Starting /dee2/code/volunteer_pipeline.sh SRR5578478 current disk space = 1522135457792 free memory = 1580651932 SRR5578478 SRAfilesize 177cf0b5e079efd49ef0a1c9c07677f0 SRR5578478.sra SRR5578478.sra file validated SRR5578478 is paired end SRR5578478 is conventional basespace SRR5578478 read1 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5578478_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 32.799 34.0 34.0 34.0 33.0 34.0 2 33.38875 34.0 34.0 34.0 33.0 34.0 3 33.498 34.0 34.0 34.0 33.0 34.0 4 33.52075 34.0 34.0 34.0 33.0 34.0 5 33.42775 34.0 34.0 34.0 33.0 34.0 6 37.15925 38.0 38.0 38.0 36.0 38.0 7 37.42175 38.0 38.0 38.0 37.0 38.0 8 37.5125 38.0 38.0 38.0 37.0 38.0 9 37.535 38.0 38.0 38.0 38.0 38.0 10-14 37.561400000000006 38.0 38.0 38.0 38.0 38.0 15-19 37.58325 38.0 38.0 38.0 38.0 38.0 20-24 37.5327 38.0 38.0 38.0 38.0 38.0 25-29 37.476150000000004 38.0 38.0 38.0 38.0 38.0 30-34 37.439099999999996 38.0 38.0 38.0 38.0 38.0 35-39 37.383 38.0 38.0 38.0 37.6 38.0 40-44 37.16275 38.0 38.0 38.0 36.8 38.0 45-49 37.18905 38.0 38.0 38.0 37.0 38.0 50-54 37.1822 38.0 38.0 38.0 36.4 38.0 55-59 37.1846 38.0 38.0 38.0 36.4 38.0 60-64 37.15315 38.0 38.0 38.0 36.0 38.0 65-69 37.0029 38.0 38.0 38.0 36.0 38.0 70-74 36.714099999999995 38.0 38.0 38.0 35.6 38.0 75-79 36.01010000000001 38.0 38.0 38.0 34.4 38.0 80-84 35.98155 38.0 38.0 38.0 34.2 38.0 85-89 35.8671 38.0 38.0 38.0 34.0 38.0 90-94 35.697050000000004 38.0 38.0 38.0 33.6 38.0 95-99 35.582049999999995 38.0 38.0 38.0 33.0 38.0 100-104 35.42915 38.0 37.6 38.0 32.4 38.0 105-109 35.3377 38.0 37.4 38.0 32.0 38.0 110-114 35.15525 38.0 37.0 38.0 31.0 38.0 115-119 34.9496 38.0 36.4 38.0 30.6 38.0 120-124 34.7157 38.0 36.0 38.0 28.2 38.0 125-129 34.54255 38.0 36.0 38.0 27.4 38.0 130-134 34.24425 38.0 35.2 38.0 25.4 38.0 135-139 33.942099999999996 38.0 35.0 38.0 23.0 38.0 140-144 33.52065 38.0 34.8 38.0 18.6 38.0 145-149 32.8771 38.0 34.2 38.0 13.8 38.0 150-151 29.146500000000003 36.0 27.5 38.0 2.0 38.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 2 1.0 3 0.0 4 0.0 5 0.0 6 2.0 7 2.0 8 2.0 9 0.0 10 1.0 11 2.0 12 4.0 13 1.0 14 3.0 15 9.0 16 7.0 17 10.0 18 33.0 19 57.0 20 5.0 21 8.0 22 7.0 23 6.0 24 9.0 25 14.0 26 13.0 27 21.0 28 18.0 29 29.0 30 27.0 31 36.0 32 59.0 33 87.0 34 108.0 35 212.0 36 695.0 37 2512.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 46.506270796007165 12.541592014333247 9.54696698233939 31.405170207320193 2 28.625 14.499999999999998 29.875 27.0 3 25.224999999999998 17.675 24.925 32.175 4 24.55 26.650000000000002 23.3 25.5 5 26.04767879548306 27.352572145545796 26.775407779171896 19.82434127979925 6 23.525 31.5 25.25 19.725 7 15.425 25.5 41.025 18.05 8 19.6 26.05 31.6 22.75 9 21.3 23.125 33.975 21.6 10-14 23.044999999999998 28.055000000000003 25.66 23.24 15-19 21.490000000000002 26.41 27.58 24.52 20-24 22.235 26.135 27.505000000000003 24.125 25-29 22.025 26.375 27.845 23.755000000000003 30-34 21.075 27.229999999999997 27.560000000000002 24.135 35-39 22.775000000000002 26.290000000000003 26.365 24.57 40-44 23.866193309665483 26.00630031501575 26.511325566278316 23.61618080904045 45-49 23.825 26.605 27.084999999999997 22.485 50-54 24.095 26.724999999999998 25.005 24.175 55-59 22.765 25.855 27.05 24.33 60-64 21.93 28.07 26.145000000000003 23.855 65-69 21.39 29.049999999999997 25.924999999999997 23.635 70-74 22.53 28.875 24.88 23.715 75-79 22.470000000000002 27.43 25.66 24.44 80-84 22.725 27.834999999999997 25.06 24.38 85-89 23.895 26.724999999999998 26.305 23.075000000000003 90-94 23.355 26.5 26.595000000000002 23.549999999999997 95-99 22.155 26.215 27.35 24.279999999999998 100-104 23.345 26.71 26.085 23.86 105-109 22.56 28.1 25.490000000000002 23.849999999999998 110-114 22.175 27.644999999999996 24.925 25.255 115-119 22.575 28.24 24.82 24.365000000000002 120-124 23.079615923184637 27.91058211642328 24.08981796359272 24.91998399679936 125-129 22.7641056422569 27.921168467386952 23.92957182873149 25.385154061624647 130-134 23.883135724648557 26.79473710540797 24.72359797888839 24.59852919105508 135-139 21.445722861430717 28.559279639819913 25.807903951975987 24.187093546773387 140-144 22.852285228522852 27.912791279127912 24.337433743374337 24.897489748974895 145-149 23.03615180759038 28.851442572128605 22.921146057302867 25.191259562978146 150-151 21.7407639323732 27.814652473387603 24.308077645585474 26.136505948653728 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 0.0 1 0.0 2 1.0 3 1.5 4 1.0 5 0.5 6 3.0 7 3.0 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 0.5 17 0.5 18 1.0 19 2.0 20 1.5 21 1.0 22 1.0 23 1.5 24 1.5 25 1.5 26 3.0 27 2.5 28 3.5 29 14.0 30 23.5 31 42.5 32 58.0 33 67.5 34 78.5 35 97.5 36 121.5 37 151.0 38 170.0 39 146.0 40 143.5 41 131.5 42 95.0 43 89.0 44 105.0 45 118.5 46 144.0 47 156.0 48 145.5 49 151.5 50 147.0 51 147.0 52 161.5 53 169.0 54 170.0 55 144.5 56 117.5 57 108.5 58 99.5 59 90.0 60 61.0 61 41.5 62 40.0 63 39.5 64 38.5 65 26.0 66 20.0 67 15.0 68 12.0 69 12.5 70 9.5 71 9.5 72 7.0 73 7.0 74 7.0 75 6.5 76 6.0 77 3.5 78 1.5 79 0.5 80 0.5 81 0.5 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 2.325 2 0.0 3 0.0 4 0.0 5 0.375 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 0.005 45-49 0.0 50-54 0.0 55-59 0.0 60-64 0.0 65-69 0.0 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 0.02 125-129 0.04 130-134 0.055 135-139 0.05 140-144 0.01 145-149 0.005 150-151 0.1875 >>END_MODULE >>Sequence Length Distribution pass #Length Count 151 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 77.075 #Duplication Level Percentage of deduplicated Percentage of total 1 87.86895880635744 67.72500000000001 2 7.006162828413882 10.8 3 2.108336036328252 4.875 4 1.1352578657152124 3.5000000000000004 5 0.7135906584495622 2.75 6 0.19461563412260785 0.8999999999999999 7 0.45410314628608495 2.45 8 0.09730781706130393 0.6 9 0.03243593902043464 0.22499999999999998 >10 0.3567953292247811 4.175 >50 0.03243593902043464 2.0 >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 GATCGGAAGAGCACACGTCTGAACTCCAGTCACTGACCAATCTCGTATGC 80 2.0 TruSeq Adapter, Index 4 (100% over 50bp) GCCTTATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGA 34 0.8500000000000001 No Hit GTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGTAGGGA 16 0.4 No Hit GGAAGCTATACTATATAGGTGGCTATCTATCCCTACCAAGGCTTATATTG 16 0.4 No Hit GCCTCACTTAGTTACAGTTTTATGGATAATTGGGATATTCTTTGGTATAG 15 0.375 No Hit AGATCGGAAGAGCACACGTCTGAACTCCAGTCACTGACCAATCTCGTATG 15 0.375 TruSeq Adapter, Index 4 (100% over 49bp) GGGATATTCTTTGGTATAGTTGGGATTTTAATATCATTAATAGCATGATG 14 0.35000000000000003 No Hit GGGAAGCTATACTATATAGGTGGCTATCTATCCCTACCAAGGCTTATATT 13 0.325 No Hit CTTATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGT 12 0.3 No Hit GGGCTATTGATATTTAACAAATATCCAGCAAAGGTTTTTCCAGGAGATGT 11 0.27499999999999997 No Hit GTTTTATGGATAATTGGGATATTCTTTGGTATAGTTGGGATTTTAATATC 11 0.27499999999999997 No Hit GGGGTTATGAGTAGGGATGAGCATAAACCAACAACTCTCAAAGAAGATGG 10 0.25 No Hit AGGAGATGTTGGAACTCTACCAATTGGAGCTTTCTTAGCTGTCTTAGCAG 9 0.22499999999999998 No Hit GGGATTTTAATATCATTAATAGCATGATGGTGATTGTTTTGAAAACCATA 8 0.2 No Hit CCTCACTTAGTTACAGTTTTATGGATAATTGGGATATTCTTTGGTATAGT 8 0.2 No Hit GCTATCTATCCCTACCAAGGCTTATATTGAAGTATAAACCAATGAGAGAG 8 0.2 No Hit CAGGAGATGTTGGAACTCTACCAATTGGAGCTTTCTTAGCTGTCTTAGCA 7 0.17500000000000002 No Hit ATCGGAAGAGCACACGTCTGAACTCCAGTCACTGACCAATCTCGTATGCC 7 0.17500000000000002 TruSeq Adapter, Index 4 (100% over 50bp) GGATGTTGTTGTTAGACACTTCTTTTTGTCTTTAAATATAAGGCGTGGTA 7 0.17500000000000002 No Hit TGGCTATCTATCCCTACCAAGGCTTATATTGAAGTATAAACCAATGAGAG 7 0.17500000000000002 No Hit CCCATTTTTAGTTATAATGATGCCTTATGTGATAGATGCCTCTTTAAAAT 7 0.17500000000000002 No Hit GCCCGTTTCAGGTGGTCCTCAGCGTACGGCGGGACCTCTGAGAATTGGGA 7 0.17500000000000002 No Hit CTCACTTAGTTACAGTTTTATGGATAATTGGGATATTCTTTGGTATAGTT 7 0.17500000000000002 No Hit GTGGCTATCTATCCCTACCAAGGCTTATATTGAAGTATAAACCAATGAGA 7 0.17500000000000002 No Hit GGACAACTGATGGACCCACGTTGCGAGTCCAGTAAATCAGGACGGGGATA 7 0.17500000000000002 No Hit GGATAATTGCGCGGTTTTGACTGCGGAAGGAAGCCAAGGCCCACCTAAAG 7 0.17500000000000002 No Hit GGCAGTTTCCAGAAACGTGTATCACATCTAGGCATGGAATCTTATGCCAG 7 0.17500000000000002 No Hit GGATAATTGGGATATTCTTTGGTATAGTTGGGATTTTAATATCATTAATA 7 0.17500000000000002 No Hit GCCATTCGGACCTACCGTAAGCCTATATTTCGTTTTTCTGAGACCTATCC 7 0.17500000000000002 No Hit GTCGAGACTGAAAAGCTATAACCCGCAGACCCGAGCGAAAGCGGCGGTCC 7 0.17500000000000002 No Hit GCAGTAGTTTATAAGGAATATATCCCATTTTTAGTTATAATGATGCCTTA 6 0.15 No Hit CGGCTGTCGAGTTGTACGGCCGTTCAGCCACGAGTCACGGGGTCTAACGC 6 0.15 No Hit GTTATGAGTAGGGATGAGCATAAACCAACAACTCTCAAAGAAGATGGGAA 6 0.15 No Hit GCAGTTTCCAGAAACGTGTATCACATCTAGGCATGGAATCTTATGCCAGC 6 0.15 No Hit GCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGTAGGGATGAGCATAA 6 0.15 No Hit GGATATTCTTTGGTATAGTTGGGATTTTAATATCATTAATAGCATGATGG 6 0.15 No Hit GTCCAAAGTTAAGCTCTGCACCTGTTACACTATAGTCATCGTCCATAACA 5 0.125 No Hit GGAGCTTTCTTAGCTGTCTTAGCAGTAGTTTATAAGGAATATATCCCATT 5 0.125 No Hit GGCGTGGTAGAATTACTGGCACTCCAATGATTCCATATAACGGCCATAAT 5 0.125 No Hit CAGTAGTTTATAAGGAATATATCCCATTTTTAGTTATAATGATGCCTTAT 5 0.125 No Hit GTGCGGTGCTCTTCCGGCCACTGGACCCTACCTCCGGCTGAACCGATTCC 5 0.125 No Hit ATAACAATAGGAAATATCAGAAATCCAATAAGAATCAGCAATTCAGGAAG 5 0.125 No Hit CACTTAGTTACAGTTTTATGGATAATTGGGATATTCTTTGGTATAGTTGG 5 0.125 No Hit GATGCCTTATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTA 5 0.125 No Hit GGGATAATTGCGCGGTTTTGACTGCGGAAGGAAGCCAAGGCCCACCTAAA 5 0.125 No Hit CCATAACAATAGGAAATATCAGAAATCCAATAAGAATCAGCAATTCAGGA 5 0.125 No Hit CGGGGAACAGTCGCATGACGAGGCAGTTTCCAGAAACGTGTATCACATCT 5 0.125 No Hit CTGAGACAGAGTCGCTATCGTTATGTCTCCTTCCCGCGGTCAAGGCGAAA 5 0.125 No Hit GGGGATAATTGCGCGGTTTTGACTGCGGAAGGAAGCCAAGGCCCACCTAA 5 0.125 No Hit GCTCAAAAGGGTGTACACCGCCCTTAGACGTCTTGGTATACGGACAACTG 5 0.125 No Hit GTGGATGTTGTTGTTAGACACTTCTTTTTGTCTTTAAATATAAGGCGTGG 5 0.125 No Hit CATAACAATAGGAAATATCAGAAATCCAATAAGAATCAGCAATTCAGGAA 5 0.125 No Hit GTCGAGTTGTACGGCCGTTCAGCCACGAGTCACGGGGTCTAACGCCTACC 5 0.125 No Hit CCCTGACCCCGGGGAACAGTCGCATGACGAGGCAGTTTCCAGAAACGTGT 5 0.125 No Hit CTCCGCTGAGAAGTACACCTTTTTGCTAGCATCTCGCACGGCAAGAGCGA 5 0.125 No Hit CCAGCGGCCCTGACCCCGGGGAACAGTCGCATGACGAGGCAGTTTCCAGA 5 0.125 No Hit GGGGAACAGTCGCATGACGAGGCAGTTTCCAGAAACGTGTATCACATCTA 5 0.125 No Hit GGTGTACACCGCCCTTAGACGTCTTGGTATACGGACAACTGATGGACCCA 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 0.425 0.0 0.0 0.0 0.0 2 0.425 0.0 0.0 0.0 0.0 3 0.425 0.0 0.0 0.0 0.0 4 0.425 0.0 0.0 0.0 0.0 5 0.425 0.0 0.0 0.0 0.0 6 0.425 0.0 0.0 0.0 0.0 7 0.425 0.0 0.0 0.0 0.0 8 0.425 0.0 0.0 0.0 0.0 9 0.425 0.0 0.0 0.0 0.0 10-11 0.425 0.0 0.0 0.0 0.0 12-13 0.425 0.0 0.0 0.0 0.0 14-15 0.425 0.0 0.0 0.0 0.0 16-17 0.425 0.0 0.0 0.0 0.0 18-19 0.425 0.0 0.0 0.0 0.0 20-21 0.425 0.0 0.0 0.0 0.0 22-23 0.425 0.0 0.0 0.0 0.0 24-25 0.425 0.0 0.0 0.0 0.0 26-27 0.425 0.0 0.0 0.0 0.0 28-29 0.425 0.0 0.0 0.0 0.0 30-31 0.425 0.0 0.0 0.0 0.0 32-33 0.425 0.0 0.0 0.0 0.0 34-35 0.425 0.0 0.0 0.0 0.0 36-37 0.425 0.0 0.0 0.0 0.0 38-39 0.425 0.0 0.0 0.0 0.0 40-41 0.425 0.0 0.0 0.0 0.0 42-43 0.425 0.0 0.0 0.0 0.0 44-45 0.425 0.0 0.0 0.0 0.0 46-47 0.45 0.0 0.0 0.0 0.0 48-49 0.45 0.0 0.0 0.0 0.0 50-51 0.4625 0.0 0.0 0.0 0.0 52-53 0.475 0.0 0.0 0.0 0.0 54-55 0.475 0.0 0.0 0.0 0.0 56-57 0.475 0.0 0.0 0.0 0.0 58-59 0.475 0.0 0.0 0.0 0.0 60-61 0.475 0.0 0.0 0.0 0.0 62-63 0.475 0.0 0.0 0.0 0.0 64-65 0.4875 0.0 0.0 0.0 0.0 66-67 0.5 0.0 0.0 0.0 0.0 68-69 0.5 0.0 0.0 0.0 0.0 70-71 0.5 0.0 0.0 0.0 0.0 72-73 0.575 0.0 0.0 0.0 0.0 74-75 0.6875 0.0 0.0 0.0 0.0 76-77 0.7124999999999999 0.0 0.0 0.0 0.0 78-79 0.7875000000000001 0.0 0.0 0.0 0.0 80-81 0.9125 0.0 0.0 0.0 0.0 82-83 1.0375 0.0 0.0 0.0 0.0 84-85 1.125 0.0 0.0 0.0 0.0 86-87 1.25 0.0 0.0 0.0 0.0 88-89 1.4 0.0 0.0 0.0 0.0 90-91 1.6875 0.0 0.0 0.0 0.0 92-93 1.7999999999999998 0.0 0.0 0.0 0.0 94-95 2.15 0.0 0.0 0.0 0.0 96-97 2.55 0.0 0.0 0.0 0.0 98-99 2.95 0.0 0.0 0.0 0.0 100-101 3.375 0.0 0.0 0.0 0.0 102-103 3.8125 0.0 0.0 0.0 0.0 104-105 4.3125 0.0 0.0 0.0 0.0 106-107 4.887499999999999 0.0 0.0 0.0 0.0 108-109 5.35 0.0 0.0 0.0 0.0 110-111 5.95 0.0 0.0 0.0 0.0 112-113 6.824999999999999 0.0 0.0 0.0 0.0 114-115 7.425000000000001 0.0 0.0 0.0 0.0 116-117 7.9875 0.0 0.0 0.0 0.0 118-119 8.55 0.0 0.0 0.0 0.0 120-121 9.175 0.0 0.0 0.0 0.0 122-123 9.875 0.0 0.0 0.0 0.0 124-125 10.775 0.0 0.0 0.0 0.0 126-127 11.6125 0.0 0.0 0.0 0.0 128-129 12.524999999999999 0.0 0.0 0.0 0.0 130-131 13.375 0.0 0.0 0.0 0.0 132-133 14.175 0.0 0.0 0.0 0.0 134-135 14.875 0.0 0.0 0.0 0.0 136-137 15.774999999999999 0.0 0.0 0.0 0.0 138-139 16.875 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position GCCGTCT 10 0.0068343505 144.975 145 >>END_MODULE SRR5578478 read2 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5578478_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 pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 33.01 33.0 33.0 34.0 32.0 34.0 2 33.11725 34.0 33.0 34.0 33.0 34.0 3 33.058 34.0 33.0 34.0 32.0 34.0 4 33.04275 34.0 33.0 34.0 33.0 34.0 5 33.10825 34.0 33.0 34.0 33.0 34.0 6 37.30875 38.0 38.0 38.0 37.0 38.0 7 37.3215 38.0 38.0 38.0 37.0 38.0 8 37.27825 38.0 38.0 38.0 37.0 38.0 9 37.233 38.0 38.0 38.0 37.0 38.0 10-14 37.2765 38.0 38.0 38.0 37.2 38.0 15-19 37.21925 38.0 38.0 38.0 37.0 38.0 20-24 37.2821 38.0 38.0 38.0 37.0 38.0 25-29 37.2292 38.0 38.0 38.0 37.0 38.0 30-34 37.21535 38.0 38.0 38.0 37.0 38.0 35-39 37.20745 38.0 38.0 38.0 37.0 38.0 40-44 37.1822 38.0 38.0 38.0 37.0 38.0 45-49 37.151349999999994 38.0 38.0 38.0 37.0 38.0 50-54 37.067 38.0 38.0 38.0 36.8 38.0 55-59 37.085750000000004 38.0 38.0 38.0 37.0 38.0 60-64 37.013850000000005 38.0 38.0 38.0 36.2 38.0 65-69 36.6851 38.0 38.0 38.0 35.8 38.0 70-74 36.01565 38.0 38.0 38.0 35.0 38.0 75-79 35.966300000000004 38.0 38.0 38.0 34.8 38.0 80-84 35.875099999999996 38.0 38.0 38.0 34.0 38.0 85-89 35.72325 38.0 38.0 38.0 34.0 38.0 90-94 35.6235 38.0 38.0 38.0 33.2 38.0 95-99 35.5349 38.0 38.0 38.0 33.0 38.0 100-104 35.343 38.0 37.8 38.0 31.8 38.0 105-109 35.1083 38.0 37.2 38.0 30.2 38.0 110-114 34.977199999999996 38.0 36.8 38.0 29.8 38.0 115-119 34.697950000000006 38.0 36.0 38.0 27.8 38.0 120-124 34.41455 38.0 35.8 38.0 26.0 38.0 125-129 33.8942 38.0 35.0 38.0 22.4 38.0 130-134 33.454950000000004 38.0 34.6 38.0 17.4 38.0 135-139 32.47110000000001 38.0 32.8 38.0 13.0 38.0 140-144 31.7204 38.0 31.8 38.0 13.0 38.0 145-149 30.15675 38.0 30.2 38.0 2.0 38.0 150-151 24.80975 33.0 14.5 37.0 2.0 38.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 2 9.0 3 4.0 4 0.0 5 0.0 6 0.0 7 1.0 8 0.0 9 0.0 10 1.0 11 5.0 12 5.0 13 6.0 14 8.0 15 6.0 16 6.0 17 77.0 18 16.0 19 4.0 20 4.0 21 8.0 22 6.0 23 13.0 24 7.0 25 14.0 26 18.0 27 30.0 28 27.0 29 43.0 30 51.0 31 63.0 32 69.0 33 120.0 34 175.0 35 295.0 36 713.0 37 2196.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 41.5 19.575 11.875 27.05 2 28.775000000000002 24.85 25.874999999999996 20.5 3 21.975 25.8 29.825000000000003 22.400000000000002 4 25.224999999999998 30.325000000000003 21.875 22.575 5 27.781945486371594 32.808202050512634 19.654913728432106 19.754938734683673 6 26.0 33.550000000000004 20.474999999999998 19.975 7 20.9 23.425 33.800000000000004 21.875 8 22.55 26.55 24.099999999999998 26.8 9 25.900000000000002 23.974999999999998 26.424999999999997 23.7 10-14 25.77 26.63 23.11 24.490000000000002 15-19 26.405 25.785000000000004 24.48 23.330000000000002 20-24 26.450000000000003 26.724999999999998 23.885 22.939999999999998 25-29 26.36 26.685 23.44 23.515 30-34 26.96 25.874999999999996 24.93 22.235 35-39 25.765 24.875 25.71 23.65 40-44 27.534999999999997 24.86 25.095 22.509999999999998 45-49 26.41 24.09 25.795 23.705000000000002 50-54 23.89 24.59 28.205000000000002 23.315 55-59 23.794999999999998 25.915 28.025 22.264999999999997 60-64 23.205000000000002 27.025 26.645000000000003 23.125 65-69 23.885 28.03 26.02 22.065 70-74 22.845 27.725 26.384999999999998 23.044999999999998 75-79 22.795 27.944999999999997 25.540000000000003 23.72 80-84 23.62 28.16 25.395 22.825 85-89 23.41 27.965 26.185000000000002 22.439999999999998 90-94 23.835 28.49 25.61 22.065 95-99 23.735 28.835 25.545 21.884999999999998 100-104 24.235 28.410000000000004 24.9 22.455 105-109 24.035 29.654999999999998 24.665 21.645 110-114 23.98 28.449999999999996 24.13 23.44 115-119 24.665 30.0 23.45 21.884999999999998 120-124 24.445 29.54 24.07 21.945 125-129 24.6 29.43 23.805 22.165000000000003 130-134 25.240000000000002 27.625 25.695 21.44 135-139 25.035 29.56 24.29 21.115000000000002 140-144 26.745 27.46 25.2 20.595 145-149 27.015 28.384999999999998 24.279999999999998 20.32 150-151 28.446334751063297 26.770077558168627 23.71778834125594 21.065799349512133 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 0.0 1 0.0 2 0.0 3 0.0 4 0.0 5 0.0 6 0.0 7 0.0 8 0.0 9 0.0 10 0.0 11 0.0 12 0.0 13 0.0 14 0.0 15 1.0 16 1.0 17 0.0 18 1.0 19 1.5 20 0.5 21 0.5 22 1.5 23 2.0 24 1.0 25 0.0 26 1.5 27 3.0 28 4.5 29 6.0 30 9.5 31 22.5 32 30.0 33 30.5 34 45.5 35 63.0 36 86.0 37 130.0 38 161.0 39 170.5 40 220.5 41 188.0 42 106.5 43 102.5 44 110.5 45 119.0 46 120.5 47 134.5 48 143.0 49 138.5 50 129.5 51 126.0 52 158.5 53 175.5 54 185.0 55 186.5 56 157.0 57 123.5 58 97.0 59 86.5 60 71.5 61 50.0 62 36.5 63 36.5 64 33.5 65 28.5 66 25.5 67 24.5 68 22.5 69 16.5 70 13.0 71 13.0 72 10.0 73 6.5 74 4.5 75 5.5 76 8.5 77 6.0 78 3.0 79 2.0 80 0.5 81 0.0 82 0.0 83 0.0 84 0.0 85 0.0 86 0.0 87 0.0 88 0.0 89 0.0 90 0.0 91 0.0 92 0.0 93 0.0 94 0.0 95 0.0 96 0.0 97 0.0 98 0.0 99 0.0 100 0.0 >>END_MODULE >>Per base N content pass #Base N-Count 1 0.0 2 0.0 3 0.0 4 0.0 5 0.025 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 0.0 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 0.075 >>END_MODULE >>Sequence Length Distribution pass #Length Count 151 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 73.2 #Duplication Level Percentage of deduplicated Percentage of total 1 87.8415300546448 64.3 2 6.933060109289617 10.15 3 2.083333333333333 4.575 4 1.0245901639344261 3.0 5 0.44398907103825136 1.625 6 0.47814207650273227 2.1 7 0.1366120218579235 0.7000000000000001 8 0.34153005464480873 2.0 9 0.06830601092896176 0.44999999999999996 >10 0.6147540983606558 9.075 >50 0.03415300546448088 2.025 >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 GATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCG 81 2.025 Illumina Single End PCR Primer 1 (100% over 50bp) CATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAAT 36 0.8999999999999999 No Hit GGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTC 34 0.8500000000000001 No Hit CCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGT 27 0.675 No Hit GCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCC 24 0.6 No Hit ATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATA 24 0.6 No Hit GGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTT 23 0.575 No Hit GAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCC 22 0.5499999999999999 No Hit AATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGA 19 0.475 No Hit CCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGG 19 0.475 No Hit CTTCCATTTCCGCCCAAGCTGCTCACAGTATACGGGCGTCGGCATCCAGA 17 0.42500000000000004 No Hit ATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAG 17 0.42500000000000004 No Hit AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCC 17 0.42500000000000004 Illumina Single End PCR Primer 1 (100% over 50bp) GCTGCTCACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGATCGTGG 16 0.4 No Hit TAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGT 16 0.4 No Hit CTTCAATATAAGCCTTGGTAGGGATAGATAGCCACCTATATAGTATAGCT 15 0.375 No Hit GGTAGGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGA 14 0.35000000000000003 No Hit GTAGGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGAT 13 0.325 No Hit AAGCTGCTCACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGATCGT 10 0.25 No Hit GGACATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCC 9 0.22499999999999998 No Hit ATTACTTCCATTTCCGCCCAAGCTGCTCACAGTATACGGGCGTCGGCATC 9 0.22499999999999998 No Hit GCCCAAGCTGCTCACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGA 8 0.2 No Hit AGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTT 8 0.2 No Hit GTCTCGTACGGTTAAGAGCCTCCGCCCGTCTCTGGGACTATGGACGGGCA 8 0.2 No Hit GTGAGGCTCTCTCATTGGTTTATACTTCAATATAAGCCTTGGTAGGGATA 8 0.2 No Hit GCCACAGGCGTCATACTTCCCAAGAAGCGGCCATAGCCCAGATGCGAGGT 8 0.2 No Hit GTTCGATCCTGGCTCAGGATGAACGCTGGCGGCATGCTTAACACATGCAA 8 0.2 No Hit GGGATTTCTAAAAATAATGTTAAGAATTTTTGCTGGTTTTTTGCGACGTT 8 0.2 No Hit ACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTC 8 0.2 No Hit TGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTC 8 0.2 No Hit CTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTT 8 0.2 No Hit GGCGTCGGCATCCAGACCGTCGGCTGATCGTGGTTTTACTAGGCTAGACT 7 0.17500000000000002 No Hit CTCTCATTGGTTTATACTTCAATATAAGCCTTGGTAGGGATAGATAGCCA 7 0.17500000000000002 No Hit GGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTCAAAACAATCAC 7 0.17500000000000002 No Hit GGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATGGTTTTTAC 7 0.17500000000000002 No Hit GGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATGGTTTTTA 6 0.15 No Hit CTGAACTCGGATAGGTCTCAGAAAAACGAAATATAGGCTTACGGTAGGTC 6 0.15 No Hit GTCGCACTGAACTCGGATAGGTCTCAGAAAAACGAAATATAGGCTTACGG 6 0.15 No Hit AGCTGCTCACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGATCGTG 6 0.15 No Hit GTTCGATTTCTTAAAGGACTGAATATTCGGTGGCAGTATGGGATTTCTAA 6 0.15 No Hit GGCCGCTGGTATTTGCTGTAAAGAGGGGCGTTGAGTCCGTCCGACTTCAC 6 0.15 No Hit GGCTTGCGGTGGATACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAG 6 0.15 No Hit TGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATGGTTTTT 6 0.15 No Hit GACGAATTGCCAGAATTATTAACTGCGCAGTTAGGGCAGCGTCTGAGGAA 6 0.15 No Hit GTTGTATTCTATAGCTCCATTATGGCCGTTATATGGAATCATTGGAGTGC 6 0.15 No Hit GCTGAGGACCACCTGAAACGGGCATCGTCGCTCTTCGTTGTTCGTCGACT 6 0.15 No Hit ATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGT 6 0.15 Illumina Single End PCR Primer 1 (100% over 50bp) TAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGG 6 0.15 No Hit TCCATTTCCGCCCAAGCTGCTCACAGTATACGGGCGTCGGCATCCAGACC 6 0.15 No Hit CGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTCAAAACAATCA 5 0.125 No Hit CTTAGATATTTTAAAGAGGCATCTATCACATAAGGCATCATTATAACTAA 5 0.125 No Hit CCTTGACCGCGGGAAGGAGACATAACGATAGCGACTCTGTCTCAGGGGAT 5 0.125 No Hit GGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATGGT 5 0.125 No Hit AGATTCCATGCCTAGATGTGATACACGTTTCTGGAAACTGCCTCGTCATG 5 0.125 No Hit GCATACTTTAGGTGGGCCTTGGCTTCCTTCCGCAGTCAAAACCGCGCAAT 5 0.125 No Hit CCCAATTATCCATAAAACTGTAACTAAGTGAGGCTCTCTCATTGGTTTAT 5 0.125 No Hit CACAGGCGTCATACTTCCCAAGAAGCGGCCATAGCCCAGATGCGAGGTGG 5 0.125 No Hit CTGGACATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATC 5 0.125 No Hit AGATTACTTCCATTTCCGCCCAAGCTGCTCACAGTATACGGGCGTCGGCA 5 0.125 No Hit TTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGG 5 0.125 No Hit GCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATG 5 0.125 No Hit GGTATTTGCATTATTGATGGTTTTTACTATGTTGGGTATGCTGTTCGATT 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 0.45 0.0 0.0 0.0 0.0 2 0.45 0.0 0.0 0.0 0.0 3 0.45 0.0 0.0 0.0 0.0 4 0.45 0.0 0.0 0.0 0.0 5 0.45 0.0 0.0 0.0 0.0 6 0.45 0.0 0.0 0.0 0.0 7 0.45 0.0 0.0 0.0 0.0 8 0.45 0.0 0.0 0.0 0.0 9 0.45 0.0 0.0 0.0 0.0 10-11 0.45 0.0 0.0 0.0 0.0 12-13 0.45 0.0 0.0 0.0 0.0 14-15 0.45 0.0 0.0 0.0 0.0 16-17 0.45 0.0 0.0 0.0 0.0 18-19 0.45 0.0 0.0 0.0 0.0 20-21 0.45 0.0 0.0 0.0 0.0 22-23 0.45 0.0 0.0 0.0 0.0 24-25 0.45 0.0 0.0 0.0 0.0 26-27 0.45 0.0 0.0 0.0 0.0 28-29 0.45 0.0 0.0 0.0 0.0 30-31 0.45 0.0 0.0 0.0 0.0 32-33 0.45 0.0 0.0 0.0 0.0 34-35 0.45 0.0 0.0 0.0 0.0 36-37 0.45 0.0 0.0 0.0 0.0 38-39 0.45 0.0 0.0 0.0 0.0 40-41 0.45 0.0 0.0 0.0 0.0 42-43 0.45 0.0 0.0 0.0 0.0 44-45 0.45 0.0 0.0 0.0 0.0 46-47 0.475 0.0 0.0 0.0 0.0 48-49 0.475 0.0 0.0 0.0 0.0 50-51 0.475 0.0 0.0 0.0 0.0 52-53 0.475 0.0 0.0 0.0 0.0 54-55 0.475 0.0 0.0 0.0 0.0 56-57 0.475 0.0 0.0 0.0 0.0 58-59 0.475 0.0 0.0 0.0 0.0 60-61 0.475 0.0 0.0 0.0 0.0 62-63 0.475 0.0 0.0 0.0 0.0 64-65 0.5125 0.0 0.0 0.0 0.0 66-67 0.525 0.0 0.0 0.0 0.0 68-69 0.525 0.0 0.0 0.0 0.0 70-71 0.525 0.0 0.0 0.0 0.0 72-73 0.6 0.0 0.0 0.0 0.0 74-75 0.7124999999999999 0.0 0.0 0.0 0.0 76-77 0.7375 0.0 0.0 0.0 0.0 78-79 0.8125 0.0 0.0 0.0 0.0 80-81 0.9375 0.0 0.0 0.0 0.0 82-83 1.0625 0.0 0.0 0.0 0.0 84-85 1.15 0.0 0.0 0.0 0.0 86-87 1.275 0.0 0.0 0.0 0.0 88-89 1.4500000000000002 0.0 0.0 0.0 0.0 90-91 1.8 0.0 0.0 0.0 0.0 92-93 1.9249999999999998 0.0 0.0 0.0 0.0 94-95 2.25 0.0 0.0 0.0 0.0 96-97 2.6500000000000004 0.0 0.0 0.0 0.0 98-99 3.05 0.0 0.0 0.0 0.0 100-101 3.475 0.0 0.0 0.0 0.0 102-103 3.9375 0.0 0.0 0.0 0.0 104-105 4.4375 0.0 0.0 0.0 0.0 106-107 5.012499999999999 0.0 0.0 0.0 0.0 108-109 5.5125 0.0 0.0 0.0 0.0 110-111 6.175 0.0 0.0 0.0 0.0 112-113 7.05 0.0 0.0 0.0 0.0 114-115 7.6 0.0 0.0 0.0 0.0 116-117 8.162500000000001 0.0 0.0 0.0 0.0 118-119 8.725 0.0 0.0 0.0 0.0 120-121 9.375 0.0 0.0 0.0 0.0 122-123 10.0625 0.0 0.0 0.0 0.0 124-125 10.9625 0.0 0.0 0.0 0.0 126-127 11.825 0.0 0.0 0.0 0.0 128-129 12.7375 0.0 0.0 0.0 0.0 130-131 13.600000000000001 0.0 0.0 0.0 0.0 132-133 14.4 0.0 0.0 0.0 0.0 134-135 15.15 0.0 0.0 0.0 0.0 136-137 16.075 0.0 0.0 0.0 0.0 138-139 17.200000000000003 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position CGTATCA 10 0.006830828 145.0 145 AGCATCG 10 0.006830828 145.0 3 >>END_MODULE Read 754669 spots for SRR5578478.sra Written 754669 spots for SRR5578478.sra Read 754669 spots for SRR5578478.sra Written 754669 spots for SRR5578478.sra Read 754669 spots for SRR5578478.sra Written 754669 spots for SRR5578478.sra Read 754669 spots for SRR5578478.sra Written 754669 spots for SRR5578478.sra Read 754669 spots for SRR5578478.sra Written 754669 spots for SRR5578478.sra Read 754669 spots for SRR5578478.sra Written 754669 spots for SRR5578478.sra Read 754673 spots for SRR5578478.sra Written 754673 spots for SRR5578478.sra Read 754669 spots for SRR5578478.sra Written 754669 spots for SRR5578478.sra Read 754669 spots for SRR5578478.sra Written 754669 spots for SRR5578478.sra Read 754669 spots for SRR5578478.sra Written 754669 spots for SRR5578478.sra Read 754669 spots for SRR5578478.sra Written 754669 spots for SRR5578478.sra Read 754669 spots for SRR5578478.sra Written 754669 spots for SRR5578478.sra Read 754669 spots for SRR5578478.sra Written 754669 spots for SRR5578478.sra Read 754669 spots for SRR5578478.sra Written 754669 spots for SRR5578478.sra Read 754669 spots for SRR5578478.sra Written 754669 spots for SRR5578478.sra Read 754669 spots for SRR5578478.sra Written 754669 spots for SRR5578478.sra Read 754669 spots for SRR5578478.sra Written 754669 spots for SRR5578478.sra Read 754669 spots for SRR5578478.sra Written 754669 spots for SRR5578478.sra Read 754669 spots for SRR5578478.sra Written 754669 spots for SRR5578478.sra Read 754669 spots for SRR5578478.sra Written 754669 spots for SRR5578478.sra SRR ids: ['SRR5578478.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_p9kfvx6t SRR5578478.sra spots: 15093384 blocks: [[1, 754669], [754670, 1509338], [1509339, 2264007], [2264008, 3018676], [3018677, 3773345], [3773346, 4528014], [4528015, 5282683], [5282684, 6037352], [6037353, 6792021], [6792022, 7546690], [7546691, 8301359], [8301360, 9056028], [9056029, 9810697], [9810698, 10565366], [10565367, 11320035], [11320036, 12074704], [12074705, 12829373], [12829374, 13584042], [13584043, 14338711], [14338712, 15093384]] SRR5578478 file size 5092952 SRR5578478 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 SRR5578478 SRR5578478_1.fastq SRR5578478_2.fastq Input file: SRR5578478_1.fastq Paired file: SRR5578478_2.fastq trimmed: SRR5578478-trimmed-pair1.fastq, SRR5578478-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 19:48:31 2024 >> started Mon Dec 9 19:48:48 2024 >> done (16.713s) 15093384 read pairs processed; of these: 19415 ( 0.13%) short read pairs filtered out after trimming by size control 415489 ( 2.75%) empty read pairs filtered out after trimming by size control 14658480 (97.12%) read pairs available; of these: 8186180 (55.85%) trimmed read pairs available after processing 6472300 (44.15%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 18 15 0.00% 19 35 0.00% 20 17 0.00% 21 15 0.00% 22 19 0.00% 23 18 0.00% 24 41 0.00% 25 19 0.00% 26 28 0.00% 27 33 0.00% 28 25 0.00% 29 29 0.00% 30 48 0.00% 31 34 0.00% 32 27 0.00% 33 33 0.00% 34 31 0.00% 35 45 0.00% 36 47 0.00% 37 52 0.00% 38 58 0.00% 39 53 0.00% 40 85 0.00% 41 103 0.00% 42 83 0.00% 43 107 0.00% 44 134 0.00% 45 192 0.00% 46 221 0.00% 47 230 0.00% 48 269 0.00% 49 291 0.00% 50 308 0.00% 51 394 0.00% 52 498 0.00% 53 431 0.00% 54 490 0.00% 55 523 0.00% 56 591 0.00% 57 734 0.01% 58 808 0.01% 59 839 0.01% 60 1020 0.01% 61 1104 0.01% 62 1239 0.01% 63 1332 0.01% 64 1579 0.01% 65 2245 0.02% 66 2931 0.02% 67 3865 0.03% 68 6077 0.04% 69 16462 0.11% 70 15461 0.11% 71 10260 0.07% 72 7053 0.05% 73 6110 0.04% 74 6056 0.04% 75 6487 0.04% 76 6767 0.05% 77 7206 0.05% 78 8191 0.06% 79 9269 0.06% 80 9738 0.07% 81 10719 0.07% 82 12266 0.08% 83 13405 0.09% 84 15447 0.11% 85 17100 0.12% 86 17914 0.12% 87 20036 0.14% 88 20907 0.14% 89 22482 0.15% 90 23806 0.16% 91 24616 0.17% 92 26109 0.18% 93 27818 0.19% 94 29383 0.20% 95 31117 0.21% 96 32021 0.22% 97 32923 0.22% 98 33626 0.23% 99 35380 0.24% 100 37964 0.26% 101 39278 0.27% 102 41186 0.28% 103 42823 0.29% 104 45366 0.31% 105 47296 0.32% 106 49438 0.34% 107 49871 0.34% 108 51433 0.35% 109 51071 0.35% 110 52292 0.36% 111 53585 0.37% 112 57267 0.39% 113 62594 0.43% 114 66374 0.45% 115 68195 0.47% 116 67399 0.46% 117 66261 0.45% 118 63959 0.44% 119 64917 0.44% 120 67281 0.46% 121 67397 0.46% 122 71223 0.49% 123 74408 0.51% 124 76139 0.52% 125 76788 0.52% 126 78657 0.54% 127 76335 0.52% 128 73060 0.50% 129 78519 0.54% 130 77365 0.53% 131 78627 0.54% 132 79712 0.54% 133 84062 0.57% 134 86823 0.59% 135 86770 0.59% 136 86591 0.59% 137 86361 0.59% 138 91866 0.63% 139 94046 0.64% 140 96301 0.66% 141 97080 0.66% 142 112390 0.77% 143 114000 0.78% 144 122174 0.83% 145 139423 0.95% 146 165274 1.13% 147 205375 1.40% 148 295657 2.02% 149 590778 4.03% 150 2991549 20.41% 151 6472300 44.15% 14658480 reads passed initial QC criterion=sequence-density sequence-density=0.53 sequence-density-rank=1 fanout-score=22.13 fanout-score-rank=1 prefix-density=6.11 prefix-fanout=1.9 sequence=TTCGTTTTTTTTCTTG criterion=fanout-score sequence-density=0.53 sequence-density-rank=1 fanout-score=22.13 fanout-score-rank=1 prefix-density=6.11 prefix-fanout=1.9 sequence=TTCGTTTTTTTTCTTG criterion=sequence-density sequence-density=1.07 sequence-density-rank=1 fanout-score=4.62 fanout-score-rank=9 prefix-density=4.91 prefix-fanout=1.0 sequence=CAAGAAAAAAAACGAA criterion=fanout-score sequence-density=0.14 sequence-density-rank=19 fanout-score=36.78 fanout-score-rank=1 prefix-density=4.95 prefix-fanout=1.0 sequence=AAGAAAAAAAAACGA SRR5578478 testing PE reads STAR mapping to Ensembl genome Started job on | Dec 09 19:50:40 Started mapping on | Dec 09 19:50:40 Finished on | Dec 09 20:24:25 Mapping speed, Million of reads per hour | 26.06 Number of input reads | 14658480 Average input read length | 284 UNIQUE READS: Uniquely mapped reads number | 5098633 Uniquely mapped reads % | 34.78% Average mapped length | 282.49 Number of splices: Total | 3590004 Number of splices: Annotated (sjdb) | 3339119 Number of splices: GT/AG | 3540389 Number of splices: GC/AG | 43931 Number of splices: AT/AC | 2224 Number of splices: Non-canonical | 3460 Mismatch rate per base, % | 0.10% Deletion rate per base | 0.01% Deletion average length | 1.52 Insertion rate per base | 0.00% Insertion average length | 1.12 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 492008 % of reads mapped to multiple loci | 3.36% Number of reads mapped to too many loci | 120649 % of reads mapped to too many loci | 0.82% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 56.81% % of reads unmapped: other | 4.23% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 9071949 9071949 9071949 N_multimapping 492008 492008 492008 N_noFeature 459345 4933642 503922 N_ambiguous 138849 658 18976 UnstrandedReadsAssigned:4500439 PositiveStrandReadsAssigned:164333 NegativeStrandReadsAssigned:4575735 Dataset is classified negative stranded MeadianReadLen=151 20thPercentileLength=137 echo kmer=133 SRR5578478 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: SRR5578478-trimmed-pair1.fastq SRR5578478-trimmed-pair2.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 14,658,480 reads, 4,721,038 reads pseudoaligned [quant] estimated average fragment length: 201.742 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,011 rounds 52973 SRR5578478.ke.tsv 35125 SRR5578478.se.tsv 88098 total ==> SRR5578478.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 735.456 4.11796 1.38624 PNS24247 1044 843.258 0 0 PNS24249 1928 1727.26 30.2365 4.33397 PNS24246 1044 843.258 0 0 PNS24248 1044 843.258 0 0 PNS24244 1471 1270.26 65.6456 12.7946 PNS24243 293 122.49 0 0 KQK14069 1603 1402.26 446.05 78.7532 KQK14071 474 281.501 0 0 ==> SRR5578478.se.tsv <== BRADI_1g14170v3 462 BRADI_1g53295v3 49 BRADI_1g59795v3 190 BRADI_1g07683v3 0 BRADI_1g00485v3 3 BRADI_1g20270v3 594 BRADI_1g74790v3 32 BRADI_1g09890v3 0 BRADI_1g77505v3 41 BRADI_1g48960v3 0 SRR5578478 completed mapping pipeline successfully