Starting /dee2/code/volunteer_pipeline.sh SRR5578476 current disk space = 1522084663296 free memory = 1566207496 SRR5578476 SRAfilesize f3ba33dd534f497c9600c99e66144e5e SRR5578476.sra SRR5578476.sra file validated SRR5578476 is paired end SRR5578476 is conventional basespace SRR5578476 read1 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5578476_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 49 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 32.687 34.0 34.0 34.0 33.0 34.0 2 33.4505 34.0 34.0 34.0 33.0 34.0 3 33.521 34.0 34.0 34.0 33.0 34.0 4 33.6025 34.0 34.0 34.0 33.0 34.0 5 33.6125 34.0 34.0 34.0 33.0 34.0 6 37.29325 38.0 38.0 38.0 36.0 38.0 7 37.58325 38.0 38.0 38.0 37.0 38.0 8 37.67625 38.0 38.0 38.0 38.0 38.0 9 37.69625 38.0 38.0 38.0 38.0 38.0 10-14 37.67755 38.0 38.0 38.0 38.0 38.0 15-19 37.6462 38.0 38.0 38.0 38.0 38.0 20-24 37.64815 38.0 38.0 38.0 38.0 38.0 25-29 37.596500000000006 38.0 38.0 38.0 38.0 38.0 30-34 37.55045 38.0 38.0 38.0 38.0 38.0 35-39 37.4745 38.0 38.0 38.0 38.0 38.0 40-44 37.337450000000004 38.0 38.0 38.0 37.4 38.0 45-49 37.29515 38.0 38.0 38.0 37.0 38.0 50-54 37.26965 38.0 38.0 38.0 37.0 38.0 55-59 37.23565 38.0 38.0 38.0 37.0 38.0 60-64 37.1477 38.0 38.0 38.0 36.8 38.0 65-69 37.128699999999995 38.0 38.0 38.0 36.4 38.0 70-74 36.963 38.0 38.0 38.0 36.0 38.0 75-79 36.68055 38.0 38.0 38.0 35.8 38.0 80-84 36.6094 38.0 38.0 38.0 35.0 38.0 85-89 36.50345 38.0 38.0 38.0 35.0 38.0 90-94 36.397149999999996 38.0 38.0 38.0 34.8 38.0 95-99 36.252900000000004 38.0 38.0 38.0 34.2 38.0 100-104 36.1342 38.0 38.0 38.0 34.0 38.0 105-109 35.9607 38.0 38.0 38.0 33.2 38.0 110-114 35.76875 38.0 37.6 38.0 33.0 38.0 115-119 35.654250000000005 38.0 37.2 38.0 32.6 38.0 120-124 35.50435 38.0 36.8 38.0 31.8 38.0 125-129 35.282849999999996 38.0 36.2 38.0 31.0 38.0 130-134 35.01125 38.0 36.0 38.0 29.8 38.0 135-139 34.67105 38.0 35.4 38.0 27.6 38.0 140-144 34.1482 38.0 35.0 38.0 24.4 38.0 145-149 33.63655 38.0 34.8 38.0 21.4 38.0 150-151 29.7515 36.0 27.5 38.0 2.0 38.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 6 2.0 7 1.0 8 4.0 9 2.0 10 2.0 11 0.0 12 5.0 13 0.0 14 3.0 15 5.0 16 3.0 17 3.0 18 11.0 19 33.0 20 3.0 21 4.0 22 5.0 23 3.0 24 4.0 25 11.0 26 8.0 27 19.0 28 27.0 29 24.0 30 22.0 31 37.0 32 50.0 33 74.0 34 119.0 35 225.0 36 634.0 37 2657.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 44.14414414414414 10.656370656370656 11.016731016731017 34.18275418275418 2 28.475 12.7 29.675 29.15 3 24.474999999999998 17.45 24.15 33.925 4 26.85 23.775 22.775000000000002 26.6 5 27.474999999999998 26.3 25.624999999999996 20.599999999999998 6 22.6 30.5 25.4 21.5 7 17.525 25.525 38.25 18.7 8 21.025 24.2 30.175 24.6 9 19.875 21.8 35.475 22.85 10-14 24.26985397079416 26.510302060412084 25.520104020804162 23.6997399479896 15-19 23.3 25.385 26.26 25.055 20-24 22.985 24.825 27.16 25.03 25-29 22.650000000000002 25.985000000000003 26.965 24.4 30-34 23.115 25.985000000000003 25.465 25.435000000000002 35-39 23.605 25.415 26.035000000000004 24.945 40-44 24.525 24.745 25.895000000000003 24.834999999999997 45-49 23.794999999999998 25.740000000000002 26.674999999999997 23.79 50-54 24.955 25.305 25.380000000000003 24.36 55-59 24.01 24.95 26.02 25.019999999999996 60-64 22.919999999999998 26.834999999999997 25.595000000000002 24.65 65-69 23.57 26.06 25.82 24.55 70-74 23.97 26.974999999999998 24.025 25.03 75-79 23.1 25.595000000000002 25.39 25.915 80-84 25.1 25.779999999999998 25.145 23.974999999999998 85-89 25.36 25.080000000000002 25.35 24.21 90-94 25.25 24.46 25.869999999999997 24.42 95-99 23.544999999999998 25.36 26.445 24.65 100-104 25.124999999999996 24.725 25.55 24.6 105-109 24.345 25.88 25.264999999999997 24.51 110-114 23.41 25.865 25.064999999999998 25.66 115-119 24.104999999999997 26.045 24.62 25.230000000000004 120-124 24.485 25.03 24.385 26.1 125-129 24.02 26.119999999999997 24.595 25.264999999999997 130-134 25.569999999999997 24.915000000000003 24.57 24.945 135-139 24.16 25.665 25.790000000000003 24.385 140-144 24.25 26.22 24.77 24.759999999999998 145-149 23.990000000000002 27.105 23.625 25.28 150-151 25.412499999999998 24.875 23.8625 25.85 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 1.0 1 0.5 2 1.0 3 2.0 4 1.5 5 1.0 6 1.0 7 1.5 8 1.5 9 1.0 10 1.0 11 0.5 12 0.0 13 0.5 14 0.5 15 0.5 16 0.5 17 0.0 18 0.0 19 0.5 20 2.0 21 3.0 22 2.0 23 0.5 24 1.0 25 2.5 26 3.0 27 1.5 28 1.5 29 8.0 30 20.0 31 34.5 32 38.0 33 54.0 34 70.5 35 72.5 36 99.5 37 139.0 38 149.0 39 138.0 40 145.5 41 136.0 42 113.0 43 102.5 44 103.5 45 116.0 46 128.5 47 135.5 48 140.5 49 135.5 50 127.0 51 129.0 52 135.5 53 137.0 54 121.0 55 110.0 56 106.0 57 92.0 58 82.5 59 90.5 60 84.0 61 69.5 62 64.5 63 55.5 64 52.5 65 57.5 66 58.0 67 53.5 68 47.5 69 40.5 70 34.0 71 30.0 72 27.5 73 21.0 74 15.0 75 13.0 76 13.0 77 10.5 78 5.0 79 2.5 80 2.0 81 1.0 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 2.875 2 0.0 3 0.0 4 0.0 5 0.0 6 0.0 7 0.0 8 0.0 9 0.0 10-14 0.02 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 0.0 >>END_MODULE >>Sequence Length Distribution pass #Length Count 151 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 85.925 #Duplication Level Percentage of deduplicated Percentage of total 1 93.13354669770149 80.025 2 4.0733197556008145 7.000000000000001 3 1.3092813500145475 3.375 4 0.4946173988943846 1.7000000000000002 5 0.3782368344486471 1.625 6 0.11638056444573756 0.6 7 0.11638056444573756 0.7000000000000001 8 0.08728542333430317 0.6 9 0.05819028222286878 0.44999999999999996 >10 0.23276112889147513 3.925 >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 GCCTTATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGA 33 0.8250000000000001 No Hit GATCGGAAGAGCACACGTCTGAACTCCAGTCACCTAGCTATCTCGTATGC 32 0.8 TruSeq Adapter, Index 3 (97% over 37bp) GCCTCACTTAGTTACAGTTTTATGGATAATTGGGATATTCTTTGGTATAG 20 0.5 No Hit GGGGTTATGAGTAGGGATGAGCATAAACCAACAACTCTCAAAGAAGATGG 17 0.42500000000000004 No Hit GGAAGCTATACTATATAGGTGGCTATCTATCCCTACCAAGGCTTATATTG 17 0.42500000000000004 No Hit CCCATTTTTAGTTATAATGATGCCTTATGTGATAGATGCCTCTTTAAAAT 15 0.375 No Hit GGGAAGCTATACTATATAGGTGGCTATCTATCCCTACCAAGGCTTATATT 12 0.3 No Hit GTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGTAGGGA 11 0.27499999999999997 No Hit GCAGTAGTTTATAAGGAATATATCCCATTTTTAGTTATAATGATGCCTTA 9 0.22499999999999998 No Hit GTGGCTATCTATCCCTACCAAGGCTTATATTGAAGTATAAACCAATGAGA 9 0.22499999999999998 No Hit ATGCCTTATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTAT 8 0.2 No Hit CTTATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGT 8 0.2 No Hit GGCTATCTATCCCTACCAAGGCTTATATTGAAGTATAAACCAATGAGAGA 8 0.2 No Hit CAGTAGTTTATAAGGAATATATCCCATTTTTAGTTATAATGATGCCTTAT 7 0.17500000000000002 No Hit CCAGGAGATGTTGGAACTCTACCAATTGGAGCTTTCTTAGCTGTCTTAGC 7 0.17500000000000002 No Hit TGGGAAGCTATACTATATAGGTGGCTATCTATCCCTACCAAGGCTTATAT 7 0.17500000000000002 No Hit GGATAATTGGGATATTCTTTGGTATAGTTGGGATTTTAATATCATTAATA 7 0.17500000000000002 No Hit CCTCACTTAGTTACAGTTTTATGGATAATTGGGATATTCTTTGGTATAGT 6 0.15 No Hit GTAGTTTATAAGGAATATATCCCATTTTTAGTTATAATGATGCCTTATGT 6 0.15 No Hit CCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGTAGGGATGAGCATAAA 6 0.15 No Hit GATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGTAGGGATG 6 0.15 No Hit GCCCATAACAATAGGAAATATCAGAAATCCAATAAGAATCAGCAATTCAG 5 0.125 No Hit CTGTATAAGGTGATCGCAGGTTGTGCAATCATTGCTCAAAAGGGTGTACA 5 0.125 No Hit GTGTACACCGCCCTTAGACGTCTTGGTATACGGACAACTGATGGACCCAC 5 0.125 No Hit CTTTAAAATATCTAAGTGCTGGGGTTATGAGTAGGGATGAGCATAAACCA 5 0.125 No Hit GTGCCATTCGGACCTACCGTAAGCCTATATTTCGTTTTTCTGAGACCTAT 5 0.125 No Hit CTTACAAGTCCGCTCCTCGGGGAGCTTGATTGATAATTCTGTATAAGGTG 5 0.125 No Hit GCCCGTTTCAGGTGGTCCTCAGCGTACGGCGGGACCTCTGAGAATTGGGA 5 0.125 No Hit GTTATGAGTAGGGATGAGCATAAACCAACAACTCTCAAAGAAGATGGGAA 5 0.125 No Hit ATCCTATTTAGGGCTATTGATATTTAACAAATATCCAGCAAAGGTTTTTC 5 0.125 No Hit CTTTGATATTCTCTGCATCCTATTTAGGGCTATTGATATTTAACAAATAT 5 0.125 No Hit GCCCTAACTGCGCAGTTAATAATTCTGGCAATTCGTCTCCACACTAGAAG 5 0.125 No Hit GCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGTAGGGATGAGCATAA 5 0.125 No Hit GGGATGAGCATAAACCAACAACTCTCAAAGAAGATGGGAAGCTATACTAT 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 0.05 0.0 0.0 0.0 0.0 2 0.05 0.0 0.0 0.0 0.0 3 0.05 0.0 0.0 0.0 0.0 4 0.05 0.0 0.0 0.0 0.0 5 0.05 0.0 0.0 0.0 0.0 6 0.05 0.0 0.0 0.0 0.0 7 0.05 0.0 0.0 0.0 0.0 8 0.05 0.0 0.0 0.0 0.0 9 0.05 0.0 0.0 0.0 0.0 10-11 0.05 0.0 0.0 0.0 0.0 12-13 0.05 0.0 0.0 0.0 0.0 14-15 0.05 0.0 0.0 0.0 0.0 16-17 0.05 0.0 0.0 0.0 0.0 18-19 0.05 0.0 0.0 0.0 0.0 20-21 0.05 0.0 0.0 0.0 0.0 22-23 0.05 0.0 0.0 0.0 0.0 24-25 0.05 0.0 0.0 0.0 0.0 26-27 0.05 0.0 0.0 0.0 0.0 28-29 0.05 0.0 0.0 0.0 0.0 30-31 0.05 0.0 0.0 0.0 0.0 32-33 0.05 0.0 0.0 0.0 0.0 34-35 0.05 0.0 0.0 0.0 0.0 36-37 0.05 0.0 0.0 0.0 0.0 38-39 0.05 0.0 0.0 0.0 0.0 40-41 0.05 0.0 0.0 0.0 0.0 42-43 0.05 0.0 0.0 0.0 0.0 44-45 0.05 0.0 0.0 0.0 0.0 46-47 0.05 0.0 0.0 0.0 0.0 48-49 0.05 0.0 0.0 0.0 0.0 50-51 0.05 0.0 0.0 0.0 0.0 52-53 0.05 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 0.05 0.0 0.0 0.0 0.0 70-71 0.05 0.0 0.0 0.0 0.0 72-73 0.05 0.0 0.0 0.0 0.0 74-75 0.05 0.0 0.0 0.0 0.0 76-77 0.075 0.0 0.0 0.0 0.0 78-79 0.1125 0.0 0.0 0.0 0.0 80-81 0.15 0.0 0.0 0.0 0.0 82-83 0.175 0.0 0.0 0.0 0.0 84-85 0.225 0.0 0.0 0.0 0.0 86-87 0.30000000000000004 0.0 0.0 0.0 0.0 88-89 0.3375 0.0 0.0 0.0 0.0 90-91 0.38749999999999996 0.0 0.0 0.0 0.0 92-93 0.5125 0.0 0.0 0.0 0.0 94-95 0.6 0.0 0.0 0.0 0.0 96-97 0.7125 0.0 0.0 0.0 0.0 98-99 0.8125 0.0 0.0 0.0 0.0 100-101 1.0375 0.0 0.0 0.0 0.0 102-103 1.175 0.0 0.0 0.0 0.0 104-105 1.3250000000000002 0.0 0.0 0.0 0.0 106-107 1.5125000000000002 0.0 0.0 0.0 0.0 108-109 1.8 0.0 0.0 0.0 0.0 110-111 2.1125 0.0 0.0 0.0 0.0 112-113 2.3875 0.0 0.0 0.0 0.0 114-115 2.7125 0.0 0.0 0.0 0.0 116-117 3.0125 0.0 0.0 0.0 0.0 118-119 3.3375 0.0 0.0 0.0 0.0 120-121 3.85 0.0 0.0 0.0 0.0 122-123 4.4125 0.0 0.0 0.0 0.0 124-125 4.8375 0.0 0.0 0.0 0.0 126-127 5.2875 0.0 0.0 0.0 0.0 128-129 5.737500000000001 0.0 0.0 0.0 0.0 130-131 6.199999999999999 0.0 0.0 0.0 0.0 132-133 6.7125 0.0 0.0 0.0 0.0 134-135 7.300000000000001 0.0 0.0 0.0 0.0 136-137 7.875 0.0 0.0 0.0 0.0 138-139 8.425 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position AGTATAA 10 0.0068343505 144.975 145 AAAAAAA 125 3.2478176E-5 11.598001 65-69 >>END_MODULE SRR5578476 read2 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5578476_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 49 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 32.942 33.0 33.0 34.0 32.0 34.0 2 33.07325 34.0 33.0 34.0 33.0 34.0 3 33.03325 34.0 33.0 34.0 33.0 34.0 4 32.95575 34.0 33.0 34.0 33.0 34.0 5 32.965 34.0 33.0 34.0 33.0 34.0 6 37.10275 38.0 38.0 38.0 37.0 38.0 7 37.076 38.0 38.0 38.0 37.0 38.0 8 37.04975 38.0 38.0 38.0 37.0 38.0 9 37.06325 38.0 38.0 38.0 37.0 38.0 10-14 37.071000000000005 38.0 38.0 38.0 37.0 38.0 15-19 36.9842 38.0 38.0 38.0 37.0 38.0 20-24 37.001149999999996 38.0 38.0 38.0 37.0 38.0 25-29 36.969849999999994 38.0 38.0 38.0 37.0 38.0 30-34 36.97885 38.0 38.0 38.0 37.0 38.0 35-39 36.937 38.0 38.0 38.0 37.0 38.0 40-44 36.9803 38.0 38.0 38.0 37.0 38.0 45-49 36.9735 38.0 38.0 38.0 37.0 38.0 50-54 36.9073 38.0 38.0 38.0 37.0 38.0 55-59 36.8865 38.0 38.0 38.0 36.8 38.0 60-64 36.82235000000001 38.0 38.0 38.0 36.2 38.0 65-69 36.6322 38.0 38.0 38.0 36.2 38.0 70-74 36.30355 38.0 38.0 38.0 35.4 38.0 75-79 36.28335 38.0 38.0 38.0 35.0 38.0 80-84 36.2531 38.0 38.0 38.0 35.0 38.0 85-89 36.115449999999996 38.0 38.0 38.0 34.2 38.0 90-94 36.069599999999994 38.0 38.0 38.0 34.0 38.0 95-99 35.88835 38.0 38.0 38.0 33.8 38.0 100-104 35.78815 38.0 38.0 38.0 33.4 38.0 105-109 35.5757 38.0 38.0 38.0 32.8 38.0 110-114 35.392250000000004 38.0 38.0 38.0 31.6 38.0 115-119 35.28744999999999 38.0 37.6 38.0 31.0 38.0 120-124 34.92245 38.0 36.2 38.0 28.6 38.0 125-129 34.7231 38.0 36.0 38.0 28.0 38.0 130-134 34.26395 38.0 35.8 38.0 25.0 38.0 135-139 33.8095 38.0 34.6 38.0 23.0 38.0 140-144 33.259499999999996 38.0 33.0 38.0 18.6 38.0 145-149 32.1462 38.0 33.0 38.0 8.2 38.0 150-151 26.630000000000003 33.5 17.5 37.0 2.0 38.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 2 17.0 3 3.0 4 3.0 5 5.0 6 3.0 7 2.0 8 2.0 9 2.0 10 5.0 11 3.0 12 4.0 13 1.0 14 4.0 15 9.0 16 4.0 17 37.0 18 5.0 19 6.0 20 10.0 21 17.0 22 6.0 23 12.0 24 9.0 25 17.0 26 15.0 27 25.0 28 14.0 29 33.0 30 35.0 31 43.0 32 72.0 33 85.0 34 120.0 35 220.0 36 624.0 37 2528.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 38.725 19.2 14.025000000000002 28.050000000000004 2 29.675 24.575 24.05 21.7 3 23.75 25.874999999999996 26.900000000000002 23.474999999999998 4 26.1 31.175000000000004 19.475 23.25 5 27.900000000000002 32.225 19.2 20.674999999999997 6 24.25 33.6 20.7 21.45 7 23.724999999999998 21.5 31.75 23.025000000000002 8 23.625 24.8 23.150000000000002 28.425 9 26.0 23.200000000000003 25.25 25.55 10-14 25.6 26.135 22.264999999999997 26.0 15-19 26.295518207282914 25.280112044817926 23.77951180472189 24.64485794317727 20-24 26.108054027013505 25.897948974487246 23.43671835917959 24.55727863931966 25-29 27.498373617574938 25.44162538157434 22.454085973077113 24.60591502777361 30-34 27.229482749987483 24.901106604576636 24.089930399078664 23.779480246357217 35-39 25.867160518544473 24.94619350317834 24.030231743330496 25.156414234946695 40-44 26.46617293835068 24.539631705364293 24.184347477982385 24.809847878302644 45-49 26.819501451596757 23.841225347882673 24.37681449594554 24.962458704575035 50-54 25.296502026722717 23.284792073262274 26.287344242606213 25.131361657408796 55-59 25.78852508260739 24.391709221988584 25.728446981075397 24.091318714328626 60-64 24.316611595073596 25.19775708420947 25.77350555722439 24.71212576349254 65-69 24.321346288690773 25.959130521887207 25.0025042572373 24.717018932184715 70-74 24.2914371557336 25.317976965448175 24.84226339509264 25.54832248372559 75-79 23.658121369917883 25.590827158021227 24.964950931303825 25.78610054075706 80-84 25.081384284068715 25.081384284068715 24.82095457504883 25.01627685681374 85-89 24.500925601641065 26.54225246410167 24.656026417171162 24.300795517086108 90-94 25.015009005403243 27.121272763658194 24.199519711827097 23.66419851911147 95-99 24.66343025874581 26.81547470096592 24.2830689154697 24.238026124818575 100-104 25.062581355762493 26.259136877941323 23.98618203664764 24.692099729648543 105-109 25.038802383217345 27.06653982876884 23.691984178641164 24.202673609372653 110-114 24.34259954921112 27.147508139243676 23.586275982970196 24.923616328575008 115-119 25.04131817498873 27.370160765262685 23.148194520959585 24.440326538789 120-124 25.279182733236517 27.262256497571236 23.486403926085433 23.972156843106816 125-129 25.294206019329962 27.758024938654913 23.556512594521507 23.391256447493618 130-134 25.5571693293935 26.13812791105324 24.69073972053889 23.613963039014372 135-139 25.548102913204524 27.440184202622888 23.916307938732608 23.095404945439984 140-144 27.11253504205046 26.301561874249096 24.699639567480975 21.886263516219465 145-149 26.892270724869842 26.356627953544255 23.93872647176612 22.812374849819783 150-151 27.351175587793897 24.899949974987493 24.437218609304654 23.311655827913956 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 0.0 1 0.0 2 0.0 3 0.0 4 0.0 5 0.0 6 0.0 7 0.0 8 0.0 9 0.5 10 1.0 11 0.5 12 0.0 13 0.0 14 0.0 15 0.0 16 0.0 17 0.5 18 1.0 19 1.0 20 1.0 21 1.0 22 1.5 23 2.0 24 1.0 25 1.0 26 3.5 27 3.5 28 3.5 29 7.5 30 17.0 31 27.0 32 29.0 33 26.5 34 33.0 35 51.5 36 78.0 37 109.0 38 131.5 39 151.0 40 185.5 41 143.5 42 94.5 43 111.0 44 113.5 45 112.0 46 114.0 47 111.5 48 106.0 49 113.5 50 116.5 51 113.5 52 119.5 53 129.5 54 139.5 55 137.5 56 127.0 57 117.0 58 103.5 59 100.0 60 99.0 61 86.0 62 75.0 63 75.0 64 75.0 65 69.0 66 64.5 67 61.0 68 51.0 69 51.5 70 45.5 71 35.0 72 30.5 73 20.0 74 16.0 75 17.5 76 14.5 77 7.5 78 6.5 79 5.5 80 1.5 81 0.0 82 0.0 83 0.5 84 0.5 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 0.0 6 0.0 7 0.0 8 0.0 9 0.0 10-14 0.0 15-19 0.04 20-24 0.05 25-29 0.08499999999999999 30-34 0.145 35-39 0.105 40-44 0.08 45-49 0.11 50-54 0.08499999999999999 55-59 0.13 60-64 0.13 65-69 0.16999999999999998 70-74 0.15 75-79 0.13999999999999999 80-84 0.165 85-89 0.065 90-94 0.06 95-99 0.095 100-104 0.13 105-109 0.135 110-114 0.17500000000000002 115-119 0.165 120-124 0.155 125-129 0.155 130-134 0.165 135-139 0.11 140-144 0.12 145-149 0.12 150-151 0.05 >>END_MODULE >>Sequence Length Distribution pass #Length Count 151 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 82.325 #Duplication Level Percentage of deduplicated Percentage of total 1 92.28666869116307 75.97500000000001 2 4.646219252960826 7.6499999999999995 3 1.2146978439113272 3.0 4 0.6073489219556636 2.0 5 0.3036744609778318 1.25 6 0.18220467658669906 0.8999999999999999 7 0.03036744609778318 0.17500000000000002 8 0.12146978439113272 0.8 9 0.03036744609778318 0.22499999999999998 >10 0.5769814758578804 8.025 >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 34 0.8500000000000001 Illumina Single End PCR Primer 1 (100% over 50bp) GGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTC 30 0.75 No Hit GCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCC 25 0.625 No Hit GAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCC 25 0.625 No Hit CATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAAT 20 0.5 No Hit AATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGA 18 0.44999999999999996 No Hit CCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGG 17 0.42500000000000004 No Hit CCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGT 17 0.42500000000000004 No Hit ATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATA 16 0.4 No Hit GGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTT 15 0.375 No Hit TAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGT 14 0.35000000000000003 No Hit GGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTCAAAACAATCAC 14 0.35000000000000003 No Hit ATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAG 12 0.3 No Hit GTAGGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGAT 12 0.3 No Hit AGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTT 11 0.27499999999999997 No Hit GCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATG 11 0.27499999999999997 No Hit CTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTT 10 0.25 No Hit CTTCCATTTCCGCCCAAGCTGCTCACAGTATACGGGCGTCGGCATCCAGA 10 0.25 No Hit TAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGG 10 0.25 No Hit TGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTC 9 0.22499999999999998 No Hit CTTCAATATAAGCCTTGGTAGGGATAGATAGCCACCTATATAGTATAGCT 8 0.2 No Hit CCCAATTATCCATAAAACTGTAACTAAGTGAGGCTCTCTCATTGGTTTAT 8 0.2 No Hit GCCCAAGCTGCTCACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGA 8 0.2 No Hit CTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCT 8 0.2 No Hit GGGATAGATAGCCACCTATATAGTATAGCTTCCCATCTTCTTTGAGAGTT 7 0.17500000000000002 No Hit GCTGCTCACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGATCGTGG 6 0.15 No Hit AAAGAATATCCCAATTATCCATAAAACTGTAACTAAGTGAGGCTCTCTCA 6 0.15 No Hit TAGGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATG 6 0.15 No Hit AGAATATCCCAATTATCCATAAAACTGTAACTAAGTGAGGCTCTCTCATT 6 0.15 No Hit AGGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATGG 6 0.15 No Hit GTGAGCACCACTGCTGCAGAGAGAGAGATCGAGATGGCAGCGTCCATGAT 6 0.15 No Hit TGGACATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCC 5 0.125 No Hit GGACATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCC 5 0.125 No Hit GTCAAAACCGCGCAATTATCCCCGTCCTGATTTACTGGACTCGCAACGTG 5 0.125 No Hit GGTAGGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGA 5 0.125 No Hit TGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATGGTTTTT 5 0.125 No Hit GACGAATTGCCAGAATTATTAACTGCGCAGTTAGGGCAGCGTCTGAGGAA 5 0.125 No Hit CGGGCGTCGGCATCCAGACCGTCGGCTGATCGTGGTTTTACTAGGCTAGA 5 0.125 No Hit CGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTCAAAACAATCA 5 0.125 No Hit GGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTCAAAACAATCACC 5 0.125 No Hit GAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTCAAAACAATCACCA 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 0.05 0.0 0.0 0.0 0.0 2 0.05 0.0 0.0 0.0 0.0 3 0.05 0.0 0.0 0.0 0.0 4 0.05 0.0 0.0 0.0 0.0 5 0.05 0.0 0.0 0.0 0.0 6 0.05 0.0 0.0 0.0 0.0 7 0.05 0.0 0.0 0.0 0.0 8 0.05 0.0 0.0 0.0 0.0 9 0.05 0.0 0.0 0.0 0.0 10-11 0.05 0.0 0.0 0.0 0.0 12-13 0.05 0.0 0.0 0.0 0.0 14-15 0.05 0.0 0.0 0.0 0.0 16-17 0.05 0.0 0.0 0.0 0.0 18-19 0.05 0.0 0.0 0.0 0.0 20-21 0.05 0.0 0.0 0.0 0.0 22-23 0.05 0.0 0.0 0.0 0.0 24-25 0.05 0.0 0.0 0.0 0.0 26-27 0.05 0.0 0.0 0.0 0.0 28-29 0.05 0.0 0.0 0.0 0.0 30-31 0.05 0.0 0.0 0.0 0.0 32-33 0.05 0.0 0.0 0.0 0.0 34-35 0.05 0.0 0.0 0.0 0.0 36-37 0.05 0.0 0.0 0.0 0.0 38-39 0.05 0.0 0.0 0.0 0.0 40-41 0.05 0.0 0.0 0.0 0.0 42-43 0.05 0.0 0.0 0.0 0.0 44-45 0.05 0.0 0.0 0.0 0.0 46-47 0.05 0.0 0.0 0.0 0.0 48-49 0.05 0.0 0.0 0.0 0.0 50-51 0.05 0.0 0.0 0.0 0.0 52-53 0.05 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 0.05 0.0 0.0 0.0 0.0 70-71 0.05 0.0 0.0 0.0 0.0 72-73 0.05 0.0 0.0 0.0 0.0 74-75 0.05 0.0 0.0 0.0 0.0 76-77 0.075 0.0 0.0 0.0 0.0 78-79 0.1125 0.0 0.0 0.0 0.0 80-81 0.15 0.0 0.0 0.0 0.0 82-83 0.1875 0.0 0.0 0.0 0.0 84-85 0.25 0.0 0.0 0.0 0.0 86-87 0.32499999999999996 0.0 0.0 0.0 0.0 88-89 0.3625 0.0 0.0 0.0 0.0 90-91 0.425 0.0 0.0 0.0 0.0 92-93 0.5375 0.0 0.0 0.0 0.0 94-95 0.625 0.0 0.0 0.0 0.0 96-97 0.7625 0.0 0.0 0.0 0.0 98-99 0.8625 0.0 0.0 0.0 0.0 100-101 1.075 0.0 0.0 0.0 0.0 102-103 1.2125 0.0 0.0 0.0 0.0 104-105 1.3375 0.0 0.0 0.0 0.0 106-107 1.5625 0.0 0.0 0.0 0.0 108-109 1.8125 0.0 0.0 0.0 0.0 110-111 2.125 0.0 0.0 0.0 0.0 112-113 2.4 0.0 0.0 0.0 0.0 114-115 2.7125 0.0 0.0 0.0 0.0 116-117 3.0125 0.0 0.0 0.0 0.0 118-119 3.3375 0.0 0.0 0.0 0.0 120-121 3.775 0.0 0.0 0.0 0.0 122-123 4.3125 0.0 0.0 0.0 0.0 124-125 4.7125 0.0 0.0 0.0 0.0 126-127 5.1625 0.0 0.0 0.0 0.0 128-129 5.625 0.0 0.0 0.0 0.0 130-131 6.112500000000001 0.0 0.0 0.0 0.0 132-133 6.6125 0.0 0.0 0.0 0.0 134-135 7.2125 0.0 0.0 0.0 0.0 136-137 7.775 0.0 0.0 0.0 0.0 138-139 8.35 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position AAAAAAA 170 0.007020358 7.6764703 60-64 >>END_MODULE Read 760191 spots for SRR5578476.sra Written 760191 spots for SRR5578476.sra Read 760191 spots for SRR5578476.sra Written 760191 spots for SRR5578476.sra Read 760191 spots for SRR5578476.sra Written 760191 spots for SRR5578476.sra Read 760191 spots for SRR5578476.sra Written 760191 spots for SRR5578476.sra Read 760191 spots for SRR5578476.sra Written 760191 spots for SRR5578476.sra Read 760191 spots for SRR5578476.sra Written 760191 spots for SRR5578476.sra Read 760191 spots for SRR5578476.sra Written 760191 spots for SRR5578476.sra Read 760191 spots for SRR5578476.sra Written 760191 spots for SRR5578476.sra Read 760191 spots for SRR5578476.sra Written 760191 spots for SRR5578476.sra Read 760191 spots for SRR5578476.sra Written 760191 spots for SRR5578476.sra Read 760191 spots for SRR5578476.sra Written 760191 spots for SRR5578476.sra Read 760191 spots for SRR5578476.sra Written 760191 spots for SRR5578476.sra Read 760191 spots for SRR5578476.sra Written 760191 spots for SRR5578476.sra Read 760202 spots for SRR5578476.sra Written 760202 spots for SRR5578476.sra Read 760191 spots for SRR5578476.sra Written 760191 spots for SRR5578476.sra Read 760191 spots for SRR5578476.sra Written 760191 spots for SRR5578476.sra Read 760191 spots for SRR5578476.sra Written 760191 spots for SRR5578476.sra Read 760191 spots for SRR5578476.sra Written 760191 spots for SRR5578476.sra Read 760191 spots for SRR5578476.sra Written 760191 spots for SRR5578476.sra Read 760191 spots for SRR5578476.sra Written 760191 spots for SRR5578476.sra SRR ids: ['SRR5578476.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_a3fz8xzl SRR5578476.sra spots: 15203831 blocks: [[1, 760191], [760192, 1520382], [1520383, 2280573], [2280574, 3040764], [3040765, 3800955], [3800956, 4561146], [4561147, 5321337], [5321338, 6081528], [6081529, 6841719], [6841720, 7601910], [7601911, 8362101], [8362102, 9122292], [9122293, 9882483], [9882484, 10642674], [10642675, 11402865], [11402866, 12163056], [12163057, 12923247], [12923248, 13683438], [13683439, 14443629], [14443630, 15203831]] SRR5578476 file size 5130379 SRR5578476 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 SRR5578476 SRR5578476_1.fastq SRR5578476_2.fastq Input file: SRR5578476_1.fastq Paired file: SRR5578476_2.fastq trimmed: SRR5578476-trimmed-pair1.fastq, SRR5578476-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 19:44:58 2024 >> started Mon Dec 9 19:46:00 2024 >> done (62.269s) 15203831 read pairs processed; of these: 32358 ( 0.21%) short read pairs filtered out after trimming by size control 153688 ( 1.01%) empty read pairs filtered out after trimming by size control 15017785 (98.78%) read pairs available; of these: 7618877 (50.73%) trimmed read pairs available after processing 7398908 (49.27%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 18 8 0.00% 19 13 0.00% 20 15 0.00% 21 16 0.00% 22 26 0.00% 23 29 0.00% 24 33 0.00% 25 29 0.00% 26 16 0.00% 27 40 0.00% 28 33 0.00% 29 30 0.00% 30 25 0.00% 31 26 0.00% 32 29 0.00% 33 30 0.00% 34 23 0.00% 35 37 0.00% 36 40 0.00% 37 36 0.00% 38 36 0.00% 39 40 0.00% 40 55 0.00% 41 60 0.00% 42 58 0.00% 43 75 0.00% 44 88 0.00% 45 120 0.00% 46 147 0.00% 47 139 0.00% 48 185 0.00% 49 179 0.00% 50 209 0.00% 51 218 0.00% 52 258 0.00% 53 255 0.00% 54 245 0.00% 55 324 0.00% 56 324 0.00% 57 331 0.00% 58 452 0.00% 59 356 0.00% 60 429 0.00% 61 442 0.00% 62 525 0.00% 63 646 0.00% 64 704 0.00% 65 1123 0.01% 66 1564 0.01% 67 2193 0.01% 68 2610 0.02% 69 7537 0.05% 70 8810 0.06% 71 3384 0.02% 72 2093 0.01% 73 2050 0.01% 74 2089 0.01% 75 2214 0.01% 76 2425 0.02% 77 2587 0.02% 78 2768 0.02% 79 3187 0.02% 80 3436 0.02% 81 3821 0.03% 82 4371 0.03% 83 5029 0.03% 84 6986 0.05% 85 8249 0.05% 86 9473 0.06% 87 10966 0.07% 88 12005 0.08% 89 12081 0.08% 90 12323 0.08% 91 11716 0.08% 92 12430 0.08% 93 12892 0.09% 94 12963 0.09% 95 13580 0.09% 96 14077 0.09% 97 14482 0.10% 98 14956 0.10% 99 16318 0.11% 100 17527 0.12% 101 18360 0.12% 102 19030 0.13% 103 20535 0.14% 104 21724 0.14% 105 22768 0.15% 106 24518 0.16% 107 25559 0.17% 108 26251 0.17% 109 26652 0.18% 110 27241 0.18% 111 28990 0.19% 112 30764 0.20% 113 33815 0.23% 114 37095 0.25% 115 39314 0.26% 116 39705 0.26% 117 39512 0.26% 118 39077 0.26% 119 39684 0.26% 120 42618 0.28% 121 42225 0.28% 122 43387 0.29% 123 45268 0.30% 124 47592 0.32% 125 48944 0.33% 126 50490 0.34% 127 51219 0.34% 128 51274 0.34% 129 54478 0.36% 130 54045 0.36% 131 55699 0.37% 132 59085 0.39% 133 60735 0.40% 134 62209 0.41% 135 64479 0.43% 136 66626 0.44% 137 69670 0.46% 138 74667 0.50% 139 77716 0.52% 140 81304 0.54% 141 85511 0.57% 142 96798 0.64% 143 104243 0.69% 144 115784 0.77% 145 136976 0.91% 146 169105 1.13% 147 220937 1.47% 148 334617 2.23% 149 684963 4.56% 150 3621870 24.12% 151 7398908 49.27% 15017785 reads passed initial QC criterion=sequence-density sequence-density=0.51 sequence-density-rank=1 fanout-score=5.66 fanout-score-rank=15 prefix-density=1.09 prefix-fanout=2.7 sequence=CGGCCGTTCTTGATCTCCTTCACCTTGAGCTCAGC criterion=fanout-score sequence-density=0.01 sequence-density-rank=38 fanout-score=37.00 fanout-score-rank=1 prefix-density=0.30 prefix-fanout=1.4 sequence=TTTTTTTTCTCGTTCTTTGGTCGCAATCCTGCGTAATCAACGCCGCAACTTTACGTCGGATTAGCTCTTCTTTGATTAGCATGAAACTCCAAGGTCCGGGGGGGTCACTTATCCTGGGCTTCATCCAATGGTGGGTGCTAACTCTTTAATAGCCTTCAGTGACTGTGAGATGCCGTCTACGAGTGGCACGAATCGCACGGATGTTTGGTTAAAGAACAGTCGCAGTTTTCCTCAAATCCCGCCACGAAACTAAGCGATTGAACTCTTGCCTGGTTACTGTATGCCCCTGTGTTATTGCAGCGTCTCGATTAGGGGGAAACCTTGTCACCGTCAGCTTATTCCCGAGGCATATGGCCCTACTTAACTGATCTGAAGTATTACGGTAACCGCGACGATAATAACCCGGACCAAATATAGCCTGATATGAGCGTGCCCGTCCATAGTCCCAGAGACGGGCGGAGGCTCTTAACCGTACGAGACAATCT criterion=sequence-density sequence-density=0.66 sequence-density-rank=1 fanout-score=2.04 fanout-score-rank=30 prefix-density=0.68 prefix-fanout=2.0 sequence=CCCATGTTCGGGTGCACCGACGCCACGCAGGTGCTAAAGGAGCTGGA criterion=fanout-score sequence-density=0.01 sequence-density-rank=39 fanout-score=44.63 fanout-score-rank=1 prefix-density=0.23 prefix-fanout=1.0 sequence=AATTCATCTCCTCTAACTTTGGAGAGGTAGGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATGGTTTTTACTATGTTGGGTATGCTGTTCGATTTCTTAAAGGACTGAATATTCGGTGGCAGTATGGGATTTCTAAAAATAATGTTAAGAATTTTTGCTGGTTTTTTGCGACGTTGGTGTTGTATTCTATAGCTCCATTATGGCCGTTATATGGAATCATTGGAGTGCCAGTAATTCTACCACGCCTTATATTTAAAGACAAAAAGAAGTGTCTAACAACAACATCCACACTACTACTCCTTGTCATATTTCTTCCTGAATTGCTGATTCTTATTGGATTTCTGATATTTCCTATTGTTATGGGCTATTACATCTCTAAGGAATTGGTGAAGTAAAATGGTGAAGCTTATGAATTTGTGGAGTGAGAGGATTAAAGATAGGGAAGTTGTTGAAGTTATTGGCTGTGAGAGAGTGCCATTGATGAAACGT SRR5578476 testing PE reads STAR mapping to Ensembl genome Started job on | Dec 09 19:48:49 Started mapping on | Dec 09 19:48:49 Finished on | Dec 09 20:19:28 Mapping speed, Million of reads per hour | 29.40 Number of input reads | 15017785 Average input read length | 292 UNIQUE READS: Uniquely mapped reads number | 8617421 Uniquely mapped reads % | 57.38% Average mapped length | 291.71 Number of splices: Total | 8024425 Number of splices: Annotated (sjdb) | 7544022 Number of splices: GT/AG | 7926802 Number of splices: GC/AG | 88822 Number of splices: AT/AC | 3210 Number of splices: Non-canonical | 5591 Mismatch rate per base, % | 0.09% Deletion rate per base | 0.00% Deletion average length | 1.35 Insertion rate per base | 0.00% Insertion average length | 1.21 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 163353 % of reads mapped to multiple loci | 1.09% Number of reads mapped to too many loci | 23802 % of reads mapped to too many loci | 0.16% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 40.38% % of reads unmapped: other | 0.99% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 6247940 6247940 6247940 N_multimapping 163353 163353 163353 N_noFeature 262806 8362933 340842 N_ambiguous 212907 970 36662 UnstrandedReadsAssigned:8141708 PositiveStrandReadsAssigned:253518 NegativeStrandReadsAssigned:8239917 Dataset is classified negative stranded MeadianReadLen=151 20thPercentileLength=149 echo kmer=145 SRR5578476 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: SRR5578476-trimmed-pair1.fastq SRR5578476-trimmed-pair2.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 15,017,785 reads, 8,314,468 reads pseudoaligned [quant] estimated average fragment length: 235.875 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,020 rounds 52973 SRR5578476.ke.tsv 35125 SRR5578476.se.tsv 88098 total ==> SRR5578476.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 701.434 23.7796 4.48741 PNS24247 1044 809.125 2.50445 0.409709 PNS24249 1928 1693.13 71.707 5.60597 PNS24246 1044 809.125 2.50445 0.409709 PNS24248 1044 809.125 2.50445 0.409709 PNS24244 1471 1236.13 1.00556e-05 1.07677e-06 PNS24243 293 100.79 0 0 KQK14069 1603 1368.13 269.752 26.0986 KQK14071 474 250.615 6.77239 3.57695 ==> SRR5578476.se.tsv <== BRADI_1g14170v3 298 BRADI_1g53295v3 1 BRADI_1g59795v3 66 BRADI_1g07683v3 0 BRADI_1g00485v3 9 BRADI_1g20270v3 961 BRADI_1g74790v3 223 BRADI_1g09890v3 7 BRADI_1g77505v3 154 BRADI_1g48960v3 0 SRR5578476 completed mapping pipeline successfully