Starting /dee2/code/volunteer_pipeline.sh SRR5578450 current disk space = 1523384717312 free memory = 1572229552 SRR5578450 SRAfilesize 55484aeb8d5ee72b9f14d61ef57093e5 SRR5578450.sra SRR5578450.sra file validated SRR5578450 is paired end SRR5578450 is conventional basespace SRR5578450 read1 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5578450_1.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 151 %GC 47 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 33.4835 34.0 34.0 34.0 33.0 34.0 2 33.47175 34.0 34.0 34.0 33.0 34.0 3 33.5085 34.0 34.0 34.0 33.0 34.0 4 33.5185 34.0 34.0 34.0 33.0 34.0 5 33.4965 34.0 34.0 34.0 33.0 34.0 6 37.206 38.0 38.0 38.0 36.0 38.0 7 37.469 38.0 38.0 38.0 37.0 38.0 8 37.5265 38.0 38.0 38.0 38.0 38.0 9 37.54475 38.0 38.0 38.0 38.0 38.0 10-14 37.58535 38.0 38.0 38.0 38.0 38.0 15-19 37.5662 38.0 38.0 38.0 38.0 38.0 20-24 37.55605 38.0 38.0 38.0 38.0 38.0 25-29 37.48255 38.0 38.0 38.0 38.0 38.0 30-34 37.4331 38.0 38.0 38.0 38.0 38.0 35-39 37.3995 38.0 38.0 38.0 38.0 38.0 40-44 37.234249999999996 38.0 38.0 38.0 37.0 38.0 45-49 37.28015 38.0 38.0 38.0 37.0 38.0 50-54 37.262950000000004 38.0 38.0 38.0 37.0 38.0 55-59 37.25725 38.0 38.0 38.0 37.0 38.0 60-64 37.2325 38.0 38.0 38.0 37.0 38.0 65-69 37.1736 38.0 38.0 38.0 37.0 38.0 70-74 37.0194 38.0 38.0 38.0 36.6 38.0 75-79 36.8769 38.0 38.0 38.0 36.0 38.0 80-84 36.793000000000006 38.0 38.0 38.0 36.0 38.0 85-89 36.73855 38.0 38.0 38.0 35.8 38.0 90-94 36.64595 38.0 38.0 38.0 35.0 38.0 95-99 36.5646 38.0 38.0 38.0 35.0 38.0 100-104 36.5262 38.0 38.0 38.0 35.0 38.0 105-109 36.4212 38.0 38.0 38.0 35.0 38.0 110-114 36.32085 38.0 38.0 38.0 34.4 38.0 115-119 36.23305 38.0 38.0 38.0 34.0 38.0 120-124 36.090050000000005 38.0 38.0 38.0 33.8 38.0 125-129 35.96675 38.0 38.0 38.0 33.6 38.0 130-134 35.73505 38.0 37.4 38.0 32.8 38.0 135-139 35.4889 38.0 36.8 38.0 31.8 38.0 140-144 35.31425 38.0 36.0 38.0 31.2 38.0 145-149 34.7529 38.0 35.8 38.0 28.6 38.0 150-151 31.641750000000002 36.5 31.5 38.0 14.5 38.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 3 1.0 4 0.0 5 0.0 6 2.0 7 1.0 8 3.0 9 3.0 10 1.0 11 2.0 12 1.0 13 5.0 14 1.0 15 4.0 16 1.0 17 4.0 18 14.0 19 11.0 20 3.0 21 3.0 22 6.0 23 2.0 24 10.0 25 7.0 26 8.0 27 18.0 28 13.0 29 23.0 30 25.0 31 31.0 32 60.0 33 51.0 34 99.0 35 139.0 36 460.0 37 2988.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 43.65 12.325 10.6 33.425 2 28.085106382978726 11.81476846057572 30.312891113892366 29.78723404255319 3 25.275 16.950000000000003 23.125 34.65 4 27.05 23.825 22.925 26.200000000000003 5 25.674999999999997 26.650000000000002 26.724999999999998 20.95 6 22.975 32.4 25.6 19.025 7 17.25 23.549999999999997 42.15 17.05 8 19.225 25.974999999999998 30.95 23.849999999999998 9 19.875 23.200000000000003 35.325 21.6 10-14 22.71 27.71 27.12 22.46 15-19 21.605 27.195000000000004 27.089999999999996 24.11 20-24 22.31 25.669999999999998 27.97 24.05 25-29 21.925 27.145000000000003 28.375 22.555 30-34 21.89 27.6 27.015 23.494999999999997 35-39 22.62 26.71 27.279999999999998 23.39 40-44 24.175 26.009999999999998 26.235000000000003 23.580000000000002 45-49 23.56 27.315 27.150000000000002 21.975 50-54 24.759999999999998 26.279999999999998 26.51 22.45 55-59 22.825 27.055 26.695 23.425 60-64 21.34 28.055000000000003 25.814999999999998 24.79 65-69 21.73717371737174 28.577857785778576 26.17761776177618 23.50735073507351 70-74 22.634999999999998 28.194999999999997 25.490000000000002 23.68 75-79 22.5 25.52 26.61 25.369999999999997 80-84 23.91 27.034999999999997 25.6 23.455000000000002 85-89 23.525 26.365 26.575 23.535 90-94 23.515 26.25 26.935 23.3 95-99 22.16 26.064999999999998 27.589999999999996 24.185000000000002 100-104 23.74 26.810000000000002 26.135 23.315 105-109 23.630000000000003 27.075 25.695 23.599999999999998 110-114 22.075 25.915 26.090000000000003 25.919999999999998 115-119 22.065 27.665 25.885 24.385 120-124 23.605 26.71 24.67 25.014999999999997 125-129 23.62 27.685 23.715 24.98 130-134 24.635 26.72 24.145 24.5 135-139 22.735 27.87 26.05 23.345 140-144 23.385 27.49 25.095 24.03 145-149 23.755000000000003 27.779999999999998 23.285 25.180000000000003 150-151 23.6875 26.424999999999997 23.7 26.187500000000004 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 0.0 1 1.0 2 1.5 3 0.5 4 0.5 5 1.0 6 1.5 7 1.0 8 0.5 9 0.5 10 1.0 11 1.5 12 1.0 13 1.0 14 1.0 15 0.5 16 0.0 17 0.0 18 0.0 19 0.0 20 1.0 21 2.0 22 2.0 23 1.0 24 0.5 25 3.0 26 4.0 27 4.5 28 8.5 29 20.5 30 29.0 31 47.0 32 61.0 33 64.5 34 81.5 35 96.0 36 133.0 37 169.5 38 167.0 39 151.5 40 146.0 41 137.0 42 112.5 43 109.0 44 119.0 45 134.0 46 148.0 47 142.5 48 144.5 49 152.0 50 145.0 51 133.5 52 143.5 53 157.5 54 136.0 55 103.0 56 89.5 57 82.5 58 72.0 59 61.5 60 51.5 61 47.0 62 45.5 63 44.0 64 39.5 65 28.5 66 26.0 67 24.0 68 23.5 69 25.5 70 20.0 71 16.5 72 19.0 73 18.5 74 11.5 75 10.5 76 9.0 77 4.5 78 3.0 79 1.5 80 0.5 81 0.5 82 0.5 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 0.125 3 0.0 4 0.0 5 0.0 6 0.0 7 0.0 8 0.0 9 0.0 10-14 0.0 15-19 0.0 20-24 0.0 25-29 0.0 30-34 0.0 35-39 0.0 40-44 0.0 45-49 0.0 50-54 0.0 55-59 0.0 60-64 0.0 65-69 0.01 70-74 0.0 75-79 0.0 80-84 0.0 85-89 0.0 90-94 0.0 95-99 0.0 100-104 0.0 105-109 0.0 110-114 0.0 115-119 0.0 120-124 0.0 125-129 0.0 130-134 0.0 135-139 0.0 140-144 0.0 145-149 0.0 150-151 0.0 >>END_MODULE >>Sequence Length Distribution pass #Length Count 151 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 76.44999999999999 #Duplication Level Percentage of deduplicated Percentage of total 1 88.55461085676913 67.7 2 5.951602354480053 9.1 3 2.158273381294964 4.95 4 1.1772400261608895 3.5999999999999996 5 0.45781556572923476 1.7500000000000002 6 0.6540222367560496 3.0 7 0.09810333551340746 0.525 8 0.1962066710268149 1.2 9 0.1635055591890124 1.125 >10 0.5886200130804448 7.049999999999999 >50 0.0 0.0 >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 GCCTTATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGA 41 1.0250000000000001 No Hit GCCTCACTTAGTTACAGTTTTATGGATAATTGGGATATTCTTTGGTATAG 25 0.625 No Hit CTTATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGT 20 0.5 No Hit GATCGGAAGAGCACACGTCTGAACTCCAGTCACAGGCCGATCTCGTATGC 20 0.5 TruSeq Adapter, Index 13 (97% over 37bp) GGATAATTGGGATATTCTTTGGTATAGTTGGGATTTTAATATCATTAATA 19 0.475 No Hit GGAAGCTATACTATATAGGTGGCTATCTATCCCTACCAAGGCTTATATTG 19 0.475 No Hit CCCATTTTTAGTTATAATGATGCCTTATGTGATAGATGCCTCTTTAAAAT 15 0.375 No Hit GGGGTTATGAGTAGGGATGAGCATAAACCAACAACTCTCAAAGAAGATGG 13 0.325 No Hit GGGATATTCTTTGGTATAGTTGGGATTTTAATATCATTAATAGCATGATG 13 0.325 No Hit CTCACTTAGTTACAGTTTTATGGATAATTGGGATATTCTTTGGTATAGTT 12 0.3 No Hit TGGCTATCTATCCCTACCAAGGCTTATATTGAAGTATAAACCAATGAGAG 12 0.3 No Hit GTGGCTATCTATCCCTACCAAGGCTTATATTGAAGTATAAACCAATGAGA 11 0.27499999999999997 No Hit CCAGGAGATGTTGGAACTCTACCAATTGGAGCTTTCTTAGCTGTCTTAGC 11 0.27499999999999997 No Hit CGGCTGTCGAGTTGTACGGCCGTTCAGCCACGAGTCACGGGGTCTAACGC 11 0.27499999999999997 No Hit GGGGATAATTGCGCGGTTTTGACTGCGGAAGGAAGCCAAGGCCCACCTAA 10 0.25 No Hit GGGAAGCTATACTATATAGGTGGCTATCTATCCCTACCAAGGCTTATATT 10 0.25 No Hit GTAGTTTATAAGGAATATATCCCATTTTTAGTTATAATGATGCCTTATGT 10 0.25 No Hit GGATATTCTTTGGTATAGTTGGGATTTTAATATCATTAATAGCATGATGG 10 0.25 No Hit GGGCTATTGATATTTAACAAATATCCAGCAAAGGTTTTTCCAGGAGATGT 9 0.22499999999999998 No Hit GTTATGAGTAGGGATGAGCATAAACCAACAACTCTCAAAGAAGATGGGAA 9 0.22499999999999998 No Hit CCTCACTTAGTTACAGTTTTATGGATAATTGGGATATTCTTTGGTATAGT 9 0.22499999999999998 No Hit ATGCCTTATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTAT 9 0.22499999999999998 No Hit AGGAGATGTTGGAACTCTACCAATTGGAGCTTTCTTAGCTGTCTTAGCAG 9 0.22499999999999998 No Hit GTCCGGGGGGGTCACTTATCCTGGGCTTCATCCAATGGTGGGTGCTAACT 8 0.2 No Hit GTCCTTACAAGTCCGCTCCTCGGGGAGCTTGATTGATAATTCTGTATAAG 8 0.2 No Hit TGGGAAGCTATACTATATAGGTGGCTATCTATCCCTACCAAGGCTTATAT 8 0.2 No Hit GTTGGAACTCTACCAATTGGAGCTTTCTTAGCTGTCTTAGCAGTAGTTTA 8 0.2 No Hit GATGCCTTATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTA 8 0.2 No Hit GTTTTATGGATAATTGGGATATTCTTTGGTATAGTTGGGATTTTAATATC 8 0.2 No Hit GGGATTTTAATATCATTAATAGCATGATGGTGATTGTTTTGAAAACCATA 7 0.17500000000000002 No Hit CTTTGGTATAGTTGGGATTTTAATATCATTAATAGCATGATGGTGATTGT 7 0.17500000000000002 No Hit GTGGATGTTGTTGTTAGACACTTCTTTTTGTCTTTAAATATAAGGCGTGG 7 0.17500000000000002 No Hit CGGGGAACAGTCGCATGACGAGGCAGTTTCCAGAAACGTGTATCACATCT 6 0.15 No Hit GCCCATAACAATAGGAAATATCAGAAATCCAATAAGAATCAGCAATTCAG 6 0.15 No Hit GCCCTGACCCCGGGGAACAGTCGCATGACGAGGCAGTTTCCAGAAACGTG 6 0.15 No Hit GCCCGTTTCAGGTGGTCCTCAGCGTACGGCGGGACCTCTGAGAATTGGGA 6 0.15 No Hit ATCACATCTAGGCATGGAATCTTATGCCAGCTAACGGAACAAGCTTTGTG 6 0.15 No Hit GGCTATTGATATTTAACAAATATCCAGCAAAGGTTTTTCCAGGAGATGTT 6 0.15 No Hit CGTCGAGACTGAAAAGCTATAACCCGCAGACCCGAGCGAAAGCGGCGGTC 6 0.15 No Hit GGACAACTGATGGACCCACGTTGCGAGTCCAGTAAATCAGGACGGGGATA 6 0.15 No Hit GTGTACACCGCCCTTAGACGTCTTGGTATACGGACAACTGATGGACCCAC 6 0.15 No Hit GCAGTTTCCAGAAACGTGTATCACATCTAGGCATGGAATCTTATGCCAGC 6 0.15 No Hit GGATGTTGTTGTTAGACACTTCTTTTTGTCTTTAAATATAAGGCGTGGTA 6 0.15 No Hit GTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGTAGGGA 6 0.15 No Hit AGCAGTAGTTTATAAGGAATATATCCCATTTTTAGTTATAATGATGCCTT 6 0.15 No Hit CTCCTTCCCGCGGTCAAGGCGAAACCGCAGCAAACTTCCTCAGACGCTGC 6 0.15 No Hit CGGGGATAATTGCGCGGTTTTGACTGCGGAAGGAAGCCAAGGCCCACCTA 6 0.15 No Hit CTTTGATATTCTCTGCATCCTATTTAGGGCTATTGATATTTAACAAATAT 6 0.15 No Hit GTCGAGTTGTACGGCCGTTCAGCCACGAGTCACGGGGTCTAACGCCTACC 6 0.15 No Hit GCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGTAGGGATGAGCATAA 6 0.15 No Hit GTGCCATTCGGACCTACCGTAAGCCTATATTTCGTTTTTCTGAGACCTAT 6 0.15 No Hit GTCGAGACTGAAAAGCTATAACCCGCAGACCCGAGCGAAAGCGGCGGTCC 6 0.15 No Hit GCTGGGGTTATGAGTAGGGATGAGCATAAACCAACAACTCTCAAAGAAGA 5 0.125 No Hit CAGGAGATGTTGGAACTCTACCAATTGGAGCTTTCTTAGCTGTCTTAGCA 5 0.125 No Hit GGAGCTTTCTTAGCTGTCTTAGCAGTAGTTTATAAGGAATATATCCCATT 5 0.125 No Hit GCCAGCTAACGGAACAAGCTTTGTGCCATTCGGACCTACCGTAAGCCTAT 5 0.125 No Hit CCCGTCGAGACTGAAAAGCTATAACCCGCAGACCCGAGCGAAAGCGGCGG 5 0.125 No Hit CCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGTAGGGATGAGCATAAA 5 0.125 No Hit CCCACCTAAAGTATGCTGCAAACATATGCAGATCCCCTGAGACAGAGTCG 5 0.125 No Hit CCGGGGAACAGTCGCATGACGAGGCAGTTTCCAGAAACGTGTATCACATC 5 0.125 No Hit GCTATCTATCCCTACCAAGGCTTATATTGAAGTATAAACCAATGAGAGAG 5 0.125 No Hit GTCGCAGTTTTCCTCAAATCCCGCCACGAAACTAAGCGATTGAACTCTTG 5 0.125 No Hit GGTCCTTACAAGTCCGCTCCTCGGGGAGCTTGATTGATAATTCTGTATAA 5 0.125 No Hit CCGAGTTCAGTGCGACCGTACAGCTCTGGAACCCAAAGGTTCGTTTTTTT 5 0.125 No Hit GGGATAATTGCGCGGTTTTGACTGCGGAAGGAAGCCAAGGCCCACCTAAA 5 0.125 No Hit CTGACCCCGGGGAACAGTCGCATGACGAGGCAGTTTCCAGAAACGTGTAT 5 0.125 No Hit >>END_MODULE >>Adapter Content fail #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 0.0 0.0 0.0 0.0 0.0 44-45 0.0 0.0 0.0 0.0 0.0 46-47 0.0 0.0 0.0 0.0 0.0 48-49 0.0 0.0 0.0 0.0 0.0 50-51 0.0 0.0 0.0 0.0 0.0 52-53 0.0 0.0 0.0 0.0 0.0 54-55 0.0 0.0 0.0 0.0 0.0 56-57 0.0 0.0 0.0 0.0 0.0 58-59 0.0 0.0 0.0 0.0 0.0 60-61 0.0125 0.0 0.0 0.0 0.0 62-63 0.037500000000000006 0.0 0.0 0.0 0.0 64-65 0.075 0.0 0.0 0.0 0.0 66-67 0.075 0.0 0.0 0.0 0.0 68-69 0.075 0.0 0.0 0.0 0.0 70-71 0.125 0.0 0.0 0.0 0.0 72-73 0.15 0.0 0.0 0.0 0.0 74-75 0.175 0.0 0.0 0.0 0.0 76-77 0.225 0.0 0.0 0.0 0.0 78-79 0.30000000000000004 0.0 0.0 0.0 0.0 80-81 0.375 0.0 0.0 0.0 0.0 82-83 0.425 0.0 0.0 0.0 0.0 84-85 0.55 0.0 0.0 0.0 0.0 86-87 0.6375 0.0 0.0 0.0 0.0 88-89 0.7375 0.0 0.0 0.0 0.0 90-91 0.8625 0.0 0.0 0.0 0.0 92-93 0.975 0.0 0.0 0.0 0.0 94-95 1.2000000000000002 0.0 0.0 0.0 0.0 96-97 1.4625 0.0 0.0 0.0 0.0 98-99 1.725 0.0 0.0 0.0 0.0 100-101 2.025 0.0 0.0 0.0 0.0 102-103 2.425 0.0 0.0 0.0 0.0 104-105 2.8 0.0 0.0 0.0 0.0 106-107 3.125 0.0 0.0 0.0 0.0 108-109 3.5375 0.0 0.0 0.0 0.0 110-111 3.825 0.0 0.0 0.0 0.0 112-113 4.1875 0.0 0.0 0.0 0.0 114-115 5.0 0.0 0.0 0.0 0.0 116-117 5.7 0.0 0.0 0.0 0.0 118-119 6.4625 0.0 0.0 0.0 0.0 120-121 7.2875 0.0 0.0 0.0 0.0 122-123 8.125 0.0 0.0 0.0 0.0 124-125 8.925 0.0 0.0 0.0 0.0 126-127 9.625 0.0 0.0 0.0 0.0 128-129 10.3625 0.0 0.0 0.0 0.0 130-131 11.1875 0.0 0.0 0.0 0.0 132-133 11.9125 0.0 0.0 0.0 0.0 134-135 12.524999999999999 0.0 0.0 0.0 0.0 136-137 13.275 0.0 0.0 0.0 0.0 138-139 14.15 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position ACCGCGC 10 0.006843168 144.91249 145 TTGAAAA 40 0.0076817307 18.114063 140-144 >>END_MODULE SRR5578450 read2 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5578450_2.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 151 %GC 47 >>END_MODULE >>Per base sequence quality fail #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 32.08175 33.0 33.0 34.0 31.0 34.0 2 32.28375 33.0 33.0 34.0 31.0 34.0 3 32.1465 33.0 33.0 34.0 29.0 34.0 4 32.16225 33.0 33.0 34.0 31.0 34.0 5 32.15775 33.0 33.0 34.0 31.0 34.0 6 36.18575 38.0 38.0 38.0 33.0 38.0 7 36.129 38.0 38.0 38.0 33.0 38.0 8 36.1415 38.0 38.0 38.0 33.0 38.0 9 36.108 38.0 38.0 38.0 33.0 38.0 10-14 36.10045000000001 38.0 38.0 38.0 33.0 38.0 15-19 36.04705 38.0 38.0 38.0 32.8 38.0 20-24 35.9258 38.0 37.6 38.0 32.6 38.0 25-29 35.759 38.0 37.2 38.0 32.2 38.0 30-34 35.51065 38.0 37.0 38.0 29.4 38.0 35-39 35.29325 38.0 37.0 38.0 29.0 38.0 40-44 35.2254 38.0 36.6 38.0 28.8 38.0 45-49 34.96965 38.0 36.0 38.0 27.8 38.0 50-54 34.61555 38.0 35.6 38.0 27.0 38.0 55-59 34.408 38.0 35.0 38.0 25.8 38.0 60-64 34.27155 38.0 35.0 38.0 25.0 38.0 65-69 33.9091 38.0 34.0 38.0 21.0 38.0 70-74 33.41045 38.0 34.0 38.0 16.0 38.0 75-79 33.05225 38.0 33.6 38.0 15.6 38.0 80-84 32.527100000000004 37.4 32.2 38.0 15.0 38.0 85-89 32.00535 37.2 30.2 38.0 15.0 38.0 90-94 31.32525 37.0 29.0 38.0 14.8 38.0 95-99 30.5859 36.0 27.6 38.0 13.8 38.0 100-104 29.93945 35.6 25.2 38.0 13.0 38.0 105-109 28.89475 35.0 22.6 38.0 8.6 38.0 110-114 27.9515 34.4 17.4 38.0 2.0 38.0 115-119 26.765800000000002 34.0 15.0 38.0 2.0 38.0 120-124 25.88295 33.8 14.6 38.0 2.0 38.0 125-129 24.480150000000002 31.8 13.4 37.4 2.0 38.0 130-134 22.925950000000004 28.4 6.4 36.2 2.0 38.0 135-139 21.40825 25.0 2.0 35.4 2.0 38.0 140-144 19.57045 20.6 2.0 35.0 2.0 38.0 145-149 16.742900000000002 9.0 2.0 33.6 2.0 38.0 150-151 12.336125 2.0 2.0 27.5 2.0 35.5 >>END_MODULE >>Per sequence quality scores pass #Quality Count 2 30.0 3 7.0 4 9.0 5 9.0 6 5.0 7 9.0 8 7.0 9 9.0 10 10.0 11 4.0 12 10.0 13 18.0 14 19.0 15 23.0 16 33.0 17 36.0 18 34.0 19 37.0 20 49.0 21 60.0 22 68.0 23 71.0 24 93.0 25 90.0 26 114.0 27 147.0 28 150.0 29 154.0 30 198.0 31 249.0 32 280.0 33 371.0 34 436.0 35 491.0 36 466.0 37 204.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 35.93593593593594 21.396396396396398 13.138138138138139 29.52952952952953 2 29.657414353588397 27.45686421605401 23.58089522380595 19.30482620655164 3 23.059589384076116 24.611917876815223 28.743114672008012 23.585378067100653 4 24.86229344016024 30.771156735102657 22.608913370055085 21.75763645468202 5 27.584480600750936 32.96620775969962 20.175219023779725 19.27409261576971 6 23.549999999999997 34.0 21.325 21.125 7 23.325000000000003 21.25 34.625 20.8 8 23.14235676757568 24.618463847885916 25.143857893420062 27.09532149111834 9 23.63090772693173 23.58089522380595 27.85696424106027 24.93123280820205 10-14 25.73172562165407 26.487216690849053 23.24510932105869 24.535948366438184 15-19 25.308919905948272 26.69468207514133 24.63354845164841 23.362849567261996 20-24 25.347604281284386 26.50295088526558 24.427328198459538 23.7221166349905 25-29 25.629999999999995 26.605 24.255 23.51 30-34 27.38154863267555 26.159471100871485 24.035860963638182 22.423119302814783 35-39 25.53607214428858 25.315631262525052 24.9248496993988 24.223446893787575 40-44 25.364023017262948 26.154615961971476 25.198899174380784 23.282461846384788 45-49 25.98137392349289 25.190266372922093 26.026437011816544 22.801922691768475 50-54 25.19515612489992 24.939951961569257 27.32686148919135 22.53803042433947 55-59 23.487918355095303 26.104357396568112 27.585171844514484 22.8225524038221 60-64 23.11271199159538 26.31447296012807 27.12992145680124 23.44289359147531 65-69 23.588871096877504 27.496997598078465 26.311048839071255 22.60308246597278 70-74 23.80071031964384 26.937121704767147 25.726576959631835 23.53559101595718 75-79 22.9602562819101 27.615376914606067 25.89848833717089 23.525878466312943 80-84 23.893584037605642 27.184077611641744 25.808871330699606 23.113467020053008 85-89 22.727272727272727 27.597759775977597 26.587658765876586 23.087308730873087 90-94 23.64827689691392 27.779722903016058 25.573950882808983 22.998049317261042 95-99 22.847566161388762 28.20551303216769 26.494572014608035 22.45234879183551 100-104 24.195 28.744999999999997 24.67 22.39 105-109 23.720674303436546 29.06307838527337 24.60107048171677 22.615176829573308 110-114 23.21544695112801 28.63788704917213 24.225901655745087 23.92076434395478 115-119 23.938590788618292 29.83447517127569 23.933590038505777 22.29334400160024 120-124 24.001200060003 30.136506825341268 23.746187309365467 22.116105805290264 125-129 24.16483296659332 30.21604320864173 23.324664932986597 22.29445889177836 130-134 24.49489897979596 28.780756151230246 24.589917983596717 22.134426885377074 135-139 24.981249062453124 30.041502075103754 23.14615730786539 21.83109155457773 140-144 25.806290314515728 29.49647482374119 23.401170058502927 21.29606480324016 145-149 25.85 29.29 23.185 21.675 150-151 25.900000000000002 30.7375 22.287499999999998 21.075 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 0.0 1 0.0 2 0.0 3 0.5 4 0.5 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 0.5 14 1.0 15 1.5 16 1.0 17 0.0 18 0.5 19 1.0 20 1.5 21 1.5 22 1.5 23 1.5 24 1.5 25 2.5 26 2.0 27 5.0 28 11.0 29 9.5 30 16.0 31 33.5 32 42.5 33 42.5 34 48.5 35 69.5 36 94.0 37 127.0 38 156.5 39 163.5 40 208.5 41 183.0 42 108.0 43 108.0 44 117.5 45 113.5 46 116.5 47 130.5 48 142.5 49 148.0 50 144.5 51 144.5 52 145.0 53 157.5 54 165.5 55 147.0 56 120.0 57 105.0 58 85.5 59 65.0 60 63.0 61 57.0 62 41.0 63 37.0 64 35.5 65 32.5 66 34.5 67 30.5 68 22.5 69 24.0 70 23.5 71 18.5 72 17.5 73 16.5 74 14.5 75 11.5 76 10.0 77 5.5 78 3.5 79 3.5 80 1.0 81 1.0 82 1.0 83 0.5 84 0.5 85 0.5 86 0.5 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 0.1 2 0.025 3 0.15 4 0.15 5 0.125 6 0.0 7 0.0 8 0.075 9 0.025 10-14 0.065 15-19 0.055 20-24 0.03 25-29 0.0 30-34 0.16999999999999998 35-39 0.2 40-44 0.075 45-49 0.13999999999999999 50-54 0.08 55-59 0.055 60-64 0.055 65-69 0.08 70-74 0.045 75-79 0.11 80-84 0.015 85-89 0.01 90-94 0.034999999999999996 95-99 0.055 100-104 0.0 105-109 0.045 110-114 0.045 115-119 0.015 120-124 0.005 125-129 0.02 130-134 0.02 135-139 0.005 140-144 0.005 145-149 0.0 150-151 0.0 >>END_MODULE >>Sequence Length Distribution pass #Length Count 151 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 76.05 #Duplication Level Percentage of deduplicated Percentage of total 1 89.08612754766601 67.75 2 6.11439842209073 9.3 3 1.7751479289940828 4.05 4 0.8875739644970414 2.7 5 0.3287310979618672 1.25 6 0.4930966469428008 2.25 7 0.39447731755424065 2.1 8 0.09861932938856016 0.6 9 0.1643655489809336 1.125 >10 0.6574621959237344 8.875 >50 0.0 0.0 >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 warn #Sequence Count Percentage Possible Source CATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAAT 39 0.975 No Hit AATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGA 31 0.775 No Hit CCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGT 25 0.625 No Hit CCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGG 25 0.625 No Hit GGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTT 24 0.6 No Hit GGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTC 23 0.575 No Hit GAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCC 20 0.5 No Hit TAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGT 19 0.475 No Hit ATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAG 19 0.475 No Hit ATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATA 17 0.42500000000000004 No Hit CTTCAATATAAGCCTTGGTAGGGATAGATAGCCACCTATATAGTATAGCT 14 0.35000000000000003 No Hit GCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCC 13 0.325 No Hit GTAGGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGAT 12 0.3 No Hit TAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGG 12 0.3 No Hit GGACATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCC 11 0.27499999999999997 No Hit GTGAGGCTCTCTCATTGGTTTATACTTCAATATAAGCCTTGGTAGGGATA 11 0.27499999999999997 No Hit AGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTT 10 0.25 No Hit CCCAATTATCCATAAAACTGTAACTAAGTGAGGCTCTCTCATTGGTTTAT 10 0.25 No Hit GGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTCAAAACAATCAC 10 0.25 No Hit GATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCG 10 0.25 Illumina Single End PCR Primer 1 (100% over 50bp) AGCTGCTCACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGATCGTG 9 0.22499999999999998 No Hit CAATTATCCATAAAACTGTAACTAAGTGAGGCTCTCTCATTGGTTTATAC 9 0.22499999999999998 No Hit AAAGAATATCCCAATTATCCATAAAACTGTAACTAAGTGAGGCTCTCTCA 9 0.22499999999999998 No Hit CTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTT 9 0.22499999999999998 No Hit GCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATG 9 0.22499999999999998 No Hit GACATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCA 8 0.2 No Hit AAGCTGCTCACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGATCGT 8 0.2 No Hit GGTAGGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGA 8 0.2 No Hit ACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTCAAAACAATC 7 0.17500000000000002 No Hit CTTCCATTTCCGCCCAAGCTGCTCACAGTATACGGGCGTCGGCATCCAGA 7 0.17500000000000002 No Hit GCCCAAGCTGCTCACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGA 7 0.17500000000000002 No Hit GGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATGGT 7 0.17500000000000002 No Hit CAAGCTGCTCACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGATCG 7 0.17500000000000002 No Hit AAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTA 7 0.17500000000000002 No Hit CTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTCA 7 0.17500000000000002 No Hit GAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATGGTT 7 0.17500000000000002 No Hit CGCCACAGGCGTCATACTTCCCAAGAAGCGGCCATAGCCCAGATGCGAGG 7 0.17500000000000002 No Hit GACGAATTGCCAGAATTATTAACTGCGCAGTTAGGGCAGCGTCTGAGGAA 7 0.17500000000000002 No Hit TAGGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATG 7 0.17500000000000002 No Hit CGAATAGCTCGTAACCAAACATGCACAGCGGTCAAACAGTATGTCCCAAG 7 0.17500000000000002 No Hit CAATAGGAGGTTTCCTCCTATGGTTTTCAAAACAATCACCATCATGCTAT 6 0.15 No Hit CACGCCACAGGCGTCATACTTCCCAAGAAGCGGCCATAGCCCAGATGCGA 6 0.15 No Hit CCTTGACCGCGGGAAGGAGACATAACGATAGCGACTCTGTCTCAGGGGAT 6 0.15 No Hit TGGACATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCC 6 0.15 No Hit CTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCT 6 0.15 No Hit GCTGCTCACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGATCGTGG 6 0.15 No Hit TAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTT 6 0.15 No Hit CTCTCATTGGTTTATACTTCAATATAAGCCTTGGTAGGGATAGATAGCCA 6 0.15 No Hit GCCACAGGCGTCATACTTCCCAAGAAGCGGCCATAGCCCAGATGCGAGGT 6 0.15 No Hit GGGATAGATAGCCACCTATATAGTATAGCTTCCCATCTTCTTTGAGAGTT 6 0.15 No Hit ACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTC 6 0.15 No Hit AAACAATCACCATCATGCTATTAATGATATTAAAATCCCAACTATACCAA 6 0.15 No Hit TGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATGGTTTTT 6 0.15 No Hit GGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTCAAAACAA 6 0.15 No Hit GGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATGGTTTTTAC 6 0.15 No Hit CGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTCAAAACAATCA 5 0.125 No Hit CATTTCCGCCCAAGCTGCTCACAGTATACGGGCGTCGGCATCCAGACCGT 5 0.125 No Hit CGTCGCTCTTCGTTGTTCGTCGACTTCTAGTGTGGAGACGAATTGCCAGA 5 0.125 No Hit GATTACTTCCATTTCCGCCCAAGCTGCTCACAGTATACGGGCGTCGGCAT 5 0.125 No Hit TGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTC 5 0.125 No Hit AAAACTGTAACTAAGTGAGGCTCTCTCATTGGTTTATACTTCAATATAAG 5 0.125 No Hit CACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGATCGTGGTTTTAC 5 0.125 No Hit AGAATATCCCAATTATCCATAAAACTGTAACTAAGTGAGGCTCTCTCATT 5 0.125 No Hit TCCATTTCCGCCCAAGCTGCTCACAGTATACGGGCGTCGGCATCCAGACC 5 0.125 No Hit ACGCCACAGGCGTCATACTTCCCAAGAAGCGGCCATAGCCCAGATGCGAG 5 0.125 No Hit >>END_MODULE >>Adapter Content warn #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 0.0 0.0 0.0 0.0 0.0 44-45 0.0 0.0 0.0 0.0 0.0 46-47 0.0 0.0 0.0 0.0 0.0 48-49 0.0 0.0 0.0 0.0 0.0 50-51 0.0 0.0 0.0 0.0 0.0 52-53 0.0 0.0 0.0 0.0 0.0 54-55 0.0 0.0 0.0 0.0 0.0 56-57 0.0 0.0 0.0 0.0 0.0 58-59 0.0 0.0 0.0 0.0 0.0 60-61 0.0125 0.0 0.0 0.0 0.0 62-63 0.037500000000000006 0.0 0.0 0.0 0.0 64-65 0.075 0.0 0.0 0.0 0.0 66-67 0.075 0.0 0.0 0.0 0.0 68-69 0.075 0.0 0.0 0.0 0.0 70-71 0.125 0.0 0.0 0.0 0.0 72-73 0.15 0.0 0.0 0.0 0.0 74-75 0.175 0.0 0.0 0.0 0.0 76-77 0.225 0.0 0.0 0.0 0.0 78-79 0.275 0.0 0.0 0.0 0.0 80-81 0.35 0.0 0.0 0.0 0.0 82-83 0.375 0.0 0.0 0.0 0.0 84-85 0.4375 0.0 0.0 0.0 0.0 86-87 0.4875 0.0 0.0 0.0 0.0 88-89 0.525 0.0 0.0 0.0 0.0 90-91 0.6000000000000001 0.0 0.0 0.0 0.0 92-93 0.6875 0.0 0.0 0.0 0.0 94-95 0.8125 0.0 0.0 0.0 0.0 96-97 1.0 0.0 0.0 0.0 0.0 98-99 1.2125 0.0 0.0 0.0 0.0 100-101 1.375 0.0 0.0 0.0 0.0 102-103 1.625 0.0 0.0 0.0 0.0 104-105 1.825 0.0 0.0 0.0 0.0 106-107 2.0 0.0 0.0 0.0 0.0 108-109 2.325 0.0 0.0 0.0 0.0 110-111 2.4625 0.0 0.0 0.0 0.0 112-113 2.6625 0.0 0.0 0.0 0.0 114-115 3.1875 0.0 0.0 0.0 0.0 116-117 3.625 0.0 0.0 0.0 0.0 118-119 4.1125 0.0 0.0 0.0 0.0 120-121 4.6 0.0 0.0 0.0 0.0 122-123 5.137499999999999 0.0 0.0 0.0 0.0 124-125 5.5875 0.0 0.0 0.0 0.0 126-127 5.9375 0.0 0.0 0.0 0.0 128-129 6.262499999999999 0.0 0.0 0.0 0.0 130-131 6.7 0.0 0.0 0.0 0.0 132-133 7.0375 0.0 0.0 0.0 0.0 134-135 7.4125 0.0 0.0 0.0 0.0 136-137 7.8125 0.0 0.0 0.0 0.0 138-139 8.3625 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Read 723805 spots for SRR5578450.sra Written 723805 spots for SRR5578450.sra Read 723805 spots for SRR5578450.sra Written 723805 spots for SRR5578450.sra Read 723805 spots for SRR5578450.sra Written 723805 spots for SRR5578450.sra Read 723805 spots for SRR5578450.sra Written 723805 spots for SRR5578450.sra Read 723805 spots for SRR5578450.sra Written 723805 spots for SRR5578450.sra Read 723805 spots for SRR5578450.sra Written 723805 spots for SRR5578450.sra Read 723805 spots for SRR5578450.sra Written 723805 spots for SRR5578450.sra Read 723805 spots for SRR5578450.sra Written 723805 spots for SRR5578450.sra Read 723805 spots for SRR5578450.sra Written 723805 spots for SRR5578450.sra Read 723805 spots for SRR5578450.sra Written 723805 spots for SRR5578450.sra Read 723805 spots for SRR5578450.sra Written 723805 spots for SRR5578450.sra Read 723805 spots for SRR5578450.sra Written 723805 spots for SRR5578450.sra Read 723818 spots for SRR5578450.sra Written 723818 spots for SRR5578450.sra Read 723805 spots for SRR5578450.sra Written 723805 spots for SRR5578450.sra Read 723805 spots for SRR5578450.sra Written 723805 spots for SRR5578450.sra Read 723805 spots for SRR5578450.sra Written 723805 spots for SRR5578450.sra Read 723805 spots for SRR5578450.sra Written 723805 spots for SRR5578450.sra Read 723805 spots for SRR5578450.sra Written 723805 spots for SRR5578450.sra Read 723805 spots for SRR5578450.sra Written 723805 spots for SRR5578450.sra Read 723805 spots for SRR5578450.sra Written 723805 spots for SRR5578450.sra SRR ids: ['SRR5578450.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_ra7yrpuq SRR5578450.sra spots: 14476113 blocks: [[1, 723805], [723806, 1447610], [1447611, 2171415], [2171416, 2895220], [2895221, 3619025], [3619026, 4342830], [4342831, 5066635], [5066636, 5790440], [5790441, 6514245], [6514246, 7238050], [7238051, 7961855], [7961856, 8685660], [8685661, 9409465], [9409466, 10133270], [10133271, 10857075], [10857076, 11580880], [11580881, 12304685], [12304686, 13028490], [13028491, 13752295], [13752296, 14476113]] SRR5578450 file size 4883779 SRR5578450 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 SRR5578450 SRR5578450_1.fastq SRR5578450_2.fastq Input file: SRR5578450_1.fastq Paired file: SRR5578450_2.fastq trimmed: SRR5578450-trimmed-pair1.fastq, SRR5578450-trimmed-pair2.fastq Parameters used: -- 3' end adapter sequence (-x): AGATCGGAAGAGCACACGTCTGAACTCCAGTCAC -- paired 3' end adapter sequence (-y): AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTA -- 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 -- number of concurrent threads (-t): 20 Mon Dec 9 18:03:21 2024 >> started Mon Dec 9 18:03:39 2024 >> done (17.865s) 14476113 read pairs processed; of these: 41651 ( 0.29%) short read pairs filtered out after trimming by size control 121058 ( 0.84%) empty read pairs filtered out after trimming by size control 14313404 (98.88%) read pairs available; of these: 8526119 (59.57%) trimmed read pairs available after processing 5787285 (40.43%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 18 4 0.00% 19 5 0.00% 20 4 0.00% 21 13 0.00% 22 22 0.00% 23 18 0.00% 24 39 0.00% 25 17 0.00% 26 23 0.00% 27 36 0.00% 28 34 0.00% 29 29 0.00% 30 35 0.00% 31 38 0.00% 32 37 0.00% 33 24 0.00% 34 35 0.00% 35 47 0.00% 36 46 0.00% 37 37 0.00% 38 34 0.00% 39 45 0.00% 40 57 0.00% 41 74 0.00% 42 76 0.00% 43 83 0.00% 44 113 0.00% 45 140 0.00% 46 115 0.00% 47 167 0.00% 48 232 0.00% 49 228 0.00% 50 273 0.00% 51 315 0.00% 52 364 0.00% 53 423 0.00% 54 359 0.00% 55 360 0.00% 56 416 0.00% 57 487 0.00% 58 529 0.00% 59 634 0.00% 60 691 0.00% 61 815 0.01% 62 891 0.01% 63 971 0.01% 64 1207 0.01% 65 1527 0.01% 66 1942 0.01% 67 2438 0.02% 68 3918 0.03% 69 9039 0.06% 70 10303 0.07% 71 5295 0.04% 72 4170 0.03% 73 4068 0.03% 74 4123 0.03% 75 4438 0.03% 76 4628 0.03% 77 5149 0.04% 78 5775 0.04% 79 6418 0.04% 80 6673 0.05% 81 7604 0.05% 82 8695 0.06% 83 9876 0.07% 84 12060 0.08% 85 13999 0.10% 86 15066 0.11% 87 17094 0.12% 88 18412 0.13% 89 19553 0.14% 90 20529 0.14% 91 20656 0.14% 92 22006 0.15% 93 23153 0.16% 94 24148 0.17% 95 24633 0.17% 96 26407 0.18% 97 27375 0.19% 98 28781 0.20% 99 30247 0.21% 100 32617 0.23% 101 33923 0.24% 102 35233 0.25% 103 36611 0.26% 104 39706 0.28% 105 41582 0.29% 106 43966 0.31% 107 44669 0.31% 108 46978 0.33% 109 47041 0.33% 110 48032 0.34% 111 51152 0.36% 112 52856 0.37% 113 58153 0.41% 114 62480 0.44% 115 65423 0.46% 116 65277 0.46% 117 65445 0.46% 118 65300 0.46% 119 65270 0.46% 120 69734 0.49% 121 71102 0.50% 122 74432 0.52% 123 76629 0.54% 124 80436 0.56% 125 82079 0.57% 126 84360 0.59% 127 86483 0.60% 128 84486 0.59% 129 88983 0.62% 130 89816 0.63% 131 92340 0.65% 132 94741 0.66% 133 98873 0.69% 134 101470 0.71% 135 103214 0.72% 136 105128 0.73% 137 108398 0.76% 138 115493 0.81% 139 121713 0.85% 140 128500 0.90% 141 131138 0.92% 142 149961 1.05% 143 160570 1.12% 144 175466 1.23% 145 204628 1.43% 146 240808 1.68% 147 304035 2.12% 148 419346 2.93% 149 715438 5.00% 150 2603765 18.19% 151 5787285 40.43% 14313404 reads passed initial QC criterion=sequence-density sequence-density=0.60 sequence-density-rank=1 fanout-score=22.00 fanout-score-rank=4 prefix-density=6.80 prefix-fanout=1.9 sequence=TTCGTTTTTTTTCTTG criterion=fanout-score sequence-density=0.01 sequence-density-rank=32 fanout-score=78.17 fanout-score-rank=1 prefix-density=0.57 prefix-fanout=1.4 sequence=TTTTTTTTCTCGTTCTTTGGTCGCAATCCTGCGTAATCAACGCCGCAACTTTACGTCGGATTAGCTCTTCTTTGATTAGCATGAAACTCCAAGGTCCGGGGGGGTCACTTATCCTGGGCTTCATCCAATGGTGGGTGCTAACTCTTTAATAGCCTTCAGTGACTGTGAGATGCCGTCTACGAGTGGCACGAATCGCACGGATGTTTGGTTAAAGAACAGTCGCAGTTTTCCTCAAATCCCGCCACGAAACTAAGCGATTGAACTCTTGCCTGGTTACTGTATGCCCCTGTGTTATTGCAGCGTCTCGATTAGGGGGAAACCTTGTCACCGTCAGCTTATTCCCGAGGCATATGGCCCTACTTAACTGATCTGAAGTATTACGGTAACCGCGACGATAATAACCCGGACCAAATATAGCCTGATATGAGCGTGCCCGTCCATAGTCCCAGAGACGGGCGGAGGCTCTTAACCGTACGAGACAATCTCCA criterion=sequence-density sequence-density=1.01 sequence-density-rank=1 fanout-score=4.82 fanout-score-rank=13 prefix-density=4.75 prefix-fanout=1.0 sequence=CAAGAAAAAAAACGAA criterion=fanout-score sequence-density=0.01 sequence-density-rank=30 fanout-score=152.24 fanout-score-rank=1 prefix-density=1.21 prefix-fanout=1.1 sequence=GGCCGCTGGTACGAGATCGCGTCGTTCCCAAACTTCTTCCATGGAGAATTTCAAGAAGTCATCCGGTGACCTGATGTCGAGCGGCAAGTTGGTGGCGGAGTCCGCCATGTCTGCGTTCCAGGAGAAGAGCGTGGAGAACGTGGACAAGAAGAAGGTCGCGGGCGCCTCTGCGGAGATCCTGGACTCCGCCTCCGCCTACGCCAAGCTGGAGGACAAGCCGGTGGGGCAGTACATGGAGAAGGCCGAGGTGTACCTGAAGCAGTACAGCGCCGGCGGCACCGAGGAGAAGCCTACCGACGCCGCGGCACCTCCAGCTGCTGCCGTCGATGCGCCGCCGAAGCC SRR5578450 testing PE reads STAR mapping to Ensembl genome Started job on | Dec 09 18:05:32 Started mapping on | Dec 09 18:05:32 Finished on | Dec 09 18:35:05 Mapping speed, Million of reads per hour | 29.06 Number of input reads | 14313404 Average input read length | 285 UNIQUE READS: Uniquely mapped reads number | 5698730 Uniquely mapped reads % | 39.81% Average mapped length | 282.57 Number of splices: Total | 4209740 Number of splices: Annotated (sjdb) | 3896316 Number of splices: GT/AG | 4159074 Number of splices: GC/AG | 45156 Number of splices: AT/AC | 2111 Number of splices: Non-canonical | 3399 Mismatch rate per base, % | 0.16% Deletion rate per base | 0.00% Deletion average length | 1.36 Insertion rate per base | 0.01% Insertion average length | 1.28 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 86187 % of reads mapped to multiple loci | 0.60% Number of reads mapped to too many loci | 11623 % of reads mapped to too many loci | 0.08% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 59.17% % of reads unmapped: other | 0.33% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 8538872 8538872 8538872 N_multimapping 86187 86187 86187 N_noFeature 173926 5471734 248758 N_ambiguous 180166 711 28277 UnstrandedReadsAssigned:5344638 PositiveStrandReadsAssigned:226285 NegativeStrandReadsAssigned:5421695 Dataset is classified negative stranded MeadianReadLen=151 20thPercentileLength=143 echo kmer=139 SRR5578450 Starting Kallisto paired end mapping to ensembl reference transcriptome [quant] fragment length distribution will be estimated from the data [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 paired-end mode [quant] will process pair 1: SRR5578450-trimmed-pair1.fastq SRR5578450-trimmed-pair2.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 14,313,404 reads, 5,455,784 reads pseudoaligned [quant] estimated average fragment length: 204.82 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,189 rounds 52973 SRR5578450.ke.tsv 35125 SRR5578450.se.tsv 88098 total ==> SRR5578450.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 732.514 27.5992 7.35458 PNS24247 1044 840.18 0 0 PNS24249 1928 1724.18 18.8641 2.13565 PNS24246 1044 840.18 0 0 PNS24248 1044 840.18 0 0 PNS24244 1471 1267.18 33.5367 5.16605 PNS24243 293 115.615 0 0 KQK14069 1603 1399.18 1619.14 225.886 KQK14071 474 276.209 5.61869 3.97076 ==> SRR5578450.se.tsv <== BRADI_1g14170v3 1638 BRADI_1g53295v3 7 BRADI_1g59795v3 179 BRADI_1g07683v3 0 BRADI_1g00485v3 9 BRADI_1g20270v3 490 BRADI_1g74790v3 628 BRADI_1g09890v3 3 BRADI_1g77505v3 144 BRADI_1g48960v3 0 SRR5578450 completed mapping pipeline successfully