adapter/000077500000000000000000000000001313314234200217135ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/excl_adapter/collapse/000077500000000000000000000000001313314234200235155ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/excl_adapter/collapse/info.json000066400000000000000000000001051313314234200253370ustar00rootroot00000000000000{ "arguments": ["--collapse"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/se/excl_adapter/collapse/input_1.fastq000066400000000000000000000003561313314234200261400ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/se/excl_adapter/collapse/your_output.collapsed000066400000000000000000000000001313314234200300110ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/excl_adapter/collapse/your_output.collapsed.truncated000066400000000000000000000000001313314234200320010ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/excl_adapter/collapse/your_output.discarded000066400000000000000000000000001313314234200277650ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/excl_adapter/collapse/your_output.settings000066400000000000000000000047321313314234200277230ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 4051235691 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: Yes Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 1 Number of unaligned reads: 1 Number of well aligned reads: 0 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 1 Number of reads with adapters[1]: 0 Number of full-length collapsed pairs: 0 Number of truncated collapsed pairs: 0 Number of retained reads: 1 Number of retained nucleotides: 100 Average length of retained reads: 100 [Length distribution] Length Mate1 Collapsed CollapsedTruncated Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 0 0 100 1 0 0 0 1 adapterremoval-2.2.2/validation/se/excl_adapter/collapse/your_output.truncated000066400000000000000000000003561313314234200300520ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/se/excl_adapter/combined_output/000077500000000000000000000000001313314234200251135ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/excl_adapter/combined_output/collapse/000077500000000000000000000000001313314234200267155ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/excl_adapter/combined_output/collapse/info.json000066400000000000000000000001461313314234200305440ustar00rootroot00000000000000{ "arguments": ["--combined-output", "--collapse"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/se/excl_adapter/combined_output/collapse/input_1.fastq000066400000000000000000000003561313314234200313400ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/se/excl_adapter/combined_output/collapse/your_output.settings000066400000000000000000000047321313314234200331230ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 4051235691 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: Yes Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 1 Number of unaligned reads: 1 Number of well aligned reads: 0 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 1 Number of reads with adapters[1]: 0 Number of full-length collapsed pairs: 0 Number of truncated collapsed pairs: 0 Number of retained reads: 1 Number of retained nucleotides: 100 Average length of retained reads: 100 [Length distribution] Length Mate1 Collapsed CollapsedTruncated Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 0 0 0 0 51 0 0 0 0 0 52 0 0 0 0 0 53 0 0 0 0 0 54 0 0 0 0 0 55 0 0 0 0 0 56 0 0 0 0 0 57 0 0 0 0 0 58 0 0 0 0 0 59 0 0 0 0 0 60 0 0 0 0 0 61 0 0 0 0 0 62 0 0 0 0 0 63 0 0 0 0 0 64 0 0 0 0 0 65 0 0 0 0 0 66 0 0 0 0 0 67 0 0 0 0 0 68 0 0 0 0 0 69 0 0 0 0 0 70 0 0 0 0 0 71 0 0 0 0 0 72 0 0 0 0 0 73 0 0 0 0 0 74 0 0 0 0 0 75 0 0 0 0 0 76 0 0 0 0 0 77 0 0 0 0 0 78 0 0 0 0 0 79 0 0 0 0 0 80 0 0 0 0 0 81 0 0 0 0 0 82 0 0 0 0 0 83 0 0 0 0 0 84 0 0 0 0 0 85 0 0 0 0 0 86 0 0 0 0 0 87 0 0 0 0 0 88 0 0 0 0 0 89 0 0 0 0 0 90 0 0 0 0 0 91 0 0 0 0 0 92 0 0 0 0 0 93 0 0 0 0 0 94 0 0 0 0 0 95 0 0 0 0 0 96 0 0 0 0 0 97 0 0 0 0 0 98 0 0 0 0 0 99 0 0 0 0 0 100 1 0 0 0 1 adapterremoval-2.2.2/validation/se/excl_adapter/combined_output/collapse/your_output.truncated000066400000000000000000000003561313314234200332520ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/se/excl_adapter/combined_output/discarded/000077500000000000000000000000001313314234200270355ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/excl_adapter/combined_output/discarded/info.json000066400000000000000000000001421313314234200306600ustar00rootroot00000000000000{ "arguments": ["--combined-output", "--minlength", "999"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/se/excl_adapter/combined_output/discarded/input_1.fastq000066400000000000000000000003561313314234200314600ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/se/excl_adapter/combined_output/discarded/your_output.settings000066400000000000000000000037251313314234200332440ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3702281079 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 999 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 1 Number of unaligned reads: 1 Number of well aligned reads: 0 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 0 Number of retained nucleotides: 0 Average length of retained reads: 0 [Length distribution] Length Mate1 Discarded All 0 0 0 0 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 0 0 0 51 0 0 0 52 0 0 0 53 0 0 0 54 0 0 0 55 0 0 0 56 0 0 0 57 0 0 0 58 0 0 0 59 0 0 0 60 0 0 0 61 0 0 0 62 0 0 0 63 0 0 0 64 0 0 0 65 0 0 0 66 0 0 0 67 0 0 0 68 0 0 0 69 0 0 0 70 0 0 0 71 0 0 0 72 0 0 0 73 0 0 0 74 0 0 0 75 0 0 0 76 0 0 0 77 0 0 0 78 0 0 0 79 0 0 0 80 0 0 0 81 0 0 0 82 0 0 0 83 0 0 0 84 0 0 0 85 0 0 0 86 0 0 0 87 0 0 0 88 0 0 0 89 0 0 0 90 0 0 0 91 0 0 0 92 0 0 0 93 0 0 0 94 0 0 0 95 0 0 0 96 0 0 0 97 0 0 0 98 0 0 0 99 0 0 0 100 0 1 1 adapterremoval-2.2.2/validation/se/excl_adapter/combined_output/discarded/your_output.truncated000066400000000000000000000000501313314234200333610ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data N + ! adapterremoval-2.2.2/validation/se/excl_adapter/combined_output/retained/000077500000000000000000000000001313314234200267065ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/excl_adapter/combined_output/retained/info.json000066400000000000000000000001171313314234200305330ustar00rootroot00000000000000{ "arguments": ["--combined-output"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/se/excl_adapter/combined_output/retained/input_1.fastq000066400000000000000000000003561313314234200313310ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/se/excl_adapter/combined_output/retained/your_output.settings000066400000000000000000000037301313314234200331110ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3702281079 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 1 Number of unaligned reads: 1 Number of well aligned reads: 0 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 1 Number of reads with adapters[1]: 0 Number of retained reads: 1 Number of retained nucleotides: 100 Average length of retained reads: 100 [Length distribution] Length Mate1 Discarded All 0 0 0 0 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 0 0 0 51 0 0 0 52 0 0 0 53 0 0 0 54 0 0 0 55 0 0 0 56 0 0 0 57 0 0 0 58 0 0 0 59 0 0 0 60 0 0 0 61 0 0 0 62 0 0 0 63 0 0 0 64 0 0 0 65 0 0 0 66 0 0 0 67 0 0 0 68 0 0 0 69 0 0 0 70 0 0 0 71 0 0 0 72 0 0 0 73 0 0 0 74 0 0 0 75 0 0 0 76 0 0 0 77 0 0 0 78 0 0 0 79 0 0 0 80 0 0 0 81 0 0 0 82 0 0 0 83 0 0 0 84 0 0 0 85 0 0 0 86 0 0 0 87 0 0 0 88 0 0 0 89 0 0 0 90 0 0 0 91 0 0 0 92 0 0 0 93 0 0 0 94 0 0 0 95 0 0 0 96 0 0 0 97 0 0 0 98 0 0 0 99 0 0 0 100 1 0 1 adapterremoval-2.2.2/validation/se/excl_adapter/combined_output/retained/your_output.truncated000066400000000000000000000003561313314234200332430ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/se/excl_adapter/crlf_newlines/000077500000000000000000000000001313314234200245455ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/excl_adapter/crlf_newlines/info.json000066400000000000000000000000711313314234200263710ustar00rootroot00000000000000{ "arguments": [], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/se/excl_adapter/crlf_newlines/input_1.fastq000066400000000000000000000003621313314234200271650ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/se/excl_adapter/crlf_newlines/your_output.discarded000066400000000000000000000000001313314234200310150ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/excl_adapter/crlf_newlines/your_output.settings000066400000000000000000000037301313314234200307500ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3702281079 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 1 Number of unaligned reads: 1 Number of well aligned reads: 0 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 1 Number of reads with adapters[1]: 0 Number of retained reads: 1 Number of retained nucleotides: 100 Average length of retained reads: 100 [Length distribution] Length Mate1 Discarded All 0 0 0 0 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 0 0 0 51 0 0 0 52 0 0 0 53 0 0 0 54 0 0 0 55 0 0 0 56 0 0 0 57 0 0 0 58 0 0 0 59 0 0 0 60 0 0 0 61 0 0 0 62 0 0 0 63 0 0 0 64 0 0 0 65 0 0 0 66 0 0 0 67 0 0 0 68 0 0 0 69 0 0 0 70 0 0 0 71 0 0 0 72 0 0 0 73 0 0 0 74 0 0 0 75 0 0 0 76 0 0 0 77 0 0 0 78 0 0 0 79 0 0 0 80 0 0 0 81 0 0 0 82 0 0 0 83 0 0 0 84 0 0 0 85 0 0 0 86 0 0 0 87 0 0 0 88 0 0 0 89 0 0 0 90 0 0 0 91 0 0 0 92 0 0 0 93 0 0 0 94 0 0 0 95 0 0 0 96 0 0 0 97 0 0 0 98 0 0 0 99 0 0 0 100 1 0 1 adapterremoval-2.2.2/validation/se/excl_adapter/crlf_newlines/your_output.truncated000066400000000000000000000003561313314234200311020ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/se/excl_adapter/defaults/000077500000000000000000000000001313314234200235225ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/excl_adapter/defaults/info.json000066400000000000000000000000711313314234200253460ustar00rootroot00000000000000{ "arguments": [], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/se/excl_adapter/defaults/input_1.fastq000066400000000000000000000003561313314234200261450ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/se/excl_adapter/defaults/your_output.discarded000066400000000000000000000000001313314234200277720ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/excl_adapter/defaults/your_output.settings000066400000000000000000000037301313314234200277250ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3702281079 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 1 Number of unaligned reads: 1 Number of well aligned reads: 0 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 1 Number of reads with adapters[1]: 0 Number of retained reads: 1 Number of retained nucleotides: 100 Average length of retained reads: 100 [Length distribution] Length Mate1 Discarded All 0 0 0 0 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 0 0 0 51 0 0 0 52 0 0 0 53 0 0 0 54 0 0 0 55 0 0 0 56 0 0 0 57 0 0 0 58 0 0 0 59 0 0 0 60 0 0 0 61 0 0 0 62 0 0 0 63 0 0 0 64 0 0 0 65 0 0 0 66 0 0 0 67 0 0 0 68 0 0 0 69 0 0 0 70 0 0 0 71 0 0 0 72 0 0 0 73 0 0 0 74 0 0 0 75 0 0 0 76 0 0 0 77 0 0 0 78 0 0 0 79 0 0 0 80 0 0 0 81 0 0 0 82 0 0 0 83 0 0 0 84 0 0 0 85 0 0 0 86 0 0 0 87 0 0 0 88 0 0 0 89 0 0 0 90 0 0 0 91 0 0 0 92 0 0 0 93 0 0 0 94 0 0 0 95 0 0 0 96 0 0 0 97 0 0 0 98 0 0 0 99 0 0 0 100 1 0 1 adapterremoval-2.2.2/validation/se/excl_adapter/defaults/your_output.truncated000066400000000000000000000003561313314234200300570ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/se/excl_adapter/maxlength/000077500000000000000000000000001313314234200237025ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/excl_adapter/maxlength/info.json000066400000000000000000000001141313314234200255240ustar00rootroot00000000000000{ "arguments": ["--maxlength", "13"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/se/excl_adapter/maxlength/input_1.fastq000066400000000000000000000003561313314234200263250ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/se/excl_adapter/maxlength/your_output.discarded000066400000000000000000000003561313314234200301700ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/se/excl_adapter/maxlength/your_output.settings000066400000000000000000000037141313314234200301070ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1833120783 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 13 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 1 Number of unaligned reads: 1 Number of well aligned reads: 0 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 0 Number of retained nucleotides: 0 Average length of retained reads: 0 [Length distribution] Length Mate1 Discarded All 0 0 0 0 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 0 0 0 51 0 0 0 52 0 0 0 53 0 0 0 54 0 0 0 55 0 0 0 56 0 0 0 57 0 0 0 58 0 0 0 59 0 0 0 60 0 0 0 61 0 0 0 62 0 0 0 63 0 0 0 64 0 0 0 65 0 0 0 66 0 0 0 67 0 0 0 68 0 0 0 69 0 0 0 70 0 0 0 71 0 0 0 72 0 0 0 73 0 0 0 74 0 0 0 75 0 0 0 76 0 0 0 77 0 0 0 78 0 0 0 79 0 0 0 80 0 0 0 81 0 0 0 82 0 0 0 83 0 0 0 84 0 0 0 85 0 0 0 86 0 0 0 87 0 0 0 88 0 0 0 89 0 0 0 90 0 0 0 91 0 0 0 92 0 0 0 93 0 0 0 94 0 0 0 95 0 0 0 96 0 0 0 97 0 0 0 98 0 0 0 99 0 0 0 100 0 1 1 adapterremoval-2.2.2/validation/se/excl_adapter/maxlength/your_output.truncated000066400000000000000000000000001313314234200302210ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/excl_adapter/minlength/000077500000000000000000000000001313314234200237005ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/excl_adapter/minlength/info.json000066400000000000000000000001151313314234200255230ustar00rootroot00000000000000{ "arguments": ["--minlength", "999"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/se/excl_adapter/minlength/input_1.fastq000066400000000000000000000003561313314234200263230ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/se/excl_adapter/minlength/your_output.discarded000066400000000000000000000003561313314234200301660ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/se/excl_adapter/minlength/your_output.settings000066400000000000000000000037251313314234200301070ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1752967089 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 999 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 1 Number of unaligned reads: 1 Number of well aligned reads: 0 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 0 Number of retained nucleotides: 0 Average length of retained reads: 0 [Length distribution] Length Mate1 Discarded All 0 0 0 0 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 0 0 0 51 0 0 0 52 0 0 0 53 0 0 0 54 0 0 0 55 0 0 0 56 0 0 0 57 0 0 0 58 0 0 0 59 0 0 0 60 0 0 0 61 0 0 0 62 0 0 0 63 0 0 0 64 0 0 0 65 0 0 0 66 0 0 0 67 0 0 0 68 0 0 0 69 0 0 0 70 0 0 0 71 0 0 0 72 0 0 0 73 0 0 0 74 0 0 0 75 0 0 0 76 0 0 0 77 0 0 0 78 0 0 0 79 0 0 0 80 0 0 0 81 0 0 0 82 0 0 0 83 0 0 0 84 0 0 0 85 0 0 0 86 0 0 0 87 0 0 0 88 0 0 0 89 0 0 0 90 0 0 0 91 0 0 0 92 0 0 0 93 0 0 0 94 0 0 0 95 0 0 0 96 0 0 0 97 0 0 0 98 0 0 0 99 0 0 0 100 0 1 1 adapterremoval-2.2.2/validation/se/excl_adapter/minlength/your_output.truncated000066400000000000000000000000001313314234200302170ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/excl_adapter/trimns/000077500000000000000000000000001313314234200232275ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/excl_adapter/trimns/excl_ns/000077500000000000000000000000001313314234200246625ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/excl_adapter/trimns/excl_ns/info.json000066400000000000000000000001031313314234200265020ustar00rootroot00000000000000{ "arguments": ["--trimns"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/se/excl_adapter/trimns/excl_ns/input_1.fastq000066400000000000000000000003561313314234200273050ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/se/excl_adapter/trimns/excl_ns/your_output.discarded000066400000000000000000000000001313314234200311320ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/excl_adapter/trimns/excl_ns/your_output.settings000066400000000000000000000037301313314234200310650ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 217798732 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 1 Number of unaligned reads: 1 Number of well aligned reads: 0 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 1 Number of reads with adapters[1]: 0 Number of retained reads: 1 Number of retained nucleotides: 100 Average length of retained reads: 100 [Length distribution] Length Mate1 Discarded All 0 0 0 0 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 0 0 0 51 0 0 0 52 0 0 0 53 0 0 0 54 0 0 0 55 0 0 0 56 0 0 0 57 0 0 0 58 0 0 0 59 0 0 0 60 0 0 0 61 0 0 0 62 0 0 0 63 0 0 0 64 0 0 0 65 0 0 0 66 0 0 0 67 0 0 0 68 0 0 0 69 0 0 0 70 0 0 0 71 0 0 0 72 0 0 0 73 0 0 0 74 0 0 0 75 0 0 0 76 0 0 0 77 0 0 0 78 0 0 0 79 0 0 0 80 0 0 0 81 0 0 0 82 0 0 0 83 0 0 0 84 0 0 0 85 0 0 0 86 0 0 0 87 0 0 0 88 0 0 0 89 0 0 0 90 0 0 0 91 0 0 0 92 0 0 0 93 0 0 0 94 0 0 0 95 0 0 0 96 0 0 0 97 0 0 0 98 0 0 0 99 0 0 0 100 1 0 1 adapterremoval-2.2.2/validation/se/excl_adapter/trimns/excl_ns/your_output.truncated000066400000000000000000000003561313314234200312170ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/se/excl_adapter/trimns/incl_ns/000077500000000000000000000000001313314234200246545ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/excl_adapter/trimns/incl_ns/info.json000066400000000000000000000001031313314234200264740ustar00rootroot00000000000000{ "arguments": ["--trimns"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/se/excl_adapter/trimns/incl_ns/input_1.fastq000066400000000000000000000003561313314234200272770ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGNTCAACGATTAAANNNNNN + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/se/excl_adapter/trimns/incl_ns/your_output.discarded000066400000000000000000000000001313314234200311240ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/excl_adapter/trimns/incl_ns/your_output.settings000066400000000000000000000036361313314234200310640ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 87921694 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 1 Number of unaligned reads: 1 Number of well aligned reads: 0 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 1 Number of reads with adapters[1]: 0 Number of retained reads: 1 Number of retained nucleotides: 94 Average length of retained reads: 94 [Length distribution] Length Mate1 Discarded All 0 0 0 0 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 0 0 0 51 0 0 0 52 0 0 0 53 0 0 0 54 0 0 0 55 0 0 0 56 0 0 0 57 0 0 0 58 0 0 0 59 0 0 0 60 0 0 0 61 0 0 0 62 0 0 0 63 0 0 0 64 0 0 0 65 0 0 0 66 0 0 0 67 0 0 0 68 0 0 0 69 0 0 0 70 0 0 0 71 0 0 0 72 0 0 0 73 0 0 0 74 0 0 0 75 0 0 0 76 0 0 0 77 0 0 0 78 0 0 0 79 0 0 0 80 0 0 0 81 0 0 0 82 0 0 0 83 0 0 0 84 0 0 0 85 0 0 0 86 0 0 0 87 0 0 0 88 0 0 0 89 0 0 0 90 0 0 0 91 0 0 0 92 0 0 0 93 0 0 0 94 1 0 1 adapterremoval-2.2.2/validation/se/excl_adapter/trimns/incl_ns/your_output.truncated000066400000000000000000000003421313314234200312040ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGNTCAACGATTAAA + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:977775532 adapterremoval-2.2.2/validation/se/excl_adapter/trimqualities/000077500000000000000000000000001313314234200246075ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/excl_adapter/trimqualities/default/000077500000000000000000000000001313314234200262335ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/excl_adapter/trimqualities/default/info.json000066400000000000000000000001121313314234200300530ustar00rootroot00000000000000{ "arguments": ["--trimqualities"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/se/excl_adapter/trimqualities/default/input_1.fastq000066400000000000000000000003561313314234200306560ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/se/excl_adapter/trimqualities/default/your_output.discarded000066400000000000000000000000001313314234200325030ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/excl_adapter/trimqualities/default/your_output.settings000066400000000000000000000037151313314234200324410ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1434085985 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: Yes Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 1 Number of unaligned reads: 1 Number of well aligned reads: 0 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 1 Number of reads with adapters[1]: 0 Number of retained reads: 1 Number of retained nucleotides: 99 Average length of retained reads: 99 [Length distribution] Length Mate1 Discarded All 0 0 0 0 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 0 0 0 51 0 0 0 52 0 0 0 53 0 0 0 54 0 0 0 55 0 0 0 56 0 0 0 57 0 0 0 58 0 0 0 59 0 0 0 60 0 0 0 61 0 0 0 62 0 0 0 63 0 0 0 64 0 0 0 65 0 0 0 66 0 0 0 67 0 0 0 68 0 0 0 69 0 0 0 70 0 0 0 71 0 0 0 72 0 0 0 73 0 0 0 74 0 0 0 75 0 0 0 76 0 0 0 77 0 0 0 78 0 0 0 79 0 0 0 80 0 0 0 81 0 0 0 82 0 0 0 83 0 0 0 84 0 0 0 85 0 0 0 86 0 0 0 87 0 0 0 88 0 0 0 89 0 0 0 90 0 0 0 91 0 0 0 92 0 0 0 93 0 0 0 94 0 0 0 95 0 0 0 96 0 0 0 97 0 0 0 98 0 0 0 99 1 0 1 adapterremoval-2.2.2/validation/se/excl_adapter/trimqualities/default/your_output.truncated000066400000000000000000000003541313314234200325660ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCT + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)' adapterremoval-2.2.2/validation/se/excl_adapter/trimqualities/minq31/000077500000000000000000000000001313314234200257175ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/excl_adapter/trimqualities/minq31/info.json000066400000000000000000000001401313314234200275400ustar00rootroot00000000000000{ "arguments": ["--trimqualities", "--minquality", "31"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/se/excl_adapter/trimqualities/minq31/input_1.fastq000066400000000000000000000003561313314234200303420ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAAAGTCCTG + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A@@@?>>@==<=<;;;;<:9777755321/,)'! adapterremoval-2.2.2/validation/se/excl_adapter/trimqualities/minq31/your_output.discarded000066400000000000000000000000001313314234200321670ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/excl_adapter/trimqualities/minq31/your_output.settings000066400000000000000000000032561313314234200321250ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1585058107 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 31: Yes Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 1 Number of unaligned reads: 1 Number of well aligned reads: 0 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 1 Number of reads with adapters[1]: 0 Number of retained reads: 1 Number of retained nucleotides: 67 Average length of retained reads: 67 [Length distribution] Length Mate1 Discarded All 0 0 0 0 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 0 0 0 51 0 0 0 52 0 0 0 53 0 0 0 54 0 0 0 55 0 0 0 56 0 0 0 57 0 0 0 58 0 0 0 59 0 0 0 60 0 0 0 61 0 0 0 62 0 0 0 63 0 0 0 64 0 0 0 65 0 0 0 66 0 0 0 67 1 0 1 adapterremoval-2.2.2/validation/se/excl_adapter/trimqualities/minq31/your_output.truncated000066400000000000000000000002541313314234200322510ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCATATCAACAATAGGGTTTACGACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTAT + JJIJIIJIIIJJGJHGGHJJJFGHGIJHEGHFGGGFFFFFFEEEDDGDCDBECDCACBC@@CBAA@A adapterremoval-2.2.2/validation/se/incl_adapter/000077500000000000000000000000001313314234200217055ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/collapse/000077500000000000000000000000001313314234200235075ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/collapse/info.json000066400000000000000000000001051313314234200253310ustar00rootroot00000000000000{ "arguments": ["--collapse"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/se/incl_adapter/collapse/input_1.fastq000066400000000000000000000003551313314234200261310ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/se/incl_adapter/collapse/your_output.collapsed000066400000000000000000000002131313314234200300110ustar00rootroot00000000000000@M_AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCT + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECC adapterremoval-2.2.2/validation/se/incl_adapter/collapse/your_output.collapsed.truncated000066400000000000000000000000001313314234200317730ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/collapse/your_output.discarded000066400000000000000000000000001313314234200277570ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/collapse/your_output.settings000066400000000000000000000035141313314234200277120ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 566778642 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: Yes Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 1 Number of unaligned reads: 0 Number of well aligned reads: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of reads with adapters[1]: 1 Number of full-length collapsed pairs: 1 Number of truncated collapsed pairs: 0 Number of retained reads: 1 Number of retained nucleotides: 50 Average length of retained reads: 50 [Length distribution] Length Mate1 Collapsed CollapsedTruncated Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 1 0 0 1 adapterremoval-2.2.2/validation/se/incl_adapter/collapse/your_output.truncated000066400000000000000000000000001313314234200300260ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/collapse_truncated/000077500000000000000000000000001313314234200255605ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/collapse_truncated/info.json000066400000000000000000000001211313314234200274000ustar00rootroot00000000000000{ "arguments": ["--collapse", "--trimns"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/se/incl_adapter/collapse_truncated/input_1.fastq000066400000000000000000000003551313314234200302020ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCNAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/se/incl_adapter/collapse_truncated/your_output.collapsed000066400000000000000000000000001313314234200320540ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/collapse_truncated/your_output.collapsed.truncated000066400000000000000000000002121313314234200340510ustar00rootroot00000000000000@MT_AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCC + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDEC adapterremoval-2.2.2/validation/se/incl_adapter/collapse_truncated/your_output.discarded000066400000000000000000000000001313314234200320300ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/collapse_truncated/your_output.settings000066400000000000000000000035001313314234200317560ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 566778642 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: Yes Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 1 Number of unaligned reads: 0 Number of well aligned reads: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of reads with adapters[1]: 1 Number of full-length collapsed pairs: 0 Number of truncated collapsed pairs: 1 Number of retained reads: 1 Number of retained nucleotides: 49 Average length of retained reads: 49 [Length distribution] Length Mate1 Collapsed CollapsedTruncated Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 1 0 1 adapterremoval-2.2.2/validation/se/incl_adapter/collapse_truncated/your_output.truncated000066400000000000000000000000001313314234200320770ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/combined_output/000077500000000000000000000000001313314234200251055ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/combined_output/collapse/000077500000000000000000000000001313314234200267075ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/combined_output/collapse/info.json000066400000000000000000000001461313314234200305360ustar00rootroot00000000000000{ "arguments": ["--combined-output", "--collapse"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/se/incl_adapter/combined_output/collapse/input_1.fastq000066400000000000000000000003551313314234200313310ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/se/incl_adapter/combined_output/collapse/your_output.settings000066400000000000000000000035151313314234200331130ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1432823771 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: Yes Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 1 Number of unaligned reads: 0 Number of well aligned reads: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of reads with adapters[1]: 1 Number of full-length collapsed pairs: 1 Number of truncated collapsed pairs: 0 Number of retained reads: 1 Number of retained nucleotides: 50 Average length of retained reads: 50 [Length distribution] Length Mate1 Collapsed CollapsedTruncated Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 0 0 0 50 0 1 0 0 1 adapterremoval-2.2.2/validation/se/incl_adapter/combined_output/collapse/your_output.truncated000066400000000000000000000002131313314234200332340ustar00rootroot00000000000000@M_AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCT + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECC adapterremoval-2.2.2/validation/se/incl_adapter/combined_output/collapse_truncated/000077500000000000000000000000001313314234200307605ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/combined_output/collapse_truncated/info.json000066400000000000000000000001621313314234200326050ustar00rootroot00000000000000{ "arguments": ["--combined-output", "--collapse", "--trimns"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/se/incl_adapter/combined_output/collapse_truncated/input_1.fastq000066400000000000000000000003551313314234200334020ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCNAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! your_output.settings000066400000000000000000000035011313314234200351000ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/combined_output/collapse_truncatedAdapterRemoval ver. 2.1.7 Trimming of single-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1432823771 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: Yes Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 1 Number of unaligned reads: 0 Number of well aligned reads: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 0 Number of reads with adapters[1]: 1 Number of full-length collapsed pairs: 0 Number of truncated collapsed pairs: 1 Number of retained reads: 1 Number of retained nucleotides: 49 Average length of retained reads: 49 [Length distribution] Length Mate1 Collapsed CollapsedTruncated Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 0 0 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 0 0 0 31 0 0 0 0 0 32 0 0 0 0 0 33 0 0 0 0 0 34 0 0 0 0 0 35 0 0 0 0 0 36 0 0 0 0 0 37 0 0 0 0 0 38 0 0 0 0 0 39 0 0 0 0 0 40 0 0 0 0 0 41 0 0 0 0 0 42 0 0 0 0 0 43 0 0 0 0 0 44 0 0 0 0 0 45 0 0 0 0 0 46 0 0 0 0 0 47 0 0 0 0 0 48 0 0 0 0 0 49 0 0 1 0 1 your_output.truncated000066400000000000000000000002121313314234200352250ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/combined_output/collapse_truncated@MT_AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCC + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDEC adapterremoval-2.2.2/validation/se/incl_adapter/combined_output/discarded/000077500000000000000000000000001313314234200270275ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/combined_output/discarded/info.json000066400000000000000000000001421313314234200306520ustar00rootroot00000000000000{ "arguments": ["--combined-output", "--minlength", "999"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/se/incl_adapter/combined_output/discarded/input_1.fastq000066400000000000000000000003431313314234200314460ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/se/incl_adapter/combined_output/discarded/your_output.settings000066400000000000000000000030221313314234200332240ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1529034138 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 999 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 1 Number of unaligned reads: 0 Number of well aligned reads: 1 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of reads with adapters[1]: 1 Number of retained reads: 0 Number of retained nucleotides: 0 Average length of retained reads: 0 [Length distribution] Length Mate1 Discarded All 0 0 0 0 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 0 1 1 adapterremoval-2.2.2/validation/se/incl_adapter/combined_output/discarded/your_output.truncated000066400000000000000000000000351313314234200333560ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 N + ! adapterremoval-2.2.2/validation/se/incl_adapter/combined_output/retained/000077500000000000000000000000001313314234200267005ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/combined_output/retained/info.json000066400000000000000000000001171313314234200305250ustar00rootroot00000000000000{ "arguments": ["--combined-output"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/se/incl_adapter/combined_output/retained/input_1.fastq000066400000000000000000000003551313314234200313220ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/se/incl_adapter/combined_output/retained/your_output.settings000066400000000000000000000030231313314234200330760ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 1756794576 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 1 Number of unaligned reads: 0 Number of well aligned reads: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 1 Number of reads with adapters[1]: 1 Number of retained reads: 1 Number of retained nucleotides: 50 Average length of retained reads: 50 [Length distribution] Length Mate1 Discarded All 0 0 0 0 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 1 0 1 adapterremoval-2.2.2/validation/se/incl_adapter/combined_output/retained/your_output.truncated000066400000000000000000000002111313314234200332230ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCT + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECC adapterremoval-2.2.2/validation/se/incl_adapter/crlf_newlines/000077500000000000000000000000001313314234200245375ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/crlf_newlines/info.json000066400000000000000000000000711313314234200263630ustar00rootroot00000000000000{ "arguments": [], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/se/incl_adapter/crlf_newlines/input_1.fastq000066400000000000000000000003471313314234200271620ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/se/incl_adapter/crlf_newlines/your_output.discarded000066400000000000000000000000001313314234200310070ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/crlf_newlines/your_output.settings000066400000000000000000000030221313314234200307340ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 667770639 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 1 Number of unaligned reads: 0 Number of well aligned reads: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 1 Number of reads with adapters[1]: 1 Number of retained reads: 1 Number of retained nucleotides: 50 Average length of retained reads: 50 [Length distribution] Length Mate1 Discarded All 0 0 0 0 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 1 0 1 adapterremoval-2.2.2/validation/se/incl_adapter/crlf_newlines/your_output.truncated000066400000000000000000000001771313314234200310750ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCT + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECC adapterremoval-2.2.2/validation/se/incl_adapter/defaults/000077500000000000000000000000001313314234200235145ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/defaults/info.json000066400000000000000000000000711313314234200253400ustar00rootroot00000000000000{ "arguments": [], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/se/incl_adapter/defaults/input_1.fastq000066400000000000000000000003431313314234200261330ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/se/incl_adapter/defaults/your_output.discarded000066400000000000000000000000001313314234200277640ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/defaults/your_output.settings000066400000000000000000000030221313314234200277110ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 667770639 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 1 Number of unaligned reads: 0 Number of well aligned reads: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 1 Number of reads with adapters[1]: 1 Number of retained reads: 1 Number of retained nucleotides: 50 Average length of retained reads: 50 [Length distribution] Length Mate1 Discarded All 0 0 0 0 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 1 0 1 adapterremoval-2.2.2/validation/se/incl_adapter/defaults/your_output.truncated000066400000000000000000000001771313314234200300520ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCT + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECC adapterremoval-2.2.2/validation/se/incl_adapter/maxlength/000077500000000000000000000000001313314234200236745ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/maxlength/info.json000066400000000000000000000001141313314234200255160ustar00rootroot00000000000000{ "arguments": ["--maxlength", "13"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/se/incl_adapter/maxlength/input_1.fastq000066400000000000000000000003551313314234200263160ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/se/incl_adapter/maxlength/your_output.discarded000066400000000000000000000002111313314234200301500ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCT + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECC adapterremoval-2.2.2/validation/se/incl_adapter/maxlength/your_output.settings000066400000000000000000000030111313314234200300670ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2394757988 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 13 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 1 Number of unaligned reads: 0 Number of well aligned reads: 1 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of reads with adapters[1]: 1 Number of retained reads: 0 Number of retained nucleotides: 0 Average length of retained reads: 0 [Length distribution] Length Mate1 Discarded All 0 0 0 0 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 0 1 1 adapterremoval-2.2.2/validation/se/incl_adapter/maxlength/your_output.truncated000066400000000000000000000000001313314234200302130ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/minlength/000077500000000000000000000000001313314234200236725ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/minlength/info.json000066400000000000000000000001151313314234200255150ustar00rootroot00000000000000{ "arguments": ["--minlength", "999"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/se/incl_adapter/minlength/input_1.fastq000066400000000000000000000003551313314234200263140ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/se/incl_adapter/minlength/your_output.discarded000066400000000000000000000002111313314234200301460ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCT + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECC adapterremoval-2.2.2/validation/se/incl_adapter/minlength/your_output.settings000066400000000000000000000030221313314234200300670ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2314668317 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 999 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 1 Number of unaligned reads: 0 Number of well aligned reads: 1 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of reads with adapters[1]: 1 Number of retained reads: 0 Number of retained nucleotides: 0 Average length of retained reads: 0 [Length distribution] Length Mate1 Discarded All 0 0 0 0 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 0 1 1 adapterremoval-2.2.2/validation/se/incl_adapter/minlength/your_output.truncated000066400000000000000000000000001313314234200302110ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/multiple_input/000077500000000000000000000000001313314234200247575ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/multiple_input/info.json000066400000000000000000000000711313314234200266030ustar00rootroot00000000000000{ "arguments": [], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/se/incl_adapter/multiple_input/input_1a.fastq000066400000000000000000000015501313314234200275400ustar00rootroot00000000000000@read_150_1/1 CTTGGGTACTCAGCCTTAGGGTACCACATAGAGTTATCTTATATATTATAATTGCTCTTTTAACATAATTTTAAAAAATTTATATTAAACTTTCTCTGTT + HHHFFFFBBDGGGGGHHHHHGGFCDHGEE<@;+@C792A.CEEGGFFFFDEFGFHHHH@C2;@F;EDDHFDCCC@.DEEEG=BGEDC5>:=2@GFHHHFF @read_150_2/1 GAGTGGGCTTCATCCCTGGGATGCAAGGCTGGTTCAATATATGCAAATCAATAAATGTAATCCAGCATATAAACAGAACCAAAGAAGATCGGAAGAGCAC + HHHHHHHHHHHHHHHHHHHHHHHGC.@CFGHHHHHHHHFBFFHEHHHHFBGHFFFFFFHEDE@EBHHFHB<<>099BEB@=?*59/''.CCFHFHHHHHH @read_150_3/1 TATGTAATGACATAACTCTTATGGGCAACTTCACAAAAACACAGAAGAAAGCCCTCCTAAAGAATGAAATTCCAAAAAAAATCAGGTTACTGCTCACTGA + HHE=EE@DBBBGHGBFGGDDDDFFFHHHHHGHHHHHHGHHHE7BFHHHHHHG@4FEHHFHHHHFHHHHHHFFFE?EGCDE>CD:9=>+*;=37::ADDHF @read_150_4/1 CTCCTATATAAAGATAGCTCTGTAAAACAGGCCAAAAAGCAGAGTGGGGTGTGGGAAGGCAGGGAAAACTGTCCAGGAATAAAGGCATGAAATGAAACAA + HHHHHHHHHHHHHHHHEG@:EEB4DFHHEHFHHHHEGFFEEFCDHEFF:+1;?GFFCFHHHHHHHHHFHBB>>BEDGCDHHHHF adapterremoval-2.2.2/validation/se/incl_adapter/multiple_input/input_1b.fastq000066400000000000000000000015501313314234200275410ustar00rootroot00000000000000@read_150_5/1 TACTCACGGACAAAGAATAAATATAGCTCCTCCAGGAGCTTAATAACTCAGTGCTGTCTAAACTCCTTACACCTGATGTTGATGCCATGGTTAGATAGTT + HHFFGGFDBHHEHHHHHHHHHHHHFHHHHFHHFEEDFD8=GHFFHHDHHHCHHFDHBHD:> @read_150_7/1 TAAGTAAGGTAGACAGCTAAGTCTAGTTTGTTCCCAGTGTTGTACCAGTCTCATCAGTGCCGTGTCTGGGTCTCACAGCCTCTGGTGTTCTATGCTGGAT + GFFEEDHHGHHHHHHHHB?GG77-/:>>@?6AC5GIB?BEBHHHHHHHHHHHHFGFHHHHHHEFEGF9?EHHHE@8BB12BEHHH @read_150_8/1 TAAAAACAAAAACCCTGATGAGAGTATTGATGTGTGCATAAACAAAGAAAAACATAATAGGAATAGAATGGTGAATTAAATTTTGTGAATTTTGGAAACC + HGGGGGHHHHHFHHGHHHHHHHEHHHHHHFHHEEHHHHHFE:/CGBHHHHHGFFGHHHHCEHEFECEFHHFEEE>CFFFCE?DEBD @read_150_10/1 TATAGATGAACTCTGATTTAGAATTTGTATAAGCTAAAGCATTATAGTAATAACTTTTAAAGTAGTATTTAAAATATCCTTATCTTACGTATATATGACT + <506@6?GHHHHGFHGFCFHHHHHHHHHHFGFF<3@C43F>AAEEFBFDFFHHHHHHHHED(0DAEBEFC?BFBEHHHHHC@85@GBGGFDCHEHHFCFB adapterremoval-2.2.2/validation/se/incl_adapter/multiple_input/your_output.discarded000066400000000000000000000000001313314234200312270ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/multiple_input/your_output.settings000066400000000000000000000037321313314234200311640ustar00rootroot00000000000000AdapterRemoval ver. 2.2.0 Trimming of single-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 35713051 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 10 Number of unaligned reads: 8 Number of well aligned reads: 2 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 10 Number of reads with adapters[1]: 2 Number of retained reads: 10 Number of retained nucleotides: 984 Average length of retained reads: 98.4 [Length distribution] Length Mate1 Discarded All 0 0 0 0 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 0 0 0 51 0 0 0 52 0 0 0 53 0 0 0 54 0 0 0 55 0 0 0 56 0 0 0 57 0 0 0 58 0 0 0 59 0 0 0 60 0 0 0 61 0 0 0 62 0 0 0 63 0 0 0 64 0 0 0 65 0 0 0 66 0 0 0 67 0 0 0 68 0 0 0 69 0 0 0 70 0 0 0 71 0 0 0 72 0 0 0 73 0 0 0 74 0 0 0 75 0 0 0 76 0 0 0 77 0 0 0 78 0 0 0 79 0 0 0 80 0 0 0 81 0 0 0 82 0 0 0 83 0 0 0 84 0 0 0 85 1 0 1 86 0 0 0 87 0 0 0 88 0 0 0 89 0 0 0 90 0 0 0 91 0 0 0 92 0 0 0 93 0 0 0 94 0 0 0 95 0 0 0 96 0 0 0 97 0 0 0 98 0 0 0 99 1 0 1 100 8 0 8 adapterremoval-2.2.2/validation/se/incl_adapter/multiple_input/your_output.truncated000066400000000000000000000041451313314234200313140ustar00rootroot00000000000000@read_150_1/1 CTTGGGTACTCAGCCTTAGGGTACCACATAGAGTTATCTTATATATTATAATTGCTCTTTTAACATAATTTTAAAAAATTTATATTAAACTTTCTCTGTT + HHHFFFFBBDGGGGGHHHHHGGFCDHGEE<@;+@C792A.CEEGGFFFFDEFGFHHHH@C2;@F;EDDHFDCCC@.DEEEG=BGEDC5>:=2@GFHHHFF @read_150_2/1 GAGTGGGCTTCATCCCTGGGATGCAAGGCTGGTTCAATATATGCAAATCAATAAATGTAATCCAGCATATAAACAGAACCAAAGA + HHHHHHHHHHHHHHHHHHHHHHHGC.@CFGHHHHHHHHFBFFHEHHHHFBGHFFFFFFHEDE@EBHHFHB<<>099BEB@=?*59 @read_150_3/1 TATGTAATGACATAACTCTTATGGGCAACTTCACAAAAACACAGAAGAAAGCCCTCCTAAAGAATGAAATTCCAAAAAAAATCAGGTTACTGCTCACTGA + HHE=EE@DBBBGHGBFGGDDDDFFFHHHHHGHHHHHHGHHHE7BFHHHHHHG@4FEHHFHHHHFHHHHHHFFFE?EGCDE>CD:9=>+*;=37::ADDHF @read_150_4/1 CTCCTATATAAAGATAGCTCTGTAAAACAGGCCAAAAAGCAGAGTGGGGTGTGGGAAGGCAGGGAAAACTGTCCAGGAATAAAGGCATGAAATGAAACA + HHHHHHHHHHHHHHHHEG@:EEB4DFHHEHFHHHHEGFFEEFCDHEFF:+1;?GFFCFHHHHHHHHHFHBB>>BEDGCDHHHH @read_150_5/1 TACTCACGGACAAAGAATAAATATAGCTCCTCCAGGAGCTTAATAACTCAGTGCTGTCTAAACTCCTTACACCTGATGTTGATGCCATGGTTAGATAGTT + HHFFGGFDBHHEHHHHHHHHHHHHFHHHHFHHFEEDFD8=GHFFHHDHHHCHHFDHBHD:> @read_150_7/1 TAAGTAAGGTAGACAGCTAAGTCTAGTTTGTTCCCAGTGTTGTACCAGTCTCATCAGTGCCGTGTCTGGGTCTCACAGCCTCTGGTGTTCTATGCTGGAT + GFFEEDHHGHHHHHHHHB?GG77-/:>>@?6AC5GIB?BEBHHHHHHHHHHHHFGFHHHHHHEFEGF9?EHHHE@8BB12BEHHH @read_150_8/1 TAAAAACAAAAACCCTGATGAGAGTATTGATGTGTGCATAAACAAAGAAAAACATAATAGGAATAGAATGGTGAATTAAATTTTGTGAATTTTGGAAACC + HGGGGGHHHHHFHHGHHHHHHHEHHHHHHFHHEEHHHHHFE:/CGBHHHHHGFFGHHHHCEHEFECEFHHFEEE>CFFFCE?DEBD @read_150_10/1 TATAGATGAACTCTGATTTAGAATTTGTATAAGCTAAAGCATTATAGTAATAACTTTTAAAGTAGTATTTAAAATATCCTTATCTTACGTATATATGACT + <506@6?GHHHHGFHGFCFHHHHHHHHHHFGFF<3@C43F>AAEEFBFDFFHHHHHHHHED(0DAEBEFC?BFBEHHHHHC@85@GBGGFDCHEHHFCFB adapterremoval-2.2.2/validation/se/incl_adapter/threads/000077500000000000000000000000001313314234200233375ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/threads/one/000077500000000000000000000000001313314234200241205ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/threads/one/info.json000066400000000000000000000001111313314234200257370ustar00rootroot00000000000000{ "arguments": ["--threads", "1"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/se/incl_adapter/threads/one/input_1.fastq000066400000000000000000000003431313314234200265370ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/se/incl_adapter/threads/one/your_output.discarded000066400000000000000000000000001313314234200303700ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/threads/one/your_output.settings000066400000000000000000000030221313314234200303150ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 667770639 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 1 Number of unaligned reads: 0 Number of well aligned reads: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 1 Number of reads with adapters[1]: 1 Number of retained reads: 1 Number of retained nucleotides: 50 Average length of retained reads: 50 [Length distribution] Length Mate1 Discarded All 0 0 0 0 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 1 0 1 adapterremoval-2.2.2/validation/se/incl_adapter/threads/one/your_output.truncated000066400000000000000000000001771313314234200304560ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCT + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECC adapterremoval-2.2.2/validation/se/incl_adapter/threads/three/000077500000000000000000000000001313314234200244465ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/threads/three/info.json000066400000000000000000000001111313314234200262650ustar00rootroot00000000000000{ "arguments": ["--threads", "3"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/se/incl_adapter/threads/three/input_1.fastq000066400000000000000000000003431313314234200270650ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/se/incl_adapter/threads/three/your_output.discarded000066400000000000000000000000001313314234200307160ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/threads/three/your_output.settings000066400000000000000000000030221313314234200306430ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 667770639 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 1 Number of unaligned reads: 0 Number of well aligned reads: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 1 Number of reads with adapters[1]: 1 Number of retained reads: 1 Number of retained nucleotides: 50 Average length of retained reads: 50 [Length distribution] Length Mate1 Discarded All 0 0 0 0 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 1 0 1 adapterremoval-2.2.2/validation/se/incl_adapter/threads/three/your_output.truncated000066400000000000000000000001771313314234200310040ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCT + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECC adapterremoval-2.2.2/validation/se/incl_adapter/threads/two/000077500000000000000000000000001313314234200241505ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/threads/two/info.json000066400000000000000000000001111313314234200257670ustar00rootroot00000000000000{ "arguments": ["--threads", "2"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/se/incl_adapter/threads/two/input_1.fastq000066400000000000000000000003431313314234200265670ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/se/incl_adapter/threads/two/your_output.discarded000066400000000000000000000000001313314234200304200ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/threads/two/your_output.settings000066400000000000000000000030221313314234200303450ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 667770639 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 1 Number of unaligned reads: 0 Number of well aligned reads: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 1 Number of reads with adapters[1]: 1 Number of retained reads: 1 Number of retained nucleotides: 50 Average length of retained reads: 50 [Length distribution] Length Mate1 Discarded All 0 0 0 0 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 1 0 1 adapterremoval-2.2.2/validation/se/incl_adapter/threads/two/your_output.truncated000066400000000000000000000001771313314234200305060ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCT + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECC adapterremoval-2.2.2/validation/se/incl_adapter/trimns/000077500000000000000000000000001313314234200232215ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/trimns/excl_ns/000077500000000000000000000000001313314234200246545ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/trimns/excl_ns/info.json000066400000000000000000000001031313314234200264740ustar00rootroot00000000000000{ "arguments": ["--trimns"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/se/incl_adapter/trimns/excl_ns/input_1.fastq000066400000000000000000000003551313314234200272760ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/se/incl_adapter/trimns/excl_ns/your_output.discarded000066400000000000000000000000001313314234200311240ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/trimns/excl_ns/your_output.settings000066400000000000000000000030241313314234200310530ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2489899758 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 1 Number of unaligned reads: 0 Number of well aligned reads: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 1 Number of reads with adapters[1]: 1 Number of retained reads: 1 Number of retained nucleotides: 50 Average length of retained reads: 50 [Length distribution] Length Mate1 Discarded All 0 0 0 0 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 1 0 1 adapterremoval-2.2.2/validation/se/incl_adapter/trimns/excl_ns/your_output.truncated000066400000000000000000000002111313314234200311770ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCT + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECC adapterremoval-2.2.2/validation/se/incl_adapter/trimns/incl_ns/000077500000000000000000000000001313314234200246465ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/trimns/incl_ns/info.json000066400000000000000000000001031313314234200264660ustar00rootroot00000000000000{ "arguments": ["--trimns"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/se/incl_adapter/trimns/incl_ns/input_1.fastq000066400000000000000000000003551313314234200272700ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCNNNNNNNNATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/se/incl_adapter/trimns/incl_ns/your_output.discarded000066400000000000000000000000001313314234200311160ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/trimns/incl_ns/your_output.settings000066400000000000000000000027361313314234200310560ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2566824554 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 1 Number of unaligned reads: 0 Number of well aligned reads: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 1 Number of reads with adapters[1]: 1 Number of retained reads: 1 Number of retained nucleotides: 44 Average length of retained reads: 44 [Length distribution] Length Mate1 Discarded All 0 0 0 0 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 1 0 1 adapterremoval-2.2.2/validation/se/incl_adapter/trimns/incl_ns/your_output.truncated000066400000000000000000000001751313314234200312020ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGC + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFF adapterremoval-2.2.2/validation/se/incl_adapter/trimqualities/000077500000000000000000000000001313314234200246015ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/trimqualities/default/000077500000000000000000000000001313314234200262255ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/trimqualities/default/info.json000066400000000000000000000001121313314234200300450ustar00rootroot00000000000000{ "arguments": ["--trimqualities"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/se/incl_adapter/trimqualities/default/input_1.fastq000066400000000000000000000003551313314234200306470ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/se/incl_adapter/trimqualities/default/your_output.discarded000066400000000000000000000000001313314234200324750ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/trimqualities/default/your_output.settings000066400000000000000000000030241313314234200324240ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2679028121 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: Yes Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 1 Number of unaligned reads: 0 Number of well aligned reads: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 1 Number of reads with adapters[1]: 1 Number of retained reads: 1 Number of retained nucleotides: 50 Average length of retained reads: 50 [Length distribution] Length Mate1 Discarded All 0 0 0 0 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 0 0 0 46 0 0 0 47 0 0 0 48 0 0 0 49 0 0 0 50 1 0 1 adapterremoval-2.2.2/validation/se/incl_adapter/trimqualities/default/your_output.truncated000066400000000000000000000002111313314234200325500ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCT + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECC adapterremoval-2.2.2/validation/se/incl_adapter/trimqualities/minq36/000077500000000000000000000000001313314234200257165ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/trimqualities/minq36/info.json000066400000000000000000000001401313314234200275370ustar00rootroot00000000000000{ "arguments": ["--trimqualities", "--minquality", "36"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/se/incl_adapter/trimqualities/minq36/input_1.fastq000066400000000000000000000003551313314234200303400ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCAGGCCTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAAGGGCATCTCGTATG + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFFEDECCBCCBCBEBCDBABABA?A@?@?>==>==<><<:<996978544100-,)! adapterremoval-2.2.2/validation/se/incl_adapter/trimqualities/minq36/your_output.discarded000066400000000000000000000000001313314234200321660ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/incl_adapter/trimqualities/minq36/your_output.settings000066400000000000000000000027501313314234200321220ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 2816594278 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 36: Yes Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 1 Number of unaligned reads: 0 Number of well aligned reads: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 1 Number of reads with adapters[1]: 1 Number of retained reads: 1 Number of retained nucleotides: 45 Average length of retained reads: 45 [Length distribution] Length Mate1 Discarded All 0 0 0 0 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 0 0 0 31 0 0 0 32 0 0 0 33 0 0 0 34 0 0 0 35 0 0 0 36 0 0 0 37 0 0 0 38 0 0 0 39 0 0 0 40 0 0 0 41 0 0 0 42 0 0 0 43 0 0 0 44 0 0 0 45 1 0 1 adapterremoval-2.2.2/validation/se/incl_adapter/trimqualities/minq36/your_output.truncated000066400000000000000000000001771313314234200322540ustar00rootroot00000000000000@AAGGGCSeq_1_5180_50/1 meta data ACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGCA + IJJHJJIJIIHJHHIGIHIGGGIGFGEFGGFGGEHGFHGFEDFFF adapterremoval-2.2.2/validation/se/only_adapter/000077500000000000000000000000001313314234200217415ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/only_adapter/collapse/000077500000000000000000000000001313314234200235435ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/only_adapter/collapse/info.json000066400000000000000000000001051313314234200253650ustar00rootroot00000000000000{ "arguments": ["--collapse"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/se/only_adapter/collapse/input_1.fastq000066400000000000000000000003551313314234200261650ustar00rootroot00000000000000@CTTTGTSeq_1_14286_0/1 meta data AGATCGGAAGAGCACACGTCTGAACTCCATTCACCTTTGTATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + JGIJJJIJIJJGJGJIHHHGGIGIHGHGGGHEHEGFDFGEEEEGCFDDCCECDCBBCBBACCAA@BACB?>>>>?;=<;=<<::;:9777664010.-)! adapterremoval-2.2.2/validation/se/only_adapter/collapse/your_output.collapsed000066400000000000000000000000001313314234200300370ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/only_adapter/collapse/your_output.collapsed.truncated000066400000000000000000000000001313314234200320270ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/only_adapter/collapse/your_output.discarded000066400000000000000000000000471313314234200300260ustar00rootroot00000000000000@M_CTTTGTSeq_1_14286_0/1 meta data + adapterremoval-2.2.2/validation/se/only_adapter/collapse/your_output.settings000066400000000000000000000023121313314234200277410ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 4215296776 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: Yes Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 1 Number of unaligned reads: 0 Number of well aligned reads: 1 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of reads with adapters[1]: 1 Number of full-length collapsed pairs: 0 Number of truncated collapsed pairs: 0 Number of retained reads: 0 Number of retained nucleotides: 0 Average length of retained reads: 0 [Length distribution] Length Mate1 Collapsed CollapsedTruncated Discarded All 0 0 0 0 1 1 adapterremoval-2.2.2/validation/se/only_adapter/collapse/your_output.truncated000066400000000000000000000000001313314234200300620ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/only_adapter/combined_output/000077500000000000000000000000001313314234200251415ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/only_adapter/combined_output/discarded/000077500000000000000000000000001313314234200270635ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/only_adapter/combined_output/discarded/info.json000066400000000000000000000001141313314234200307050ustar00rootroot00000000000000{ "arguments": ["--combined-output"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/se/only_adapter/combined_output/discarded/input_1.fastq000066400000000000000000000003551313314234200315050ustar00rootroot00000000000000@CTTTGTSeq_1_14286_0/1 meta data AGATCGGAAGAGCACACGTCTGAACTCCATTCACCTTTGTATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + JGIJJJIJIJJGJGJIHHHGGIGIHGHGGGHEHEGFDFGEEEEGCFDDCCECDCBBCBBACCAA@BACB?>>>>?;=<;=<<::;:9777664010.-)! adapterremoval-2.2.2/validation/se/only_adapter/combined_output/discarded/your_output.settings000066400000000000000000000021271313314234200332650ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 913821732 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 1 Number of unaligned reads: 0 Number of well aligned reads: 1 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of reads with adapters[1]: 1 Number of retained reads: 0 Number of retained nucleotides: 0 Average length of retained reads: 0 [Length distribution] Length Mate1 Discarded All 0 0 1 1 adapterremoval-2.2.2/validation/se/only_adapter/combined_output/discarded/your_output.truncated000066400000000000000000000000471313314234200334150ustar00rootroot00000000000000@CTTTGTSeq_1_14286_0/1 meta data N + ! adapterremoval-2.2.2/validation/se/only_adapter/combined_output/retained/000077500000000000000000000000001313314234200267345ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/only_adapter/combined_output/retained/info.json000066400000000000000000000001431313314234200305600ustar00rootroot00000000000000{ "arguments": ["--combined-output", "--minlength", "0"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/se/only_adapter/combined_output/retained/input_1.fastq000066400000000000000000000003551313314234200313560ustar00rootroot00000000000000@CTTTGTSeq_1_14286_0/1 meta data AGATCGGAAGAGCACACGTCTGAACTCCATTCACCTTTGTATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + JGIJJJIJIJJGJGJIHHHGGIGIHGHGGGHEHEGFDFGEEEEGCFDDCCECDCBBCBBACCAA@BACB?>>>>?;=<;=<<::;:9777664010.-)! adapterremoval-2.2.2/validation/se/only_adapter/combined_output/retained/your_output.settings000066400000000000000000000021261313314234200331350ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 984265443 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 0 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 1 Number of unaligned reads: 0 Number of well aligned reads: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 1 Number of reads with adapters[1]: 1 Number of retained reads: 1 Number of retained nucleotides: 0 Average length of retained reads: 0 [Length distribution] Length Mate1 Discarded All 0 1 0 1 adapterremoval-2.2.2/validation/se/only_adapter/combined_output/retained/your_output.truncated000066400000000000000000000000451313314234200332640ustar00rootroot00000000000000@CTTTGTSeq_1_14286_0/1 meta data + adapterremoval-2.2.2/validation/se/only_adapter/crlf_newlines/000077500000000000000000000000001313314234200245735ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/only_adapter/crlf_newlines/info.json000066400000000000000000000000711313314234200264170ustar00rootroot00000000000000{ "arguments": [], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/se/only_adapter/crlf_newlines/input_1.fastq000066400000000000000000000003611313314234200272120ustar00rootroot00000000000000@CTTTGTSeq_1_14286_0/1 meta data AGATCGGAAGAGCACACGTCTGAACTCCATTCACCTTTGTATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + JGIJJJIJIJJGJGJIHHHGGIGIHGHGGGHEHEGFDFGEEEEGCFDDCCECDCBBCBBACCAA@BACB?>>>>?;=<;=<<::;:9777664010.-)! adapterremoval-2.2.2/validation/se/only_adapter/crlf_newlines/your_output.discarded000066400000000000000000000000451313314234200310540ustar00rootroot00000000000000@CTTTGTSeq_1_14286_0/1 meta data + adapterremoval-2.2.2/validation/se/only_adapter/crlf_newlines/your_output.settings000066400000000000000000000021301313314234200307670ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 4288002672 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 1 Number of unaligned reads: 0 Number of well aligned reads: 1 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of reads with adapters[1]: 1 Number of retained reads: 0 Number of retained nucleotides: 0 Average length of retained reads: 0 [Length distribution] Length Mate1 Discarded All 0 0 1 1 adapterremoval-2.2.2/validation/se/only_adapter/crlf_newlines/your_output.truncated000066400000000000000000000000001313314234200311120ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/only_adapter/defaults/000077500000000000000000000000001313314234200235505ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/only_adapter/defaults/info.json000066400000000000000000000000711313314234200253740ustar00rootroot00000000000000{ "arguments": [], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/se/only_adapter/defaults/input_1.fastq000066400000000000000000000003551313314234200261720ustar00rootroot00000000000000@CTTTGTSeq_1_14286_0/1 meta data AGATCGGAAGAGCACACGTCTGAACTCCATTCACCTTTGTATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + JGIJJJIJIJJGJGJIHHHGGIGIHGHGGGHEHEGFDFGEEEEGCFDDCCECDCBBCBBACCAA@BACB?>>>>?;=<;=<<::;:9777664010.-)! adapterremoval-2.2.2/validation/se/only_adapter/defaults/your_output.discarded000066400000000000000000000000451313314234200300310ustar00rootroot00000000000000@CTTTGTSeq_1_14286_0/1 meta data + adapterremoval-2.2.2/validation/se/only_adapter/defaults/your_output.settings000066400000000000000000000021301313314234200277440ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 4288002672 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 1 Number of unaligned reads: 0 Number of well aligned reads: 1 Number of discarded mate 1 reads: 1 Number of singleton mate 1 reads: 0 Number of reads with adapters[1]: 1 Number of retained reads: 0 Number of retained nucleotides: 0 Average length of retained reads: 0 [Length distribution] Length Mate1 Discarded All 0 0 1 1 adapterremoval-2.2.2/validation/se/only_adapter/defaults/your_output.truncated000066400000000000000000000000001313314234200300670ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/only_adapter/minlength/000077500000000000000000000000001313314234200237265ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/only_adapter/minlength/info.json000066400000000000000000000001131313314234200255470ustar00rootroot00000000000000{ "arguments": ["--minlength", "0"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/se/only_adapter/minlength/input_1.fastq000066400000000000000000000003551313314234200263500ustar00rootroot00000000000000@CTTTGTSeq_1_14286_0/1 meta data AGATCGGAAGAGCACACGTCTGAACTCCATTCACCTTTGTATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA + JGIJJJIJIJJGJGJIHHHGGIGIHGHGGGHEHEGFDFGEEEEGCFDDCCECDCBBCBBACCAA@BACB?>>>>?;=<;=<<::;:9777664010.-)! adapterremoval-2.2.2/validation/se/only_adapter/minlength/your_output.discarded000066400000000000000000000000001313314234200301760ustar00rootroot00000000000000adapterremoval-2.2.2/validation/se/only_adapter/minlength/your_output.settings000066400000000000000000000021261313314234200301270ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 120751608 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 2: No Trimming using sliding windows: No Minimum genomic length: 0 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 1 Number of unaligned reads: 0 Number of well aligned reads: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 1 Number of reads with adapters[1]: 1 Number of retained reads: 1 Number of retained nucleotides: 0 Average length of retained reads: 0 [Length distribution] Length Mate1 Discarded All 0 1 0 1 adapterremoval-2.2.2/validation/se/only_adapter/minlength/your_output.truncated000066400000000000000000000000451313314234200302560ustar00rootroot00000000000000@CTTTGTSeq_1_14286_0/1 meta data + adapterremoval-2.2.2/validation/trimwindows/000077500000000000000000000000001313314234200212375ustar00rootroot00000000000000adapterremoval-2.2.2/validation/trimwindows/pe/000077500000000000000000000000001313314234200216435ustar00rootroot00000000000000adapterremoval-2.2.2/validation/trimwindows/pe/excl_n/000077500000000000000000000000001313314234200231135ustar00rootroot00000000000000adapterremoval-2.2.2/validation/trimwindows/pe/excl_n/info.json000066400000000000000000000001431313314234200247370ustar00rootroot00000000000000{ "arguments": ["--trimwindows", "4", "--minquality", "20"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/trimwindows/pe/excl_n/input_1.fastq000066400000000000000000000001641313314234200255330ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCANNTCAACAATAGGGTTTACGACCTCGATGNTGGAT + 7555IIIIIJJGJHGJJJGHJJJFGIIIGFC?:75565+ adapterremoval-2.2.2/validation/trimwindows/pe/excl_n/input_2.fastq000066400000000000000000000001161313314234200255310ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTA + IGHHFEIIIGFC5675565+ adapterremoval-2.2.2/validation/trimwindows/pe/excl_n/your_output.discarded000066400000000000000000000000761313314234200274000ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGG + IGHHFEIIIGFC adapterremoval-2.2.2/validation/trimwindows/pe/excl_n/your_output.pair1.truncated000066400000000000000000000000001313314234200304450ustar00rootroot00000000000000adapterremoval-2.2.2/validation/trimwindows/pe/excl_n/your_output.pair2.truncated000066400000000000000000000000001313314234200304460ustar00rootroot00000000000000adapterremoval-2.2.2/validation/trimwindows/pe/excl_n/your_output.settings000066400000000000000000000030471313314234200273170ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 981230521 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 20: Yes Trimming using sliding windows: 4 Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 1 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 1 Number of retained nucleotides: 30 Average length of retained reads: 30 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 1 1 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 0 0 0 28 0 0 0 0 0 29 0 0 0 0 0 30 0 0 1 0 1 adapterremoval-2.2.2/validation/trimwindows/pe/excl_n/your_output.singleton.truncated000066400000000000000000000001421313314234200314420ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data NNTCAACAATAGGGTTTACGACCTCGATGN + IIIIIJJGJHGJJJGHJJJFGIIIGFC?:7 adapterremoval-2.2.2/validation/trimwindows/pe/incl_n/000077500000000000000000000000001313314234200231055ustar00rootroot00000000000000adapterremoval-2.2.2/validation/trimwindows/pe/incl_n/info.json000066400000000000000000000001571313314234200247360ustar00rootroot00000000000000{ "arguments": ["--trimwindows", "4", "--minquality", "20", "--trimns"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/trimwindows/pe/incl_n/input_1.fastq000066400000000000000000000001641313314234200255250ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCANNTCAACAATAGGGTTTACGACCTCGATGNTGGAT + 7555IIIIIJJGJHGJJJGHJJJFGIIIGFC?:75565+ adapterremoval-2.2.2/validation/trimwindows/pe/incl_n/input_2.fastq000066400000000000000000000001161313314234200255230ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGGTTGTAGTA + IGHHFEIIIGFC5675565+ adapterremoval-2.2.2/validation/trimwindows/pe/incl_n/your_output.discarded000066400000000000000000000000761313314234200273720ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/2 data meta GTCAGCGAAGGG + IGHHFEIIIGFC adapterremoval-2.2.2/validation/trimwindows/pe/incl_n/your_output.pair1.truncated000066400000000000000000000000001313314234200304370ustar00rootroot00000000000000adapterremoval-2.2.2/validation/trimwindows/pe/incl_n/your_output.pair2.truncated000066400000000000000000000000001313314234200304400ustar00rootroot00000000000000adapterremoval-2.2.2/validation/trimwindows/pe/incl_n/your_output.settings000066400000000000000000000030011313314234200272770ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of paired-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 981230521 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 20: Yes Trimming using sliding windows: 4 Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 [Trimming statistics] Total number of read pairs: 1 Number of unaligned read pairs: 0 Number of well aligned read pairs: 1 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 1 Number of discarded mate 2 reads: 1 Number of singleton mate 2 reads: 0 Number of reads with adapters[1]: 0 Number of retained reads: 1 Number of retained nucleotides: 27 Average length of retained reads: 27 [Length distribution] Length Mate1 Mate2 Singleton Discarded All 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 0 6 0 0 0 0 0 7 0 0 0 0 0 8 0 0 0 0 0 9 0 0 0 0 0 10 0 0 0 0 0 11 0 0 0 0 0 12 0 0 0 1 1 13 0 0 0 0 0 14 0 0 0 0 0 15 0 0 0 0 0 16 0 0 0 0 0 17 0 0 0 0 0 18 0 0 0 0 0 19 0 0 0 0 0 20 0 0 0 0 0 21 0 0 0 0 0 22 0 0 0 0 0 23 0 0 0 0 0 24 0 0 0 0 0 25 0 0 0 0 0 26 0 0 0 0 0 27 0 0 1 0 1 adapterremoval-2.2.2/validation/trimwindows/pe/incl_n/your_output.singleton.truncated000066400000000000000000000001341313314234200314350ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCAACAATAGGGTTTACGACCTCGATG + IIIJJGJHGJJJGHJJJFGIIIGFC?: adapterremoval-2.2.2/validation/trimwindows/se/000077500000000000000000000000001313314234200216465ustar00rootroot00000000000000adapterremoval-2.2.2/validation/trimwindows/se/excl_n/000077500000000000000000000000001313314234200231165ustar00rootroot00000000000000adapterremoval-2.2.2/validation/trimwindows/se/excl_n/info.json000066400000000000000000000001431313314234200247420ustar00rootroot00000000000000{ "arguments": ["--trimwindows", "4", "--minquality", "20"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/trimwindows/se/excl_n/input_1.fastq000066400000000000000000000001641313314234200255360ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCANNTCAACAATAGGGTTTACGACCTCGATGNTGGAT + 7555IIIIIJJGJHGJJJGHJJJFGIIIGFC?:75565+ adapterremoval-2.2.2/validation/trimwindows/se/excl_n/your_output.discarded000066400000000000000000000000001313314234200273660ustar00rootroot00000000000000adapterremoval-2.2.2/validation/trimwindows/se/excl_n/your_output.settings000066400000000000000000000025401313314234200273170ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3702281079 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: No Trimming Phred scores <= 20: Yes Trimming using sliding windows: 4 Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 1 Number of unaligned reads: 1 Number of well aligned reads: 0 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 1 Number of reads with adapters[1]: 0 Number of retained reads: 1 Number of retained nucleotides: 30 Average length of retained reads: 30 [Length distribution] Length Mate1 Discarded All 0 0 0 0 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 0 0 0 28 0 0 0 29 0 0 0 30 1 0 1 adapterremoval-2.2.2/validation/trimwindows/se/excl_n/your_output.truncated000066400000000000000000000001421313314234200274440ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data NNTCAACAATAGGGTTTACGACCTCGATGN + IIIIIJJGJHGJJJGHJJJFGIIIGFC?:7 adapterremoval-2.2.2/validation/trimwindows/se/incl_n/000077500000000000000000000000001313314234200231105ustar00rootroot00000000000000adapterremoval-2.2.2/validation/trimwindows/se/incl_n/info.json000066400000000000000000000001571313314234200247410ustar00rootroot00000000000000{ "arguments": ["--trimwindows", "4", "--minquality", "20", "--trimns"], "return_code": 0, "stderr": [ ] } adapterremoval-2.2.2/validation/trimwindows/se/incl_n/input_1.fastq000066400000000000000000000001641313314234200255300ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCCANNTCAACAATAGGGTTTACGACCTCGATGNTGGAT + 7555IIIIIJJGJHGJJJGHJJJFGIIIGFC?:75565+ adapterremoval-2.2.2/validation/trimwindows/se/incl_n/your_output.discarded000066400000000000000000000000001313314234200273600ustar00rootroot00000000000000adapterremoval-2.2.2/validation/trimwindows/se/incl_n/your_output.settings000066400000000000000000000025061313314234200273130ustar00rootroot00000000000000AdapterRemoval ver. 2.1.7 Trimming of single-end reads [Adapter sequences] Adapter1[1]: AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG Adapter2[1]: AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGTATCATT [Adapter trimming] RNG seed: 3702281079 Alignment shift value: 2 Global mismatch threshold: 0.333333 Quality format (input): Phred+33 Quality score max (input): 41 Quality format (output): Phred+33 Quality score max (output): 41 Mate-number separator (input): '/' Trimming Ns: Yes Trimming Phred scores <= 20: Yes Trimming using sliding windows: 4 Minimum genomic length: 15 Maximum genomic length: 4294967295 Collapse overlapping reads: No Minimum overlap (in case of collapse): 11 Minimum adapter overlap: 0 [Trimming statistics] Total number of reads: 1 Number of unaligned reads: 1 Number of well aligned reads: 0 Number of discarded mate 1 reads: 0 Number of singleton mate 1 reads: 1 Number of reads with adapters[1]: 0 Number of retained reads: 1 Number of retained nucleotides: 27 Average length of retained reads: 27 [Length distribution] Length Mate1 Discarded All 0 0 0 0 1 0 0 0 2 0 0 0 3 0 0 0 4 0 0 0 5 0 0 0 6 0 0 0 7 0 0 0 8 0 0 0 9 0 0 0 10 0 0 0 11 0 0 0 12 0 0 0 13 0 0 0 14 0 0 0 15 0 0 0 16 0 0 0 17 0 0 0 18 0 0 0 19 0 0 0 20 0 0 0 21 0 0 0 22 0 0 0 23 0 0 0 24 0 0 0 25 0 0 0 26 0 0 0 27 1 0 1 adapterremoval-2.2.2/validation/trimwindows/se/incl_n/your_output.truncated000066400000000000000000000001341313314234200274370ustar00rootroot00000000000000@ATAGCCSeq_1_2959_500/1 meta data TCAACAATAGGGTTTACGACCTCGATG + IIIJJGJHGJJJGHJJJFGIIIGFC?: