Starting /dee2/code/volunteer_pipeline.sh SRR5578479 current disk space = 1521949233152 free memory = 1567513896 SRR5578479 SRAfilesize cde66ab866ff16fea42bdbad2b5bd8b8 SRR5578479.sra SRR5578479.sra file validated SRR5578479 is paired end SRR5578479 is conventional basespace SRR5578479 read1 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5578479_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 33.4605 34.0 33.0 34.0 33.0 34.0 2 33.409 34.0 34.0 34.0 33.0 34.0 3 33.5405 34.0 34.0 34.0 33.0 34.0 4 33.50425 34.0 34.0 34.0 33.0 34.0 5 33.4685 34.0 34.0 34.0 33.0 34.0 6 37.16275 38.0 38.0 38.0 36.0 38.0 7 37.415 38.0 38.0 38.0 37.0 38.0 8 37.5 38.0 38.0 38.0 38.0 38.0 9 37.51775 38.0 38.0 38.0 38.0 38.0 10-14 37.5226 38.0 38.0 38.0 38.0 38.0 15-19 37.47225 38.0 38.0 38.0 37.8 38.0 20-24 37.42405 38.0 38.0 38.0 38.0 38.0 25-29 37.32835 38.0 38.0 38.0 37.6 38.0 30-34 37.29845 38.0 38.0 38.0 37.4 38.0 35-39 37.23085 38.0 38.0 38.0 37.2 38.0 40-44 37.0788 38.0 38.0 38.0 36.6 38.0 45-49 37.101800000000004 38.0 38.0 38.0 37.0 38.0 50-54 37.0801 38.0 38.0 38.0 37.0 38.0 55-59 37.04225 38.0 38.0 38.0 36.2 38.0 60-64 37.009299999999996 38.0 38.0 38.0 36.6 38.0 65-69 36.97215 38.0 38.0 38.0 36.0 38.0 70-74 36.8137 38.0 38.0 38.0 36.0 38.0 75-79 36.35465 38.0 38.0 38.0 35.4 38.0 80-84 36.260749999999994 38.0 38.0 38.0 35.0 38.0 85-89 36.2077 38.0 38.0 38.0 34.8 38.0 90-94 36.09875 38.0 38.0 38.0 34.4 38.0 95-99 35.9593 38.0 38.0 38.0 34.0 38.0 100-104 35.9421 38.0 38.0 38.0 34.0 38.0 105-109 35.84245 38.0 38.0 38.0 33.8 38.0 110-114 35.736850000000004 38.0 38.0 38.0 33.6 38.0 115-119 35.55545 38.0 38.0 38.0 33.0 38.0 120-124 35.47539999999999 38.0 38.0 38.0 33.0 38.0 125-129 35.3209 38.0 37.8 38.0 31.6 38.0 130-134 35.17845 38.0 37.4 38.0 31.2 38.0 135-139 34.882 38.0 36.4 38.0 29.2 38.0 140-144 34.602050000000006 38.0 36.0 38.0 28.0 38.0 145-149 34.0535 38.0 35.8 38.0 24.2 38.0 150-151 31.087625 36.5 31.0 38.0 8.0 38.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 2 1.0 3 0.0 4 1.0 5 3.0 6 2.0 7 3.0 8 3.0 9 3.0 10 3.0 11 3.0 12 3.0 13 6.0 14 4.0 15 2.0 16 5.0 17 4.0 18 11.0 19 51.0 20 7.0 21 6.0 22 6.0 23 4.0 24 7.0 25 8.0 26 18.0 27 27.0 28 21.0 29 34.0 30 22.0 31 37.0 32 50.0 33 54.0 34 89.0 35 174.0 36 399.0 37 2929.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 48.775 11.675 10.075000000000001 29.475 2 27.161112503132046 13.129541468303682 28.664495114006517 31.044850914557752 3 23.225 18.925 26.650000000000002 31.2 4 26.525 24.224999999999998 22.95 26.3 5 25.650000000000002 28.225 26.8 19.325 6 23.525 30.375000000000004 27.425 18.675 7 17.4 24.025 40.425 18.15 8 18.975 26.224999999999998 30.95 23.849999999999998 9 21.224999999999998 22.975 34.050000000000004 21.75 10-14 23.04 27.52 26.33 23.11 15-19 21.790000000000003 26.5 26.695 25.014999999999997 20-24 22.065 26.395000000000003 27.42 24.12 25-29 21.945 27.46 27.195000000000004 23.400000000000002 30-34 21.89 26.955000000000002 26.474999999999998 24.68 35-39 21.995 26.119999999999997 27.505000000000003 24.38 40-44 23.435 26.825 25.7 24.04 45-49 23.23 27.015 27.134999999999998 22.62 50-54 23.805 26.200000000000003 25.590000000000003 24.404999999999998 55-59 23.044999999999998 25.874999999999996 26.884999999999998 24.195 60-64 22.085 27.33 26.5 24.085 65-69 22.318347752162822 28.354253137970698 25.438815822373357 23.888583287493123 70-74 23.055 27.375 25.695 23.875 75-79 22.759999999999998 26.740000000000002 26.095000000000002 24.404999999999998 80-84 23.415 26.900000000000002 25.445 24.240000000000002 85-89 23.472347234723472 26.167616761676165 26.187618761876188 24.172417241724172 90-94 23.385 26.19 25.929999999999996 24.495 95-99 22.27 26.1 27.325 24.305 100-104 23.56 26.43 25.97 24.04 105-109 23.27 27.139999999999997 25.435000000000002 24.154999999999998 110-114 22.735 27.529999999999998 24.75 24.985 115-119 22.36 27.375 25.430000000000003 24.834999999999997 120-124 23.57 27.11 23.965 25.355 125-129 23.085 27.725 24.154999999999998 25.035 130-134 23.150000000000002 26.979999999999997 24.715 25.155 135-139 23.200000000000003 27.395000000000003 25.39 24.015 140-144 23.215 27.145000000000003 24.86 24.779999999999998 145-149 22.425 28.060000000000002 23.895 25.619999999999997 150-151 23.2125 26.7625 23.65 26.375 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 0.0 1 1.0 2 2.0 3 2.0 4 2.0 5 1.5 6 1.0 7 0.5 8 0.0 9 1.0 10 1.5 11 1.0 12 0.5 13 1.0 14 1.0 15 1.0 16 2.5 17 2.0 18 1.5 19 2.0 20 2.5 21 2.5 22 2.0 23 1.5 24 1.0 25 1.0 26 1.5 27 3.0 28 5.5 29 14.5 30 24.5 31 41.0 32 45.0 33 54.0 34 74.0 35 85.5 36 118.5 37 158.5 38 169.0 39 146.0 40 139.0 41 135.5 42 120.0 43 122.5 44 130.5 45 130.0 46 138.5 47 159.5 48 162.5 49 159.0 50 163.5 51 153.5 52 154.0 53 140.5 54 116.5 55 100.5 56 81.0 57 76.5 58 66.0 59 68.0 60 61.0 61 41.5 62 38.5 63 41.0 64 37.5 65 34.0 66 32.0 67 26.0 68 27.5 69 25.0 70 19.0 71 19.5 72 17.0 73 16.5 74 16.0 75 11.0 76 11.5 77 10.0 78 8.0 79 6.5 80 3.5 81 2.0 82 0.5 83 0.5 84 1.0 85 0.5 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 0.22499999999999998 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 0.015 70-74 0.0 75-79 0.0 80-84 0.0 85-89 0.01 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 80.525 #Duplication Level Percentage of deduplicated Percentage of total 1 90.31356721515057 72.725 2 5.681465383421298 9.15 3 1.3970816516609748 3.375 4 0.9313877677739832 3.0 5 0.4656938838869916 1.875 6 0.43464762496119214 2.1 7 0.12418503570319776 0.7000000000000001 8 0.1552312946289972 1.0 9 0.12418503570319776 0.8999999999999999 >10 0.34150884818379384 3.6999999999999997 >50 0.03104625892579944 1.4749999999999999 >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 GATCGGAAGAGCACACGTCTGAACTCCAGTCACAGCATCATCTCGTATGC 59 1.4749999999999999 TruSeq Adapter, Index 1 (97% over 37bp) GCCTTATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGA 26 0.65 No Hit GGAAGCTATACTATATAGGTGGCTATCTATCCCTACCAAGGCTTATATTG 15 0.375 No Hit GCCTCACTTAGTTACAGTTTTATGGATAATTGGGATATTCTTTGGTATAG 14 0.35000000000000003 No Hit GGATAATTGGGATATTCTTTGGTATAGTTGGGATTTTAATATCATTAATA 14 0.35000000000000003 No Hit GGGGTTATGAGTAGGGATGAGCATAAACCAACAACTCTCAAAGAAGATGG 14 0.35000000000000003 No Hit GGATGTTGTTGTTAGACACTTCTTTTTGTCTTTAAATATAAGGCGTGGTA 12 0.3 No Hit GTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGTAGGGA 12 0.3 No Hit CCCATTTTTAGTTATAATGATGCCTTATGTGATAGATGCCTCTTTAAAAT 11 0.27499999999999997 No Hit GGGAAGCTATACTATATAGGTGGCTATCTATCCCTACCAAGGCTTATATT 10 0.25 No Hit GGGCTATTGATATTTAACAAATATCCAGCAAAGGTTTTTCCAGGAGATGT 10 0.25 No Hit GCCATTCGGACCTACCGTAAGCCTATATTTCGTTTTTCTGAGACCTATCC 10 0.25 No Hit CCTCACTTAGTTACAGTTTTATGGATAATTGGGATATTCTTTGGTATAGT 9 0.22499999999999998 No Hit CCTTATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAG 9 0.22499999999999998 No Hit CTTATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGT 9 0.22499999999999998 No Hit GTGGCTATCTATCCCTACCAAGGCTTATATTGAAGTATAAACCAATGAGA 9 0.22499999999999998 No Hit GCCCATAACAATAGGAAATATCAGAAATCCAATAAGAATCAGCAATTCAG 8 0.2 No Hit GGAGCTTTCTTAGCTGTCTTAGCAGTAGTTTATAAGGAATATATCCCATT 8 0.2 No Hit CGGGGAACAGTCGCATGACGAGGCAGTTTCCAGAAACGTGTATCACATCT 8 0.2 No Hit CTCACTTAGTTACAGTTTTATGGATAATTGGGATATTCTTTGGTATAGTT 8 0.2 No Hit GTCGAGACTGAAAAGCTATAACCCGCAGACCCGAGCGAAAGCGGCGGTCC 8 0.2 No Hit CCATAACAATAGGAAATATCAGAAATCCAATAAGAATCAGCAATTCAGGA 7 0.17500000000000002 No Hit GCCCGTTTCAGGTGGTCCTCAGCGTACGGCGGGACCTCTGAGAATTGGGA 7 0.17500000000000002 No Hit GTCCTTACAAGTCCGCTCCTCGGGGAGCTTGATTGATAATTCTGTATAAG 7 0.17500000000000002 No Hit CCCGTTTCAGGTGGTCCTCAGCGTACGGCGGGACCTCTGAGAATTGGGAT 7 0.17500000000000002 No Hit CTATATTTCGTTTTTCTGAGACCTATCCGAGTTCAGTGCGACCGTACAGC 6 0.15 No Hit GCTGGGGTTATGAGTAGGGATGAGCATAAACCAACAACTCTCAAAGAAGA 6 0.15 No Hit GGCTATTGATATTTAACAAATATCCAGCAAAGGTTTTTCCAGGAGATGTT 6 0.15 No Hit GTAGTTTATAAGGAATATATCCCATTTTTAGTTATAATGATGCCTTATGT 6 0.15 No Hit CTTTAAAATATCTAAGTGCTGGGGTTATGAGTAGGGATGAGCATAAACCA 6 0.15 No Hit CCTGACCCCGGGGAACAGTCGCATGACGAGGCAGTTTCCAGAAACGTGTA 6 0.15 No Hit GTGCTAGCCCGTCGAGACTGAAAAGCTATAACCCGCAGACCCGAGCGAAA 6 0.15 No Hit GTTATGAGTAGGGATGAGCATAAACCAACAACTCTCAAAGAAGATGGGAA 6 0.15 No Hit GGCAGTTTCCAGAAACGTGTATCACATCTAGGCATGGAATCTTATGCCAG 6 0.15 No Hit GTCGAGTTGTACGGCCGTTCAGCCACGAGTCACGGGGTCTAACGCCTACC 6 0.15 No Hit GCTATCTATCCCTACCAAGGCTTATATTGAAGTATAAACCAATGAGAGAG 6 0.15 No Hit GCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGTAGGGATGAGCATAA 6 0.15 No Hit CCCTGACCCCGGGGAACAGTCGCATGACGAGGCAGTTTCCAGAAACGTGT 6 0.15 No Hit GGGATATTCTTTGGTATAGTTGGGATTTTAATATCATTAATAGCATGATG 6 0.15 No Hit CAGGAGATGTTGGAACTCTACCAATTGGAGCTTTCTTAGCTGTCTTAGCA 5 0.125 No Hit GCAGTAGTTTATAAGGAATATATCCCATTTTTAGTTATAATGATGCCTTA 5 0.125 No Hit CAGCAAAGGTTTTTCCAGGAGATGTTGGAACTCTACCAATTGGAGCTTTC 5 0.125 No Hit TGGCTATCTATCCCTACCAAGGCTTATATTGAAGTATAAACCAATGAGAG 5 0.125 No Hit CGGCTGTCGAGTTGTACGGCCGTTCAGCCACGAGTCACGGGGTCTAACGC 5 0.125 No Hit GGCTATCTATCCCTACCAAGGCTTATATTGAAGTATAAACCAATGAGAGA 5 0.125 No Hit GCAGTTTCCAGAAACGTGTATCACATCTAGGCATGGAATCTTATGCCAGC 5 0.125 No Hit GCGGTTTTGACTGCGGAAGGAAGCCAAGGCCCACCTAAAGTATGCTGCAA 5 0.125 No Hit TGGCAATTCGTCTCCACACTAGAAGTCGACGAACAACGAAGAGCGACGAT 5 0.125 No Hit GTCGCATGACGAGGCAGTTTCCAGAAACGTGTATCACATCTAGGCATGGA 5 0.125 No Hit GTGGATGTTGTTGTTAGACACTTCTTTTTGTCTTTAAATATAAGGCGTGG 5 0.125 No Hit ATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGTAGG 5 0.125 No Hit TGAGACAGAGTCGCTATCGTTATGTCTCCTTCCCGCGGTCAAGGCGAAAC 5 0.125 No Hit GGATATTCTTTGGTATAGTTGGGATTTTAATATCATTAATAGCATGATGG 5 0.125 No Hit AGGAGATGTTGGAACTCTACCAATTGGAGCTTTCTTAGCTGTCTTAGCAG 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 0.0125 0.0 0.0 0.0 0.0 48-49 0.025 0.0 0.0 0.0 0.0 50-51 0.025 0.0 0.0 0.0 0.0 52-53 0.025 0.0 0.0 0.0 0.0 54-55 0.05 0.0 0.0 0.0 0.0 56-57 0.05 0.0 0.0 0.0 0.0 58-59 0.05 0.0 0.0 0.0 0.0 60-61 0.05 0.0 0.0 0.0 0.0 62-63 0.05 0.0 0.0 0.0 0.0 64-65 0.05 0.0 0.0 0.0 0.0 66-67 0.05 0.0 0.0 0.0 0.0 68-69 0.0625 0.0 0.0 0.0 0.0 70-71 0.1 0.0 0.0 0.0 0.0 72-73 0.1875 0.0 0.0 0.0 0.0 74-75 0.2 0.0 0.0 0.0 0.0 76-77 0.30000000000000004 0.0 0.0 0.0 0.0 78-79 0.3375 0.0 0.0 0.0 0.0 80-81 0.4 0.0 0.0 0.0 0.0 82-83 0.475 0.0 0.0 0.0 0.0 84-85 0.625 0.0 0.0 0.0 0.0 86-87 0.8125 0.0 0.0 0.0 0.0 88-89 0.9625 0.0 0.0 0.0 0.0 90-91 1.2125 0.0 0.0 0.0 0.0 92-93 1.375 0.0 0.0 0.0 0.0 94-95 1.7000000000000002 0.0 0.0 0.0 0.0 96-97 2.0625 0.0 0.0 0.0 0.0 98-99 2.425 0.0 0.0 0.0 0.0 100-101 2.925 0.0 0.0 0.0 0.0 102-103 3.4125 0.0 0.0 0.0 0.0 104-105 3.7375 0.0 0.0 0.0 0.0 106-107 4.35 0.0 0.0 0.0 0.0 108-109 4.925 0.0 0.0 0.0 0.0 110-111 5.35 0.0 0.0 0.0 0.0 112-113 5.8375 0.0 0.0 0.0 0.0 114-115 6.7 0.0 0.0 0.0 0.0 116-117 7.449999999999999 0.0 0.0 0.0 0.0 118-119 8.1875 0.0 0.0 0.0 0.0 120-121 8.8875 0.0 0.0 0.0 0.0 122-123 9.6375 0.0 0.0 0.0 0.0 124-125 10.3625 0.0 0.0 0.0 0.0 126-127 11.100000000000001 0.0 0.0 0.0 0.0 128-129 11.8375 0.0 0.0 0.0 0.0 130-131 12.712499999999999 0.0 0.0 0.0 0.0 132-133 13.55 0.0 0.0 0.0 0.0 134-135 14.475 0.0 0.0 0.0 0.0 136-137 15.425 0.0 0.0 0.0 0.0 138-139 16.1875 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE SRR5578479 read2 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5578479_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 31.96675 33.0 33.0 34.0 30.0 34.0 2 32.11375 33.0 33.0 34.0 31.0 34.0 3 31.9645 33.0 33.0 34.0 29.0 34.0 4 32.01125 33.0 33.0 34.0 31.0 34.0 5 32.0335 33.0 33.0 34.0 31.0 34.0 6 36.079 38.0 38.0 38.0 33.0 38.0 7 35.966 38.0 38.0 38.0 33.0 38.0 8 36.0115 38.0 38.0 38.0 33.0 38.0 9 35.9045 38.0 38.0 38.0 33.0 38.0 10-14 35.745850000000004 38.0 37.8 38.0 30.6 38.0 15-19 35.64555 38.0 37.0 38.0 29.8 38.0 20-24 35.4991 38.0 37.0 38.0 29.0 38.0 25-29 35.40325 38.0 37.0 38.0 28.8 38.0 30-34 35.1508 38.0 36.6 38.0 28.2 38.0 35-39 34.918499999999995 38.0 36.0 38.0 27.6 38.0 40-44 34.77145 38.0 36.0 38.0 27.2 38.0 45-49 34.45835000000001 38.0 35.6 38.0 25.4 38.0 50-54 34.13605 38.0 35.0 38.0 24.2 38.0 55-59 33.890699999999995 38.0 34.4 38.0 17.6 38.0 60-64 33.65795 38.0 34.0 38.0 16.0 38.0 65-69 33.23765 38.0 33.8 38.0 16.0 38.0 70-74 32.71285 38.0 33.0 38.0 15.6 38.0 75-79 32.199 37.4 32.0 38.0 15.0 38.0 80-84 31.55115 37.0 29.8 38.0 15.0 38.0 85-89 30.990949999999998 36.6 28.6 38.0 14.6 38.0 90-94 30.2257 36.0 26.8 38.0 13.2 38.0 95-99 29.5169 35.6 24.4 38.0 13.0 38.0 100-104 28.7339 35.0 22.6 38.0 2.0 38.0 105-109 27.781349999999996 34.2 16.2 38.0 2.0 38.0 110-114 26.8062 34.0 15.0 38.0 2.0 38.0 115-119 25.61105 33.2 14.4 37.8 2.0 38.0 120-124 24.569449999999996 32.2 13.4 37.6 2.0 38.0 125-129 23.080049999999996 28.6 6.4 36.8 2.0 38.0 130-134 21.4092 24.2 2.0 35.8 2.0 38.0 135-139 20.10185 22.2 2.0 35.0 2.0 38.0 140-144 18.4812 15.8 2.0 35.0 2.0 38.0 145-149 15.681149999999999 6.4 2.0 33.2 2.0 38.0 150-151 11.35075 2.0 2.0 26.0 2.0 35.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 2 36.0 3 13.0 4 7.0 5 4.0 6 7.0 7 14.0 8 14.0 9 11.0 10 14.0 11 14.0 12 22.0 13 26.0 14 34.0 15 31.0 16 35.0 17 63.0 18 46.0 19 35.0 20 56.0 21 60.0 22 87.0 23 86.0 24 81.0 25 103.0 26 123.0 27 138.0 28 149.0 29 167.0 30 206.0 31 215.0 32 291.0 33 353.0 34 406.0 35 467.0 36 418.0 37 168.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 43.064596895343016 20.13019529293941 13.319979969954932 23.485227841762644 2 30.848136102076555 24.168126094570926 22.016512384288216 22.9672254190643 3 24.055068836045056 24.6558197747184 29.261576971214016 22.02753441802253 4 27.2090112640801 30.863579474342927 20.700876095118897 21.226533166458072 5 28.903903903903906 31.73173173173173 19.31931931931932 20.045045045045047 6 24.95 33.125 21.075 20.849999999999998 7 22.511255627813906 23.011505752876438 31.86593296648324 22.611305652826413 8 23.892919689767325 26.294721040780583 23.967975981986488 25.8443832874656 9 25.093820365273956 24.74355766825119 25.819364523392547 24.34325744308231 10-14 25.685548438751 26.791433146517214 22.99839871897518 24.524619695756606 15-19 26.308415891123786 25.76303412388672 24.587211047733412 23.34133893725608 20-24 26.435861516910148 26.31078647188313 24.129477686611967 23.123874324594755 25-29 26.372911873562067 26.2628788636591 23.91217365209563 23.452035610683204 30-34 26.541138765085883 25.920176273223493 24.608142621062647 22.930542340627973 35-39 25.48960681192086 24.663160530929126 25.805159028299524 24.04207362885049 40-44 26.964267841056948 25.277749974977482 25.18266439795816 22.575317786007407 45-49 26.12048675446943 24.553057238720015 25.88011417697431 23.446341829836246 50-54 24.31309744257044 25.023772583954756 26.975626845503225 23.687503127971574 55-59 24.39329497122842 26.26970227670753 26.9402051538654 22.39679759819865 60-64 23.8402642245909 26.087174097983283 26.662663263774206 23.409898413651604 65-69 23.580043036581095 27.823650102587198 25.972076264825102 22.624230596006605 70-74 23.622717037778333 27.72079059294471 25.774330748061047 22.882161621215914 75-79 23.689874368086492 27.729115571349915 25.321587667050405 23.259422393513187 80-84 24.019411646988193 27.426455873524112 24.83490094056434 23.719231538923356 85-89 23.398189366278196 27.72970539688891 25.784024408542987 23.0880808282899 90-94 24.372060442309618 28.404883418392874 25.54788351846292 21.675172620834584 95-99 24.295651303608068 28.0288245008257 25.251463744182555 22.424060451383674 100-104 24.054810962192438 28.83076615323065 23.94478895779156 23.16963392678536 105-109 24.494696818090855 29.107464478687213 23.68921352811687 22.708625175105063 110-114 23.8116681677174 29.020314219953967 23.836685679975982 23.331331932352647 115-119 24.466009704366964 29.80341153519084 23.180431194037318 22.55014756640488 120-124 25.003751312959537 29.515330365627968 23.478217376081627 22.002700945330865 125-129 25.360216129677802 29.75285171102662 22.91875125075045 21.968180908545126 130-134 25.32392816048827 28.595727650207614 23.668017409575267 22.41232677972885 135-139 24.45111277819455 30.4126031507877 23.315828957239308 21.820455113778443 140-144 26.338950842626396 29.189378406761012 23.09346401960294 21.37820673100965 145-149 26.187618761876188 29.777977797779776 22.577257725772576 21.457145714571457 150-151 26.674999999999997 30.725 21.5375 21.0625 >>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 0.5 6 1.0 7 0.5 8 0.0 9 0.0 10 0.5 11 0.5 12 0.5 13 0.5 14 0.0 15 0.0 16 0.5 17 1.5 18 1.0 19 0.5 20 1.5 21 2.0 22 2.5 23 2.0 24 1.0 25 2.0 26 2.0 27 3.0 28 7.0 29 9.0 30 13.5 31 23.0 32 35.0 33 40.5 34 50.0 35 69.0 36 93.5 37 124.0 38 147.0 39 153.5 40 187.5 41 164.5 42 111.0 43 119.0 44 118.0 45 119.0 46 126.0 47 137.0 48 153.5 49 159.5 50 147.0 51 135.5 52 154.5 53 157.0 54 161.0 55 147.0 56 102.0 57 92.5 58 89.0 59 76.5 60 55.5 61 50.0 62 59.0 63 49.0 64 37.0 65 35.0 66 28.0 67 28.0 68 31.0 69 31.5 70 30.5 71 23.0 72 21.0 73 19.5 74 15.0 75 11.0 76 5.5 77 5.0 78 6.0 79 5.0 80 3.0 81 2.0 82 1.5 83 1.0 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 0.15 2 0.075 3 0.125 4 0.125 5 0.1 6 0.0 7 0.05 8 0.075 9 0.075 10-14 0.08 15-19 0.06999999999999999 20-24 0.06 25-29 0.03 30-34 0.155 35-39 0.17500000000000002 40-44 0.09 45-49 0.155 50-54 0.095 55-59 0.075 60-64 0.08499999999999999 65-69 0.08499999999999999 70-74 0.075 75-79 0.105 80-84 0.06 85-89 0.034999999999999996 90-94 0.06999999999999999 95-99 0.08499999999999999 100-104 0.02 105-109 0.06 110-114 0.06999999999999999 115-119 0.045 120-124 0.034999999999999996 125-129 0.06 130-134 0.055 135-139 0.025 140-144 0.015 145-149 0.01 150-151 0.0 >>END_MODULE >>Sequence Length Distribution pass #Length Count 151 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 79.80000000000001 #Duplication Level Percentage of deduplicated Percentage of total 1 90.47619047619048 72.2 2 5.3884711779448615 8.6 3 1.6917293233082706 4.05 4 0.8771929824561403 2.8000000000000003 5 0.34461152882205515 1.375 6 0.4072681704260651 1.95 7 0.06265664160401002 0.35000000000000003 8 0.09398496240601503 0.6 9 0.12531328320802004 0.8999999999999999 >10 0.5325814536340852 7.175 >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 GATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCG 36 0.8999999999999999 Illumina Single End PCR Primer 1 (100% over 50bp) GGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTT 25 0.625 No Hit GGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTC 24 0.6 No Hit GCTGCTCACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGATCGTGG 22 0.5499999999999999 No Hit CATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAAT 21 0.525 No Hit GCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCC 19 0.475 No Hit AATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGA 19 0.475 No Hit ATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAG 15 0.375 No Hit GAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCC 14 0.35000000000000003 No Hit CTTCAATATAAGCCTTGGTAGGGATAGATAGCCACCTATATAGTATAGCT 13 0.325 No Hit TAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGT 12 0.3 No Hit CCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGG 12 0.3 No Hit CCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGT 12 0.3 No Hit GGACATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCC 11 0.27499999999999997 No Hit ATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATA 11 0.27499999999999997 No Hit GGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTCAAAACAATCAC 11 0.27499999999999997 No Hit GTAGGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGAT 10 0.25 No Hit CCCAATTATCCATAAAACTGTAACTAAGTGAGGCTCTCTCATTGGTTTAT 9 0.22499999999999998 No Hit TGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTC 9 0.22499999999999998 No Hit ATTACTTCCATTTCCGCCCAAGCTGCTCACAGTATACGGGCGTCGGCATC 9 0.22499999999999998 No Hit AGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTT 9 0.22499999999999998 No Hit AAAGAATATCCCAATTATCCATAAAACTGTAACTAAGTGAGGCTCTCTCA 8 0.2 No Hit GCCCAAGCTGCTCACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGA 8 0.2 No Hit GCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATG 8 0.2 No Hit GGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATGGT 7 0.17500000000000002 No Hit GGGATAGATAGCCACCTATATAGTATAGCTTCCCATCTTCTTTGAGAGTT 7 0.17500000000000002 No Hit GGTAGGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGA 6 0.15 No Hit TGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATGGTTTTT 6 0.15 No Hit CCCAAGCTGCTCACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGAT 6 0.15 No Hit CTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTT 6 0.15 No Hit GTTAGGGCAGCGTCTGAGGAAGTTTGCTGCGGTTTCGCCTTGACCGCGGG 6 0.15 No Hit TGTCTCGTACGGTTAAGAGCCTCCGCCCGTCTCTGGGACTATGGACGGGC 6 0.15 No Hit GCCACAGGCGTCATACTTCCCAAGAAGCGGCCATAGCCCAGATGCGAGGT 6 0.15 No Hit CAATTATCCATAAAACTGTAACTAAGTGAGGCTCTCTCATTGGTTTATAC 6 0.15 No Hit GTTCGATTTCTTAAAGGACTGAATATTCGGTGGCAGTATGGGATTTCTAA 6 0.15 No Hit ACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTC 6 0.15 No Hit CGGCATCCAGACCGTCGGCTGATCGTGGTTTTACTAGGCTAGACTAGCGT 6 0.15 No Hit TAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGG 6 0.15 No Hit GGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATGGTTTTTAC 6 0.15 No Hit GCCGTACGCTGAGGACCACCTGAAACGGGCATCGTCGCTCTTCGTTGTTC 5 0.125 No Hit TCCATTTCCGCCCAAGCTGCTCACAGTATACGGGCGTCGGCATCCAGACC 5 0.125 No Hit CTTCCATTTCCGCCCAAGCTGCTCACAGTATACGGGCGTCGGCATCCAGA 5 0.125 No Hit CTCTCATTGGTTTATACTTCAATATAAGCCTTGGTAGGGATAGATAGCCA 5 0.125 No Hit GCTGTACGGTCGCACTGAACTCGGATAGGTCTCAGAAAAACGAAATATAG 5 0.125 No Hit GACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTCAAAACAAT 5 0.125 No Hit AGATTGTCTCGTACGGTTAAGAGCCTCCGCCCGTCTCTGGGACTATGGAC 5 0.125 No Hit GGATAGATAGCCACCTATATAGTATAGCTTCCCATCTTCTTTGAGAGTTG 5 0.125 No Hit AGATAGCCACCTATATAGTATAGCTTCCCATCTTCTTTGAGAGTTGTTGG 5 0.125 No Hit GCTGATCGTGGTTTTACTAGGCTAGACTAGCGTACGAGCACTATGGTCAG 5 0.125 No Hit AGATTACTTCCATTTCCGCCCAAGCTGCTCACAGTATACGGGCGTCGGCA 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 0.025 0.0 0.0 0.0 0.0 56-57 0.025 0.0 0.0 0.0 0.0 58-59 0.025 0.0 0.0 0.0 0.0 60-61 0.025 0.0 0.0 0.0 0.0 62-63 0.025 0.0 0.0 0.0 0.0 64-65 0.037500000000000006 0.0 0.0 0.0 0.0 66-67 0.05 0.0 0.0 0.0 0.0 68-69 0.0625 0.0 0.0 0.0 0.0 70-71 0.1125 0.0 0.0 0.0 0.0 72-73 0.1375 0.0 0.0 0.0 0.0 74-75 0.175 0.0 0.0 0.0 0.0 76-77 0.2375 0.0 0.0 0.0 0.0 78-79 0.2625 0.0 0.0 0.0 0.0 80-81 0.32499999999999996 0.0 0.0 0.0 0.0 82-83 0.4 0.0 0.0 0.0 0.0 84-85 0.5375 0.0 0.0 0.0 0.0 86-87 0.6875 0.0 0.0 0.0 0.0 88-89 0.775 0.0 0.0 0.0 0.0 90-91 0.975 0.0 0.0 0.0 0.0 92-93 1.1124999999999998 0.0 0.0 0.0 0.0 94-95 1.325 0.0 0.0 0.0 0.0 96-97 1.625 0.0 0.0 0.0 0.0 98-99 1.85 0.0 0.0 0.0 0.0 100-101 2.1375 0.0 0.0 0.0 0.0 102-103 2.4749999999999996 0.0 0.0 0.0 0.0 104-105 2.7 0.0 0.0 0.0 0.0 106-107 3.1500000000000004 0.0 0.0 0.0 0.0 108-109 3.55 0.0 0.0 0.0 0.0 110-111 3.7375 0.0 0.0 0.0 0.0 112-113 4.012499999999999 0.0 0.0 0.0 0.0 114-115 4.5375 0.0 0.0 0.0 0.0 116-117 5.0125 0.0 0.0 0.0 0.0 118-119 5.4375 0.0 0.0 0.0 0.0 120-121 5.8875 0.0 0.0 0.0 0.0 122-123 6.3 0.0 0.0 0.0 0.0 124-125 6.7375 0.0 0.0 0.0 0.0 126-127 7.1625 0.0 0.0 0.0 0.0 128-129 7.5125 0.0 0.0 0.0 0.0 130-131 7.9 0.0 0.0 0.0 0.0 132-133 8.3125 0.0 0.0 0.0 0.0 134-135 8.6875 0.0 0.0 0.0 0.0 136-137 9.225 0.0 0.0 0.0 0.0 138-139 9.6625 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Read 789673 spots for SRR5578479.sra Written 789673 spots for SRR5578479.sra Read 789673 spots for SRR5578479.sra Written 789673 spots for SRR5578479.sra Read 789673 spots for SRR5578479.sra Written 789673 spots for SRR5578479.sra Read 789673 spots for SRR5578479.sra Written 789673 spots for SRR5578479.sra Read 789673 spots for SRR5578479.sra Written 789673 spots for SRR5578479.sra Read 789673 spots for SRR5578479.sra Written 789673 spots for SRR5578479.sra Read 789673 spots for SRR5578479.sra Written 789673 spots for SRR5578479.sra Read 789673 spots for SRR5578479.sra Written 789673 spots for SRR5578479.sra Read 789673 spots for SRR5578479.sra Written 789673 spots for SRR5578479.sra Read 789673 spots for SRR5578479.sra Written 789673 spots for SRR5578479.sra Read 789680 spots for SRR5578479.sra Written 789680 spots for SRR5578479.sra Read 789673 spots for SRR5578479.sra Written 789673 spots for SRR5578479.sra Read 789673 spots for SRR5578479.sra Written 789673 spots for SRR5578479.sra Read 789673 spots for SRR5578479.sra Written 789673 spots for SRR5578479.sra Read 789673 spots for SRR5578479.sra Written 789673 spots for SRR5578479.sra Read 789673 spots for SRR5578479.sra Written 789673 spots for SRR5578479.sra Read 789673 spots for SRR5578479.sra Written 789673 spots for SRR5578479.sra Read 789673 spots for SRR5578479.sra Written 789673 spots for SRR5578479.sra Read 789673 spots for SRR5578479.sra Written 789673 spots for SRR5578479.sra Read 789673 spots for SRR5578479.sra Written 789673 spots for SRR5578479.sra SRR ids: ['SRR5578479.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_y1zesexj SRR5578479.sra spots: 15793467 blocks: [[1, 789673], [789674, 1579346], [1579347, 2369019], [2369020, 3158692], [3158693, 3948365], [3948366, 4738038], [4738039, 5527711], [5527712, 6317384], [6317385, 7107057], [7107058, 7896730], [7896731, 8686403], [8686404, 9476076], [9476077, 10265749], [10265750, 11055422], [11055423, 11845095], [11845096, 12634768], [12634769, 13424441], [13424442, 14214114], [14214115, 15003787], [15003788, 15793467]] SRR5578479 file size 5330187 SRR5578479 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 SRR5578479 SRR5578479_1.fastq SRR5578479_2.fastq Input file: SRR5578479_1.fastq Paired file: SRR5578479_2.fastq trimmed: SRR5578479-trimmed-pair1.fastq, SRR5578479-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 19:55:47 2024 >> started Mon Dec 9 19:56:05 2024 >> done (17.853s) 15793467 read pairs processed; of these: 60484 ( 0.38%) short read pairs filtered out after trimming by size control 255548 ( 1.62%) empty read pairs filtered out after trimming by size control 15477435 (98.00%) read pairs available; of these: 9384013 (60.63%) trimmed read pairs available after processing 6093422 (39.37%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 18 5 0.00% 19 15 0.00% 20 8 0.00% 21 18 0.00% 22 30 0.00% 23 28 0.00% 24 37 0.00% 25 26 0.00% 26 34 0.00% 27 32 0.00% 28 25 0.00% 29 33 0.00% 30 28 0.00% 31 56 0.00% 32 47 0.00% 33 32 0.00% 34 46 0.00% 35 76 0.00% 36 40 0.00% 37 68 0.00% 38 64 0.00% 39 91 0.00% 40 69 0.00% 41 98 0.00% 42 112 0.00% 43 114 0.00% 44 155 0.00% 45 187 0.00% 46 220 0.00% 47 236 0.00% 48 317 0.00% 49 316 0.00% 50 366 0.00% 51 387 0.00% 52 482 0.00% 53 496 0.00% 54 559 0.00% 55 574 0.00% 56 746 0.00% 57 776 0.01% 58 891 0.01% 59 906 0.01% 60 1005 0.01% 61 1187 0.01% 62 1272 0.01% 63 1511 0.01% 64 1765 0.01% 65 1995 0.01% 66 2452 0.02% 67 3393 0.02% 68 5287 0.03% 69 11687 0.08% 70 19432 0.13% 71 9629 0.06% 72 6303 0.04% 73 5656 0.04% 74 5957 0.04% 75 6436 0.04% 76 6798 0.04% 77 7379 0.05% 78 8119 0.05% 79 9187 0.06% 80 9898 0.06% 81 11108 0.07% 82 13015 0.08% 83 14519 0.09% 84 18060 0.12% 85 20364 0.13% 86 21631 0.14% 87 22899 0.15% 88 24709 0.16% 89 25765 0.17% 90 27451 0.18% 91 27994 0.18% 92 29996 0.19% 93 31795 0.21% 94 33229 0.21% 95 35095 0.23% 96 36189 0.23% 97 38484 0.25% 98 40000 0.26% 99 42764 0.28% 100 45089 0.29% 101 45976 0.30% 102 48223 0.31% 103 51762 0.33% 104 53749 0.35% 105 56660 0.37% 106 59042 0.38% 107 59689 0.39% 108 62238 0.40% 109 61401 0.40% 110 62506 0.40% 111 66604 0.43% 112 70291 0.45% 113 76348 0.49% 114 79073 0.51% 115 81839 0.53% 116 82343 0.53% 117 81746 0.53% 118 82471 0.53% 119 83130 0.54% 120 87107 0.56% 121 88525 0.57% 122 91900 0.59% 123 95760 0.62% 124 99753 0.64% 125 100687 0.65% 126 102633 0.66% 127 102089 0.66% 128 100938 0.65% 129 105459 0.68% 130 105377 0.68% 131 108007 0.70% 132 112000 0.72% 133 114915 0.74% 134 117188 0.76% 135 119628 0.77% 136 122427 0.79% 137 124093 0.80% 138 131922 0.85% 139 137055 0.89% 140 140734 0.91% 141 147151 0.95% 142 162647 1.05% 143 173040 1.12% 144 188266 1.22% 145 213504 1.38% 146 251099 1.62% 147 312101 2.02% 148 423738 2.74% 149 703566 4.55% 150 2540263 16.41% 151 6093422 39.37% 15477435 reads passed initial QC criterion=sequence-density sequence-density=0.50 sequence-density-rank=1 fanout-score=22.93 fanout-score-rank=2 prefix-density=5.89 prefix-fanout=1.9 sequence=TTCGTTTTTTTTCTTG criterion=fanout-score sequence-density=0.01 sequence-density-rank=35 fanout-score=48.44 fanout-score-rank=1 prefix-density=0.49 prefix-fanout=1.4 sequence=TTTTTTTTCTCGTTCTTTGGTCGCAATCCTGCGTAATCAACGCCGCAACTTTACGTCGGATTAGCTCTTCTTTGATTAGCATGAAACTCCAAGGTCCGGGGGGGTCACTTATCCTGGGCTTCATCCAATGGTGGGTGCTAACTCTTTAATAGCCTTCAGTGACTGTGAGATGCCGTCTACGAGTGGCACGAATCGCACGGATGTTTGGTTAAAGAACAGTCGCAGTTTTCCTCAAATCCCGCCACGAAACTAAGCGATTGAACTCTTGCCTGGTTACTGTATGCCCCTGTGTTATTGCAGCGTCTCGATTAGGGGGAAACCTTGTCACCGTCAGCTTATTCCCGAGGCATATGGCCCTACTTAACTGATCTGAAGTATTACGGTAACCGCGACGATAATAACCCGGACCAAATATAGCCTGATATGAGCGTGCCCGTCCATAGTCCCAGAGACGGGCGGAGGCTCTTAACCGTACGAGACAATCTCC criterion=sequence-density sequence-density=0.80 sequence-density-rank=1 fanout-score=5.08 fanout-score-rank=14 prefix-density=4.00 prefix-fanout=1.0 sequence=CAAGAAAAAAAACGAA criterion=fanout-score sequence-density=0.01 sequence-density-rank=32 fanout-score=42.67 fanout-score-rank=1 prefix-density=0.29 prefix-fanout=1.0 sequence=AATTCATCTCCTCTAACTTTGGAGAGGTAGGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATGGTTTTTACTATGTTGGGTATGCTGTTCGATTTCTTAAAGGACTGAATATTCGGTGGCAGTATGGGATTTCTAAAAATAATGTTAAGAATTTTTGCTGGTTTTTTGCGACGTTGGTGTTGTATTCTATAGCTCCATTATGGCCGTTATATGGAATCATTGGAGTGCCAGTAATTCTACCACGCCTTATATTTAAAGACAAAAAGAAGTGTCTAACAACAACATCCACACTACTACTCCTTGTCATATTTCTTCCTGAATTGCTGATTCTTATTGGATTTCTGATATTTCCTATTGTTATGGGCTATTACATCTCTAAGGAATTGGTGAAGTAAAATGGTGAAGCTTATGAATTTGTGGAGTGAGAGGATTAAAGATAGGGAAGTTGTTGAAGTTATTGGCTGTGAGAGAGTGCCATTGATGAAACGT SRR5578479 testing PE reads STAR mapping to Ensembl genome Started job on | Dec 09 19:57:44 Started mapping on | Dec 09 19:57:44 Finished on | Dec 09 20:23:40 Mapping speed, Million of reads per hour | 35.81 Number of input reads | 15477435 Average input read length | 282 UNIQUE READS: Uniquely mapped reads number | 7071252 Uniquely mapped reads % | 45.69% Average mapped length | 280.05 Number of splices: Total | 5312936 Number of splices: Annotated (sjdb) | 4980493 Number of splices: GT/AG | 5247517 Number of splices: GC/AG | 57249 Number of splices: AT/AC | 2143 Number of splices: Non-canonical | 6027 Mismatch rate per base, % | 0.17% Deletion rate per base | 0.00% Deletion average length | 1.38 Insertion rate per base | 0.00% Insertion average length | 1.25 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 156549 % of reads mapped to multiple loci | 1.01% Number of reads mapped to too many loci | 36155 % of reads mapped to too many loci | 0.23% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 52.22% % of reads unmapped: other | 0.85% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 8267946 8267946 8267946 N_multimapping 156549 156549 156549 N_noFeature 233727 6766860 332750 N_ambiguous 231363 698 26639 UnstrandedReadsAssigned:6606162 PositiveStrandReadsAssigned:303694 NegativeStrandReadsAssigned:6711863 Dataset is classified negative stranded MeadianReadLen=151 20thPercentileLength=137 echo kmer=133 SRR5578479 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: SRR5578479-trimmed-pair1.fastq SRR5578479-trimmed-pair2.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 15,477,435 reads, 6,792,325 reads pseudoaligned [quant] estimated average fragment length: 201.958 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,080 rounds 52973 SRR5578479.ke.tsv 35125 SRR5578479.se.tsv 88098 total ==> SRR5578479.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 735.287 43.2462 9.50643 PNS24247 1044 843.042 0 0 PNS24249 1928 1727.04 82.0982 7.68347 PNS24246 1044 843.042 0 0 PNS24248 1044 843.042 0 0 PNS24244 1471 1270.04 94.6557 12.0463 PNS24243 293 120.001 0 0 KQK14069 1603 1402.04 744.5 85.8283 KQK14071 474 279.97 5.87145 3.3897 ==> SRR5578479.se.tsv <== BRADI_1g14170v3 761 BRADI_1g53295v3 6 BRADI_1g59795v3 76 BRADI_1g07683v3 0 BRADI_1g00485v3 2 BRADI_1g20270v3 182 BRADI_1g74790v3 429 BRADI_1g09890v3 2 BRADI_1g77505v3 74 BRADI_1g48960v3 0 SRR5578479 completed mapping pipeline successfully