Starting /dee2/code/volunteer_pipeline.sh SRR1772237 current disk space = 1552299479040 free memory = 1605404860 SRR1772237 SRAfilesize 56b08c9bcb5e35dd19f8b5dc8e660a22 SRR1772237.sra SRR1772237.sra file validated SRR1772237 is single end SRR1772237 is conventional basespace SRR1772237 read1 length is 50 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR1772237_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 43 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 32.81475 34.0 31.0 34.0 31.0 34.0 2 33.1175 34.0 33.0 34.0 31.0 34.0 3 33.1105 34.0 33.0 34.0 31.0 34.0 4 36.4645 37.0 37.0 37.0 35.0 37.0 5 36.42125 37.0 37.0 37.0 35.0 37.0 6 36.301 37.0 37.0 37.0 35.0 37.0 7 36.36625 37.0 37.0 37.0 35.0 37.0 8 36.38925 37.0 37.0 37.0 35.0 37.0 9 38.1265 39.0 39.0 39.0 37.0 39.0 10 38.22 39.0 39.0 39.0 37.0 39.0 11 38.20325 39.0 39.0 39.0 37.0 39.0 12 38.11375 39.0 39.0 39.0 37.0 39.0 13 38.018 39.0 38.0 39.0 35.0 39.0 14 39.562 41.0 40.0 41.0 37.0 41.0 15 39.4755 41.0 40.0 41.0 37.0 41.0 16 39.58975 41.0 40.0 41.0 37.0 41.0 17 39.51625 41.0 40.0 41.0 36.0 41.0 18 39.5965 41.0 40.0 41.0 37.0 41.0 19 39.4115 41.0 40.0 41.0 36.0 41.0 20 39.41875 41.0 39.0 41.0 36.0 41.0 21 39.30125 41.0 39.0 41.0 36.0 41.0 22 39.37525 41.0 39.0 41.0 37.0 41.0 23 39.381 41.0 39.0 41.0 36.0 41.0 24 39.27675 41.0 39.0 41.0 36.0 41.0 25 39.07125 41.0 39.0 41.0 36.0 41.0 26 38.97175 41.0 39.0 41.0 35.0 41.0 27 38.9375 41.0 39.0 41.0 36.0 41.0 28 38.7655 40.0 39.0 41.0 35.0 41.0 29 38.796 40.0 39.0 41.0 35.0 41.0 30 38.612 40.0 39.0 41.0 35.0 41.0 31 38.492 40.0 38.0 41.0 35.0 41.0 32 38.199 40.0 38.0 41.0 34.0 41.0 33 38.152 40.0 38.0 41.0 34.0 41.0 34 38.0735 40.0 38.0 41.0 34.0 41.0 35 38.34425 40.0 38.0 41.0 35.0 41.0 36 38.28175 40.0 38.0 41.0 34.0 41.0 37 38.20175 40.0 38.0 41.0 34.0 41.0 38 38.17075 40.0 38.0 41.0 34.0 41.0 39 37.89875 40.0 38.0 41.0 33.0 41.0 40 37.69975 40.0 38.0 41.0 33.0 41.0 41 37.8185 40.0 38.0 41.0 33.0 41.0 42 37.779 40.0 38.0 41.0 33.0 41.0 43 37.67 40.0 38.0 41.0 33.0 41.0 44 37.518 40.0 38.0 41.0 33.0 41.0 45 37.29225 40.0 38.0 41.0 33.0 41.0 46 37.37025 40.0 38.0 41.0 33.0 41.0 47 37.1255 40.0 38.0 41.0 32.0 41.0 48 36.87375 40.0 38.0 41.0 31.0 41.0 49 36.8335 40.0 38.0 41.0 31.0 41.0 50 36.58875 40.0 37.0 41.0 31.0 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 14 4.0 15 0.0 16 1.0 17 6.0 18 4.0 19 7.0 20 8.0 21 10.0 22 14.0 23 8.0 24 15.0 25 16.0 26 14.0 27 18.0 28 31.0 29 30.0 30 32.0 31 43.0 32 67.0 33 75.0 34 103.0 35 143.0 36 155.0 37 267.0 38 534.0 39 2395.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 37.45 12.15 13.8 36.6 2 28.275 12.675 28.825 30.225 3 34.60865216304076 17.90447611902976 19.32983245811453 28.157039259814955 4 31.7 28.675 15.475 24.15 5 31.3 32.725 18.825 17.150000000000002 6 23.400000000000002 34.675 18.25 23.674999999999997 7 10.825 38.4 34.949999999999996 15.825 8 20.4 28.4 29.325000000000003 21.875 9 21.125 18.95 34.925 25.0 10 16.425 44.074999999999996 23.825 15.675 11 25.8 33.45 16.925 23.825 12 25.275 29.45 22.075 23.200000000000003 13 17.45 39.175 23.200000000000003 20.175 14 23.35 31.075000000000003 25.95 19.625 15 19.575 36.199999999999996 21.95 22.275 16 22.625 35.975 21.05 20.349999999999998 17 22.400000000000002 34.849999999999994 21.925 20.825 18 19.05 35.875 22.75 22.325 19 21.95 31.45 24.25 22.35 20 16.425 34.150000000000006 28.175 21.25 21 19.7 28.525 27.250000000000004 24.525 22 15.8 42.15 21.65 20.4 23 21.075 34.975 25.324999999999996 18.625 24 19.175 35.05 21.25 24.525 25 19.0 33.300000000000004 28.050000000000004 19.650000000000002 26 20.549999999999997 33.875 23.125 22.45 27 22.5 30.175 26.650000000000002 20.674999999999997 28 23.95 39.2 21.275 15.575 29 25.7 32.65 22.6 19.05 30 23.875 32.6 25.174999999999997 18.35 31 28.925 27.625 22.0 21.45 32 25.624999999999996 31.674999999999997 22.825 19.875 33 26.400000000000002 33.675 20.424999999999997 19.5 34 23.175 37.125 20.9 18.8 35 22.975 35.325 24.224999999999998 17.474999999999998 36 23.81190595297649 27.838919459729865 28.68934467233617 19.65982991495748 37 22.366775081310983 29.647235426569928 29.67225419064298 18.313735301476108 38 21.6 28.475 30.349999999999998 19.575 39 24.05 26.450000000000003 30.95 18.55 40 18.75 32.875 26.424999999999997 21.95 41 21.175 27.075 27.1 24.65 42 20.646454522676024 32.1473314958657 23.57805061388123 23.62816336757705 43 20.349999999999998 32.85 23.875 22.925 44 20.130032508127034 27.631907976994246 28.95723930982746 23.280820205051263 45 19.82974461692539 31.29694541812719 31.54732098147221 17.325988983475213 46 19.36452339254441 28.096072054040533 33.049787340505375 19.489617212909682 47 20.715536652489366 33.29997498123593 26.8951713785339 19.089316987740805 48 21.65 33.800000000000004 25.575 18.975 49 22.725 33.300000000000004 23.225 20.75 50 25.025 27.224999999999998 27.075 20.674999999999997 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 1.0 1 0.5 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 0.5 12 1.0 13 1.0 14 1.0 15 0.5 16 0.0 17 0.5 18 1.0 19 2.0 20 3.0 21 2.0 22 1.0 23 8.5 24 16.0 25 28.0 26 40.0 27 42.0 28 44.0 29 49.5 30 55.0 31 59.0 32 63.0 33 143.0 34 223.0 35 304.5 36 386.0 37 446.5 38 507.0 39 418.0 40 329.0 41 328.5 42 328.0 43 363.5 44 399.0 45 406.0 46 413.0 47 317.0 48 221.0 49 262.0 50 303.0 51 253.5 52 204.0 53 148.0 54 92.0 55 79.0 56 66.0 57 59.5 58 53.0 59 49.5 60 46.0 61 39.5 62 33.0 63 31.0 64 29.0 65 26.5 66 24.0 67 26.0 68 28.0 69 29.0 70 30.0 71 29.0 72 28.0 73 19.0 74 10.0 75 8.5 76 7.0 77 7.0 78 7.0 79 6.0 80 5.0 81 3.0 82 1.0 83 1.0 84 1.0 85 1.0 86 1.0 87 0.5 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 0.025 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 0.05 37 0.075 38 0.0 39 0.0 40 0.0 41 0.0 42 0.22499999999999998 43 0.0 44 0.025 45 0.15 46 0.075 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 fail #Total Deduplicated Percentage 49.75 #Duplication Level Percentage of deduplicated Percentage of total 1 83.91959798994975 41.75 2 7.085427135678392 7.049999999999999 3 2.0100502512562812 3.0 4 1.407035175879397 2.8000000000000003 5 1.0552763819095476 2.625 6 1.0050251256281406 3.0 7 0.6030150753768844 2.1 8 0.35175879396984927 1.4000000000000001 9 0.10050251256281408 0.44999999999999996 >10 2.1608040201005023 23.200000000000003 >50 0.25125628140703515 9.15 >100 0.05025125628140704 3.4750000000000005 >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 139 3.4750000000000005 No Hit GGGAACTTCAAGAGCAGCTAGATCTAGAGGGAAGTTGTGAGCATTACGTT 90 2.25 No Hit GATCGGAAGAGCACACGTCTGAACTCCAGTCACAGGAGTCCATCTCGTAT 80 2.0 TruSeq Adapter, Index 15 (97% over 36bp) CTGCGATGAAGGCGATAATAAATACAGAAGTTGCGGTCAATAAGGTAGGG 75 1.875 No Hit GCGGTCAATAAGGTAGGGATCATCAAAACACCGAACCATCCGATGTAAAG 63 1.575 No Hit TCTGCCTGGAATACAATCATAAAGTTGAAAGTACCAGATATTCCTAAAGG 58 1.4500000000000002 No Hit CGGGAACTTCAAGAGCAGCTAGATCTAGAGGGAAGTTGTGAGCATTACGT 45 1.125 No Hit GTTGTGCTCTGCCTGGAATACAATCATAAAGTTGAAAGTACCAGATATTC 44 1.0999999999999999 No Hit GTGCTCTGCCTGGAATACAATCATAAAGTTGAAAGTACCAGATATTCCTA 44 1.0999999999999999 No Hit CGCGACCTTGACTATCAACTACAGATTGGTTGAAATTGAATCCATTTAGG 42 1.05 No Hit CTGGAATACAATCATAAAGTTGAAAGTACCAGATATTCCTAAAGGCATAC 41 1.0250000000000001 No Hit CGCAGAAGTAGGAATAATAGCACCAGAGATAATATTGTTTCCATAAAGTA 38 0.95 No Hit GCGACCTTGACTATCAACTACAGATTGGTTGAAATTGAATCCATTTAGGT 37 0.9249999999999999 No Hit GCGATGAAGGCGATAATAAATACAGAAGTTGCGGTCAATAAGGTAGGGAT 35 0.8750000000000001 No Hit GCCTGGAATACAATCATAAAGTTGAAAGTACCAGATATTCCTAAAGGCAT 34 0.8500000000000001 No Hit CTCTGCCTGGAATACAATCATAAAGTTGAAAGTACCAGATATTCCTAAAG 32 0.8 No Hit GGCCAAAATAACCATGAGCAGCCACAATATTATAAGTCTCTTCCTCTTGA 27 0.675 No Hit CCCAAGTATTAATAACGCGACCTTGACTATCAACTACAGATTGGTTGAAA 25 0.625 No Hit GGCGATAATAAATACAGAAGTTGCGGTCAATAAGGTAGGGATCATCAAAA 22 0.5499999999999999 No Hit CGGTCAATAAGGTAGGGATCATCAAAACACCGAACCATCCGATGTAAAGA 22 0.5499999999999999 No Hit ACGCGACCTTGACTATCAACTACAGATTGGTTGAAATTGAATCCATTTAG 21 0.525 No Hit GTCAATAAGGTAGGGATCATCAAAACACCGAACCATCCGATGTAAAGACG 21 0.525 No Hit CTCGCGAATACCATCAATATCTACTGGAGGGGCTGCGATGAAGGCGATAA 21 0.525 No Hit CGGAAAAACCTTATCCATTAATAGCGGGAACTTCAAGAGCAGCTAGATCT 20 0.5 No Hit ATAAGGATGTTGTGCTCTGCCTGGAATACAATCATAAAGTTGAAAGTACC 19 0.475 No Hit GGTCAATAAGGTAGGGATCATCAAAACACCGAACCATCCGATGTAAAGAC 18 0.44999999999999996 No Hit GCCAAAATAACCATGAGCAGCCACAATATTATAAGTCTCTTCCTCTTGAC 18 0.44999999999999996 No Hit CGATGAAGGCGATAATAAATACAGAAGTTGCGGTCAATAAGGTAGGGATC 18 0.44999999999999996 No Hit CTCATTAGCAGATTCATTTTCAGTAGTTTCCCTGATCAAACTAGAGGTTA 17 0.42500000000000004 No Hit GCGGAAAAACCTTATCCATTAATAGCGGGAACTTCAAGAGCAGCTAGATC 17 0.42500000000000004 No Hit GGAGGGGCTGCGATGAAGGCGATAATAAATACAGAAGTTGCGGTCAATAA 16 0.4 No Hit CCAAGTATTAATAACGCGACCTTGACTATCAACTACAGATTGGTTGAAAT 16 0.4 No Hit TTGTGCTCTGCCTGGAATACAATCATAAAGTTGAAAGTACCAGATATTCC 16 0.4 No Hit GCTCTGCCTGGAATACAATCATAAAGTTGAAAGTACCAGATATTCCTAAA 16 0.4 No Hit CGCTGGAGTAGGCTGCGAGGCCCAAGCGGCCAAGGAGTGCAGCGGCCCGT 15 0.375 No Hit GGAAAAACCTTATCCATTAATAGCGGGAACTTCAAGAGCAGCTAGATCTA 14 0.35000000000000003 No Hit CTTTCTTTTCTTCAAAAATTCTTATATGTTAGCGGAAAAACCTTATCCAT 14 0.35000000000000003 No Hit CAATAAGGTAGGGATCATCAAAACACCGAACCATCCGATGTAAAGACGAT 13 0.325 No Hit GCGATAATAAATACAGAAGTTGCGGTCAATAAGGTAGGGATCATCAAAAC 13 0.325 No Hit CGTCTCTCTAAAATTGCAGTCATGGTAAGATCTTGGTTTATTCAAATTGC 13 0.325 No Hit TGTGCTCTGCCTGGAATACAATCATAAAGTTGAAAGTACCAGATATTCCT 13 0.325 No Hit TTCAAGAGCAGCTAGATCTAGAGGGAAGTTGTGAGCATTACGTTCGTGCA 12 0.3 No Hit ATGAAGGCGATAATAAATACAGAAGTTGCGGTCAATAAGGTAGGGATCAT 12 0.3 No Hit TGCGGGAACTTCAAGAGCAGCTAGATCTAGAGGGAAGTTGTGAGCATTAC 12 0.3 No Hit CTGCCTGGAATACAATCATAAAGTTGAAAGTACCAGATATTCCTAAAGGC 12 0.3 No Hit AGGGGCTGCGATGAAGGCGATAATAAATACAGAAGTTGCGGTCAATAAGG 12 0.3 No Hit CACCATTGTATAACCATTCATCAACGGATGCAGCTTCCCAAATTGGGTAA 11 0.27499999999999997 No Hit CGCGAATACCATCAATATCTACTGGAGGGGCTGCGATGAAGGCGATAATA 10 0.25 No Hit GCTAGTTATCCAGTTGCAGAAGCGACCCCACAGGCTTGTACTTTCGCGTC 10 0.25 No Hit GTGAGCATTACGTTCGTGCATTACTTCCATACCAAGATTAGCACGGTTGA 9 0.22499999999999998 No Hit GCTGCGATGAAGGCGATAATAAATACAGAAGTTGCGGTCAATAAGGTAGG 9 0.22499999999999998 No Hit CGCGGGAACTTCAAGAGCAGCTAGATCTAGAGGGAAGTTGTGAGCATTAC 8 0.2 No Hit TTTCTTTTCTTCAAAAATTCTTATATGTTAGCGGAAAAACCTTATCCATT 8 0.2 No Hit TTCTTTTCTTCAAAAATTCTTATATGTTAGCGGAAAAACCTTATCCATTA 8 0.2 No Hit GCGCGACCTTGACTATCAACTACAGATTGGTTGAAATTGAATCCATTTAG 8 0.2 No Hit CGCAGCTGCAACAGGAGCTGAATATGCAACAGCAATCCAAGGGCGCATAC 8 0.2 No Hit GCTTTCTTTTCTTCAAAAATTCTTATATGTTAGCGGAAAAACCTTATCCA 8 0.2 No Hit CTAAAATTGCAGTCATGGTAAGATCTTGGTTTATTCAAATTGCAAGGACT 8 0.2 No Hit AATAAGGTAGGGATCATCAAAACACCGAACCATCCGATGTAAAGACGATT 7 0.17500000000000002 No Hit CTTTTCTTCAAAAATTCTTATATGTTAGCGGAAAAACCTTATCCATTAAT 7 0.17500000000000002 No Hit TAAGGATGTTGTGCTCTGCCTGGAATACAATCATAAAGTTGAAAGTACCA 7 0.17500000000000002 No Hit TGCTCTGCCTGGAATACAATCATAAAGTTGAAAGTACCAGATATTCCTAA 7 0.17500000000000002 No Hit CTTGACTATCAACTACAGATTGGTTGAAATTGAATCCATTTAGGTTGAAC 7 0.17500000000000002 No Hit GCCGAAAACACCAGCTACACCTAACATGTGAAATGGATGCATAAGGATGT 7 0.17500000000000002 No Hit TGATGATATCAGCCCAAGTATTAATAACGCGACCTTGACTATCAACTACA 7 0.17500000000000002 No Hit CCACCATTGTATAACCATTCATCAACGGATGCAGCTTCCCAAATTGGGTA 7 0.17500000000000002 No Hit CCACAATATTATAAGTCTCTTCCTCTTGACCAAATTTGTAACCCTCATTA 7 0.17500000000000002 No Hit AATAAATACAGAAGTTGCGGTCAATAAGGTAGGGATCATCAAAACACCGA 7 0.17500000000000002 No Hit TTGACTATCAACTACAGATTGGTTGAAATTGAATCCATTTAGGTTGAACG 7 0.17500000000000002 No Hit GTTGAAACTAGCATATTGGAAGATTAATCGGCCAAAATAACCATGAGCAG 7 0.17500000000000002 No Hit CTGGAGTAGGCTGCGAGGCCCAAGCGGCCAAGGAGTGCAGCGGCCCGTTA 6 0.15 No Hit CGACCTTGACTATCAACTACAGATTGGTTGAAATTGAATCCATTTAGGTT 6 0.15 No Hit TGTTGTGCTCTGCCTGGAATACAATCATAAAGTTGAAAGTACCAGATATT 6 0.15 No Hit CGCGGTCAATAAGGTAGGGATCATCAAAACACCGAACCATCCGATGTAAA 6 0.15 No Hit CGATAATAAATACAGAAGTTGCGGTCAATAAGGTAGGGATCATCAAAACA 6 0.15 No Hit CCAGATTCCTACTACAGGCCAAGCAGCCAAGAAGAAGTGTAAAGAACGAG 6 0.15 No Hit CCGAAAACACCAGCTACACCTAACATGTGAAATGGATGCATAAGGATGTT 6 0.15 No Hit GGGATCATCAAAACACCGAACCATCCGATGTAAAGACGATTTTCAGTGCT 6 0.15 No Hit GGGCTGCGATGAAGGCGATAATAAATACAGAAGTTGCGGTCAATAAGGTA 6 0.15 No Hit CCATTGTATAACCATTCATCAACGGATGCAGCTTCCCAAATTGGGTAAAA 6 0.15 No Hit GTTCGCTGGAGTAGGCTGCGAGGCCCAAGCGGCCAAGGAGTGCAGCGGCC 6 0.15 No Hit CTCATAAGGACCACCATTGTATAACCATTCATCAACGGATGCAGCTTCCC 6 0.15 No Hit ATAATAAATACAGAAGTTGCGGTCAATAAGGTAGGGATCATCAAAACACC 6 0.15 No Hit GCTAGATCTAGAGGGAAGTTGTGAGCATTACGTTCGTGCATTACTTCCAT 6 0.15 No Hit TAAAGAACGAGAGTTGTTGAAACTAGCATATTGGAAGATTAATCGGCCAA 6 0.15 No Hit AGCAGCCACAATATTATAAGTCTCTTCCTCTTGACCAAATTTGTAACCCT 6 0.15 No Hit GGAACTTCAAGAGCAGCTAGATCTAGAGGGAAGTTGTGAGCATTACGTTC 6 0.15 No Hit ATTAATAACGCGACCTTGACTATCAACTACAGATTGGTTGAAATTGAATC 6 0.15 No Hit GCAGCCACAATATTATAAGTCTCTTCCTCTTGACCAAATTTGTAACCCTC 6 0.15 No Hit GGGGCTGCGATGAAGGCGATAATAAATACAGAAGTTGCGGTCAATAAGGT 6 0.15 No Hit CCGCAGAAGTAGGAATAATAGCACCAGAGATAATATTGTTTCCATAAAGT 5 0.125 No Hit CTTCCTCTTGACCAAATTTGTAACCCTCATTAGCAGATTCATTTTCAGTA 5 0.125 No Hit CAGAGAAGCTTCCTTGACCAATAGGGTAAATCAAGAAAACAGCAGTCGCA 5 0.125 No Hit CGAGAGTTGTTGAAACTAGCATATTGGAAGATTAATCGGCCAAAATAACC 5 0.125 No Hit GCAGAAGTAGGAATAATAGCACCAGAGATAATATTGTTTCCATAAAGTAA 5 0.125 No Hit GCTAGTTATCCAGTTGCAGAAGCGACCCCACAGGCTTGTACTTTCGCGGC 5 0.125 No Hit CGTGCTCTGCCTGGAATACAATCATAAAGTTGAAAGTACCAGATATTCCT 5 0.125 No Hit ATAAGGACCACCATTGTATAACCATTCATCAACGGATGCAGCTTCCCAAA 5 0.125 No Hit CTGTAAACCACCCTCCTAAAGCGAAATAAGCACAAGGAAAGAGCAATAAG 5 0.125 No Hit CGCGTCTCTCTAAAATTGCAGTCATGGTAAGATCTTGGTTTATTCAAATT 5 0.125 No Hit GATGATATCAGCCCAAGTATTAATAACGCGACCTTGACTATCAACTACAG 5 0.125 No Hit ATCAACTACAGATTGGTTGAAATTGAATCCATTTAGGTTGAACGCCATAG 5 0.125 No Hit TGCGGTCAATAAGGTAGGGATCATCAAAACACCGAACCATCCGATGTAAA 5 0.125 No Hit TTTTCTTCAAAAATTCTTATATGTTAGCGGAAAAACCTTATCCATTAATA 5 0.125 No Hit GGCTGCGATGAAGGCGATAATAAATACAGAAGTTGCGGTCAATAAGGTAG 5 0.125 No Hit TTCAAAAATTCTTATATGTTAGCGGAAAAACCTTATCCATTAATAGCGGG 5 0.125 No Hit CGGTTGATGATATCAGCCCAAGTATTAATAACGCGACCTTGACTATCAAC 5 0.125 No Hit TGCCTGGAATACAATCATAAAGTTGAAAGTACCAGATATTCCTAAAGGCA 5 0.125 No Hit CTAGTTATCCAGTTGCAGAAGCGACCCCACAGGCTTGTACTTTCGCGTCT 5 0.125 No Hit GCCAACATTATGGGCCGCGAAGCCTAGCTTTCGCTTAAGCTCCAACGGCC 5 0.125 No Hit TAGTTATCCAGTTGCAGAAGCGACCCCACAGGCTTGTACTTTCGCGTCTC 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 GCGGGAA 30 0.004803603 29.679325 1 >>END_MODULE Read 1058375 spots for SRR1772237.sra Written 1058375 spots for SRR1772237.sra Read 1058375 spots for SRR1772237.sra Written 1058375 spots for SRR1772237.sra Read 1058375 spots for SRR1772237.sra Written 1058375 spots for SRR1772237.sra Read 1058375 spots for SRR1772237.sra Written 1058375 spots for SRR1772237.sra Read 1058375 spots for SRR1772237.sra Written 1058375 spots for SRR1772237.sra Read 1058375 spots for SRR1772237.sra Written 1058375 spots for SRR1772237.sra Read 1058375 spots for SRR1772237.sra Written 1058375 spots for SRR1772237.sra Read 1058375 spots for SRR1772237.sra Written 1058375 spots for SRR1772237.sra Read 1058375 spots for SRR1772237.sra Written 1058375 spots for SRR1772237.sra Read 1058375 spots for SRR1772237.sra Written 1058375 spots for SRR1772237.sra Read 1058384 spots for SRR1772237.sra Written 1058384 spots for SRR1772237.sra Read 1058375 spots for SRR1772237.sra Written 1058375 spots for SRR1772237.sra Read 1058375 spots for SRR1772237.sra Written 1058375 spots for SRR1772237.sra Read 1058375 spots for SRR1772237.sra Written 1058375 spots for SRR1772237.sra Read 1058375 spots for SRR1772237.sra Written 1058375 spots for SRR1772237.sra Read 1058375 spots for SRR1772237.sra Written 1058375 spots for SRR1772237.sra Read 1058375 spots for SRR1772237.sra Written 1058375 spots for SRR1772237.sra Read 1058375 spots for SRR1772237.sra Written 1058375 spots for SRR1772237.sra Read 1058375 spots for SRR1772237.sra Written 1058375 spots for SRR1772237.sra Read 1058375 spots for SRR1772237.sra Written 1058375 spots for SRR1772237.sra SRR ids: ['SRR1772237.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_sidggwz6 SRR1772237.sra spots: 21167509 blocks: [[1, 1058375], [1058376, 2116750], [2116751, 3175125], [3175126, 4233500], [4233501, 5291875], [5291876, 6350250], [6350251, 7408625], [7408626, 8467000], [8467001, 9525375], [9525376, 10583750], [10583751, 11642125], [11642126, 12700500], [12700501, 13758875], [13758876, 14817250], [14817251, 15875625], [15875626, 16934000], [16934001, 17992375], [17992376, 19050750], [19050751, 20109125], [20109126, 21167509]] SRR1772237 file size 3657847 SRR1772237 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 SRR1772237 SRR1772237_1.fastq Input file: SRR1772237_1.fastq trimmed: SRR1772237-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 Fri Dec 6 09:49:07 2024 >> started Fri Dec 6 09:49:20 2024 >> done (13.548s) 21167509 reads processed; of these: 2974 ( 0.01%) short reads filtered out after trimming by size control 380071 ( 1.80%) empty reads filtered out after trimming by size control 20784464 (98.19%) reads available; of these: 1030524 ( 4.96%) trimmed reads available after processing 19753940 (95.04%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 1735 0.01% 19 2631 0.01% 20 6873 0.03% 21 5875 0.03% 22 6868 0.03% 23 6854 0.03% 24 8550 0.04% 25 10181 0.05% 26 9972 0.05% 27 12954 0.06% 28 12656 0.06% 29 23036 0.11% 30 21188 0.10% 31 16926 0.08% 32 28697 0.14% 33 16193 0.08% 34 17576 0.08% 35 18506 0.09% 36 17901 0.09% 37 27941 0.13% 38 19656 0.09% 39 24309 0.12% 40 34058 0.16% 41 29600 0.14% 42 54003 0.26% 43 53831 0.26% 44 75465 0.36% 45 76996 0.37% 46 87350 0.42% 47 99581 0.48% 48 109678 0.53% 49 92884 0.45% 50 19753940 95.04% 20784464 reads passed initial QC criterion=sequence-density sequence-density=0.27 sequence-density-rank=1 fanout-score=0.00 fanout-score-rank=19 prefix-density=0.00 prefix-fanout=1.0 sequence=TGCGGGAACTTC criterion=fanout-score sequence-density=0.01 sequence-density-rank=43 fanout-score=62.93 fanout-score-rank=1 prefix-density=0.09 prefix-fanout=3.9 sequence=TTTTTATTTAGACCTTCTTCATATTTAGTTTTATCTATTAATCGATAGTATCTACCGGCGCGAACTCGAATTTGATCGCCTTCCATACTTCACAAGCTGCGGCTAGTTCAGGACTCCATTTGCAAGCTGCTCGGATAATTTCATTACCTTCACGAGCAAGATC Started job on | Dec 06 09:50:29 Started mapping on | Dec 06 09:50:29 Finished on | Dec 06 09:50:44 Mapping speed, Million of reads per hour | 4988.27 Number of input reads | 20784464 Average input read length | 49 UNIQUE READS: Uniquely mapped reads number | 4930623 Uniquely mapped reads % | 23.72% Average mapped length | 49.45 Number of splices: Total | 289591 Number of splices: Annotated (sjdb) | 272255 Number of splices: GT/AG | 283950 Number of splices: GC/AG | 3551 Number of splices: AT/AC | 132 Number of splices: Non-canonical | 1958 Mismatch rate per base, % | 0.27% Deletion rate per base | 0.01% Deletion average length | 1.49 Insertion rate per base | 0.01% Insertion average length | 1.38 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 15446686 % of reads mapped to multiple loci | 74.32% Number of reads mapped to too many loci | 123366 % of reads mapped to too many loci | 0.59% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.34% % of reads unmapped: other | 0.03% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 407155 407155 407155 N_multimapping 15446686 15446686 15446686 N_noFeature 1213148 4762927 1310732 N_ambiguous 117757 1292 47093 UnstrandedReadsAssigned:3599718 PositiveStrandReadsAssigned:166404 NegativeStrandReadsAssigned:3572798 Dataset is classified negative stranded MeadianReadLen=50 20thPercentileLength=50 echo kmer=45 SRR1772237 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: SRR1772237-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 20,784,464 reads, 17,038,214 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,078 rounds 52973 SRR1772237.ke.tsv 35125 SRR1772237.se.tsv 88098 total ==> SRR1772237.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 837 0 0 PNS24247 1044 945 0 0 PNS24249 1928 1829 63 2.25061 PNS24246 1044 945 0 0 PNS24248 1044 945 0 0 PNS24244 1471 1372 0 0 PNS24243 293 194 0 0 KQK14069 1603 1504 400.089 17.3813 KQK14071 474 375 48.4708 8.44544 ==> SRR1772237.se.tsv <== BRADI_1g14170v3 659 BRADI_1g53295v3 7 BRADI_1g59795v3 22 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 20 BRADI_1g74790v3 26 BRADI_1g09890v3 0 BRADI_1g77505v3 45 BRADI_1g48960v3 0 SRR1772237 completed mapping pipeline successfully