Starting /dee2/code/volunteer_pipeline.sh ERR6133457 current disk space = 1545577455616 free memory = 1600068716 ERR6133457 SRAfilesize b43ad15dc6c29c970c9e095a6f710fe2 ERR6133457.sra ERR6133457.sra file validated ERR6133457 is single end ERR6133457 is conventional basespace ERR6133457 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133457_1.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 70-93 %GC 46 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 34.89075 37.0 33.0 37.0 33.0 37.0 2 36.28875 37.0 37.0 37.0 33.0 37.0 3 35.419 37.0 33.0 37.0 33.0 37.0 4 34.94975 37.0 37.0 37.0 33.0 37.0 5 34.83625 37.0 33.0 37.0 33.0 37.0 6 35.364 37.0 37.0 37.0 33.0 37.0 7 36.754 37.0 37.0 40.0 33.0 40.0 8 36.8915 37.0 37.0 40.0 33.0 40.0 9 37.03175 37.0 37.0 40.0 33.0 40.0 10-11 37.037875 37.0 37.0 40.0 33.0 40.0 12-13 36.8335 37.0 37.0 40.0 33.0 40.0 14-15 36.7775 37.0 37.0 40.0 33.0 40.0 16-17 36.58725 37.0 37.0 40.0 33.0 40.0 18-19 36.302875 37.0 37.0 40.0 33.0 40.0 20-21 36.208875000000006 37.0 37.0 40.0 33.0 40.0 22-23 35.921 37.0 33.0 40.0 33.0 40.0 24-25 36.12225 37.0 35.0 40.0 33.0 40.0 26-27 36.29025 37.0 37.0 40.0 33.0 40.0 28-29 36.173375 37.0 35.0 40.0 33.0 40.0 30-31 36.216375 37.0 37.0 40.0 33.0 40.0 32-33 36.1055 37.0 35.0 40.0 33.0 40.0 34-35 36.087 37.0 33.0 40.0 33.0 40.0 36-37 36.013 37.0 33.0 40.0 33.0 40.0 38-39 35.831625 37.0 33.0 40.0 33.0 40.0 40-41 35.63675 37.0 33.0 40.0 33.0 40.0 42-43 35.6155 37.0 33.0 38.5 33.0 40.0 44-45 35.315 37.0 33.0 37.0 33.0 40.0 46-47 35.257 37.0 33.0 37.0 30.0 40.0 48-49 35.32475 37.0 33.0 37.0 30.0 40.0 50-51 35.1475 37.0 33.0 37.0 33.0 40.0 52-53 34.958 37.0 33.0 37.0 33.0 40.0 54-55 34.938375 37.0 33.0 37.0 33.0 37.0 56-57 34.6275 37.0 33.0 37.0 27.0 37.0 58-59 34.0265 37.0 33.0 37.0 27.0 37.0 60-61 34.47375 37.0 33.0 37.0 27.0 37.0 62-63 34.28375 37.0 33.0 37.0 27.0 37.0 64-65 34.119 37.0 33.0 37.0 27.0 37.0 66-67 33.940250000000006 37.0 33.0 37.0 27.0 37.0 68-69 33.107375000000005 35.0 33.0 37.0 27.0 37.0 70-71 33.30239114114114 33.0 33.0 37.0 27.0 37.0 72-73 33.598363020721564 37.0 33.0 37.0 27.0 37.0 74-75 33.53071881204275 37.0 33.0 37.0 27.0 37.0 76-77 33.77521823114063 37.0 33.0 37.0 27.0 37.0 78-79 33.837017774077324 37.0 33.0 37.0 27.0 37.0 80-81 33.76636599580067 37.0 33.0 37.0 27.0 37.0 82-83 33.53385614668228 37.0 33.0 37.0 27.0 37.0 84-85 33.35053646846118 35.0 33.0 37.0 27.0 37.0 86-87 33.29645227156713 33.0 33.0 37.0 27.0 37.0 88-89 33.51071975497703 37.0 33.0 37.0 27.0 37.0 90-91 33.03637059724349 33.0 33.0 37.0 27.0 37.0 92-93 33.16411434405309 33.0 33.0 37.0 27.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 13.0 21 11.0 22 22.0 23 20.0 24 27.0 25 37.0 26 45.0 27 54.0 28 64.0 29 90.0 30 111.0 31 126.0 32 174.0 33 213.0 34 283.0 35 537.0 36 947.0 37 866.0 38 356.0 39 4.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 88.075 2.25 3.05 6.625 2 72.675 16.3 6.75 4.275 3 37.35 39.2 11.899999999999999 11.55 4 30.175 33.45 18.475 17.9 5 29.549999999999997 25.900000000000002 27.675 16.875 6 17.599999999999998 42.125 22.825 17.45 7 41.025 28.749999999999996 16.125 14.099999999999998 8 26.25 30.725 21.475 21.55 9 23.25 34.4 26.25 16.1 10-11 23.4875 29.375 30.049999999999997 17.0875 12-13 23.7375 29.7125 24.587500000000002 21.9625 14-15 19.9625 37.275000000000006 24.975 17.7875 16-17 25.5375 30.7625 21.349999999999998 22.35 18-19 25.2625 25.9625 29.6375 19.1375 20-21 26.32237088908341 24.171564336626236 30.298862073277476 19.20720270101288 22-23 30.15 21.8125 28.6875 19.35 24-25 25.15 23.7875 28.3125 22.75 26-27 27.037499999999998 22.650000000000002 30.125 20.1875 28-29 24.8 30.4875 27.625 17.0875 30-31 31.474999999999998 25.0375 25.45 18.0375 32-33 26.8375 24.712500000000002 25.825 22.625 34-35 22.4875 34.0125 23.05 20.45 36-37 27.85 24.9125 23.9125 23.325000000000003 38-39 33.07076769192298 23.20580145036259 26.806701675418854 16.916729182295573 40-41 26.787499999999998 23.2125 29.3375 20.6625 42-43 27.59268537074148 30.222945891783564 24.336172344689377 17.84819639278557 44-45 24.568642160540136 25.23130782695674 31.38284571142786 18.817204301075268 46-47 26.387500000000003 23.3 26.200000000000003 24.1125 48-49 26.525 23.3125 28.7 21.462500000000002 50-51 22.425 29.0875 26.987499999999997 21.5 52-53 23.562570462232244 25.967681322810975 23.600150319428785 26.869597895527995 54-55 23.0278784848106 24.978122265283158 30.97887235904488 21.015126890861357 56-57 28.749999999999996 27.787499999999998 25.424999999999997 18.0375 58-59 22.275 27.500000000000004 28.8625 21.3625 60-61 30.2125 23.625 27.6375 18.525 62-63 19.8875 26.775 32.7875 20.549999999999997 64-65 20.625 35.1875 26.687499999999996 17.5 66-67 24.762500000000003 30.625000000000004 26.187500000000004 18.425 68-69 20.415051881485187 25.21565195649456 28.403550443805475 25.965745718214777 70-71 22.336168084042022 30.977988994497245 24.174587293646823 22.511255627813906 72-73 27.918336673346694 23.008517034068134 28.907815631262523 20.165330661322646 74-75 26.094592899259816 28.71659766654121 28.239869527035506 16.948939907163467 76-77 22.452569418268627 22.741550446035934 26.146500816685514 28.659379319009926 78-79 25.94833018273472 27.107750472589792 28.267170762444866 18.676748582230623 80-81 21.984829329962075 35.549936788874845 26.561314791403284 15.903919089759796 82-83 23.542857142857144 26.095238095238095 26.298412698412697 24.063492063492063 84-85 22.237797884541862 24.82477379890404 32.432776857397734 20.504651459156364 86-87 20.303726391015825 29.185809086268506 28.407350689127103 22.103113833588566 88-89 18.24910668708525 28.560490045941805 31.763654925982642 21.4267483409903 90-91 28.21592649310873 27.628892291985707 26.67177131189382 17.48340990301174 92-93 20.1888718734048 29.60694231750893 29.096477794793262 21.107708014293006 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 0.0 1 0.0 2 0.0 3 0.0 4 0.0 5 0.0 6 0.0 7 0.0 8 0.0 9 0.0 10 0.0 11 0.0 12 0.0 13 0.0 14 0.0 15 0.0 16 0.0 17 5.5 18 5.5 19 0.0 20 4.5 21 5.0 22 6.0 23 8.0 24 4.5 25 6.0 26 8.0 27 9.0 28 13.0 29 15.0 30 29.0 31 41.5 32 44.5 33 59.5 34 63.5 35 68.5 36 88.5 37 131.5 38 203.0 39 199.0 40 176.5 41 173.0 42 186.0 43 222.5 44 192.0 45 178.5 46 191.5 47 169.0 48 142.0 49 130.5 50 139.5 51 163.0 52 163.0 53 153.5 54 255.5 55 230.0 56 78.0 57 50.0 58 50.0 59 42.5 60 32.0 61 29.0 62 24.5 63 18.0 64 14.5 65 13.5 66 12.0 67 13.5 68 13.0 69 11.0 70 13.0 71 14.0 72 8.0 73 3.0 74 3.0 75 2.0 76 1.5 77 0.5 78 0.0 79 0.5 80 0.5 81 0.0 82 0.0 83 0.0 84 0.0 85 0.0 86 0.0 87 0.0 88 0.0 89 0.0 90 0.0 91 0.0 92 0.0 93 0.0 94 0.0 95 0.0 96 0.0 97 0.0 98 0.0 99 0.0 100 0.0 >>END_MODULE >>Per base N content pass #Base N-Count 1 0.0 2 0.0 3 0.0 4 0.0 5 0.0 6 0.0 7 0.0 8 0.0 9 0.0 10-11 0.0 12-13 0.0 14-15 0.0 16-17 0.0 18-19 0.0 20-21 0.0375 22-23 0.0 24-25 0.0 26-27 0.0 28-29 0.0 30-31 0.0 32-33 0.0 34-35 0.0 36-37 0.0 38-39 0.025 40-41 0.0 42-43 0.2 44-45 0.025 46-47 0.0 48-49 0.0 50-51 0.0 52-53 0.21250000000000002 54-55 0.0125 56-57 0.0 58-59 0.0 60-61 0.0 62-63 0.0 64-65 0.0 66-67 0.0 68-69 0.0125 70-71 0.0 72-73 0.0 74-75 0.0 76-77 0.0 78-79 0.0 80-81 0.0 82-83 0.0 84-85 0.0 86-87 0.0 88-89 0.0 90-91 0.0 92-93 0.0 >>END_MODULE >>Sequence Length Distribution warn #Length Count 70 4.0 71 2.0 72 4.0 73 3.0 74 3.0 75 4.0 76 1.0 77 5.0 78 13.0 79 4.0 80 4.0 81 10.0 82 11.0 83 3.0 84 11.0 85 0.0 86 0.0 87 0.0 88 0.0 89 0.0 90 0.0 91 0.0 92 0.0 93 3918.0 >>END_MODULE >>Sequence Duplication Levels warn #Total Deduplicated Percentage 65.8 #Duplication Level Percentage of deduplicated Percentage of total 1 91.33738601823708 60.099999999999994 2 4.4832826747720365 5.8999999999999995 3 1.1398176291793314 2.25 4 0.6838905775075987 1.7999999999999998 5 0.26595744680851063 0.8750000000000001 6 0.303951367781155 1.2 7 0.4179331306990881 1.925 8 0.22796352583586624 1.2 9 0.0 0.0 >10 1.0258358662613982 12.8 >50 0.037993920972644375 1.35 >100 0.07598784194528875 10.6 >500 0.0 0.0 >1k 0.0 0.0 >5k 0.0 0.0 >10k+ 0.0 0.0 >>END_MODULE >>Overrepresented sequences fail #Sequence Count Percentage Possible Source GGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGC 304 7.6 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 120 3.0 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 54 1.35 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 49 1.225 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 40 1.0 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 38 0.95 No Hit GGAAAAGAAAGCAAAAGCGATTCCCGTAGTAGCGGCGAGCGAAATGGGAG 31 0.775 No Hit GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 29 0.7250000000000001 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 26 0.65 No Hit CAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTC 25 0.625 No Hit GGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTT 22 0.5499999999999999 No Hit GGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAA 20 0.5 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 19 0.475 No Hit GTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAA 16 0.4 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 16 0.4 No Hit GGGGTTGTGGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTG 16 0.4 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 14 0.35000000000000003 No Hit CAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGATAT 14 0.35000000000000003 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 14 0.35000000000000003 No Hit GGAAGAGCCCGAGCTGCTGCAGCAGGTTTTGAAAAGGGAATCGATCGTGA 14 0.35000000000000003 No Hit GGGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACG 12 0.3 No Hit CAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCT 12 0.3 No Hit GTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCT 12 0.3 No Hit GGCCTGTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCG 11 0.27499999999999997 No Hit GGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGCA 11 0.27499999999999997 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 11 0.27499999999999997 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 10 0.25 No Hit GTATTTAGCCTTGCAAGGTGGTCCTTGCTGATTCACACGGGATTCCACGT 10 0.25 No Hit GGAGCAGCCTAAACCGTGAAAACGGGGTTGTGGGAGAGCAATACAAGCGT 10 0.25 No Hit GGAGTATCCTTGATATATAAATATATAGATAAATAGATTTAAATGGAAAA 10 0.25 No Hit GGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCTAAATGGATTC 8 0.2 No Hit GGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACGA 8 0.2 No Hit GGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAAATACTCCT 8 0.2 No Hit GATACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGC 8 0.2 No Hit GAGGAAAAGAAAGCAAAAGCGATTCCCGTAGTAGCGGCGAGCGAAATGGG 8 0.2 No Hit GGGTTGTGGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGA 8 0.2 No Hit GGGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTT 7 0.17500000000000002 No Hit GGAGTGGGGGTGCCATACGCAAAAAGGAAGCGACTCATAGAATGGCAGAG 7 0.17500000000000002 No Hit GGGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCG 7 0.17500000000000002 No Hit GGAAAGGCTTGCGGTGGATACCTAGGCACCCAGAGACGAGGAAGGGCGTA 7 0.17500000000000002 No Hit GGATTTGAAGAAAAAAAAGACTTCGATTCATTTTCTATTTATTTCGTTAG 7 0.17500000000000002 No Hit GGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACT 7 0.17500000000000002 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 7 0.17500000000000002 No Hit GGGGAAGTACACCAGCGACGGCGAGGCCGCCGCCGCCAAGGAAGGCATGT 7 0.17500000000000002 No Hit GGGGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCT 7 0.17500000000000002 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 7 0.17500000000000002 No Hit GTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAG 7 0.17500000000000002 No Hit GCAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATC 6 0.15 No Hit GAAAAAAAAGACTTCGATTCATTTTCTATTTATTTCGTTAGTTTTTCTTA 6 0.15 No Hit GGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTG 6 0.15 No Hit GGGTTGTTTGGGAATGCAGCCCAAATCGGGCGGTAGACTCCGTCCAAGGC 6 0.15 No Hit GCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCT 6 0.15 No Hit GGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAA 6 0.15 No Hit GGTTTTGAAAAGGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAA 6 0.15 No Hit CAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTG 6 0.15 No Hit GGGCACGTGGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAA 5 0.125 No Hit GGAGGGTGAGAGCCCCGTCCGGCCCGGACCCTGTCGCCCCACGAGGCGCC 5 0.125 No Hit GGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCG 5 0.125 No Hit GGATACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATG 5 0.125 No Hit GGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTTG 5 0.125 No Hit CAGGAAGAGCCCGAGCTGCTGCAGCAGGTTTTGAAAAGGGAATCGATCGT 5 0.125 No Hit GGGCACTGTAGCCAGTGTGTCAGTCGTTGTTAAATTACAGGTTGAGATCA 5 0.125 No Hit >>END_MODULE >>Adapter Content pass #Position Illumina Universal Adapter Illumina Small RNA 3' Adapter Illumina Small RNA 5' Adapter Nextera Transposase Sequence SOLID Small RNA Adapter 1 0.0 0.0 0.0 0.0 0.0 2 0.0 0.0 0.0 0.0 0.0 3 0.0 0.0 0.0 0.0 0.0 4 0.0 0.0 0.0 0.0 0.0 5 0.0 0.0 0.0 0.0 0.0 6 0.0 0.0 0.0 0.0 0.0 7 0.0 0.0 0.0 0.0 0.0 8 0.0 0.0 0.0 0.0 0.0 9 0.025 0.0 0.0 0.0 0.0 10-11 0.025 0.0 0.0 0.0 0.0 12-13 0.025 0.0 0.0 0.0 0.0 14-15 0.05 0.0 0.0 0.0 0.0 16-17 0.05 0.0 0.0 0.0 0.0 18-19 0.05 0.0 0.0 0.0 0.0 20-21 0.05 0.0 0.0 0.0 0.0 22-23 0.05 0.0 0.0 0.0 0.0 24-25 0.0625 0.0 0.0 0.0 0.0 26-27 0.075 0.0 0.0 0.0 0.0 28-29 0.075 0.0 0.0 0.0 0.0 30-31 0.075 0.0 0.0 0.0 0.0 32-33 0.075 0.0 0.0 0.0 0.0 34-35 0.075 0.0 0.0 0.0 0.0 36-37 0.1 0.0 0.0 0.0 0.0 38-39 0.125 0.0 0.0 0.0 0.0 40-41 0.1375 0.0 0.0 0.0 0.0 42-43 0.15 0.0 0.0 0.0 0.0 44-45 0.175 0.0 0.0 0.0 0.0 46-47 0.225 0.0 0.0 0.0 0.0 48-49 0.225 0.0 0.0 0.0 0.0 50-51 0.225 0.0 0.0 0.0 0.0 52-53 0.225 0.0 0.0 0.0 0.0 54-55 0.225 0.0 0.0 0.0 0.0 56-57 0.225 0.0 0.0 0.0 0.0 58-59 0.225 0.0 0.0 0.0 0.0 60-61 0.225 0.0 0.0 0.0 0.0 62-63 0.225 0.0 0.0 0.0 0.0 64-65 0.225 0.0 0.0 0.0 0.0 66-67 0.225 0.0 0.0 0.0 0.0 68-69 0.225 0.0 0.0 0.0 0.0 70-71 0.225 0.0 0.0 0.0 0.0 72-73 0.225 0.0 0.0 0.0 0.0 74-75 0.225 0.0 0.0 0.0 0.0 76-77 0.225 0.0 0.0 0.0 0.0 78-79 0.225 0.0 0.0 0.0 0.0 80-81 0.225 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position CACCCAG 25 7.205523E-5 69.6 9 GCACCCA 25 7.205523E-5 69.6 8 TACCTAG 25 7.205523E-5 69.6 1 ACCTAGG 25 7.205523E-5 69.6 2 CCTAGGC 25 7.205523E-5 69.6 3 TAGGCAC 25 7.205523E-5 69.6 5 GGCACCC 30 1.7769479E-4 58.0 7 CTAGGCA 30 1.7769479E-4 58.0 4 AGGCACC 30 1.7769479E-4 58.0 6 GGAGATT 20 7.824886E-4 43.5 78-79 CCGGAGA 20 7.824886E-4 43.5 76-77 CGGAGAT 20 7.824886E-4 43.5 76-77 ATAAGCA 20 7.824886E-4 43.5 64-65 TAAGCAT 20 7.824886E-4 43.5 64-65 TCCGGAG 20 7.824886E-4 43.5 74-75 GATCCGG 20 7.824886E-4 43.5 72-73 ATAGATC 20 7.824886E-4 43.5 70-71 CATAGAT 20 7.824886E-4 43.5 68-69 AGCATAG 20 7.824886E-4 43.5 66-67 ATCCGGA 20 7.824886E-4 43.5 74-75 >>END_MODULE Rejected 180228 READS because READLEN < 1 Read 180228 spots for ERR6133457.sra Written 180228 spots for ERR6133457.sra Rejected 180228 READS because READLEN < 1 Read 180228 spots for ERR6133457.sra Written 180228 spots for ERR6133457.sra Rejected 180228 READS because READLEN < 1 Read 180228 spots for ERR6133457.sra Written 180228 spots for ERR6133457.sra Rejected 180228 READS because READLEN < 1 Read 180228 spots for ERR6133457.sra Written 180228 spots for ERR6133457.sra Rejected 180228 READS because READLEN < 1 Read 180228 spots for ERR6133457.sra Written 180228 spots for ERR6133457.sra Rejected 180228 READS because READLEN < 1 Read 180228 spots for ERR6133457.sra Written 180228 spots for ERR6133457.sra Rejected 180228 READS because READLEN < 1 Read 180228 spots for ERR6133457.sra Written 180228 spots for ERR6133457.sra Rejected 180228 READS because READLEN < 1 Read 180228 spots for ERR6133457.sra Written 180228 spots for ERR6133457.sra Rejected 180228 READS because READLEN < 1 Read 180228 spots for ERR6133457.sra Written 180228 spots for ERR6133457.sra Rejected 180228 READS because READLEN < 1 Read 180228 spots for ERR6133457.sra Written 180228 spots for ERR6133457.sra Rejected 180228 READS because READLEN < 1 Read 180228 spots for ERR6133457.sra Written 180228 spots for ERR6133457.sra Rejected 180228 READS because READLEN < 1 Read 180228 spots for ERR6133457.sra Written 180228 spots for ERR6133457.sra Rejected 180230 READS because READLEN < 1 Read 180230 spots for ERR6133457.sra Written 180230 spots for ERR6133457.sra Rejected 180228 READS because READLEN < 1 Read 180228 spots for ERR6133457.sra Written 180228 spots for ERR6133457.sra Rejected 180228 READS because READLEN < 1 Read 180228 spots for ERR6133457.sra Written 180228 spots for ERR6133457.sra Rejected 180228 READS because READLEN < 1 Read 180228 spots for ERR6133457.sra Written 180228 spots for ERR6133457.sra Rejected 180228 READS because READLEN < 1 Read 180228 spots for ERR6133457.sra Written 180228 spots for ERR6133457.sra Rejected 180228 READS because READLEN < 1 Read 180228 spots for ERR6133457.sra Written 180228 spots for ERR6133457.sra Rejected 180228 READS because READLEN < 1 Read 180228 spots for ERR6133457.sra Written 180228 spots for ERR6133457.sra Rejected 180228 READS because READLEN < 1 Read 180228 spots for ERR6133457.sra Written 180228 spots for ERR6133457.sra SRR ids: ['ERR6133457.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_iu4rinsd ERR6133457.sra spots: 3604562 blocks: [[1, 180228], [180229, 360456], [360457, 540684], [540685, 720912], [720913, 901140], [901141, 1081368], [1081369, 1261596], [1261597, 1441824], [1441825, 1622052], [1622053, 1802280], [1802281, 1982508], [1982509, 2162736], [2162737, 2342964], [2342965, 2523192], [2523193, 2703420], [2703421, 2883648], [2883649, 3063876], [3063877, 3244104], [3244105, 3424332], [3424333, 3604562]] ERR6133457 file size 797545 ERR6133457 completed basic pipeline successfully skewer v0.2.2 [April 4, 2016] COMMAND LINE: skewer -f sanger -l 18 -q 10 -k inf -t 20 -o ERR6133457 ERR6133457_1.fastq Input file: ERR6133457_1.fastq trimmed: ERR6133457-trimmed.fastq Parameters used: -- 3' end adapter sequence (-x): AGATCGGAAGAGCACACGTCTGAACTCCAGTCAC -- maximum error ratio allowed (-r): 0.100 -- maximum indel error ratio allowed (-d): 0.030 -- end quality threshold (-q): 10 -- minimum read length allowed after trimming (-l): 18 -- file format (-f): Sanger/Illumina 1.8+ FASTQ -- minimum overlap length for adapter detection (-k): inf -- number of concurrent threads (-t): 20 Sat Dec 7 06:24:56 2024 >> started Sat Dec 7 06:24:58 2024 >> done (1.963s) 3604562 reads processed; of these: 1032 ( 0.03%) short reads filtered out after trimming by size control 24 ( 0.00%) empty reads filtered out after trimming by size control 3603506 (99.97%) reads available; of these: 58070 ( 1.61%) trimmed reads available after processing 3545436 (98.39%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 69 0.00% 19 95 0.00% 20 112 0.00% 21 54 0.00% 22 54 0.00% 23 29 0.00% 24 60 0.00% 25 40 0.00% 26 25 0.00% 27 210 0.01% 28 256 0.01% 29 65 0.00% 30 161 0.00% 31 48 0.00% 32 55 0.00% 33 51 0.00% 34 43 0.00% 35 101 0.00% 36 655 0.02% 37 37 0.00% 38 44 0.00% 39 98 0.00% 40 126 0.00% 41 62 0.00% 42 222 0.01% 43 2674 0.07% 44 228 0.01% 45 1960 0.05% 46 244 0.01% 47 55 0.00% 48 88 0.00% 49 20 0.00% 50 19 0.00% 51 31 0.00% 52 5 0.00% 53 11 0.00% 54 10 0.00% 55 19 0.00% 56 19 0.00% 57 11 0.00% 58 16 0.00% 59 8 0.00% 60 17 0.00% 61 14 0.00% 62 0 0.00% 63 4 0.00% 64 2 0.00% 65 5 0.00% 66 3 0.00% 67 9 0.00% 68 17 0.00% 69 75 0.00% 70 6673 0.19% 71 5593 0.16% 72 5788 0.16% 73 5334 0.15% 74 5542 0.15% 75 5325 0.15% 76 4745 0.13% 77 5087 0.14% 78 5837 0.16% 79 6419 0.18% 80 6295 0.17% 81 7934 0.22% 82 8763 0.24% 83 7331 0.20% 84 6978 0.19% 85 109 0.00% 86 246 0.01% 87 326 0.01% 88 716 0.02% 89 1318 0.04% 90 2754 0.08% 91 8948 0.25% 92 34086 0.95% 93 3453023 95.82% 3603506 reads passed initial QC criterion=sequence-density sequence-density=0.30 sequence-density-rank=1 fanout-score=5.17 fanout-score-rank=17 prefix-density=0.81 prefix-fanout=1.9 sequence=AGGCTAAATACAGGCGAGAGACCGATAGCG criterion=fanout-score sequence-density=0.01 sequence-density-rank=32 fanout-score=87.54 fanout-score-rank=1 prefix-density=0.10 prefix-fanout=6.2 sequence=AAAAGAAGGGGTGTTCCATCTCCGGACGACGATCCTGCCTGCGGAGGAAGACATGCCGGCGATCATGTCGAGCTTCAAGAAGTTCAACGACTCATTCATGGAGCAATACCAAGACTACTCCAGGCTGTGATGTGAAGAGGGAAACAACGACGTCATCATCGACATGATATATTGCTGCTATTTTCCACCAGCGATTAAAAGTTAAAAAATTTAGCTGTAAGCTGTAACTATCTTGAAGAAACTAAACTGGTTGCTGTGCTTGATATGTATAGGGAAAACATAATTTATGAGACAATCATACTGTGCAACTCTTGGCTCCATCGATTAATTAATACTCCTTGTTATTGCTTGC Started job on | Dec 07 06:25:10 Started mapping on | Dec 07 06:25:10 Finished on | Dec 07 06:25:16 Mapping speed, Million of reads per hour | 2162.10 Number of input reads | 3603506 Average input read length | 92 UNIQUE READS: Uniquely mapped reads number | 1865347 Uniquely mapped reads % | 51.76% Average mapped length | 92.09 Number of splices: Total | 86729 Number of splices: Annotated (sjdb) | 70559 Number of splices: GT/AG | 82962 Number of splices: GC/AG | 2088 Number of splices: AT/AC | 125 Number of splices: Non-canonical | 1554 Mismatch rate per base, % | 0.45% Deletion rate per base | 0.04% Deletion average length | 1.86 Insertion rate per base | 0.02% Insertion average length | 1.96 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 1633920 % of reads mapped to multiple loci | 45.34% Number of reads mapped to too many loci | 44069 % of reads mapped to too many loci | 1.22% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.58% % of reads unmapped: other | 0.09% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 104239 104239 104239 N_multimapping 1633920 1633920 1633920 N_noFeature 180235 199044 1785136 N_ambiguous 72614 11197 360 UnstrandedReadsAssigned:1612498 PositiveStrandReadsAssigned:1655106 NegativeStrandReadsAssigned:79851 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133457 Starting Kallisto single end mapping to ensembl reference transcriptome. kmer=31 [quant] fragment length distribution is truncated gaussian with mean = 100, sd = 20 [index] k-mer length: 31 [index] number of targets: 52,972 [index] number of k-mers: 66,720,672 [index] number of equivalence classes: 111,837 [quant] running in single-end mode [quant] will process file 1: ERR6133457-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 3,603,506 reads, 2,560,904 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 962 rounds 52973 ERR6133457.ke.tsv 35125 ERR6133457.se.tsv 88098 total ==> ERR6133457.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 837 0 0 PNS24247 1044 945 0 0 PNS24249 1928 1829 0 0 PNS24246 1044 945 0 0 PNS24248 1044 945 0 0 PNS24244 1471 1372 53 19.6245 PNS24243 293 194 0 0 KQK14069 1603 1504 59 19.9288 KQK14071 474 375 0 0 ==> ERR6133457.se.tsv <== BRADI_1g14170v3 59 BRADI_1g53295v3 8 BRADI_1g59795v3 17 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 29 BRADI_1g74790v3 24 BRADI_1g09890v3 0 BRADI_1g77505v3 68 BRADI_1g48960v3 0 ERR6133457 completed mapping pipeline successfully