Starting /dee2/code/volunteer_pipeline.sh ERR6133361 current disk space = 1548202795008 free memory = 1404540416 ERR6133361 SRAfilesize 58ef0f57aefd8bc51e5d0755bb6f0f1c ERR6133361.sra ERR6133361.sra file validated ERR6133361 is single end ERR6133361 is conventional basespace ERR6133361 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133361_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 44 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 36.48075 37.0 37.0 37.0 37.0 37.0 2 36.76025 37.0 37.0 37.0 37.0 37.0 3 36.66625 37.0 37.0 37.0 37.0 37.0 4 36.3205 37.0 37.0 37.0 37.0 37.0 5 36.3615 37.0 37.0 37.0 37.0 37.0 6 36.557 37.0 37.0 37.0 37.0 37.0 7 38.6945 40.0 37.0 40.0 37.0 40.0 8 38.72025 40.0 37.0 40.0 37.0 40.0 9 38.748 40.0 37.0 40.0 37.0 40.0 10-11 38.764625 40.0 37.0 40.0 37.0 40.0 12-13 38.7525 40.0 37.0 40.0 37.0 40.0 14-15 38.765625 40.0 37.0 40.0 37.0 40.0 16-17 38.751125 40.0 37.0 40.0 37.0 40.0 18-19 38.684124999999995 40.0 37.0 40.0 37.0 40.0 20-21 38.649249999999995 40.0 37.0 40.0 37.0 40.0 22-23 38.570875 40.0 37.0 40.0 37.0 40.0 24-25 38.473 40.0 37.0 40.0 37.0 40.0 26-27 38.46625 40.0 37.0 40.0 37.0 40.0 28-29 38.51475 40.0 37.0 40.0 37.0 40.0 30-31 38.446625 40.0 37.0 40.0 37.0 40.0 32-33 38.392250000000004 40.0 37.0 40.0 37.0 40.0 34-35 38.314750000000004 40.0 37.0 40.0 37.0 40.0 36-37 38.193124999999995 40.0 37.0 40.0 37.0 40.0 38-39 38.141625000000005 40.0 37.0 40.0 37.0 40.0 40-41 38.026250000000005 38.5 37.0 40.0 37.0 40.0 42-43 37.905625 37.0 37.0 40.0 37.0 40.0 44-45 37.763000000000005 37.0 37.0 40.0 37.0 40.0 46-47 37.64775 37.0 37.0 40.0 37.0 40.0 48-49 37.489375 37.0 37.0 40.0 37.0 40.0 50-51 37.318875 37.0 37.0 40.0 37.0 40.0 52-53 37.192625 37.0 37.0 38.5 37.0 40.0 54-55 36.991875 37.0 37.0 37.0 33.0 40.0 56-57 36.833749999999995 37.0 37.0 37.0 33.0 40.0 58-59 36.647 37.0 37.0 37.0 33.0 40.0 60-61 36.517250000000004 37.0 37.0 37.0 33.0 38.5 62-63 36.344375 37.0 37.0 37.0 33.0 37.0 64-65 36.256125 37.0 37.0 37.0 33.0 37.0 66-67 36.16675 37.0 37.0 37.0 33.0 37.0 68-69 35.281125 35.0 35.0 37.0 33.0 37.0 70-71 35.49213941945212 37.0 35.0 37.0 33.0 37.0 72-73 35.954518975412796 37.0 37.0 37.0 33.0 37.0 74-75 35.81182529027065 37.0 37.0 37.0 33.0 37.0 76-77 35.887209142822 37.0 37.0 37.0 33.0 37.0 78-79 35.903434078363944 37.0 37.0 37.0 33.0 37.0 80-81 35.814857912934514 37.0 37.0 37.0 33.0 37.0 82-83 35.77203061162309 37.0 37.0 37.0 33.0 37.0 84-85 35.72229894368687 37.0 37.0 37.0 33.0 37.0 86-87 35.658445040214474 37.0 37.0 37.0 33.0 37.0 88-89 35.76796246648794 37.0 37.0 37.0 33.0 37.0 90-91 35.65563002680965 37.0 37.0 37.0 33.0 37.0 92-93 35.47506702412869 37.0 35.0 37.0 33.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 21 1.0 22 2.0 23 3.0 24 5.0 25 9.0 26 8.0 27 9.0 28 14.0 29 15.0 30 18.0 31 31.0 32 35.0 33 55.0 34 85.0 35 181.0 36 845.0 37 1117.0 38 1515.0 39 52.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 72.32499999999999 6.925000000000001 6.375 14.374999999999998 2 54.7 24.4 13.05 7.85 3 33.275 37.175000000000004 17.175 12.375 4 31.125000000000004 27.1 20.225 21.55 5 26.325 27.474999999999998 27.3 18.9 6 21.125 34.125 27.3 17.45 7 35.675000000000004 26.974999999999998 21.5 15.85 8 27.500000000000004 28.125 28.675 15.7 9 23.075000000000003 27.875 30.15 18.9 10-11 24.3125 28.8625 29.025000000000002 17.8 12-13 22.35 28.725 30.2625 18.6625 14-15 19.925 30.2625 31.2625 18.55 16-17 23.2125 31.525 24.099999999999998 21.1625 18-19 23.8125 25.3125 30.475 20.4 20-21 26.937499999999996 25.174999999999997 28.0875 19.8 22-23 28.0625 22.7625 28.000000000000004 21.175 24-25 24.825 27.0 27.237499999999997 20.9375 26-27 24.8125 25.4625 29.6875 20.0375 28-29 23.925 28.025 29.2 18.85 30-31 24.725 27.400000000000002 28.575 19.3 32-33 23.962500000000002 25.224999999999998 28.849999999999998 21.9625 34-35 22.7125 30.4875 27.075 19.725 36-37 24.325 28.1875 23.3875 24.099999999999998 38-39 26.1125 26.9625 26.687499999999996 20.2375 40-41 25.5125 24.4875 28.5875 21.4125 42-43 25.05 30.875000000000004 27.05 17.025000000000002 44-45 21.75 27.6375 30.625000000000004 19.9875 46-47 24.3625 25.6 27.6625 22.375 48-49 23.400000000000002 25.324999999999996 30.5 20.775 50-51 22.525000000000002 27.224999999999998 29.625 20.625 52-53 24.825 27.5125 28.4125 19.25 54-55 25.45 28.449999999999996 27.9125 18.1875 56-57 24.275 28.525 28.499999999999996 18.7 58-59 23.2875 28.025 28.8875 19.8 60-61 26.7625 28.65 26.05 18.5375 62-63 22.1875 27.987499999999997 30.625000000000004 19.2 64-65 22.225 32.087500000000006 27.55 18.1375 66-67 23.8375 28.675 27.762500000000003 19.725 68-69 20.4375 29.0875 28.237499999999997 22.237499999999997 70-71 24.802606842962778 27.547311693194636 26.77027196390525 20.879809499937334 72-73 24.478705926955644 28.269935549096424 28.876532288638952 18.374826235308987 74-75 24.605397148676172 28.43686354378819 29.276985743380855 17.680753564154784 76-77 23.58067409970524 27.591951813405103 27.04088171216199 21.78649237472767 78-79 23.93527508090615 26.51132686084142 29.24271844660194 20.310679611650485 80-81 22.08998168977243 32.1082919173424 26.183625425058853 19.618100967826315 82-83 20.510784702924443 31.573375678179172 27.33889109434961 20.57694852454678 84-85 21.542162234397967 25.805158358946944 30.509154082587198 22.143525324067888 86-87 20.924932975871315 27.774798927613944 28.083109919571047 23.217158176943702 88-89 20.52278820375335 27.466487935656836 29.892761394101875 22.117962466487935 90-91 23.619302949061662 29.343163538873995 26.40750670241287 20.630026809651476 92-93 20.361930294906166 32.238605898123325 28.29758713136729 19.101876675603215 >>END_MODULE >>Per sequence GC content warn #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 1.5 18 2.5 19 1.0 20 0.5 21 1.0 22 0.5 23 3.0 24 9.5 25 13.0 26 17.0 27 21.5 28 29.0 29 37.0 30 38.5 31 43.0 32 54.0 33 74.5 34 96.0 35 104.5 36 113.0 37 161.5 38 196.0 39 167.5 40 192.0 41 219.0 42 270.0 43 340.0 44 280.5 45 223.5 46 194.5 47 167.5 48 158.0 49 133.0 50 127.0 51 147.0 52 128.5 53 102.5 54 127.5 55 117.0 56 78.0 57 68.0 58 55.5 59 32.0 60 21.0 61 20.5 62 17.5 63 10.5 64 8.5 65 13.5 66 10.0 67 5.5 68 15.0 69 20.0 70 10.0 71 3.0 72 1.5 73 0.0 74 0.5 75 0.5 76 0.5 77 1.0 78 0.5 79 0.0 80 0.0 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 0.0 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 0.0 40-41 0.0 42-43 0.0 44-45 0.0 46-47 0.0 48-49 0.0 50-51 0.0 52-53 0.0 54-55 0.0 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 0.0 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 21.0 71 15.0 72 15.0 73 14.0 74 14.0 75 12.0 76 15.0 77 24.0 78 15.0 79 22.0 80 20.0 81 23.0 82 23.0 83 14.0 84 23.0 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 3730.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 71.325 #Duplication Level Percentage of deduplicated Percentage of total 1 90.57132842621802 64.60000000000001 2 4.486505432877673 6.4 3 1.6473887136347702 3.5249999999999995 4 0.77111812127585 2.1999999999999997 5 0.49071153172099546 1.7500000000000002 6 0.5257623554153523 2.25 7 0.28040658955485454 1.4000000000000001 8 0.10515247108307045 0.6 9 0.1752541184717841 1.125 >10 0.8412197686645636 10.35 >50 0.10515247108307045 5.800000000000001 >100 0.0 0.0 >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 GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 98 2.45 No Hit GGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGC 70 1.7500000000000002 No Hit CAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCT 64 1.6 No Hit GGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAA 45 1.125 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 34 0.8500000000000001 No Hit GGAAAAGAAAGCAAAAGCGATTCCCGTAGTAGCGGCGAGCGAAATGGGAG 27 0.675 No Hit GGGCACGTGGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAA 21 0.525 No Hit GGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTT 21 0.525 No Hit GGGTTGTTTGGGAATGCAGCCCAAATCGGGCGGTAGACTCCGTCCAAGGC 20 0.5 No Hit GAGGAAGGGCGTAGCAAGCGACGAAATGCTTCGGGGAGTTGAAAATAAGC 19 0.475 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 19 0.475 No Hit CAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGATAT 18 0.44999999999999996 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 18 0.44999999999999996 No Hit GTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGGT 17 0.42500000000000004 No Hit GGGTGAGAGCCCCGTCCGGCCCGGACCCTGTCGCCCCACGAGGCGCCGTC 17 0.42500000000000004 No Hit CAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTG 17 0.42500000000000004 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 13 0.325 No Hit GGGGCACGTGGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTA 13 0.325 No Hit GTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAA 12 0.3 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 12 0.3 No Hit GGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAAATACTCCT 11 0.27499999999999997 No Hit GGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTC 10 0.25 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 10 0.25 No Hit GGAGGGTGAGAGCCCCGTCCGGCCCGGACCCTGTCGCCCCACGAGGCGCC 10 0.25 No Hit GGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTG 10 0.25 No Hit GCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCT 10 0.25 No Hit TGGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGA 10 0.25 No Hit GCAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATC 9 0.22499999999999998 No Hit AGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCG 9 0.22499999999999998 No Hit GGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAA 9 0.22499999999999998 No Hit GGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTTG 9 0.22499999999999998 No Hit GGGGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCT 9 0.22499999999999998 No Hit GCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGGTATG 8 0.2 No Hit AGTCAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAA 8 0.2 No Hit GAACGTAATGCTCACAACTTCCCTCTAGATCTAGCTGCTCTTGAAGTTCC 8 0.2 No Hit GGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCTAAATGGATTC 7 0.17500000000000002 No Hit GATAGTCAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGC 7 0.17500000000000002 No Hit GGGGTTGTGGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTG 7 0.17500000000000002 No Hit GGACCCTGTCGCCCCACGAGGCGCCGTCAACGAGTCGGGTTGTTTGGGAA 7 0.17500000000000002 No Hit GGCTAAAGTCCAGTAGCCGAAAGCATCACTAGCTTACGCTCTGACCCGAG 7 0.17500000000000002 No Hit GGCCCGGACCCTGTCGCCCCACGAGGCGCCGTCAACGAGTCGGGTTGTTT 7 0.17500000000000002 No Hit GATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAG 7 0.17500000000000002 No Hit CAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTC 7 0.17500000000000002 No Hit GGGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTT 6 0.15 No Hit GGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAAC 6 0.15 No Hit CAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTT 6 0.15 No Hit GTACTATGGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTT 6 0.15 No Hit GGGCGTAGCAAGCGACGAAATGCTTCGGGGAGTTGAAAATAAGCATAGAT 6 0.15 No Hit GTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAA 6 0.15 No Hit GGAAGGGCGTAGCAAGCGACGAAATGCTTCGGGGAGTTGAAAATAAGCAT 6 0.15 No Hit GGATACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATG 6 0.15 No Hit GGGAAATTAACAGTTGGAAAGGGCGATCGGTCTTGATCCCTCTGTGTTTC 6 0.15 No Hit GGGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTT 6 0.15 No Hit GGGCCGGGTATCTCTCTGCATGTACGTATGCCTGTAATGTACGTAGCTAC 6 0.15 No Hit GAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTG 6 0.15 No Hit GGGTGGAATGGGAATTGCTATTCTTTCTACTTCTCGAGGGATAATGACAG 6 0.15 No Hit GTCAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAAT 6 0.15 No Hit GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 6 0.15 No Hit GGAGTTTGGCTGGGGCGGCACATCTGTTAAAAGATAACGCAGGTGTCCTA 5 0.125 No Hit CGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGGTAT 5 0.125 No Hit GGAAAGGCTTGCGGTGGATACCTAGGCACCCAGAGACGAGGAAGGGCGTA 5 0.125 No Hit TCAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATC 5 0.125 No Hit GTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGCA 5 0.125 No Hit GACGAGGAAGGGCGTAGCAAGCGACGAAATGCTTCGGGGAGTTGAAAATA 5 0.125 No Hit AACGTAATGCTCACAACTTCCCTCTAGATCTAGCTGCTCTTGAAGTTCCC 5 0.125 No Hit CGGGTTGTTTGGGAATGCAGCCCAAATCGGGCGGTAGACTCCGTCCAAGG 5 0.125 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 5 0.125 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 5 0.125 No Hit GGTTTTGAAAAGGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAA 5 0.125 No Hit GGTTGAGTGCCGCACCCTAGATGGCTAAAGTCCAGTAGCCGAAAGCATCA 5 0.125 No Hit AAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTT 5 0.125 No Hit TCAAAAGAGGAAAGGCTTGCGGTGGATACCTAGGCACCCAGAGACGAGGA 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 0.0 0.0 0.0 0.0 0.0 10-11 0.0 0.0 0.0 0.0 0.0 12-13 0.0 0.0 0.0 0.0 0.0 14-15 0.0 0.0 0.0 0.0 0.0 16-17 0.0 0.0 0.0 0.0 0.0 18-19 0.0 0.0 0.0 0.0 0.0 20-21 0.0 0.0 0.0 0.0 0.0 22-23 0.0 0.0 0.0 0.0 0.0 24-25 0.0 0.0 0.0 0.0 0.0 26-27 0.0 0.0 0.0 0.0 0.0 28-29 0.0 0.0 0.0 0.0 0.0 30-31 0.0 0.0 0.0 0.0 0.0 32-33 0.0 0.0 0.0 0.0 0.0 34-35 0.0 0.0 0.0 0.0 0.0 36-37 0.0 0.0 0.0 0.0 0.0 38-39 0.0 0.0 0.0 0.0 0.0 40-41 0.0 0.0 0.0 0.0 0.0 42-43 0.025 0.0 0.0 0.0 0.0 44-45 0.025 0.0 0.0 0.0 0.0 46-47 0.025 0.0 0.0 0.0 0.0 48-49 0.025 0.0 0.0 0.0 0.0 50-51 0.025 0.0 0.0 0.0 0.0 52-53 0.025 0.0 0.0 0.0 0.0 54-55 0.025 0.0 0.0 0.0 0.0 56-57 0.025 0.0 0.0 0.0 0.0 58-59 0.025 0.0 0.0 0.0 0.0 60-61 0.025 0.0 0.0 0.0 0.0 62-63 0.025 0.0 0.0 0.0 0.0 64-65 0.025 0.0 0.0 0.0 0.0 66-67 0.025 0.0 0.0 0.0 0.0 68-69 0.025 0.0 0.0 0.0 0.0 70-71 0.025 0.0 0.0 0.0 0.0 72-73 0.025 0.0 0.0 0.0 0.0 74-75 0.025 0.0 0.0 0.0 0.0 76-77 0.025 0.0 0.0 0.0 0.0 78-79 0.025 0.0 0.0 0.0 0.0 80-81 0.025 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Rejected 150760 READS because READLEN < 1 Read 150760 spots for ERR6133361.sra Written 150760 spots for ERR6133361.sra Rejected 150760 READS because READLEN < 1 Read 150760 spots for ERR6133361.sra Written 150760 spots for ERR6133361.sra Rejected 150760 READS because READLEN < 1 Read 150760 spots for ERR6133361.sra Written 150760 spots for ERR6133361.sra Rejected 150760 READS because READLEN < 1 Read 150760 spots for ERR6133361.sra Written 150760 spots for ERR6133361.sra Rejected 150760 READS because READLEN < 1 Read 150760 spots for ERR6133361.sra Written 150760 spots for ERR6133361.sra Rejected 150760 READS because READLEN < 1 Read 150760 spots for ERR6133361.sra Written 150760 spots for ERR6133361.sra Rejected 150760 READS because READLEN < 1 Read 150760 spots for ERR6133361.sra Written 150760 spots for ERR6133361.sra Rejected 150760 READS because READLEN < 1 Read 150760 spots for ERR6133361.sra Written 150760 spots for ERR6133361.sra Rejected 150760 READS because READLEN < 1 Read 150760 spots for ERR6133361.sra Written 150760 spots for ERR6133361.sra Rejected 150760 READS because READLEN < 1 Read 150760 spots for ERR6133361.sra Written 150760 spots for ERR6133361.sra Rejected 150760 READS because READLEN < 1 Read 150760 spots for ERR6133361.sra Written 150760 spots for ERR6133361.sra Rejected 150760 READS because READLEN < 1 Read 150760 spots for ERR6133361.sra Written 150760 spots for ERR6133361.sra Rejected 150760 READS because READLEN < 1 Read 150760 spots for ERR6133361.sra Written 150760 spots for ERR6133361.sra Rejected 150760 READS because READLEN < 1 Read 150760 spots for ERR6133361.sra Written 150760 spots for ERR6133361.sra Rejected 150760 READS because READLEN < 1 Read 150760 spots for ERR6133361.sra Written 150760 spots for ERR6133361.sra Rejected 150760 READS because READLEN < 1 Read 150760 spots for ERR6133361.sra Written 150760 spots for ERR6133361.sra Rejected 150776 READS because READLEN < 1 Read 150776 spots for ERR6133361.sra Written 150776 spots for ERR6133361.sra Rejected 150760 READS because READLEN < 1 Read 150760 spots for ERR6133361.sra Written 150760 spots for ERR6133361.sra Rejected 150760 READS because READLEN < 1 Read 150760 spots for ERR6133361.sra Written 150760 spots for ERR6133361.sra Rejected 150760 READS because READLEN < 1 Read 150760 spots for ERR6133361.sra Written 150760 spots for ERR6133361.sra SRR ids: ['ERR6133361.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_zr8u_e9_ ERR6133361.sra spots: 3015216 blocks: [[1, 150760], [150761, 301520], [301521, 452280], [452281, 603040], [603041, 753800], [753801, 904560], [904561, 1055320], [1055321, 1206080], [1206081, 1356840], [1356841, 1507600], [1507601, 1658360], [1658361, 1809120], [1809121, 1959880], [1959881, 2110640], [2110641, 2261400], [2261401, 2412160], [2412161, 2562920], [2562921, 2713680], [2713681, 2864440], [2864441, 3015216]] ERR6133361 file size 663348 ERR6133361 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 ERR6133361 ERR6133361_1.fastq Input file: ERR6133361_1.fastq trimmed: ERR6133361-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 01:27:01 2024 >> started Sat Dec 7 01:27:08 2024 >> done (7.084s) 3015216 reads processed; of these: 228 ( 0.01%) short reads filtered out after trimming by size control 6 ( 0.00%) empty reads filtered out after trimming by size control 3014982 (99.99%) reads available; of these: 15463 ( 0.51%) trimmed reads available after processing 2999519 (99.49%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 18 0.00% 19 51 0.00% 20 25 0.00% 21 10 0.00% 22 26 0.00% 23 15 0.00% 24 17 0.00% 25 9 0.00% 26 16 0.00% 27 16 0.00% 28 9 0.00% 29 16 0.00% 30 16 0.00% 31 16 0.00% 32 59 0.00% 33 20 0.00% 34 18 0.00% 35 45 0.00% 36 8 0.00% 37 13 0.00% 38 27 0.00% 39 79 0.00% 40 118 0.00% 41 29 0.00% 42 12 0.00% 43 19 0.00% 44 27 0.00% 45 16 0.00% 46 6 0.00% 47 5 0.00% 48 11 0.00% 49 16 0.00% 50 18 0.00% 51 107 0.00% 52 19 0.00% 53 10 0.00% 54 9 0.00% 55 4 0.00% 56 13 0.00% 57 23 0.00% 58 21 0.00% 59 9 0.00% 60 11 0.00% 61 17 0.00% 62 9 0.00% 63 5 0.00% 64 10 0.00% 65 14 0.00% 66 22 0.00% 67 25 0.00% 68 51 0.00% 69 95 0.00% 70 12435 0.41% 71 11244 0.37% 72 11828 0.39% 73 11288 0.37% 74 11089 0.37% 75 10743 0.36% 76 10587 0.35% 77 11374 0.38% 78 11860 0.39% 79 12621 0.42% 80 13229 0.44% 81 16677 0.55% 82 16915 0.56% 83 14477 0.48% 84 17259 0.57% 85 118 0.00% 86 160 0.01% 87 222 0.01% 88 358 0.01% 89 590 0.02% 90 1043 0.03% 91 2339 0.08% 92 7861 0.26% 93 2807385 93.11% 3014982 reads passed initial QC criterion=sequence-density sequence-density=3.34 sequence-density-rank=1 fanout-score=2.03 fanout-score-rank=27 prefix-density=3.38 prefix-fanout=2.0 sequence=CAAGGCTAAATAC criterion=fanout-score sequence-density=0.01 sequence-density-rank=26 fanout-score=25.43 fanout-score-rank=1 prefix-density=0.05 prefix-fanout=5.4 sequence=AGAAGAAAGTGCCGTTCATCAGTGACGACCTGGAGATCGAGTGCGAGGGCAAGGAGAAGTACAAGTGCGGATCCAACGTCTTCTGGAAATGGTGAAGATGATACGAATATGCCGGCCGGGTGCTGATATTGTGATGCGTGTGTATGTGGCATGCCAGCGTTTGTACCTAGAAGATGTGAAAAACTGCAGAAATGTTTTGGATGTTAACTTGTCGTCCGTCCGCCTTGTATTCTTATCATCAAGTGGAAATCCTATT Potential 3prime adapter identified. Now checking if in reference sequence Warning: gzbuffer added in zlib v1.2.3.5. Unable to change buffer size from default of 8192. 1 reads; of these: 1 (100.00%) were unpaired; of these: 0 (0.00%) aligned 0 times 0 (0.00%) aligned exactly 1 time 1 (100.00%) aligned >1 times 100.00% overall alignment rate Potential adapter found in reference sequence. Continuing without clipping. Started job on | Dec 07 01:27:29 Started mapping on | Dec 07 01:27:29 Finished on | Dec 07 01:27:52 Mapping speed, Million of reads per hour | 471.91 Number of input reads | 3014982 Average input read length | 91 UNIQUE READS: Uniquely mapped reads number | 1505444 Uniquely mapped reads % | 49.93% Average mapped length | 91.19 Number of splices: Total | 46177 Number of splices: Annotated (sjdb) | 36765 Number of splices: GT/AG | 42893 Number of splices: GC/AG | 839 Number of splices: AT/AC | 54 Number of splices: Non-canonical | 2391 Mismatch rate per base, % | 0.42% Deletion rate per base | 0.05% Deletion average length | 1.77 Insertion rate per base | 0.02% Insertion average length | 1.75 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 1297467 % of reads mapped to multiple loci | 43.03% Number of reads mapped to too many loci | 137530 % of reads mapped to too many loci | 4.56% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 2.28% % of reads unmapped: other | 0.20% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 212071 212071 212071 N_multimapping 1297467 1297467 1297467 N_noFeature 142924 158983 1440161 N_ambiguous 60147 10961 266 UnstrandedReadsAssigned:1302373 PositiveStrandReadsAssigned:1335500 NegativeStrandReadsAssigned:65017 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133361 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: ERR6133361-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 3,014,982 reads, 2,081,064 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 939 rounds 52973 ERR6133361.ke.tsv 35125 ERR6133361.se.tsv 88098 total ==> ERR6133361.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 31 14.4022 PNS24243 293 194 0 0 KQK14069 1603 1504 97 41.1098 KQK14071 474 375 0 0 ==> ERR6133361.se.tsv <== BRADI_1g14170v3 96 BRADI_1g53295v3 3 BRADI_1g59795v3 12 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 11 BRADI_1g74790v3 15 BRADI_1g09890v3 0 BRADI_1g77505v3 31 BRADI_1g48960v3 0 ERR6133361 completed mapping pipeline successfully