Mercurial > repos > iuc > cd_hit
changeset 0:e0da3400ac2f draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/cdhit commit 8e14fc2573a53eaf8a538e018ae292f4c3134ec2
author | iuc |
---|---|
date | Mon, 15 Oct 2018 10:54:50 -0400 |
parents | |
children | 7807800a3d03 |
files | cd_hit.xml test-data/cd_hit_est_in.fa test-data/cd_hit_protein_in.fasta test-data/db1.fasta test-data/db2.fasta test-data/est-2d.txt test-data/est-2d.txt.clstr test-data/est_clusters_output.txt test-data/est_fasta_output.fasta test-data/protein_clusters_output.txt test-data/protein_clusters_output_local.txt test-data/protein_fasta_output.fasta test-data/protein_fasta_output_local.fasta |
diffstat | 13 files changed, 2573 insertions(+), 0 deletions(-) [+] |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/cd_hit.xml Mon Oct 15 10:54:50 2018 -0400 @@ -0,0 +1,283 @@ +<tool id="cd_hit" name="cd-hit" version="4.6.8.1"> + <description>Cluster or compare biological sequence datasets</description> + <requirements> + <requirement type="package" version="4.6.8">cd-hit</requirement> + </requirements> + <version_command><![CDATA[ +cd-hit | grep "CD-HIT version" | cut -d" " -f 4 + ]]></version_command> + <command detect_errors="exit_code"><![CDATA[ +cd-hit$est.est_select$twod.twod_select +-i '$fasta_in' +-o rep_seq +-c $est.similarity +-n $est.wordsize +#if $est.est_select == '-est': + $est.strand + #if str($est.estadvalign.mask) != 'None': + -mask '$est.estadvalign.mask' + #end if + -match $est.estadvalign.match + -mismatch $est.estadvalign.mismatch + -gap $est.estadvalign.gap + -gap-ext $est.estadvalign.gapext +#else: + -t $est.redtol +#end if +#if $twod.twod_select == '-2d': + -i2 '$fasta_in2' + #if $advanced.advalign.style == 'local': + -s2 $advanced.advalign.advancedtwod.cutoff_diff_len2 + -S2 $advanced.advalign.advancedtwod.aa_cutoff_diff_len2 + #end if +#end if + +-b $advanced.band_width +-l $advanced.throw_away_len +#if $advanced.advalign.style == 'local': + -G 0 + -aL $advanced.advalign.align_coverage_long + -AL $advanced.advalign.align_coverage_long_control + -aS $advanced.advalign.align_coverage_short + -AS $advanced.advalign.align_coverage_short_control + -A $advanced.advalign.align_coverage_min + -s $advanced.advalign.cutoff_diff_len + -S $advanced.advalign.aa_cutoff_diff_len +#end if +-uL $advanced.max_unmatched_per_l +-uS $advanced.max_unmatched_per_s +-U $advanced.max_unmatched_len +$advanced.accurate +$advanced.inram +#if $print_alnovl.print_alnovl_select == "yes": + -p 1 + -d $print_alnovl.desclen +#end if + +## instead of 800 (default) we use 0:unlimited +-M \${GALAXY_MEMORY_MB:-0} +-T \${GALAXY_SLOTS:-1} + ]]></command> + <inputs> + <param name="fasta_in" argument="-i" type="data" format="fasta" label="Sequences to cluster/compare"/> + <conditional name="twod"> + <param name="twod_select" type="select" label="Cluster / Compare (i.e. call cd-hit[-est] / cd-hit[-est]-2d)?"> + <option value="" selected="true">Cluster sequences</option> + <option value="-2d">Compare with 2nd sequence data set</option> + </param> + <when value=""/> + <when value="-2d"> + <param name="fasta_in2" argument="-i2" type="data" format="fasta" label="Other sequences to cluster/compare"/> + </when> + </conditional> + <conditional name="est"> + <param name="est_select" type="select" label="Sequence type?" help="For nucleotides the -est variant of cd-hit is called"> + <option value="" selected="true">Protein</option> + <option value="-est">Nucleotides</option> + </param> + <when value=""> + <param name="similarity" argument="-c" type="float" min="0.4" max="1.0" value="0.9" label="Sequence identity threshold" help="Global sequence identity: number of identical alignment positions divided by the full length of the shorter sequence"/> + <param name="wordsize" argument="-n" type="integer" min="2" max="5" value="5" label="Word size"> + <help>Suggested word size: + 5 for thresholds 0.7 ~ 1.0 + 4 for thresholds 0.6 ~ 0.7 + 3 for thresholds 0.5 ~ 0.6 + 2 for thresholds 0.4 ~ 0.5 (-n) + </help> + </param> + <param name="redtol" argument="-t" type="integer" value="2" label="Tolerance for redundance"/> + </when> + <when value="-est"> + <param name="similarity" argument="-c" type="float" min="0.8" max="1.0" value="0.9" label="Sequence identity threshold" help="Global sequence identity: number of identical alignment positions divided by the full length of the shorter sequence"/> + <param name="wordsize" argument="-n" type="integer" min="4" max="11" value="10" label="Word size"> + <help>Suggested word size: + 10,11 for threshold in 0.95 ~ 1.0 + 8,9 for threshold in 0.9 ~ 0,95 + 7 for threshold in 0.88 ~ 0.9 + 6 for threshold in 0.85 ~ 0.88 + 5 for threshold in 0.80 ~ 0.85 + 4 for threshold in 0.75 ~ 0.8 (-n) + </help> + </param> + <param name="strand" argument="-r" type="boolean" truevalue="-r 1" falsevalue="-r 0" checked="false" label="Compare both strands?"/> + <section name="estadvalign" title="Advanced EST alignment options"> + <param argument="-mask" type="text" optional="true" label="Masking letters" help="NX, to mask out both 'N' and 'X'"/> + <param argument="-match" type="integer" value="2" label="Match score" help="Default 2 (1 for T-U and N-N)"/> + <param argument="-mismatch" type="integer" value="-2" label="Mismatch score"/> + <param argument="-gap" type="integer" value="-6" label="Gap opening score"/> + <param name="gapext" argument="-gap-ext" type="integer" value="-1" label="Gap extension score"/> + </section> + </when> + </conditional> + <section name="advanced" title="Advanced options"> + <param name="band_width" argument="-b" type="integer" min="1" value="20" label="Alignment band width"/> + <param name="throw_away_len" argument="-l" type="integer" min="1" value="10" label="Length of throw away sequences"/> + <conditional name="advalign"> + <param name="style" type="select" label="Use local/global sequence identity" help="Local sequence identity: number of identical amino alignment positions divided by the length of the alignment. Note: in local mode one of -aL, aS, or A must be > 0!"> + <option value="global" selected="true">Global</option> + <option value="local" >Local</option> + </param> + <when value="global"/> + <when value="local"> + <param name="align_coverage_long" argument="-aL" type="float" min="0.0" max="1.0" value="0.0" label="Alignment coverage for the longer sequence" help="Fraction of the longer sequence that must be covered"/> + <param name="align_coverage_long_control" argument="-AL" type="integer" min="0" value="99999999" label="Alignment coverage control for the longer sequence " help="Maximum number of residues uncovered residues of the longer sequence"/> + <param name="align_coverage_short" argument="-aS" type="float" min="0.0" max="1.0" value="0.0" label="Alignment coverage for the shorter sequence" help="Fraction of the shorter sequence that must be covered"/> + <param name="align_coverage_short_control" argument="-AS" type="integer" min="0" value="99999999" label="Alignment coverage control for the shorter sequence" help="Maximum number of residues uncovered residues of the shorter sequence"/> + <param name="align_coverage_min" argument="-A" type="integer" min="0" value="0" label="Minimal alignment coverage control for the both sequences" help="Minimum number of residues of both sequences that must be covered"/> + <param name="cutoff_diff_len" argument="-s" type="float" min="0.0" max="1.0" value="0.0" label="Length difference cutoff" help="If set to 0.9, the shorter sequences need to be at least 90% length of the representative of the cluster"/> + <param name="aa_cutoff_diff_len" argument="-S" type="integer" min="0" value="999999" label="Length difference cutoff in residues" help="If set to 60, the length difference between the shorter sequences and the representative of the cluster can not be bigger than 60"/> + <section name="advancedtwod" title="Advanced options for 2D local alignment"> + <param name="cutoff_diff_len2" argument="-s2" type="float" min="0.0" max="1.0" value="1.0" label="Length difference cutoff for other sequences" help="By default, seqs in db1 >= seqs in db2 in a same cluster if set to 0.9, seqs in db1 may just >= 90% seqs in db2. Only effective in local alignment mode"/> + <param name="aa_cutoff_diff_len2" argument="-S2" type="integer" min="0" value="0" label="Length difference cutoff in residues for other sequences" help="by default, seqs in db1 >= seqs in db2 in a same cluster if set to 60, seqs in db2 may 60aa longer than seqs in db1. Only effective in local alignment mode"/> + </section> + </when> + </conditional> + <param name="max_unmatched_per_l" argument="-uL" type="float" min="0.0" max="1.0" value="1.0" label="Maximum unmatched percentage for the shorter sequence" help="If set to 0.1, the unmatched region (excluding leading and tailing gaps) must not be more than 10% of the sequence"/> + <param name="max_unmatched_per_s" argument="-uS" type="float" min="0.0" max="1.0" value="1.0" label="Maximum unmatched percentage for the shorter sequence" help="If set to 0.1, the unmatched region (excluding leading and tailing gaps) must not be more than 10% of the sequence"/> + <param name="max_unmatched_len" argument="-U" type="integer" min="0" value="99999999" label="Maximum unmatched length" help="If set to 10, the unmatched region (excluding leading and tailing gaps) must not be more than 10 bases"/> + <param name="inram" argument="-B" type="boolean" truevalue="-B 0" falsevalue="-B 1" checked="true" label="Sequences are stored in RAM" help="If false: sequence are stored on hard drive - use for huge data sets"/> + <param name="accurate" argument="-g" type="boolean" truevalue="-g 1" falsevalue="-g 0" checked="false" label="Accurate but slow mode" help="By cd-hit's default algorithm, a sequence is clustered to the first cluster that meet the threshold (fast cluster). If set to true, the program will cluster it into the most similar cluster that meet the threshold (accurate but slow mode)"/> + </section> + + <conditional name="print_alnovl"> + <param name="print_alnovl_select" type="select" label="Print alignment overlap in .clstr file?"> + <option value="no" selected="true">No</option> + <option value="yes">Yes</option> + </param> + <when value="no"/> + <when value="yes"> + <param name="desclen" argument="-d" type="integer" min="0" value="20" label="Length of description in .clstr file" help="If set to 0, it takes the fasta defline and stops at first space"/> + </when> + </conditional> + </inputs> + + <outputs> + <data name="clusters_out" format="txt" label="${tool.name} on ${on_string}: Clusters" from_work_dir="rep_seq.clstr"/> + <data name="fasta_out" format="fasta" label="${tool.name} on ${on_string}: Representative sequences" from_work_dir="rep_seq"/> + </outputs> + + <tests> + <!--cd-hit with default options --> + <test> + <param name="fasta_in" value="cd_hit_protein_in.fasta" /> + <conditional name="twod"> + <param name="twod_select" value="" /> + </conditional> + <conditional name="est"> + <param name="est_select" value="" /> + <param name="wordsize" value="5" /> + </conditional> + <param name="similarity" value="0.9" /> + <output name="clusters_out" file="protein_clusters_output.txt"/> + <output name="fasta_out" file="protein_fasta_output.fasta"/> + </test> + <!--cd-hit local (default options), changed similarity, and output string length --> + <test> + <param name="fasta_in" value="cd_hit_protein_in.fasta" /> + <conditional name="twod"> + <param name="twod_select" value="" /> + </conditional> + <conditional name="est"> + <param name="est_select" value="" /> + <param name="wordsize" value="5" /> + </conditional> + <param name="similarity" value="0.8" /> + <section name="advanced"> + <conditional name="advalign"> + <param name="style" value="local" /> + <param name="align_coverage_short" value="0.9" /> + </conditional> + </section> + <conditional name="print_alnovl"> + <param name="print_alnovl_select" value="yes"/> + <param name="desclen" value="40"/> + </conditional> + <output name="clusters_out" file="protein_clusters_output_local.txt"/> + <output name="fasta_out" file="protein_fasta_output_local.fasta"/> + </test> + <!-- cd-hit-est --> + <test> + <param name="fasta_in" value="cd_hit_est_in.fa" /> + <conditional name="twod"> + <param name="twod_select" value="" /> + </conditional> + <conditional name="est"> + <param name="est_select" value="-est" /> + <param name="wordsize" value="8"/> + <param name="strand" value="false"/> + </conditional> + <param name="similarity" value="0.9"/> + <output name="clusters_out" file="est_clusters_output.txt"/> + <output name="fasta_out" file="est_fasta_output.fasta"/> + </test> + <!-- cd-hit-est-2d (also changing strand param) --> + <test> + <param name="fasta_in" value="db1.fasta" /> + <conditional name="twod"> + <param name="twod_select" value="-2d" /> + <param name="fasta_in2" value="db2.fasta" /> + </conditional> + <conditional name="est"> + <param name="est_select" value="-est" /> + <param name="wordsize" value="8"/> + <param name="strand" value="true"/> + </conditional> + <param name="similarity" value="0.9"/> + <output name="clusters_out" file="est-2d.txt.clstr"/> + <output name="fasta_out" file="est-2d.txt"/> + </test> + </tests> + <help><![CDATA[ +**What it does** + +cd-hit stands for Cluster Database at High Identity with Tolerance. The tool implements four variants: cd-hit, cd-hit-est, cd-hit-2d, and cd-hit-est-2d. + +The program cd-hit (resp. cd-hit-est) takes a FASTA format aminoacid (resp. nucleotide) sequence database as input and produces a set of 'non-redundant' (nr) representative sequences as output. In addition cd-hit outputs a cluster file, documenting the members of the sequence clusters for each nr sequence representative. The idea is to reduce the overall size of the database without removing any sequence information by only removing 'redundant' (or highly similar) sequences. This is why the resulting database is called non-redundant (nr). Essentially, cd-hit (resp. cd-hit-est) produces a set of closely related protein (resp. nucleotide sequence) families from a given FASTA sequence database. + +The program cd-hit-2d (resp. cd-hit-est-2d) compares two aminoacid (resp. nucleotide) sequence datasets (db1, db2) in FASTA format. It identifies the sequences in db2 that are similar to db1 at a certain threshold. It outputs two files: a FASTA file of sequences in db2 that are not similar to db1 and a text file that lists similar sequences between db1 & db2. + +.. _CD-HIT: http://weizhongli-lab.org/cd-hit/ + +------ + +**Inputs** + +cd-hit/cd-hit-2d requires a (two) protein FASTA file(s) as input. + +cd-hit-est/cd-hit-est-2d requires a (two) nucleotide FASTA file(s) as input. + +------ + +**Outputs** + +For cd-hit and cd-hit-est: + +1. The first output is a FASTA file containing representative sequences. + +2. The second output is a text file listing the mapping of sequences to the representative sequences: + + >Cluster 0 + 0 2799aa, >PF04998.6|RPOC2_CHLRE/275-3073... * + >Cluster 1 + 0 2214aa, >PF06317.1|Q6Y625_9VIRU/1-2214... at 80% + 1 2215aa, >PF06317.1|O09705_9VIRU/1-2215... at 84% + 2 2217aa, >PF06317.1|Q6Y630_9VIRU/1-2217... * + 3 2216aa, >PF06317.1|Q6GWS6_9VIRU/1-2216... at 84% + 4 527aa, >PF06317.1|Q67E14_9VIRU/6-532... at 63% + >Cluster 2 + 0 2202aa, >PF06317.1|Q6UY61_9VIRU/8-2209... at 60% + 1 2208aa, >PF06317.1|Q6IVU4_JUNIN/1-2208... * + 2 2207aa, >PF06317.1|Q6IVU0_MACHU/1-2207... at 73% + 3 2208aa, >PF06317.1|RRPO_TACV/1-2208... at 69% + +For cd-hit-2d and cd-hit-est-2d: + +1. The first output is a FASTA file of sequences in db2 that are not similar to db1. + +2. The second output is a text file that lists similar sequences between db1 & db2 + ]]></help> + <citations> + <citation type="doi">10.1093/bioinformatics/btl158</citation> + <citation type="doi">10.1093/bioinformatics/bts565</citation> + </citations> +</tool>
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cd_hit_est_in.fa Mon Oct 15 10:54:50 2018 -0400 @@ -0,0 +1,74 @@ +>F12Fcsw_481739 +ACCGGCGCACGGGTGAGTAACACGTATCCAACCTGCCTCATACTCGGGGATAGCCTTTCGAAAGAAAGATTAATATCCGATAGCATATATTTCCCGCATGGGTTTTATATTAAAGAAATTCGGTATGAGATGGGGACGCGTTCCATTAGTTTGTTGGCGGGGTAACGGCCCACCAAGACTACGATGGATAGGGGTTCTGAGAGGAAGGTCCCCCACATTGGAACTGAGACACGGTCCAA +>F14Fcsw_133982 +GGCGACCGGCGCACGGGTGAGTAACACGTATCCAACCTGCCTCATACTCGGGGATAGCCTTTCGAAAGAAAGATTAATATCCGATAGCATATATTTCCCGCATGGGTTTTATATTAAAGAAATTCGGTATGAGATGGGGATGCGTTCCATTAGTTTGTTGGCGGGGTAACGGCCCACCAAGACTACGATGGATAGGGGTTCTGAGAGGAAGGTCCCCCACATTGGAACTGAGACACGGCCCAA +>F14Fcsw_149685 +GGCGACCGGCGCACGGGTGAGTAACACGTATCCAACCTGCCTCATACTCGGGGATAGCCTTTCGAAAGAAAGATTAATATCCGATAGCATATATTTCCCGCATGGGTTTTATATTAAAGAAATTCGGTATGAGATGGGGATGCGTTCCATTAGTTTGTTGGGGGGTAACGGCCCACCAAGACTACGATGGATAGGGGTTCTGAGAGGAAGGTCCCCCACATTGGAACTGAGACACGGTCCAA +>F14Fcsw_175165 +CGGGTGAGTAACACGTATCCAACCTGCCTCATACTCGGGGATAGCCTTTCGAAAGAAAGATTAATATCCGATAGCATATATTTCCCGCATGGGTTTTATATTAAAGAAATTCGGTATGAGATGGGGATGCGTTCCATTAGATAGTAGGCGGGGTAACGGCCCACCTAGTCTTCGATGGATAGGGGTTCTGAGAGGAAGGTCCCCCACATTGGAACTGAGACACGGTCCAA +>F14Fcsw_176364 +ACCGGCGCACGGGTGAGTAACACGTATCCAACCTGCCTCATACTCGGGGATAGCCTTTCGAAAGAAAGATTAATATCCGATAGCATATATTTCCCGCATGGGTTTTATATTAAAGAAATTCGGTATGAGATGGGGATGCGTTCCATTAGGTTGTTGGCGGGGTAACGGCCCACCAAGCCTTCGATGGATAGGGGTTCTGAGAGGAAGGTCCCCCACATTGGAACTGAGACGCGGTCCAA +>F14Fcsw_224425 +ACCGGCGCACGGGTGAGTAACACGTATCCAACCTGCCTCATACTCGGGGATAGCCTTTCGAAAGAAAGATTAATATCCGATAGCATATATTTCCCGCATGGGTTTTATATTAAAGAAATTCGGTATGAGATGGGGATGCGTTCCATTAGTTTGTTGGCGGGGTAACGGCCCACCAAGACTACGATGGATAGGGGTTCTGAGAGGAAGGTCCCCCACATTGGAACTAAGACACGGTCCAA +>F14Fcsw_27361 +CGACCGGCGCACGGGTGAGTAACACGTATCCAACCTGCCTCATACTCGGGGATAGCCTTTCGAAAGAAAGATTAATATCCGATAGCATATATTTCCCGCATGGGTTTTATATTAAAGAAATTCGGTATGAGATGGGGATGCGTTCCATTAGTTTGTTGGGGGGTAACGGCCCACCAAGACTACGATGGATAGGGGTTCTGAGAGGAAGGTCCCCCACATTGGAACTGAGACACGGTCCAA +>F14Fcsw_2745 +GACCGGCGCACGGGTGAGTAACACGTATCCAACCTGCCTCATACTCGGGGATAGCCTTTCGAAAGAAAGATTAATATCCGATAGCATATATTTCCCGCATGGGTTTTATATTAAAGAAATTCGGTATGAGATGGGGATGCGTTCCATTAGTTTGTTGGGGGGTAACGGCCCACCAAGACTACGATGGATAGGGGTTCTGAGAGGAAGGTCCCCCACATTGGAACTGAGACACGGTCCAA +>F14Fcsw_37069 +ACCGGCGCACGGGTGAGTAACACGTATCCAACCTGCCTCATACTCGGGGATAGCCTTTCGAAAGAAAGATTAATATCCGATAGCATATATTTCCCGCATGGGTTTTATATTAAAGAAATTCGGTATGAGATGGGGATGCGTTCCATTAGTTTGTTGGGGGGTAACGGCCCACCAAGACTACGATGGATAGGGGTTCTGAGAGGAAGGTCCCCCACATTGGAACTGAGACACGGCCCAG +>F14Fcsw_38031 +ACCGGCGCACGGGTGAGTAACACGTATCCAACCTGCCTCATACTCGGGGATAGCCTTTCGAAAGAAAGATTAATATCCGATAGCATATATTTCCCGCATGGGTTTTATATTAAAGAAATTCGGTATGAGATGGGGATGCGTTCCATTAGTTTGTTGGCGGGGTAACGGCCCACCAAGACTACGATGGATAGGGGTTCTGAGAGGAAGGTCCCCCACATTGGAACTGAGACACGGTCAA +>F14Fcsw_49588 +ACCGGCGCACGGGTGAGTAACACGTATCCAACCTGCCTCATACTCGGGGATAGCCTTTCGAAAGAAAGATTAATATCCGATAGCATATATTTCCCGCATGGGTTTTATATTAAAGAAATTCGGTATGAGATGGGGATGCGTTCCATTAGTTTGTTGGCGGGGTAACGGCCCACCAAGACTACGATGGATAGGGGTTCTGAGAGGAAGGTCCCCCACATTGGAACTGAGACGCGGTCCAA +>F22Fcsw_400293 +CCGGCGCACGGGTGAGTAACACGTATCCAACCTTCCGTACACTCAGGGATAGCCTTTCGAAAGAAAGATTAATACCCGATGGCATAGTTCTTCCGCATGGTAGAACTATTAAAGGATTTCGGTCATCGATGGGGATGCGTTCCATTAGGTTGTTGGCGGGGTAACGGCCCACCAAGGCAACGATCAGTAGGGGTTCTGAGAGGAAGGTCCCCCACATTGGAACTGAGACACGGTCCAA +>F23Fcsw_133990 +GGCGACCGGCGCACGGGTGAGTAACACGTATCCAACCTGCCGACAACACTGGGATAGCCTTTCGAAAGAAAGATTAATACCGGATGGCATAGTTTTCCCGCATGGAAAAACTATTAAAGAATTTCGGTTATCGATGGGGATGCGTTCCATTAGGCAGTTGGCGGGGTAACGGCCCACCAAACCGACGATGGATAGGGGTTCTGAGAGGAAGGTCCCCCACATTGGAACTGAGACACGGTCCAA +>F23Fcsw_160873 +CGGGTGAGTAACGCGTATCCAACCTGCCTCATACTCGGGGATAGCCTTTCGAAAGAAAGATTAATATCCGATAGCATATATTTCCCGCATGGGTTTTATATTAAAGAAATTCGGTATGAGATGGGGATGCGTTCCATTAGGTAGTAGGCGGGGTAACGGCCCACCTAGCCAACGATGGATAGGGGTTCTGAGAGGAAGGTCCCCCACATTGGAACTGAGACACGGTCCAA +>F23Fcsw_86009 +GGCGACCGGCGCACGGGTGAGTAACGCGTATCCAACCTTCCGTACACTCAGGGATAGCCTTTCGAAAGAAAGATTAATACCCGATGGCATAGTTCTTCCGCATGGTAGAACTATTAAAGGATTTCGGTCATCGATGGGGATGCGTTCCATTAGGTTGTTGGCGGGGTAACGGCCCACCAAGGCAACGATCAGTAGGGGTTCTGAGAGGAAGGTCCCCCACATTGGAACTGAGACACGGTCCAA +>F23Fcsw_96640 +TCCGTACACTCAGGGATAGCCTTTCGAAAGAAAGATTAATACCCGATGGCATAGTTCTTCCGCATGGTAGAACTATTAAAGAATTTCGGTCATCGATGGGGATGCGTTCCATTAGGTTGTTGGCGGGGTAACGGCCCACCAAGCCTTCGATGGATAGGGGTTCTGAGAGGAAGGTCCCCCACATTGGAACTGAGACACGGTCCAA +>F31Fcsw_135439 +TTCGAAAGAAAGATTAATATCCGATAGCATATATTTCCCGCATGGGTTTTATATTAAAGAAATTCGGTATGAGATGGGGATGCGTTCCATTAGGTAGTAGGCGGGGTAACGGCCCACCTAGCCGGCGATGGATAGGGGTTCTGAGAGGAAGGTCCCCCACATTGGAACTGAGACACGGTCCAA +>F32Fcsw_322472 +AACCTTCCGTACACTCAGGGATAGCCTTTCGAAAGAAAGATTAATACCCGATGGCATAGTTCTTCCGCATGGTAGAACTATTAAAGAACTTCGGTCATCGATGGGGATGCGTTCCATTAGGTTGTTGGCGGGGTAACGGCCCACCAAGCCTACGATGGATAGGGGTTCTGAGAGGAAGGTCCCCCACATTGGAACTGAGACACGGCCCAG +>F33Fcsw_137774 +CTGAGTGGCGGACGGGTGAGTAACACGTATCCAACCTGCCGATGACTCGGGGATAGCCTTTCGAAAGAAAGATTAATACCCGATGGCATAGTTCTTCCGCATGGTAGAACTATTAAAGAACTTCGGTCATCGATGGGGATGCGTTCCATTAGGTTGTTGGCGGGGTAACGGCCCACCAAGCCTTCGATGGATAGGGGTTCTGAGAGGAAGGCCCCCCACATTGGAACTGAGACACGGTCCAA +>F34Fcsw_50866 +CGACCGGCGCACGGGTGAGTAACGCGTATCCAACCTTCCGTACACTCAGGGATAGCCTTTCGAAAGAAAGATTAATATCCGATAGTATATTAAAACCGCATGGTTTTACTATTAAAGAATTTCGGTTATCGATGGGGATGCGTTCCATTAGTTTGTTGGCGGGGTAACGGCCCACCAAGACTACGATGGATAGGGGTTCTGAGAGGAAGGTCCCCCACATTGGAACTGAGACACGGTCCAA +>M12Fcsw_69587 +CGGGTGAGTAACACGTGGGCAACCTGCCTCATAGAGGGGAATAGCCTTTCGAAAGAAAGATTAATATCCGATAGCATATATTTCCCGCATGGGTTTTATATTAAAGAAATTCGGTATGAGATGGGGATGCGTTCCATTAGGCAGTTGGTGAGGTAACGGCTCACCAAACCTTCGATGGATAGGGGTTCTGAGAGGAAGGTCCCCCACATTGGAACTGAGACACGGTCCAA +>M13Fcsw_127764 +GACCGGCGCACGGGTGAGTAACACGTATCCAACCTGCCTCATACTCGGGGATAGCCTTTCGAAAGAAAGATTAATATCCGATAGCATATATTTCCCGCATGGGTTTTATATTAAAGAAATTCGGTATGAGATGGGGATGCGTTCCATTAGTTTGTTGGCGGGGTAACGGCCCACCAAGACGACGATGCGTAGGGGTTCTGAGAGGAAGGTCCCCCACATTGGTACTGAGACACGGACCAA +>M13Fcsw_128004 +CGGACGGGTGAGTAACGCGTGAGTAACCTGCCGATAACTCAGGGATAGCCTTTCGAAAGAAAGATTAATACCCGATGGCATAGTTCTTCCGCATGGTAGAACTATTAAAGAATTTCGGTCATCGATGGGGATGCGTTCCATTAGGTTGTTGGCGGGGTAACGGCCCACCAAGGCGACGATGCGTAGGGGTTCTGAGAGGAAGGTCCCCCACATTGGTACTGAGACACGGACCAA +>M13Fcsw_198303 +TAACACGTATCCAACCTGCCTCATACTCGGGGATAACCTTTCGAAAGAAAGATTAATATCCGATAGCATATATTTCCCGCATGGGTTTTATATTAAAGAAATTCGGTATGAGATGGGGATGCGTTCCATTAGATAGTAGGCGGGGTAACGGCCCACCTAGTCAACGATGGATAGGGGTTCTGAGAGGAAGGTCCCCCACATTGGAACTGAGACACGGTCCAA +>M14Fcsw_117325 +GTGAGTAACACGTATCCAACCTGCCTCATACTCGGGGATAGCCTTTCGAAAGAAAGATTAATATCCGATAGCATATATTTCCCGCATGGGTTTTATATTAAAGAAATTCGGTATGAGATGGGGATGCGTTCCATTAGATAGTAGGCGGGGTAACGGCCCACCTAGTCTTCGATGGATAGGGGTTCTGAGAGGAAGGTCCCCCACATTGGAACTGAGACACGGTCCAA +>M14Fcsw_151062 +CGACCGGCGCACGGGTGAGTAACACGTATCCAACCTGCCTCATACTCGGGGATAGCCTTTCGAAAGAAAGATTAATATCCGATAGCATATATTTCCCGCATGGGTTTTATATTAAAGAAATTCGGTATGAGATGGGGATGCGTTCCATTAGTTTGTTGGCGGGGTAACGGCCCACCAAGACTACGATGGATAGGGGTTCTGAGAGGAAGGTCCCCCACATTGGAACTGAGACACGGTCCAA +>M14Fcsw_181677 +ACCGGCGCACGGGTGAGTAACACGTATCCAACCTGCCTCATACTCGGGGATAGCCTTTCGAAAGAAAGATTAATATCCGATAGCATATATTTCCCGCATGGGTTTTATATTAAAGAAATTCGGTATGAGATGGGGATGCGTTCCATTAGATAGTAGGCGGGGTAACGGCCCACCTAGTCTTCGATGGATAGGGGTTCTGAGAGGAAGGTCCCCCACATTGGAACTGAGACACGGTCCAA +>M14Fcsw_186607 +GACCGGCGCACGGGTGAGTAACACGTATCCAACCTGCCTCATACTCGGGGATAGCCTTTCGAAAGAAAGGTTAATATCCGATAGCATATATTTCCCGCATGGGTTTTATATTAAAGAAATTCGGTATGAGATGGGGATGCGTTCCATTAGTTTGTTGGCGGGGTAACGGCCCACCAAGACTACGATGGATAGGGGTTCTGAGAGGAAGGTCCCCCACATTGGAACTGAGACACGGTCCAA +>M24Fcsw_136217 +ACCGGCGCACGGGTGAGTAACACGTATCCAACCTGCCTCATACTCGGGGATAGCCTTTCGAAAGAAAGATTAATATCCGATAGCATATATTTCCCGCATGGGTTTTATATTAAAGAAATTCGGTATGAGATGGGGATGCGTCTGATTAGCTTGTTGGCGGGGTAACGGCCCACCAAGGCACCGATCAGTAGGGGTTCTGAGAGGAAGGTCCCCCACATAGGAACTGAGACACGGTCCTA +>M41Fcsw_259146 +ACCGGCGCACGGGTGAGTAACACGTATCCAACCTACCTCATACTCGGGGATAGCCTTTCGAAAGAAAGATTAATATCCGATAGCATATATTTCCCGCATGGGTTTTATATTAAAGAAATTCGGTATGAGATGGGGATGCGTTCCATTAGGTTGTTGGCGGGGTAACGGCCCACCAAGCCTTCGATGGATAGGGGTTCTGAGAGGAAGGTCCCCCACATTGGAACTGAGACACGGTCCAA +>M42Fcsw_137216 +CAACCTACCTCATACTCGGGGATAGCCTTTCGAAAGAAAGATTAATATCCGATAGCATATATTTCCCGCATGGGTTTTATATTAAAGAAATTCGGTATGAGATGGGGATGCGTTCCATTAGTTTGTTGGGGGGTAACGGCCCACCAAGACTACGATGGATAGGGGTTCTGAGAGGAAGGTCCCCCACATTGGAACTGAGACACGGTCCAA +>M42Fcsw_138199 +GACCGGCGCACGGGTGAGTAACACGTATCCAACCTACCTCATACTCGGGGATAGCCTTTCGAAAGAAAGATTAATATCCGATAGCATATATTTCCCGCATGGGTTTTATATTAAAGAAATTCGGTATGAGATGGGGATGCGTTCCATTAGTTTGTTGGGGGGTAACGGCCCACCAAGACTACGATGGATAGGGGTTCTGAGAGGAAGGTCCCCCACATTGGAACTGAGACACGGTCCAA +>M42Fcsw_225418 +CACGTATCCAACCTGCCGTCTACTCTTGGACAGCCTTCTGAAAGGAAGATTAATACCCGATGGCATAGTTCTTCCGCATGGTAGAACTATTAAAGGATTTCGGTCATCGATGGGGATGCGTTCCATTAGGTTGTTGGCGGGGTAACGGCCCACCAAGCCTTCGATGGATAGGGGTTCTGAGAGGAAGGTCCCCACATTGGAACTGAGACACGGTCCAA +>M42Fcsw_263016 +ACCTACCTCATACTCGGGGATAGCCTTTCGAAAGAAAGATTAATATCCGATAGCATATATTTCCCGCATGGGTTTTATATTAAAGAAATTCGGTATGAGATGGGGATGCGTTCCATTAGTTTGTTGGGGGGTAACGGCCCACCAAGACTACGATGGATAGGGGTTCTGAGAGGAAGGTCCCCCACATTGGAACTGAGACACGGTCCCA +>M42Fcsw_334979 +GGGATAGCCGCCCGAAAGGACGGGTAATACCCGATGGCATAGTTCTTCCGCATGGTAGAACTATTAAAGGATTTCGGTCATCGATGGGGATGCGTTCCATTAGGTTGTTGGCGGGGTAACGGCCCACCAAGCCTTCGATGGATAGGGGTTCTGAGAGGAAGGTCCCCCACATTGGAACTGAGACACGGTCCAA +>M43Fcsw_250770 +GTATCCAACCTGCCGTCTACTCTTGGACAGCCTTCTGAAAGAAAGATTAATACCCGATGGCATAGTTCTTCCGCATGGTAGAACTATTAAAGGATTTCGGTCATCGATGGGGATGCGTTCCATTAGGTTGTTGGCGGGGTAACGGCCCACCTAGTCTTCGATGGATAGGGGTTCTGAGAGGAAGGTCCCCCACATTGGAACTGAGACACGGTCCAA +>M44Fcsw_200453 +CTAGTGGCGGACGGGTGAGTAACGCGTATCCAACCTGCCGATGACTCGGGGATAGCCTTTCGAAAGAAAGATTAATACCCGATGGCATAGTTCTTCCGCATGGTAGAACTATTAAAGAACTTCGGTCATCGATGGGGATGCGTTCCATTAGATAGTAGGCGGGGTAACGGCCCACCTAGTCTTCGATGGATAGGGGTTCTGAGAGGAAGGTCCCCCACATTGGAACTGAGACACGGTCCAA
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cd_hit_protein_in.fasta Mon Oct 15 10:54:50 2018 -0400 @@ -0,0 +1,50 @@ +>sp|P00325|ADH1B_HUMAN Alcohol dehydrogenase 1B OS=Homo sapiens GN=ADH1B PE=1 SV=2 +MSTAGKVIKCKAAVLWEVKKPFSIEDVEVAPPKAYEVRIKMVAVGICRTDDHVVSGNLVT +PLPVILGHEAAGIVESVGEGVTTVKPGDKVIPLFTPQCGKCRVCKNPESNYCLKNDLGNP +RGTLQDGTRRFTCRGKPIHHFLGTSTFSQYTVVDENAVAKIDAASPLEKVCLIGCGFSTG +YGSAVNVAKVTPGSTCAVFGLGGVGLSAVMGCKAAGAARIIAVDINKDKFAKAKELGATE +CINPQDYKKPIQEVLKEMTDGGVDFSFEVIGRLDTMMASLLCCHEACGTSVIVGVPPASQ +NLSINPMLLLTGRTWKGAVYGGFKSKEGIPKLVADFMAKKFSLDALITHVLPFEKINEGF +DLLHSGKSIRTVLTF +>tr|K7D361|K7D361_PANTR Alcohol dehydrogenase 1B (Class I), beta polypeptide OS=Pan troglodytes GN=ADH1B PE=2 SV=1 +MSTAGKVIKCKAAVLWEVKKPFSIEDVEVAPPKAYEVRIKMVAVGICRTDDHVVSGNLVT +PLPAILGHEAAGIVESVGEGVTTVKPGDKVIPLFTPQCGKCRVCKNPESNYCLKNDLGNP +RGTLQDGTRRFTCRGKPIHHFLGTSTFSQYTVVDENAVAKIDAASPLEKVCLIGCGFSTG +YGSAVNVAKVTPGSTCAVFGLGGVGLSAVMGCKAAGAARIIAVDINKDKFAKAKELGATE +CINPQDYKKPIQEVLKEMTDGGVDFSFEVIGRLDTMMASLLCCHEACGTSVIVGVPPASQ +NLSINPMLLLTGRTWKGAVYGGFKSKEGIPKLVADFMAKKFSLDALITHVLPFEKINEGF +DLLHSGKSIRTVLTF +>sp|P00329|ADH1_MOUSE Alcohol dehydrogenase 1 OS=Mus musculus GN=Adh1 PE=2 SV=2 +MSTAGKVIKCKAAVLWELHKPFTIEDIEVAPPKAHEVRIKMVATGVCRSDDHVVSGTLVT +PLPAVLGHEGAGIVESVGEGVTCVKPGDKVIPLFSPQCGECRICKHPESNFCSRSDLLMP +RGTLREGTSRFSCKGKQIHNFISTSTFSQYTVVDDIAVAKIDGASPLDKVCLIGCGFSTG +YGSAVKVAKVTPGSTCAVFGLGGVGLSVIIGCKAAGAARIIAVDINKDKFAKAKELGATE +CINPQDYSKPIQEVLQEMTDGGVDFSFEVIGRLDTMTSALLSCHAACGVSVVVGVPPNAQ +NLSMNPMLLLLGRTWKGAIFGGFKSKDSVPKLVADFMAKKFPLDPLITHVLPFEKINEAF +DLLRSGKSIRTVLTF +>sp|P00338-2|LDHA_HUMAN Isoform 2 of L-lactate dehydrogenase A chain OS=Homo sapiens GN=LDHA +MATLKDQLIYNLLKEEQTPQNKITVVGVGAVGMACAISILMKDLADELALVDVIEDKLKG +EMMDLQHGSLFLRTPKIVSGKDYNVTANSKLVIITAGARQQEGESRLNLVQRNVNIFKFI +IPNVVKYSPNCKLLIVSNPVDILTYVAWKISGFPKNRVIGSGCNLDSARFRYLMGERLGV +HPLSCHGWVLGEHGDSSVPVWSGMNVAGVSLKTLHPDLGTDKDKEQWKECRYTLGDPKGA +AILKSSDVISFHCLGYNRILGGGCACCPFYLICD +>sp|P00338-5|LDHA_HUMAN Isoform 5 of L-lactate dehydrogenase A chain OS=Homo sapiens GN=LDHA +MATLKDQLIYNLLKEEQTPQNKITVVGVGAVGMACAISILMKDLADELALVDVIEDKLKG +EMMDLQHGSLFLRTPKIVSGKDYNVTANSKLVIITAGARQQEGESRLNLVQRNVNIFKFI +IPNVVKYSPNCKLLIVSNPVDILTYVAWKISGFPKNRVIGSGCNLDSARFRYLMGERLGV +HPLSCHGWVLGEHGDSSVPVWSGMNVAGVSLKTLHPDLGTDKDKEQWKEVHKQVVERVFT +E +>sp|P00340|LDHA_CHICK L-lactate dehydrogenase A chain OS=Gallus gallus GN=LDHA PE=1 SV=3 +MSLKDHLIHNVHKEEHAHAHNKISVVGVGAVGMACAISILMKDLADELTLVDVVEDKLKG +EMLDLQHGSLFLKTPKIISGKDYSVTAHSKLVIVTAGARQQEGESRLNLVQRNVNIFKFI +IPNVVKYSPDCKLLIVSNPVDILTYVAWKISGFPKHRVIGSGCNLDSARFRHLMGERLGI +HPLSCHGWIVGEHGDSSVPVWSGVNVAGVSLKALHPDMGTDADKEHWKEVHKQVVDSAYE +VIKLKGYTSWAIGLSVADLAETIMKNLRRVHPISTAVKGMHGIKDDVFLSVPCVLGSSGI +TDVVKMILKPDEEEKIKKSADTLWGIQKELQF +>sp|P19858|LDHA_BOVIN L-lactate dehydrogenase A chain OS=Bos taurus GN=LDHA PE=2 SV=2 +MATLKDQLIQNLLKEEHVPQNKITIVGVGAVGMACAISILMKDLADEVALVDVMEDKLKG +EMMDLQHGSLFLRTPKIVSGKDYNVTANSRLVIITAGARQQEGESRLNLVQRNVNIFKFI +IPNIVKYSPNCKLLVVSNPVDILTYVAWKISGFPKNRVIGSGCNLDSARFRYLMGERLGV +HPLSCHGWILGEHGDSSVPVWSGVNVAGVSLKNLHPELGTDADKEQWKAVHKQVVDSAYE +VIKLKGYTSWAIGLSVADLAESIMKNLRRVHPISTMIKGLYGIKEDVFLSVPCILGQNGI +SDVVKVTLTHEEEACLKKSADTLWGIQKELQF
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/db1.fasta Mon Oct 15 10:54:50 2018 -0400 @@ -0,0 +1,598 @@ +>MISEQ-1639_50_000000000-ATW8R_1_1101_2470_14480_TTGACACCTCTTTCCC +aacgcacattgcgcctcgaggcattcctcgaggcatgcctgtttgagcgtcgcatcccctctaacccccggttaggcgttgctccgaaatatcaaccgcgctgtcaaacacgtttacagcacgacatttcgccctcaaatcaggtaggactacccgctgaacttaa +>MISEQ-1639_51_000000000-ATW7A_1_2112_20171_24879_TTGACACC +aacgcacattgcgccccttggtattccgaggggcatgcctgttcgagcgtcattacaccactcaagctatgcttggtattgggcgtcgtccttagttgggcgcgccttaaagacctcggcgaggccactccggctttaggcgtagtagaatttattcgaacgtctgtcaaaggagaggaactctgccgactgaaacctttatttttctaggttgacctcggatcaggtagggatacccgctgaacttaa +>MISEQ-1639_78_000000000-B3PNL_1_1102_3280_9288_TACCGTAG +aacgcaaattgcactctcgtcttcgcgacaagagtttgcctctttcagcatcggttctatttgttttcttaccttgtgtggggaaacgaaagtgagagttatcttcaccggaagatatctctttaagtgttggagaaaacaaaggttcatttcttgttttcttgtgtgataattcgcttcggcgattctccaagatgacttaaaatgtttccaatgtatctcgtctaaagttgatgtgtctcgaaagagatgccaaaacacaaccattggttgtcttttttgatccgatctgaaatgaagcaaggttacccgctgaacttaa +>MISEQ-1639_51_000000000-ATW7A_1_2101_4746_9076_TTGACACC +aacgcacattgcgccccttggtattccggggggcatgcctgttcgagcgtcatttcaaccctcaagcttagcttggtattgagtctatgtcagtaatggcaggctctaaaatcagtggcggcgccgctgggtcctgaacgtagtaatatctctcgttacaggttctcggtgtgcttctgccaaaacccaaatttttctatggttgacctcggatcaggtagggatacccgctgaacttaa +>MISEQ-1639_81_000000000-B4L4B_1_2109_25031_20953_GTCGATAC +aacgcacattgcgccctgtggtattccacagggcatgcctgtttgagcgtcatttctccctcaaacctctggtttggcgttgagtgatactcggtttacttgaaaaacatgaaaagcataactattaggttttaccaactcgttatactaatctacaagtttgacctcaaatcaggtaggactacccgctgaacttaa +>MISEQ-M4070_81_000000000-B4JFH_1_2104_13788_3780_TATGCCAC +aacgcaagttgcggtcttcttacgaagaccatgtttgcctgagggttgttaacacatcaaattgaggttgtgtgtttcttaattgaagcactcccttgaaatctagtttgaggccaagtttacttggttcaatcttgttattgaatccatatgtaagtaagcaatttgcttgcttgcaacctcgaaccatattttcacaaataagggtttaatagtgagatcttcggatcttgcttccttaactaagcacttattgaaggagaatgtgaattcaaggaatggtttttcagatattgagactttcttcactaacgtgtaaagaagtatcaatatgcataattcaaatcgcaacctcagatcaagcaagactacccgctgaacttaa +>MISEQ-1639_50_000000000-ATW8R_1_1102_17771_4855_TTGACACCTCTTTCCC +aacgcaacttgcgctgtcgagtaaccctcttcagcatgcctccttgagcatcgtttgtgcacccccttccgggctcttctccttgccctcgagccgaccttttcctaaaagtcacctcgggggtcgaatcgagcggtcccggttgctagtccccagcccccacagagcgtgccctgtcacacctagtgtgccctggccttcttgcgggccggaccggcgaccctcagtaacggaccttcaaatgaccaaaccgcacgatctcaagtgaggcaaggctacccgccgaacttaa +>MISEQ-1639_78_000000000-B3PNL_1_1104_11204_22301_TACCGTAG +aacgcacattgcgcccgccagtattctggcgggcatgcctgtccgagcgtcatttcaaccatcaagcccccggcttgtgttggggacctgcggcacacccgcaggccctgaaaaccagtggcgggctcgctgtccacaccgagcgtagtagcatctttgtctcgctcagggcgtggggcgggttccggccgtgaaagccaccttctcaaggtacccaaaggttgacctcggatcaggtaggaagacccgctgaacttaa +>MISEQ-1639_50_000000000-ATW8R_1_1101_2660_12531_TTGACACCTCTTTCCC +aacgcatcttgcgccttttggtattccaaaaggcacacctgtttgagtgtcatgaaaccctctcattaaacattttttaacttgtttaaacttgtttagtggatgttgagtgttgctgtcattagctcactttaaatatataagtcacttttcaaataagttggattgacttggtgtaataattttatcatcacatcaaggaaagtagcaatacttgccatcttgtttaatataagggacttctaaaaaccccccttttttcaaaatttaagacctcaaatcaggtgggactacccgctgaacttaa +>MISEQ-1639_50_000000000-ATW8R_1_1101_16274_21582_GTATTGGCTCTTTCCC +aacgcacattgcgcccgccagcattctggcgggcatgcctgttcgagcgtcatttcaaccctcgacctccctttggggaagtcggcgttggggaccggcagcacaccgccggccctgaaatggagtggcggcccgtccgcggcgacctctgcgtagtaaaccaactcgcaccggaaccccgacgtggccacgccgtaaaacacccaacttctgaacgttgacctcgaatcaggtaggactacccgctgaacttaa +>MISEQ-1639_51_000000000-ATW7A_1_1116_18951_12440_AAGTCGGA +aacgcacattgcgccctctggtattccggagggcatgcctgtttgagcgtcgtttctccctcaaaccgctgggtttggtgttgagcaatacgacttgggtttgcttgaaagacggtagtggtaaggcgggatcgctttgacaatggcttaggtctaaccaaaaacattgcttgcggcggtaacgtccaccacgtatatcttcaaactttgacctcaaatcaggtaggactacccgctgaacttaa +>MISEQ-1639_78_000000000-B3PNL_1_1107_6648_2646_TACCGTAG +aacgcaccttgcgctccatggcattccgtggagcatgcctgtttgagtgccgcgaaatctcccacccctagcggttgccgcaaggcgccgccgggcggcggggttggttgggtgccgctgcctgggctttggcccaggctcgcccgaaatgcatgagcgcttagcactcgcaccgtctcgagggaaggcggcggagctggcatctgcgcatggcatgatacgtcatttgctgtgtggcagcccagcgacccgagagtgtgtgtgcgctactacacgccctttcatttctggtctcaaatcaggtaggatcacccgctgaacttaa +>MISEQ-1639_50_000000000-ATW8R_1_1101_11986_10348_AAGTCGGATCTTTCCC +aacgcacattgcgcccggcagtaatctgccgggcatgcctgtccgagcgtcatttcaaccctcgaacctctgtttcctcagggaagctcagggtcggtgttggggcgctacggcgagtcttcgcgacccccgtaggccctgaaatacagtggcggtcccgccgcggtagccttctgcgtagtaagtctcttttgcaagctcgcattgggtcccggcggaggcctgccgtcaaaccactataactccagatggtttgacctcggatcaggtagggttgcccgctgaacttaa +>MISEQ-M4070_81_000000000-B4JFH_1_2102_27068_5057_ATGCATGA +aacgcaccttgcgctccttggtattccgaggagcatgcctgtttgagtgtcatgaaaccctcaaacccaagttttggatttcgatccatgcttgagtttggatttggatgtttgccggtgatgaaccgactcatcttaaaagtattagcttggatctgtctatatgactggtttgacttggcataataagtattttgctgaggacatcttcggatggccaggacctagactactgtctgctaactaaaccatcactttaagtgcatctttggatgttactcattgtgtaactttgacatctggcctcaaatcaagtaggactacccgctgaacttaa +>MISEQ-1639_78_000000000-B3PNL_1_1103_10079_22181_TACCGTAG +aacgcaattggcgtcggtgcaagccggcatgctcgattcagtgtgttcggaaatcacacaactcaatgtggttgacaggaaatgaaatattttcactccctttctcccattaaacgatctcgaatggaggagtatttcttcctctccccggaagtagtcactattccttagtgtcctcccagggggagccgaacagaaatatgcacaaatccacacatatatacatattctccactcgacacctgagtcgaacaagatcacccgctgaacttaa +>MISEQ-1639_78_000000000-B3PNL_1_1103_21552_14438_TACCGTAG +aacgcaaatggcgctagcgtagagctagcatgtttgtttcagtgtgtaaggagcatcacataactaaatgcgattgacgaaagtctctcgttaaatttgacaattgcctgagaaggcaaaccaaatgatgtagtcacattcgttgtgatctcatttgcgtttcgctaactctataagggtattgttacattacactctccaaactgcacctgaaatcaagcaagaacacccgctgaacttaa +>MISEQ-1639_78_000000000-B3PNL_1_1102_24153_22433_TACCGTAG +aacgcatgttgcgctctgcgggactcgtcccaaagagcatgcctgtttgagaatctgttttatcttatcaccaacgtgttggtggaaaatggatgtcaattgagaaattgtcatctgaagtaacgacctgtgacgtgctcacttaagtaactaatgttgtgcaaggtaatttacactgctataacactagagaaatgtgagtagccgattgcagactgcgaaagcagaaaaaaatattctacttcagatctcaaatcaggcaagagtacccgctgaacttaa +>MISEQ-1639_50_000000000-ATW8R_1_1105_9632_8394_AATCGACCTCTTTCCC +aacgcacattgcaccctctggtattccagagggtatgcctgtttgagcgtcatttctctctcaaaccttcgggtttggtattgagtgatactctgtcaagggttaacttgaaatattgacttagcaagagtgtactaataagcagtctttctgaaataatgtattaggttcttccaactcgttatatcagctaggcaggtttagaagtattttaggctcggcttaacaacaataaactaaaagtttgacctcaaatcaggtaggactacccgctgaacttaa +>MISEQ-1639_78_000000000-B3PNL_1_1107_13166_16261_TATGCCAC +aacgcacattgcaccctctggtattccagagggtatgcctgtttgagcgtcatttctctctcaaacctttgggtttggtattgagtgatactcttagtcgaactaggcgtttgcttgaaatatattggcacgagtagtgttgaacagtgttgtctgaacatcaatgtattaggtttatccaactcgttgaagcgtttaggtattactattcttcattaggctttgccttataaaacacaaacaagtttgacctcaaatcaggtaggattacccgctgaacttaa +>MISEQ-1639_78_000000000-B3PNL_1_2105_8219_22547_TATGCCAC +aacgcaccttgcactctttggtattccgaagagtatgtctgtttgagtgtcatgaaactctcaacccccctattttgtaatgagatgggcgtgggcttggattatgactgctgtcggcgtaattgccggctcagttgaaatacacgagcaacccatttgaaataaacggcttgactcggcgtaataattatttcgctgaggacgttttcttcaaaagttagaggtgcttctaatgcgctattacagcactttaaattttagacctcaaatcagtcaggactacccgctgaacttaa +>MISEQ-1639_78_000000000-B3PNL_1_1112_13942_19760_TACCGTAG +aacgcaccttgcgctccctggtattccggggagcatgcctgtttgagtgtcgtgaaatcatcatggtcatgatctttaattaatcatggcttggttttggaggttatgttggctttttattaagttgactcctcttaaatacattagctcagtgtttaatgcttagagcggttcacggtgtgataattatctacacttcaaccaatttaagttagctggcttctaatcgatccttagtgatcactttgtgtatttgacctcaaatcaggtaggactacccgctgaacttaa +>MISEQ-1639_50_000000000-ATW8R_1_2107_16792_14531_AAGTCGGATCTTTCCC +aacgcatattgcgctctctggtattccggagagcatgcttgtttgagtatcagtaaacacctcaactccctttttcttttttgaaatgagggagctggacttgagtgatcccaacacttttctcactgaaaagtggcgggtcacttgaaatgcaggtgcagctggacttttctctgagctataagcatatctatttagtctgcctaaaaaacagattattacctttgctgcagctaacataaaggagatgagttcttgtgctgactgatgcaggattcacagagacagctttacggctgactttgtaaactcgatctcaaatcaagtaagactacccgctgaacttaa +>MISEQ-1639_78_000000000-B3PNL_1_1102_11984_18999_TACCGTAG 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+aacgcaagtggcgccgattttcggcatgtttgtttcagtgtggaaggaatcacaaatcaaaatgcgattgatgggaaaccgaagcttgggaaaccaagcttttggtgaccgattctctcgttaaacacgtcggtaaaatctgcaagaactcttccagattcgccgcgcgaacgaagtagtctcattttatgagatctcggacgcgtataattaaaaggcgaaacaaaactctgagagctcaattcaaaaagcagaccgcagaaaaaactaaaaaacaattctctaccacctgaaatcaagcaagacgacccgctgaacttaa +>MISEQ-1639_78_000000000-B3PNL_1_1104_17627_8852_TACCGTAG +aacgcacatggcgcttccggtgctcaaacactgggagcatgcctctttcagtatcactttatttatcaccatattctttatggtggaaatgagcatcacatgtaaaagtgcgttgctttaaatagagggttatgtagttatttggtatctgcggtggaaatcgtcttatactgaatgattgggtaaccaagcccagacgtgcgaatagaatattagcacgttaattcaaccaccgatctgaaatgaggtaagagaaccacgttaattcaaccaccgatctgaaatgaggtaagagaacccgctgaatttaa +>MISEQ-1639_50_000000000-ATW8R_1_1102_6945_6445_GTATTGGCTCTTTCCC +aacgcacattgcgcttcctggacactcctgggagcatacctgtttcagtgtctgttaaaccctcataacctgtcacgggttgtggatgacgggcgtccgcgcatcgcgcgcggtcgcctgaggtacagcgacgtgccgcccgctcgcagctccgcgagcccgtgcgcatggtgtggtaggttttccagggactgtcgcgcgcccacgggcgcgtgtgagcctccgagatttcaacaacccccgttgccgcgagcccagggagagcactgcgagcggcgcccccgcgcgtcgggctttgagtagcccgccccaagcctgtgcgcagcggagagcgcgcgcgcacgcgagagcacttttttgtgcacccgcgcgcgcgcgcgcccccgtctgcgtcactgcatttcggacctgaaatcaggcaagaggacccgctgaatttaa +>MISEQ-1639_50_000000000-ATW8R_1_1105_4632_8929_GTATTGGCTCTTTCCC +aacgcatattgcacttttaagtattcttaaaagtatatttatttgagtgtcatttaacaactccattagtgacctcaaattaaataagattacccgctgaatttaa +>MISEQ-1639_50_000000000-ATW8R_1_1111_20211_3493_GTATTGGCTCTTTCCC 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+aacgcacattgcacctaccagtattctggtaggtatgcctgttcgagcgtcatttcaaccctcaagctttgcttggtgttggggtcctacgcctcgcgcgtaggcccttaagactagtggcggaccttttgtgatcccgagcgtagtaattattaccgctttggagagctggagggacctagccgttaaaccctatgttctcaaggttgacctcggatcaggtaggaatacccgctgaacttaa +>MISEQ-1639_78_000000000-B3PNL_1_1114_9017_19938_ATGCATGG +aacgcacattgcgcttcctggtattccggggagcatgctcgtttcagaatcaatatgttctcacaaactatatgggttgcaaaacccctattgggcgtggatttgggcatttttgctatggtgtctttgtgcaacattgcaattgccttaaaatgattgcgtgtatgccccaattggtagtaattggtttaccctcaatgcaacagtcaaatgaaacattttgggggaccttttgtgaacatttgacttggaatacacttccattctatacagcaaccatctctagtattgagattgtttctgaaccttggtctgaaatcgagcaagaaaacccgctgaacttaa +>MISEQ-1639_51_000000000-ATW7A_1_1113_17822_19450_AATCGACC +aacgcaccttgcgctccttggtattccgaggagcatgcctgtttgagtgtcattgatatatatcaaccctcttgcttgtcgagaggtttggatgtgggggttttgctgacatctttttctaaaagagttcagctctcctgaaatacattagcggaacgaacctgttcattggtgtgataactatctatgctattgaatgtgaggggctagttcagctttctatccgtctttggacaatctattgttaatgtgacctcaaatcaggtaggactacccgctgaacttaa +>MISEQ-1639_78_000000000-B3PNL_1_2106_19795_10289_TATGCCAC +aacgcacattgcgcccgccagtattctggcgggcatgcctgtctgagcgtcgtttcgaccctcgcgcccggcttctgtcgggggcggtgttggggatcggccacaccctttactgggcggccgtcccctaaatccagtggcgaccacgctgtagccttccctgcgtagtactaaaaccacctcgcaggcggagagcggtgcggcccgccgtaaaaccccccaacttttacaaggtcgacctcaggtcaggtaggaatacccgctgaacttaa +>MISEQ-1639_50_000000000-ATW8R_1_1111_8635_3332_TTGACACCTCTTTCCC +aacgcacattgcgccctttggtattccgaagggcatgcctgttcgagcgtcattttcacccctcaagcccccggcttggtgttggacggtttggtccagggccccccctggacccctcccaaagacaatgacggcgggctgttgcacccccggtacactgagcatcttcacggagcacgtaccggtctcaagggtcgacggcacccggtctacacctatatctttcacaaggttgacctcggatcaggtaggaatacccgctgaacttaagccctttggtattccgaagggcatgcctgttcgagcgtcattttcacccctcaagcccccggcttggtgttggacggtttggtccagggccccccctggacccctcccaaagacaatgacggcgggctgttgcacccccggtacactgagcatcttcacggagcacgtaccggtctcaagggtcgacggcacccggtctacacctatatctttcacaaggttgacctcggatcaggtaggaatacccgctgaacttaa +>MISEQ-1639_78_000000000-B3PNL_1_2115_16628_11115_TACCGTAG 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+aacgcacattgcgccccctggtattccggggggcatgcctgtccgagcgtcattacaaccctcaagctcagcttggtgttgggccccgccgccccggcgggccctaaagtcagtggcggtgccgtccggctccgagcgtagtaattcttctcgctctggaggtccggtcgtgtgcttgccagcaacccccaatttttttcaggttgacctcggatcaggtagggatacccgctgaacttaa +>MISEQ-1639_78_000000000-B3PNL_1_1104_20416_21905_TACCGTAG +aacgcaaatggcgctcttcggctcgcccggagagcaggcctccttcagcgtcgtttcatctctcactcactaacctgagtggattatggagtgtcttttttgcgcaagcgacaaagacctcttaaggaatagttgacttgtggttttgacagtgcttcggcattgtaaagactaaccacgaacaagtttcagatgttaatgtttactctccaagagttagttcacctttgtgtgatccaaacttggatgactaactacgcattttggtgtgcagttggtgatcgcatacaattattctaacattcgacctgaagtgaagtcggaggacccgctgaacttaa +>MISEQ-1639_50_000000000-ATW8R_1_1114_17108_6350_GTATTGGCTCTTTCCC +aacgcaaatggcacctatgcttgcataggtacatctatttgagtgttggtttttaccatcaacctcaaattagatgagagtacccgctgaatttaa +>MISEQ-1639_78_000000000-B3PNL_1_1106_14470_15263_TACCGTAG +aacgcaccttgcgctccttggtattccgaggagcatgcctgtttgagcgtcgtgaatctctcaacccacaaattgtttgttcagtttgtgcggcttggacttggaggcattgctggcgatggtcagctcctctcaaatgtattagctgggcttagctcggtggaacggttagtgtgatatcactttgaatctgacctcaaatcaggtaggactacccgctgaacttaa +>MISEQ-M4070_81_000000000-B4JFH_1_2103_9975_10375_TACCGTAG +aacgcaaatggcgccgtcggcacatgccggcggcatgtctgcttgagaatcagtaaccaaaacaaaccactggatcaccggggggcgggcgaagtttgttcttccccttcttcaggtggagcagcgtgggctgtcaggggaggggcgctcgcgcctcactcttgtcgcctgaaatgagcgctcacaatgtgcgcaggcaacgcaaagtgtgcgtgtgggtgcttggcatgagggccggcgtggcacggaacttcttgttcttgttcgctcgctgctcggccaggcgcacaggcgcgcgcaccgtcgcggtgcattttgcgcacagaaatcatgcagatgatctcaagtcaggcaagggtacccgctgaatttaa +>MISEQ-1639_50_000000000-ATW8R_1_1106_4432_6824_GTATTGGCTCTTTCCC +catatcaataagcggaggaactgtagtacactacagtgtgagtcatcgaatcttt +>MISEQ-1639_78_000000000-B3PNL_1_1106_14590_19880_ATGCATGG +aacgcacattgcactgtctggaactccgggcagtatacctgtttgagtatcagctactactctcactatcagtcactttggtggtctagtgaggacttgagttatcatggactaccctcgggaagactgtgcgactttaaatatgtaccagcgtccctaggatcgctgtttccttgcagagttgatggccttgtgcctaatcctgttagggtagcaaatcgtatacctagtggttaaccgtagctggctaaaaaccatacagtggtcagtagtaactggccgactgtgactttgatctcaaatcaggtaagattacccgctgaacttaa +>MISEQ-1639_51_000000000-ATW7A_1_1109_14958_23601_ACGAGAGA +aacgcaccttgcgctccttggtattccgaggagcatgcctgtttgagtgtcatgaaattctcaacctaacaagttcttaaccggacttgcttaggcttggacttggaggcttgtcggctcttagcagtcggctcctctcaaatgcattagctttggttccttgcggatcggctcacggtgtgataattgtctacgccgcgaccgttgaagcgttttaatggccagcttctaatcgtctcttgcgaacctcaaatcaggtaggactacccgctgaacttaa +>MISEQ-1639_50_000000000-ATW8R_1_2105_6505_5183_TGTTAGGCTCTTTCCC +aacgcaccttgcgctccttggtattccgaggagcatgcctgtttgagtgtcatgaaactctcaaacccaagttttggatttcgatccatgcttgagtttggatttggatgtttgccggtgataagccgactcatcttaaaagtattagctagatctgtctctatgactggtttgacttggcataataagtattttgctgaggacatcttcggatggccaggacctagactattgtatgctaactaaaccatcacttaatgtgtaacttcgacatctggcctcaaatcaggtaggactacccgctgaacttaa +>MISEQ-1639_51_000000000-ATW7A_1_2102_25721_20172_AAGTCGGA +aacgcacattgcgcccgccagcattctggcgggcatgcctgttcgagcgtcatttcaaccctcgagcccccccgggggcctcggtgttgggggacggcacaccagccgcccccgaaatgcagtggcgaccccgccgcagcctcccctgcgtagtagcacacacctcgcaccggagcgcggaggcggtcacgccgtaaaacgcccaactttcttagagttgacctcggatcaggtaggaatacccgttgaacttaagtggctccccccagcattttggctgttattccttttcgagcgtcatttcaaccctcgagcccccccgggggcctcggtgttgggggacggcacgccagccgcccccgaaatgcagtggcgaccccgccgcagcctcccctgcgtagtagcacacacctcgcaccggagcgcggaggcggtcacgccgtaaagcgcccaactttcttagagttgacctcggatcaggtaggaatacccgctgaacttaa \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/db2.fasta Mon Oct 15 10:54:50 2018 -0400 @@ -0,0 +1,560 @@ +>MISEQ-1639_50_000000000-ATW8R_1_1101_2470_14480_TTGACACCTCTTTCCC +aacgcacattgcgcctcgaggcattcctcgaggcatgcctgtttgagcgtcgcatcccctctaacccccggttaggcgttgctccgaaatatcaaccgcgctgtcaaacacgtttacagcacgacatttcgccctcaaatcaggtaggactacccgctgaacttaa +>MISEQ-1639_51_000000000-ATW7A_1_2112_20171_24879_TTGACACC +aacgcacattgcgccccttggtattccgaggggcatgcctgttcgagcgtcattacaccactcaagctatgcttggtattgggcgtcgtccttagttgggcgcgccttaaagacctcggcgaggccactccggctttaggcgtagtagaatttattcgaacgtctgtcaaaggagaggaactctgccgactgaaacctttatttttctaggttgacctcggatcaggtagggatacccgctgaacttaa +>MISEQ-1639_78_000000000-B3PNL_1_1102_3280_9288_TACCGTAG +aacgcaaattgcactctcgtcttcgcgacaagagtttgcctctttcagcatcggttctatttgttttcttaccttgtgtggggaaacgaaagtgagagttatcttcaccggaagatatctctttaagtgttggagaaaacaaaggttcatttcttgttttcttgtgtgataattcgcttcggcgattctccaagatgacttaaaatgtttccaatgtatctcgtctaaagttgatgtgtctcgaaagagatgccaaaacacaaccattggttgtcttttttgatccgatctgaaatgaagcaaggttacccgctgaacttaa +>MISEQ-1639_51_000000000-ATW7A_1_2101_4746_9076_TTGACACC +aacgcacattgcgccccttggtattccggggggcatgcctgttcgagcgtcatttcaaccctcaagcttagcttggtattgagtctatgtcagtaatggcaggctctaaaatcagtggcggcgccgctgggtcctgaacgtagtaatatctctcgttacaggttctcggtgtgcttctgccaaaacccaaatttttctatggttgacctcggatcaggtagggatacccgctgaacttaa +>MISEQ-1639_81_000000000-B4L4B_1_2109_25031_20953_GTCGATAC +aacgcacattgcgccctgtggtattccacagggcatgcctgtttgagcgtcatttctccctcaaacctctggtttggcgttgagtgatactcggtttacttgaaaaacatgaaaagcataactattaggttttaccaactcgttatactaatctacaagtttgacctcaaatcaggtaggactacccgctgaacttaa +>MISEQ-M4070_81_000000000-B4JFH_1_2104_13788_3780_TATGCCAC 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+aacgcacattgcacctaccagtattctggtaggtatgcctgttcgagcgtcatttcaaccctcaagctttgcttggtgttggggtcctacgcctcgcgcgtaggcccttaagactagtggcggaccttttgtgatcccgagcgtagtaattattaccgctttggagagctggagggacctagccgttaaaccctatgttctcaaggttgacctcggatcaggtaggaatacccgctgaacttaa +>MISEQ-1639_78_000000000-B3PNL_1_1114_9017_19938_ATGCATGG +aacgcacattgcgcttcctggtattccggggagcatgctcgtttcagaatcaatatgttctcacaaactatatgggttgcaaaacccctattgggcgtggatttgggcatttttgctatggtgtctttgtgcaacattgcaattgccttaaaatgattgcgtgtatgccccaattggtagtaattggtttaccctcaatgcaacagtcaaatgaaacattttgggggaccttttgtgaacatttgacttggaatacacttccattctatacagcaaccatctctagtattgagattgtttctgaaccttggtctgaaatcgagcaagaaaacccgctgaacttaa +>MISEQ-1639_51_000000000-ATW7A_1_1113_17822_19450_AATCGACC +aacgcaccttgcgctccttggtattccgaggagcatgcctgtttgagtgtcattgatatatatcaaccctcttgcttgtcgagaggtttggatgtgggggttttgctgacatctttttctaaaagagttcagctctcctgaaatacattagcggaacgaacctgttcattggtgtgataactatctatgctattgaatgtgaggggctagttcagctttctatccgtctttggacaatctattgttaatgtgacctcaaatcaggtaggactacccgctgaacttaa 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+aacgcatattgcactcttgtcttcgcgatgagagtatacctctttcagtatcggttctatctcaatacttgaattagtattggaaaatgagagttattattcttatgtgggtaatatctcttgaattgttatgttgaagcgtccgtactcatcgggcactgattatatactgaacacttcaaatgttttagttcgcttttgtagcgattcactcatttgcatttgtgtgtttctgtgtgtgatcaatacctgtaaaaatgtatgttggcttcctctacaatgacggtagcattcaacccagttgaatgattcacttgtcaaaactatatactgattctgatctgaaatgaggcaaggttacccgctgaacttaa +>MISEQ-1639_50_000000000-ATW8R_1_1113_22185_9959_AAGTCGGATCTTTCCC +aacgcatattgcgctctttggtattccgaagagcatgcttgtttgagtatcagtaaacacctcaaagacttcaatttgttttgaatggctttggacttgagcaatcccaacaccagtctttacgatcggtggggggttgcttgaaatgcaggtgcagctggacattctcctgagctaaaagcatatttatttagtcccgtcaaacggattattacttttgctgcagctaacataaagggagtttgaccatattcgatgacagatccaggaagactacccgctgaacttaa +>MISEQ-1639_51_000000000-ATW7A_1_1108_23183_16804_AATCGACC +aacgcatattgcgctctttggtattccgaagagcatgcttgtttgagtatcagtaaacacctcaaagacttcaatttgttttgaatggctttggacttgagcaatcccaacaccagtctttacgatcggtggagggttgcttgaaatgcaggtgcagctggacattctcctgagctaaaagcatatttatttagtcccgtcaaacggattattacttttgctgcagctaacataaagtgagtttgataaaactcgatcacaaatgaaggaagactactcgctgaacttaa +>MISEQ-1639_51_000000000-ATW7A_1_2112_12797_24728_AATCGACT +aacgcatattgcgctctttggtattccgaagagcatgcttgtttgagtatcagtaaacacctcaaagacttcaatttgttttgaatggctttggacttgagcaatcccaacaccagtctttacgatcggtggagggttgcttgaaatgtaggtgcagctggacattctcctgagctaaaaccatatttatttagtcccgtcaaacggattattacttttgctgcagctaaaataaagggagtttgataaaactcgatgactgatcaagtaagaatacccgctgaacttaat +>MISEQ-1639_51_000000000-ATW7A_1_1116_25567_9198_ACGAGAGA +aacgcatattgcgctctttggtattccgaagagcatgcttgattgagtatcagtaaacacctcaaagacttcaatttgttttgaatggctttggacttgagcaatcacaacaccagtctttacgatcggtggagggttgcttgaaatgcaggtgcagctggacattctcctgagctaaaagcatatttatttagtcccgtcaaacggattattacttttgctgcagctaacataaagggagtttgataaaactggctctctaatcaagtaagactacccgctgaacttaa +>MISEQ-1639_78_000000000-B3PNL_1_1107_3603_14752_ATGCATGG +aacgcatattgcgctctttggtattccgaagagcatgcttgtttgagtatcagtaaacacctcaaagacttcaatttgttttgaatggctttggacttgagcaatcccaacaccagtctttacgatcggtggagggttgcttgaaatgcaggtgcagctggacattctcctgagctaaaagaatatttatttagtccagtcaaacggattattacttttgctgcagctaccataaagggagtttgataaaactcgatctcagatccagtaagactacccgctgaacttaat +>MISEQ-1639_78_000000000-B3PNL_1_2104_19995_22755_ATGCATGG +aacgcatattgcgctctttggtattccgaagagcatgcttgtttgagtatcagtaaacacctcaaagacttcaatttgttttgaatggctttggacttgagcaatcccaacaccagtctttacgatcggtggagggttgcttgaaatgcaggtgcagctggacattctcctgagctaaaagcatatttatttagtcccgtaaaacgggatctcaaatcaagtaagactacccgctgaacttaa +>MISEQ-1639_78_000000000-B3PNL_1_1115_16169_21596_ATGCATGG +aacgcatattgcgctctttggtattccgaagagcatgcttgtttgagtatcagtaaacacctcaaagacttcaatttgttttgaatggctttggacttgagcaatcccaacaccagtctttacgatcggtggagggttgcttgaaatgcaggtgcagctggacattctcctgagctaaaagcatatttatttagtcccgtcaaacggattattacttttgctgcagctaacataaagggagattgaaaatcaagtaagactgcccgctgaacttaa +>MISEQ-1639_78_000000000-B3PNL_1_2118_17053_20751_ATGCATGG +aacgcacattgcgcccgccagcattctggcgggcatgcctgttcgagcgtcatttcaaccctcgacttccctttggggaaatcggcgttggggaccggccgtataccgccggccccgaaatgaggtggcggcccgtccgcggcgacctctgcgtagaaatccaactcgcaccggaaccccgacgtggccacgccgtaaaacccccgccttctgaacgttgacctcggatcaggtaggaatccccgcagaacttaaccgccccttgcgcccgccagcattctgtcgggcgtgcctgttcgagcgtcatttcaaccctcgactgccctctggggaaatcggcgttggggaccggccgtataccgccggccccgaaatgaggtggcggcccgtccgcggcgacctctgcgtagaaatccaactcgcaccggaaccccgacgtggccacgccgtaaaacccccgacttctgaacgttgacctcggatcaggtaggaatacccgctgaacttaa \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/est-2d.txt Mon Oct 15 10:54:50 2018 -0400 @@ -0,0 +1,18 @@ +>MISEQ-M4070_81_000000000-B4JFH_1_1119_8913_6810_TACCGTAG +aacgcacattgcgcccgccggcactccggcgggcatgcctgtccgagcgtcatttcaaccctcaggccctcccttccgggggacgggcctggtgttggggctcggggtccgcaaggcccccgtcccctaaaatcattggcggtcgcgctgtaatcccctgcgtagtaacacacctcgctctggagaccagcacgtccacgccgtaaaacccccaatttaccaaggttgacctcggatcaggtaggaatacccgctgaacttaa +>MISEQ-1639_78_000000000-B3PNL_1_2112_16439_13482_TACCGTAG +aacgcacattgcgcccgccggtattccggcgggcatgcctgtccgagcgtcatttcaaccctcaggccctgcctggtgttggggcgccactgctgtgggcccccaaagccagcggcgggcacggcccggacccgagcgtagtagtataactcgctaggggctccggccgcgctccggccgtaaaacctcctataaaggttgacctcggatcaggtaggaatacccgctgaacttaa +>MISEQ-1639_78_000000000-B3PNL_1_2108_13568_20621_TACCGTAG +aacgcacattgcacccggtggtattccgccgggtatgcctgttcgagcgtcatttccaccctcaggcccccctcctcacgggggggagggcctggtgttggggatctacgggcccttctggcgcccgtagtcccctaaattaatcggcgtgcgcgctgtacgttgccccctgcgtagtagtgatttctcgcatcgggccgtagcgctgtccagccgctaaactgcaactacgcatttagctaggtttgacctcgaatcaggtagggttacccgctgaacttaa +>MISEQ-1639_78_000000000-B3PNL_1_2108_9997_12215_TACCGTAG +aacgcacattgcgcccggcagtaatctgccgggcatgcctgtccgagcgtcatttctgccctcgagcgagttccagcatctaggtgctggtgctcgcccggcgttggggcactacggtagagccctgtgctgtccgtaggccctgaaatgaagtggcggtcctgccgcggcgccccctgcgtagtataacagctcgcttcgggacccggtggaggccagccgtcaaacctatattctctaagtttgacctcggatcaggtagggttacccgctgaacttaa +>MISEQ-1639_78_000000000-B3PNL_1_1103_22701_7420_TACCGTAG +aacgcacattgcgcttccgggatactcctgggagcatacctgtttcagtgtctgtttaaccctcacccgtggcaacacggtttgtggatgacgggcgtccgcgcgggcttcaccgccctgtggtcgcctcaggtttagcgacatgccgccgctctctgcctacgagcgtccgcgcgcatggtgtggtaggtttttctggcgccctcgcggcccgggatttcacaacccccatttcgccgcgttccagtttggccaggcccggtgacccgcgtgtccggctttgagtagccgaacccaaacaattggtcggtggggcgcgcgctcgtcgcgcaccccgcccactgcttttcggacctgaaatcaggcaagaaaacccgctgaatttaa +>MISEQ-1639_78_000000000-B3PNL_1_1107_26593_19107_TACCGTAG +aacgcaaattgcactctcgtcttcgcgatgagagtttgcctctttcagtatcggtactactttctactcctttttgggaagagagaaaatgagagttatcgtacgatatctcttcaagtactagagaatacctttacaataaaacttgtattcttgtgtgatgattcgcttcggcgatttctacgagtttgcaatgtttttagtaaatggtattctcgccttttgttgaacctaccgcaaggtttggaacgaccgaatcaatgattcgattttttgatccgatctgaaatgaagcaaggttacccgctgaacttaa +>MISEQ-1639_78_000000000-B3PNL_1_1113_18048_19103_TACCGTAG +aacgcacattgcgcccgctagtattctggcgggcatgcctgttcgagcgtcatttcaaccatcaagccccaggcttgcgttggagccctgcggctgccgcaggctcccaaatccagtggcgggctcgtcgtcgtaccgagtgcagtaaacatcctcgctcagggaacgcgtcgggttcttgccgtgaaaccccccctatatcaaggttgacctcggatcaggtaggaatacccgctgaacttaa +>MISEQ-1639_50_000000000-ATW8R_1_1112_19897_18095_GTATTGGCTCTTTCCC +aacgcaacttgcgctgtcgagtaaccctcttcagcatgcctccttgagcatcgtttgtgcacccccttccgggaccgcacgatctcaagtgaggcaaggctacccgccgaacttaa +>MISEQ-1639_78_000000000-B3PNL_1_2118_17053_20751_ATGCATGG +aacgcacattgcgcccgccagcattctggcgggcatgcctgttcgagcgtcatttcaaccctcgacttccctttggggaaatcggcgttggggaccggccgtataccgccggccccgaaatgaggtggcggcccgtccgcggcgacctctgcgtagaaatccaactcgcaccggaaccccgacgtggccacgccgtaaaacccccgccttctgaacgttgacctcggatcaggtaggaatccccgcagaacttaaccgccccttgcgcccgccagcattctgtcgggcgtgcctgttcgagcgtcatttcaaccctcgactgccctctggggaaatcggcgttggggaccggccgtataccgccggccccgaaatgaggtggcggcccgtccgcggcgacctctgcgtagaaatccaactcgcaccggaaccccgacgtggccacgccgtaaaacccccgacttctgaacgttgacctcggatcaggtaggaatacccgctgaacttaa
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/est-2d.txt.clstr Mon Oct 15 10:54:50 2018 -0400 @@ -0,0 +1,868 @@ +>Cluster 0 +0 528nt, >MISEQ-1639_50_00000... * +1 528nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 1 +0 503nt, >MISEQ-1639_51_00000... * +>Cluster 2 +0 441nt, >MISEQ-1639_50_00000... * +1 441nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 3 +0 397nt, >MISEQ-1639_78_00000... * +1 397nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 4 +0 391nt, >MISEQ-1639_78_00000... * +1 391nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 5 +0 389nt, >MISEQ-1639_78_00000... * +1 389nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 6 +0 388nt, >MISEQ-M4070_81_0000... * +1 388nt, >MISEQ-M4070_81_0000... at +/100.00% +>Cluster 7 +0 386nt, >MISEQ-1639_50_00000... * +1 386nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 8 +0 385nt, >MISEQ-M4070_81_0000... * +1 385nt, >MISEQ-M4070_81_0000... at +/100.00% +>Cluster 9 +0 374nt, >MISEQ-1639_78_00000... * +1 374nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 10 +0 374nt, >MISEQ-M4070_81_0000... * +>Cluster 11 +0 371nt, >MISEQ-1639_78_00000... * +1 371nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 12 +0 369nt, >MISEQ-1639_78_00000... * +1 369nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 13 +0 366nt, >MISEQ-M4070_81_0000... * +1 366nt, >MISEQ-M4070_81_0000... at +/100.00% +>Cluster 14 +0 365nt, >MISEQ-1639_78_00000... * +1 365nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 15 +0 365nt, >MISEQ-1639_50_00000... * +1 365nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 16 +0 364nt, >MISEQ-1639_78_00000... * +1 364nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 17 +0 361nt, >MISEQ-1639_78_00000... * +1 361nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 18 +0 351nt, >MISEQ-1639_78_00000... * +1 351nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 19 +0 348nt, >MISEQ-1639_50_00000... * +1 348nt, >MISEQ-1639_50_00000... at +/100.00% +2 342nt, >MISEQ-1639_50_00000... at +/96.20% +>Cluster 20 +0 347nt, >MISEQ-1639_50_00000... * +>Cluster 21 +0 345nt, >MISEQ-1639_78_00000... * +1 345nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 22 +0 345nt, >MISEQ-1639_78_00000... * +1 345nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 23 +0 344nt, >MISEQ-1639_50_00000... * +1 344nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 24 +0 342nt, >MISEQ-1639_50_00000... * +>Cluster 25 +0 341nt, >MISEQ-1639_78_00000... * +>Cluster 26 +0 337nt, >MISEQ-M4070_81_0000... * +1 337nt, >MISEQ-M4070_81_0000... at +/100.00% +2 329nt, >MISEQ-1639_51_00000... at +/93.01% +>Cluster 27 +0 334nt, >MISEQ-1639_78_00000... * +1 334nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 28 +0 332nt, >MISEQ-1639_51_00000... * +1 332nt, >MISEQ-1639_51_00000... at +/100.00% +>Cluster 29 +0 332nt, >MISEQ-1639_78_00000... * +1 332nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 30 +0 329nt, >MISEQ-1639_51_00000... * +>Cluster 31 +0 329nt, >MISEQ-1639_50_00000... * +1 329nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 32 +0 329nt, >MISEQ-1639_51_00000... * +1 329nt, >MISEQ-1639_51_00000... at +/100.00% +>Cluster 33 +0 329nt, >MISEQ-1639_78_00000... * +1 329nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 34 +0 329nt, >MISEQ-1639_50_00000... * +1 329nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 35 +0 329nt, >MISEQ-1639_51_00000... * +1 329nt, >MISEQ-1639_51_00000... at +/100.00% +>Cluster 36 +0 329nt, >MISEQ-1639_78_00000... * +>Cluster 37 +0 328nt, >MISEQ-1639_51_00000... * +1 328nt, >MISEQ-1639_51_00000... at +/100.00% +>Cluster 38 +0 327nt, >MISEQ-M4070_81_0000... * +>Cluster 39 +0 327nt, >MISEQ-1639_50_00000... * +>Cluster 40 +0 327nt, >MISEQ-1639_51_00000... * +>Cluster 41 +0 326nt, >MISEQ-1639_50_00000... * +1 326nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 42 +0 325nt, >MISEQ-1639_78_00000... * +1 325nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 43 +0 323nt, >MISEQ-1639_51_00000... * +1 323nt, >MISEQ-1639_51_00000... at +/100.00% +>Cluster 44 +0 323nt, >MISEQ-1639_51_00000... * +1 323nt, >MISEQ-1639_51_00000... at +/100.00% +>Cluster 45 +0 322nt, >MISEQ-1639_78_00000... * +1 322nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 46 +0 322nt, >MISEQ-1639_78_00000... * +1 322nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 47 +0 321nt, >MISEQ-1639_78_00000... * +1 321nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 48 +0 321nt, >MISEQ-1639_50_00000... * +>Cluster 49 +0 320nt, >MISEQ-1639_50_00000... * +1 320nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 50 +0 318nt, >MISEQ-1639_50_00000... * +1 318nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 51 +0 317nt, >MISEQ-1639_78_00000... * +1 317nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 52 +0 314nt, >MISEQ-1639_78_00000... * +1 304nt, >MISEQ-1639_78_00000... at +/96.05% +2 302nt, >MISEQ-1639_78_00000... at +/97.68% +>Cluster 53 +0 312nt, >MISEQ-1639_50_00000... * +1 312nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 54 +0 312nt, >MISEQ-1639_51_00000... * +>Cluster 55 +0 312nt, >MISEQ-1639_50_00000... * +>Cluster 56 +0 311nt, >MISEQ-1639_78_00000... * +1 311nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 57 +0 311nt, >MISEQ-1639_51_00000... * +1 310nt, >MISEQ-1639_50_00000... at +/93.55% +2 310nt, >MISEQ-1639_50_00000... at +/94.84% +3 307nt, >MISEQ-M4070_81_0000... at +/94.46% +>Cluster 58 +0 311nt, >MISEQ-1639_78_00000... * +1 311nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 59 +0 311nt, >MISEQ-1639_78_00000... * +1 311nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 60 +0 311nt, >MISEQ-1639_78_00000... * +1 311nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 61 +0 310nt, >MISEQ-1639_50_00000... * +>Cluster 62 +0 310nt, >MISEQ-1639_50_00000... * +>Cluster 63 +0 309nt, >MISEQ-1639_51_00000... * +1 309nt, >MISEQ-1639_51_00000... at +/100.00% +>Cluster 64 +0 309nt, >MISEQ-1639_50_00000... * +1 309nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 65 +0 309nt, >MISEQ-1639_50_00000... * +1 309nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 66 +0 308nt, >MISEQ-1639_78_00000... * +1 308nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 67 +0 308nt, >MISEQ-1639_78_00000... * +1 308nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 68 +0 308nt, >MISEQ-1639_78_00000... * +1 306nt, >MISEQ-1639_78_00000... at +/96.73% +2 308nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 69 +0 307nt, >MISEQ-1639_50_00000... * +1 307nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 70 +0 306nt, >MISEQ-1639_78_00000... * +>Cluster 71 +0 306nt, >MISEQ-1639_51_00000... * +1 306nt, >MISEQ-1639_51_00000... at +/100.00% +>Cluster 72 +0 306nt, >MISEQ-1639_50_00000... * +1 306nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 73 +0 306nt, >MISEQ-M4070_81_0000... * +>Cluster 74 +0 306nt, >MISEQ-1639_78_00000... * +1 306nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 75 +0 306nt, >MISEQ-1639_50_00000... * +1 306nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 76 +0 306nt, >MISEQ-1639_51_00000... * +1 306nt, >MISEQ-1639_51_00000... at +/100.00% +>Cluster 77 +0 305nt, >MISEQ-1639_78_00000... * +1 305nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 78 +0 304nt, >MISEQ-1639_78_00000... * +1 304nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 79 +0 304nt, >MISEQ-1639_78_00000... * +>Cluster 80 +0 304nt, >MISEQ-1639_78_00000... * +1 304nt, >MISEQ-1639_78_00000... at +/100.00% +2 290nt, >MISEQ-1639_50_00000... at +/97.59% +3 290nt, >MISEQ-1639_51_00000... at +/98.28% +4 291nt, >MISEQ-1639_51_00000... at +/96.91% +5 290nt, >MISEQ-1639_51_00000... at +/98.28% +6 291nt, >MISEQ-1639_78_00000... at +/97.94% +7 243nt, >MISEQ-1639_78_00000... at +/91.77% +8 276nt, >MISEQ-1639_78_00000... at +/94.57% +>Cluster 81 +0 303nt, >MISEQ-1639_78_00000... * +1 303nt, >MISEQ-1639_78_00000... at +/100.00% +2 299nt, >MISEQ-1639_78_00000... at +/92.64% +>Cluster 82 +0 302nt, >MISEQ-1639_51_00000... * +1 302nt, >MISEQ-1639_51_00000... at +/100.00% +>Cluster 83 +0 302nt, >MISEQ-1639_78_00000... * +>Cluster 84 +0 302nt, >MISEQ-1639_81_00000... * +>Cluster 85 +0 301nt, >MISEQ-1639_78_00000... * +1 301nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 86 +0 300nt, >MISEQ-1639_78_00000... * +1 300nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 87 +0 300nt, >MISEQ-1639_78_00000... * +1 300nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 88 +0 300nt, >MISEQ-1639_78_00000... * +1 300nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 89 +0 298nt, >MISEQ-1639_50_00000... * +1 298nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 90 +0 297nt, >MISEQ-1639_78_00000... * +1 297nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 91 +0 297nt, >MISEQ-1639_50_00000... * +1 297nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 92 +0 296nt, >MISEQ-1639_78_00000... * +1 296nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 93 +0 294nt, >MISEQ-1639_78_00000... * +1 294nt, >MISEQ-1639_78_00000... at +/100.00% +2 292nt, >MISEQ-1639_78_00000... at +/92.12% +>Cluster 94 +0 294nt, >MISEQ-1639_51_00000... * +1 294nt, >MISEQ-1639_51_00000... at +/100.00% +>Cluster 95 +0 293nt, >MISEQ-1639_78_00000... * +1 293nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 96 +0 292nt, >MISEQ-1639_50_00000... * +1 292nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 97 +0 292nt, >MISEQ-1639_78_00000... * +1 292nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 98 +0 292nt, >MISEQ-M4070_81_0000... * +>Cluster 99 +0 292nt, >MISEQ-1639_78_00000... * +>Cluster 100 +0 291nt, >MISEQ-1639_50_00000... * +1 291nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 101 +0 291nt, >MISEQ-1639_78_00000... * +1 291nt, >MISEQ-1639_78_00000... at +/100.00% +2 287nt, >MISEQ-1639_78_00000... at +/95.82% +>Cluster 102 +0 290nt, >MISEQ-1639_78_00000... * +1 290nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 103 +0 290nt, >MISEQ-1639_50_00000... * +1 283nt, >MISEQ-1639_81_00000... at +/95.41% +>Cluster 104 +0 289nt, >MISEQ-1639_81_00000... * +1 289nt, >MISEQ-1639_81_00000... at +/100.00% +>Cluster 105 +0 289nt, >MISEQ-1639_50_00000... * +1 289nt, >MISEQ-1639_50_00000... at +/100.00% +2 283nt, >MISEQ-1639_51_00000... at +/90.46% +>Cluster 106 +0 289nt, >MISEQ-1639_78_00000... * +1 289nt, >MISEQ-1639_78_00000... at +/100.00% +2 288nt, >MISEQ-1639_78_00000... at +/93.40% +>Cluster 107 +0 289nt, >MISEQ-1639_50_00000... * +1 289nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 108 +0 288nt, >MISEQ-1639_50_00000... * +1 288nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 109 +0 288nt, >MISEQ-1639_78_00000... * +>Cluster 110 +0 288nt, >MISEQ-1639_78_00000... * +1 288nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 111 +0 287nt, >MISEQ-1639_78_00000... * +1 287nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 112 +0 287nt, >MISEQ-1639_78_00000... * +>Cluster 113 +0 287nt, >MISEQ-1639_51_00000... * +1 287nt, >MISEQ-1639_51_00000... at +/100.00% +>Cluster 114 +0 286nt, >MISEQ-1639_78_00000... * +1 286nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 115 +0 286nt, >MISEQ-1639_78_00000... * +1 286nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 116 +0 285nt, >MISEQ-1639_78_00000... * +1 285nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 117 +0 285nt, >MISEQ-1639_78_00000... * +>Cluster 118 +0 285nt, >MISEQ-1639_51_00000... * +1 285nt, >MISEQ-1639_51_00000... at +/100.00% +>Cluster 119 +0 285nt, >MISEQ-1639_50_00000... * +1 285nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 120 +0 284nt, >MISEQ-1639_78_00000... * +1 284nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 121 +0 284nt, >MISEQ-1639_78_00000... * +1 284nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 122 +0 284nt, >MISEQ-1639_78_00000... * +1 284nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 123 +0 283nt, >MISEQ-1639_51_00000... * +>Cluster 124 +0 283nt, >MISEQ-1639_81_00000... * +>Cluster 125 +0 282nt, >MISEQ-1639_78_00000... * +1 282nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 126 +0 282nt, >MISEQ-1639_50_00000... * +1 282nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 127 +0 282nt, >MISEQ-1639_51_00000... * +>Cluster 128 +0 282nt, >MISEQ-1639_51_00000... * +1 282nt, >MISEQ-1639_51_00000... at +/100.00% +>Cluster 129 +0 281nt, >MISEQ-1639_50_00000... * +1 281nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 130 +0 280nt, >MISEQ-1639_50_00000... * +1 280nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 131 +0 280nt, >MISEQ-1639_50_00000... * +1 280nt, >MISEQ-1639_50_00000... at +/100.00% +2 280nt, >MISEQ-1639_78_00000... at +/91.07% +>Cluster 132 +0 280nt, >MISEQ-1639_51_00000... * +>Cluster 133 +0 279nt, >MISEQ-1639_50_00000... * +1 279nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 134 +0 278nt, >MISEQ-1639_78_00000... * +1 278nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 135 +0 274nt, >MISEQ-1639_78_00000... * +1 274nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 136 +0 274nt, >MISEQ-1639_50_00000... * +1 274nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 137 +0 273nt, >MISEQ-1639_78_00000... * +1 273nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 138 +0 272nt, >MISEQ-1639_78_00000... * +1 272nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 139 +0 271nt, >MISEQ-1639_50_00000... * +1 271nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 140 +0 270nt, >MISEQ-1639_78_00000... * +1 270nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 141 +0 266nt, >MISEQ-1639_78_00000... * +1 266nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 142 +0 265nt, >MISEQ-1639_78_00000... * +1 264nt, >MISEQ-1639_78_00000... at +/91.67% +>Cluster 143 +0 264nt, >MISEQ-1639_51_00000... * +1 264nt, >MISEQ-1639_51_00000... at +/100.00% +>Cluster 144 +0 264nt, >MISEQ-1639_78_00000... * +>Cluster 145 +0 263nt, >MISEQ-1639_50_00000... * +1 263nt, >MISEQ-1639_50_00000... at +/100.00% +2 263nt, >MISEQ-1639_50_00000... at +/96.96% +>Cluster 146 +0 263nt, >MISEQ-1639_50_00000... * +1 263nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 147 +0 263nt, >MISEQ-1639_50_00000... * +1 263nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 148 +0 263nt, >MISEQ-1639_50_00000... * +>Cluster 149 +0 262nt, >MISEQ-1639_78_00000... * +1 262nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 150 +0 262nt, >MISEQ-1639_50_00000... * +1 262nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 151 +0 262nt, >MISEQ-1639_50_00000... * +1 262nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 152 +0 262nt, >MISEQ-1639_78_00000... * +>Cluster 153 +0 261nt, >MISEQ-1639_78_00000... * +>Cluster 154 +0 260nt, >MISEQ-1639_50_00000... * +>Cluster 155 +0 259nt, >MISEQ-1639_78_00000... * +1 259nt, >MISEQ-1639_78_00000... at +/100.00% +2 244nt, >MISEQ-1639_50_00000... at +/91.39% +>Cluster 156 +0 259nt, >MISEQ-1639_78_00000... * +1 259nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 157 +0 259nt, >MISEQ-1639_78_00000... * +1 259nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 158 +0 258nt, >MISEQ-1639_50_00000... * +1 258nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 159 +0 258nt, >MISEQ-1639_50_00000... * +>Cluster 160 +0 256nt, >MISEQ-1639_78_00000... * +1 256nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 161 +0 256nt, >MISEQ-1639_50_00000... * +1 256nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 162 +0 256nt, >MISEQ-1639_50_00000... * +1 256nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 163 +0 256nt, >MISEQ-1639_78_00000... * +1 256nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 164 +0 256nt, >MISEQ-1639_78_00000... * +1 256nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 165 +0 255nt, >MISEQ-1639_50_00000... * +1 255nt, >MISEQ-1639_50_00000... at +/100.00% +2 255nt, >MISEQ-1639_50_00000... at +/96.86% +>Cluster 166 +0 255nt, >MISEQ-1639_50_00000... * +>Cluster 167 +0 255nt, >MISEQ-1639_51_00000... * +1 255nt, >MISEQ-1639_51_00000... at +/100.00% +>Cluster 168 +0 254nt, >MISEQ-1639_50_00000... * +1 254nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 169 +0 254nt, >MISEQ-1639_78_00000... * +>Cluster 170 +0 253nt, >MISEQ-1639_50_00000... * +1 253nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 171 +0 253nt, >MISEQ-1639_78_00000... * +1 253nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 172 +0 253nt, >MISEQ-1639_50_00000... * +1 253nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 173 +0 252nt, >MISEQ-1639_50_00000... * +1 252nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 174 +0 251nt, >MISEQ-1639_50_00000... * +1 251nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 175 +0 251nt, >MISEQ-1639_50_00000... * +1 251nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 176 +0 251nt, >MISEQ-1639_78_00000... * +>Cluster 177 +0 250nt, >MISEQ-1639_50_00000... * +1 250nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 178 +0 250nt, >MISEQ-1639_50_00000... * +1 250nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 179 +0 250nt, >MISEQ-1639_50_00000... * +1 250nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 180 +0 250nt, >MISEQ-1639_78_00000... * +1 250nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 181 +0 250nt, >MISEQ-1639_78_00000... * +1 250nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 182 +0 250nt, >MISEQ-1639_50_00000... * +1 250nt, >MISEQ-1639_50_00000... at +/100.00% +2 248nt, >MISEQ-1639_51_00000... at +/95.56% +>Cluster 183 +0 249nt, >MISEQ-1639_51_00000... * +1 249nt, >MISEQ-1639_51_00000... at +/100.00% +>Cluster 184 +0 249nt, >MISEQ-1639_78_00000... * +1 249nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 185 +0 249nt, >MISEQ-1639_78_00000... * +1 249nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 186 +0 249nt, >MISEQ-1639_50_00000... * +1 249nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 187 +0 249nt, >MISEQ-1639_50_00000... * +1 249nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 188 +0 248nt, >MISEQ-1639_51_00000... * +1 248nt, >MISEQ-1639_51_00000... at +/100.00% +>Cluster 189 +0 248nt, >MISEQ-1639_50_00000... * +1 248nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 190 +0 248nt, >MISEQ-1639_51_00000... * +>Cluster 191 +0 247nt, >MISEQ-1639_78_00000... * +1 247nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 192 +0 247nt, >MISEQ-1639_78_00000... * +1 247nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 193 +0 247nt, >MISEQ-1639_50_00000... * +>Cluster 194 +0 246nt, >MISEQ-1639_78_00000... * +1 246nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 195 +0 246nt, >MISEQ-1639_78_00000... * +1 246nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 196 +0 246nt, >MISEQ-1639_78_00000... * +1 246nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 197 +0 245nt, >MISEQ-1639_51_00000... * +1 245nt, >MISEQ-1639_51_00000... at +/100.00% +>Cluster 198 +0 245nt, >MISEQ-1639_50_00000... * +1 245nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 199 +0 245nt, >MISEQ-1639_50_00000... * +1 245nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 200 +0 245nt, >MISEQ-1639_51_00000... * +1 245nt, >MISEQ-1639_51_00000... at +/100.00% +>Cluster 201 +0 245nt, >MISEQ-1639_50_00000... * +1 245nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 202 +0 245nt, >MISEQ-1639_81_00000... * +1 245nt, >MISEQ-1639_81_00000... at +/100.00% +>Cluster 203 +0 244nt, >MISEQ-1639_50_00000... * +1 244nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 204 +0 244nt, >MISEQ-1639_78_00000... * +1 244nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 205 +0 244nt, >MISEQ-1639_78_00000... * +1 244nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 206 +0 244nt, >MISEQ-1639_78_00000... * +1 244nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 207 +0 244nt, >MISEQ-1639_51_00000... * +1 244nt, >MISEQ-1639_51_00000... at +/100.00% +>Cluster 208 +0 242nt, >MISEQ-1639_78_00000... * +1 242nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 209 +0 242nt, >MISEQ-1639_78_00000... * +1 242nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 210 +0 242nt, >MISEQ-1639_81_00000... * +1 242nt, >MISEQ-1639_81_00000... at +/100.00% +>Cluster 211 +0 242nt, >MISEQ-1639_78_00000... * +>Cluster 212 +0 242nt, >MISEQ-1639_78_00000... * +1 242nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 213 +0 241nt, >MISEQ-1639_50_00000... * +1 241nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 214 +0 241nt, >MISEQ-M4070_81_0000... * +1 241nt, >MISEQ-M4070_81_0000... at +/95.02% +>Cluster 215 +0 241nt, >MISEQ-1639_78_00000... * +1 241nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 216 +0 241nt, >MISEQ-M4070_81_0000... * +>Cluster 217 +0 241nt, >MISEQ-1639_50_00000... * +>Cluster 218 +0 240nt, >MISEQ-1639_51_00000... * +1 240nt, >MISEQ-1639_51_00000... at +/100.00% +>Cluster 219 +0 240nt, >MISEQ-1639_78_00000... * +1 240nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 220 +0 240nt, >MISEQ-1639_50_00000... * +1 240nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 221 +0 240nt, >MISEQ-1639_78_00000... * +1 240nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 222 +0 240nt, >MISEQ-1639_50_00000... * +1 240nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 223 +0 240nt, >MISEQ-1639_78_00000... * +1 240nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 224 +0 240nt, >MISEQ-1639_78_00000... * +1 240nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 225 +0 238nt, >MISEQ-1639_78_00000... * +1 238nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 226 +0 238nt, >MISEQ-1639_78_00000... * +1 238nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 227 +0 238nt, >MISEQ-1639_78_00000... * +>Cluster 228 +0 237nt, >MISEQ-1639_78_00000... * +1 237nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 229 +0 237nt, >MISEQ-1639_78_00000... * +1 237nt, >MISEQ-1639_78_00000... at +/100.00% +2 230nt, >MISEQ-1639_78_00000... at +/97.83% +>Cluster 230 +0 235nt, >MISEQ-1639_50_00000... * +1 235nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 231 +0 235nt, >MISEQ-1639_50_00000... * +1 235nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 232 +0 235nt, >MISEQ-1639_50_00000... * +1 235nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 233 +0 234nt, >MISEQ-1639_51_00000... * +>Cluster 234 +0 233nt, >MISEQ-1639_50_00000... * +1 233nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 235 +0 232nt, >MISEQ-1639_78_00000... * +1 232nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 236 +0 231nt, >MISEQ-1639_50_00000... * +1 231nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 237 +0 231nt, >MISEQ-1639_78_00000... * +1 231nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 238 +0 230nt, >MISEQ-1639_78_00000... * +>Cluster 239 +0 228nt, >MISEQ-1639_78_00000... * +>Cluster 240 +0 226nt, >MISEQ-1639_50_00000... * +1 226nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 241 +0 226nt, >MISEQ-1639_78_00000... * +1 226nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 242 +0 225nt, >MISEQ-1639_50_00000... * +1 225nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 243 +0 218nt, >MISEQ-1639_50_00000... * +1 218nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 244 +0 218nt, >MISEQ-1639_78_00000... * +1 218nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 245 +0 215nt, >MISEQ-1639_50_00000... * +1 215nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 246 +0 204nt, >MISEQ-1639_78_00000... * +1 204nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 247 +0 198nt, >MISEQ-1639_81_00000... * +1 198nt, >MISEQ-1639_81_00000... at +/100.00% +>Cluster 248 +0 193nt, >MISEQ-1639_50_00000... * +1 193nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 249 +0 192nt, >MISEQ-1639_50_00000... * +1 192nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 250 +0 188nt, >MISEQ-1639_50_00000... * +1 188nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 251 +0 166nt, >MISEQ-1639_50_00000... * +1 166nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 252 +0 165nt, >MISEQ-1639_50_00000... * +1 165nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 253 +0 165nt, >MISEQ-1639_51_00000... * +1 165nt, >MISEQ-1639_51_00000... at +/100.00% +2 165nt, >MISEQ-1639_50_00000... at +/96.97% +>Cluster 254 +0 165nt, >MISEQ-1639_50_00000... * +>Cluster 255 +0 160nt, >MISEQ-1639_50_00000... * +1 160nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 256 +0 143nt, >MISEQ-1639_50_00000... * +1 143nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 257 +0 129nt, >MISEQ-1639_50_00000... * +1 129nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 258 +0 124nt, >MISEQ-1639_50_00000... * +1 124nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 259 +0 121nt, >MISEQ-1639_50_00000... * +1 121nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 260 +0 121nt, >MISEQ-1639_50_00000... * +>Cluster 261 +0 121nt, >MISEQ-1639_78_00000... * +1 121nt, >MISEQ-1639_78_00000... at +/100.00% +>Cluster 262 +0 117nt, >MISEQ-1639_50_00000... * +1 117nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 263 +0 111nt, >MISEQ-1639_50_00000... * +1 111nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 264 +0 110nt, >MISEQ-1639_50_00000... * +1 102nt, >MISEQ-1639_50_00000... at +/91.18% +>Cluster 265 +0 106nt, >MISEQ-1639_50_00000... * +1 106nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 266 +0 106nt, >MISEQ-1639_50_00000... * +1 106nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 267 +0 105nt, >MISEQ-1639_50_00000... * +1 105nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 268 +0 105nt, >MISEQ-1639_50_00000... * +1 105nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 269 +0 104nt, >MISEQ-1639_50_00000... * +1 104nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 270 +0 104nt, >MISEQ-1639_50_00000... * +1 104nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 271 +0 104nt, >MISEQ-1639_50_00000... * +1 104nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 272 +0 104nt, >MISEQ-1639_50_00000... * +1 104nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 273 +0 103nt, >MISEQ-1639_50_00000... * +1 103nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 274 +0 103nt, >MISEQ-1639_50_00000... * +1 103nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 275 +0 103nt, >MISEQ-1639_50_00000... * +1 103nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 276 +0 102nt, >MISEQ-1639_50_00000... * +1 102nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 277 +0 102nt, >MISEQ-1639_50_00000... * +>Cluster 278 +0 101nt, >MISEQ-1639_50_00000... * +1 101nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 279 +0 101nt, >MISEQ-1639_50_00000... * +1 101nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 280 +0 101nt, >MISEQ-1639_50_00000... * +1 101nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 281 +0 100nt, >MISEQ-1639_50_00000... * +>Cluster 282 +0 97nt, >MISEQ-1639_50_00000... * +1 97nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 283 +0 96nt, >MISEQ-1639_50_00000... * +>Cluster 284 +0 95nt, >MISEQ-1639_50_00000... * +1 95nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 285 +0 92nt, >MISEQ-1639_50_00000... * +1 92nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 286 +0 80nt, >MISEQ-1639_50_00000... * +1 80nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 287 +0 75nt, >MISEQ-1639_50_00000... * +1 75nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 288 +0 69nt, >MISEQ-1639_50_00000... * +1 63nt, >MISEQ-1639_50_00000... at +/93.65% +2 69nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 289 +0 66nt, >MISEQ-1639_50_00000... * +1 66nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 290 +0 64nt, >MISEQ-1639_50_00000... * +1 64nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 291 +0 63nt, >MISEQ-1639_50_00000... * +>Cluster 292 +0 62nt, >MISEQ-1639_50_00000... * +1 62nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 293 +0 55nt, >MISEQ-1639_50_00000... * +1 55nt, >MISEQ-1639_50_00000... at +/96.36% +>Cluster 294 +0 55nt, >MISEQ-1639_50_00000... * +1 55nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 295 +0 55nt, >MISEQ-1639_50_00000... * +1 55nt, >MISEQ-1639_50_00000... at +/100.00% +>Cluster 296 +0 55nt, >MISEQ-1639_50_00000... * +1 53nt, >MISEQ-1639_50_00000... at +/90.57% +>Cluster 297 +0 55nt, >MISEQ-1639_50_00000... * +>Cluster 298 +0 53nt, >MISEQ-1639_50_00000... *
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/est_clusters_output.txt Mon Oct 15 10:54:50 2018 -0400 @@ -0,0 +1,39 @@ +>Cluster 0 +0 239nt, >F12Fcsw_481739... at +/99.16% +1 243nt, >F14Fcsw_133982... * +2 242nt, >F14Fcsw_149685... at +/99.59% +3 230nt, >F14Fcsw_175165... at +/96.96% +4 239nt, >F14Fcsw_176364... at +/97.91% +5 239nt, >F14Fcsw_224425... at +/99.16% +6 240nt, >F14Fcsw_27361... at +/99.58% +7 239nt, >F14Fcsw_2745... at +/99.58% +8 238nt, >F14Fcsw_37069... at +/99.58% +9 238nt, >F14Fcsw_38031... at +/99.16% +10 239nt, >F14Fcsw_49588... at +/99.16% +11 230nt, >F23Fcsw_160873... at +/96.52% +12 183nt, >F31Fcsw_135439... at +/95.63% +13 241nt, >F34Fcsw_50866... at +/91.29% +14 230nt, >M12Fcsw_69587... at +/92.61% +15 240nt, >M13Fcsw_127764... at +/97.92% +16 222nt, >M13Fcsw_198303... at +/96.40% +17 227nt, >M14Fcsw_117325... at +/96.92% +18 241nt, >M14Fcsw_151062... at +/99.59% +19 239nt, >M14Fcsw_181677... at +/97.07% +20 240nt, >M14Fcsw_186607... at +/99.17% +21 239nt, >M24Fcsw_136217... at +/94.56% +22 239nt, >M41Fcsw_259146... at +/97.91% +23 210nt, >M42Fcsw_137216... at +/99.05% +24 239nt, >M42Fcsw_138199... at +/99.16% +25 208nt, >M42Fcsw_263016... at +/98.56% +>Cluster 1 +0 238nt, >F22Fcsw_400293... at +/91.18% +1 243nt, >F23Fcsw_133990... * +2 243nt, >F23Fcsw_86009... at +/90.95% +3 205nt, >F23Fcsw_96640... at +/91.71% +4 210nt, >F32Fcsw_322472... at +/90.95% +5 242nt, >F33Fcsw_137774... at +/90.91% +6 234nt, >M13Fcsw_128004... at +/90.17% +7 218nt, >M42Fcsw_225418... at +/90.83% +8 193nt, >M42Fcsw_334979... at +/90.16% +9 216nt, >M43Fcsw_250770... at +/90.28% +10 241nt, >M44Fcsw_200453... at +/90.04%
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/est_fasta_output.fasta Mon Oct 15 10:54:50 2018 -0400 @@ -0,0 +1,4 @@ +>F14Fcsw_133982 +GGCGACCGGCGCACGGGTGAGTAACACGTATCCAACCTGCCTCATACTCGGGGATAGCCTTTCGAAAGAAAGATTAATATCCGATAGCATATATTTCCCGCATGGGTTTTATATTAAAGAAATTCGGTATGAGATGGGGATGCGTTCCATTAGTTTGTTGGCGGGGTAACGGCCCACCAAGACTACGATGGATAGGGGTTCTGAGAGGAAGGTCCCCCACATTGGAACTGAGACACGGCCCAA +>F23Fcsw_133990 +GGCGACCGGCGCACGGGTGAGTAACACGTATCCAACCTGCCGACAACACTGGGATAGCCTTTCGAAAGAAAGATTAATACCGGATGGCATAGTTTTCCCGCATGGAAAAACTATTAAAGAATTTCGGTTATCGATGGGGATGCGTTCCATTAGGCAGTTGGCGGGGTAACGGCCCACCAAACCGACGATGGATAGGGGTTCTGAGAGGAAGGTCCCCCACATTGGAACTGAGACACGGTCCAA
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/protein_clusters_output.txt Mon Oct 15 10:54:50 2018 -0400 @@ -0,0 +1,12 @@ +>Cluster 0 +0 375aa, >sp|P00325|ADH1B_HUM... * +1 375aa, >tr|K7D361|K7D361_PA... at 99.73% +>Cluster 1 +0 375aa, >sp|P00329|ADH1_MOUS... * +>Cluster 2 +0 332aa, >sp|P00340|LDHA_CHIC... * +>Cluster 3 +0 241aa, >sp|P00338-5|LDHA_HU... at 91.29% +1 332aa, >sp|P19858|LDHA_BOVI... * +>Cluster 4 +0 274aa, >sp|P00338-2|LDHA_HU... *
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/protein_clusters_output_local.txt Mon Oct 15 10:54:50 2018 -0400 @@ -0,0 +1,10 @@ +>Cluster 0 +0 375aa, >sp|P00325|ADH1B_HUMAN... * +1 375aa, >tr|K7D361|K7D361_PANTR... at 1:375:1:375/99.73% +2 375aa, >sp|P00329|ADH1_MOUSE... at 1:375:1:375/83.47% +>Cluster 1 +0 241aa, >sp|P00338-5|LDHA_HUMAN... at 3:239:2:239/85.71% +1 332aa, >sp|P00340|LDHA_CHICK... * +2 332aa, >sp|P19858|LDHA_BOVIN... at 3:332:2:332/84.59% +>Cluster 2 +0 274aa, >sp|P00338-2|LDHA_HUMAN... *
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/protein_fasta_output.fasta Mon Oct 15 10:54:50 2018 -0400 @@ -0,0 +1,36 @@ +>sp|P00325|ADH1B_HUMAN Alcohol dehydrogenase 1B OS=Homo sapiens GN=ADH1B PE=1 SV=2 +MSTAGKVIKCKAAVLWEVKKPFSIEDVEVAPPKAYEVRIKMVAVGICRTDDHVVSGNLVT +PLPVILGHEAAGIVESVGEGVTTVKPGDKVIPLFTPQCGKCRVCKNPESNYCLKNDLGNP +RGTLQDGTRRFTCRGKPIHHFLGTSTFSQYTVVDENAVAKIDAASPLEKVCLIGCGFSTG +YGSAVNVAKVTPGSTCAVFGLGGVGLSAVMGCKAAGAARIIAVDINKDKFAKAKELGATE +CINPQDYKKPIQEVLKEMTDGGVDFSFEVIGRLDTMMASLLCCHEACGTSVIVGVPPASQ +NLSINPMLLLTGRTWKGAVYGGFKSKEGIPKLVADFMAKKFSLDALITHVLPFEKINEGF +DLLHSGKSIRTVLTF +>sp|P00329|ADH1_MOUSE Alcohol dehydrogenase 1 OS=Mus musculus GN=Adh1 PE=2 SV=2 +MSTAGKVIKCKAAVLWELHKPFTIEDIEVAPPKAHEVRIKMVATGVCRSDDHVVSGTLVT +PLPAVLGHEGAGIVESVGEGVTCVKPGDKVIPLFSPQCGECRICKHPESNFCSRSDLLMP +RGTLREGTSRFSCKGKQIHNFISTSTFSQYTVVDDIAVAKIDGASPLDKVCLIGCGFSTG +YGSAVKVAKVTPGSTCAVFGLGGVGLSVIIGCKAAGAARIIAVDINKDKFAKAKELGATE +CINPQDYSKPIQEVLQEMTDGGVDFSFEVIGRLDTMTSALLSCHAACGVSVVVGVPPNAQ +NLSMNPMLLLLGRTWKGAIFGGFKSKDSVPKLVADFMAKKFPLDPLITHVLPFEKINEAF +DLLRSGKSIRTVLTF +>sp|P00338-2|LDHA_HUMAN Isoform 2 of L-lactate dehydrogenase A chain OS=Homo sapiens GN=LDHA +MATLKDQLIYNLLKEEQTPQNKITVVGVGAVGMACAISILMKDLADELALVDVIEDKLKG +EMMDLQHGSLFLRTPKIVSGKDYNVTANSKLVIITAGARQQEGESRLNLVQRNVNIFKFI +IPNVVKYSPNCKLLIVSNPVDILTYVAWKISGFPKNRVIGSGCNLDSARFRYLMGERLGV +HPLSCHGWVLGEHGDSSVPVWSGMNVAGVSLKTLHPDLGTDKDKEQWKECRYTLGDPKGA +AILKSSDVISFHCLGYNRILGGGCACCPFYLICD +>sp|P00340|LDHA_CHICK L-lactate dehydrogenase A chain OS=Gallus gallus GN=LDHA PE=1 SV=3 +MSLKDHLIHNVHKEEHAHAHNKISVVGVGAVGMACAISILMKDLADELTLVDVVEDKLKG +EMLDLQHGSLFLKTPKIISGKDYSVTAHSKLVIVTAGARQQEGESRLNLVQRNVNIFKFI +IPNVVKYSPDCKLLIVSNPVDILTYVAWKISGFPKHRVIGSGCNLDSARFRHLMGERLGI +HPLSCHGWIVGEHGDSSVPVWSGVNVAGVSLKALHPDMGTDADKEHWKEVHKQVVDSAYE +VIKLKGYTSWAIGLSVADLAETIMKNLRRVHPISTAVKGMHGIKDDVFLSVPCVLGSSGI +TDVVKMILKPDEEEKIKKSADTLWGIQKELQF +>sp|P19858|LDHA_BOVIN L-lactate dehydrogenase A chain OS=Bos taurus GN=LDHA PE=2 SV=2 +MATLKDQLIQNLLKEEHVPQNKITIVGVGAVGMACAISILMKDLADEVALVDVMEDKLKG +EMMDLQHGSLFLRTPKIVSGKDYNVTANSRLVIITAGARQQEGESRLNLVQRNVNIFKFI +IPNIVKYSPNCKLLVVSNPVDILTYVAWKISGFPKNRVIGSGCNLDSARFRYLMGERLGV +HPLSCHGWILGEHGDSSVPVWSGVNVAGVSLKNLHPELGTDADKEQWKAVHKQVVDSAYE +VIKLKGYTSWAIGLSVADLAESIMKNLRRVHPISTMIKGLYGIKEDVFLSVPCILGQNGI +SDVVKVTLTHEEEACLKKSADTLWGIQKELQF
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/protein_fasta_output_local.fasta Mon Oct 15 10:54:50 2018 -0400 @@ -0,0 +1,21 @@ +>sp|P00325|ADH1B_HUMAN Alcohol dehydrogenase 1B OS=Homo sapiens GN=ADH1B PE=1 SV=2 +MSTAGKVIKCKAAVLWEVKKPFSIEDVEVAPPKAYEVRIKMVAVGICRTDDHVVSGNLVT +PLPVILGHEAAGIVESVGEGVTTVKPGDKVIPLFTPQCGKCRVCKNPESNYCLKNDLGNP +RGTLQDGTRRFTCRGKPIHHFLGTSTFSQYTVVDENAVAKIDAASPLEKVCLIGCGFSTG +YGSAVNVAKVTPGSTCAVFGLGGVGLSAVMGCKAAGAARIIAVDINKDKFAKAKELGATE +CINPQDYKKPIQEVLKEMTDGGVDFSFEVIGRLDTMMASLLCCHEACGTSVIVGVPPASQ +NLSINPMLLLTGRTWKGAVYGGFKSKEGIPKLVADFMAKKFSLDALITHVLPFEKINEGF +DLLHSGKSIRTVLTF +>sp|P00338-2|LDHA_HUMAN Isoform 2 of L-lactate dehydrogenase A chain OS=Homo sapiens GN=LDHA +MATLKDQLIYNLLKEEQTPQNKITVVGVGAVGMACAISILMKDLADELALVDVIEDKLKG +EMMDLQHGSLFLRTPKIVSGKDYNVTANSKLVIITAGARQQEGESRLNLVQRNVNIFKFI +IPNVVKYSPNCKLLIVSNPVDILTYVAWKISGFPKNRVIGSGCNLDSARFRYLMGERLGV +HPLSCHGWVLGEHGDSSVPVWSGMNVAGVSLKTLHPDLGTDKDKEQWKECRYTLGDPKGA +AILKSSDVISFHCLGYNRILGGGCACCPFYLICD +>sp|P00340|LDHA_CHICK L-lactate dehydrogenase A chain OS=Gallus gallus GN=LDHA PE=1 SV=3 +MSLKDHLIHNVHKEEHAHAHNKISVVGVGAVGMACAISILMKDLADELTLVDVVEDKLKG +EMLDLQHGSLFLKTPKIISGKDYSVTAHSKLVIVTAGARQQEGESRLNLVQRNVNIFKFI +IPNVVKYSPDCKLLIVSNPVDILTYVAWKISGFPKHRVIGSGCNLDSARFRHLMGERLGI +HPLSCHGWIVGEHGDSSVPVWSGVNVAGVSLKALHPDMGTDADKEHWKEVHKQVVDSAYE +VIKLKGYTSWAIGLSVADLAETIMKNLRRVHPISTAVKGMHGIKDDVFLSVPCVLGSSGI +TDVVKMILKPDEEEKIKKSADTLWGIQKELQF