Starting /dee2/code/volunteer_pipeline.sh SRR1850670 current disk space = 1545878425600 free memory = 1598703380 SRR1850670 SRAfilesize a26212d386efb1ff304ef1a8a23a7598 SRR1850670.sra SRR1850670.sra file validated SRR1850670 is single end SRR1850670 is conventional basespace SRR1850670 read1 length is 50 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR1850670_1.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 50 %GC 44 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 32.76975 34.0 31.0 34.0 31.0 34.0 2 33.1035 34.0 33.0 34.0 31.0 34.0 3 33.07025 34.0 33.0 34.0 31.0 34.0 4 36.45725 37.0 37.0 37.0 35.0 37.0 5 36.41075 37.0 37.0 37.0 35.0 37.0 6 36.28675 37.0 37.0 37.0 35.0 37.0 7 36.35175 37.0 37.0 37.0 35.0 37.0 8 36.35775 37.0 37.0 37.0 35.0 37.0 9 38.16275 39.0 39.0 39.0 37.0 39.0 10 38.151 39.0 39.0 39.0 37.0 39.0 11 38.22925 39.0 39.0 39.0 37.0 39.0 12 38.09075 39.0 39.0 39.0 37.0 39.0 13 38.0005 39.0 38.0 39.0 35.0 39.0 14 39.657 41.0 40.0 41.0 37.0 41.0 15 39.55175 41.0 40.0 41.0 37.0 41.0 16 39.5955 41.0 40.0 41.0 37.0 41.0 17 39.606 41.0 40.0 41.0 37.0 41.0 18 39.58275 41.0 40.0 41.0 37.0 41.0 19 39.42875 41.0 40.0 41.0 36.0 41.0 20 39.39575 41.0 39.0 41.0 36.0 41.0 21 39.34475 41.0 39.0 41.0 36.0 41.0 22 39.3515 41.0 39.0 41.0 36.0 41.0 23 39.26275 41.0 39.0 41.0 36.0 41.0 24 39.1875 41.0 39.0 41.0 36.0 41.0 25 39.01075 41.0 39.0 41.0 36.0 41.0 26 38.926 41.0 39.0 41.0 35.0 41.0 27 38.83 41.0 39.0 41.0 35.0 41.0 28 38.70525 40.0 38.0 41.0 35.0 41.0 29 38.682 40.0 39.0 41.0 35.0 41.0 30 38.5385 40.0 39.0 41.0 35.0 41.0 31 38.38575 40.0 38.0 41.0 34.0 41.0 32 38.284 40.0 38.0 41.0 34.0 41.0 33 38.05875 40.0 38.0 41.0 33.0 41.0 34 38.03075 40.0 38.0 41.0 34.0 41.0 35 38.225 40.0 38.0 41.0 35.0 41.0 36 38.03525 40.0 38.0 41.0 33.0 41.0 37 38.13075 40.0 38.0 41.0 34.0 41.0 38 37.96425 40.0 38.0 41.0 34.0 41.0 39 37.73175 40.0 38.0 41.0 33.0 41.0 40 37.69525 40.0 38.0 41.0 33.0 41.0 41 37.7515 40.0 38.0 41.0 33.0 41.0 42 37.723 40.0 38.0 41.0 33.0 41.0 43 37.559 40.0 38.0 41.0 33.0 41.0 44 37.43575 40.0 38.0 41.0 33.0 41.0 45 37.10875 40.0 38.0 41.0 31.0 41.0 46 37.0435 40.0 38.0 41.0 32.0 41.0 47 36.953 40.0 38.0 41.0 32.0 41.0 48 36.643 40.0 38.0 41.0 31.0 41.0 49 36.61125 40.0 38.0 41.0 31.0 41.0 50 36.25725 40.0 37.0 41.0 30.0 41.0 >>END_MODULE >>Per tile sequence quality pass #Tile Base Mean 1101 1 0.0 1101 2 0.0 1101 3 0.0 1101 4 0.0 1101 5 0.0 1101 6 0.0 1101 7 0.0 1101 8 0.0 1101 9 0.0 1101 10 0.0 1101 11 0.0 1101 12 0.0 1101 13 0.0 1101 14 0.0 1101 15 0.0 1101 16 0.0 1101 17 0.0 1101 18 0.0 1101 19 0.0 1101 20 0.0 1101 21 0.0 1101 22 0.0 1101 23 0.0 1101 24 0.0 1101 25 0.0 1101 26 0.0 1101 27 0.0 1101 28 0.0 1101 29 0.0 1101 30 0.0 1101 31 0.0 1101 32 0.0 1101 33 0.0 1101 34 0.0 1101 35 0.0 1101 36 0.0 1101 37 0.0 1101 38 0.0 1101 39 0.0 1101 40 0.0 1101 41 0.0 1101 42 0.0 1101 43 0.0 1101 44 0.0 1101 45 0.0 1101 46 0.0 1101 47 0.0 1101 48 0.0 1101 49 0.0 1101 50 0.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 13 3.0 14 4.0 15 3.0 16 4.0 17 4.0 18 6.0 19 8.0 20 4.0 21 9.0 22 12.0 23 14.0 24 15.0 25 16.0 26 13.0 27 14.0 28 34.0 29 25.0 30 47.0 31 54.0 32 65.0 33 71.0 34 88.0 35 107.0 36 188.0 37 300.0 38 547.0 39 2345.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 38.95 12.125 13.65 35.275 2 27.425 10.0 29.599999999999998 32.975 3 37.75331498623968 13.93545158869152 17.86339754816112 30.447835876907682 4 33.800000000000004 22.325 15.325 28.549999999999997 5 32.625 28.175 20.825 18.375 6 23.7 33.300000000000004 17.825 25.174999999999997 7 11.725 37.875 33.900000000000006 16.5 8 19.925 28.4 29.275000000000002 22.400000000000002 9 21.725 19.1 35.5 23.674999999999997 10 16.125 42.05 25.25 16.575 11 24.224999999999998 33.550000000000004 19.35 22.875 12 25.85 28.625 22.1 23.425 13 20.25 37.375 22.55 19.825 14 23.599999999999998 32.775 27.425 16.2 15 20.1 37.275000000000006 20.275000000000002 22.35 16 23.599999999999998 34.225 22.8 19.375 17 22.85 34.849999999999994 20.95 21.349999999999998 18 19.575 34.65 22.7 23.075000000000003 19 20.7 32.9 25.3 21.099999999999998 20 17.474999999999998 33.825 26.85 21.85 21 18.05 28.025 27.224999999999998 26.700000000000003 22 15.2 40.45 24.275 20.075000000000003 23 19.6 35.949999999999996 24.775 19.675 24 17.825 35.55 22.325 24.3 25 17.775 32.175 27.725 22.325 26 18.3 35.325 23.400000000000002 22.975 27 22.825 30.099999999999998 26.0 21.075 28 23.674999999999997 38.35 21.3 16.675 29 25.75 32.25 23.25 18.75 30 24.55 33.550000000000004 24.5 17.4 31 29.849999999999998 26.575 22.45 21.125 32 26.174999999999997 30.599999999999998 24.075 19.15 33 28.1 31.45 19.875 20.575 34 21.075 38.175 19.925 20.825 35 23.150000000000002 34.475 21.775 20.599999999999998 36 22.75 25.900000000000002 29.725 21.625 37 22.491868901676256 26.619964973730298 30.823117338003502 20.06504878658994 38 20.25 27.525 30.45 21.775 39 23.325000000000003 26.474999999999998 29.425 20.775 40 18.3 33.050000000000004 28.075 20.575 41 23.75 26.424999999999997 28.1 21.725 42 20.12012012012012 31.506506506506504 26.05105105105105 22.32232232232232 43 19.975 31.674999999999997 25.7 22.650000000000002 44 20.599999999999998 27.325 28.275 23.799999999999997 45 20.95643465197797 28.617926890335504 30.771156735102657 19.654481722583874 46 18.579644911227806 27.731932983245812 36.6591647911978 17.029257314328582 47 18.513885414060546 33.77533149862397 28.446334751063297 19.264448336252187 48 21.075 34.125 25.275 19.525000000000002 49 23.35 33.300000000000004 23.375 19.975 50 29.4 27.700000000000003 23.849999999999998 19.05 >>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 0.5 10 1.0 11 0.5 12 0.0 13 0.5 14 1.0 15 0.5 16 0.0 17 1.0 18 2.0 19 4.5 20 7.0 21 6.5 22 6.0 23 7.0 24 8.0 25 24.5 26 41.0 27 41.5 28 42.0 29 41.5 30 41.0 31 49.5 32 58.0 33 104.0 34 150.0 35 252.5 36 355.0 37 450.0 38 545.0 39 414.5 40 284.0 41 299.5 42 315.0 43 395.0 44 475.0 45 446.5 46 418.0 47 325.5 48 233.0 49 274.0 50 315.0 51 262.0 52 209.0 53 158.0 54 107.0 55 93.5 56 80.0 57 62.0 58 44.0 59 40.0 60 36.0 61 34.0 62 32.0 63 31.5 64 31.0 65 32.0 66 33.0 67 33.0 68 33.0 69 27.5 70 22.0 71 22.5 72 23.0 73 19.5 74 16.0 75 12.5 76 9.0 77 11.0 78 13.0 79 9.0 80 5.0 81 5.0 82 5.0 83 3.0 84 1.0 85 2.0 86 3.0 87 2.0 88 1.0 89 0.5 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 0.075 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 0.0 18 0.0 19 0.0 20 0.0 21 0.0 22 0.0 23 0.0 24 0.0 25 0.0 26 0.0 27 0.0 28 0.0 29 0.0 30 0.0 31 0.0 32 0.0 33 0.0 34 0.0 35 0.0 36 0.0 37 0.075 38 0.0 39 0.0 40 0.0 41 0.0 42 0.1 43 0.0 44 0.0 45 0.15 46 0.025 47 0.075 48 0.0 49 0.0 50 0.0 >>END_MODULE >>Sequence Length Distribution pass #Length Count 50 4000.0 >>END_MODULE >>Sequence Duplication Levels warn #Total Deduplicated Percentage 50.74999999999999 #Duplication Level Percentage of deduplicated Percentage of total 1 84.33497536945814 42.8 2 6.45320197044335 6.550000000000001 3 3.3497536945812803 5.1 4 1.1822660098522169 2.4 5 0.7881773399014778 2.0 6 0.541871921182266 1.6500000000000001 7 0.2955665024630542 1.05 8 0.19704433497536944 0.8 9 0.24630541871921183 1.125 >10 2.315270935960591 22.875 >50 0.19704433497536944 7.2749999999999995 >100 0.09852216748768472 6.375 >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 GCGGGAACTTCAAGAGCAGCTAGATCTAGAGGGAAGTTGTGAGCATTACG 150 3.75 No Hit CTGCGATGAAGGCGATAATAAATACAGAAGTTGCGGTCAATAAGGTAGGG 105 2.625 No Hit GCGGTCAATAAGGTAGGGATCATCAAAACACCGAACCATCCGATGTAAAG 98 2.45 No Hit GTGCTCTGCCTGGAATACAATCATAAAGTTGAAAGTACCAGATATTCCTA 74 1.8499999999999999 No Hit GGGAACTTCAAGAGCAGCTAGATCTAGAGGGAAGTTGTGAGCATTACGTT 63 1.575 No Hit GATCGGAAGAGCACACGTCTGAACTCCAGTCACCCTCTCTGATCTCGTAT 56 1.4000000000000001 TruSeq Adapter, Index 23 (97% over 40bp) ACGCGACCTTGACTATCAACTACAGATTGGTTGAAATTGAATCCATTTAG 46 1.15 No Hit CGGGAACTTCAAGAGCAGCTAGATCTAGAGGGAAGTTGTGAGCATTACGT 45 1.125 No Hit CTCTGCCTGGAATACAATCATAAAGTTGAAAGTACCAGATATTCCTAAAG 45 1.125 No Hit TCTGCCTGGAATACAATCATAAAGTTGAAAGTACCAGATATTCCTAAAGG 42 1.05 No Hit GTTGTGCTCTGCCTGGAATACAATCATAAAGTTGAAAGTACCAGATATTC 40 1.0 No Hit GCGACCTTGACTATCAACTACAGATTGGTTGAAATTGAATCCATTTAGGT 37 0.9249999999999999 No Hit CGCGACCTTGACTATCAACTACAGATTGGTTGAAATTGAATCCATTTAGG 30 0.75 No Hit GCGATGAAGGCGATAATAAATACAGAAGTTGCGGTCAATAAGGTAGGGAT 29 0.7250000000000001 No Hit CTCGCGAATACCATCAATATCTACTGGAGGGGCTGCGATGAAGGCGATAA 29 0.7250000000000001 No Hit GGCGATAATAAATACAGAAGTTGCGGTCAATAAGGTAGGGATCATCAAAA 26 0.65 No Hit CGGTCAATAAGGTAGGGATCATCAAAACACCGAACCATCCGATGTAAAGA 25 0.625 No Hit CGCAGAAGTAGGAATAATAGCACCAGAGATAATATTGTTTCCATAAAGTA 24 0.6 No Hit GGCCAAAATAACCATGAGCAGCCACAATATTATAAGTCTCTTCCTCTTGA 24 0.6 No Hit CCCAAGTATTAATAACGCGACCTTGACTATCAACTACAGATTGGTTGAAA 21 0.525 No Hit GCTGCGATGAAGGCGATAATAAATACAGAAGTTGCGGTCAATAAGGTAGG 21 0.525 No Hit GCGGAAAAACCTTATCCATTAATAGCGGGAACTTCAAGAGCAGCTAGATC 20 0.5 No Hit ATAAGGATGTTGTGCTCTGCCTGGAATACAATCATAAAGTTGAAAGTACC 19 0.475 No Hit CTTTCTTTTCTTCAAAAATTCTTATATGTTAGCGGAAAAACCTTATCCAT 19 0.475 No Hit CTGGAATACAATCATAAAGTTGAAAGTACCAGATATTCCTAAAGGCATAC 18 0.44999999999999996 No Hit GCTCTGCCTGGAATACAATCATAAAGTTGAAAGTACCAGATATTCCTAAA 18 0.44999999999999996 No Hit GCCAAAATAACCATGAGCAGCCACAATATTATAAGTCTCTTCCTCTTGAC 17 0.42500000000000004 No Hit GCCTGGAATACAATCATAAAGTTGAAAGTACCAGATATTCCTAAAGGCAT 17 0.42500000000000004 No Hit GTCAATAAGGTAGGGATCATCAAAACACCGAACCATCCGATGTAAAGACG 17 0.42500000000000004 No Hit TTTCTTTTCTTCAAAAATTCTTATATGTTAGCGGAAAAACCTTATCCATT 16 0.4 No Hit GCCGAAAACACCAGCTACACCTAACATGTGAAATGGATGCATAAGGATGT 15 0.375 No Hit TGCGGGAACTTCAAGAGCAGCTAGATCTAGAGGGAAGTTGTGAGCATTAC 15 0.375 No Hit AGGGGCTGCGATGAAGGCGATAATAAATACAGAAGTTGCGGTCAATAAGG 15 0.375 No Hit AGCGGGAACTTCAAGAGCAGCTAGATCTAGAGGGAAGTTGTGAGCATTAC 14 0.35000000000000003 No Hit CCGCAGAAGTAGGAATAATAGCACCAGAGATAATATTGTTTCCATAAAGT 13 0.325 No Hit CCACCATTGTATAACCATTCATCAACGGATGCAGCTTCCCAAATTGGGTA 13 0.325 No Hit GGTCAATAAGGTAGGGATCATCAAAACACCGAACCATCCGATGTAAAGAC 13 0.325 No Hit TTCAAGAGCAGCTAGATCTAGAGGGAAGTTGTGAGCATTACGTTCGTGCA 12 0.3 No Hit GGAAAAACCTTATCCATTAATAGCGGGAACTTCAAGAGCAGCTAGATCTA 12 0.3 No Hit GCTAGTTATCCAGTTGCAGAAGCGACCCCACAGGCTTGTACTTTCGCGTC 12 0.3 No Hit CGGAAAAACCTTATCCATTAATAGCGGGAACTTCAAGAGCAGCTAGATCT 12 0.3 No Hit CCAAGTATTAATAACGCGACCTTGACTATCAACTACAGATTGGTTGAAAT 12 0.3 No Hit CGCGAATACCATCAATATCTACTGGAGGGGCTGCGATGAAGGCGATAATA 11 0.27499999999999997 No Hit CTTTTCTTCAAAAATTCTTATATGTTAGCGGAAAAACCTTATCCATTAAT 11 0.27499999999999997 No Hit CAATAAGGTAGGGATCATCAAAACACCGAACCATCCGATGTAAAGACGAT 10 0.25 No Hit TGCTCTGCCTGGAATACAATCATAAAGTTGAAAGTACCAGATATTCCTAA 10 0.25 No Hit CGCGGGAACTTCAAGAGCAGCTAGATCTAGAGGGAAGTTGTGAGCATTAC 10 0.25 No Hit ATGCATAAGGATGTTGTGCTCTGCCTGGAATACAATCATAAAGTTGAAAG 10 0.25 No Hit CGCGTCTCTCTAAAATTGCAGTCATGGTAAGATCTTGGTTTATTCAAATT 10 0.25 No Hit GTGAGCATTACGTTCGTGCATTACTTCCATACCAAGATTAGCACGGTTGA 10 0.25 No Hit CGCAGCTGCAACAGGAGCTGAATATGCAACAGCAATCCAAGGGCGCATAC 10 0.25 No Hit TGTGCTCTGCCTGGAATACAATCATAAAGTTGAAAGTACCAGATATTCCT 10 0.25 No Hit TAGTTATCCAGTTGCAGAAGCGACCCCACAGGCTTGTACTTTCGCGTCTC 10 0.25 No Hit TGCGGTCAATAAGGTAGGGATCATCAAAACACCGAACCATCCGATGTAAA 9 0.22499999999999998 No Hit TAGTTATCCAGTTGCAGAAGCGACCCCACAGGCTTGTACTTTCGCGGCTC 9 0.22499999999999998 No Hit GCTTTCTTTTCTTCAAAAATTCTTATATGTTAGCGGAAAAACCTTATCCA 9 0.22499999999999998 No Hit TTGTGCTCTGCCTGGAATACAATCATAAAGTTGAAAGTACCAGATATTCC 9 0.22499999999999998 No Hit GGGGCTGCGATGAAGGCGATAATAAATACAGAAGTTGCGGTCAATAAGGT 9 0.22499999999999998 No Hit CGTCTCTCTAAAATTGCAGTCATGGTAAGATCTTGGTTTATTCAAATTGC 8 0.2 No Hit GGGCTGCGATGAAGGCGATAATAAATACAGAAGTTGCGGTCAATAAGGTA 8 0.2 No Hit CTCATAAGGACCACCATTGTATAACCATTCATCAACGGATGCAGCTTCCC 8 0.2 No Hit GTGCTAGTTATCCAGTTGCAGAAGCGACCCCACAGGCTTGTACTTTCGCG 8 0.2 No Hit GGAGGGGCTGCGATGAAGGCGATAATAAATACAGAAGTTGCGGTCAATAA 7 0.17500000000000002 No Hit GCGAATACCATCAATATCTACTGGAGGGGCTGCGATGAAGGCGATAATAA 7 0.17500000000000002 No Hit GTTGATGATATCAGCCCAAGTATTAATAACGCGACCTTGACTATCAACTA 7 0.17500000000000002 No Hit CTCATTAGCAGATTCATTTTCAGTAGTTTCCCTGATCAAACTAGAGGTTA 7 0.17500000000000002 No Hit AGCAGCCACAATATTATAAGTCTCTTCCTCTTGACCAAATTTGTAACCCT 7 0.17500000000000002 No Hit GTTGAAACTAGCATATTGGAAGATTAATCGGCCAAAATAACCATGAGCAG 7 0.17500000000000002 No Hit GCACGGTTGATGATATCAGCCCAAGTATTAATAACGCGACCTTGACTATC 6 0.15 No Hit ATAATTAACTGCATTGATCTCGGTAGCTACGCCACCCACGGAATTTAAAG 6 0.15 No Hit CGCGGTCAATAAGGTAGGGATCATCAAAACACCGAACCATCCGATGTAAA 6 0.15 No Hit TGATGATATCAGCCCAAGTATTAATAACGCGACCTTGACTATCAACTACA 6 0.15 No Hit GGCTGCGATGAAGGCGATAATAAATACAGAAGTTGCGGTCAATAAGGTAG 6 0.15 No Hit GCCACAATATTATAAGTCTCTTCCTCTTGACCAAATTTGTAACCCTCATT 6 0.15 No Hit CCACAATATTATAAGTCTCTTCCTCTTGACCAAATTTGTAACCCTCATTA 6 0.15 No Hit CGCTGGAGTAGGCTGCGAGGCCCAAGCGGCCAAGGAGTGCAGCGGCCCGT 6 0.15 No Hit CTAGTTATCCAGTTGCAGAAGCGACCCCACAGGCTTGTACTTTCGCGTCT 6 0.15 No Hit TGCGATGAAGGCGATAATAAATACAGAAGTTGCGGTCAATAAGGTAGGGA 6 0.15 No Hit TTGCGGTCAATAAGGTAGGGATCATCAAAACACCGAACCATCCGATGTAA 6 0.15 No Hit CCGCCGAAAACACCAGCTACACCTAACATGTGAAATGGATGCATAAGGAT 5 0.125 No Hit GCGATAATAAATACAGAAGTTGCGGTCAATAAGGTAGGGATCATCAAAAC 5 0.125 No Hit TGTTGTGCTCTGCCTGGAATACAATCATAAAGTTGAAAGTACCAGATATT 5 0.125 No Hit GCTAGTTATCCAGTTGCAGAAGCGACCCCACAGGCTTGTACTTTCGCGGC 5 0.125 No Hit CCCCAGTTAAGTAGTCATGCATTACAATAGGAACACCTAATTCTCTCGCA 5 0.125 No Hit ATCCAGTTGCAGAAGCGACCCCACAGGCTTGTACTTTCGCGTCTCTCTTA 5 0.125 No Hit ATAAGGACCACCATTGTATAACCATTCATCAACGGATGCAGCTTCCCAAA 5 0.125 No Hit TGGAGGGGCTGCGATGAAGGCGATAATAAATACAGAAGTTGCGGTCAATA 5 0.125 No Hit ATGAAGGCGATAATAAATACAGAAGTTGCGGTCAATAAGGTAGGGATCAT 5 0.125 No Hit GCGCGACCTTGACTATCAACTACAGATTGGTTGAAATTGAATCCATTTAG 5 0.125 No Hit CCAGCTACACCTAACATGTGAAATGGATGCATAAGGATGTTGTGCTCTGC 5 0.125 No Hit CGGTTGATGATATCAGCCCAAGTATTAATAACGCGACCTTGACTATCAAC 5 0.125 No Hit CTGCCTGGAATACAATCATAAAGTTGAAAGTACCAGATATTCCTAAAGGC 5 0.125 No Hit CACCATTGTATAACCATTCATCAACGGATGCAGCTTCCCAAATTGGGTAA 5 0.125 No Hit GCAGCCACAATATTATAAGTCTCTTCCTCTTGACCAAATTTGTAACCCTC 5 0.125 No Hit CGCTTTCTTTTCTTCAAAAATTCTTATATGTTAGCGGAAAAACCTTATCC 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 0.0 0.0 0.0 0.0 0.0 11 0.0 0.0 0.0 0.0 0.0 12 0.0 0.0 0.0 0.0 0.0 13 0.0 0.0 0.0 0.0 0.0 14 0.0 0.0 0.0 0.0 0.0 15 0.0 0.0 0.0 0.0 0.0 16 0.0 0.0 0.0 0.0 0.0 17 0.0 0.0 0.0 0.0 0.0 18 0.0 0.0 0.0 0.0 0.0 19 0.0 0.0 0.0 0.0 0.0 20 0.0 0.0 0.0 0.0 0.0 21 0.0 0.0 0.0 0.0 0.0 22 0.0 0.0 0.0 0.0 0.0 23 0.0 0.0 0.0 0.0 0.0 24 0.0 0.0 0.0 0.0 0.0 25 0.0 0.0 0.0 0.0 0.0 26 0.0 0.0 0.0 0.0 0.0 27 0.0 0.0 0.0 0.0 0.0 28 0.0 0.0 0.0 0.0 0.0 29 0.0 0.0 0.0 0.0 0.0 30 0.0 0.0 0.0 0.0 0.0 31 0.0 0.0 0.0 0.0 0.0 32 0.0 0.0 0.0 0.0 0.0 33 0.0 0.0 0.0 0.0 0.0 34 0.0 0.0 0.0 0.0 0.0 35 0.0 0.0 0.0 0.0 0.0 36 0.0 0.0 0.0 0.0 0.0 37 0.0 0.0 0.0 0.0 0.0 38 0.0 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position GTTGAAA 65 0.009886043 16.923079 28 >>END_MODULE Read 1009147 spots for SRR1850670.sra Written 1009147 spots for SRR1850670.sra Read 1009147 spots for SRR1850670.sra Written 1009147 spots for SRR1850670.sra Read 1009147 spots for SRR1850670.sra Written 1009147 spots for SRR1850670.sra Read 1009147 spots for SRR1850670.sra Written 1009147 spots for SRR1850670.sra Read 1009147 spots for SRR1850670.sra Written 1009147 spots for SRR1850670.sra Read 1009147 spots for SRR1850670.sra Written 1009147 spots for SRR1850670.sra Read 1009147 spots for SRR1850670.sra Written 1009147 spots for SRR1850670.sra Read 1009147 spots for SRR1850670.sra Written 1009147 spots for SRR1850670.sra Read 1009147 spots for SRR1850670.sra Written 1009147 spots for SRR1850670.sra Read 1009147 spots for SRR1850670.sra Written 1009147 spots for SRR1850670.sra Read 1009147 spots for SRR1850670.sra Written 1009147 spots for SRR1850670.sra Read 1009147 spots for SRR1850670.sra Written 1009147 spots for SRR1850670.sra Read 1009147 spots for SRR1850670.sra Written 1009147 spots for SRR1850670.sra Read 1009147 spots for SRR1850670.sra Written 1009147 spots for SRR1850670.sra Read 1009153 spots for SRR1850670.sra Written 1009153 spots for SRR1850670.sra Read 1009147 spots for SRR1850670.sra Written 1009147 spots for SRR1850670.sra Read 1009147 spots for SRR1850670.sra Written 1009147 spots for SRR1850670.sra Read 1009147 spots for SRR1850670.sra Written 1009147 spots for SRR1850670.sra Read 1009147 spots for SRR1850670.sra Written 1009147 spots for SRR1850670.sra Read 1009147 spots for SRR1850670.sra Written 1009147 spots for SRR1850670.sra SRR ids: ['SRR1850670.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_ymmzdw9s SRR1850670.sra spots: 20182946 blocks: [[1, 1009147], [1009148, 2018294], [2018295, 3027441], [3027442, 4036588], [4036589, 5045735], [5045736, 6054882], [6054883, 7064029], [7064030, 8073176], [8073177, 9082323], [9082324, 10091470], [10091471, 11100617], [11100618, 12109764], [12109765, 13118911], [13118912, 14128058], [14128059, 15137205], [15137206, 16146352], [16146353, 17155499], [17155500, 18164646], [18164647, 19173793], [19173794, 20182946]] SRR1850670 file size 3487212 SRR1850670 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 SRR1850670 SRR1850670_1.fastq Input file: SRR1850670_1.fastq trimmed: SRR1850670-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 06:17:31 2024 >> started Sat Dec 7 06:17:42 2024 >> done (11.546s) 20182946 reads processed; of these: 3189 ( 0.02%) short reads filtered out after trimming by size control 396591 ( 1.96%) empty reads filtered out after trimming by size control 19783166 (98.02%) reads available; of these: 1007887 ( 5.09%) trimmed reads available after processing 18775279 (94.91%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 1834 0.01% 19 2791 0.01% 20 6938 0.04% 21 6942 0.04% 22 7036 0.04% 23 7846 0.04% 24 9487 0.05% 25 9962 0.05% 26 9654 0.05% 27 10652 0.05% 28 9915 0.05% 29 18400 0.09% 30 20157 0.10% 31 14865 0.08% 32 25278 0.13% 33 17356 0.09% 34 19328 0.10% 35 19615 0.10% 36 20140 0.10% 37 30951 0.16% 38 22240 0.11% 39 23989 0.12% 40 32522 0.16% 41 29039 0.15% 42 42865 0.22% 43 47194 0.24% 44 74705 0.38% 45 68866 0.35% 46 86902 0.44% 47 101900 0.52% 48 115023 0.58% 49 93495 0.47% 50 18775279 94.91% 19783166 reads passed initial QC criterion=sequence-density sequence-density=0.35 sequence-density-rank=1 fanout-score=0.00 fanout-score-rank=18 prefix-density=0.00 prefix-fanout=1.0 sequence=TGCGGGAACTTC criterion=fanout-score sequence-density=0.08 sequence-density-rank=7 fanout-score=23.09 fanout-score-rank=1 prefix-density=1.93 prefix-fanout=1.0 sequence=CGCGTCTCTCTTAAATT Started job on | Dec 07 06:18:09 Started mapping on | Dec 07 06:18:09 Finished on | Dec 07 06:18:27 Mapping speed, Million of reads per hour | 3956.63 Number of input reads | 19783166 Average input read length | 49 UNIQUE READS: Uniquely mapped reads number | 4752356 Uniquely mapped reads % | 24.02% Average mapped length | 49.37 Number of splices: Total | 283069 Number of splices: Annotated (sjdb) | 265734 Number of splices: GT/AG | 276846 Number of splices: GC/AG | 3635 Number of splices: AT/AC | 171 Number of splices: Non-canonical | 2417 Mismatch rate per base, % | 0.28% Deletion rate per base | 0.01% Deletion average length | 1.49 Insertion rate per base | 0.01% Insertion average length | 1.32 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 14676292 % of reads mapped to multiple loci | 74.19% Number of reads mapped to too many loci | 84559 % of reads mapped to too many loci | 0.43% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.34% % of reads unmapped: other | 0.02% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 354518 354518 354518 N_multimapping 14676292 14676292 14676292 N_noFeature 1199872 4537355 1350089 N_ambiguous 99445 1200 34677 UnstrandedReadsAssigned:3453039 PositiveStrandReadsAssigned:213801 NegativeStrandReadsAssigned:3367590 Dataset is classified negative stranded MeadianReadLen=50 20thPercentileLength=50 echo kmer=45 SRR1850670 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: SRR1850670-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 19,783,166 reads, 16,524,130 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,031 rounds 52973 SRR1850670.ke.tsv 35125 SRR1850670.se.tsv 88098 total ==> SRR1850670.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 837 3.96875 0.319659 PNS24247 1044 945 2.91667 0.208072 PNS24249 1928 1829 20.2812 0.747548 PNS24246 1044 945 2.91667 0.208072 PNS24248 1044 945 2.91667 0.208072 PNS24244 1471 1372 0 0 PNS24243 293 194 0 0 KQK14069 1603 1504 0 0 KQK14071 474 375 14.1256 2.53941 ==> SRR1850670.se.tsv <== BRADI_1g14170v3 65 BRADI_1g53295v3 9 BRADI_1g59795v3 25 BRADI_1g07683v3 0 BRADI_1g00485v3 5 BRADI_1g20270v3 17 BRADI_1g74790v3 16 BRADI_1g09890v3 0 BRADI_1g77505v3 30 BRADI_1g48960v3 1 SRR1850670 completed mapping pipeline successfully