# HG changeset patch # User bgruening # Date 1633687032 0 # Node ID cc01cbc4e7f70aab52b930cdb17a52d5e94cdfaf # Parent 313e04fe07cdc1d46df02f2d447767702e9099be "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/trim_galore commit 276a0ec327f5369c16563696047f0d31577c353f" diff -r 313e04fe07cd -r cc01cbc4e7f7 macros.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/macros.xml Fri Oct 08 09:57:12 2021 +0000 @@ -0,0 +1,66 @@ + + 0.6.7 + 0 + + + trim-galore + + + + + trim_galore + + + + + + + + + + + + + + + + + + ^[ACTGNactgn]*$ + + + + + + + + + ^[ACTGNactgn]*$ + + + + + Instructs Trim Galore! to remove N bp from the 3' end of read 1 after adapter/quality trimming has been performed. + This may remove some unwanted bias from the 3' end that is not directly related to adapter sequence or basecall quality. + (--three_prime_clip_R1) + + + Instructs Trim Galore! to remove N bp from the 3' end of read 2 after + adapter/quality trimming has been performed. This may remove some unwanted bias from + the 3' end that is not directly related to adapter sequence or basecall quality. + + + + + + @misc{githubTrim_Galore, + author = {Krueger, Felix}, + year = {2021}, + title = {Trim Galore}, + publisher = {GitHub}, + journal = {GitHub repository}, + url = {https://https://github.com/FelixKrueger/TrimGalore.com/fenderglass/Flye}} + + + + diff -r 313e04fe07cd -r cc01cbc4e7f7 test-data/mec_reads_pair1.fastqsanger --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/mec_reads_pair1.fastqsanger Fri Oct 08 09:57:12 2021 +0000 @@ -0,0 +1,396 @@ +@M01368:8:000000000-A3GHV:1:1101:6911:8255/1:R1:ATCTGGTT:R2:TCGCCTTA:F1:CCTA:F2:CCGC +TTCAGGGCCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACGTTCAATATT ++ +GGGGGGGGGGHHHHGHGHHHHHHHHHGGGGGGHHHHGHHHHHHHHHHGHHHHHHGGHGGHHHGHHHHFHHGHHHHHHHHHGHEHEFFGHHEGGCEFGGFHHHBGHHGHHHHGHFHHHGHGHGHGGCDFDDACGGGGGGGAAFFFFFFFFFBAFFFFFB;FFFFFFADDFFFFFFFFFFEFFFFFFFFFFBFFFFFFFFFFFFFFEFFFFFFFFBFEFFFFEFE;DFFFDFBFF/9BFB +@M01368:8:000000000-A3GHV:1:1101:14518:9998/1:R1:GTTATTAT:R2:CATCACGA:F1:TATG:F2:TGGA +CCTACAAGCATTAATTAATTAACACACTTTAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGGGATAGACCTGTGATCCATCGTGAT ++ +GGGGGGGGGHGGHHHHGHHHHHHHGCGHHHHHHHHHHHHHHHGGGGGHHHHHHHHHGHHGFHFE5BGEEHFGGGHHHHHHHHFBHHGGGGFHGHHFGHHHHGHHHHHHGEGGGGFHFHGEGHHGGCDGDGHGGGDGGHGGCGGGHGHHH/ACDG?.1FGCDCCGCA.CC@CDCHFHGFFGGGEBFGAB//CEFBFGG.:;D;;A0AFFFFFB..:@ABFF//;BFFFFFBF/9D:A// +@M01368:8:000000000-A3GHV:1:1101:18422:19051/1:R1:GTATCCGA:R2:CTACAAGC:F1:CATC:F2:ATTA +GGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACG ++ +GGGGGGGGGHHHHHHHHHHHHHHHHGHHHHHHFHHHHGGGGHHHHHHHHHGHHHHHHHHHHHHGGHGGHHHHHHHHHHHHHHHHHHHHHHHHHHHGHHHHHGCGGGHHHHHHHHHHHHHHHHHHHHHHGFDHGFHCFGGGGFGGFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF;FFFFFFFFFFFFFFFFFFFFFFFFFFFFEFBFFFFFFFFFF:FFF. +@M01368:8:000000000-A3GHV:1:1101:25545:21098/1:R1:ATTAATTA:R2:GCCCATAA:F1:ACAC:F2:CACT +CTTTAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATAAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGGCTTATTTAAGGGGAACGGGTGGGG ++ +GGFEBDGEGHEGHGEGHCEGGHHCHGHHFFHHGFGAGE53FF2FAFFGDE5FFFE5GFBFGAEE1GHHHGHHHEHE3FGHF@GEGEGGHHGG3FAGFFDE?EEE3GFEGFGFGGCG?GHHHFHGGGC@DHFFHD/A@FFFGHHHHFHEFGDABFFGG/@DCE---;--..;.../9 +@M01368:8:000000000-A3GHV:1:1103:25519:6301/1:R1:AAATAAGA:R2:CTGTAATA:F1:CATC:F2:TTGA +CGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGCATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACGTTCAATATTACAGCTGTCTCTTATACACATCTCCGAGCCCACGAGACTAAGGCGAATTTCGT ++ +GG2CF?4FGHGHHCHGGHHBHGFFAGGHHFFHHCGHFEGCECEGHFFFHGHHGFGHFGDAFDGFFEEFEGGBECC/;>=EF?AEFFFF;9;=DAFFFFBBFFFBFFF//;BFB.:FBFFBB/BFFFF/BFFE?EFAFEF9 +@M01368:8:000000000-A3GHV:1:1104:11928:24197/1:R1:ACGTAGGT:R2:CCTCGCTC:F1:GCGA:F2:CGGG +AAATAATGGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATGACCCTGAAGTAGGAACCAGATGTCGGATA ++ +GGGGGGGGGHHHGHHHGGGGGHHHHHHHHHHHHHHHHHHGGGGGHHHHGGGHHHGGGGGGHHHGGGGHHGGGGHHHHHHGGGGGGHHHHGGGGGGGHGGGGGGHHHHHHHHHGHHHHGHHGHHHHGGHGEEGGGGFHHFHHHGHGEHHHHHHHHHHHHHHHHHGGGGGGFGGGGGGGGFFGGGFGFGAEFEFGFEAFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF@D9 +@M01368:8:000000000-A3GHV:1:1104:12288:20635/1:R1:CACTTGGG:R2:CCTACAAG:F1:GGTA:F2:CATT +CTAAAGTGAACTGTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGCCGCAGCATCTGTCTTTGATTCCTGCCT ++ +GGGGFFGD5GGHGFFHGHEGGGGHHHHFFHH5FHGHHHFFHEFHHHHHHGGHHHHHGFHGGHGGGGFHGGGFBHHHFGEGHHHHGHGGGGECEHHFHHGHHFFHFGGGHHHEGHDGHHGHGHFHHHECGCBCHHGFHHFHD1GFHEFHEF?GDCFFEFE0A@;@>BD/9BFBBBBFDFFFF99D=?>DDBFF-AFFEBB9BBEFEFAFFF//-@---;;FBBFBFB///;99999BA9 +@M01368:8:000000000-A3GHV:1:1104:13832:4398/1:R1:CACGATGG:R2:GACAGATA:F1:ATCA:F2:CTGC +AGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCCTGTCTCTTATACACATCTCCGAGCCCACGAGACTAAGGCGAATCTCGTATGCCGTCTTCTGCTTGACAAAAAAAAACACACAACAACCAACACCCAGTAGACTAGTGCGTC ++ +GGGGGGGGGHFHHHHHHHHHGFFHHGGHGGGGGHHHHHHHHHHFHHHHGHHHHHGGHGHGGHGGGGGGGHGFFGGGGDGGHHHHGGGGFGGGGGCFGGEGCDGGGGGGGGGGGGEGF?;BFFFFFFFFFFFFFFFFFF:FFFFFFFFFFFFFFFFFFFFFFF/FFFFFFC.;BFEAFFFFF;@FFBFFFFEF?/FFFFE----:...:...9....9.9...:.9//9////;/9-.- +@M01368:8:000000000-A3GHV:1:1104:23670:4161/1:R1:ATTCAATT:R2:CGACATCT:F1:GTTA:F2:GGTT +TATTATGTCCTACAAGCATTAATTAATTAACACACTTTAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCC ++ +GGGGGGCGBBGGHHHHHHHHHGHHHHHHHHHHFGGHHHHHHGGFHHHHHHHGGGGGFHHHGHHHHHGHHHHGHHGGGHGGGGHHHHHGHHHHHHEGGGFHHHGFFDGEGHGHFHGHHGEGGGHHBGHGGHGHGGGGG/@FCDFDGFHGGGDFFHFGFFGGGGGHHHHGGGGGGGEGCDG?GGBFFFEE00BFFGABBBAFGGGEGEA.9FFF/./;BFBF./AAF/BFFBBF/F/BFB +@M01368:8:000000000-A3GHV:1:1104:24927:22253/1:R1:AGCTAAAG:R2:GTAATATT:F1:TGAA:F2:GAAC +TGTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTAT ++ +GGBGFF3EAEEEHFHHFHHHGHHHHDGHHGAEFGHHHGFCHHGHHHBGHHHAEGGHGGFHFBFHHHHHHHHHHFHH1EEHEEHH1FFDEEFCGHBGHHFHEHHHHHH1FCGHHHHEEFGEEGFFCHHH11>GHHF/FG2DGGCGAGGHGGGG@@@BEFFF?@@@FFEFFFFFF?@@FB@BB@FFFE=;==---A9EFBBB/;E;A9B/B/FFFEF/B///;/;9/A/;/9BFFFBFBB +@M01368:8:000000000-A3GHV:1:1104:4705:7727/1:R1:CTACAAGC:R2:TCCTACTT:F1:ATTA:F2:CAGG +TTAATTAACACACTTTAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGG ++ +GGGGGGGGGHHHGHHHGHHHHH6GHHHHFFGGGHHHHHHHHHHHHHHHGGFGGGEGGGHHHHHHHHHHGHE3FGGGGHHHHHFHHHHHHHHHHHHGGGGGHHFHFCGFHHGGGGGGGHHGGGGHHGGGGGGHHHHGGGADCHHHHGDGGGGGGGGC@DGFHEHHHHHHGHHHHGFGDEGFGFFGGGGCFGBEGFGGGFG;C.BFFFFFFFBFBFFFF/F?.AFFF/BFFEFFFFFEFF +@M01368:8:000000000-A3GHV:1:1104:7756:4776/1:R1:GGCCCATA:R2:CTACAAGC:F1:ACAC:F2:ATTA +TGGGGGTAGCTAAAGTGAACTGTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGA ++ +GGGGGGEEFHHHHGHGHHHHHHGGHHHGGGGGGHHGHHHHHGHHGHHHGGFHHHHHHHHGHHHFHHGHHGFGGGGHHHHHHHHGHGHFFHFHHHHHHGGHGFGFHHHGHG?FGHHHHHHHHHHHHHHGHGHHGHGGCDGFFHHHHGHHHHHGHHHGFHGHFHGHGHGH/@CABFFFFFFFACAFF?BBFFBFD-@-.D>FFAF.F.:9---;AADFFFFFBEFFF:9FFFFBBFFFF/ +@M01368:8:000000000-A3GHV:1:1105:11310:21761/1:R1:ATAAATAA:R2:ACTTGGGG:F1:TAGG:F2:GTAG +TGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATGACCCTGAAGTAGGAACCAGATGTCGGATACAGTTCACTTT ++ +GGGGGGGGGGHHHHHHHHHHHHGHHHHHGGGGGHHHHHGGHHHGGGGGGHHHGGGGHHGGGGHHHHHHGGGGGGHHHHGGGGGGGHGGGGGGHHHHGHHHGHHHGHGHHGHHHHGGHGGG=FFGEHHHHHGHFGGHHGHHHHHFHHHHHHHGGHHHHHHHGHEHHGHHHHHGGGGF9AGE?DEGFFGGGGGGGGGGGGGGFFFF/9FFBFFFFFFFEFFFBFFFFFFFFFFFFEFFF0 +@M01368:8:000000000-A3GHV:1:1105:11578:14676/1:R1:ATTGAACG:R2:GCTCCGGG:F1:TAGG:F2:CCCA +GCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATGACCCTGAAGTAGGAACCAGATGTC ++ +GGGGGGGGGHHHHHHHHHHHHGGGGGHHHHHHHHHHHHHHHHHHGGGGGHHHHFGGHHHGGGGGGHHHGGGGHHGGGGHHHHHHGGGGGGHHHHGGGGGGGHGGGGGGHHHHHHHHHHHHHHHHHGHHHHGGGGGGHGGHGHHHHHHH;CHHHHHHHHHHHHHHHGHGGGGFGGGFGGGGGGGGGGGGFGGGEGGFFFFFFFFFFFFFFFFFFFFFFFFF/FFFFFFFFFFFFFFFF0 +@M01368:8:000000000-A3GHV:1:1105:13575:19255/1:R1:TTAGTAAG:R2:GGTTCCTA:F1:TATG:F2:CTTC +TCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGTTCCCGTGAGTGGTTAATAGGGTGATAGGCCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATG ++ +G3A111FFAEGDDBGFDHF00F01BBA00BFGEHFBFFA1FABB0FAE?CFHF1BGFHFB0011F121E//>>1F10>B?EFHGCC/?/BFG/EEGFFEE//BCFDE0?E@@B/?11;B=.9.;.BBFFF..;A;/B/;B//;;//BBF/ +@M01368:8:000000000-A3GHV:1:1106:22927:3863/1:R1:GTATCCGA:R2:AAGACAGA:F1:CATC:F2:TACT +GGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGACTTCTGTCTCTTATACACATCTCCGAGCCCACGAGACTAA ++ +GGGFGGGFGFHHHFFH4BCBGHHHHGFFF3G5BF3322EEAFHHHHHHAB5GHFHEHFHHH3BEEHFGF5@13FDF3GDGFHHFGHHHGHHHGFGGHHFCG//?/EGHHHG3F4BFFGHHHEDGFHHB/B/?FBF<@-9?BDEFFF?B--?DFFFB9FA>B;A.BFDB?AB.--@;-.FFAEFFFF9AE;DDFFFFB/9BFFFFFFFB:BF/BB/BFF//FFF-=--.99=--.9/// +@M01368:8:000000000-A3GHV:1:1106:23625:4236/1:R1:TAGCTAAA:R2:CACTTTAG:F1:GTGA:F2:TAAG +CTGTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTA ++ +GGFGFGGGEFCGGHHHHFGHGHFHGHHHHGGFGGFGHHGHGHHHHGHGFFHHGGGGGHHHHHHHHHBFHHEFHHHHHHGF?FAGHGFHHHGDGFHHGGGHGHFHHHGHHHGHHFHHGFFGFHHHGHHHHFFHHHHH/FGHHHHGHGHGDFFFE?FFF/--;;9/:BFFFBA///9----;B.//////;...---9--- +@M01368:8:000000000-A3GHV:1:1106:6455:17124/1:R1:GTATCCGA:R2:GCATTAAT:F1:CATC:F2:TAAT +GGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACG ++ +GGGGGGGGGHHHGHHGHHHHHHHHHGHHGHHGHHHGHGGGEGHHHHHHHHHHHHHGHHHGHHHGGHGGHHHHHHHHHHHHHHHHHHGHHHHHHHHGHHHHHGGCFEHHHGFHHHHGHHFFH?GGHHHHGHGHGHHCFGGGGGGGFFFFFFFFFFFFFFFFFFFFADFA?.FEFAFFFEFFFFFFFFFFFFDABFBBFFFFFFFFEFFBFFFFFFFFFFF/FFBFFFFFFADE>BFFF9 +@M01368:8:000000000-A3GHV:1:1107:14451:26748/1:R1:GTATGTTC:R2:AGCTAAAG:F1:GCCT:F2:TGAA +TAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATGACCCTGA ++ +GGGGGGGGGHGHHHHGAGHGGGGGHHHHHHHHGHHHHHGGGGGGFFHHHHHHHHHFHHHHHGGGGCHFHH3FEHHGCGGGDGHHHGFGGHHGGGGHHHHHHG/DGGGHHHHGGGGGCCHGG?CGG1GHHGHHHHBGHHHFHHGHHHHGGADAD00ECEGHEFHHFFAEFFFFFGGFBFBFFFGFFG.;B/99;BCFGGGGEFFFFFFEDA./:ADEB?FBFFFF;FFEBFBFFB./9. +@M01368:8:000000000-A3GHV:1:1107:18714:24788/1:R1:GTATGTTC:R2:GGCCCATA:F1:GCCT:F2:ACAC +TAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATGACCCTGA ++ +GGGGGGGGGHHHHHHGGHHGGHGGHHHHHHHHHHHHHHGGGGGHHHHHHHHHHHHHHHHHHGGGGGHHHHCFGHHHGGGGGGHHHGGGGHHGGGGHHHHHHGGGGGGHHHHGGGGGGGHGGGGGGHHHHHGHHHHHHHHHHHGHHHHGGEGEGCCEGGHHHHHHG:CAFFGGGGGGBFEFGGGGHGAFFGGFGGGGGGGEFFFFFFFFFEF/EDDFFFFFFFFFBFFFFFBBFFBBF/ +@M01368:8:000000000-A3GHV:1:1107:21355:8333/1:R1:ATATTGAA:R2:GTATCCGA:F1:CGTA:F2:CATC +GTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATGACCCTGAAGTAGGAACCAGATG ++ +GGGGGGGGGHHHHHHHHFHHHHHGGGGGHHHHHHFHHHGHHHHHHHGGGGGHHHHFFGHGHGGGGGGGHGGEGGGHGGGGHHHHHHGGGGGGHHHHGGGGGGGHGGGGGGHGHHHFHHHHHHHHGHFFHHHHGGHGEGHHGHGFHHFHGHCEFHEGHGHHHGHHHGGGGGGCFFFFBFGGFGGGGFBG?FDGGGEGFFFFEFFFFFFFFFFFFFFFFFFFFFFFFFFFFFBFF.AA/9 +@M01368:8:000000000-A3GHV:1:1107:22864:15712/1:R1:AATAAGAC:R2:GTAATATT:F1:ATCA:F2:GAAC +GATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACGTTCAATATTACCTGTCTCTTATACACATCTCCGAGCCCACGAGACTAAGGCGAATCTCGTATG ++ +GGGCEGGGGHGHHDGFHHHHHHHHHHHHHCHHGHFGBGDFGE?GHHGHFBHHFHHHHHHHHHGHFGFGHGHHGGC@DCFGHHGGGGGGGHHHHHHGGGGGFGGGGFFGGGGFADGFEFFFFFFFFFFF9;FFFF/BFFFFFFFFFFFFFFFFFFFFFFFEFFFFFFEAECDFFFFFFFFFBFFFFFFFFFFFFFFEFBFBFFF/FFFDF-;-9;E@>-9DFFF/FFBF;-.:;.9A// +@M01368:8:000000000-A3GHV:1:1107:24817:14233/1:R1:CTTCAGGG:R2:CTTTAGTA:F1:TCAT:F2:AGTA +AAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACGTTCAATATTACAGGCGAACAT ++ +CFGGGGGGGHHHFGCFGGGFFGHHCGHHHGHGHGHBFFHHHEDGGFGFGHHFFFHGGEGHFHHGHFHGFFHHHFGHHHFHACECEHHHBGFHGFHHHFHHF4GFHFHFHEHGGE/EG:A-CFGGFGADGGGGFGGGGDAAAADFA.-AFFECFDAAFFFFEFFFFBFF;D;BFFFB/;BFFFFFFFFFFFFFFBFFBF/;//;BFFFF?FFFFFFEDAFFFFFBF//:BFBACF--9/ +@M01368:8:000000000-A3GHV:1:1107:24830:14440/1:R1:AACTGTAT:R2:CTTTAGTA:F1:CCGA:F2:AGTA +ATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACC ++ +GGGGGGGGGHGHHGHHGHHHGGHHHHHGHGHHGDHHHHHHAGGGGFHHGHHHHHHGHHHHHHHHHHHEGAFGFHFHHHHGEGHHHHHHHHHHHHHHHHHGGHHHGEFEGGHHGHHHHHGGHGFHH/?GHHHHGFGHGFHCGGBBDAFFFEFFFFFFFFFFFFFF=CDDADDFFFFEF=BFFFEFFFBFFFFEEBF./:FFFFFFFFFFFFFFFFFFFEFFFFFFFFFFF/BFBEFFC- +@M01368:8:000000000-A3GHV:1:1107:26478:23602/1:R1:GCTAAAGT:R2:ATCAAAGA:F1:GAAC:F2:CAGA +GTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATCTGTCTCTTATACACCTCTC ++ +EGGGFGGGGGGHHDB1BGFHHHFGFGGG0F00BGBGFGGF1GBGB1BGCGAEE/FGFHGHFHHHHHBFF1B0FGGF//F//FGFGFFF/1@B1DFHHHGGEFEDHFDFAFF0B//1FDD1GFFHHDF?1BD>GF/GCAC0C@?@-;99BBB->@--;-B//99B--9-BF=A--A-:A----9AA9AFBFBBB?E@BBFFFFFFFBFFFFFBFFFBBFFF//B/////-;9 +@M01368:8:000000000-A3GHV:1:1108:11059:23181/1:R1:GTTATTAT:R2:AACTGTAT:F1:TATG:F2:CCGA +CCTACAAGCATTAATTAATTAACACACTTTAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGAT ++ +GGGGGGGGGGHHHHHHHHHHHHHHHHGHHHHHHHHHHHHHGHHGGGGHIIIHHHHHHHGHHHHGHHHGGHGGHHHHHHHHHHHHHHGGGGGHHGHHHHHHHHHHHHHHHGGGGGHHHHHFGHHHGGGGGGHHHGGGGGHGGGGHHHHHHGGGGGGHGGHEFGGGGGHGGG-ECHHHGGGGGGGGGFGFFGGGGFGGGCF?EFGG0;BFFFFB?9AAFFFFFFBF;BBFFBFFFFE?F/ +@M01368:8:000000000-A3GHV:1:1108:12233:13498/1:R1:TAGGTGCG:R2:GGTTCCTA:F1:ATAA:F2:CTTC +TAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATGACCCTGAAGTAGGAACCCTGTCTCTTATACAC ++ +GGGGGGGGGHHHHGGGGGHHHHHHGHGHBGFHHHHHGGGGGHHGGBFGHHGGGGGGGHHHGGGGHHGGGFHHHHHHGGGGGGHGHHGGGGGGGGGGGGGGHHHHFHHHGHGHHHHHHGHGHHGGFGGGDFFGGHHHGHGH/FHHHFHGHGHHGHHHGHHBACFHHGDFGGGGGEFGC?EGHHHB0CGHHGCGHHHHBEHGHH.::ACA;FECFGGGGGFFFEFGGGGGGGFFBBBFGBFFFEFFFFBFFFFFFBBFBFFB9..AF?FFFFFFF9 +@M01368:8:000000000-A3GHV:1:1110:14751:26540/1:R1:TAACACTT:R2:ATGTTCGC:F1:GGGG:F2:CTGT +TAGCTAAAGTGAACTGTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACTGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGTTGTGCACGCGATAGCATTGCGCGACGCTGGCGCCGGCGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTG ++ +EEGFGB1112DGDGHGFGHHCG/ECEBGGHDFGHHFHGHEB1BCGFFE2EGHHGHFFFHHBFFHEFCGGHHFHHHHH111BFFHGHEHBEHGGECEFHGFHFGGDBBGHHBHHHH0GH22FGHGFFFH1BFCG0F@FGG11@GDHFG1D/1FGFHH/FCG.>0><-<@CCFFG.CC-@C?C9FFF0C---;------;9----9-9@-AAFF9B9---9-/;B9BF/9BB//B/;/// +@M01368:8:000000000-A3GHV:1:1110:15519:10008/1:R1:CTGTAATA:R2:GGTTCCTA:F1:TTGA:F2:CTTC +CGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATGACCCTGAAGTAGGAACC ++ +GGGGGCBGGE?GGGHHHHHGHHBEGGHHGGGGGHHHHHHHHHHHGGHHHHGFGGGGHGHGCFGHHHGGGCGGHGHGGGGGHFGGGHHHHHHGCEFGGHHHHGGGGGGGHGG/CEGHHHHGFHHHGFHHGFFHGHGHFGGEGFDDGGBCGHHGFHH/CHHHHGHGHF0CFGGGGGGGFFFFFBFFFFFFGFFGGF?DGEDEEFEFFFF?FFFFFFFFFFFFFFFBFFF.BFFFBFBBA; +@M01368:8:000000000-A3GHV:1:1110:16559:7507/1:R1:CATTCAAT:R2:GCCCACAC:F1:TGTT:F2:GTTC +TTATTATGTCCTACAAGCATTAATTAATTAACACACTTTAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAACTGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATC ++ +GGGGGGGFGGGGAGHHGCHHGHHHHHHHHHHHGHHGHHHHHHHHHHHHHHHHFGGGHHHHHHHHBDHHHHHGGHFEEGHGGHHHHHHHGHHHEHFGGGGGGHHHF33FGHHG3GDDGH//EEGHHFFBF?GHHFCC@DGFCGGB?DGHAFGGHHGFH0E??<@DGHGGCFGGF?DGGGFFGGGGGGGG.C/0BBF?FBBEGG0FFF.AA9;B9/E////99;;:.//:FFFFBBF//9 +@M01368:8:000000000-A3GHV:1:1110:16700:6843/1:R1:AAATAATA:R2:GTTCCTAC:F1:GGAT:F2:TTCA +AGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATGACCCTGAAGTAGGAACCTGTCTCTTATACACATCTCCGAGCC ++ +GGGGGGGGGHHHHGHHHHHHHHHHHHGGGGGHHHHHGGHGHGGGGGGHHHGFFGHHGGGGHHHHHHCGG@FGHFHFEGGGGGGHGGGGDGHHHHHHHHHHHHHHGHHGHGHHGGGGGCGHEHGHHHFHHHFF.DGHHHHHHGHHHHHHGFGHGCGHGHHHHHHHHGHHHCD?:A::FCDGEGFGFFBFGBFGGGF00CBFFFF/BFBFFFFAE.FBBFBFFFFB/BFFBFFF/ADCAD +@M01368:8:000000000-A3GHV:1:1110:18014:7856/1:R1:ATAAATAA:R2:CATCACGA:F1:TAGG:F2:TGGA +TGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGGGATAGACCTGTGATCCATCGTGATGCTGTCTCTTATACACATCTCCGAGCCCACGAGACTAAGGCGAATCTCGTATGCCGTCTTCTGCTTGCAAAAAAAAAATAG ++ +GGGCGGGGGGHHHHHGFHHHHHHGHHHGGGGGFHHGHFGGHHHGGFGGGHHGGGGGHHGGGGHGGHHHGGGGGGHHGHGDGGGGGGGGB/A99FE//BBFFF.9/FF?DA=@9./9 +@M01368:8:000000000-A3GHV:1:1110:23303:11846/1:R1:ACTTGGGG:R2:GTCCTACA:F1:GTAG:F2:AGCA +TAAAGTGAACTGTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGTGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTC ++ +GGFBGGBB5AFFFGFHHGGGEGHHHFHHF3EGFHHHHEFHHGGHHHGH3EFHHHHHBDGHHE?ECHGHGHHHHHHFHHHGHHHHHHHGGHGGFHHHFHHGFFHHFEGFHHHHHHEHHFDAGHHHH/BDDFGGH1FDBGHHHHHHHCGHHHFH?0CGCF>CC=@--AFBFFB?=BFDFFF//FDB;-9A-AD-.A.A=?-9-:B/AEB/BFF.A;DDFFFBBFFFF/BBFFFFBFF9B; +@M01368:8:000000000-A3GHV:1:1111:13195:14562/1:R1:ATCAAAGA:R2:GTATCCGA:F1:CAGA:F2:CATC +ACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATGACCCTGAAGTAGGAACCAGATGTCGGATACCTGTCTCTTATACACATCTCCGAGCCCACGAGA ++ +GGGGGGGGGGHHGG4FDFGFGGCGGGHGHG?EGHEGFFDHFHHHHGGFE@EHHGEEEGFCCEFFGFG/EHHHHHBFBGGHFHFHEHGHEFGGGED/EFDEFFEHHBGHHCFFFDFGGHHGFFFHHHHGFG>0<0DGGFHBGHFBDFGHGFFGGAGHHGCGBHFFHHHFFFBFGGGGF/:FFFCB9F9FF0FEFE?FF0BED-D.//BF9//BBFF/BFFFEFFFFED-DCFF?.:BFA +@M01368:8:000000000-A3GHV:1:1111:14287:20817/1:R1:GCCAACAC:R2:ATTCAATT:F1:GTTC:F2:GTTA +CCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTCATCGCACCTACGTTCACTATTACAGGCGAACATACTTATTAAAGTGTGTTAATTAAT ++ +GFGFGGGGGHGHHHHHHHGGGGGHGHFFCGHHGBGHFHHHHAGHHHHEHHAGFFEHEAE?GHHHHEGFFFDGHGHBFFHFHHHGHGHGHBECG@@@EHGGEGCGGGGFFGGGG?BGGGGGG.-C.FEDCFFFEFFFAF/99BEFA.:9BFB/9FFFEFFFFFFEFFF/FBBFFFFFFFFFFFB//;.@@//;DFFFF//BBFFFBF;A;DF=>B//;9B//B/;/;9//9//;B/:B9 +@M01368:8:000000000-A3GHV:1:1111:23624:14516/1:R1:GTCCTACA:R2:CGACATCT:F1:AGCA:F2:GGTT +TAATTAATTAACACACTTTAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGGGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAG ++ +GGGGGGGBGHHHHHHGGHGGHEHGHADFHHHHEGGGHBGHFFHHEHHGHFHGG5FBEEGEGHHHGHHHEFDGHHFFGFGGHHGHHHGHBHGHFHFHHGGGGFCFBGFGE?GFBECEGDGHEHGDGCGHGC/DF@GHGFFCGGGGFFFFDD?@C@GFEC?-ADHFFHBGHFBHFG0CC//.;B0/CA.;AA.;@.AB/9BB/A/.AFFFE/BFFF///9B/FBDE9/;99/B/BFFEF/ +@M01368:8:000000000-A3GHV:1:1111:7437:24508/1:R1:ACACACTT:R2:ACATCACG:F1:TAGT:F2:ATGG +AGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTGTCTCTTATACACATCTCCGAGCCCACGAG ++ +GGGGGGGGGGGGGHHHHHHHHHHHHHHHHGGGFFEHGGHHHHHHHHHHHGHHGGGGGHHHHHHFHHHHGHHHHGHGGGGGHHHHHGGHHHGGGGGGHHHGGGGHHGGGGHHHHHHGGGGGGHGHHGGGGGGGHGGGGGCGHHHHGHHGHHHHHHHEDHHGHGGGGGD;BEGGGFFGGGGC:CFGGGGGGGGGFGGGFFFGFFFFF;FFF;BFFFFFFFFFFFB:FFFFD=CAEEEF>- +@M01368:8:000000000-A3GHV:1:1111:8665:25542/1:R1:TCCTACTT:R2:CTTTAGTA:F1:CAGG:F2:AGTA +TCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTGTCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACGTTCAATATTACAGGCG ++ +GGFGFFGGGGHGH4AGGGFHHCGEE2FGHHHHHHHHHHGFHGF53FHEGGFAF5CFHHGGFGHFHHGGHHHCHHHHHHHFHHGH?EEEG1FFFEHHFHFGGHHGG?F4FBGHGHCHEF0//-9--;0CFGG?@BGDGFFFFEFBBBDA?FFBFFFF=B;-9.AA9EFFFF/;9BD.//;9/9/B:/:BFBFFBFFF/B:BFF//;/B/FFFBFF.A-BFFFBA/F//BFFFBF/;/A- +@M01368:8:000000000-A3GHV:1:1111:9655:13916/1:R1:GGCCCATA:R2:TTAGTAAG:F1:ACAC:F2:TATG +TGGGGGTAGCTAAAGTGAACTGTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGCGGTGTCCACGCAATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGA ++ +GFE1EEEEGGHGHHH2FGHHHFGFGHGCFGGGEFHGGEGGHHHHGHEFBFEGHHHGHHBEHHHHGHGFHHHGGGGHHEGGGGHHHGFHGHHHH1FHHG?G/AGF1GBFGEFFHF2FDD0FG--99@=---AAABA-BF/B?A@F-9BBFF//BB/9/ +@M01368:8:000000000-A3GHV:1:1112:10272:7828/1:R1:GTATCCGA:R2:GTGCTCCG:F1:CATC:F2:GCTC +GGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCTGTCTCTTATACACATCTCCGAGCCCACGAGACTAAGGCGAATCTCGTATGCCGTCTT ++ +GGGGGGGGGHGHHGHGHHHHHHHHHGHHHGGHDGHHHGGGGHHHHHHHHHHHHHHHFHGHHHHGGHGGHHHFHHHHHCGHFFHHHHHHHHHHHHHGHGEFGAEEEEHHGHHGHGHHHHHHHGHHHHHHGHGHFFBC/BA?BGGGFFFFFFFFFFFFFFFC-@DDFFFFFFFEFAFFFFFFBFBFFFFFFFFFFFFFFFFBFF->@FFFFFFFFFFBFBFAD--.99;A?////:.9A. +@M01368:8:000000000-A3GHV:1:1112:9832:16531/1:R1:CTGTAATA:R2:GTATCCGA:F1:TTGA:F2:CATC +CGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGGGCTGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATGACCTTGAAGTAGGAACC ++ +4GGGGEBGEFGHGGHGHGHHHGGHFBGFGGGGGHHEFHGEHFHFHEHHHHHGCGGGHFHHCFGHE@1EEEFFGB?EEEEHBGGGCHHGHHBEE@>EAHHFAEBDGGGCEFF?CEGFFHHHHHFHHHFHGHCGCAHHF<..C.D=0CD.GFHHHG.CAGHC:CHB0GGGFFB0:CFA.A-;9.;000CBBFFBFGA.9AA;A;EDDE.ABBFFFF9;BEFFF/BF//9/B//9:B//.. +@M01368:8:000000000-A3GHV:1:1112:9832:6701/1:R1:CGCCTGTA:R2:GCTAAAGT:F1:ATAT:F2:GAAC +GAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATGACCCTGAAGTAGGA ++ +GGFGGGGGGHHHGGHGGHHHHHHHHHHHGHHGGGGGHHHHHHHHHHHHHHHHHHGGCGDHHHHFGGHHHGGGGGFGGHGGGGHHGGGGHHHHHHGGGGGGHHGGGGDGGFGHGGFCDCHHHHGHHHHGHHFAGFGGEHFGEG.C/FFHE?/E/?E1@EFFH?E@/EGGG//B11B//<@@C0F/<0EE/FGGFGEF1EGBBEHHCGGGHBGEHFHE0B?E--;C?CCGGG@A@GBFBBBB09?@??A-AB--ABE@=-=-9AE9A;FFFFFE=9-//;//;9FF/////;;///9B///;/B////9FFBB;--A@-;/9;9-:-/;;FFFE9BF?@;-9-99/B9F/://///99/; +@M01368:8:000000000-A3GHV:1:1114:2404:13066/1:R1:TCCTACAA:R2:ATGGATCA:F1:GCAT:F2:CAGG +AATTAATTAACACACTTTAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCTGTCTATTATACACATC ++ +GGGGGGGGGHHHHHGHHHHHHHHHFFHHHHHGGGGHHHHHHHHFHHHHHHFGGHHGGHGGHHHHHHGHHFHHHHGGGGGGHHHHHHGHHHHHHHHHHGGGGGGGHH?FGHHHGGGGGGHHGGFGGHHGGGGHHHHHFGGGGFGHGHHGGGGGGGHGGGEGGHHGHHHHHHHHHGFBFFDA0FGGGFFGG0:EFGGGGGGGG;AEBF0B0BFFBFFFFFFFFFFFFFFFFFFFFFEFF0 diff -r 313e04fe07cd -r cc01cbc4e7f7 test-data/mec_reads_pair2.fastqsanger --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/mec_reads_pair2.fastqsanger Fri Oct 08 09:57:12 2021 +0000 @@ -0,0 +1,396 @@ +@M01368:8:000000000-A3GHV:1:1101:6911:8255/2:R1:ATCTGGTT:R2:TCGCCTTA:F1:CCTA:F2:CCGC +ACTCACCCACGGCGGCCATCAGCCGATACTAAGTTTGGGGTATGGTGGGGGGGATAATGAATTAGGTTGTGGGGGAGGGTTTGTGGTTGAGAGAAACACAAAAAACAATCTTATATATGGGTAGTCGTTTTGTATTGGTTTTTTGTTTTGTTTGTGTTTTGAGTGTCGGTTTAGTTCGGTGTACTAGGGGGGGTGGATGGGGTCGGCTGGTGAGGGGGTCTTAGTGTATTGAGTGTGG ++ +A111A100000000////011110//>>/12@1@22B/////1@>21/>>/-----9/;////9////--;-;-;-----;--------9/-/-///9-;-------9//////9/////-//-/9-;-;9--/////99-;--9-:-;----/---/-----////---9-/////--;A-//////---------9/-----;-----/-/-----;--;//////////9;///- +@M01368:8:000000000-A3GHV:1:1101:14518:9998/2:R1:GTTATTAT:R2:CATCACGA:F1:TATG:F2:TGGA +CACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACGTTCAATATTACAGGCGAACATACTTACTAAAGTGTGTTAATTAATTAATGCTTGTAGGACATAATAATAA ++ +GGGGGGGGGHHHHHHHHHHHHHHHHGFHHHHGGGGGHGFHHHHHHHHHHHHHHHHHHHGHGGEHGGGGCGGGHHGGCGGGGGHHGHHHGGGGGGGG.BFFFGAGADFGAFDGFGGCFFF;DDFFFFFFFFFFFFFFFFFFEFFFFFFFFFFFBFFFFFFFFFFFFFFFFFFF09FFFE00;BE@;DABBFFFFFBBFB00;F:9;FFBFFF9BFFFFFFFFFFFFF90/::BFFFBF0 +@M01368:8:000000000-A3GHV:1:1101:18422:19051/2:R1:GTATCCGA:R2:CTACAAGC:F1:CATC:F2:ATTA +TTAATTAACACACTTTAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGGGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGG ++ +GGGGGGGGGHHHGHHHHHHHHHHHHHHHHGGGGHHHHHHHHEHHHHHHHGGHHGGHGGHHHHHHHGHGGHHHGGGGGHGHHHHGGGHFHFHHHHHGGGGGHBFFCGDHHHGGGGGGHGGGGGGHHGCGGGFGHHBGGGGGFFFHEGGGGGCDCCE@EFGHHHHFHEGHGFFHHGB;ECBFGGGEFEFFGF0AFGFGFFG.;;DFFFFFFFFFF090BFFFE?FEFBBFBFFFB990BF +@M01368:8:000000000-A3GHV:1:1101:25545:21098/2:R1:ATTAATTA:R2:GCCCATAA:F1:ACAC:F2:CACT +GGGGGTAGCTAAAGTGAACTGTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTTCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCAACCTATGTCGCAGTATCTGTCTTTGAT ++ +CGGCGGGCGHHHGHHHHCGHFGHFHGFGGCDGGBD5FGFFFHFHGGGHAEBFGHHHEHGGFHBGGFHHHGGGEEFHHHFHFFHDHGHGHHHHFFHHGGFAEGFFFFFBGHHHFFHHHHHHHFHFHHFHGFHGHGA/<@EFHEHH1GGHFFFHG1>=FGHFHGF.GE//-///F??//@BCBAC<<.<<///FDFACF?FHFGC//??1B0<FF>DFCFDFFFFFFFFF-BBAFFFFFFFFE@D9B;FBFFFFFFFFB9/9FFFEBF9/B/BB/BFAADDFFC-;;9-;@@9-.9/://///://///...- +@M01368:8:000000000-A3GHV:1:1103:25465:20010/2:R1:GACATAGG:R2:AACCTAAA:F1:GTGC:F2:TAGC +CACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGTGCACCCTATGTCCTGTCTCTTATACACATCTGACGCTGCCGACGAGCGATCTAGTGTAGGTCTTGGTGGTCGTCCTCGTATTTGAACACATAATCGTG ++ +GGGGGGGGGHHHHHHGHHHGFHHHHHHHGGGGGHHHHHGHHHHHHHHEHHHHHGHGGHHGGGHHHHGGGGGHHHHHEHFGEHHHEE14BGHHHGHGHFCE/EFGGGGGGHGGGGGG?FFGGGG.ADGGGFFDA.FFEC--;9BBBD?FFFFFFFFBBFFFFFFFFFFFFFFFFFADFDFFC-BBB;BF-.;9:B9B9/9/;9;//;:.99/;-...:.../;//////.9/////.;. +@M01368:8:000000000-A3GHV:1:1103:25519:6301/2:R1:AAATAAGA:R2:CTGTAATA:F1:CATC:F2:TTGA +CGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATGCTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGGGATGTCTTATTTCTGTCTCTTATACACATCTGACGCTGCCGACGAGCGATCTAGTGTAGAT ++ +FFGGGCAFGCGHGGGHGGGHHFHHHFHHGGGGGFFFHHHBHHHHG5BG5GFEEEE1FGFFGF1EGHGGG/BFHEF@EA1BE1@EED3?4DHGGGGEGHFFFDDG?DCDEG@<?@DGCAGC-;@DGFFHGCHEEFGGFGFB/;..BBB.CCE?A0FE0EBFF0FEF.;=DFFB//BFBF//;/:9BA.9FB9//;9//;9F;FF +@M01368:8:000000000-A3GHV:1:1104:13832:4398/2:R1:CACGATGG:R2:GACAGATA:F1:ATCA:F2:CTGC +ACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGCTGTCTCTTATACACATCTGACGCTGCCGACGAGCGATCTAGTGTAGATCTCGGGGGGTGCCGGCTCATTAAAAAAAGAAGATGTCGAGATGTCAGTGCGTGAGTGGAAGTG ++ +GGGGGGGGGGGGHGGGGGGGHHHGFGGHHFGGGHGHHGHGFGECGHHHHGGGGGGGHEGFGGGHHGHFHHHHFGHFHHHHGHHHHFGGFGG3FFGGHHHHHHH2?FFGHFHHHHHHHHHBGHDGC0FGHHGHHGHHHHHHHHHHFGHHGGGGGHG-:@?FAGA:.:09CB0000;9B0.9-;---:./----.0;B00;:0;;.../90009..-..00000000-...90:.00/00 +@M01368:8:000000000-A3GHV:1:1104:23670:4161/2:R1:ATTCAATT:R2:CGACATCT:F1:GTTA:F2:GGTT +CTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACGTTCAA ++ +GGGGGGGGGHHFHHHHHHGHGHHHHHGCHHHHGGGGHHHHHHHHHHHHHHHGHHGHGHGGHGGHGHGGHHGFGHHGHHHEHHGHHHHHGHEHEHHHGGFGGHHHFHHHGHHHHHHHGHHHHG4EGGGFCBBCA?DGGGGGGCCAFFFFFFFFFFFFFFFFFDFFF.9@--=AFFFF;FBFFBEFFF9FBFFB9/FFFFFFB/FFFFFFFBFFFF/BBFBB/FFFE?.;@FFB?FBB// +@M01368:8:000000000-A3GHV:1:1104:24927:22253/2:R1:AGCTAAAG:R2:GTAATATT:F1:TGAA:F2:GAAC +TAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGGGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGGGGGCTATTTAGGTTTTATGACCCTGAAGTAGGAACGAG ++ +AFGG5GGGGHDGHHHHHHHHHHHHFHCFGC2F3BFGFGHBGHHFHEDHFGGGGGHHHG3F?GHHGGC/EFEHFGAEFFHGGAEHGGGG3EEGEEDHFHAAD@DGGGHG/AC1>GED-<<-.;C0:0C:C;GH:::::0B90;FFGEGFBFF0C.;9F0;0090;900;00FA9D.A...-9=BBFFFE/FE9;9E//BBBB.BBB///B/9/B..;. +@M01368:8:000000000-A3GHV:1:1104:4705:7727/2:R1:CTACAAGC:R2:TCCTACTT:F1:ATTA:F2:CAGG +TCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACGTTCAATATTACAGGCG ++ +GFGGFGGGGGHHHHFHHHHHHGGGGHHHHHHHHHHHHHHHHHHHHHHEDEFGHFHHHHGHGHHHHHHHGHHHHHHHHFHGHHHHHGGGGGHHHGHHHHHHHHHHHGHHHHFHGHGHGGHGGGDCD.;FFGGGGGGGGFFFFFFFFFFFFF.>FFFFFF-BBEFFFFFBFFFFF-DDFFFFFFEFFFFFFFFFFFF?F///9FFFFF/;FFFFF?AADCFFEFAFFEFFFFFB/;B/A9 +@M01368:8:000000000-A3GHV:1:1104:7756:4776/2:R1:GGCCCATA:R2:CTACAAGC:F1:ACAC:F2:ATTA +TTAATTAACACACTTTAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGG ++ +GGGGGGGGFFHHGHHGHHGGHGHHGFHHGGGGGHHHHHHHHGFF3GGGHGGGHFDHEGHHFHHHHGFHBCGHGEGFFFFFHHHHHGHHHHHGHHHGGGGGHHGHHGGHHHGGGGGGHHECCFDHHADGGHHHFGFDC////FHHHDGFCGCDEECF?EGGFFHHFEHFGGHHFFF/A900;C.9..C0990.;CFBFGE/9.9B99/;B.99/FB///9AEF/99/9/BBF/B/B//A +@M01368:8:000000000-A3GHV:1:1105:11310:21761/2:R1:ATAAATAA:R2:ACTTGGGG:F1:TAGG:F2:GTAG +TAAAGTGAACTGTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCTCC ++ +GGGGGGGGGHHHHHHHHGGGGGHHHHHHHHGHHHHHHHHHGHHHHHHHHGHHHHHHHHHHGGGGGHHHHHHHHHHGHHHHHHHHHHHGGHGGHHHHGHHHDGHHHHHHHHHHHHHHHHHGHHHHHGGGGGGHHHHHGHHHHHHHHFFHHHHHCCAHFHHGGFFFFFFFFFAA;BDDFFFF00.-=D.ABDA-.::AAF;F@.AAD./0000.9-;.9:00009:F090;FF000900; +@M01368:8:000000000-A3GHV:1:1105:11578:14676/2:R1:ATTGAACG:R2:GCTCCGGG:F1:TAGG:F2:CCCA +AACACTTGGGGGTAGCTAAAGTGAACTGTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGT ++ +GGGGGGGGGHGGGGGHHHHHHHGHHHHGHHHHHFFFGGHGHHHHHHHHHHHHHHHHFGHHHHHHHGHHGHFHFGHHHGGGGHHHHHHHHHHHHHHFHHHHHHHGGHGGHHHHHHHHHHHHHHHHHHHHHHHHHHHGHHHHHDGGCGHHHHHHHHHHHHHFFGGFGHHGHFFBGFGB2>F@;-A@FF<-;---@-;-----;-BFF/;---9//BBFFFF//B;FF///9BF///;/;B/BBFBFFBB/;-9--///;9/:-;BFFBBB9F +@M01368:8:000000000-A3GHV:1:1105:15502:11453/2:R1:GTCCTACA:R2:GATCACAG:F1:AGCA:F2:GTCT +TCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACGTTCAATATTACAGGCGAACATACTTACTAAAGTGTGTTAATTAATTAATGCTTGTAGGACCTGTCTCTTATACACATCTG ++ +GGGGGGGGGHHHHHHGHHHHHGGGGGFHFHHHHHHGHHHHHGHHHHHHGHFHGHGGGGGGGGHHHGGGGGGGGHHHGHGGGGGGGGGGGHHGGGFGGGFEGGGGFFFGGFGDGGGBFGFFFFFFFFFFFFFE0BFFFFFFFFFFFFFFFFFFF;BFFDFFFFBF0BFFBFFEEBFFAA009FFFFFBFFEBB0;.BFFBFFFFFFFFFFFF0;BFFFFE//090::B0000:009900 +@M01368:8:000000000-A3GHV:1:1105:16787:9771/2:R1:GTTATTAT:R2:TCCTACTT:F1:TATG:F2:CAGG +TCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACGTTCAATATTACAGGCG ++ +GGGGGGGGGGHHHHHHHHHHHGGGGHHHHHHHHHHHHHHFHHHHHHHGGFGGHHEHHHHHAGHHGHBHHHGHHHHHHGHGHGHHHGGGGGHHHHHHHHHHHHHHHFFHHHHHGHGHGHHGGGACAFGGGGGG-AFGGFFFFFFFFFFFFFFFFFFFFF-9@AFEDFFFFFB.9-AABBBFFFEFFFFFFFFBFFFFFFEBB0BBBFFBFFBFBEDEAFFEB.ABFBFBFFFF0::/.- +@M01368:8:000000000-A3GHV:1:1105:17564:15723/2:R1:TATGCTCG:R2:ATCCGACA:F1:CCTG:F2:TCTG +TTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACGTT ++ +GGGGGGGGGHHHHGHHGHHHHHHGHHHHHHFHHHHGGGGHHGHFHHHHHHHFHHHHHHHGHGGHGGHGHHHHFHFHHGHHHHHHHHHHHHHEHGHHHHHGGGGGHHHHGEHHGHHHHHHGHFGHFHGGAHGGHGGGCCBDFGFFAFDBDDFFFFFBDA;AAD-ADC?AFEFB-@@AAEFEFFFFF..-:.B0:FFFFFFEF0BFF09FF.0;9BFFFFF0BFFFFFF?.::-909;.9 +@M01368:8:000000000-A3GHV:1:1105:18108:12091/2:R1:TAATAGGA:R2:GTATCCGA:F1:TGAG:F2:CATC +GGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTACTGTCTCTTATACAC ++ +GGGGGGGGGHHGHHHHFHHHHHHFHGHHHHFHFHHHHGGGGHHHHHHHHHHHHHHHHHHHHHHGGHGGHGHHHHGHFHGHHGHHHHHHGHHHHHHGHHHHHGGGGGHHHHHHHHGHHHHHGFGHHHHHGHDHGHHGCA;?AAFGFEFDFFF.FFFFEBDFFFFFFFFBFFFFFFFFFEFEFFFEFFFFFFF.:BFFF0BFFFFFFFFFFFF;0FF0;BFFFFFFFFBFFFBFEFFFF0 +@M01368:8:000000000-A3GHV:1:1105:18331:16683/2:R1:TCTGGTTC:R2:TTATTATG:F1:CTAC:F2:TCCT +CAAGCATTAATTAATTAACACACTTTAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGGGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATATCT ++ +GGGGGGGGGHHHHHHHHHHHHHGHHHHHFHGHHGHHHHHGGFGHHIIHHIHHHHHHHFHCFGHEEHFFHGHHFGHGHGHFHHGGGGGGEEGHHEHFHHGGHFHHFGGGGDFGBCGG?DGHGGFCGGHHECEF?CHGGDGFFGGHHC?EEGGHHHH.>AEGGGHEE-AEG0C0GCCEFFFFGEFG/;CEGGGE.:CAE.;@.@EFBFFFF/..:BFF0:BB00FBFFFFBDAFFF0;0B +@M01368:8:000000000-A3GHV:1:1105:20577:18421/2:R1:GGGGGTAG:R2:ATGTCCTA:F1:CTAA:F2:CAAG +ATTAATTAATTAACACACTTTAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGCCGAAAATACCAAATGCATGGAGAGCTCCCGTGAATGGGTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTT ++ +CFFGGGFGGHHHHHHHCEGHHCHFGHCAFEFHHHGGAEGGHHDHHHBGHBGHHH?5BGE1AEEFHHHHHGHFHBGHGEGGGGHBFHHFGHBGCFFG4EGHGG?E/FG3F3F/FGCDECEA/FGG/CEDBB//?BHEHHF0ADC@D>D9@DDCFFFFFFCFDFE.AA;/BB/.;-.;BFBBBFFBFFFFFFF/9FF?/;/BBFFFFF/;FFB/ +@M01368:8:000000000-A3GHV:1:1106:17389:18671/2:R1:CCATAACA:R2:GTATGTTC:F1:CTTG:F2:GCCT +TAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGGGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTCTTTAGGGTTTATGACCCTGA ++ +GGGGGGGGGHGHGHHGFGFGFHGGHHGHHHHHHHHFHHGGGGAGFBGHHHFBBGH5GDHH5EEEGEHEGFBF1DGFDGFGGGBBCEEGEHFEFDDHFBFHFD/@BGDGDHHGDCCFCD/C<->.ADDGE1GA;9.FFFFFFD-99ADFFD-.9FADF--9..;AAFEFFEAA-;.///BB:BBF/BBB//B//99/;BBB/9////F +@M01368:8:000000000-A3GHV:1:1107:18714:24788/2:R1:GTATGTTC:R2:GGCCCATA:F1:GCCT:F2:ACAC +TGGGGGTAGCTAAAGTGAACTGTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTAGGTCGCAGGAACTGTCCTTGT ++ +GGGGGGEGGHHHHGGFFHHHHHHHHHHGGGGGHHHHGHHHHHHHHHHHHHFHHHHHHHHGHHHHHHGHHHHGGCGHHHHHHHHHHHHHHHGHHHHHGDGHGGHHHHHHHHGHHHHHHHHHHHGHHHHHHEHHHGHFGGGGHHHHEHFHHGHFHHF.>GGHHHGHGHGGHCFFCDFDFFFFFFAAF.FFFFFEFAFCFFA..@.AFFFC9--9;.;A///00--;A-.;.000000090 +@M01368:8:000000000-A3GHV:1:1107:21355:8333/2:R1:ATATTGAA:R2:GTATCCGA:F1:CGTA:F2:CATC +GGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCGGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACG ++ +GGGGGGGGGHHHGHHHFHHHHHHGHGHHHHHHGHHHHGGGGHHHHHHHHHFFHHFHGHHHHHHGGHGGHHHGHHHHGGHFHHHHHHHFHHGHHGEFFHFHHGGGGGGHHHFHHHHGHHHHE?FGHHHHGFGHGHHGGGDGGGGGFFFCFFFFFFFFFFFFA;DBBDFFFAFFFF;DBAFEDFFFFFEA?-9...9;9;BFFFF//BFBFFFFBFBFFFFFB/BFFF9B/EDEF-BFF. +@M01368:8:000000000-A3GHV:1:1107:22864:15712/2:R1:AATAAGAC:R2:GTAATATT:F1:ATCA:F2:GAAC +TAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTCTGTCTCTTATACACATCTGACGCTGCCGCCGAGGGCTCTAGTTGTGGTCTG ++ +GGGGGGGGGGGGHHHHHHHHHHGHHHGGGGFHGHHHHGHFGFFFFGGHGGGGGCHFHFAFEDHHGGFGGGHHEGEGGHHEGGCHGHHHHGGGGGGHGF0EECGGGGFECCFFGFBGHHHHHHGGHHGHFCFEHFBEFGGADDDC=CC0CCFHG:CEHHHGHBGH:GFFGFF0CAAA/BF09BBBBBBB9CFFB0C00;000;:CFFB;:...D?>:@=:9-@...//;////..;/;/ +@M01368:8:000000000-A3GHV:1:1107:24817:14233/2:R1:CTTCAGGG:R2:CTTTAGTA:F1:TCAT:F2:AGTA +GTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGGGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAAAGTGTGGGCTATTTAGGTTTTT ++ +GGGGGGGGGFHHHHHHHHHHHHHHGHHHGEHGGHHGHHHHHGHHEHHGGGGEHGHHHGEHHGHHDGHHHHGGGGGFGEFGGEGHHGCEEEGHHEFGGDHGGGGAGFHHHHGGF/?//GHFFDGGGGGHAD??DC1DHHBGHHHHGHF<0=GGHGCCFGHGBGGD0GGHC0C.@?ACEEC/.EDEB?BFFCFB9CFF090BBCBFBF0CCB0B00A.9E.B/9BA=-..B9FBF//;BBBBFFB:./9/9/9;B//9BF/;B/ +@M01368:8:000000000-A3GHV:1:1108:11059:23181/2:R1:GTTATTAT:R2:AACTGTAT:F1:TATG:F2:CCGA +ATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACC ++ +GGGGGGGGGHHHHHHHHHHHGHHHHHHHHGHHHHHHHHHHHGGGGHHHHHHHHHHHHHHHHHHHHHHGGHGGHHHHHHHHFHHHHHHHHHHHHHHHHGHGHEHHGFCGGGHHHHHHHHHHHHHHHFGHHHHHGHGHGHHGGGBFGFFFFEAFFFA.BFFFEFDDFFFFFFFFFFEEFF;D;EFFFFFF0BFFFADDFFFFFBFBFFFFFBB0FFFF0::0BF000BFFFBBF0EDFF@ +@M01368:8:000000000-A3GHV:1:1108:12233:13498/2:R1:TAGGTGCG:R2:GGTTCCTA:F1:ATAA:F2:CTTC +GGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACTGTCTCTTATACAC ++ +GGGGGGGGGHHHGHHHHHHBGHHHGGGGHHHHHHHHHHHHHHHHHHHHHHGGHGGHHGHHHHHGGHHGHHHHHHGHHHHHHHGGHHHHGGGGGHHHHHHHHHHHHHGHGHHHHHHGHGHGGHGGGGAGGFGGGGGGGGFFFFFFFFFFDFFFFDFFFFFFFFF>.AEDEFFFFF?E-DAB9FFFFFFFEF:FBFB009:0FFFF9BFFBFFFFBB0.9A=-/0BFF0BBFFBFF:90: +@M01368:8:000000000-A3GHV:1:1108:14328:14751/2:R1:ATAATAGG:R2:GTATCCGA:F1:ATGA:F2:CATC +GGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATCTGTCTCTTATACA ++ +GGGGGGGGGHHHHHHHHHHHHHHHHGHHHHHHDHHHHGGGGHHHHHHHHHHHHGHHHHHHHHHGGHGGHGGHHHHHGHHHHHHHHHHHHHHHHFHGHHHHHGGGGGHHHHHGHGHHHHHHG?FHHHFHGHGHGHHGGGGGGGGGFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFAFFE.ADEFFFFFFFADFFFFF///BBFF/FFFFFBFAFFFFBB///;9:BBFFFBF9B9//:/ +@M01368:8:000000000-A3GHV:1:1108:16350:22621/2:R1:TTAGTAAG:R2:CATCTGGT:F1:TATG:F2:TCCT +CTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACGTTCAATAT ++ +GGGGCGGGGHHHHHHHHGHHHHGHGHHHHGGGGHHHHHHHHHHHIHHHGHHHHHHGGHGGHHHHGHGHGHHHHHHHHHHHGHHHHHHGGHHHHGGGGGHHHHHHHHHHHHHGHGHHHGHHGGGGGHHGGGDADDGFFGGGGFFFFFFFFFDFFFDFFFFFFFFFFFAFAEFEDFFFFFFEE-AAFFFFFBFFFFF0FFFBFF;AFFFFFFFFFFFFFFFFFFFFFAB9BFFFFFBFFF +@M01368:8:000000000-A3GHV:1:1108:21791:23272/2:R1:CTTTAGTA:R2:CATAACAC:F1:AGTA:F2:TTGG +GGTAGCTAAAGTGAACTGTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCT ++ +GGGGGGGGGHHHHGGHHHHHHHGGGEGGHHFGDHGHHHHHHGGHHH2GGHHHGHHGGGGFGFBFHHHGGGGHGHGHHHHHHHHHHGHGHHGHHGGHGGHHHHGGFHGGGHFHGHHHHHGGHHHGHGFCGFFDGGG/FCFHBGHHHHHHHGHCHHHHGGGHGHGHGCFF;>@DFFBFFFFFFDFFFFFFFF;;.DDAA;FFF;BB;C@..9::BBFBBA;-:.::FBB///;/////:/ +@M01368:8:000000000-A3GHV:1:1108:23314:26089/2:R1:ATTGAACG:R2:CATAACAC:F1:TAGG:F2:TTGG +GGTAGCTAAAGTGAACTGTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCC ++ +GGGGGGGGGHHGDHHHHHFHHHHGGGGGFHFFGFFHEGHHHHHHHHFGHFHHHHDEHHHHHHGHFHHGGGGHHGFHHHHHHHHHHHHHHHHHHF?EEFCHFGFHHEFFFHGFHHGHFHFHHHFFHAG??GHACGGDGHGGBFHHHHHHHGHFGHGHGEGHGCFFF@CD-BDDFFFFFFFFDDFFBBFFD-B-A.DFFA.AFEFF-;-..:..BFFFFFA-../9FFF//B/BBBBFF/ +@M01368:8:000000000-A3GHV:1:1108:25084:18127/2:R1:TTATTATG:R2:CCCTTAAA:F1:TCCT:F2:TAAG +CATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACGTTCAATATTACAGGCGAACATACTTACTAAAGTGTGTTAATTAATTAATGCTTGTAG ++ +GGGGGGGGGGGHHHHHHHHFHHHHHHHHHHHHHHGGHHGHHHHHGGGGFHHHHHFHHHHHHHHHGGHHHHHCGGHGHHGGGGGGGHHGGGGGGGGHHHGHHGGGGGGGGGGGGGGGG@CDE?EFEFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFEFFFFFFFFFFFFFE;DFBFFFFFFFFFFFFFFFFFFFAFFFFFFFBFFE0BBBFFFFFFFFFFBFFFF9BB0:0:B; +@M01368:8:000000000-A3GHV:1:1108:7626:10048/2:R1:ATCAAAGA:R2:AACCTAAA:F1:CAGA:F2:TAGC +CACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATCTGTCTCTTATACACATCTGACGCTGCCGACGAGCGATCTAGTGGAGATCTCTGGGGTCGGCGGATTT ++ +GGGGGGGGGHHHHHHHHHHHHHHHHHHHGGGGGHHHHHHHHFGHHHHHHHHHHHHGHHHHGGFHHHFGGGGHHHGHHHHHHHHHHHFGHHHHHGHGHGHHGCGCGGFHHHGGGGGGGGGGGGGGGGGGGFFFAFFFFFFAA-AFEFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFBBFFDFFFFFB-<>;>@BE<:000.0.0/0<00<0:>..-<<<---.0 +@M01368:8:000000000-A3GHV:1:1109:11270:12255/2:R1:AATCAAAG:R2:CTACCTCA:F1:ACAG:F2:GGGT +ATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCTGTCTCTTATACACATCTGACGCTGCCGACGAGCGATCTAGTGGAGATT ++ +GGGGGGGGGHHHHHFHHHHGGGGHHHHHHHHHHHHHHHHHHHHGHGGHGGHHGHHHHHGHHHHHHHHHFHHHHHGHHGHHHHHGGGGGHHHHHHHHGHHHHHH?FHHHHHGHGHGHHGGGGGGGGGGGGGGGGGGGGFFFFFFFFFFFFFFFFECADFFFF.DEBFFFFFF;D.B;.ED.FFFFFFF-.:00009BBF +@M01368:8:000000000-A3GHV:1:1109:24217:19077/2:R1:AAAGTGAA:R2:TAATAGGA:F1:CTGT:F2:TGAG +CAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATGAACCTGAAGTAGGAACCAGATGTCGGATACAGTTCACTTTCTGTC ++ +FEGGCFGFGHHHHFHHFHHHHHHGGEEEFGHGFFAGFFEEAEGGHHBEEFAFGAEF1G3GFGGEEF@EAGGHGFF?ECGGHEEEFGGHHHHFHHFHHGFHHHC2DAGHGG00-BFFA9FFFFFFFFFFFBFAFFAFFFFFBFFFFFFF/9BFFDFFDDFF-9@CDAD;:AFF/;B//....;;///; +@M01368:8:000000000-A3GHV:1:1109:27103:7153/2:R1:GTAATATT:R2:NTACTTCA:F1:GAAC:F2:GGGT +NTAAAACCTNAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCANGGNAGCTCTCCNNGNNNNTGGTATTNTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACGTTCAATATTACCTGTCTC ++ +#AAFFGGGG#BAFFAGHHHGGGGHGHHHHFHHHHHHHGHHHHHHHEGFGGHHBGHGHHBGFFEG2GHHFHFHHHGHHGHFH#/B#??FFGHHH##?####????FHG#??CFGGGEF>CGAGAGGGFGAA@@FFFFFFFFB=@@FF?FF;FFFF@@-@-AFEF?BB/BF?E-BBFFF;:BB/BFFFB/BFFFBFBFBBFFFFFB/FFFBB/;9A@@BFFBFFFF/BBFFFFFFE/:9/ +@M01368:8:000000000-A3GHV:1:1109:8763:7859/2:R1:TAGTAAGT:R2:GGTTCCTA:F1:ATGT:F2:CTTC +GGGTCATAAAGCCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACGTTCAATATTACAG ++ +GGGGGGGGGHHHHHHHCHFAFHHDGEGFHHHHHHHHFHHHHFHHHHHHGHGGHGGHHHFHGHHHHHFFHHHHHHBGHFFHGHGHHHHHGGEGGHHHHHGHHHHHHHHHGFGHHHHGHGHGHHCCGGGGGGGGGGAAGF?FFFFBFA@=BDDFF?-;FFF;@CFFEFEFFFFFFFFFBFDFFFFFFFFFFFFFFFFFFFFFF:FFFF/BF/FFFEFF?DECAFEFFFFFE:FFFFFFFB +@M01368:8:000000000-A3GHV:1:1110:12808:18367/2:R1:AATTAACA:R2:GCCCACAC:F1:CACT:F2:GTTC +CCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACAGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACGTTCAATATTACAGGCGAACATACTTACTAAAGTGTGTTAATTCTT ++ +GGGGGGGGGHHHHHHHHHGGGGGGHHHHFHHGHHHHHHHHHHHHHGHHHGGHHHH3GFHEFHHHHHGHHGFHHHHHFGHHHHHGHGHGGHGGGGGGGHHHGGCGGGGHHGGGGGGGGGGGGGGGGGGGF-BAEFEBEFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFEFFFFFFFFFFFFAFEFDFFFFFFFFFF0BFBED=@DFFFFFFFFFEFFFFFBFAFB;0:;F0 +@M01368:8:000000000-A3GHV:1:1110:14751:26540/2:R1:TAACACTT:R2:ATGTTCGC:F1:GGGG:F2:CTGT +ATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGGTTGGGCTATTTGGGTTTTTTGACCCTGAAG ++ +GGGGGGGGGHHHHGGFHGGHGGCHHHHHHGHHHGHHGEGGGHHHHHHHHHHEFHHHHHHGEE?FGHGEHGGHHHGGGGGGEHHGGGGHHGGGEGHHHGHGGGDFGHHGHGGGGGCGAFFCCDFHHHH1CGGHBHFHFCGFFCDFHGCCE.CC:EGFHHCGHHGCF?FGGGFGGG;B9;FFFFFFEGEBF0;;;0;CFBFFF?D.DE.:..99-...;;//9A.;DE.9-./:FB.;// +@M01368:8:000000000-A3GHV:1:1110:15519:10008/2:R1:CTGTAATA:R2:GGTTCCTA:F1:TTGA:F2:CTTC +GGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACGTTCAATATTACAG ++ +GGGGGGGGGHHHGHHHFHHBGHHHGGGGHHHHHHGHHHHHHHHHHHHHHHGGHGGHHGHHHGGBGHHHHHHHHHHHHHHHHHGGFHHHGGGEGHHHHHHHHHHHHHHHGHHHHHHGHGHGHHGGGGGGDGGGGGGGGGBFFFFFFFFFFFFFFFFFFFECB-=BFFFFFFFFBB?E-A::FFBFFFFFBFFFFFFFFFFFFBFFEFFF;0BFF0:FE?FFFFBFFFFFFFFFFFFFF0 +@M01368:8:000000000-A3GHV:1:1110:16559:7507/2:R1:CATTCAAT:R2:GCCCACAC:F1:TGTT:F2:GTTC +CCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACGTTCAATATTACAGGCGAACATACTTACTAAAGTGTGTTAATTAAT ++ +GGGGGGGGGHHHHHHHHHGGHGGHGHFHHHHFHHHHHHHHHHFHHGHHHHGHHHHHGGEEGHHHHHHHHHHHHHHHHHHHHHHGHGHGHHGGGGGGGHHGGGFGAGFGGGGGGGGGGGDDDFAGGFFFFCFAFEEFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFBFFFFFFFFFFFFFFE..@BFFBD./;:0FFFFF09B/AFCA=-99BFFBFFFFFFFB:BFBFFBFB9: +@M01368:8:000000000-A3GHV:1:1110:16700:6843/2:R1:AAATAATA:R2:GTTCCTAC:F1:GGAT:F2:TTCA +GGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTCTGTCTCTTATACACATTTGTCGCTC ++ +GGGGGGGGGHHGHHHGGHFHHHGGGGGHHHHHHHHHHGHHHHHHHHHHHGGHGGHHHHHHHGBGFFHHHHHHGHHHHHHHHGHHHHHGGGGGHHHHHHHHHHHHHHHFHHHHGHCG/GGHHGGGGGGAFGEEADAGGDFFFF00D>CFDDFFFB?AF?B;-@>.FEDFFFFF0BF-BDFFFFE00B0BF0FFFF:BFA0B0:BBFBBFFFFF0B0:000<00FDFFFFFFFFFFFBFFFFFFFFFFF/FFF/BFFFFFFFBA.?@;FFBDFFFF/ +@M01368:8:000000000-A3GHV:1:1111:7437:24508/2:R1:ACACACTT:R2:ACATCACG:F1:TAGT:F2:ATGG +TCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACGTTCAATATTACAGGCGAACATACTTACTAAAGTGTGTCTGTCTCTTATACACATCTGACGCTGCCGAGA ++ +GGGGGGGFGHHHHHHHHHHHHHGHHHGFHHHHGGGGDHHHHHHHHGFHHHHHGHHHHHHGHFHGHHGGGDFGDFFGGGFFGFFGHGHHHGGC?AD-:A-AFFGGG-?9EFEFGGFFBFEFCFFFFFFFBBBFFFFFFFFFFFFFFFBBFFFFFFFFFFFFFFFFFFEFFFFFFBFFFFEFEFFFF;CF-FFFFFFFF/BFFFFFFFFFFFFEFBFFFB/FFFFFFF//9A..;F--@9 +@M01368:8:000000000-A3GHV:1:1111:8665:25542/2:R1:TCCTACTT:R2:CTTTAGTA:F1:CAGG:F2:AGTA +GTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGACAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTA ++ +GGGGGGGGGHHHHHHHFHHHHCHHGDGGGGHGGHHHHHHHHGHGHHHGGGGGHFHHHHFHHHFFHHHHHFGCGGEHFHHFGGHFHGGGGGGHHFEEEAFEFFDFHGHHHHGGGGGGGHH0DGGGGCGHCC-DFFF. +@M01368:8:000000000-A3GHV:1:1113:5741:16959/2:R1:TAGTAAGT:R2:GTATCCGA:F1:ATGT:F2:CATC +GGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACG ++ +GGGGGGGGGHHHHHHHGHHHHHHHHGHHHHGHDGHHHGGGGHHHHHHHHHHHHHHHGHHHHHGGGEGGHHHHFHHHHHHHHHHHHHHHHHHHHHHGHHGHHGGGGGHHHHHHHHHHHGHHHFHHHHHHGHGHGHGGGGCGGFGGFFFFFFFFFFFFFBFFFFFFFFFFFFFFAFFFFEAEFFFFFFFFFFF9BFFBFFFFFFFFFFFFFFBFFFFFFFFFFFFFFFFFFADAB-/BF. +@M01368:8:000000000-A3GHV:1:1114:10130:11959/2:R1:CGTTCCCC:R2:ATCAGAGA:F1:TTAA:F2:CAGA +ACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGCTGTCTCTTATACACATCTGACGCTGCCGACGAGCGATCTAGTGGAGAGTTCTGTGGGGCCGGGGATCCTTATAAAAAAAATAGA ++ +GGGGGGGGGGHHHHHGGHHHGGGCGGHGHGGGGHHGGGGHHHHHHGGGEGGHHHFGGGGG?E1FE?/EEHHHHHGHHGHHHHGHFHGHGHHGDGGFG2FF2?GHHHHHGCCCFHGHGHHHHGHHFEHHFGHHGHH<1=DGHHHGHHGHGAGAEEDG.CGCGHC0CGBFHGFBBF0ABDDEFF@?--:BB@.;:BF;0.0:0.0:000:BF.-.------.9/;000::0;0:--.000 +@M01368:8:000000000-A3GHV:1:1114:14540:5315/2:R1:CTTTAGTA:R2:CACTTGGG:F1:AGTA:F2:GGTA +CTAAAGTGAACTGTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCC ++ +GGGGGGGGGHHHHHHHHHGGGGGHHHHHHHHHHHHHHHHHHHGHHHHHHHGHHHHFHFHHHGGGGGHHHHHHHHHHHHHGHHHHHHHHGGGGGGHHHFHHHGHHHHHHHHHHHHHHHHHHGHGHHHGGGFGHHHHHHHHFHHHHHF?1FHHGHGHGHGHHGGFFFFDBFBE;BCC.:BFFFFFFFFFFFFFF;AFFFFF-=-.AEDEFFFFF..9A;9FFFF0FFFFE00FFF0:BA. +@M01368:8:000000000-A3GHV:1:1114:15066:16302/2:R1:TAAATAAG:R2:TTATTATT:F1:ACAT:F2:ATGT +CTACAAGCATTAATTAATTAACACACTTTAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGGGATAGACCTGTGATCCATCGTGTGG ++ +GGGGGGGGGHHHHHHHHHHHHHHHDGHHHHFHHGHHGHHHHHGGGGEHHHHFHHFF5FHHFEGHHHGDHGGHGHGFGGGEHFGHHGGGGGHGHHHGHHFHHB3FGHHFGGGG?GFFHCCEBGFFECCDFEGFCFGCHHGFDDHHHGHHCFGGGGGFBFDGFG?-:..AFG.-C0C009;:00;00:9/:CEFFF?AE::9;9?0:FEF0;0..--./00::B/090000000;A.... +@M01368:8:000000000-A3GHV:1:1114:16639:15258/2:R1:CCTAAATA:R2:TTATTATT:F1:GCCC:F2:ATGT +CTACAAGCATTAATTAATTAACACACTTTAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCGCACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGGGATAGACCTGTGATCCATCGTGATG ++ +GGGGGGGGGHHHHHHHHHHHHHHHHGHHHHHHHHGHHHHHHGGGGGHGIHHHIH5DEGHHHF?FGHGGHGGHEGGHFHHGHGEHHGGGGGFFFGHFBG2GHEBGHHGHGGEG/GFGABEDFGHEED?GGHHFFGGGCFEGD/GFHFFGEFGCGG?CC??D-EF@EEEFGCDDBBFGGGEBBFFF09090A.BFGA.9CCA0;EBAB00BBFF.@-./;BB;BFFF0:00099AAFFF0 +@M01368:8:000000000-A3GHV:1:1114:2404:13066/2:R1:TCCTACAA:R2:ATGGATCA:F1:GCAT:F2:CAGG +CTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACGTTCAATATTACAGGCGACCATACTTACTAAAGTGTGTTAATTAATTAATGCTTGTAGGACTGTCTCTTATACACATT ++ +GGGGGGGGGHHHHHHHHHFFHHHHGGGGGHFFFHHFHHHHHHHHHHHHHHHGFEGGGHGEDFCDFHGHFG@@DGGHHHHHHGGGGCGGGGGEHGGCGBB?CF99EGFGGFGG?D9CFFFF/BBFFFFFEF9BFFAFFFFEFFFFFFFFFFFFFFFFFFFFF.FFBBFFFFFFFFFFFF-9;;;BFFFFFB9BFBFBFABFFEFFFFFFFFFF::BFFBFFFF.9//;FFFFF/BFFB/ diff -r 313e04fe07cd -r cc01cbc4e7f7 test-data/paired_collection_example_pair1_results3.fastq.gz Binary file test-data/paired_collection_example_pair1_results3.fastq.gz has changed diff -r 313e04fe07cd -r cc01cbc4e7f7 test-data/paired_collection_example_pair2_results3.fastq.gz Binary file test-data/paired_collection_example_pair2_results3.fastq.gz has changed diff -r 313e04fe07cd -r cc01cbc4e7f7 test-data/paired_collection_example_results3.txt --- a/test-data/paired_collection_example_results3.txt Tue Jul 30 06:26:22 2019 -0400 +++ b/test-data/paired_collection_example_results3.txt Fri Oct 08 09:57:12 2021 +0000 @@ -3,11 +3,13 @@ ========================== Input filename: input_1.fastq Trimming mode: paired-end -Trim Galore version: 0.6.3 -Cutadapt version: 2.4 -Number of cores used for trimming: 1 +Trim Galore version: 0.6.7 +Cutadapt version: 3.4 +Python version: could not detect +Number of cores used for trimming: 4 Quality Phred score cutoff: 20 Quality encoding type selected: ASCII+33 +Using Nextera adapter for trimming (count: 29). Second best hit was Illumina (count: 0) Adapter sequence: 'CTGTCTCTTATA' (Nextera Transposase sequence; auto-detected) Maximum trimming error rate: 0.1 (default) Minimum required adapter overlap (stringency): 1 bp @@ -16,10 +18,10 @@ Length cut-off for read 2: 35 bp (default) -This is cutadapt 2.4 with Python 3.7.3 -Command line parameters: -j 1 -e 0.1 -q 20 -O 1 -a CTGTCTCTTATA input_1.fastq -Processing reads on 1 core in single-end mode ... -Finished in 0.01 s (72 us/read; 0.83 M reads/minute). +This is cutadapt 3.4 with Python 3.9.6 +Command line parameters: -j 4 -e 0.1 -q 20 -O 1 -a CTGTCTCTTATA input_1.fastq +Processing reads on 4 cores in single-end mode ... +Finished in 0.01 s (115 µs/read; 0.52 M reads/minute). === Summary === @@ -33,10 +35,10 @@ === Adapter 1 === -Sequence: CTGTCTCTTATA; Type: regular 3'; Length: 12; Trimmed: 52 times. +Sequence: CTGTCTCTTATA; Type: regular 3'; Length: 12; Trimmed: 52 times No. of allowed errors: -0-9 bp: 0; 10-12 bp: 1 +1-9 bp: 0; 10-12 bp: 1 Bases preceding removed adapters: A: 9.6% @@ -85,11 +87,13 @@ ========================== Input filename: input_2.fastq Trimming mode: paired-end -Trim Galore version: 0.6.3 -Cutadapt version: 2.4 -Number of cores used for trimming: 1 +Trim Galore version: 0.6.7 +Cutadapt version: 3.4 +Python version: could not detect +Number of cores used for trimming: 4 Quality Phred score cutoff: 20 Quality encoding type selected: ASCII+33 +Using Nextera adapter for trimming (count: 29). Second best hit was Illumina (count: 0) Adapter sequence: 'CTGTCTCTTATA' (Nextera Transposase sequence; auto-detected) Maximum trimming error rate: 0.1 (default) Minimum required adapter overlap (stringency): 1 bp @@ -98,10 +102,10 @@ Length cut-off for read 2: 35 bp (default) -This is cutadapt 2.4 with Python 3.7.3 -Command line parameters: -j 1 -e 0.1 -q 20 -O 1 -a CTGTCTCTTATA input_2.fastq -Processing reads on 1 core in single-end mode ... -Finished in 0.01 s (55 us/read; 1.08 M reads/minute). +This is cutadapt 3.4 with Python 3.9.6 +Command line parameters: -j 4 -e 0.1 -q 20 -O 1 -a CTGTCTCTTATA input_2.fastq +Processing reads on 4 cores in single-end mode ... +Finished in 0.02 s (159 µs/read; 0.38 M reads/minute). === Summary === @@ -115,10 +119,10 @@ === Adapter 1 === -Sequence: CTGTCTCTTATA; Type: regular 3'; Length: 12; Trimmed: 58 times. +Sequence: CTGTCTCTTATA; Type: regular 3'; Length: 12; Trimmed: 58 times No. of allowed errors: -0-9 bp: 0; 10-12 bp: 1 +1-9 bp: 0; 10-12 bp: 1 Bases preceding removed adapters: A: 12.1% diff -r 313e04fe07cd -r cc01cbc4e7f7 test-data/paired_collection_example_results3gz.txt --- a/test-data/paired_collection_example_results3gz.txt Tue Jul 30 06:26:22 2019 -0400 +++ b/test-data/paired_collection_example_results3gz.txt Fri Oct 08 09:57:12 2021 +0000 @@ -3,11 +3,13 @@ ========================== Input filename: input_1.fastq.gz Trimming mode: paired-end -Trim Galore version: 0.6.3 -Cutadapt version: 2.4 -Number of cores used for trimming: 1 +Trim Galore version: 0.6.7 +Cutadapt version: 3.4 +Python version: could not detect +Number of cores used for trimming: 4 Quality Phred score cutoff: 20 Quality encoding type selected: ASCII+33 +Using Nextera adapter for trimming (count: 29). Second best hit was smallRNA (count: 0) Adapter sequence: 'CTGTCTCTTATA' (Nextera Transposase sequence; auto-detected) Maximum trimming error rate: 0.1 (default) Minimum required adapter overlap (stringency): 1 bp @@ -17,10 +19,10 @@ Output file will be GZIP compressed -This is cutadapt 2.4 with Python 3.7.3 -Command line parameters: -j 1 -e 0.1 -q 20 -O 1 -a CTGTCTCTTATA input_1.fastq.gz -Processing reads on 1 core in single-end mode ... -Finished in 0.02 s (176 us/read; 0.34 M reads/minute). +This is cutadapt 3.4 with Python 3.9.6 +Command line parameters: -j 4 -e 0.1 -q 20 -O 1 -a CTGTCTCTTATA input_1.fastq.gz +Processing reads on 4 cores in single-end mode ... +Finished in 0.01 s (129 µs/read; 0.47 M reads/minute). === Summary === @@ -34,10 +36,10 @@ === Adapter 1 === -Sequence: CTGTCTCTTATA; Type: regular 3'; Length: 12; Trimmed: 52 times. +Sequence: CTGTCTCTTATA; Type: regular 3'; Length: 12; Trimmed: 52 times No. of allowed errors: -0-9 bp: 0; 10-12 bp: 1 +1-9 bp: 0; 10-12 bp: 1 Bases preceding removed adapters: A: 9.6% @@ -86,11 +88,13 @@ ========================== Input filename: input_2.fastq.gz Trimming mode: paired-end -Trim Galore version: 0.6.3 -Cutadapt version: 2.4 -Number of cores used for trimming: 1 +Trim Galore version: 0.6.7 +Cutadapt version: 3.4 +Python version: could not detect +Number of cores used for trimming: 4 Quality Phred score cutoff: 20 Quality encoding type selected: ASCII+33 +Using Nextera adapter for trimming (count: 29). Second best hit was smallRNA (count: 0) Adapter sequence: 'CTGTCTCTTATA' (Nextera Transposase sequence; auto-detected) Maximum trimming error rate: 0.1 (default) Minimum required adapter overlap (stringency): 1 bp @@ -100,10 +104,10 @@ Output file will be GZIP compressed -This is cutadapt 2.4 with Python 3.7.3 -Command line parameters: -j 1 -e 0.1 -q 20 -O 1 -a CTGTCTCTTATA input_2.fastq.gz -Processing reads on 1 core in single-end mode ... -Finished in 0.02 s (169 us/read; 0.36 M reads/minute). +This is cutadapt 3.4 with Python 3.9.6 +Command line parameters: -j 4 -e 0.1 -q 20 -O 1 -a CTGTCTCTTATA input_2.fastq.gz +Processing reads on 4 cores in single-end mode ... +Finished in 0.04 s (395 µs/read; 0.15 M reads/minute). === Summary === @@ -117,10 +121,10 @@ === Adapter 1 === -Sequence: CTGTCTCTTATA; Type: regular 3'; Length: 12; Trimmed: 58 times. +Sequence: CTGTCTCTTATA; Type: regular 3'; Length: 12; Trimmed: 58 times No. of allowed errors: -0-9 bp: 0; 10-12 bp: 1 +1-9 bp: 0; 10-12 bp: 1 Bases preceding removed adapters: A: 12.1% diff -r 313e04fe07cd -r cc01cbc4e7f7 test-data/paired_collection_example_unpair1_results3.fastq.gz Binary file test-data/paired_collection_example_unpair1_results3.fastq.gz has changed diff -r 313e04fe07cd -r cc01cbc4e7f7 test-data/paired_collection_example_unpair2_results3.fastq.gz Binary file test-data/paired_collection_example_unpair2_results3.fastq.gz has changed diff -r 313e04fe07cd -r cc01cbc4e7f7 test-data/paired_example_pair1_results2.fastq.gz Binary file test-data/paired_example_pair1_results2.fastq.gz has changed diff -r 313e04fe07cd -r cc01cbc4e7f7 test-data/paired_example_pair2_results2.fastq.gz Binary file test-data/paired_example_pair2_results2.fastq.gz has changed diff -r 313e04fe07cd -r cc01cbc4e7f7 test-data/paired_example_results2.txt --- a/test-data/paired_example_results2.txt Tue Jul 30 06:26:22 2019 -0400 +++ b/test-data/paired_example_results2.txt Fri Oct 08 09:57:12 2021 +0000 @@ -3,21 +3,23 @@ ========================== Input filename: input_1.fastq Trimming mode: paired-end -Trim Galore version: 0.6.3 -Cutadapt version: 2.4 -Number of cores used for trimming: 1 +Trim Galore version: 0.6.7 +Cutadapt version: 3.4 +Python version: could not detect +Number of cores used for trimming: 4 Quality Phred score cutoff: 20 Quality encoding type selected: ASCII+33 +Using Nextera adapter for trimming (count: 29). Second best hit was smallRNA (count: 0) Adapter sequence: 'CTGTCTCTTATA' (Nextera Transposase sequence; auto-detected) Maximum trimming error rate: 0.1 (default) Minimum required adapter overlap (stringency): 1 bp Minimum required sequence length for both reads before a sequence pair gets removed: 20 bp -This is cutadapt 2.4 with Python 3.7.3 -Command line parameters: -j 1 -e 0.1 -q 20 -O 1 -a CTGTCTCTTATA input_1.fastq -Processing reads on 1 core in single-end mode ... -Finished in 0.01 s (75 us/read; 0.80 M reads/minute). +This is cutadapt 3.4 with Python 3.9.6 +Command line parameters: -j 4 -e 0.1 -q 20 -O 1 -a CTGTCTCTTATA input_1.fastq +Processing reads on 4 cores in single-end mode ... +Finished in 0.01 s (117 µs/read; 0.51 M reads/minute). === Summary === @@ -31,10 +33,10 @@ === Adapter 1 === -Sequence: CTGTCTCTTATA; Type: regular 3'; Length: 12; Trimmed: 52 times. +Sequence: CTGTCTCTTATA; Type: regular 3'; Length: 12; Trimmed: 52 times No. of allowed errors: -0-9 bp: 0; 10-12 bp: 1 +1-9 bp: 0; 10-12 bp: 1 Bases preceding removed adapters: A: 9.6% @@ -83,21 +85,23 @@ ========================== Input filename: input_2.fastq Trimming mode: paired-end -Trim Galore version: 0.6.3 -Cutadapt version: 2.4 -Number of cores used for trimming: 1 +Trim Galore version: 0.6.7 +Cutadapt version: 3.4 +Python version: could not detect +Number of cores used for trimming: 4 Quality Phred score cutoff: 20 Quality encoding type selected: ASCII+33 +Using Nextera adapter for trimming (count: 29). Second best hit was smallRNA (count: 0) Adapter sequence: 'CTGTCTCTTATA' (Nextera Transposase sequence; auto-detected) Maximum trimming error rate: 0.1 (default) Minimum required adapter overlap (stringency): 1 bp Minimum required sequence length for both reads before a sequence pair gets removed: 20 bp -This is cutadapt 2.4 with Python 3.7.3 -Command line parameters: -j 1 -e 0.1 -q 20 -O 1 -a CTGTCTCTTATA input_2.fastq -Processing reads on 1 core in single-end mode ... -Finished in 0.00 s (50 us/read; 1.19 M reads/minute). +This is cutadapt 3.4 with Python 3.9.6 +Command line parameters: -j 4 -e 0.1 -q 20 -O 1 -a CTGTCTCTTATA input_2.fastq +Processing reads on 4 cores in single-end mode ... +Finished in 0.03 s (256 µs/read; 0.23 M reads/minute). === Summary === @@ -111,10 +115,10 @@ === Adapter 1 === -Sequence: CTGTCTCTTATA; Type: regular 3'; Length: 12; Trimmed: 58 times. +Sequence: CTGTCTCTTATA; Type: regular 3'; Length: 12; Trimmed: 58 times No. of allowed errors: -0-9 bp: 0; 10-12 bp: 1 +1-9 bp: 0; 10-12 bp: 1 Bases preceding removed adapters: A: 12.1% diff -r 313e04fe07cd -r cc01cbc4e7f7 test-data/paired_example_results2gz.txt --- a/test-data/paired_example_results2gz.txt Tue Jul 30 06:26:22 2019 -0400 +++ b/test-data/paired_example_results2gz.txt Fri Oct 08 09:57:12 2021 +0000 @@ -3,11 +3,13 @@ ========================== Input filename: input_1.fastq.gz Trimming mode: paired-end -Trim Galore version: 0.6.3 -Cutadapt version: 2.4 -Number of cores used for trimming: 1 +Trim Galore version: 0.6.7 +Cutadapt version: 3.4 +Python version: could not detect +Number of cores used for trimming: 4 Quality Phred score cutoff: 20 Quality encoding type selected: ASCII+33 +Using Nextera adapter for trimming (count: 29). Second best hit was Illumina (count: 0) Adapter sequence: 'CTGTCTCTTATA' (Nextera Transposase sequence; auto-detected) Maximum trimming error rate: 0.1 (default) Minimum required adapter overlap (stringency): 1 bp @@ -15,10 +17,10 @@ Output file will be GZIP compressed -This is cutadapt 2.4 with Python 3.7.3 -Command line parameters: -j 1 -e 0.1 -q 20 -O 1 -a CTGTCTCTTATA input_1.fastq.gz -Processing reads on 1 core in single-end mode ... -Finished in 0.03 s (287 us/read; 0.21 M reads/minute). +This is cutadapt 3.4 with Python 3.9.6 +Command line parameters: -j 4 -e 0.1 -q 20 -O 1 -a CTGTCTCTTATA input_1.fastq.gz +Processing reads on 4 cores in single-end mode ... +Finished in 0.01 s (114 µs/read; 0.53 M reads/minute). === Summary === @@ -32,10 +34,10 @@ === Adapter 1 === -Sequence: CTGTCTCTTATA; Type: regular 3'; Length: 12; Trimmed: 52 times. +Sequence: CTGTCTCTTATA; Type: regular 3'; Length: 12; Trimmed: 52 times No. of allowed errors: -0-9 bp: 0; 10-12 bp: 1 +1-9 bp: 0; 10-12 bp: 1 Bases preceding removed adapters: A: 9.6% @@ -84,11 +86,13 @@ ========================== Input filename: input_2.fastq.gz Trimming mode: paired-end -Trim Galore version: 0.6.3 -Cutadapt version: 2.4 -Number of cores used for trimming: 1 +Trim Galore version: 0.6.7 +Cutadapt version: 3.4 +Python version: could not detect +Number of cores used for trimming: 4 Quality Phred score cutoff: 20 Quality encoding type selected: ASCII+33 +Using Nextera adapter for trimming (count: 29). Second best hit was Illumina (count: 0) Adapter sequence: 'CTGTCTCTTATA' (Nextera Transposase sequence; auto-detected) Maximum trimming error rate: 0.1 (default) Minimum required adapter overlap (stringency): 1 bp @@ -96,10 +100,10 @@ Output file will be GZIP compressed -This is cutadapt 2.4 with Python 3.7.3 -Command line parameters: -j 1 -e 0.1 -q 20 -O 1 -a CTGTCTCTTATA input_2.fastq.gz -Processing reads on 1 core in single-end mode ... -Finished in 0.02 s (170 us/read; 0.35 M reads/minute). +This is cutadapt 3.4 with Python 3.9.6 +Command line parameters: -j 4 -e 0.1 -q 20 -O 1 -a CTGTCTCTTATA input_2.fastq.gz +Processing reads on 4 cores in single-end mode ... +Finished in 0.02 s (232 µs/read; 0.26 M reads/minute). === Summary === @@ -113,10 +117,10 @@ === Adapter 1 === -Sequence: CTGTCTCTTATA; Type: regular 3'; Length: 12; Trimmed: 58 times. +Sequence: CTGTCTCTTATA; Type: regular 3'; Length: 12; Trimmed: 58 times No. of allowed errors: -0-9 bp: 0; 10-12 bp: 1 +1-9 bp: 0; 10-12 bp: 1 Bases preceding removed adapters: A: 12.1% diff -r 313e04fe07cd -r cc01cbc4e7f7 test-data/paired_hardtrimmed3_pair1_.fastqsanger --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/paired_hardtrimmed3_pair1_.fastqsanger Fri Oct 08 09:57:12 2021 +0000 @@ -0,0 +1,396 @@ +@M01368:8:000000000-A3GHV:1:1101:6911:8255/1 +TCGCACCTACGTTCAATATT ++ +FFEFE;DFFFDFBFF/9BFB +@M01368:8:000000000-A3GHV:1:1101:14518:9998/1 +GACCTGTGATCCATCGTGAT ++ +FF//;BFFFFFBF/9D:A// +@M01368:8:000000000-A3GHV:1:1101:18422:19051/1 +TATTATTTATCGCACCTACG ++ +FFEFBFFFFFFFFFF:FFF. +@M01368:8:000000000-A3GHV:1:1101:25545:21098/1 +TTTAAGGGGAACGGGTGGGG ++ +FBFFFFFFBF..A..;@B-- +@M01368:8:000000000-A3GHV:1:1101:5446:12248/1 +AAGGGGAACGTGTGGGCTAT ++ +FFFBFFFFFFEFFFFFEFFF +@M01368:8:000000000-A3GHV:1:1101:5861:6452/1 +TGATCCATCGTGATGTCTTT ++ +FFFFFBFFBD.AFFFFFFF0 +@M01368:8:000000000-A3GHV:1:1102:10403:6021/1 +ACCCTATGTCGCAGTATCTG ++ +..9..9/9;BEF;A:9/BFF +@M01368:8:000000000-A3GHV:1:1102:10677:23253/1 +AATTCTGTCTCTTATACACA ++ +F0FFFFFFFFFFFFFFFFF: +@M01368:8:000000000-A3GHV:1:1102:13809:1733/1 +GTCTCTTATACACATCTCCG ++ +FBBBFFFFFBFF0BFBF9F. +@M01368:8:000000000-A3GHV:1:1102:17584:10050/1 +AATCTCGTATGCCGTCTTCT ++ +FF;.BF9ADF/9;A;DFFF0 +@M01368:8:000000000-A3GHV:1:1102:18842:24844/1 +TCTGTCTTTGATTCCTGCCT ++ +BBBFBFBFFF//BFB/BFF/ +@M01368:8:000000000-A3GHV:1:1102:21788:11027/1 +ACTAAAGTGTGTTAATTCTG ++ +FBFF0FFBBBBFBFBFFFF0 +@M01368:8:000000000-A3GHV:1:1102:5728:8777/1 +CCTGAAGTAGGAACCAGATG ++ +FFFFBBFFFFF/FFEFFFBB +@M01368:8:000000000-A3GHV:1:1102:5983:21093/1 +TATTATTTATCGCACCTACG ++ +F0BFFFBBFF0EFFFFFFFA +@M01368:8:000000000-A3GHV:1:1102:7765:18353/1 +CCTATGTCGCAGTATCTGTC ++ +.::FBFBFFE-A9:BFFFF0 +@M01368:8:000000000-A3GHV:1:1103:10405:17879/1 +TATTATTTATCGCACCTACG ++ +FBFFFFFFFFFFFFFFFFF? +@M01368:8:000000000-A3GHV:1:1103:13493:8205/1 +GATTCCTGCCTCATCCTATT ++ +FFFFFFFFBFBBBFFFFEFF +@M01368:8:000000000-A3GHV:1:1103:14060:21273/1 +TATTACTGTCTCTTATACAC ++ +:FFFBB/BFFFFFBFFFFB/ +@M01368:8:000000000-A3GHV:1:1103:14528:12993/1 +TCGCAGTATCTGTCTTTGAT ++ +BFEA-A.B//9F9F//;BBB +@M01368:8:000000000-A3GHV:1:1103:17657:20856/1 +TGCCTCATCCTATTATTTAT ++ +FFFFFFFFFFF/FFFFBFF9 +@M01368:8:000000000-A3GHV:1:1103:23099:3794/1 +GCGAATCTCGGATGCCGTCT ++ +FFFF@;.9BF..;-./-A=F +@M01368:8:000000000-A3GHV:1:1103:25465:20010/1 +AAAAAAAAAAAACAACAGAC ++ +.B/;:>---;--..;.../9 +@M01368:8:000000000-A3GHV:1:1103:25519:6301/1 +GAGACTAAGGCGAATTTCGT ++ +-B?DFFF/B/B?---.//;. +@M01368:8:000000000-A3GHV:1:1103:6074:6549/1 +GTATCTGTCTTTGATTCCTG ++ +A./FFFFFFFFFFFF/BFF/ +@M01368:8:000000000-A3GHV:1:1104:11572:8264/1 +TATTATTTATCGCACCTACG ++ +B/BFFFF/BFFE?EFAFEF9 +@M01368:8:000000000-A3GHV:1:1104:11928:24197/1 +TAGGAACCAGATGTCGGATA ++ +FFFFFFFFFFFFFFFFF@D9 +@M01368:8:000000000-A3GHV:1:1104:12288:20635/1 +TCTGTCTTTGATTCCTGCCT ++ +;FBBFBFB///;99999BA9 +@M01368:8:000000000-A3GHV:1:1104:13832:4398/1 +ACCCAGTAGACTAGTGCGTC ++ +9...:.9//9////;/9-.- +@M01368:8:000000000-A3GHV:1:1104:23670:4161/1 +GGGTGATAGACCTGTGATCC ++ +BF./AAF/BFFBBF/F/BFB +@M01368:8:000000000-A3GHV:1:1104:24927:22253/1 +TTCCTGCCTCATCCTATTAT ++ +//;/;9/A/;/9BFFFBFBB +@M01368:8:000000000-A3GHV:1:1104:4705:7727/1 +CGTGATGTCTTATTTAAGGG ++ +F?.AFFF/BFFEFFFFFEFF +@M01368:8:000000000-A3GHV:1:1104:7756:4776/1 +GTCGCAGTATCTGTCTTTGA ++ +FFBEFFF:9FFFFBBFFFF/ +@M01368:8:000000000-A3GHV:1:1105:11310:21761/1 +TGTCGGATACAGTTCACTTT ++ +FFBFFFFFFFFFFFFEFFF0 +@M01368:8:000000000-A3GHV:1:1105:11578:14676/1 +TGAAGTAGGAACCAGATGTC ++ +FF/FFFFFFFFFFFFFFFF0 +@M01368:8:000000000-A3GHV:1:1105:13575:19255/1 +TGGGCTATTTAGGTTTTATG ++ +FF?B---;B99//9/;A//9 +@M01368:8:000000000-A3GHV:1:1105:15502:11453/1 +CTGTCTCTTATACACATCTC ++ +FFFFEFFFFFFFFBFFFBFF +@M01368:8:000000000-A3GHV:1:1105:16787:9771/1 +GACCTGTGATCCATCGTGAT ++ +FFFFFFBFFFFFFFFFEFF/ +@M01368:8:000000000-A3GHV:1:1105:17564:15723/1 +TTAGGTTTTATGACCCTGAA ++ +FFBBFBBFFFFFE1:BFFB0 +@M01368:8:000000000-A3GHV:1:1105:18108:12091/1 +GATACCTGTCTCTTATACAC ++ +F-A.B//;BFFEF//BB/// +@M01368:8:000000000-A3GHV:1:1105:18331:16683/1 +CGCACCTACGTTCAATATTA ++ +B.DABFFFFFFB.//:FB// +@M01368:8:000000000-A3GHV:1:1105:20577:18421/1 +CTTTGATTCCTGCCTCATCC ++ +FBB/:FF9BF/BF.BBFF/: +@M01368:8:000000000-A3GHV:1:1105:21099:2895/1 +ATTCCTGCCTCATCCTATTT ++ +BFBFFBFF.0:000BFFBF0 +@M01368:8:000000000-A3GHV:1:1105:26469:19245/1 +ACCTGTGATCCATCGTGATG ++ +FFFFFFF/9FFFFBDEFFFF +@M01368:8:000000000-A3GHV:1:1105:7169:17145/1 +GAACATACTTACTAAAGTGT ++ +-9@DDBFFFFFFFFBBFFF0 +@M01368:8:000000000-A3GHV:1:1106:15481:16176/1 +TGTGGGCTATTTAGGTTTTT ++ +FE:AAFEF.BFFFFF;9FF. +@M01368:8:000000000-A3GHV:1:1106:17389:18671/1 +GCAGTATCTGGCTTTGATTC ++ +..;A;/B/;B//;;//BBF/ +@M01368:8:000000000-A3GHV:1:1106:22927:3863/1 +CTCCGAGCCCACGAGACTAA ++ +//FFF-=--.99=--.9/// +@M01368:8:000000000-A3GHV:1:1106:23625:4236/1 +ATTCCTGCCTCATCCTATTA ++ +EFFFFFFFAF///9FF/BB/ +@M01368:8:000000000-A3GHV:1:1106:26031:14826/1 +GTATGCCGTCTTCTGCTTGA ++ +AFFFFFF;;BFE/BFFFFB: +@M01368:8:000000000-A3GHV:1:1106:27607:15990/1 +AACTACAACCCACGGACGCA ++ +;B.//////;...---9--- +@M01368:8:000000000-A3GHV:1:1106:6455:17124/1 +TATTATTTATCGCACCTACG ++ +F/FFBFFFFFFADE>BFFF9 +@M01368:8:000000000-A3GHV:1:1107:14451:26748/1 +TTTAGGTTTTATGACCCTGA ++ +FBFFFF;FFEBFBFFB./9. +@M01368:8:000000000-A3GHV:1:1107:18714:24788/1 +TTTAGGTTTTATGACCCTGA ++ +FFFFFFBFFFFFBBFFBBF/ +@M01368:8:000000000-A3GHV:1:1107:21355:8333/1 +CCTGAAGTAGGAACCAGATG ++ +FFFFFFFFFFFFBFF.AA/9 +@M01368:8:000000000-A3GHV:1:1107:22864:15712/1 +ACTAAGGCGAATCTCGTATG ++ +9DFFF/FFBF;-.:;.9A// +@M01368:8:000000000-A3GHV:1:1107:24817:14233/1 +TCAATATTACAGGCGAACAT ++ +FFFFFBF//:BFBACF--9/ +@M01368:8:000000000-A3GHV:1:1107:24830:14440/1 +ATCCTATTATTTATCGCACC ++ +FFFFFFFFFFF/BFBEFFC- +@M01368:8:000000000-A3GHV:1:1107:26478:23602/1 +CTGTCTCTTATACACCTCTC ++ +BFFFBBFFF//B/////-;9 +@M01368:8:000000000-A3GHV:1:1108:11059:23181/1 +GACCTGTGATCCATCGTGAT ++ +FFFFBF;BBFFBFFFFE?F/ +@M01368:8:000000000-A3GHV:1:1108:12233:13498/1 +GAACCCTGTCTCTTATACAC ++ +EFF?EFFFF0BFFFFBBB00 +@M01368:8:000000000-A3GHV:1:1108:14328:14751/1 +GGATACCTGTCTCTTATACA ++ +EFFFBF/BF/FFEFFBFFF/ +@M01368:8:000000000-A3GHV:1:1108:16350:22621/1 +TGGGCTATTTAGGTTTTATG ++ +BE.99FAFFFFFFF/;EFF/ +@M01368:8:000000000-A3GHV:1:1108:21791:23272/1 +TGTGGGCTATTTAGGTTTTA ++ +EEFEFFFBFBFBBFFFFF./ +@M01368:8:000000000-A3GHV:1:1108:23314:26089/1 +TGAAGTAGGAACCAGATGTG ++ +BB./:BFFF/F;AA?F//// +@M01368:8:000000000-A3GHV:1:1108:25084:18127/1 +TGTGATCCATCGTGATGTCT ++ +FF9FBFFB/F/.;FFFF/BB +@M01368:8:000000000-A3GHV:1:1108:7626:10048/1 +TATGCCGTCTTCTGCTTGAA ++ +AAFFFFFFAFABBFFFB/;; +@M01368:8:000000000-A3GHV:1:1109:11270:12255/1 +AGACTAAGGCGAATCTCGTT ++ +-@DBFFFFBFD---.;BAA. +@M01368:8:000000000-A3GHV:1:1109:19224:11655/1 +CTTATACACATCTCCGAGCC ++ +FFB/;F/99/FBFFBDCF;B +@M01368:8:000000000-A3GHV:1:1109:21978:9490/1 +GGCGAATCTCGTATGCAGTT ++ +FFFFA;;;FF..9//;/;;/ +@M01368:8:000000000-A3GHV:1:1109:22910:4079/1 +GATACAGTCCACTTTAGCTA ++ +CCDFFFFFFF0BFFFFFFF0 +@M01368:8:000000000-A3GHV:1:1109:24217:19077/1 +TGCCTCATCCTATTACTGTC ++ +9;F./B//BBFB9////99/ +@M01368:8:000000000-A3GHV:1:1109:25237:11722/1 +AGGCGAATATCGTATGCCGT ++ +BF/99D-;.//.../9;B-. +@M01368:8:000000000-A3GHV:1:1109:27103:7153/1 +GACCCTGAAGTAGCTGTCTC ++ +BBFFBFFFF///;/9B;/// +@M01368:8:000000000-A3GHV:1:1109:8763:7859/1 +GGGCTATTTAGGCTTTATGC ++ +EDAA.A/BFFFFFFFFFEB/ +@M01368:8:000000000-A3GHV:1:1110:12808:18367/1 +AAGGGGAACGTGTGGGCCTG ++ +BFBFFB9..AF?FFFFFFF9 +@M01368:8:000000000-A3GHV:1:1110:14751:26540/1 +GTATCTGTCTTTGATTCCTG ++ +9-/;B9BF/9BB//B/;/// +@M01368:8:000000000-A3GHV:1:1110:15519:10008/1 +ATGACCCTGAAGTAGGAACC ++ +FFFFFBFFF.BFFFBFBBA; +@M01368:8:000000000-A3GHV:1:1110:16559:7507/1 +AGGGTGATAGACCTGTGATC ++ +/99;;:.//:FFFFBBF//9 +@M01368:8:000000000-A3GHV:1:1110:16700:6843/1 +CTTATACACATCTCCGAGCC ++ +BFFFFB/BFFBFFF/ADCAD +@M01368:8:000000000-A3GHV:1:1110:18014:7856/1 +TGCTTGCAAAAAAAAAATAG ++ +/BBFFF.9/FF?DA=@9./9 +@M01368:8:000000000-A3GHV:1:1110:23303:11846/1 +CTGTCTTTGATTCCTGCCTC ++ +FBBFFFF/BBFFFFBFF9B; +@M01368:8:000000000-A3GHV:1:1111:13195:14562/1 +ACATCTCCGAGCCCACGAGA ++ +FFEFFFFED-DCFF?.:BFA +@M01368:8:000000000-A3GHV:1:1111:14287:20817/1 +ATTAAAGTGTGTTAATTAAT ++ +B//B/;/;9//9//;B/:B9 +@M01368:8:000000000-A3GHV:1:1111:23624:14516/1 +CATCGTGATGTCTTATTTAG ++ +B/FBDE9/;99/B/BFFEF/ +@M01368:8:000000000-A3GHV:1:1111:7437:24508/1 +CACATCTCCGAGCCCACGAG ++ +FFFFB:FFFFD=CAEEEF>- +@M01368:8:000000000-A3GHV:1:1111:8665:25542/1 +TACGTTCAATATTACAGGCG ++ +FFFBA/F//BFFFBF/;/A- +@M01368:8:000000000-A3GHV:1:1111:9655:13916/1 +GTCGCAGTATCTGTCTTTGA ++ +F/B?A@F-9BBFF//BB/9/ +@M01368:8:000000000-A3GHV:1:1112:10272:7828/1 +CGAATCTCGTATGCCGTCTT ++ +FAD--.99;A?////:.9A. +@M01368:8:000000000-A3GHV:1:1112:9832:16531/1 +ATGACCTTGAAGTAGGAACC ++ +FFF/BF//9/B//9:B//.. +@M01368:8:000000000-A3GHV:1:1112:9832:6701/1 +TTTATGACCCTGAAGTAGGA ++ +FFFFFFF/B./FB///;BF/ +@M01368:8:000000000-A3GHV:1:1113:13532:8618/1 +AGCTACCTCCAAGTGTTATG ++ +FF/BFFB/:.BB//;FBFFF +@M01368:8:000000000-A3GHV:1:1113:21679:18011/1 +AGACTAAGGCGAAGTTCATT ++ +;-;AFFE;/99-9--/;/// +@M01368:8:000000000-A3GHV:1:1113:25528:14016/1 +TCGTGATGTCTTATTTAAGG ++ +FFFEABF//99FFEFFFBFF +@M01368:8:000000000-A3GHV:1:1113:5741:16959/1 +GGGCTATTTAGGTTTTATGA ++ +9AD;.FFFB/B/;FBA/B// +@M01368:8:000000000-A3GHV:1:1114:10130:11959/1 +GCAACAAACACACATCCAGA ++ +F./B/..9.9:...////// +@M01368:8:000000000-A3GHV:1:1114:14540:5315/1 +TGGGGGCTATTTAGGTTTTT ++ +;A.-=A--:BBFB90;;FE. +@M01368:8:000000000-A3GHV:1:1114:15066:16302/1 +TAATTATTGCTTGTAGGACA ++ +F/;BFF/;/////9/////. +@M01368:8:000000000-A3GHV:1:1114:16639:15258/1 +ACATACTTACTAAATTGTGT ++ +-9-99/B9F/://///99/; +@M01368:8:000000000-A3GHV:1:1114:2404:13066/1 +ATCTGTCTATTATACACATC ++ +FFFFFFFFFFFFFFFFEFF0 diff -r 313e04fe07cd -r cc01cbc4e7f7 test-data/paired_hardtrimmed3_pair2_.fastqsanger --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/paired_hardtrimmed3_pair2_.fastqsanger Fri Oct 08 09:57:12 2021 +0000 @@ -0,0 +1,396 @@ +@M01368:8:000000000-A3GHV:1:1101:6911:8255/1 +TCGCACCTACGTTCAATATT ++ +FFEFE;DFFFDFBFF/9BFB +@M01368:8:000000000-A3GHV:1:1101:14518:9998/1 +GACCTGTGATCCATCGTGAT ++ +FF//;BFFFFFBF/9D:A// +@M01368:8:000000000-A3GHV:1:1101:18422:19051/1 +TATTATTTATCGCACCTACG ++ +FFEFBFFFFFFFFFF:FFF. +@M01368:8:000000000-A3GHV:1:1101:25545:21098/1 +TTTAAGGGGAACGGGTGGGG ++ +FBFFFFFFBF..A..;@B-- +@M01368:8:000000000-A3GHV:1:1101:5446:12248/1 +AAGGGGAACGTGTGGGCTAT ++ +FFFBFFFFFFEFFFFFEFFF +@M01368:8:000000000-A3GHV:1:1101:5861:6452/1 +TGATCCATCGTGATGTCTTT ++ +FFFFFBFFBD.AFFFFFFF0 +@M01368:8:000000000-A3GHV:1:1102:10403:6021/1 +ACCCTATGTCGCAGTATCTG ++ +..9..9/9;BEF;A:9/BFF +@M01368:8:000000000-A3GHV:1:1102:10677:23253/1 +AATTCTGTCTCTTATACACA ++ +F0FFFFFFFFFFFFFFFFF: +@M01368:8:000000000-A3GHV:1:1102:13809:1733/1 +GTCTCTTATACACATCTCCG ++ +FBBBFFFFFBFF0BFBF9F. +@M01368:8:000000000-A3GHV:1:1102:17584:10050/1 +AATCTCGTATGCCGTCTTCT ++ +FF;.BF9ADF/9;A;DFFF0 +@M01368:8:000000000-A3GHV:1:1102:18842:24844/1 +TCTGTCTTTGATTCCTGCCT ++ +BBBFBFBFFF//BFB/BFF/ +@M01368:8:000000000-A3GHV:1:1102:21788:11027/1 +ACTAAAGTGTGTTAATTCTG ++ +FBFF0FFBBBBFBFBFFFF0 +@M01368:8:000000000-A3GHV:1:1102:5728:8777/1 +CCTGAAGTAGGAACCAGATG ++ +FFFFBBFFFFF/FFEFFFBB +@M01368:8:000000000-A3GHV:1:1102:5983:21093/1 +TATTATTTATCGCACCTACG ++ +F0BFFFBBFF0EFFFFFFFA +@M01368:8:000000000-A3GHV:1:1102:7765:18353/1 +CCTATGTCGCAGTATCTGTC ++ +.::FBFBFFE-A9:BFFFF0 +@M01368:8:000000000-A3GHV:1:1103:10405:17879/1 +TATTATTTATCGCACCTACG ++ +FBFFFFFFFFFFFFFFFFF? +@M01368:8:000000000-A3GHV:1:1103:13493:8205/1 +GATTCCTGCCTCATCCTATT ++ +FFFFFFFFBFBBBFFFFEFF +@M01368:8:000000000-A3GHV:1:1103:14060:21273/1 +TATTACTGTCTCTTATACAC ++ +:FFFBB/BFFFFFBFFFFB/ +@M01368:8:000000000-A3GHV:1:1103:14528:12993/1 +TCGCAGTATCTGTCTTTGAT ++ +BFEA-A.B//9F9F//;BBB +@M01368:8:000000000-A3GHV:1:1103:17657:20856/1 +TGCCTCATCCTATTATTTAT ++ +FFFFFFFFFFF/FFFFBFF9 +@M01368:8:000000000-A3GHV:1:1103:23099:3794/1 +GCGAATCTCGGATGCCGTCT ++ +FFFF@;.9BF..;-./-A=F +@M01368:8:000000000-A3GHV:1:1103:25465:20010/1 +AAAAAAAAAAAACAACAGAC ++ +.B/;:>---;--..;.../9 +@M01368:8:000000000-A3GHV:1:1103:25519:6301/1 +GAGACTAAGGCGAATTTCGT ++ +-B?DFFF/B/B?---.//;. +@M01368:8:000000000-A3GHV:1:1103:6074:6549/1 +GTATCTGTCTTTGATTCCTG ++ +A./FFFFFFFFFFFF/BFF/ +@M01368:8:000000000-A3GHV:1:1104:11572:8264/1 +TATTATTTATCGCACCTACG ++ +B/BFFFF/BFFE?EFAFEF9 +@M01368:8:000000000-A3GHV:1:1104:11928:24197/1 +TAGGAACCAGATGTCGGATA ++ +FFFFFFFFFFFFFFFFF@D9 +@M01368:8:000000000-A3GHV:1:1104:12288:20635/1 +TCTGTCTTTGATTCCTGCCT ++ +;FBBFBFB///;99999BA9 +@M01368:8:000000000-A3GHV:1:1104:13832:4398/1 +ACCCAGTAGACTAGTGCGTC ++ +9...:.9//9////;/9-.- +@M01368:8:000000000-A3GHV:1:1104:23670:4161/1 +GGGTGATAGACCTGTGATCC ++ +BF./AAF/BFFBBF/F/BFB +@M01368:8:000000000-A3GHV:1:1104:24927:22253/1 +TTCCTGCCTCATCCTATTAT ++ +//;/;9/A/;/9BFFFBFBB +@M01368:8:000000000-A3GHV:1:1104:4705:7727/1 +CGTGATGTCTTATTTAAGGG ++ +F?.AFFF/BFFEFFFFFEFF +@M01368:8:000000000-A3GHV:1:1104:7756:4776/1 +GTCGCAGTATCTGTCTTTGA ++ +FFBEFFF:9FFFFBBFFFF/ +@M01368:8:000000000-A3GHV:1:1105:11310:21761/1 +TGTCGGATACAGTTCACTTT ++ +FFBFFFFFFFFFFFFEFFF0 +@M01368:8:000000000-A3GHV:1:1105:11578:14676/1 +TGAAGTAGGAACCAGATGTC ++ +FF/FFFFFFFFFFFFFFFF0 +@M01368:8:000000000-A3GHV:1:1105:13575:19255/1 +TGGGCTATTTAGGTTTTATG ++ +FF?B---;B99//9/;A//9 +@M01368:8:000000000-A3GHV:1:1105:15502:11453/1 +CTGTCTCTTATACACATCTC ++ +FFFFEFFFFFFFFBFFFBFF +@M01368:8:000000000-A3GHV:1:1105:16787:9771/1 +GACCTGTGATCCATCGTGAT ++ +FFFFFFBFFFFFFFFFEFF/ +@M01368:8:000000000-A3GHV:1:1105:17564:15723/1 +TTAGGTTTTATGACCCTGAA ++ +FFBBFBBFFFFFE1:BFFB0 +@M01368:8:000000000-A3GHV:1:1105:18108:12091/1 +GATACCTGTCTCTTATACAC ++ +F-A.B//;BFFEF//BB/// +@M01368:8:000000000-A3GHV:1:1105:18331:16683/1 +CGCACCTACGTTCAATATTA ++ +B.DABFFFFFFB.//:FB// +@M01368:8:000000000-A3GHV:1:1105:20577:18421/1 +CTTTGATTCCTGCCTCATCC ++ +FBB/:FF9BF/BF.BBFF/: +@M01368:8:000000000-A3GHV:1:1105:21099:2895/1 +ATTCCTGCCTCATCCTATTT ++ +BFBFFBFF.0:000BFFBF0 +@M01368:8:000000000-A3GHV:1:1105:26469:19245/1 +ACCTGTGATCCATCGTGATG ++ +FFFFFFF/9FFFFBDEFFFF +@M01368:8:000000000-A3GHV:1:1105:7169:17145/1 +GAACATACTTACTAAAGTGT ++ +-9@DDBFFFFFFFFBBFFF0 +@M01368:8:000000000-A3GHV:1:1106:15481:16176/1 +TGTGGGCTATTTAGGTTTTT ++ +FE:AAFEF.BFFFFF;9FF. +@M01368:8:000000000-A3GHV:1:1106:17389:18671/1 +GCAGTATCTGGCTTTGATTC ++ +..;A;/B/;B//;;//BBF/ +@M01368:8:000000000-A3GHV:1:1106:22927:3863/1 +CTCCGAGCCCACGAGACTAA ++ +//FFF-=--.99=--.9/// +@M01368:8:000000000-A3GHV:1:1106:23625:4236/1 +ATTCCTGCCTCATCCTATTA ++ +EFFFFFFFAF///9FF/BB/ +@M01368:8:000000000-A3GHV:1:1106:26031:14826/1 +GTATGCCGTCTTCTGCTTGA ++ +AFFFFFF;;BFE/BFFFFB: +@M01368:8:000000000-A3GHV:1:1106:27607:15990/1 +AACTACAACCCACGGACGCA ++ +;B.//////;...---9--- +@M01368:8:000000000-A3GHV:1:1106:6455:17124/1 +TATTATTTATCGCACCTACG ++ +F/FFBFFFFFFADE>BFFF9 +@M01368:8:000000000-A3GHV:1:1107:14451:26748/1 +TTTAGGTTTTATGACCCTGA ++ +FBFFFF;FFEBFBFFB./9. +@M01368:8:000000000-A3GHV:1:1107:18714:24788/1 +TTTAGGTTTTATGACCCTGA ++ +FFFFFFBFFFFFBBFFBBF/ +@M01368:8:000000000-A3GHV:1:1107:21355:8333/1 +CCTGAAGTAGGAACCAGATG ++ +FFFFFFFFFFFFBFF.AA/9 +@M01368:8:000000000-A3GHV:1:1107:22864:15712/1 +ACTAAGGCGAATCTCGTATG ++ +9DFFF/FFBF;-.:;.9A// +@M01368:8:000000000-A3GHV:1:1107:24817:14233/1 +TCAATATTACAGGCGAACAT ++ +FFFFFBF//:BFBACF--9/ +@M01368:8:000000000-A3GHV:1:1107:24830:14440/1 +ATCCTATTATTTATCGCACC ++ +FFFFFFFFFFF/BFBEFFC- +@M01368:8:000000000-A3GHV:1:1107:26478:23602/1 +CTGTCTCTTATACACCTCTC ++ +BFFFBBFFF//B/////-;9 +@M01368:8:000000000-A3GHV:1:1108:11059:23181/1 +GACCTGTGATCCATCGTGAT ++ +FFFFBF;BBFFBFFFFE?F/ +@M01368:8:000000000-A3GHV:1:1108:12233:13498/1 +GAACCCTGTCTCTTATACAC ++ +EFF?EFFFF0BFFFFBBB00 +@M01368:8:000000000-A3GHV:1:1108:14328:14751/1 +GGATACCTGTCTCTTATACA ++ +EFFFBF/BF/FFEFFBFFF/ +@M01368:8:000000000-A3GHV:1:1108:16350:22621/1 +TGGGCTATTTAGGTTTTATG ++ +BE.99FAFFFFFFF/;EFF/ +@M01368:8:000000000-A3GHV:1:1108:21791:23272/1 +TGTGGGCTATTTAGGTTTTA ++ +EEFEFFFBFBFBBFFFFF./ +@M01368:8:000000000-A3GHV:1:1108:23314:26089/1 +TGAAGTAGGAACCAGATGTG ++ +BB./:BFFF/F;AA?F//// +@M01368:8:000000000-A3GHV:1:1108:25084:18127/1 +TGTGATCCATCGTGATGTCT ++ +FF9FBFFB/F/.;FFFF/BB +@M01368:8:000000000-A3GHV:1:1108:7626:10048/1 +TATGCCGTCTTCTGCTTGAA ++ +AAFFFFFFAFABBFFFB/;; +@M01368:8:000000000-A3GHV:1:1109:11270:12255/1 +AGACTAAGGCGAATCTCGTT ++ +-@DBFFFFBFD---.;BAA. +@M01368:8:000000000-A3GHV:1:1109:19224:11655/1 +CTTATACACATCTCCGAGCC ++ +FFB/;F/99/FBFFBDCF;B +@M01368:8:000000000-A3GHV:1:1109:21978:9490/1 +GGCGAATCTCGTATGCAGTT ++ +FFFFA;;;FF..9//;/;;/ +@M01368:8:000000000-A3GHV:1:1109:22910:4079/1 +GATACAGTCCACTTTAGCTA ++ +CCDFFFFFFF0BFFFFFFF0 +@M01368:8:000000000-A3GHV:1:1109:24217:19077/1 +TGCCTCATCCTATTACTGTC ++ +9;F./B//BBFB9////99/ +@M01368:8:000000000-A3GHV:1:1109:25237:11722/1 +AGGCGAATATCGTATGCCGT ++ +BF/99D-;.//.../9;B-. +@M01368:8:000000000-A3GHV:1:1109:27103:7153/1 +GACCCTGAAGTAGCTGTCTC ++ +BBFFBFFFF///;/9B;/// +@M01368:8:000000000-A3GHV:1:1109:8763:7859/1 +GGGCTATTTAGGCTTTATGC ++ +EDAA.A/BFFFFFFFFFEB/ +@M01368:8:000000000-A3GHV:1:1110:12808:18367/1 +AAGGGGAACGTGTGGGCCTG ++ +BFBFFB9..AF?FFFFFFF9 +@M01368:8:000000000-A3GHV:1:1110:14751:26540/1 +GTATCTGTCTTTGATTCCTG ++ +9-/;B9BF/9BB//B/;/// +@M01368:8:000000000-A3GHV:1:1110:15519:10008/1 +ATGACCCTGAAGTAGGAACC ++ +FFFFFBFFF.BFFFBFBBA; +@M01368:8:000000000-A3GHV:1:1110:16559:7507/1 +AGGGTGATAGACCTGTGATC ++ +/99;;:.//:FFFFBBF//9 +@M01368:8:000000000-A3GHV:1:1110:16700:6843/1 +CTTATACACATCTCCGAGCC ++ +BFFFFB/BFFBFFF/ADCAD +@M01368:8:000000000-A3GHV:1:1110:18014:7856/1 +TGCTTGCAAAAAAAAAATAG ++ +/BBFFF.9/FF?DA=@9./9 +@M01368:8:000000000-A3GHV:1:1110:23303:11846/1 +CTGTCTTTGATTCCTGCCTC ++ +FBBFFFF/BBFFFFBFF9B; +@M01368:8:000000000-A3GHV:1:1111:13195:14562/1 +ACATCTCCGAGCCCACGAGA ++ +FFEFFFFED-DCFF?.:BFA +@M01368:8:000000000-A3GHV:1:1111:14287:20817/1 +ATTAAAGTGTGTTAATTAAT ++ +B//B/;/;9//9//;B/:B9 +@M01368:8:000000000-A3GHV:1:1111:23624:14516/1 +CATCGTGATGTCTTATTTAG ++ +B/FBDE9/;99/B/BFFEF/ +@M01368:8:000000000-A3GHV:1:1111:7437:24508/1 +CACATCTCCGAGCCCACGAG ++ +FFFFB:FFFFD=CAEEEF>- +@M01368:8:000000000-A3GHV:1:1111:8665:25542/1 +TACGTTCAATATTACAGGCG ++ +FFFBA/F//BFFFBF/;/A- +@M01368:8:000000000-A3GHV:1:1111:9655:13916/1 +GTCGCAGTATCTGTCTTTGA ++ +F/B?A@F-9BBFF//BB/9/ +@M01368:8:000000000-A3GHV:1:1112:10272:7828/1 +CGAATCTCGTATGCCGTCTT ++ +FAD--.99;A?////:.9A. +@M01368:8:000000000-A3GHV:1:1112:9832:16531/1 +ATGACCTTGAAGTAGGAACC ++ +FFF/BF//9/B//9:B//.. +@M01368:8:000000000-A3GHV:1:1112:9832:6701/1 +TTTATGACCCTGAAGTAGGA ++ +FFFFFFF/B./FB///;BF/ +@M01368:8:000000000-A3GHV:1:1113:13532:8618/1 +AGCTACCTCCAAGTGTTATG ++ +FF/BFFB/:.BB//;FBFFF +@M01368:8:000000000-A3GHV:1:1113:21679:18011/1 +AGACTAAGGCGAAGTTCATT ++ +;-;AFFE;/99-9--/;/// +@M01368:8:000000000-A3GHV:1:1113:25528:14016/1 +TCGTGATGTCTTATTTAAGG ++ +FFFEABF//99FFEFFFBFF +@M01368:8:000000000-A3GHV:1:1113:5741:16959/1 +GGGCTATTTAGGTTTTATGA ++ +9AD;.FFFB/B/;FBA/B// +@M01368:8:000000000-A3GHV:1:1114:10130:11959/1 +GCAACAAACACACATCCAGA ++ +F./B/..9.9:...////// +@M01368:8:000000000-A3GHV:1:1114:14540:5315/1 +TGGGGGCTATTTAGGTTTTT ++ +;A.-=A--:BBFB90;;FE. +@M01368:8:000000000-A3GHV:1:1114:15066:16302/1 +TAATTATTGCTTGTAGGACA ++ +F/;BFF/;/////9/////. +@M01368:8:000000000-A3GHV:1:1114:16639:15258/1 +ACATACTTACTAAATTGTGT ++ +-9-99/B9F/://///99/; +@M01368:8:000000000-A3GHV:1:1114:2404:13066/1 +ATCTGTCTATTATACACATC ++ +FFFFFFFFFFFFFFFFEFF0 diff -r 313e04fe07cd -r cc01cbc4e7f7 test-data/paired_hardtrimmed5_pair1_.fastqsanger --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/paired_hardtrimmed5_pair1_.fastqsanger Fri Oct 08 09:57:12 2021 +0000 @@ -0,0 +1,396 @@ +@M01368:8:000000000-A3GHV:1:1101:6911:8255/1 +ATCTGGTTCCTACTTCAGGG ++ +BCCCCFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1101:14518:9998/1 +GTTATTATTATGTCCTACAA ++ +AAAAAFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1101:18422:19051/1 +GTATCCGACATCTGGTTCCT ++ +CCCCCFDDDDDFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1101:25545:21098/1 +ATTAATTAACACACTTTAGT ++ +33AA?DFD5BDFGGGFEBDG +@M01368:8:000000000-A3GHV:1:1101:5446:12248/1 +AATTAACACACTTTAGTAAG ++ +CCCCDFFFFCCFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1101:5861:6452/1 +ATTATGTCCTACAAGCATTA ++ +ABCCCFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1102:10403:6021/1 +CGCTCCGGGCCCATAACACT ++ +>A@AAAAD2ADDFFGGGGGF +@M01368:8:000000000-A3GHV:1:1102:10677:23253/1 +CCTTAAATAAGACATCACGA ++ +ABBBBFFFFFFFGGGGGGGC +@M01368:8:000000000-A3GHV:1:1102:13809:1733/1 +ATATTGAACGTAGGTGCGAT ++ +BCCBCFFFFFBFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1102:17584:10050/1 +ATCAAAGACAGATACTGCGA ++ +CCCCCFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1102:18842:24844/1 +CACTTGGGGGTAGCTAAAGT ++ +BBBCBFF@CCBBGGGGGGGG +@M01368:8:000000000-A3GHV:1:1102:21788:11027/1 +GCCCACACGTTCCCCTTAAA ++ +ABCCBCCBBFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1102:5728:8777/1 +ATATTGAACGTAGGTGCGAT ++ +BBBBBFFFFFAFGG5GGGGG +@M01368:8:000000000-A3GHV:1:1102:5983:21093/1 +GTATCCGACATCTGGTTCCT ++ +AAABCFCABBCFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1102:7765:18353/1 +CTCCGGGCCCATAACACTTG ++ +CCDCCCCCCBCFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1103:10405:17879/1 +GTATCCGACATCTGGTTCCT ++ +CBCCCFCCCCCFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1103:13493:8205/1 +GTAGCTAAAGTGAACTGTAT ++ +CCCCCFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1103:14060:21273/1 +GTATCCGACATCTGGTTCCT ++ +AAABAFCCCCCFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1103:14528:12993/1 +GCCCATAACACTTGGGGGTA ++ +BBBBBFFFBDFFGFBCG2EG +@M01368:8:000000000-A3GHV:1:1103:17657:20856/1 +AAAGCGAACTGTATCCGACA ++ +ABB?AABBBBFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1103:23099:3794/1 +AAGACAGATACTGCGACATA ++ +BBBBBFFFFFFFGGEEGGFG +@M01368:8:000000000-A3GHV:1:1103:25465:20010/1 +GACATAGGGTGCTCCGGCTC ++ +ABBBBFFFFBAAGGGFEFGG +@M01368:8:000000000-A3GHV:1:1103:25519:6301/1 +AAATAAGACATCACGATGGA ++ +3A3AAFFFFBFFGGG2CF?4 +@M01368:8:000000000-A3GHV:1:1103:6074:6549/1 +TAACACTTGGGGGTAGCTAA ++ +CCCBCFFFFFCCGGGGGGGG +@M01368:8:000000000-A3GHV:1:1104:11572:8264/1 +GTATCCGACATCTGGTTCCT ++ +BABCBFBACCCFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1104:11928:24197/1 +ACGTAGGTGCGATAAATAAT ++ +CDDCCFCFFFBCGGGGGGGG +@M01368:8:000000000-A3GHV:1:1104:12288:20635/1 +CACTTGGGGGTAGCTAAAGT ++ +ABA?AFBAB2>AFGGGGFFG +@M01368:8:000000000-A3GHV:1:1104:13832:4398/1 +CACGATGGATCACAGGTCTA ++ +AAABABCAFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1104:23670:4161/1 +ATTCAATTGTTATTATTATG ++ +AAAABFFFFFFFGGGGGGGC +@M01368:8:000000000-A3GHV:1:1104:24927:22253/1 +AGCTAAAGTGAACTGTATCC ++ +AAA?AFFF3DFFFGGBGFF3 +@M01368:8:000000000-A3GHV:1:1104:4705:7727/1 +CTACAAGCATTAATTAATTA ++ +BBBBBFFBFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1104:7756:4776/1 +GGCCCATAACACTTGGGGGT ++ +CCCCCCFFFFFFGGGGGGGE +@M01368:8:000000000-A3GHV:1:1105:11310:21761/1 +ATAAATAATAGGATGAGGCA ++ +CCCCBFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1105:11578:14676/1 +ATTGAACGTAGGTGCGATAA ++ +CDDDDFFFBFFCGGGGGGGG +@M01368:8:000000000-A3GHV:1:1105:13575:19255/1 +TTAGTAAGTATGTTCGCCTG ++ +AA1A1DFFFFFBGG3A111F +@M01368:8:000000000-A3GHV:1:1105:15502:11453/1 +GTCCTACAAGCATTAATTAA ++ +A3AAAFFFFFCFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1105:16787:9771/1 +GTTATTATTATGTCCTACAA ++ +AABCCFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1105:17564:15723/1 +TATGCTCGCCTGTAATATTG ++ +EDCCDFFCEEDCGGGGGGGG +@M01368:8:000000000-A3GHV:1:1105:18108:12091/1 +TAATAGGATGAGGCAGGAAT ++ +CCCCCFBFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1105:18331:16683/1 +TCTGGTTCCTACTTCAGGGT ++ +BABA?DFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1105:20577:18421/1 +GGGGGTAGCTAAAGTGAACT ++ +ABB@3>AAFFFFFEAGGGFG +@M01368:8:000000000-A3GHV:1:1105:21099:2895/1 +TAGCTAAAGTGAACTGTATC ++ +CBCBBFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1105:26469:19245/1 +TTATGATTATGTCCTACAAG ++ +BAAAAFFFBFFFGGGGGGFF +@M01368:8:000000000-A3GHV:1:1105:7169:17145/1 +AACCTAAATAGCCCACACGT ++ +CCCCCFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1106:15481:16176/1 +CTTTAGTAAGTATGTTCGCC ++ +ABBBBFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1106:17389:18671/1 +CCATAACACTTGGGGGTAGC ++ +3>>A@FFFFFFFGGGFEECF +@M01368:8:000000000-A3GHV:1:1106:22927:3863/1 +GTATCCGACATCTGGTTCCT ++ +A>ABAFA?D@AFGGGGFGGG +@M01368:8:000000000-A3GHV:1:1106:23625:4236/1 +TAGCTAAAGTGAACTGTATC ++ +@?AAAFFBFBFFFGGFGFGG +@M01368:8:000000000-A3GHV:1:1106:26031:14826/1 +GATCACAGGTCTATCACCCT ++ +ABBAAFFF@FFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1106:27607:15990/1 +GACAGATACTGCGACATAGG ++ +BBBBBFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1106:6455:17124/1 +GTATCCGACATCTGGTTCCT ++ +BBBAAFABDBBFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1107:14451:26748/1 +GTATGTTCGCCTGTAATATT ++ +BABBBFFDABBBGGGGGGGG +@M01368:8:000000000-A3GHV:1:1107:18714:24788/1 +GTATGTTCGCCTGTAATATT ++ +BBBCCFFFDEDEGGGGGGGG +@M01368:8:000000000-A3GHV:1:1107:21355:8333/1 +ATATTGAACGTAGGTGCGAT ++ +ABCBBFFFFFAFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1107:22864:15712/1 +AATAAGACATCACGATGGAT ++ +BBBBBFBBFFFFGGGGCEGG +@M01368:8:000000000-A3GHV:1:1107:24817:14233/1 +CTTCAGGGTCATAAAACCTA ++ +3AABABFFBFFFGCFGGGGG +@M01368:8:000000000-A3GHV:1:1107:24830:14440/1 +AACTGTATCCGACATCTGGT ++ +ABBBA@FFFFBBGGGGGGGG +@M01368:8:000000000-A3GHV:1:1107:26478:23602/1 +GCTAAAGTGAACTGTATCCG ++ +1AAAAF1B13BBBEGGGFGG +@M01368:8:000000000-A3GHV:1:1108:11059:23181/1 +GTTATTATTATGTCCTACAA ++ +CCCCCFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1108:12233:13498/1 +TAGGTGCGATAAATAATAGG ++ +BCCBAFFBCCCCGGGGGGGG +@M01368:8:000000000-A3GHV:1:1108:14328:14751/1 +ATAATAGGATGAGGCAGGAA ++ +BCCCBFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1108:16350:22621/1 +TTAGTAAGTATGTTCGCCTG ++ +AAAACFFFFFFFGGGFGGGG +@M01368:8:000000000-A3GHV:1:1108:21791:23272/1 +CTTTAGTAAGTATGTTCGCC ++ +3ABBBFFFFF@FGGGGGGGC +@M01368:8:000000000-A3GHV:1:1108:23314:26089/1 +ATTGAACGTAGGTGCGATAA ++ +BBBBBFFF?FFAGFBFGGEG +@M01368:8:000000000-A3GHV:1:1108:25084:18127/1 +TTATTATGTCCTACAAGCAT ++ +CCBBCFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1108:7626:10048/1 +ATCAAAGACAGATACTGCGA ++ +CCCCCFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1109:11270:12255/1 +AATCAAAGACAGATACTGCG ++ +CCCCCFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1109:19224:11655/1 +AAATAGCCCACACGTTCCCC ++ +BBB@A4FFFBBBGGGGGGGG +@M01368:8:000000000-A3GHV:1:1109:21978:9490/1 +GGGTCATAAAACCTAAATAG ++ +?A3AA?DFFFFFGGGGGGGF +@M01368:8:000000000-A3GHV:1:1109:22910:4079/1 +TAATAGGATGAGGCAGGAAT ++ +CCCCCFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1109:24217:19077/1 +AAAGTGAACTGTATCCGACA ++ +>AAA3BDFFFFDGBFFEEGG +@M01368:8:000000000-A3GHV:1:1109:25237:11722/1 +CCTGTAATATTGAACGTAGG ++ +AABBBFFFFFBBF5BGGFGA +@M01368:8:000000000-A3GHV:1:1109:27103:7153/1 +GTAATATTGAACGTAGGTGC ++ +33>A?FFFDFBFGCG4EGFG +@M01368:8:000000000-A3GHV:1:1109:8763:7859/1 +TAGTAAGTATGTTCGCCTGT ++ +BABAADFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1110:12808:18367/1 +AATTAACACACTTTAGTAAG ++ +BBBBBFFFFBBFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1110:14751:26540/1 +TAACACTTGGGGGTAGCTAA ++ +AAA?1CFFFFADGEEGFGB1 +@M01368:8:000000000-A3GHV:1:1110:15519:10008/1 +CTGTAATATTGAACGTAGGT ++ +BBBBBFFFFFFFGGGGGGCB +@M01368:8:000000000-A3GHV:1:1110:16559:7507/1 +CATTCAATTGTTATTATTAT ++ +ABBBAFFFFFFFFGGGGGGG +@M01368:8:000000000-A3GHV:1:1110:16700:6843/1 +AAATAATAGGATGAGGCAGG ++ +BBBBBFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1110:18014:7856/1 +ATAAATAATAGGATGAGGCA ++ +AABBBFFFFFFFCGGGCGGG +@M01368:8:000000000-A3GHV:1:1110:23303:11846/1 +ACTTGGGGGTAGCTAAAGTG ++ +3ABB?FAB?DAAGGGFBGGB +@M01368:8:000000000-A3GHV:1:1111:13195:14562/1 +ATCAAAGACAGATACTGCGA ++ +ABAAAFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1111:14287:20817/1 +GCCAACACGTTCCCCTTAAA ++ +>>A3>AAAACFFFGFGFGGG +@M01368:8:000000000-A3GHV:1:1111:23624:14516/1 +GTCCTACAAGCATTAATTAA ++ +3>3AAFFFFFAFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1111:7437:24508/1 +ACACACTTTAGTAAGTATGT ++ +CBCCDCFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1111:8665:25542/1 +TCCTACTTCAGGGTCATAAA ++ +AA3AAFFFFFFFGGGFGFFG +@M01368:8:000000000-A3GHV:1:1111:9655:13916/1 +GGCCCATAACACTTGGGGGT ++ +1>>1AAFFFFFBGGFE1EEE +@M01368:8:000000000-A3GHV:1:1112:10272:7828/1 +GTATCCGACATCTGGTTCCT ++ +AAABABBBBBBFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1112:9832:16531/1 +CTGTAATATTGAACGTAGGT ++ +AABABFFFFFFFF4GGGGEB +@M01368:8:000000000-A3GHV:1:1112:9832:6701/1 +CGCCTGTAATATTGAACGTA ++ +AABBBBFFFFFFGGGFGGGG +@M01368:8:000000000-A3GHV:1:1113:13532:8618/1 +GGAATCAAAGACAGATACTG ++ +AA?AAFFFFFFFGGGGGFBF +@M01368:8:000000000-A3GHV:1:1113:21679:18011/1 +GATCACAGGTCTATCACCCT ++ +AA>1>11F1D1DDFFFFGGG +@M01368:8:000000000-A3GHV:1:1113:25528:14016/1 +CCTACAAGCATTAATTAATT ++ +>AAAAFFFBFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1113:5741:16959/1 +TAGTAAGTATGTTCGCCTGT ++ +ABBBBFFFFFFFGGGFGGGG +@M01368:8:000000000-A3GHV:1:1114:10130:11959/1 +CGTTCCCCTTAAATAAGACA ++ +>A33>FFFFFF@FFFGGGGF +@M01368:8:000000000-A3GHV:1:1114:14540:5315/1 +CTTTAGTAAGTATGTTCGCC ++ +AABCCFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1114:15066:16302/1 +TAAATAAGACATCACGATGG ++ +BBBBAFFBDFBFBGGGGGFG +@M01368:8:000000000-A3GHV:1:1114:16639:15258/1 +CCTAAATAGCCCACACGTTC ++ +11>>ABFFFFFFGGCGC1BB +@M01368:8:000000000-A3GHV:1:1114:2404:13066/1 +TCCTACAAGCATTAATTAAT ++ +CCCCCFFFFCFFGGGGGGGG diff -r 313e04fe07cd -r cc01cbc4e7f7 test-data/paired_hardtrimmed5_pair2_.fastqsanger --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/paired_hardtrimmed5_pair2_.fastqsanger Fri Oct 08 09:57:12 2021 +0000 @@ -0,0 +1,396 @@ +@M01368:8:000000000-A3GHV:1:1101:6911:8255/1 +ATCTGGTTCCTACTTCAGGG ++ +BCCCCFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1101:14518:9998/1 +GTTATTATTATGTCCTACAA ++ +AAAAAFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1101:18422:19051/1 +GTATCCGACATCTGGTTCCT ++ +CCCCCFDDDDDFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1101:25545:21098/1 +ATTAATTAACACACTTTAGT ++ +33AA?DFD5BDFGGGFEBDG +@M01368:8:000000000-A3GHV:1:1101:5446:12248/1 +AATTAACACACTTTAGTAAG ++ +CCCCDFFFFCCFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1101:5861:6452/1 +ATTATGTCCTACAAGCATTA ++ +ABCCCFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1102:10403:6021/1 +CGCTCCGGGCCCATAACACT ++ +>A@AAAAD2ADDFFGGGGGF +@M01368:8:000000000-A3GHV:1:1102:10677:23253/1 +CCTTAAATAAGACATCACGA ++ +ABBBBFFFFFFFGGGGGGGC +@M01368:8:000000000-A3GHV:1:1102:13809:1733/1 +ATATTGAACGTAGGTGCGAT ++ +BCCBCFFFFFBFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1102:17584:10050/1 +ATCAAAGACAGATACTGCGA ++ +CCCCCFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1102:18842:24844/1 +CACTTGGGGGTAGCTAAAGT ++ +BBBCBFF@CCBBGGGGGGGG +@M01368:8:000000000-A3GHV:1:1102:21788:11027/1 +GCCCACACGTTCCCCTTAAA ++ +ABCCBCCBBFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1102:5728:8777/1 +ATATTGAACGTAGGTGCGAT ++ +BBBBBFFFFFAFGG5GGGGG +@M01368:8:000000000-A3GHV:1:1102:5983:21093/1 +GTATCCGACATCTGGTTCCT ++ +AAABCFCABBCFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1102:7765:18353/1 +CTCCGGGCCCATAACACTTG ++ +CCDCCCCCCBCFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1103:10405:17879/1 +GTATCCGACATCTGGTTCCT ++ +CBCCCFCCCCCFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1103:13493:8205/1 +GTAGCTAAAGTGAACTGTAT ++ +CCCCCFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1103:14060:21273/1 +GTATCCGACATCTGGTTCCT ++ +AAABAFCCCCCFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1103:14528:12993/1 +GCCCATAACACTTGGGGGTA ++ +BBBBBFFFBDFFGFBCG2EG +@M01368:8:000000000-A3GHV:1:1103:17657:20856/1 +AAAGCGAACTGTATCCGACA ++ +ABB?AABBBBFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1103:23099:3794/1 +AAGACAGATACTGCGACATA ++ +BBBBBFFFFFFFGGEEGGFG +@M01368:8:000000000-A3GHV:1:1103:25465:20010/1 +GACATAGGGTGCTCCGGCTC ++ +ABBBBFFFFBAAGGGFEFGG +@M01368:8:000000000-A3GHV:1:1103:25519:6301/1 +AAATAAGACATCACGATGGA ++ +3A3AAFFFFBFFGGG2CF?4 +@M01368:8:000000000-A3GHV:1:1103:6074:6549/1 +TAACACTTGGGGGTAGCTAA ++ +CCCBCFFFFFCCGGGGGGGG +@M01368:8:000000000-A3GHV:1:1104:11572:8264/1 +GTATCCGACATCTGGTTCCT ++ +BABCBFBACCCFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1104:11928:24197/1 +ACGTAGGTGCGATAAATAAT ++ +CDDCCFCFFFBCGGGGGGGG +@M01368:8:000000000-A3GHV:1:1104:12288:20635/1 +CACTTGGGGGTAGCTAAAGT ++ +ABA?AFBAB2>AFGGGGFFG +@M01368:8:000000000-A3GHV:1:1104:13832:4398/1 +CACGATGGATCACAGGTCTA ++ +AAABABCAFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1104:23670:4161/1 +ATTCAATTGTTATTATTATG ++ +AAAABFFFFFFFGGGGGGGC +@M01368:8:000000000-A3GHV:1:1104:24927:22253/1 +AGCTAAAGTGAACTGTATCC ++ +AAA?AFFF3DFFFGGBGFF3 +@M01368:8:000000000-A3GHV:1:1104:4705:7727/1 +CTACAAGCATTAATTAATTA ++ +BBBBBFFBFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1104:7756:4776/1 +GGCCCATAACACTTGGGGGT ++ +CCCCCCFFFFFFGGGGGGGE +@M01368:8:000000000-A3GHV:1:1105:11310:21761/1 +ATAAATAATAGGATGAGGCA ++ +CCCCBFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1105:11578:14676/1 +ATTGAACGTAGGTGCGATAA ++ +CDDDDFFFBFFCGGGGGGGG +@M01368:8:000000000-A3GHV:1:1105:13575:19255/1 +TTAGTAAGTATGTTCGCCTG ++ +AA1A1DFFFFFBGG3A111F +@M01368:8:000000000-A3GHV:1:1105:15502:11453/1 +GTCCTACAAGCATTAATTAA ++ +A3AAAFFFFFCFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1105:16787:9771/1 +GTTATTATTATGTCCTACAA ++ +AABCCFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1105:17564:15723/1 +TATGCTCGCCTGTAATATTG ++ +EDCCDFFCEEDCGGGGGGGG +@M01368:8:000000000-A3GHV:1:1105:18108:12091/1 +TAATAGGATGAGGCAGGAAT ++ +CCCCCFBFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1105:18331:16683/1 +TCTGGTTCCTACTTCAGGGT ++ +BABA?DFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1105:20577:18421/1 +GGGGGTAGCTAAAGTGAACT ++ +ABB@3>AAFFFFFEAGGGFG +@M01368:8:000000000-A3GHV:1:1105:21099:2895/1 +TAGCTAAAGTGAACTGTATC ++ +CBCBBFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1105:26469:19245/1 +TTATGATTATGTCCTACAAG ++ +BAAAAFFFBFFFGGGGGGFF +@M01368:8:000000000-A3GHV:1:1105:7169:17145/1 +AACCTAAATAGCCCACACGT ++ +CCCCCFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1106:15481:16176/1 +CTTTAGTAAGTATGTTCGCC ++ +ABBBBFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1106:17389:18671/1 +CCATAACACTTGGGGGTAGC ++ +3>>A@FFFFFFFGGGFEECF +@M01368:8:000000000-A3GHV:1:1106:22927:3863/1 +GTATCCGACATCTGGTTCCT ++ +A>ABAFA?D@AFGGGGFGGG +@M01368:8:000000000-A3GHV:1:1106:23625:4236/1 +TAGCTAAAGTGAACTGTATC ++ +@?AAAFFBFBFFFGGFGFGG +@M01368:8:000000000-A3GHV:1:1106:26031:14826/1 +GATCACAGGTCTATCACCCT ++ +ABBAAFFF@FFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1106:27607:15990/1 +GACAGATACTGCGACATAGG ++ +BBBBBFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1106:6455:17124/1 +GTATCCGACATCTGGTTCCT ++ +BBBAAFABDBBFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1107:14451:26748/1 +GTATGTTCGCCTGTAATATT ++ +BABBBFFDABBBGGGGGGGG +@M01368:8:000000000-A3GHV:1:1107:18714:24788/1 +GTATGTTCGCCTGTAATATT ++ +BBBCCFFFDEDEGGGGGGGG +@M01368:8:000000000-A3GHV:1:1107:21355:8333/1 +ATATTGAACGTAGGTGCGAT ++ +ABCBBFFFFFAFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1107:22864:15712/1 +AATAAGACATCACGATGGAT ++ +BBBBBFBBFFFFGGGGCEGG +@M01368:8:000000000-A3GHV:1:1107:24817:14233/1 +CTTCAGGGTCATAAAACCTA ++ +3AABABFFBFFFGCFGGGGG +@M01368:8:000000000-A3GHV:1:1107:24830:14440/1 +AACTGTATCCGACATCTGGT ++ +ABBBA@FFFFBBGGGGGGGG +@M01368:8:000000000-A3GHV:1:1107:26478:23602/1 +GCTAAAGTGAACTGTATCCG ++ +1AAAAF1B13BBBEGGGFGG +@M01368:8:000000000-A3GHV:1:1108:11059:23181/1 +GTTATTATTATGTCCTACAA ++ +CCCCCFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1108:12233:13498/1 +TAGGTGCGATAAATAATAGG ++ +BCCBAFFBCCCCGGGGGGGG +@M01368:8:000000000-A3GHV:1:1108:14328:14751/1 +ATAATAGGATGAGGCAGGAA ++ +BCCCBFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1108:16350:22621/1 +TTAGTAAGTATGTTCGCCTG ++ +AAAACFFFFFFFGGGFGGGG +@M01368:8:000000000-A3GHV:1:1108:21791:23272/1 +CTTTAGTAAGTATGTTCGCC ++ +3ABBBFFFFF@FGGGGGGGC +@M01368:8:000000000-A3GHV:1:1108:23314:26089/1 +ATTGAACGTAGGTGCGATAA ++ +BBBBBFFF?FFAGFBFGGEG +@M01368:8:000000000-A3GHV:1:1108:25084:18127/1 +TTATTATGTCCTACAAGCAT ++ +CCBBCFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1108:7626:10048/1 +ATCAAAGACAGATACTGCGA ++ +CCCCCFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1109:11270:12255/1 +AATCAAAGACAGATACTGCG ++ +CCCCCFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1109:19224:11655/1 +AAATAGCCCACACGTTCCCC ++ +BBB@A4FFFBBBGGGGGGGG +@M01368:8:000000000-A3GHV:1:1109:21978:9490/1 +GGGTCATAAAACCTAAATAG ++ +?A3AA?DFFFFFGGGGGGGF +@M01368:8:000000000-A3GHV:1:1109:22910:4079/1 +TAATAGGATGAGGCAGGAAT ++ +CCCCCFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1109:24217:19077/1 +AAAGTGAACTGTATCCGACA ++ +>AAA3BDFFFFDGBFFEEGG +@M01368:8:000000000-A3GHV:1:1109:25237:11722/1 +CCTGTAATATTGAACGTAGG ++ +AABBBFFFFFBBF5BGGFGA +@M01368:8:000000000-A3GHV:1:1109:27103:7153/1 +GTAATATTGAACGTAGGTGC ++ +33>A?FFFDFBFGCG4EGFG +@M01368:8:000000000-A3GHV:1:1109:8763:7859/1 +TAGTAAGTATGTTCGCCTGT ++ +BABAADFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1110:12808:18367/1 +AATTAACACACTTTAGTAAG ++ +BBBBBFFFFBBFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1110:14751:26540/1 +TAACACTTGGGGGTAGCTAA ++ +AAA?1CFFFFADGEEGFGB1 +@M01368:8:000000000-A3GHV:1:1110:15519:10008/1 +CTGTAATATTGAACGTAGGT ++ +BBBBBFFFFFFFGGGGGGCB +@M01368:8:000000000-A3GHV:1:1110:16559:7507/1 +CATTCAATTGTTATTATTAT ++ +ABBBAFFFFFFFFGGGGGGG +@M01368:8:000000000-A3GHV:1:1110:16700:6843/1 +AAATAATAGGATGAGGCAGG ++ +BBBBBFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1110:18014:7856/1 +ATAAATAATAGGATGAGGCA ++ +AABBBFFFFFFFCGGGCGGG +@M01368:8:000000000-A3GHV:1:1110:23303:11846/1 +ACTTGGGGGTAGCTAAAGTG ++ +3ABB?FAB?DAAGGGFBGGB +@M01368:8:000000000-A3GHV:1:1111:13195:14562/1 +ATCAAAGACAGATACTGCGA ++ +ABAAAFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1111:14287:20817/1 +GCCAACACGTTCCCCTTAAA ++ +>>A3>AAAACFFFGFGFGGG +@M01368:8:000000000-A3GHV:1:1111:23624:14516/1 +GTCCTACAAGCATTAATTAA ++ +3>3AAFFFFFAFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1111:7437:24508/1 +ACACACTTTAGTAAGTATGT ++ +CBCCDCFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1111:8665:25542/1 +TCCTACTTCAGGGTCATAAA ++ +AA3AAFFFFFFFGGGFGFFG +@M01368:8:000000000-A3GHV:1:1111:9655:13916/1 +GGCCCATAACACTTGGGGGT ++ +1>>1AAFFFFFBGGFE1EEE +@M01368:8:000000000-A3GHV:1:1112:10272:7828/1 +GTATCCGACATCTGGTTCCT ++ +AAABABBBBBBFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1112:9832:16531/1 +CTGTAATATTGAACGTAGGT ++ +AABABFFFFFFFF4GGGGEB +@M01368:8:000000000-A3GHV:1:1112:9832:6701/1 +CGCCTGTAATATTGAACGTA ++ +AABBBBFFFFFFGGGFGGGG +@M01368:8:000000000-A3GHV:1:1113:13532:8618/1 +GGAATCAAAGACAGATACTG ++ +AA?AAFFFFFFFGGGGGFBF +@M01368:8:000000000-A3GHV:1:1113:21679:18011/1 +GATCACAGGTCTATCACCCT ++ +AA>1>11F1D1DDFFFFGGG +@M01368:8:000000000-A3GHV:1:1113:25528:14016/1 +CCTACAAGCATTAATTAATT ++ +>AAAAFFFBFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1113:5741:16959/1 +TAGTAAGTATGTTCGCCTGT ++ +ABBBBFFFFFFFGGGFGGGG +@M01368:8:000000000-A3GHV:1:1114:10130:11959/1 +CGTTCCCCTTAAATAAGACA ++ +>A33>FFFFFF@FFFGGGGF +@M01368:8:000000000-A3GHV:1:1114:14540:5315/1 +CTTTAGTAAGTATGTTCGCC ++ +AABCCFFFFFFFGGGGGGGG +@M01368:8:000000000-A3GHV:1:1114:15066:16302/1 +TAAATAAGACATCACGATGG ++ +BBBBAFFBDFBFBGGGGGFG +@M01368:8:000000000-A3GHV:1:1114:16639:15258/1 +CCTAAATAGCCCACACGTTC ++ +11>>ABFFFFFFGGCGC1BB +@M01368:8:000000000-A3GHV:1:1114:2404:13066/1 +TCCTACAAGCATTAATTAAT ++ +CCCCCFFFFCFFGGGGGGGG diff -r 313e04fe07cd -r cc01cbc4e7f7 test-data/sanger_full_range_report_results1.txt --- a/test-data/sanger_full_range_report_results1.txt Tue Jul 30 06:26:22 2019 -0400 +++ b/test-data/sanger_full_range_report_results1.txt Fri Oct 08 09:57:12 2021 +0000 @@ -3,21 +3,24 @@ ========================== Input filename: input_1.fastq Trimming mode: single-end -Trim Galore version: 0.6.3 -Cutadapt version: 2.4 -Number of cores used for trimming: 1 +Trim Galore version: 0.6.7 +Cutadapt version: 3.4 +Python version: could not detect +Number of cores used for trimming: 4 Quality Phred score cutoff: 20 Quality encoding type selected: ASCII+33 +Unable to auto-detect most prominent adapter from the first specified file (count Nextera: 0, count smallRNA: 0, count Illumina: 0) +Defaulting to Illumina universal adapter ( AGATCGGAAGAGC ). Specify -a SEQUENCE to avoid this behavior). Adapter sequence: 'AGATCGGAAGAGC' (Illumina TruSeq, Sanger iPCR; default (inconclusive auto-detection)) Maximum trimming error rate: 0.1 (default) Minimum required adapter overlap (stringency): 1 bp Minimum required sequence length before a sequence gets removed: 20 bp -This is cutadapt 2.4 with Python 3.7.3 -Command line parameters: -j 1 -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC input_1.fastq -Processing reads on 1 core in single-end mode ... -Finished in 0.00 s (1608 us/read; 0.04 M reads/minute). +This is cutadapt 3.4 with Python 3.9.6 +Command line parameters: -j 4 -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC input_1.fastq +Processing reads on 4 cores in single-end mode ... +Finished in 0.01 s (5282 µs/read; 0.01 M reads/minute). === Summary === @@ -31,10 +34,10 @@ === Adapter 1 === -Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 1 times. +Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 1 times No. of allowed errors: -0-9 bp: 0; 10-13 bp: 1 +1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 0.0% diff -r 313e04fe07cd -r cc01cbc4e7f7 test-data/sanger_full_range_report_results1gz.txt --- a/test-data/sanger_full_range_report_results1gz.txt Tue Jul 30 06:26:22 2019 -0400 +++ b/test-data/sanger_full_range_report_results1gz.txt Fri Oct 08 09:57:12 2021 +0000 @@ -3,11 +3,14 @@ ========================== Input filename: input_1.fastq.gz Trimming mode: single-end -Trim Galore version: 0.6.3 -Cutadapt version: 2.4 -Number of cores used for trimming: 1 +Trim Galore version: 0.6.7 +Cutadapt version: 3.4 +Python version: could not detect +Number of cores used for trimming: 4 Quality Phred score cutoff: 20 Quality encoding type selected: ASCII+33 +Unable to auto-detect most prominent adapter from the first specified file (count Illumina: 0, count Nextera: 0, count smallRNA: 0) +Defaulting to Illumina universal adapter ( AGATCGGAAGAGC ). Specify -a SEQUENCE to avoid this behavior). Adapter sequence: 'AGATCGGAAGAGC' (Illumina TruSeq, Sanger iPCR; default (inconclusive auto-detection)) Maximum trimming error rate: 0.1 (default) Minimum required adapter overlap (stringency): 1 bp @@ -15,10 +18,10 @@ Output file will be GZIP compressed -This is cutadapt 2.4 with Python 3.7.3 -Command line parameters: -j 1 -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC input_1.fastq.gz -Processing reads on 1 core in single-end mode ... -Finished in 0.02 s (7871 us/read; 0.01 M reads/minute). +This is cutadapt 3.4 with Python 3.9.6 +Command line parameters: -j 4 -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC input_1.fastq.gz +Processing reads on 4 cores in single-end mode ... +Finished in 0.01 s (5217 µs/read; 0.01 M reads/minute). === Summary === @@ -32,10 +35,10 @@ === Adapter 1 === -Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 1 times. +Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 1 times No. of allowed errors: -0-9 bp: 0; 10-13 bp: 1 +1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 0.0% diff -r 313e04fe07cd -r cc01cbc4e7f7 test-data/sanger_full_range_results1.fastq.gz Binary file test-data/sanger_full_range_results1.fastq.gz has changed diff -r 313e04fe07cd -r cc01cbc4e7f7 test-data/sanger_full_range_results2.fastq.gz Binary file test-data/sanger_full_range_results2.fastq.gz has changed diff -r 313e04fe07cd -r cc01cbc4e7f7 test-data/sanger_full_range_results3.fastq.gz Binary file test-data/sanger_full_range_results3.fastq.gz has changed diff -r 313e04fe07cd -r cc01cbc4e7f7 test-data/trimmed_polyA_reads_pair1.fastqsanger --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/trimmed_polyA_reads_pair1.fastqsanger Fri Oct 08 09:57:12 2021 +0000 @@ -0,0 +1,396 @@ +@M01368:8:000000000-A3GHV:1:1101:6911:8255/1 +ATCTGGTTCCTACTTCAGGGCCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACGTTCAATATT ++ +BCCCCFFFFFFFGGGGGGGGGGGHHHHGHGHHHHHHHHHGGGGGGHHHHGHHHHHHHHHHGHHHHHHGGHGGHHHGHHHHFHHGHHHHHHHHHGHEHEFFGHHEGGCEFGGFHHHBGHHGHHHHGHFHHHGHGHGHGGCDFDDACGGGGGGGAAFFFFFFFFFBAFFFFFB;FFFFFFADDFFFFFFFFFFEFFFFFFFFFFBFFFFFFFFFFFFFFEFFFFFFFFBFEFFFFEFE;DFFFDFBFF/9BFB +@M01368:8:000000000-A3GHV:1:1101:14518:9998/1 +GTTATTATTATGTCCTACAAGCATTAATTAATTAACACACTTTAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGGGATAGACCTGTGATCCATCGTGAT ++ +AAAAAFFFFFFFGGGGGGGGGGHGGHHHHGHHHHHHHGCGHHHHHHHHHHHHHHHGGGGGHHHHHHHHHGHHGFHFE5BGEEHFGGGHHHHHHHHFBHHGGGGFHGHHFGHHHHGHHHHHHGEGGGGFHFHGEGHHGGCDGDGHGGGDGGHGGCGGGHGHHH/ACDG?.1FGCDCCGCA.CC@CDCHFHGFFGGGEBFGAB//CEFBFGG.:;D;;A0AFFFFFB..:@ABFF//;BFFFFFBF/9D:A// +@M01368:8:000000000-A3GHV:1:1101:18422:19051/1 +GTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACG ++ +CCCCCFDDDDDFGGGGGGGGGGHHHHHHHHHHHHHHHHGHHHHHHFHHHHGGGGHHHHHHHHHGHHHHHHHHHHHHGGHGGHHHHHHHHHHHHHHHHHHHHHHHHHHHGHHHHHGCGGGHHHHHHHHHHHHHHHHHHHHHHGFDHGFHCFGGGGFGGFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF;FFFFFFFFFFFFFFFFFFFFFFFFFFFFEFBFFFFFFFFFF:FFF. +@M01368:8:000000000-A3GHV:1:1101:25545:21098/1 +ATTAATTAACACACTTTAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATAAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGGCTTATTTAAGGGGAACGGGTGGGG ++ +33AA?DFD5BDFGGGFEBDGEGHEGHGEGHCEGGHHCHGHHFFHHGFGAGE53FF2FAFFGDE5FFFE5GFBFGAEE1GHHHGHHHEHE3FGHF@GEGEGGHHGG3FAGFFDE?EEE3GFEGFGFGGCG?GHHHFHGGGC@DHFFHD/AA@AAAAD2ADDFFGGGGGFGGHA?EAEFBEAGHFABFGG5FDF5DB1EEGAFDFB53FF5FH@G5FFEHGHEFHFFHBE333GF43GCGGGGE@0?BFGGB0B?FHGFDGGHHHBFFDEGGHGFFFDFE@<1>@FFFGHHHHFHEFGDABFFGG/@DCE---;--..;.../9 +@M01368:8:000000000-A3GHV:1:1103:25519:6301/1 +AAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGCATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACGTTCAATATTACAGCTGTCTCTTATACACATCTCCGAGCCCACGAGACTAAGGCGAATTTCGT ++ +3A3AAFFFFBFFGGG2CF?4FGHGHHCHGGHHBHGFFAGGHHFFHHCGHFEGCECEGHFFFHGHHGFGHFGDAFDGFFEEFEGGBECC/;>=EF?AEFFFF;9;=DAFFFFBBFFFBFFF//;BFB.:FBFFBB/BFFFF/BFFE?EFAFEF9 +@1:A:M01368:8:000000000-A3GHV:1:1104:11928:24197/1_PolyA:1 +ACGTAGGTGCGATAAATAATGGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATGACCCTGAAGTAGGAACCAGATGTCGGAT ++ +CDDCCFCFFFBCGGGGGGGGGGHHHGHHHGGGGGHHHHHHHHHHHHHHHHHHGGGGGHHHHGGGHHHGGGGGGHHHGGGGHHGGGGHHHHHHGGGGGGHHHHGGGGGGGHGGGGGGHHHHHHHHHGHHHHGHHGHHHHGGHGEEGGGGFHHFHHHGHGEHHHHHHHHHHHHHHHHHGGGGGGFGGGGGGGGFFGGGFGFGAEFEFGFEAFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF@D +@M01368:8:000000000-A3GHV:1:1104:12288:20635/1 +CACTTGGGGGTAGCTAAAGTGAACTGTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGCCGCAGCATCTGTCTTTGATTCCTGCCT ++ +ABA?AFBAB2>AFGGGGFFGD5GGHGFFHGHEGGGGHHHHFFHH5FHGHHHFFHEFHHHHHHGGHHHHHGFHGGHGGGGFHGGGFBHHHFGEGHHHHGHGGGGECEHHFHHGHHFFHFGGGHHHEGHDGHHGHGHFHHHECGCBCHHGFHHFHD1GFHEFHEF?GDCFFEFE0A@;@>BD/9BFBBBBFDFFFF99D=?>DDBFF-AFFEBB9BBEFEFAFFF//-@---;;FBBFBFB///;99999BA9 +@M01368:8:000000000-A3GHV:1:1104:13832:4398/1 +CACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCCTGTCTCTTATACACATCTCCGAGCCCACGAGACTAAGGCGAATCTCGTATGCCGTCTTCTGCTTGACAAAAAAAAACACACAACAACCAACACCCAGTAGACTAGTGCGTC ++ +AAABABCAFFFFGGGGGGGGGGHFHHHHHHHHHGFFHHGGHGGGGGHHHHHHHHHHFHHHHGHHHHHGGHGHGGHGGGGGGGHGFFGGGGDGGHHHHGGGGFGGGGGCFGGEGCDGGGGGGGGGGGGEGF?;BFFFFFFFFFFFFFFFFFF:FFFFFFFFFFFFFFFFFFFFFFF/FFFFFFC.;BFEAFFFFF;@FFBFFFFEF?/FFFFE----:...:...9....9.9...:.9//9////;/9-.- +@M01368:8:000000000-A3GHV:1:1104:23670:4161/1 +ATTCAATTGTTATTATTATGTCCTACAAGCATTAATTAATTAACACACTTTAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCC ++ +AAAABFFFFFFFGGGGGGGCGBBGGHHHHHHHHHGHHHHHHHHHHFGGHHHHHHGGFHHHHHHHGGGGGFHHHGHHHHHGHHHHGHHGGGHGGGGHHHHHGHHHHHHEGGGFHHHGFFDGEGHGHFHGHHGEGGGHHBGHGGHGHGGGGG/@FCDFDGFHGGGDFFHFGFFGGGGGHHHHGGGGGGGEGCDG?GGBFFFEE00BFFGABBBAFGGGEGEA.9FFF/./;BFBF./AAF/BFFBBF/F/BFB +@M01368:8:000000000-A3GHV:1:1104:24927:22253/1 +AGCTAAAGTGAACTGTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTAT ++ +AAA?AFFF3DFFFGGBGFF3EAEEEHFHHFHHHGHHHHDGHHGAEFGHHHGFCHHGHHHBGHHHAEGGHGGFHFBFHHHHHHHHHHFHH1EEHEEHH1FFDEEFCGHBGHHFHEHHHHHH1FCGHHHHEEFGEEGFFCHHH11>GHHF/FG2DGGCGAGGHGGGG@@@BEFFF?@@@FFEFFFFFF?@@FB@BB@FFFE=;==---A9EFBBB/;E;A9B/B/FFFEF/B///;/;9/A/;/9BFFFBFBB +@M01368:8:000000000-A3GHV:1:1104:4705:7727/1 +CTACAAGCATTAATTAATTAACACACTTTAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGG ++ +BBBBBFFBFFFFGGGGGGGGGGHHHGHHHGHHHHH6GHHHHFFGGGHHHHHHHHHHHHHHHGGFGGGEGGGHHHHHHHHHHGHE3FGGGGHHHHHFHHHHHHHHHHHHGGGGGHHFHFCGFHHGGGGGGGHHGGGGHHGGGGGGHHHHGGGADCHHHHGDGGGGGGGGC@DGFHEHHHHHHGHHHHGFGDEGFGFFGGGGCFGBEGFGGGFG;C.BFFFFFFFBFBFFFF/F?.AFFF/BFFEFFFFFEFF +@1:A:M01368:8:000000000-A3GHV:1:1104:7756:4776/1_PolyA:1 +GGCCCATAACACTTGGGGGTAGCTAAAGTGAACTGTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTG ++ +CCCCCCFFFFFFGGGGGGGEEFHHHHGHGHHHHHHGGHHHGGGGGGHHGHHHHHGHHGHHHGGFHHHHHHHHGHHHFHHGHHGFGGGGHHHHHHHHGHGHFFHFHHHHHHGGHGFGFHHHGHG?FGHHHHHHHHHHHHHHGHGHHGHGGCDGFFHHHHGHHHHHGHHHGFHGHFHGHGHGH/@CABFFFFFFFACAFF?BBFFBFD-@-.D>FFAF.F.:9---;AADFFFFFBEFFF:9FFFFBBFFFF +@M01368:8:000000000-A3GHV:1:1105:11310:21761/1 +ATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATGACCCTGAAGTAGGAACCAGATGTCGGATACAGTTCACTTT ++ +CCCCBFFFFFFFGGGGGGGGGGGHHHHHHHHHHHHGHHHHHGGGGGHHHHHGGHHHGGGGGGHHHGGGGHHGGGGHHHHHHGGGGGGHHHHGGGGGGGHGGGGGGHHHHGHHHGHHHGHGHHGHHHHGGHGGG=FFGEHHHHHGHFGGHHGHHHHHFHHHHHHHGGHHHHHHHGHEHHGHHHHHGGGGF9AGE?DEGFFGGGGGGGGGGGGGGFFFF/9FFBFFFFFFFEFFFBFFFFFFFFFFFFEFFF0 +@M01368:8:000000000-A3GHV:1:1105:11578:14676/1 +ATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATGACCCTGAAGTAGGAACCAGATGTC ++ +CDDDDFFFBFFCGGGGGGGGGGHHHHHHHHHHHHGGGGGHHHHHHHHHHHHHHHHHHGGGGGHHHHFGGHHHGGGGGGHHHGGGGHHGGGGHHHHHHGGGGGGHHHHGGGGGGGHGGGGGGHHHHHHHHHHHHHHHHHGHHHHGGGGGGHGGHGHHHHHHH;CHHHHHHHHHHHHHHHGHGGGGFGGGFGGGGGGGGGGGGFGGGEGGFFFFFFFFFFFFFFFFFFFFFFFFF/FFFFFFFFFFFFFFFF0 +@M01368:8:000000000-A3GHV:1:1105:13575:19255/1 +TTAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGTTCCCGTGAGTGGTTAATAGGGTGATAGGCCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATG ++ +AA1A1DFFFFFBGG3A111FFAEGDDBGFDHF00F01BBA00BFGEHFBFFA1FABB0FAE?CFHF1BGFHFB0011F121E//>>1F10>B?EFHGCC/?/BFG/EEGFFEE//BCFDE0?E@@B/?11AAFFFFFEAGGGFGGAA6FHDGGCGFHFFHFHFHHHHHGDDDFFFHGFFHGBEGEGHHHFFFHGEEAEGHHHHHFHHHFHGHFEDGGEGBEAGEFHHFFHHHHHHGGHHHGHHGBGHHFHHFGHHHHG?CG?AFHH1FHHHGHFHHHF?DGHFFHCGAGEFHGCBBBB?BFFF?B-B.9/BFFFFFB=-AD?..@FFFF@@-@@?AFD.FFFBBEEBD9/:FFFFFBB/:FF9BF/BF.BBFF/: +@M01368:8:000000000-A3GHV:1:1105:21099:2895/1 +TAGCTAAAGTGAACTGTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTT ++ +CBCBBFFFFFFFGGGGGGGGGGGGGFHHHHFHGHHHHHHFHHHHFGFHHHHHHGHHHHHHGHHEHGGGGHHHHHHHHHHHHHHHHHHHHHHGGHGGHHHHHHHHFHHHHGHGHHHGGHHHHHGGHFFGHGCGGGHGHHGHHHFGHHFHH/FGGGHFGFEGGCFCCD;B@DFFFFFFFFFFFFFFFFFFFFFFFFF;F.BEFADFFFF.AEFFFFFFE;D.;:B00099:09BFBFFBFF.0:000BFFBF0 +@M01368:8:000000000-A3GHV:1:1105:26469:19245/1 +TTATGATTATGTCCTACAAGCATTAATTAATTAACACACTTTAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCAAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATG ++ +BAAAAFFFBFFFGGGGGGFFGGHHHHHHHHHHHHGGHHGHHHGGHHHHHHHHHHHDEGGHGHHHHHGEDHFHGFHGGHHGGHGGEHHHGHHGHHGHHHGGEGGGHGHGHHHHHHGHHHHGHGGGGGHFHGGGGHHGGGGCDGHHHGD>A@FFFFFFFGGGFEECFGGFFB5GBHH5DFH5GBEEAEFHFHHF3F3GHFHHHEF3GAEHBGFHFFEFFHHHHFFB31FGGEGFHGEHHHHHHHHHHHHHHHHHEEEEGHHHFFF3GF3FGF44BBGEHHHHGG2B/BGGHE;B=.9.;.BBFFF..;A;/B/;B//;;//BBF/ +@2:A:M01368:8:000000000-A3GHV:1:1106:22927:3863/1_PolyA:2 +GTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGACTTCTGTCTCTTATACACATCTCCGAGCCCACGAGACT ++ +A>ABAFA?D@AFGGGGFGGGFGFHHHFFH4BCBGHHHHGFFF3G5BF3322EEAFHHHHHHAB5GHFHEHFHHH3BEEHFGF5@13FDF3GDGFHHFGHHHGHHHGFGGHHFCG//?/EGHHHG3F4BFFGHHHEDGFHHB/B/?FBF<@-9?BDEFFF?B--?DFFFB9FA>B;A.BFDB?AB.--@;-.FFAEFFFF9AE;DDFFFFB/9BFFFFFFFB:BF/BB/BFF//FFF-=--.99=--.9/ +@1:A:M01368:8:000000000-A3GHV:1:1106:23625:4236/1_PolyA:1 +TAGCTAAAGTGAACTGTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATT ++ +@?AAAFFBFBFFFGGFGFGGGEFCGGHHHHFGHGHFHGHHHHGGFGGFGHHGHGHHHHGHGFFHHGGGGGHHHHHHHHHBFHHEFHHHHHHGF?FAGHGFHHHGDGFHHGGGHGHFHHHGHHHGHHFHHGFFGFHHHGHHHHFFHHHHH/FGHHHHGHGHGDFFFE?FFF/--;;9/:BFFFBA///9----;B.//////;...---9-- +@M01368:8:000000000-A3GHV:1:1106:6455:17124/1 +GTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACG ++ +BBBAAFABDBBFGGGGGGGGGGHHHGHHGHHHHHHHHHGHHGHHGHHHGHGGGEGHHHHHHHHHHHHHGHHHGHHHGGHGGHHHHHHHHHHHHHHHHHHGHHHHHHHHGHHHHHGGCFEHHHGFHHHHGHHFFH?GGHHHHGHGHGHHCFGGGGGGGFFFFFFFFFFFFFFFFFFFFADFA?.FEFAFFFEFFFFFFFFFFFFDABFBBFFFFFFFFEFFBFFFFFFFFFFF/FFBFFFFFFADE>BFFF9 +@1:A:M01368:8:000000000-A3GHV:1:1107:14451:26748/1_PolyA:1 +GTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATGACCCTG ++ +BABBBFFDABBBGGGGGGGGGGHGHHHHGAGHGGGGGHHHHHHHHGHHHHHGGGGGGFFHHHHHHHHHFHHHHHGGGGCHFHH3FEHHGCGGGDGHHHGFGGHHGGGGHHHHHHG/DGGGHHHHGGGGGCCHGG?CGG1GHHGHHHHBGHHHFHHGHHHHGGADAD00ECEGHEFHHFFAEFFFFFGGFBFBFFFGFFG.;B/99;BCFGGGGEFFFFFFEDA./:ADEB?FBFFFF;FFEBFBFFB./9 +@1:A:M01368:8:000000000-A3GHV:1:1107:18714:24788/1_PolyA:1 +GTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATGACCCTG ++ +BBBCCFFFDEDEGGGGGGGGGGHHHHHHGGHHGGHGGHHHHHHHHHHHHHHGGGGGHHHHHHHHHHHHHHHHHHGGGGGHHHHCFGHHHGGGGGGHHHGGGGHHGGGGHHHHHHGGGGGGHHHHGGGGGGGHGGGGGGHHHHHGHHHHHHHHHHHGHHHHGGEGEGCCEGGHHHHHHG:CAFFGGGGGGBFEFGGGGHGAFFGGFGGGGGGGEFFFFFFFFFEF/EDDFFFFFFFFFBFFFFFBBFFBBF +@M01368:8:000000000-A3GHV:1:1107:21355:8333/1 +ATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATGACCCTGAAGTAGGAACCAGATG ++ +ABCBBFFFFFAFGGGGGGGGGGHHHHHHHHFHHHHHGGGGGHHHHHHFHHHGHHHHHHHGGGGGHHHHFFGHGHGGGGGGGHGGEGGGHGGGGHHHHHHGGGGGGHHHHGGGGGGGHGGGGGGHGHHHFHHHHHHHHGHFFHHHHGGHGEGHHGHGFHHFHGHCEFHEGHGHHHGHHHGGGGGGCFFFFBFGGFGGGGFBG?FDGGGEGFFFFEFFFFFFFFFFFFFFFFFFFFFFFFFFFFFBFF.AA/9 +@M01368:8:000000000-A3GHV:1:1107:22864:15712/1 +AATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACGTTCAATATTACCTGTCTCTTATACACATCTCCGAGCCCACGAGACTAAGGCGAATCTCGTATG ++ +BBBBBFBBFFFFGGGGCEGGGGHGHHDGFHHHHHHHHHHHHHCHHGHFGBGDFGE?GHHGHFBHHFHHHHHHHHHGHFGFGHGHHGGC@DCFGHHGGGGGGGHHHHHHGGGGGFGGGGFFGGGGFADGFEFFFFFFFFFFF9;FFFF/BFFFFFFFFFFFFFFFFFFFFFFFEFFFFFFEAECDFFFFFFFFFBFFFFFFFFFFFFFFEFBFBFFF/FFFDF-;-9;E@>-9DFFF/FFBF;-.:;.9A// +@M01368:8:000000000-A3GHV:1:1107:24817:14233/1 +CTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACGTTCAATATTACAGGCGAACAT ++ +3AABABFFBFFFGCFGGGGGGGHHHFGCFGGGFFGHHCGHHHGHGHGHBFFHHHEDGGFGFGHHFFFHGGEGHFHHGHFHGFFHHHFGHHHFHACECEHHHBGFHGFHHHFHHF4GFHFHFHEHGGE/EG:A-CFGGFGADGGGGFGGGGDAAAADFA.-AFFECFDAAFFFFEFFFFBFF;D;BFFFB/;BFFFFFFFFFFFFFFBFFBF/;//;BFFFF?FFFFFFEDAFFFFFBF//:BFBACF--9/ +@M01368:8:000000000-A3GHV:1:1107:24830:14440/1 +AACTGTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACC ++ +ABBBA@FFFFBBGGGGGGGGGGHGHHGHHGHHHGGHHHHHGHGHHGDHHHHHHAGGGGFHHGHHHHHHGHHHHHHHHHHHEGAFGFHFHHHHGEGHHHHHHHHHHHHHHHHHGGHHHGEFEGGHHGHHHHHGGHGFHH/?GHHHHGFGHGFHCGGBBDAFFFEFFFFFFFFFFFFFF=CDDADDFFFFEF=BFFFEFFFBFFFFEEBF./:FFFFFFFFFFFFFFFFFFFEFFFFFFFFFFF/BFBEFFC- +@M01368:8:000000000-A3GHV:1:1107:26478:23602/1 +GCTAAAGTGAACTGTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATCTGTCTCTTATACACCTCTC ++ +1AAAAF1B13BBBEGGGFGGGGGGHHDB1BGFHHHFGFGGG0F00BGBGFGGF1GBGB1BGCGAEE/FGFHGHFHHHHHBFF1B0FGGF//F//FGFGFFF/1@B1DFHHHGGEFEDHFDFAFF0B//1FDD1GFFHHDF?1BD>GF/GCAC0C@?@-;99BBB->@--;-B//99B--9-BF=A--A-:A----9AA9AFBFBBB?E@BBFFFFFFFBFFFFFBFFFBBFFF//B/////-;9 +@M01368:8:000000000-A3GHV:1:1108:11059:23181/1 +GTTATTATTATGTCCTACAAGCATTAATTAATTAACACACTTTAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGAT ++ +CCCCCFFFFFFFGGGGGGGGGGGHHHHHHHHHHHHHHHHGHHHHHHHHHHHHHGHHGGGGHIIIHHHHHHHGHHHHGHHHGGHGGHHHHHHHHHHHHHHGGGGGHHGHHHHHHHHHHHHHHHGGGGGHHHHHFGHHHGGGGGGHHHGGGGGHGGGGHHHHHHGGGGGGHGGHEFGGGGGHGGG-ECHHHGGGGGGGGGFGFFGGGGFGGGCF?EFGG0;BFFFFB?9AAFFFFFFBF;BBFFBFFFFE?F/ +@M01368:8:000000000-A3GHV:1:1108:12233:13498/1 +TAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATGACCCTGAAGTAGGAACCCTGTCTCTTATACAC ++ +BCCBAFFBCCCCGGGGGGGGGGHHHHGGGGGHHHHHHGHGHBGFHHHHHGGGGGHHGGBFGHHGGGGGGGHHHGGGGHHGGGFHHHHHHGGGGGGHGHHGGGGGGGGGGGGGGHHHHFHHHGHGHHHHHHGHGHHGGFGGGDFFGGHHHGHGH/FHHHFHGHGHHGHHHGHHBAAAA3BDFFFFDGBFFEEGGGGHHGHFHHCFHGHGHHHGF3BFGFHGFEFHFHGH3EGFC1EEGBFGBHFGGFFHHHGHFHGHHGHGGHCEHEBCFF3ED3@GH4FDEG12FFHFFHG/G3FGA/@EFEFCG33FFGBBGHFHH/?BFBGFGFAGC2C/@-;@-;BFFEFADF?DFFFFFF?;AFFA;AD;..FEFFA--;9;D.9BFFBE?;.;///://///99//BB/9;F./B//BBFB9////99/ +@M01368:8:000000000-A3GHV:1:1109:25237:11722/1 +CCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGCTGTCTCTTATACACATCTCCGAGCCCACGAGACTAAGGCGAATATCGTATGCCGT ++ +AABBBFFFFFBBF5BGGFGABGHGGAEFGFHHHHFHCHFHHBFGGGEHBGGHFFFFGFAEF5FHH?EGGF5AEG3?EBFHD?C/EFHFFEGEE?CFGGGHHFHB3EEFG?EEGHCFGGGGGGGECA?FFFDFBFGCG4EGFG??GACFGGHFHCFHCHBECDEFCEGHHHHHFFGGF3AFFHHFGEGCGHHGEHGFGHHEGG?EFHHH?EGGHHGGGGHHHHHHEGGGGGHFHHGFDDGGACFCC@?/FDDGHHHGHEFFHHH0FDHHFFEDCD.CFHHGDFGGGGGEFGC?EGHHHB0CGHHGCGHHHHBEHGHH.::ACA;FECFGGGGGFFFEFGGGGGGGFFBBBFGBFFFEFFFFBFFFFFFBBFBFFB9..AF?FFFFFFF9 +@M01368:8:000000000-A3GHV:1:1110:14751:26540/1 +TAACACTTGGGGGTAGCTAAAGTGAACTGTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACTGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGTTGTGCACGCGATAGCATTGCGCGACGCTGGCGCCGGCGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTG ++ +AAA?1CFFFFADGEEGFGB1112DGDGHGFGHHCG/ECEBGGHDFGHHFHGHEB1BCGFFE2EGHHGHFFFHHBFFHEFCGGHHFHHHHH111BFFHGHEHBEHGGECEFHGFHFGGDBBGHHBHHHH0GH22FGHGFFFH1BFCG0F@FGG11@GDHFG1D/1FGFHH/FCG.>0><-<@CCFFG.CC-@C?C9FFF0C---;------;9----9-9@-AAFF9B9---9-/;B9BF/9BB//B/;/// +@M01368:8:000000000-A3GHV:1:1110:15519:10008/1 +CTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATGACCCTGAAGTAGGAACC ++ +BBBBBFFFFFFFGGGGGGCBGGE?GGGHHHHHGHHBEGGHHGGGGGHHHHHHHHHHHGGHHHHGFGGGGHGHGCFGHHHGGGCGGHGHGGGGGHFGGGHHHHHHGCEFGGHHHHGGGGGGGHGG/CEGHHHHGFHHHGFHHGFFHGHGHFGGEGFDDGGBCGHHGFHH/CHHHHGHGHF0CFGGGGGGGFFFFFBFFFFFFGFFGGF?DGEDEEFEFFFF?FFFFFFFFFFFFFFFBFFF.BFFFBFBBA; +@M01368:8:000000000-A3GHV:1:1110:16559:7507/1 +CATTCAATTGTTATTATTATGTCCTACAAGCATTAATTAATTAACACACTTTAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAACTGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATC ++ +ABBBAFFFFFFFFGGGGGGGFGGGGAGHHGCHHGHHHHHHHHHHHGHHGHHHHHHHHHHHHHHHHFGGGHHHHHHHHBDHHHHHGGHFEEGHGGHHHHHHHGHHHEHFGGGGGGHHHF33FGHHG3GDDGH//EEGHHFFBF?GHHFCC@DGFCGGB?DGHAFGGHHGFH0E??<@DGHGGCFGGF?DGGGFFGGGGGGGG.C/0BBF?FBBEGG0FFF.AA9;B9/E////99;;:.//:FFFFBBF//9 +@M01368:8:000000000-A3GHV:1:1110:16700:6843/1 +AAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATGACCCTGAAGTAGGAACCTGTCTCTTATACACATCTCCGAGCC ++ +BBBBBFFFFFFFGGGGGGGGGGHHHHGHHHHHHHHHHHHGGGGGHHHHHGGHGHGGGGGGHHHGFFGHHGGGGHHHHHHCGG@FGHFHFEGGGGGGHGGGGDGHHHHHHHHHHHHHHGHHGHGHHGGGGGCGHEHGHHHFHHHFF.DGHHHHHHGHHHHHHGFGHGCGHGHHHHHHHHGHHHCD?:A::FCDGEGFGFFBFGBFGGGF00CBFFFF/BFBFFFFAE.FBBFBFFFFB/BFFBFFF/ADCAD +@M01368:8:000000000-A3GHV:1:1110:18014:7856/1 +ATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGGGATAGACCTGTGATCCATCGTGATGCTGTCTCTTATACACATCTCCGAGCCCACGAGACTAAGGCGAATCTCGTATGCCGTCTTCTGCTTGCAAAAAAAAAATAG ++ +AABBBFFFFFFFCGGGCGGGGGGHHHHHGFHHHHHHGHHHGGGGGFHHGHFGGHHHGGFGGGHHGGGGGHHGGGGHGGHHHGGGGGGHHGHGDGGGGGGGGB/A99FE//BBFFF.9/FF?DA=@9./9 +@M01368:8:000000000-A3GHV:1:1110:23303:11846/1 +ACTTGGGGGTAGCTAAAGTGAACTGTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGTGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTC ++ +3ABB?FAB?DAAGGGFBGGBB5AFFFGFHHGGGEGHHHFHHF3EGFHHHHEFHHGGHHHGH3EFHHHHHBDGHHE?ECHGHGHHHHHHFHHHGHHHHHHHGGHGGFHHHFHHGFFHHFEGFHHHHHHEHHFDAGHHHH/BDDFGGH1FDBGHHHHHHHCGHHHFH?0CGCF>CC=@--AFBFFB?=BFDFFF//FDB;-9A-AD-.A.A=?-9-:B/AEB/BFF.A;DDFFFBBFFFF/BBFFFFBFF9B; +@1:A:M01368:8:000000000-A3GHV:1:1111:13195:14562/1_PolyA:1 +ATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATGACCCTGAAGTAGGAACCAGATGTCGGATACCTGTCTCTTATACACATCTCCGAGCCCACGAG ++ +ABAAAFFFFFFFGGGGGGGGGGGHHGG4FDFGFGGCGGGHGHG?EGHEGFFDHFHHHHGGFE@EHHGEEEGFCCEFFGFG/EHHHHHBFBGGHFHFHEHGHEFGGGED/EFDEFFEHHBGHHCFFFDFGGHHGFFFHHHHGFG>0<0DGGFHBGHFBDFGHGFFGGAGHHGCGBHFFHHHFFFBFGGGGF/:FFFCB9F9FF0FEFE?FF0BED-D.//BF9//BBFF/BFFFEFFFFED-DCFF?.:BF +@M01368:8:000000000-A3GHV:1:1111:14287:20817/1 +GCCAACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTCATCGCACCTACGTTCACTATTACAGGCGAACATACTTATTAAAGTGTGTTAATTAAT ++ +>>A3>AAAACFFFGFGFGGGGGHGHHHHHHHGGGGGHGHFFCGHHGBGHFHHHHAGHHHHEHHAGFFEHEAE?GHHHHEGFFFDGHGHBFFHFHHHGHGHGHBECG@@@EHGGEGCGGGGFFGGGG?BGGGGGG.-C.FEDCFFFEFFFAF/99BEFA.:9BFB/9FFFEFFFFFFEFFF/FBBFFFFFFFFFFFB//;.@@//;DFFFF//BBFFFBF;A;DF=>B//;9B//B/;/;9//9//;B/:B9 +@M01368:8:000000000-A3GHV:1:1111:23624:14516/1 +GTCCTACAAGCATTAATTAATTAACACACTTTAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGGGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAG ++ +3>3AAFFFFFAFGGGGGGGGBGHHHHHHGGHGGHEHGHADFHHHHEGGGHBGHFFHHEHHGHFHGG5FBEEGEGHHHGHHHEFDGHHFFGFGGHHGHHHGHBHGHFHFHHGGGGFCFBGFGE?GFBECEGDGHEHGDGCGHGC/DF@GHGFFCGGGGFFFFDD?@C@GFEC?-ADHFFHBGHFBHFG0CC//.;B0/CA.;AA.;@.AB/9BB/A/.AFFFE/BFFF///9B/FBDE9/;99/B/BFFEF/ +@M01368:8:000000000-A3GHV:1:1111:7437:24508/1 +ACACACTTTAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTGTCTCTTATACACATCTCCGAGCCCACGAG ++ +CBCCDCFFFFFFGGGGGGGGGGGGGGHHHHHHHHHHHHHHHHGGGFFEHGGHHHHHHHHHHHGHHGGGGGHHHHHHFHHHHGHHHHGHGGGGGHHHHHGGHHHGGGGGGHHHGGGGHHGGGGHHHHHHGGGGGGHGHHGGGGGGGHGGGGGCGHHHHGHHGHHHHHHHEDHHGHGGGGGD;BEGGGFFGGGGC:CFGGGGGGGGGFGGGFFFGFFFFF;FFF;BFFFFFFFFFFFB:FFFFD=CAEEEF>- +@M01368:8:000000000-A3GHV:1:1111:8665:25542/1 +TCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTGTCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACGTTCAATATTACAGGCG ++ +AA3AAFFFFFFFGGGFGFFGGGGHGH4AGGGFHHCGEE2FGHHHHHHHHHHGFHGF53FHEGGFAF5CFHHGGFGHFHHGGHHHCHHHHHHHFHHGH?EEEG1FFFEHHFHFGGHHGG?F4FBGHGHCHEF0//-9--;0CFGG?@BGDGFFFFEFBBBDA?FFBFFFF=B;-9.AA9EFFFF/;9BD.//;9/9/B:/:BFBFFBFFF/B:BFF//;/B/FFFBFF.A-BFFFBA/F//BFFFBF/;/A- +@1:A:M01368:8:000000000-A3GHV:1:1111:9655:13916/1_PolyA:1 +GGCCCATAACACTTGGGGGTAGCTAAAGTGAACTGTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGCGGTGTCCACGCAATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTG ++ +1>>1AAFFFFFBGGFE1EEEEGGHGHHH2FGHHHFGFGHGCFGGGEFHGGEGGHHHHGHEFBFEGHHHGHHBEHHHHGHGFHHHGGGGHHEGGGGHHHGFHGHHHH1FHHG?G/AGF1GBFGEFFHF2FDD0FG--99@=---AAABA-BF/B?A@F-9BBFF//BB/9 +@M01368:8:000000000-A3GHV:1:1112:10272:7828/1 +GTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCTGTCTCTTATACACATCTCCGAGCCCACGAGACTAAGGCGAATCTCGTATGCCGTCTT ++ +AAABABBBBBBFGGGGGGGGGGHGHHGHGHHHHHHHHHGHHHGGHDGHHHGGGGHHHHHHHHHHHHHHHFHGHHHHGGHGGHHHFHHHHHCGHFFHHHHHHHHHHHHHGHGEFGAEEEEHHGHHGHGHHHHHHHGHHHHHHGHGHFFBC/BA?BGGGFFFFFFFFFFFFFFFC-@DDFFFFFFFEFAFFFFFFBFBFFFFFFFFFFFFFFFFBFF->@FFFFFFFFFFBFBFAD--.99;A?////:.9A. +@M01368:8:000000000-A3GHV:1:1112:9832:16531/1 +CTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGGGCTGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATGACCTTGAAGTAGGAACC ++ +AABABFFFFFFFF4GGGGEBGEFGHGGHGHGHHHGGHFBGFGGGGGHHEFHGEHFHFHEHHHHHGCGGGHFHHCFGHE@1EEEFFGB?EEEEHBGGGCHHGHHBEE@>EAHHFAEBDGGGCEFF?CEGFFHHHHHFHHHFHGHCGCAHHF<..C.D=0CD.GFHHHG.CAGHC:CHB0GGGFFB0:CFA.A-;9.;000CBBFFBFGA.9AA;A;EDDE.ABBFFFF9;BEFFF/BF//9/B//9:B//.. +@1:A:M01368:8:000000000-A3GHV:1:1112:9832:6701/1_PolyA:1 +CGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATGACCCTGAAGTAGG ++ +AABBBBFFFFFFGGGFGGGGGGHHHGGHGGHHHHHHHHHHHGHHGGGGGHHHHHHHHHHHHHHHHHHGGCGDHHHHFGGHHHGGGGGFGGHGGGGHHGGGGHHHHHHGGGGGGHHGGGGDGGFGHGGFCDCHHHHGHHHHGHHFAGFGGEHFGEG.C1>11F1D1DDFFFFGGG1FH3GHGHGHGHFHEC?EC0B1FBGFB1GHHH21AF2HH2FEGEHAE10AAE/>/FFHE?/E/?E1@EFFH?E@/EGGG//B11B//<@@C0F/<0AAAAFFFBFFFGGGGGGGGGGHHFHGHHHHGHHHHHHHHHHHGGGGHHHHFHHHHFHGHHHHGAFFEFHEGHHHHHHHHGHEHHGGFGGGHHHHHHFHHHHHGGHHHHGGGGGHFHHFF?HHGGFECEFFGHFFGFHGECDGHGBGFHGDF@@?CGFHCEGGGFD.CCC?EGHBHHHFHHFBCFFGEB/CEGGGGDAA.90C9CEBFGGBBF/9.9FBFFFBBFF//99FFFFEABF//99FFEFFFBFF +@1:A:M01368:8:000000000-A3GHV:1:1113:5741:16959/1_PolyA:1 +TAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATG ++ +ABBBBFFFFFFFGGGFGGGGGGHHHGHHGGHBGHGAGFFCAFGHGFFGHHGFHHHHHGGGGGHGHHHHHHHHE3BFFHHHGG0EDF@GHFFGGGHGGGGGGGGGGGGGHHGGEEFHGFHHDDG@DGGGHHGDGGGGGHGG?CF?HHGHHHGHGHHHFFHGGGHHHHGGCD.;0A33>FFFFFF@FFFGGGGFGGD4EGGGGGHHGFFGHFGGHHHFEFHECFHHHEHGAGBCCGCCEGGHGHEGFBFHFHHHHGGGHFHGHEGGGFEGEGG??@DBGHGGC-@FFGHFHFHB-??DA-DD@9:BEBG@B?E?A.ABBFBFA??F.FF/BFFB/B9B/9;BF9FF9FFFFFFFFFFFFFF?BB?;9EE;-;DDB9//;B-B@;ABFFEFFFF/-.9A.;//9/BF./B/..9.9:...///// +@M01368:8:000000000-A3GHV:1:1114:14540:5315/1 +CTTTAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGGGGGCTATTTAGGTTTTT ++ +AABCCFFFFFFFGGGGGGGGGGHHHHHHHFHHHHGHHGHHGGGHGGHHHHHHHGHHHHHHGGGGGHHFHHHFGHHGGFHHHHHGGGGGHHHGHGGHHHGGGGGGHGHGGGGHHGGGGHHHHHEGDDFGFFFHHGGGGGCDAFCFGFDHHHHGGHGHHHHHHBCGEHHHHGGHG.ACGEHGG0CBFFF:A;BB0;09CGF00CFFFE0AA?//CFFFFFFFFFFFFFFFBEF;A.-=A--:BBFB90;;FE. +@1:A:M01368:8:000000000-A3GHV:1:1114:15066:16302/1_PolyA:1 +TAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACGTTCAATATTACAGGCGAACATACTTACTAACGGTTGTTAATTAATTATTGCTTGTAGGAC ++ +BBBBAFFBDFBFBGGGGGFGGGBGFFFHGFHHGFFFHGHHHGHHHHFFHHHGHGC?AEFFHEFBFFFGHHHHH1FDGFFHGHGHFEGCGC-<>ABFFFFFFGGCGC1BBF1GHHHBHHHHGFHGH1A100AA/GGEHGFBAA1FFD2FHHHHECG2F1BB/E0FC/A>EE/FGGFGEF1EGBBEHHCGGGHBGEHFHE0B?E--;C?CCGGG@A@GBFBBBB09?@??A-AB--ABE@=-=-9AE9A;FFFFFE=9-//;//;9FF/////;;///9B///;/B////9FFBB;--A@-;/9;9-:-/;;FFFE9BF?@;-9-99/B9F/://///99/; +@M01368:8:000000000-A3GHV:1:1114:2404:13066/1 +TCCTACAAGCATTAATTAATTAACACACTTTAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCTGTCTATTATACACATC ++ +CCCCCFFFFCFFGGGGGGGGGGHHHHHGHHHHHHHHHFFHHHHHGGGGHHHHHHHHFHHHHHHFGGHHGGHGGHHHHHHGHHFHHHHGGGGGGHHHHHHGHHHHHHHHHHGGGGGGGHH?FGHHHGGGGGGHHGGFGGHHGGGGHHHHHFGGGGFGHGHHGGGGGGGHGGGEGGHHGHHHHHHHHHGFBFFDA0FGGGFFGG0:EFGGGGGGGG;AEBF0B0BFFBFFFFFFFFFFFFFFFFFFFFFEFF0 diff -r 313e04fe07cd -r cc01cbc4e7f7 test-data/trimmed_polyA_reads_pair2.fastqsanger --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/trimmed_polyA_reads_pair2.fastqsanger Fri Oct 08 09:57:12 2021 +0000 @@ -0,0 +1,396 @@ +@M01368:8:000000000-A3GHV:1:1101:6911:8255/1 +ATCTGGTTCCTACTTCAGGGCCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACGTTCAATATT ++ +BCCCCFFFFFFFGGGGGGGGGGGHHHHGHGHHHHHHHHHGGGGGGHHHHGHHHHHHHHHHGHHHHHHGGHGGHHHGHHHHFHHGHHHHHHHHHGHEHEFFGHHEGGCEFGGFHHHBGHHGHHHHGHFHHHGHGHGHGGCDFDDACGGGGGGGAAFFFFFFFFFBAFFFFFB;FFFFFFADDFFFFFFFFFFEFFFFFFFFFFBFFFFFFFFFFFFFFEFFFFFFFFBFEFFFFEFE;DFFFDFBFF/9BFB +@M01368:8:000000000-A3GHV:1:1101:14518:9998/1 +GTTATTATTATGTCCTACAAGCATTAATTAATTAACACACTTTAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGGGATAGACCTGTGATCCATCGTGAT ++ +AAAAAFFFFFFFGGGGGGGGGGHGGHHHHGHHHHHHHGCGHHHHHHHHHHHHHHHGGGGGHHHHHHHHHGHHGFHFE5BGEEHFGGGHHHHHHHHFBHHGGGGFHGHHFGHHHHGHHHHHHGEGGGGFHFHGEGHHGGCDGDGHGGGDGGHGGCGGGHGHHH/ACDG?.1FGCDCCGCA.CC@CDCHFHGFFGGGEBFGAB//CEFBFGG.:;D;;A0AFFFFFB..:@ABFF//;BFFFFFBF/9D:A// +@M01368:8:000000000-A3GHV:1:1101:18422:19051/1 +GTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACG ++ +CCCCCFDDDDDFGGGGGGGGGGHHHHHHHHHHHHHHHHGHHHHHHFHHHHGGGGHHHHHHHHHGHHHHHHHHHHHHGGHGGHHHHHHHHHHHHHHHHHHHHHHHHHHHGHHHHHGCGGGHHHHHHHHHHHHHHHHHHHHHHGFDHGFHCFGGGGFGGFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF;FFFFFFFFFFFFFFFFFFFFFFFFFFFFEFBFFFFFFFFFF:FFF. +@M01368:8:000000000-A3GHV:1:1101:25545:21098/1 +ATTAATTAACACACTTTAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATAAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGGCTTATTTAAGGGGAACGGGTGGGG ++ +33AA?DFD5BDFGGGFEBDGEGHEGHGEGHCEGGHHCHGHHFFHHGFGAGE53FF2FAFFGDE5FFFE5GFBFGAEE1GHHHGHHHEHE3FGHF@GEGEGGHHGG3FAGFFDE?EEE3GFEGFGFGGCG?GHHHFHGGGC@DHFFHD/AA@AAAAD2ADDFFGGGGGFGGHA?EAEFBEAGHFABFGG5FDF5DB1EEGAFDFB53FF5FH@G5FFEHGHEFHFFHBE333GF43GCGGGGE@0?BFGGB0B?FHGFDGGHHHBFFDEGGHGFFFDFE@<1>@FFFGHHHHFHEFGDABFFGG/@DCE---;--..;.../9 +@M01368:8:000000000-A3GHV:1:1103:25519:6301/1 +AAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGCATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACGTTCAATATTACAGCTGTCTCTTATACACATCTCCGAGCCCACGAGACTAAGGCGAATTTCGT ++ +3A3AAFFFFBFFGGG2CF?4FGHGHHCHGGHHBHGFFAGGHHFFHHCGHFEGCECEGHFFFHGHHGFGHFGDAFDGFFEEFEGGBECC/;>=EF?AEFFFF;9;=DAFFFFBBFFFBFFF//;BFB.:FBFFBB/BFFFF/BFFE?EFAFEF9 +@1:A:M01368:8:000000000-A3GHV:1:1104:11928:24197/1_PolyA:1 +ACGTAGGTGCGATAAATAATGGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATGACCCTGAAGTAGGAACCAGATGTCGGAT ++ +CDDCCFCFFFBCGGGGGGGGGGHHHGHHHGGGGGHHHHHHHHHHHHHHHHHHGGGGGHHHHGGGHHHGGGGGGHHHGGGGHHGGGGHHHHHHGGGGGGHHHHGGGGGGGHGGGGGGHHHHHHHHHGHHHHGHHGHHHHGGHGEEGGGGFHHFHHHGHGEHHHHHHHHHHHHHHHHHGGGGGGFGGGGGGGGFFGGGFGFGAEFEFGFEAFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF@D +@M01368:8:000000000-A3GHV:1:1104:12288:20635/1 +CACTTGGGGGTAGCTAAAGTGAACTGTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGCCGCAGCATCTGTCTTTGATTCCTGCCT ++ +ABA?AFBAB2>AFGGGGFFGD5GGHGFFHGHEGGGGHHHHFFHH5FHGHHHFFHEFHHHHHHGGHHHHHGFHGGHGGGGFHGGGFBHHHFGEGHHHHGHGGGGECEHHFHHGHHFFHFGGGHHHEGHDGHHGHGHFHHHECGCBCHHGFHHFHD1GFHEFHEF?GDCFFEFE0A@;@>BD/9BFBBBBFDFFFF99D=?>DDBFF-AFFEBB9BBEFEFAFFF//-@---;;FBBFBFB///;99999BA9 +@M01368:8:000000000-A3GHV:1:1104:13832:4398/1 +CACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCCTGTCTCTTATACACATCTCCGAGCCCACGAGACTAAGGCGAATCTCGTATGCCGTCTTCTGCTTGACAAAAAAAAACACACAACAACCAACACCCAGTAGACTAGTGCGTC ++ +AAABABCAFFFFGGGGGGGGGGHFHHHHHHHHHGFFHHGGHGGGGGHHHHHHHHHHFHHHHGHHHHHGGHGHGGHGGGGGGGHGFFGGGGDGGHHHHGGGGFGGGGGCFGGEGCDGGGGGGGGGGGGEGF?;BFFFFFFFFFFFFFFFFFF:FFFFFFFFFFFFFFFFFFFFFFF/FFFFFFC.;BFEAFFFFF;@FFBFFFFEF?/FFFFE----:...:...9....9.9...:.9//9////;/9-.- +@M01368:8:000000000-A3GHV:1:1104:23670:4161/1 +ATTCAATTGTTATTATTATGTCCTACAAGCATTAATTAATTAACACACTTTAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCC ++ +AAAABFFFFFFFGGGGGGGCGBBGGHHHHHHHHHGHHHHHHHHHHFGGHHHHHHGGFHHHHHHHGGGGGFHHHGHHHHHGHHHHGHHGGGHGGGGHHHHHGHHHHHHEGGGFHHHGFFDGEGHGHFHGHHGEGGGHHBGHGGHGHGGGGG/@FCDFDGFHGGGDFFHFGFFGGGGGHHHHGGGGGGGEGCDG?GGBFFFEE00BFFGABBBAFGGGEGEA.9FFF/./;BFBF./AAF/BFFBBF/F/BFB +@M01368:8:000000000-A3GHV:1:1104:24927:22253/1 +AGCTAAAGTGAACTGTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTAT ++ +AAA?AFFF3DFFFGGBGFF3EAEEEHFHHFHHHGHHHHDGHHGAEFGHHHGFCHHGHHHBGHHHAEGGHGGFHFBFHHHHHHHHHHFHH1EEHEEHH1FFDEEFCGHBGHHFHEHHHHHH1FCGHHHHEEFGEEGFFCHHH11>GHHF/FG2DGGCGAGGHGGGG@@@BEFFF?@@@FFEFFFFFF?@@FB@BB@FFFE=;==---A9EFBBB/;E;A9B/B/FFFEF/B///;/;9/A/;/9BFFFBFBB +@M01368:8:000000000-A3GHV:1:1104:4705:7727/1 +CTACAAGCATTAATTAATTAACACACTTTAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGG ++ +BBBBBFFBFFFFGGGGGGGGGGHHHGHHHGHHHHH6GHHHHFFGGGHHHHHHHHHHHHHHHGGFGGGEGGGHHHHHHHHHHGHE3FGGGGHHHHHFHHHHHHHHHHHHGGGGGHHFHFCGFHHGGGGGGGHHGGGGHHGGGGGGHHHHGGGADCHHHHGDGGGGGGGGC@DGFHEHHHHHHGHHHHGFGDEGFGFFGGGGCFGBEGFGGGFG;C.BFFFFFFFBFBFFFF/F?.AFFF/BFFEFFFFFEFF +@1:A:M01368:8:000000000-A3GHV:1:1104:7756:4776/1_PolyA:1 +GGCCCATAACACTTGGGGGTAGCTAAAGTGAACTGTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTG ++ +CCCCCCFFFFFFGGGGGGGEEFHHHHGHGHHHHHHGGHHHGGGGGGHHGHHHHHGHHGHHHGGFHHHHHHHHGHHHFHHGHHGFGGGGHHHHHHHHGHGHFFHFHHHHHHGGHGFGFHHHGHG?FGHHHHHHHHHHHHHHGHGHHGHGGCDGFFHHHHGHHHHHGHHHGFHGHFHGHGHGH/@CABFFFFFFFACAFF?BBFFBFD-@-.D>FFAF.F.:9---;AADFFFFFBEFFF:9FFFFBBFFFF +@M01368:8:000000000-A3GHV:1:1105:11310:21761/1 +ATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATGACCCTGAAGTAGGAACCAGATGTCGGATACAGTTCACTTT ++ +CCCCBFFFFFFFGGGGGGGGGGGHHHHHHHHHHHHGHHHHHGGGGGHHHHHGGHHHGGGGGGHHHGGGGHHGGGGHHHHHHGGGGGGHHHHGGGGGGGHGGGGGGHHHHGHHHGHHHGHGHHGHHHHGGHGGG=FFGEHHHHHGHFGGHHGHHHHHFHHHHHHHGGHHHHHHHGHEHHGHHHHHGGGGF9AGE?DEGFFGGGGGGGGGGGGGGFFFF/9FFBFFFFFFFEFFFBFFFFFFFFFFFFEFFF0 +@M01368:8:000000000-A3GHV:1:1105:11578:14676/1 +ATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATGACCCTGAAGTAGGAACCAGATGTC ++ +CDDDDFFFBFFCGGGGGGGGGGHHHHHHHHHHHHGGGGGHHHHHHHHHHHHHHHHHHGGGGGHHHHFGGHHHGGGGGGHHHGGGGHHGGGGHHHHHHGGGGGGHHHHGGGGGGGHGGGGGGHHHHHHHHHHHHHHHHHGHHHHGGGGGGHGGHGHHHHHHH;CHHHHHHHHHHHHHHHGHGGGGFGGGFGGGGGGGGGGGGFGGGEGGFFFFFFFFFFFFFFFFFFFFFFFFF/FFFFFFFFFFFFFFFF0 +@M01368:8:000000000-A3GHV:1:1105:13575:19255/1 +TTAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGTTCCCGTGAGTGGTTAATAGGGTGATAGGCCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATG ++ +AA1A1DFFFFFBGG3A111FFAEGDDBGFDHF00F01BBA00BFGEHFBFFA1FABB0FAE?CFHF1BGFHFB0011F121E//>>1F10>B?EFHGCC/?/BFG/EEGFFEE//BCFDE0?E@@B/?11AAFFFFFEAGGGFGGAA6FHDGGCGFHFFHFHFHHHHHGDDDFFFHGFFHGBEGEGHHHFFFHGEEAEGHHHHHFHHHFHGHFEDGGEGBEAGEFHHFFHHHHHHGGHHHGHHGBGHHFHHFGHHHHG?CG?AFHH1FHHHGHFHHHF?DGHFFHCGAGEFHGCBBBB?BFFF?B-B.9/BFFFFFB=-AD?..@FFFF@@-@@?AFD.FFFBBEEBD9/:FFFFFBB/:FF9BF/BF.BBFF/: +@M01368:8:000000000-A3GHV:1:1105:21099:2895/1 +TAGCTAAAGTGAACTGTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTT ++ +CBCBBFFFFFFFGGGGGGGGGGGGGFHHHHFHGHHHHHHFHHHHFGFHHHHHHGHHHHHHGHHEHGGGGHHHHHHHHHHHHHHHHHHHHHHGGHGGHHHHHHHHFHHHHGHGHHHGGHHHHHGGHFFGHGCGGGHGHHGHHHFGHHFHH/FGGGHFGFEGGCFCCD;B@DFFFFFFFFFFFFFFFFFFFFFFFFF;F.BEFADFFFF.AEFFFFFFE;D.;:B00099:09BFBFFBFF.0:000BFFBF0 +@M01368:8:000000000-A3GHV:1:1105:26469:19245/1 +TTATGATTATGTCCTACAAGCATTAATTAATTAACACACTTTAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCAAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATG ++ +BAAAAFFFBFFFGGGGGGFFGGHHHHHHHHHHHHGGHHGHHHGGHHHHHHHHHHHDEGGHGHHHHHGEDHFHGFHGGHHGGHGGEHHHGHHGHHGHHHGGEGGGHGHGHHHHHHGHHHHGHGGGGGHFHGGGGHHGGGGCDGHHHGD>A@FFFFFFFGGGFEECFGGFFB5GBHH5DFH5GBEEAEFHFHHF3F3GHFHHHEF3GAEHBGFHFFEFFHHHHFFB31FGGEGFHGEHHHHHHHHHHHHHHHHHEEEEGHHHFFF3GF3FGF44BBGEHHHHGG2B/BGGHE;B=.9.;.BBFFF..;A;/B/;B//;;//BBF/ +@2:A:M01368:8:000000000-A3GHV:1:1106:22927:3863/1_PolyA:2 +GTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGACTTCTGTCTCTTATACACATCTCCGAGCCCACGAGACT ++ +A>ABAFA?D@AFGGGGFGGGFGFHHHFFH4BCBGHHHHGFFF3G5BF3322EEAFHHHHHHAB5GHFHEHFHHH3BEEHFGF5@13FDF3GDGFHHFGHHHGHHHGFGGHHFCG//?/EGHHHG3F4BFFGHHHEDGFHHB/B/?FBF<@-9?BDEFFF?B--?DFFFB9FA>B;A.BFDB?AB.--@;-.FFAEFFFF9AE;DDFFFFB/9BFFFFFFFB:BF/BB/BFF//FFF-=--.99=--.9/ +@1:A:M01368:8:000000000-A3GHV:1:1106:23625:4236/1_PolyA:1 +TAGCTAAAGTGAACTGTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATT ++ +@?AAAFFBFBFFFGGFGFGGGEFCGGHHHHFGHGHFHGHHHHGGFGGFGHHGHGHHHHGHGFFHHGGGGGHHHHHHHHHBFHHEFHHHHHHGF?FAGHGFHHHGDGFHHGGGHGHFHHHGHHHGHHFHHGFFGFHHHGHHHHFFHHHHH/FGHHHHGHGHGDFFFE?FFF/--;;9/:BFFFBA///9----;B.//////;...---9-- +@M01368:8:000000000-A3GHV:1:1106:6455:17124/1 +GTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACG ++ +BBBAAFABDBBFGGGGGGGGGGHHHGHHGHHHHHHHHHGHHGHHGHHHGHGGGEGHHHHHHHHHHHHHGHHHGHHHGGHGGHHHHHHHHHHHHHHHHHHGHHHHHHHHGHHHHHGGCFEHHHGFHHHHGHHFFH?GGHHHHGHGHGHHCFGGGGGGGFFFFFFFFFFFFFFFFFFFFADFA?.FEFAFFFEFFFFFFFFFFFFDABFBBFFFFFFFFEFFBFFFFFFFFFFF/FFBFFFFFFADE>BFFF9 +@1:A:M01368:8:000000000-A3GHV:1:1107:14451:26748/1_PolyA:1 +GTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATGACCCTG ++ +BABBBFFDABBBGGGGGGGGGGHGHHHHGAGHGGGGGHHHHHHHHGHHHHHGGGGGGFFHHHHHHHHHFHHHHHGGGGCHFHH3FEHHGCGGGDGHHHGFGGHHGGGGHHHHHHG/DGGGHHHHGGGGGCCHGG?CGG1GHHGHHHHBGHHHFHHGHHHHGGADAD00ECEGHEFHHFFAEFFFFFGGFBFBFFFGFFG.;B/99;BCFGGGGEFFFFFFEDA./:ADEB?FBFFFF;FFEBFBFFB./9 +@1:A:M01368:8:000000000-A3GHV:1:1107:18714:24788/1_PolyA:1 +GTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATGACCCTG ++ +BBBCCFFFDEDEGGGGGGGGGGHHHHHHGGHHGGHGGHHHHHHHHHHHHHHGGGGGHHHHHHHHHHHHHHHHHHGGGGGHHHHCFGHHHGGGGGGHHHGGGGHHGGGGHHHHHHGGGGGGHHHHGGGGGGGHGGGGGGHHHHHGHHHHHHHHHHHGHHHHGGEGEGCCEGGHHHHHHG:CAFFGGGGGGBFEFGGGGHGAFFGGFGGGGGGGEFFFFFFFFFEF/EDDFFFFFFFFFBFFFFFBBFFBBF +@M01368:8:000000000-A3GHV:1:1107:21355:8333/1 +ATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATGACCCTGAAGTAGGAACCAGATG ++ +ABCBBFFFFFAFGGGGGGGGGGHHHHHHHHFHHHHHGGGGGHHHHHHFHHHGHHHHHHHGGGGGHHHHFFGHGHGGGGGGGHGGEGGGHGGGGHHHHHHGGGGGGHHHHGGGGGGGHGGGGGGHGHHHFHHHHHHHHGHFFHHHHGGHGEGHHGHGFHHFHGHCEFHEGHGHHHGHHHGGGGGGCFFFFBFGGFGGGGFBG?FDGGGEGFFFFEFFFFFFFFFFFFFFFFFFFFFFFFFFFFFBFF.AA/9 +@M01368:8:000000000-A3GHV:1:1107:22864:15712/1 +AATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACGTTCAATATTACCTGTCTCTTATACACATCTCCGAGCCCACGAGACTAAGGCGAATCTCGTATG ++ +BBBBBFBBFFFFGGGGCEGGGGHGHHDGFHHHHHHHHHHHHHCHHGHFGBGDFGE?GHHGHFBHHFHHHHHHHHHGHFGFGHGHHGGC@DCFGHHGGGGGGGHHHHHHGGGGGFGGGGFFGGGGFADGFEFFFFFFFFFFF9;FFFF/BFFFFFFFFFFFFFFFFFFFFFFFEFFFFFFEAECDFFFFFFFFFBFFFFFFFFFFFFFFEFBFBFFF/FFFDF-;-9;E@>-9DFFF/FFBF;-.:;.9A// +@M01368:8:000000000-A3GHV:1:1107:24817:14233/1 +CTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACGTTCAATATTACAGGCGAACAT ++ +3AABABFFBFFFGCFGGGGGGGHHHFGCFGGGFFGHHCGHHHGHGHGHBFFHHHEDGGFGFGHHFFFHGGEGHFHHGHFHGFFHHHFGHHHFHACECEHHHBGFHGFHHHFHHF4GFHFHFHEHGGE/EG:A-CFGGFGADGGGGFGGGGDAAAADFA.-AFFECFDAAFFFFEFFFFBFF;D;BFFFB/;BFFFFFFFFFFFFFFBFFBF/;//;BFFFF?FFFFFFEDAFFFFFBF//:BFBACF--9/ +@M01368:8:000000000-A3GHV:1:1107:24830:14440/1 +AACTGTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACC ++ +ABBBA@FFFFBBGGGGGGGGGGHGHHGHHGHHHGGHHHHHGHGHHGDHHHHHHAGGGGFHHGHHHHHHGHHHHHHHHHHHEGAFGFHFHHHHGEGHHHHHHHHHHHHHHHHHGGHHHGEFEGGHHGHHHHHGGHGFHH/?GHHHHGFGHGFHCGGBBDAFFFEFFFFFFFFFFFFFF=CDDADDFFFFEF=BFFFEFFFBFFFFEEBF./:FFFFFFFFFFFFFFFFFFFEFFFFFFFFFFF/BFBEFFC- +@M01368:8:000000000-A3GHV:1:1107:26478:23602/1 +GCTAAAGTGAACTGTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATCTGTCTCTTATACACCTCTC ++ +1AAAAF1B13BBBEGGGFGGGGGGHHDB1BGFHHHFGFGGG0F00BGBGFGGF1GBGB1BGCGAEE/FGFHGHFHHHHHBFF1B0FGGF//F//FGFGFFF/1@B1DFHHHGGEFEDHFDFAFF0B//1FDD1GFFHHDF?1BD>GF/GCAC0C@?@-;99BBB->@--;-B//99B--9-BF=A--A-:A----9AA9AFBFBBB?E@BBFFFFFFFBFFFFFBFFFBBFFF//B/////-;9 +@M01368:8:000000000-A3GHV:1:1108:11059:23181/1 +GTTATTATTATGTCCTACAAGCATTAATTAATTAACACACTTTAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGAT ++ +CCCCCFFFFFFFGGGGGGGGGGGHHHHHHHHHHHHHHHHGHHHHHHHHHHHHHGHHGGGGHIIIHHHHHHHGHHHHGHHHGGHGGHHHHHHHHHHHHHHGGGGGHHGHHHHHHHHHHHHHHHGGGGGHHHHHFGHHHGGGGGGHHHGGGGGHGGGGHHHHHHGGGGGGHGGHEFGGGGGHGGG-ECHHHGGGGGGGGGFGFFGGGGFGGGCF?EFGG0;BFFFFB?9AAFFFFFFBF;BBFFBFFFFE?F/ +@M01368:8:000000000-A3GHV:1:1108:12233:13498/1 +TAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATGACCCTGAAGTAGGAACCCTGTCTCTTATACAC ++ +BCCBAFFBCCCCGGGGGGGGGGHHHHGGGGGHHHHHHGHGHBGFHHHHHGGGGGHHGGBFGHHGGGGGGGHHHGGGGHHGGGFHHHHHHGGGGGGHGHHGGGGGGGGGGGGGGHHHHFHHHGHGHHHHHHGHGHHGGFGGGDFFGGHHHGHGH/FHHHFHGHGHHGHHHGHHBAAAA3BDFFFFDGBFFEEGGGGHHGHFHHCFHGHGHHHGF3BFGFHGFEFHFHGH3EGFC1EEGBFGBHFGGFFHHHGHFHGHHGHGGHCEHEBCFF3ED3@GH4FDEG12FFHFFHG/G3FGA/@EFEFCG33FFGBBGHFHH/?BFBGFGFAGC2C/@-;@-;BFFEFADF?DFFFFFF?;AFFA;AD;..FEFFA--;9;D.9BFFBE?;.;///://///99//BB/9;F./B//BBFB9////99/ +@M01368:8:000000000-A3GHV:1:1109:25237:11722/1 +CCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGCTGTCTCTTATACACATCTCCGAGCCCACGAGACTAAGGCGAATATCGTATGCCGT ++ +AABBBFFFFFBBF5BGGFGABGHGGAEFGFHHHHFHCHFHHBFGGGEHBGGHFFFFGFAEF5FHH?EGGF5AEG3?EBFHD?C/EFHFFEGEE?CFGGGHHFHB3EEFG?EEGHCFGGGGGGGECA?FFFDFBFGCG4EGFG??GACFGGHFHCFHCHBECDEFCEGHHHHHFFGGF3AFFHHFGEGCGHHGEHGFGHHEGG?EFHHH?EGGHHGGGGHHHHHHEGGGGGHFHHGFDDGGACFCC@?/FDDGHHHGHEFFHHH0FDHHFFEDCD.CFHHGDFGGGGGEFGC?EGHHHB0CGHHGCGHHHHBEHGHH.::ACA;FECFGGGGGFFFEFGGGGGGGFFBBBFGBFFFEFFFFBFFFFFFBBFBFFB9..AF?FFFFFFF9 +@M01368:8:000000000-A3GHV:1:1110:14751:26540/1 +TAACACTTGGGGGTAGCTAAAGTGAACTGTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACTGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGTTGTGCACGCGATAGCATTGCGCGACGCTGGCGCCGGCGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTG ++ +AAA?1CFFFFADGEEGFGB1112DGDGHGFGHHCG/ECEBGGHDFGHHFHGHEB1BCGFFE2EGHHGHFFFHHBFFHEFCGGHHFHHHHH111BFFHGHEHBEHGGECEFHGFHFGGDBBGHHBHHHH0GH22FGHGFFFH1BFCG0F@FGG11@GDHFG1D/1FGFHH/FCG.>0><-<@CCFFG.CC-@C?C9FFF0C---;------;9----9-9@-AAFF9B9---9-/;B9BF/9BB//B/;/// +@M01368:8:000000000-A3GHV:1:1110:15519:10008/1 +CTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATGACCCTGAAGTAGGAACC ++ +BBBBBFFFFFFFGGGGGGCBGGE?GGGHHHHHGHHBEGGHHGGGGGHHHHHHHHHHHGGHHHHGFGGGGHGHGCFGHHHGGGCGGHGHGGGGGHFGGGHHHHHHGCEFGGHHHHGGGGGGGHGG/CEGHHHHGFHHHGFHHGFFHGHGHFGGEGFDDGGBCGHHGFHH/CHHHHGHGHF0CFGGGGGGGFFFFFBFFFFFFGFFGGF?DGEDEEFEFFFF?FFFFFFFFFFFFFFFBFFF.BFFFBFBBA; +@M01368:8:000000000-A3GHV:1:1110:16559:7507/1 +CATTCAATTGTTATTATTATGTCCTACAAGCATTAATTAATTAACACACTTTAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAACTGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATC ++ +ABBBAFFFFFFFFGGGGGGGFGGGGAGHHGCHHGHHHHHHHHHHHGHHGHHHHHHHHHHHHHHHHFGGGHHHHHHHHBDHHHHHGGHFEEGHGGHHHHHHHGHHHEHFGGGGGGHHHF33FGHHG3GDDGH//EEGHHFFBF?GHHFCC@DGFCGGB?DGHAFGGHHGFH0E??<@DGHGGCFGGF?DGGGFFGGGGGGGG.C/0BBF?FBBEGG0FFF.AA9;B9/E////99;;:.//:FFFFBBF//9 +@M01368:8:000000000-A3GHV:1:1110:16700:6843/1 +AAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATGACCCTGAAGTAGGAACCTGTCTCTTATACACATCTCCGAGCC ++ +BBBBBFFFFFFFGGGGGGGGGGHHHHGHHHHHHHHHHHHGGGGGHHHHHGGHGHGGGGGGHHHGFFGHHGGGGHHHHHHCGG@FGHFHFEGGGGGGHGGGGDGHHHHHHHHHHHHHHGHHGHGHHGGGGGCGHEHGHHHFHHHFF.DGHHHHHHGHHHHHHGFGHGCGHGHHHHHHHHGHHHCD?:A::FCDGEGFGFFBFGBFGGGF00CBFFFF/BFBFFFFAE.FBBFBFFFFB/BFFBFFF/ADCAD +@M01368:8:000000000-A3GHV:1:1110:18014:7856/1 +ATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGGGATAGACCTGTGATCCATCGTGATGCTGTCTCTTATACACATCTCCGAGCCCACGAGACTAAGGCGAATCTCGTATGCCGTCTTCTGCTTGCAAAAAAAAAATAG ++ +AABBBFFFFFFFCGGGCGGGGGGHHHHHGFHHHHHHGHHHGGGGGFHHGHFGGHHHGGFGGGHHGGGGGHHGGGGHGGHHHGGGGGGHHGHGDGGGGGGGGB/A99FE//BBFFF.9/FF?DA=@9./9 +@M01368:8:000000000-A3GHV:1:1110:23303:11846/1 +ACTTGGGGGTAGCTAAAGTGAACTGTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGTGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTC ++ +3ABB?FAB?DAAGGGFBGGBB5AFFFGFHHGGGEGHHHFHHF3EGFHHHHEFHHGGHHHGH3EFHHHHHBDGHHE?ECHGHGHHHHHHFHHHGHHHHHHHGGHGGFHHHFHHGFFHHFEGFHHHHHHEHHFDAGHHHH/BDDFGGH1FDBGHHHHHHHCGHHHFH?0CGCF>CC=@--AFBFFB?=BFDFFF//FDB;-9A-AD-.A.A=?-9-:B/AEB/BFF.A;DDFFFBBFFFF/BBFFFFBFF9B; +@1:A:M01368:8:000000000-A3GHV:1:1111:13195:14562/1_PolyA:1 +ATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATGACCCTGAAGTAGGAACCAGATGTCGGATACCTGTCTCTTATACACATCTCCGAGCCCACGAG ++ +ABAAAFFFFFFFGGGGGGGGGGGHHGG4FDFGFGGCGGGHGHG?EGHEGFFDHFHHHHGGFE@EHHGEEEGFCCEFFGFG/EHHHHHBFBGGHFHFHEHGHEFGGGED/EFDEFFEHHBGHHCFFFDFGGHHGFFFHHHHGFG>0<0DGGFHBGHFBDFGHGFFGGAGHHGCGBHFFHHHFFFBFGGGGF/:FFFCB9F9FF0FEFE?FF0BED-D.//BF9//BBFF/BFFFEFFFFED-DCFF?.:BF +@M01368:8:000000000-A3GHV:1:1111:14287:20817/1 +GCCAACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTCATCGCACCTACGTTCACTATTACAGGCGAACATACTTATTAAAGTGTGTTAATTAAT ++ +>>A3>AAAACFFFGFGFGGGGGHGHHHHHHHGGGGGHGHFFCGHHGBGHFHHHHAGHHHHEHHAGFFEHEAE?GHHHHEGFFFDGHGHBFFHFHHHGHGHGHBECG@@@EHGGEGCGGGGFFGGGG?BGGGGGG.-C.FEDCFFFEFFFAF/99BEFA.:9BFB/9FFFEFFFFFFEFFF/FBBFFFFFFFFFFFB//;.@@//;DFFFF//BBFFFBF;A;DF=>B//;9B//B/;/;9//9//;B/:B9 +@M01368:8:000000000-A3GHV:1:1111:23624:14516/1 +GTCCTACAAGCATTAATTAATTAACACACTTTAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGGGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAG ++ +3>3AAFFFFFAFGGGGGGGGBGHHHHHHGGHGGHEHGHADFHHHHEGGGHBGHFFHHEHHGHFHGG5FBEEGEGHHHGHHHEFDGHHFFGFGGHHGHHHGHBHGHFHFHHGGGGFCFBGFGE?GFBECEGDGHEHGDGCGHGC/DF@GHGFFCGGGGFFFFDD?@C@GFEC?-ADHFFHBGHFBHFG0CC//.;B0/CA.;AA.;@.AB/9BB/A/.AFFFE/BFFF///9B/FBDE9/;99/B/BFFEF/ +@M01368:8:000000000-A3GHV:1:1111:7437:24508/1 +ACACACTTTAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTGTCTCTTATACACATCTCCGAGCCCACGAG ++ +CBCCDCFFFFFFGGGGGGGGGGGGGGHHHHHHHHHHHHHHHHGGGFFEHGGHHHHHHHHHHHGHHGGGGGHHHHHHFHHHHGHHHHGHGGGGGHHHHHGGHHHGGGGGGHHHGGGGHHGGGGHHHHHHGGGGGGHGHHGGGGGGGHGGGGGCGHHHHGHHGHHHHHHHEDHHGHGGGGGD;BEGGGFFGGGGC:CFGGGGGGGGGFGGGFFFGFFFFF;FFF;BFFFFFFFFFFFB:FFFFD=CAEEEF>- +@M01368:8:000000000-A3GHV:1:1111:8665:25542/1 +TCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTGTCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACGTTCAATATTACAGGCG ++ +AA3AAFFFFFFFGGGFGFFGGGGHGH4AGGGFHHCGEE2FGHHHHHHHHHHGFHGF53FHEGGFAF5CFHHGGFGHFHHGGHHHCHHHHHHHFHHGH?EEEG1FFFEHHFHFGGHHGG?F4FBGHGHCHEF0//-9--;0CFGG?@BGDGFFFFEFBBBDA?FFBFFFF=B;-9.AA9EFFFF/;9BD.//;9/9/B:/:BFBFFBFFF/B:BFF//;/B/FFFBFF.A-BFFFBA/F//BFFFBF/;/A- +@1:A:M01368:8:000000000-A3GHV:1:1111:9655:13916/1_PolyA:1 +GGCCCATAACACTTGGGGGTAGCTAAAGTGAACTGTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGCGGTGTCCACGCAATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTG ++ +1>>1AAFFFFFBGGFE1EEEEGGHGHHH2FGHHHFGFGHGCFGGGEFHGGEGGHHHHGHEFBFEGHHHGHHBEHHHHGHGFHHHGGGGHHEGGGGHHHGFHGHHHH1FHHG?G/AGF1GBFGEFFHF2FDD0FG--99@=---AAABA-BF/B?A@F-9BBFF//BB/9 +@M01368:8:000000000-A3GHV:1:1112:10272:7828/1 +GTATCCGACATCTGGTTCCTACTTCAGGGTCATAAAACCTAAATAGCCCACACGTTCCCCTTAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCTGTCTCTTATACACATCTCCGAGCCCACGAGACTAAGGCGAATCTCGTATGCCGTCTT ++ +AAABABBBBBBFGGGGGGGGGGHGHHGHGHHHHHHHHHGHHHGGHDGHHHGGGGHHHHHHHHHHHHHHHFHGHHHHGGHGGHHHFHHHHHCGHFFHHHHHHHHHHHHHGHGEFGAEEEEHHGHHGHGHHHHHHHGHHHHHHGHGHFFBC/BA?BGGGFFFFFFFFFFFFFFFC-@DDFFFFFFFEFAFFFFFFBFBFFFFFFFFFFFFFFFFBFF->@FFFFFFFFFFBFBFAD--.99;A?////:.9A. +@M01368:8:000000000-A3GHV:1:1112:9832:16531/1 +CTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGGGCTGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATGACCTTGAAGTAGGAACC ++ +AABABFFFFFFFF4GGGGEBGEFGHGGHGHGHHHGGHFBGFGGGGGHHEFHGEHFHFHEHHHHHGCGGGHFHHCFGHE@1EEEFFGB?EEEEHBGGGCHHGHHBEE@>EAHHFAEBDGGGCEFF?CEGFFHHHHHFHHHFHGHCGCAHHF<..C.D=0CD.GFHHHG.CAGHC:CHB0GGGFFB0:CFA.A-;9.;000CBBFFBFGA.9AA;A;EDDE.ABBFFFF9;BEFFF/BF//9/B//9:B//.. +@1:A:M01368:8:000000000-A3GHV:1:1112:9832:6701/1_PolyA:1 +CGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATGACCCTGAAGTAGG ++ +AABBBBFFFFFFGGGFGGGGGGHHHGGHGGHHHHHHHHHHHGHHGGGGGHHHHHHHHHHHHHHHHHHGGCGDHHHHFGGHHHGGGGGFGGHGGGGHHGGGGHHHHHHGGGGGGHHGGGGDGGFGHGGFCDCHHHHGHHHHGHHFAGFGGEHFGEG.C1>11F1D1DDFFFFGGG1FH3GHGHGHGHFHEC?EC0B1FBGFB1GHHH21AF2HH2FEGEHAE10AAE/>/FFHE?/E/?E1@EFFH?E@/EGGG//B11B//<@@C0F/<0AAAAFFFBFFFGGGGGGGGGGHHFHGHHHHGHHHHHHHHHHHGGGGHHHHFHHHHFHGHHHHGAFFEFHEGHHHHHHHHGHEHHGGFGGGHHHHHHFHHHHHGGHHHHGGGGGHFHHFF?HHGGFECEFFGHFFGFHGECDGHGBGFHGDF@@?CGFHCEGGGFD.CCC?EGHBHHHFHHFBCFFGEB/CEGGGGDAA.90C9CEBFGGBBF/9.9FBFFFBBFF//99FFFFEABF//99FFEFFFBFF +@1:A:M01368:8:000000000-A3GHV:1:1113:5741:16959/1_PolyA:1 +TAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATG ++ +ABBBBFFFFFFFGGGFGGGGGGHHHGHHGGHBGHGAGFFCAFGHGFFGHHGFHHHHHGGGGGHGHHHHHHHHE3BFFHHHGG0EDF@GHFFGGGHGGGGGGGGGGGGGHHGGEEFHGFHHDDG@DGGGHHGDGGGGGHGG?CF?HHGHHHGHGHHHFFHGGGHHHHGGCD.;0A33>FFFFFF@FFFGGGGFGGD4EGGGGGHHGFFGHFGGHHHFEFHECFHHHEHGAGBCCGCCEGGHGHEGFBFHFHHHHGGGHFHGHEGGGFEGEGG??@DBGHGGC-@FFGHFHFHB-??DA-DD@9:BEBG@B?E?A.ABBFBFA??F.FF/BFFB/B9B/9;BF9FF9FFFFFFFFFFFFFF?BB?;9EE;-;DDB9//;B-B@;ABFFEFFFF/-.9A.;//9/BF./B/..9.9:...///// +@M01368:8:000000000-A3GHV:1:1114:14540:5315/1 +CTTTAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGGGGGCTATTTAGGTTTTT ++ +AABCCFFFFFFFGGGGGGGGGGHHHHHHHFHHHHGHHGHHGGGHGGHHHHHHHGHHHHHHGGGGGHHFHHHFGHHGGFHHHHHGGGGGHHHGHGGHHHGGGGGGHGHGGGGHHGGGGHHHHHEGDDFGFFFHHGGGGGCDAFCFGFDHHHHGGHGHHHHHHBCGEHHHHGGHG.ACGEHGG0CBFFF:A;BB0;09CGF00CFFFE0AA?//CFFFFFFFFFFFFFFFBEF;A.-=A--:BBFB90;;FE. +@1:A:M01368:8:000000000-A3GHV:1:1114:15066:16302/1_PolyA:1 +TAAATAAGACATCACGATGGATCACAGGTCTATCACCCTATTAACCACTCACGGGAGCTCTCCATGCATTTGGTATTTTCGTCTGGGGGGTGTGCACGCGATAGCATTGCGAGACGCTGGAGCCGGAGCACCCTATGTCGCAGTATCTGTCTTTGATTCCTGCCTCATCCTATTATTTATCGCACCTACGTTCAATATTACAGGCGAACATACTTACTAACGGTTGTTAATTAATTATTGCTTGTAGGAC ++ +BBBBAFFBDFBFBGGGGGFGGGBGFFFHGFHHGFFFHGHHHGHHHHFFHHHGHGC?AEFFHEFBFFFGHHHHH1FDGFFHGHGHFEGCGC-<>ABFFFFFFGGCGC1BBF1GHHHBHHHHGFHGH1A100AA/GGEHGFBAA1FFD2FHHHHECG2F1BB/E0FC/A>EE/FGGFGEF1EGBBEHHCGGGHBGEHFHE0B?E--;C?CCGGG@A@GBFBBBB09?@??A-AB--ABE@=-=-9AE9A;FFFFFE=9-//;//;9FF/////;;///9B///;/B////9FFBB;--A@-;/9;9-:-/;;FFFE9BF?@;-9-99/B9F/://///99/; +@M01368:8:000000000-A3GHV:1:1114:2404:13066/1 +TCCTACAAGCATTAATTAATTAACACACTTTAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCTGTCTATTATACACATC ++ +CCCCCFFFFCFFGGGGGGGGGGHHHHHGHHHHHHHHHFFHHHHHGGGGHHHHHHHHFHHHHHHFGGHHGGHGGHHHHHHGHHFHHHHGGGGGGHHHHHHGHHHHHHHHHHGGGGGGGHH?FGHHHGGGGGGHHGGFGGHHGGGGHHHHHFGGGGFGHGHHGGGGGGGHGGGEGGHHGHHHHHHHHHGFBFFDA0FGGGFFGG0:EFGGGGGGGG;AEBF0B0BFFBFFFFFFFFFFFFFFFFFFFFFEFF0 diff -r 313e04fe07cd -r cc01cbc4e7f7 trim_galore.xml --- a/trim_galore.xml Tue Jul 30 06:26:22 2019 -0400 +++ b/trim_galore.xml Fri Oct 08 09:57:12 2021 +0000 @@ -1,50 +1,10 @@ - - + Quality and adapter trimmer of reads - - - - - - - - - - - - - - - - ^[ACTGNactgn]*$ - - - - - - - - - ^[ACTGNactgn]*$ - - - - - Instructs Trim Galore! to remove N bp from the 3' end of read 1 after adapter/quality trimming has been performed. - This may remove some unwanted bias from the 3' end that is not directly related to adapter sequence or basecall quality. - (--three_prime_clip_R1) - - - Instructs Trim Galore! to remove N bp from the 3' end of read 2 after - adapter/quality trimming has been performed. This may remove some unwanted bias from - the 3' end that is not directly related to adapter sequence or basecall quality. - - + macros.xml - - trim-galore - + + trim_galore --version @@ -92,6 +52,9 @@ trim_galore + ## according the develpers 4 cores could be a sweet spot, anything above has diminishing returns + --cores \${GALAXY_SLOTS:-4} + ## we only support fastqsanger --phred33 @@ -177,6 +140,18 @@ --dont_gzip #end if + ## Trimming settings + #if $trimming.settingsType == 'custom' + #if $trimming.hardtrim5 + --hardtrim5 $trimming.hardtrim5 + #end if + #if $trimming.hardtrim3 + --hardtrim3 $trimming.hardtrim3 + #end if + $trimming.clock + $trimming.polyA + #end if + ## Trim Galore is finished, rename the output if compressed && if [ -f input_1_trimmed.fq.gz ] ; then mv input_1_trimmed.fq.gz input_1_trimmed.fq ; fi @@ -188,12 +163,37 @@ if [ -f input_1_unpaired_1.fq.gz ] ; then mv input_1_unpaired_1.fq.gz input_1_unpaired_1.fq ; fi && if [ -f input_2_unpaired_2.fq.gz ] ; then mv input_2_unpaired_2.fq.gz input_2_unpaired_2.fq ; fi + && + if [ -f input_1.clock_UMI.R1.fq.gz ] ; then mv input_1.clock_UMI.R1.fq.gz input_1.clock_UMI.R1.fq ; fi + && + if [ -f input_2.clock_UMI.R2.fq.gz ] ; then mv input_2.clock_UMI.R2.fq.gz input_2.clock_UMI.R2.fq ; fi + + ## Rename hardtrimmed files + #if $trimming.settingsType == 'custom' + && + if [ -f input_1.${trimming.hardtrim5}bp_5prime.fq.gz ] ; then mv input_1.${trimming.hardtrim5}bp_5prime.fq.gz input_1_hardtrim.fq ; fi + && + if [ -f input_2.${trimming.hardtrim5}bp_5prime.fq.gz ] ; then mv input_2.${trimming.hardtrim5}bp_5prime.fq.gz input_2_hardtrim.fq ; fi + && + if [ -f input_1.${trimming.hardtrim3}bp_3prime.fq.gz ] ; then mv input_1.${trimming.hardtrim3}bp_3prime.fq.gz input_1_hardtrim.fq ; fi + && + if [ -f input_2.${trimming.hardtrim3}bp_3prime.fq.gz ] ; then mv input_2.${trimming.hardtrim3}bp_3prime.fq.gz input_2_hardtrim.fq ; fi + && + if [ -f input_1.${trimming.hardtrim5}bp_5prime.fq ] ; then mv input_1.${trimming.hardtrim5}bp_5prime.fq input_1_hardtrim.fq ; fi + && + if [ -f input_2.${trimming.hardtrim5}bp_5prime.fq ] ; then mv input_2.${trimming.hardtrim5}bp_5prime.fq input_2_hardtrim.fq ; fi + && + if [ -f input_1.${trimming.hardtrim3}bp_3prime.fq ] ; then mv input_1.${trimming.hardtrim3}bp_3prime.fq input_1_hardtrim.fq ; fi + && + if [ -f input_2.${trimming.hardtrim3}bp_3prime.fq ] ; then mv input_2.${trimming.hardtrim3}bp_3prime.fq input_2_hardtrim.fq ; fi + #end if ## Trim Galore! run is finished. Move the report files to the proper place #if $params.settingsType == "custom" and $params.report: && cat ./*_trimming_report.txt > '$report_file' #end if + && ls -lah ]]> @@ -226,7 +226,7 @@ - + @@ -261,7 +261,7 @@ - + @@ -274,35 +274,84 @@ label="Screen quality-trimmed sequences for 'CAA' or 'CGA' at the start of the read and, if found, removes the first two basepairs" /> + + + + + + + + + + + + + + singlePaired['sPaired'] == "single" + trimming['hardtrim3'] == '' and trimming['hardtrim5'] == '' + + singlePaired['sPaired'] == "single" + trimming['settingsType'] == "custom" + trimming['hardtrim3'] != '' or trimming['hardtrim5'] != '' + + + singlePaired['sPaired'] == "paired_collection" + trimming['hardtrim3'] == '' and trimming['hardtrim5'] == '' + trimming['clock'] == False - + + params['settingsType'] == "custom" params['retain_unpaired']['retain_unpaired_select'] == "retain_unpaired_output" singlePaired['sPaired'] == "paired_collection" + trimming['hardtrim3'] == '' and trimming['hardtrim5'] == '' + + + + + singlePaired['sPaired'] == "paired_collection" + trimming['settingsType'] == "custom" + trimming['hardtrim3'] or trimming['hardtrim5'] + + + + + + + singlePaired['sPaired'] == "paired_collection" + trimming['settingsType'] == "custom" + trimming['clock'] + + + singlePaired['sPaired'] == "paired" + trimming['hardtrim3'] == '' and trimming['hardtrim5'] == '' + trimming['clock'] == False singlePaired['sPaired'] == "paired" + trimming['hardtrim3'] == '' and trimming['hardtrim5'] == '' + trimming['clock'] == False params['retain_unpaired']['retain_unpaired_select'] == "retain_unpaired_output" singlePaired['sPaired'] == "paired" + + + singlePaired['sPaired'] == "paired" + trimming['settingsType'] == 'custom' + trimming['hardtrim3'] or trimming['hardtrim5'] + + + + singlePaired['sPaired'] == "paired" + trimming['settingsType'] == 'custom' + trimming['hardtrim3'] or trimming['hardtrim5'] + + + + + singlePaired['sPaired'] == "paired" + trimming['settingsType'] == 'custom' + trimming['clock'] + + + + singlePaired['sPaired'] == "paired" + trimming['settingsType'] == 'custom' + trimming['clock'] + + params['settingsType'] == "custom" params['report'] == True @@ -325,50 +404,50 @@ - + - + - + - + - + - + - + - + - + @@ -378,7 +457,7 @@ - + @@ -389,7 +468,7 @@ - + @@ -414,7 +493,7 @@ - + @@ -439,6 +518,54 @@ + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + - +