Starting /dee2/code/volunteer_pipeline.sh SRR5578486 current disk space = 1521135579136 free memory = 1571993760 SRR5578486 SRAfilesize aafef43e4d0db2a97d45bfd29ca9b13a SRR5578486.sra SRR5578486.sra file validated SRR5578486 is paired end SRR5578486 is conventional basespace SRR5578486 read1 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5578486_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 46 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 33.1975 34.0 33.0 34.0 33.0 34.0 2 33.4575 34.0 34.0 34.0 33.0 34.0 3 33.456 34.0 34.0 34.0 33.0 34.0 4 33.42525 34.0 34.0 34.0 33.0 34.0 5 33.4565 34.0 34.0 34.0 33.0 34.0 6 37.08425 38.0 38.0 38.0 36.0 38.0 7 37.30325 38.0 38.0 38.0 37.0 38.0 8 37.475 38.0 38.0 38.0 37.0 38.0 9 37.47175 38.0 38.0 38.0 37.0 38.0 10-14 37.463049999999996 38.0 38.0 38.0 37.2 38.0 15-19 37.458400000000005 38.0 38.0 38.0 37.4 38.0 20-24 37.47145 38.0 38.0 38.0 37.6 38.0 25-29 37.3698 38.0 38.0 38.0 37.2 38.0 30-34 37.363749999999996 38.0 38.0 38.0 37.6 38.0 35-39 37.3253 38.0 38.0 38.0 37.2 38.0 40-44 37.1333 38.0 38.0 38.0 36.6 38.0 45-49 37.167699999999996 38.0 38.0 38.0 37.0 38.0 50-54 37.169349999999994 38.0 38.0 38.0 37.0 38.0 55-59 37.1407 38.0 38.0 38.0 36.8 38.0 60-64 37.06195 38.0 38.0 38.0 36.8 38.0 65-69 37.087399999999995 38.0 38.0 38.0 37.0 38.0 70-74 36.865899999999996 38.0 38.0 38.0 36.4 38.0 75-79 36.39605 38.0 38.0 38.0 35.8 38.0 80-84 36.329750000000004 38.0 38.0 38.0 35.0 38.0 85-89 36.26135 38.0 38.0 38.0 35.2 38.0 90-94 36.182 38.0 38.0 38.0 34.8 38.0 95-99 36.09060000000001 38.0 38.0 38.0 34.4 38.0 100-104 36.04795 38.0 38.0 38.0 34.2 38.0 105-109 35.980450000000005 38.0 38.0 38.0 34.0 38.0 110-114 35.89175 38.0 38.0 38.0 34.0 38.0 115-119 35.75065 38.0 38.0 38.0 33.6 38.0 120-124 35.6865 38.0 38.0 38.0 33.4 38.0 125-129 35.54515 38.0 38.0 38.0 32.6 38.0 130-134 35.2556 38.0 37.8 38.0 31.6 38.0 135-139 35.177200000000006 38.0 37.8 38.0 31.2 38.0 140-144 34.8048 38.0 36.6 38.0 29.4 38.0 145-149 34.29425 38.0 36.0 38.0 27.0 38.0 150-151 30.871499999999997 35.5 30.5 38.0 11.5 38.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 4 2.0 5 1.0 6 1.0 7 1.0 8 0.0 9 4.0 10 2.0 11 2.0 12 5.0 13 2.0 14 5.0 15 6.0 16 3.0 17 11.0 18 14.0 19 42.0 20 5.0 21 7.0 22 11.0 23 5.0 24 11.0 25 10.0 26 11.0 27 19.0 28 18.0 29 25.0 30 27.0 31 45.0 32 52.0 33 53.0 34 93.0 35 148.0 36 368.0 37 2991.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 44.61266717133485 12.692404743880898 10.017663386323493 32.67726469846076 2 24.6 15.125 31.25 29.025000000000002 3 21.05 21.0 25.35 32.6 4 24.7 25.974999999999998 24.85 24.474999999999998 5 24.85 30.325000000000003 25.674999999999997 19.15 6 22.43060765191298 33.833458364591145 25.881470367591895 17.854463615903978 7 15.275 26.575 40.825 17.325 8 17.575 28.7 30.725 23.0 9 19.325 25.25 34.625 20.8 10-14 21.925 29.45 26.22 22.405 15-19 21.465 27.755000000000003 27.315 23.465 20-24 21.745 27.63 27.485 23.14 25-29 21.005 28.315 27.389999999999997 23.29 30-34 20.995 28.854999999999997 26.595000000000002 23.555 35-39 21.59 28.01 26.205000000000002 24.195 40-44 21.935 27.61 26.71 23.745 45-49 22.23 27.944999999999997 26.985 22.84 50-54 22.525000000000002 27.66 25.88 23.935000000000002 55-59 21.62 27.815 26.840000000000003 23.724999999999998 60-64 21.654999999999998 28.74 25.729999999999997 23.875 65-69 20.945 30.064999999999998 25.305 23.685000000000002 70-74 21.91 29.615000000000002 24.86 23.615 75-79 21.95 27.865000000000002 25.424999999999997 24.759999999999998 80-84 22.225 28.485 25.94 23.35 85-89 22.770000000000003 27.96 26.095000000000002 23.175 90-94 22.73 27.825 25.72 23.724999999999998 95-99 22.29 27.185 26.365 24.16 100-104 22.14 28.360000000000003 25.885 23.615 105-109 22.615 28.449999999999996 25.130000000000003 23.805 110-114 22.0 28.199999999999996 24.85 24.95 115-119 22.08 27.775 25.275 24.87 120-124 22.915 28.37 23.735 24.98 125-129 22.88 28.555000000000003 23.03 25.535000000000004 130-134 22.564999999999998 27.485 24.575 25.374999999999996 135-139 22.58 28.125 24.925 24.37 140-144 22.405 28.005000000000003 24.44 25.15 145-149 22.1 28.43 23.765 25.705 150-151 21.6125 27.487499999999997 24.4375 26.4625 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 2.0 1 1.0 2 0.0 3 0.5 4 0.5 5 0.5 6 1.5 7 1.5 8 1.5 9 2.0 10 1.5 11 1.5 12 1.0 13 0.5 14 0.5 15 0.0 16 0.0 17 0.5 18 1.5 19 1.0 20 0.0 21 0.0 22 1.0 23 3.0 24 2.0 25 0.0 26 1.5 27 2.5 28 3.0 29 17.0 30 27.0 31 34.5 32 43.5 33 53.5 34 65.0 35 80.5 36 108.5 37 140.0 38 165.0 39 171.0 40 198.0 41 195.0 42 165.0 43 169.0 44 161.5 45 172.5 46 188.0 47 173.0 48 168.0 49 150.5 50 142.0 51 145.5 52 145.5 53 141.5 54 106.5 55 86.0 56 75.0 57 58.0 58 52.5 59 52.0 60 48.0 61 37.5 62 28.0 63 28.0 64 26.0 65 25.5 66 26.0 67 17.5 68 13.0 69 11.0 70 12.5 71 12.5 72 8.0 73 5.0 74 6.0 75 4.5 76 3.0 77 3.5 78 1.5 79 1.0 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 0.9249999999999999 2 0.0 3 0.0 4 0.0 5 0.0 6 0.025 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 0.0 >>END_MODULE >>Sequence Length Distribution pass #Length Count 151 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 85.8 #Duplication Level Percentage of deduplicated Percentage of total 1 93.26923076923077 80.025 2 4.283216783216783 7.35 3 0.9324009324009324 2.4 4 0.5536130536130536 1.9 5 0.11655011655011654 0.5 6 0.34965034965034963 1.7999999999999998 7 0.17482517482517482 1.05 8 0.029137529137529136 0.2 9 0.05827505827505827 0.44999999999999996 >10 0.20396270396270394 3.025 >50 0.029137529137529136 1.3 >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 GATCGGAAGAGCACACGTCTGAACTCCAGTCACGCTCCAATCTCGTATGC 52 1.3 TruSeq Adapter, Index 9 (97% over 37bp) GCCTTATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGA 38 0.95 No Hit AGATCGGAAGAGCACACGTCTGAACTCCAGTCACGCTCCAATCTCGTATG 22 0.5499999999999999 TruSeq Adapter, Index 9 (97% over 37bp) GGGAAGCTATACTATATAGGTGGCTATCTATCCCTACCAAGGCTTATATT 14 0.35000000000000003 No Hit GCCTCACTTAGTTACAGTTTTATGGATAATTGGGATATTCTTTGGTATAG 14 0.35000000000000003 No Hit GGATAATTGGGATATTCTTTGGTATAGTTGGGATTTTAATATCATTAATA 12 0.3 No Hit GGATATTCTTTGGTATAGTTGGGATTTTAATATCATTAATAGCATGATGG 11 0.27499999999999997 No Hit GCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGTAGGGATGAGCATAA 10 0.25 No Hit CTTATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGT 9 0.22499999999999998 No Hit GGAAGCTATACTATATAGGTGGCTATCTATCCCTACCAAGGCTTATATTG 9 0.22499999999999998 No Hit GCCCATAACAATAGGAAATATCAGAAATCCAATAAGAATCAGCAATTCAG 8 0.2 No Hit CCTCACTTAGTTACAGTTTTATGGATAATTGGGATATTCTTTGGTATAGT 7 0.17500000000000002 No Hit GTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGTAGGGA 7 0.17500000000000002 No Hit GGGGATAATTGCGCGGTTTTGACTGCGGAAGGAAGCCAAGGCCCACCTAA 7 0.17500000000000002 No Hit GGGGTTATGAGTAGGGATGAGCATAAACCAACAACTCTCAAAGAAGATGG 7 0.17500000000000002 No Hit GCCATTCGGACCTACCGTAAGCCTATATTTCGTTTTTCTGAGACCTATCC 7 0.17500000000000002 No Hit CCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGTAGGGATGAGCATAAA 7 0.17500000000000002 No Hit GTAGTTTATAAGGAATATATCCCATTTTTAGTTATAATGATGCCTTATGT 6 0.15 No Hit TGGCTATCTATCCCTACCAAGGCTTATATTGAAGTATAAACCAATGAGAG 6 0.15 No Hit CTTTAAAATATCTAAGTGCTGGGGTTATGAGTAGGGATGAGCATAAACCA 6 0.15 No Hit TCTGTATAAGGTGATCGCAGGTTGTGCAATCATTGCTCAAAAGGGTGTAC 6 0.15 No Hit CCCATTTTTAGTTATAATGATGCCTTATGTGATAGATGCCTCTTTAAAAT 6 0.15 No Hit CTCACTTAGTTACAGTTTTATGGATAATTGGGATATTCTTTGGTATAGTT 6 0.15 No Hit GTGGCTATCTATCCCTACCAAGGCTTATATTGAAGTATAAACCAATGAGA 6 0.15 No Hit GTTATGAGTAGGGATGAGCATAAACCAACAACTCTCAAAGAAGATGGGAA 6 0.15 No Hit GCTATCTATCCCTACCAAGGCTTATATTGAAGTATAAACCAATGAGAGAG 6 0.15 No Hit GTCGAGACTGAAAAGCTATAACCCGCAGACCCGAGCGAAAGCGGCGGTCC 6 0.15 No Hit GGGATATTCTTTGGTATAGTTGGGATTTTAATATCATTAATAGCATGATG 6 0.15 No Hit AGGAGATGTTGGAACTCTACCAATTGGAGCTTTCTTAGCTGTCTTAGCAG 6 0.15 No Hit GAGCTTTCTTAGCTGTCTTAGCAGTAGTTTATAAGGAATATATCCCATTT 5 0.125 No Hit CTTAGTTACAGTTTTATGGATAATTGGGATATTCTTTGGTATAGTTGGGA 5 0.125 No Hit GCAGTTTCCAGAAACGTGTATCACATCTAGGCATGGAATCTTATGCCAGC 5 0.125 No Hit CCCTGACCCCGGGGAACAGTCGCATGACGAGGCAGTTTCCAGAAACGTGT 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 0.6 0.0 0.0 0.0 0.0 2 0.6 0.0 0.0 0.0 0.0 3 0.6 0.0 0.0 0.0 0.0 4 0.6 0.0 0.0 0.0 0.0 5 0.6 0.0 0.0 0.0 0.0 6 0.6 0.0 0.0 0.0 0.0 7 0.6 0.0 0.0 0.0 0.0 8 0.6 0.0 0.0 0.0 0.0 9 0.6 0.0 0.0 0.0 0.0 10-11 0.6 0.0 0.0 0.0 0.0 12-13 0.6 0.0 0.0 0.0 0.0 14-15 0.6 0.0 0.0 0.0 0.0 16-17 0.6 0.0 0.0 0.0 0.0 18-19 0.6 0.0 0.0 0.0 0.0 20-21 0.6 0.0 0.0 0.0 0.0 22-23 0.6 0.0 0.0 0.0 0.0 24-25 0.6 0.0 0.0 0.0 0.0 26-27 0.6 0.0 0.0 0.0 0.0 28-29 0.6 0.0 0.0 0.0 0.0 30-31 0.6 0.0 0.0 0.0 0.0 32-33 0.6 0.0 0.0 0.0 0.0 34-35 0.6 0.0 0.0 0.0 0.0 36-37 0.6 0.0 0.0 0.0 0.0 38-39 0.6 0.0 0.0 0.0 0.0 40-41 0.6 0.0 0.0 0.0 0.0 42-43 0.6 0.0 0.0 0.0 0.0 44-45 0.6 0.0 0.0 0.0 0.0 46-47 0.6125 0.0 0.0 0.0 0.0 48-49 0.625 0.0 0.0 0.0 0.0 50-51 0.625 0.0 0.0 0.0 0.0 52-53 0.625 0.0 0.0 0.0 0.0 54-55 0.625 0.0 0.0 0.0 0.0 56-57 0.625 0.0 0.0 0.0 0.0 58-59 0.625 0.0 0.0 0.0 0.0 60-61 0.625 0.0 0.0 0.0 0.0 62-63 0.625 0.0 0.0 0.0 0.0 64-65 0.65 0.0 0.0 0.0 0.0 66-67 0.675 0.0 0.0 0.0 0.0 68-69 0.7375 0.0 0.0 0.0 0.0 70-71 0.775 0.0 0.0 0.0 0.0 72-73 0.8125 0.0 0.0 0.0 0.0 74-75 0.8625 0.0 0.0 0.0 0.0 76-77 0.9624999999999999 0.0 0.0 0.0 0.0 78-79 1.15 0.0 0.0 0.0 0.0 80-81 1.325 0.0 0.0 0.0 0.0 82-83 1.4249999999999998 0.0 0.0 0.0 0.0 84-85 1.6625 0.0 0.0 0.0 0.0 86-87 1.9625 0.0 0.0 0.0 0.0 88-89 2.25 0.0 0.0 0.0 0.0 90-91 2.5375 0.0 0.0 0.0 0.0 92-93 2.85 0.0 0.0 0.0 0.0 94-95 3.2625 0.0 0.0 0.0 0.0 96-97 3.675 0.0 0.0 0.0 0.0 98-99 4.1875 0.0 0.0 0.0 0.0 100-101 4.8875 0.0 0.0 0.0 0.0 102-103 5.375 0.0 0.0 0.0 0.0 104-105 6.1 0.0 0.0 0.0 0.0 106-107 6.7375 0.0 0.0 0.0 0.0 108-109 7.25 0.0 0.0 0.0 0.0 110-111 7.9375 0.0 0.0 0.0 0.0 112-113 8.774999999999999 0.0 0.0 0.0 0.0 114-115 9.9875 0.0 0.0 0.0 0.0 116-117 10.925 0.0 0.0 0.0 0.0 118-119 11.8 0.0 0.0 0.0 0.0 120-121 12.6875 0.0 0.0 0.0 0.0 122-123 13.5625 0.0 0.0 0.0 0.0 124-125 14.3125 0.0 0.0 0.0 0.0 126-127 15.0 0.0 0.0 0.0 0.0 128-129 15.8375 0.0 0.0 0.0 0.0 130-131 16.675 0.0 0.0 0.0 0.0 132-133 17.725 0.0 0.0 0.0 0.0 134-135 18.95 0.0 0.0 0.0 0.0 136-137 20.0875 0.0 0.0 0.0 0.0 138-139 21.225 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position TTATCTT 10 0.0068343505 144.975 8 CTCTTCT 10 0.0068343505 144.975 8 TATCTTG 10 0.0068343505 144.975 9 TTTATCT 10 0.0068343505 144.975 7 TTTTTTA 35 0.0033146844 62.13214 4 TTTTTTT 260 0.0011932796 17.156805 1 AAAAAAA 130 0.007040662 8.921538 65-69 >>END_MODULE SRR5578486 read2 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5578486_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 46 >>END_MODULE >>Per base sequence quality fail #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 32.0415 33.0 33.0 34.0 31.0 34.0 2 32.19475 33.0 33.0 34.0 31.0 34.0 3 32.11 33.0 33.0 34.0 29.0 34.0 4 32.19475 33.0 33.0 34.0 31.0 34.0 5 32.08125 33.0 33.0 34.0 31.0 34.0 6 36.26 38.0 38.0 38.0 34.0 38.0 7 36.14175 38.0 38.0 38.0 33.0 38.0 8 36.1475 38.0 38.0 38.0 33.0 38.0 9 36.17525 38.0 38.0 38.0 34.0 38.0 10-14 36.137600000000006 38.0 38.0 38.0 33.4 38.0 15-19 35.96005 38.0 37.8 38.0 32.8 38.0 20-24 35.77805 38.0 37.4 38.0 31.4 38.0 25-29 35.67444999999999 38.0 37.0 38.0 30.4 38.0 30-34 35.467800000000004 38.0 37.0 38.0 29.0 38.0 35-39 35.258849999999995 38.0 37.0 38.0 28.6 38.0 40-44 35.117000000000004 38.0 36.8 38.0 28.4 38.0 45-49 34.742599999999996 38.0 36.0 38.0 27.2 38.0 50-54 34.51935 38.0 35.8 38.0 25.4 38.0 55-59 34.253 38.0 35.0 38.0 25.0 38.0 60-64 34.077999999999996 38.0 34.8 38.0 24.4 38.0 65-69 33.52565 38.0 34.0 38.0 16.0 38.0 70-74 32.9786 38.0 33.4 38.0 16.0 38.0 75-79 32.5254 37.8 32.6 38.0 15.4 38.0 80-84 31.958700000000004 37.0 31.0 38.0 15.0 38.0 85-89 31.3956 37.0 29.0 38.0 15.0 38.0 90-94 30.7716 36.6 28.0 38.0 14.4 38.0 95-99 29.984050000000003 35.8 26.0 38.0 13.0 38.0 100-104 29.1055 35.0 23.0 38.0 10.8 38.0 105-109 28.4774 34.6 21.8 38.0 2.0 38.0 110-114 27.15345 34.0 15.0 38.0 2.0 38.0 115-119 25.812849999999997 33.2 14.8 38.0 2.0 38.0 120-124 24.66375 31.6 13.6 37.6 2.0 38.0 125-129 23.105999999999998 29.2 8.6 36.4 2.0 38.0 130-134 21.386950000000002 24.6 2.0 35.6 2.0 38.0 135-139 19.77965 21.8 2.0 35.0 2.0 38.0 140-144 17.7292 14.2 2.0 34.2 2.0 38.0 145-149 15.182149999999998 4.2 2.0 33.4 2.0 38.0 150-151 11.512 2.0 2.0 27.5 2.0 36.5 >>END_MODULE >>Per sequence quality scores pass #Quality Count 2 30.0 3 6.0 4 8.0 5 11.0 6 10.0 7 7.0 8 9.0 9 11.0 10 11.0 11 14.0 12 13.0 13 17.0 14 28.0 15 27.0 16 35.0 17 37.0 18 49.0 19 38.0 20 48.0 21 54.0 22 68.0 23 95.0 24 110.0 25 106.0 26 136.0 27 147.0 28 177.0 29 171.0 30 203.0 31 256.0 32 290.0 33 357.0 34 405.0 35 424.0 36 446.0 37 146.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 41.075 20.9 13.0 25.025 2 30.077635862759827 25.444527923866765 25.169045830202858 19.30879038317055 3 23.43358395989975 27.343358395989974 28.195488721804512 21.027568922305765 4 25.125376128385156 32.72316950852558 21.213640922768302 20.937813440320962 5 27.969924812030072 32.10526315789474 20.325814536340854 19.598997493734334 6 25.081270317579396 34.2335583895974 21.230307576894223 19.454863715928983 7 22.630657664416105 23.25581395348837 32.85821455363841 21.255313828457115 8 22.80570142535634 27.731932983245812 24.33108277069267 25.131282820705174 9 24.281070267566893 25.381345336334082 27.28182045511378 23.055763940985248 10-14 25.769019156704847 27.134497073975893 23.25313859850948 23.843345170809783 15-19 25.58058058058058 25.425425425425423 25.53053053053053 23.463463463463462 20-24 26.316579895875048 26.672006407689224 24.90488586303564 22.10652783340008 25-29 26.450127621240178 26.55522746609279 24.543316150342825 22.45132876232421 30-34 26.195956765412333 26.180944755804642 25.575460368294635 22.04763811048839 35-39 24.864864864864867 25.59059059059059 26.58158158158158 22.962962962962962 40-44 26.687024429315176 25.37545054064878 25.720865038045655 22.21665999199039 45-49 25.202804206309466 24.74712068102153 27.135703555333002 22.914371557336004 50-54 24.515741528605034 24.921167225586867 27.98938885830122 22.573702387506884 55-59 23.824780976220275 26.187734668335423 27.79974968710889 22.18773466833542 60-64 23.20060105184072 27.638367142499376 27.097420485850236 22.063611319809667 65-69 23.421619185900965 28.688729785210032 26.200370500175236 21.689280528713763 70-74 23.251275893125186 27.959571700190132 26.423496447513262 22.36565595917142 75-79 23.519399249061326 27.25907384230288 26.528160200250312 22.693366708385483 80-84 24.02603905858788 27.53630445668503 26.57486229344016 21.86279419128693 85-89 22.898623279098874 27.674593241551943 27.52941176470588 21.897371714643306 90-94 23.676573601521063 28.524967477234064 26.593615530871613 21.204843390373263 95-99 23.458706866329443 28.762458055792056 26.418590674613114 21.360244403265387 100-104 24.492862509391436 28.750313047833707 25.05384422739795 21.70298021537691 105-109 24.411735255832582 29.197957344547916 25.177731050365477 21.212576349254032 110-114 24.06813627254509 29.10320641282565 24.714428857715433 22.11422845691383 115-119 24.56676349794651 29.249724531703897 24.521686867675047 21.66182510267455 120-124 24.769723668402083 29.595514617541046 24.254104925911093 21.380656788145775 125-129 25.08761389806749 29.34815259837789 24.086312205867628 21.477921297686994 130-134 25.00751277171191 29.029349894821195 24.80216367825303 21.160973655213862 135-139 25.224007608750064 30.164689392801726 23.95755118386144 20.653751814586773 140-144 26.126757040668302 30.29863438547346 23.87574408483818 19.69886448902006 145-149 26.50825412706353 29.959979989994995 23.50175087543772 20.030015007503753 150-151 27.788208787082237 29.891100262861436 22.781324320941295 19.539366629115033 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 0.0 1 0.5 2 0.5 3 0.5 4 1.0 5 0.5 6 0.0 7 0.0 8 0.0 9 0.5 10 0.5 11 0.5 12 0.5 13 0.5 14 0.5 15 0.0 16 0.0 17 0.5 18 0.5 19 0.0 20 1.0 21 1.0 22 0.0 23 1.0 24 1.0 25 1.0 26 2.0 27 2.5 28 5.0 29 7.5 30 11.5 31 17.0 32 25.0 33 31.0 34 41.0 35 54.5 36 81.0 37 114.5 38 157.0 39 181.5 40 201.5 41 195.5 42 158.0 43 156.0 44 152.5 45 164.5 46 173.0 47 173.5 48 189.5 49 181.5 50 156.0 51 138.0 52 136.0 53 144.0 54 140.5 55 121.0 56 87.5 57 69.5 58 76.5 59 71.0 60 57.5 61 39.0 62 24.0 63 29.0 64 33.5 65 29.0 66 24.5 67 23.0 68 21.0 69 16.5 70 14.5 71 14.5 72 13.0 73 9.0 74 5.0 75 4.0 76 3.5 77 2.0 78 2.0 79 2.0 80 1.0 81 2.0 82 1.5 83 0.5 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 0.17500000000000002 3 0.25 4 0.3 5 0.25 6 0.025 7 0.025 8 0.025 9 0.025 10-14 0.034999999999999996 15-19 0.1 20-24 0.12 25-29 0.095 30-34 0.08 35-39 0.1 40-44 0.12 45-49 0.15 50-54 0.105 55-59 0.125 60-64 0.17500000000000002 65-69 0.135 70-74 0.06999999999999999 75-79 0.125 80-84 0.15 85-89 0.125 90-94 0.06999999999999999 95-99 0.165 100-104 0.17500000000000002 105-109 0.13 110-114 0.2 115-119 0.16999999999999998 120-124 0.12 125-129 0.13 130-134 0.16999999999999998 135-139 0.11499999999999999 140-144 0.045 145-149 0.05 150-151 0.13749999999999998 >>END_MODULE >>Sequence Length Distribution pass #Length Count 151 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 85.32499999999999 #Duplication Level Percentage of deduplicated Percentage of total 1 93.49545854087313 79.77499999999999 2 3.8382654556108995 6.550000000000001 3 1.0254907705830647 2.625 4 0.527395253442719 1.7999999999999998 5 0.3808965719308526 1.625 6 0.08789920890711983 0.44999999999999996 7 0.05859947260474656 0.35000000000000003 8 0.1464986815118664 1.0 9 0.05859947260474656 0.44999999999999996 >10 0.3808965719308526 5.375 >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 GCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCC 30 0.75 No Hit GATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCG 27 0.675 Illumina Single End PCR Primer 1 (100% over 50bp) GGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTC 19 0.475 No Hit ATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAG 18 0.44999999999999996 No Hit AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCC 17 0.42500000000000004 Illumina Single End PCR Primer 1 (100% over 50bp) CCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGG 16 0.4 No Hit AATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGA 15 0.375 No Hit GGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTT 15 0.375 No Hit GCTGCTCACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGATCGTGG 14 0.35000000000000003 No Hit GAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCC 12 0.3 No Hit CATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAAT 11 0.27499999999999997 No Hit CCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGT 11 0.27499999999999997 No Hit GGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTCAAAACAATCAC 10 0.25 No Hit TAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGT 9 0.22499999999999998 No Hit AGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTT 9 0.22499999999999998 No Hit CTTCAATATAAGCCTTGGTAGGGATAGATAGCCACCTATATAGTATAGCT 8 0.2 No Hit GGACATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCC 8 0.2 No Hit AAAGAATATCCCAATTATCCATAAAACTGTAACTAAGTGAGGCTCTCTCA 8 0.2 No Hit ATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATA 8 0.2 No Hit CTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTT 8 0.2 No Hit TGGACATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCC 7 0.17500000000000002 No Hit GTGAGGCTCTCTCATTGGTTTATACTTCAATATAAGCCTTGGTAGGGATA 7 0.17500000000000002 No Hit AAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCT 6 0.15 No Hit GGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATGGT 6 0.15 No Hit GCCACAGGCGTCATACTTCCCAAGAAGCGGCCATAGCCCAGATGCGAGGT 6 0.15 No Hit AAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTA 5 0.125 No Hit TGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTC 5 0.125 No Hit TAGGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATG 5 0.125 No Hit ATTACTTCCATTTCCGCCCAAGCTGCTCACAGTATACGGGCGTCGGCATC 5 0.125 No Hit TCAATATAAGCCTTGGTAGGGATAGATAGCCACCTATATAGTATAGCTTC 5 0.125 No Hit GGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTCAAAACAATCACC 5 0.125 No Hit GAATATCCCAATTATCCATAAAACTGTAACTAAGTGAGGCTCTCTCATTG 5 0.125 No Hit GGGATAGATAGCCACCTATATAGTATAGCTTCCCATCTTCTTTGAGAGTT 5 0.125 No Hit GTTCGATTTCTTAAAGGACTGAATATTCGGTGGCAGTATGGGATTTCTAA 5 0.125 No Hit CAAAGAATATCCCAATTATCCATAAAACTGTAACTAAGTGAGGCTCTCTC 5 0.125 No Hit GTAGGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGAT 5 0.125 No Hit CGGCATCCAGACCGTCGGCTGATCGTGGTTTTACTAGGCTAGACTAGCGT 5 0.125 No Hit TAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGG 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 0.6 0.0 0.0 0.0 0.0 2 0.6 0.0 0.0 0.0 0.0 3 0.6 0.0 0.0 0.0 0.0 4 0.6 0.0 0.0 0.0 0.0 5 0.6 0.0 0.0 0.0 0.0 6 0.6 0.0 0.0 0.0 0.0 7 0.6 0.0 0.0 0.0 0.0 8 0.6 0.0 0.0 0.0 0.0 9 0.6 0.0 0.0 0.0 0.0 10-11 0.6 0.0 0.0 0.0 0.0 12-13 0.6 0.0 0.0 0.0 0.0 14-15 0.6 0.0 0.0 0.0 0.0 16-17 0.6 0.0 0.0 0.0 0.0 18-19 0.6 0.0 0.0 0.0 0.0 20-21 0.6 0.0 0.0 0.0 0.0 22-23 0.6 0.0 0.0 0.0 0.0 24-25 0.6 0.0 0.0 0.0 0.0 26-27 0.6 0.0 0.0 0.0 0.0 28-29 0.6 0.0 0.0 0.0 0.0 30-31 0.6 0.0 0.0 0.0 0.0 32-33 0.6 0.0 0.0 0.0 0.0 34-35 0.6 0.0 0.0 0.0 0.0 36-37 0.6 0.0 0.0 0.0 0.0 38-39 0.6 0.0 0.0 0.0 0.0 40-41 0.6 0.0 0.0 0.0 0.0 42-43 0.6 0.0 0.0 0.0 0.0 44-45 0.6 0.0 0.0 0.0 0.0 46-47 0.6125 0.0 0.0 0.0 0.0 48-49 0.625 0.0 0.0 0.0 0.0 50-51 0.625 0.0 0.0 0.0 0.0 52-53 0.625 0.0 0.0 0.0 0.0 54-55 0.625 0.0 0.0 0.0 0.0 56-57 0.625 0.0 0.0 0.0 0.0 58-59 0.625 0.0 0.0 0.0 0.0 60-61 0.625 0.0 0.0 0.0 0.0 62-63 0.625 0.0 0.0 0.0 0.0 64-65 0.65 0.0 0.0 0.0 0.0 66-67 0.675 0.0 0.0 0.0 0.0 68-69 0.7 0.0 0.0 0.0 0.0 70-71 0.725 0.0 0.0 0.0 0.0 72-73 0.7625 0.0 0.0 0.0 0.0 74-75 0.8125 0.0 0.0 0.0 0.0 76-77 0.8875 0.0 0.0 0.0 0.0 78-79 1.0499999999999998 0.0 0.0 0.0 0.0 80-81 1.2 0.0 0.0 0.0 0.0 82-83 1.2374999999999998 0.0 0.0 0.0 0.0 84-85 1.4625 0.0 0.0 0.0 0.0 86-87 1.7 0.0 0.0 0.0 0.0 88-89 1.9375 0.0 0.0 0.0 0.0 90-91 2.1375 0.0 0.0 0.0 0.0 92-93 2.4 0.0 0.0 0.0 0.0 94-95 2.675 0.0 0.0 0.0 0.0 96-97 3.0125 0.0 0.0 0.0 0.0 98-99 3.4 0.0 0.0 0.0 0.0 100-101 3.85 0.0 0.0 0.0 0.0 102-103 4.25 0.0 0.0 0.0 0.0 104-105 4.7875 0.0 0.0 0.0 0.0 106-107 5.1625 0.0 0.0 0.0 0.0 108-109 5.5 0.0 0.0 0.0 0.0 110-111 5.9 0.0 0.0 0.0 0.0 112-113 6.4375 0.0 0.0 0.0 0.0 114-115 7.1 0.0 0.0 0.0 0.0 116-117 7.7875 0.0 0.0 0.0 0.0 118-119 8.5125 0.0 0.0 0.0 0.0 120-121 9.025 0.0 0.0 0.0 0.0 122-123 9.5125 0.0 0.0 0.0 0.0 124-125 9.9375 0.0 0.0 0.0 0.0 126-127 10.3875 0.0 0.0 0.0 0.0 128-129 10.775 0.0 0.0 0.0 0.0 130-131 11.325 0.0 0.0 0.0 0.0 132-133 11.850000000000001 0.0 0.0 0.0 0.0 134-135 12.5 0.0 0.0 0.0 0.0 136-137 13.175 0.0 0.0 0.0 0.0 138-139 13.75 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position TGAGAAT 10 0.0066078315 146.59494 1 GAGAATG 10 0.0066078315 146.59494 2 GAATGTT 10 0.0066078315 146.59494 4 AGAATGT 10 0.0066078315 146.59494 3 AATGTTA 10 0.0066078315 146.59494 5 TGGTCGC 20 0.0059828446 28.952501 40-44 GTGGTCG 20 0.0059828446 28.952501 40-44 AAAAAAA 210 5.99739E-8 10.3401785 60-64 >>END_MODULE Read 1058314 spots for SRR5578486.sra Written 1058314 spots for SRR5578486.sra Read 1058314 spots for SRR5578486.sra Written 1058314 spots for SRR5578486.sra Read 1058314 spots for SRR5578486.sra Written 1058314 spots for SRR5578486.sra Read 1058314 spots for SRR5578486.sra Written 1058314 spots for SRR5578486.sra Read 1058314 spots for SRR5578486.sra Written 1058314 spots for SRR5578486.sra Read 1058314 spots for SRR5578486.sra Written 1058314 spots for SRR5578486.sra Read 1058314 spots for SRR5578486.sra Written 1058314 spots for SRR5578486.sra Read 1058326 spots for SRR5578486.sra Written 1058326 spots for SRR5578486.sra Read 1058314 spots for SRR5578486.sra Written 1058314 spots for SRR5578486.sra Read 1058314 spots for SRR5578486.sra Written 1058314 spots for SRR5578486.sra Read 1058314 spots for SRR5578486.sra Written 1058314 spots for SRR5578486.sra Read 1058314 spots for SRR5578486.sra Written 1058314 spots for SRR5578486.sra Read 1058314 spots for SRR5578486.sra Written 1058314 spots for SRR5578486.sra Read 1058314 spots for SRR5578486.sra Written 1058314 spots for SRR5578486.sra Read 1058314 spots for SRR5578486.sra Written 1058314 spots for SRR5578486.sra Read 1058314 spots for SRR5578486.sra Written 1058314 spots for SRR5578486.sra Read 1058314 spots for SRR5578486.sra Written 1058314 spots for SRR5578486.sra Read 1058314 spots for SRR5578486.sra Written 1058314 spots for SRR5578486.sra Read 1058314 spots for SRR5578486.sra Written 1058314 spots for SRR5578486.sra Read 1058314 spots for SRR5578486.sra Written 1058314 spots for SRR5578486.sra SRR ids: ['SRR5578486.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_dlj8i6rk SRR5578486.sra spots: 21166292 blocks: [[1, 1058314], [1058315, 2116628], [2116629, 3174942], [3174943, 4233256], [4233257, 5291570], [5291571, 6349884], [6349885, 7408198], [7408199, 8466512], [8466513, 9524826], [9524827, 10583140], [10583141, 11641454], [11641455, 12699768], [12699769, 13758082], [13758083, 14816396], [14816397, 15874710], [15874711, 16933024], [16933025, 17991338], [17991339, 19049652], [19049653, 20107966], [20107967, 21166292]] SRR5578486 file size 7150861 SRR5578486 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 SRR5578486 SRR5578486_1.fastq SRR5578486_2.fastq Input file: SRR5578486_1.fastq Paired file: SRR5578486_2.fastq trimmed: SRR5578486-trimmed-pair1.fastq, SRR5578486-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 20:26:41 2024 >> started Mon Dec 9 20:27:10 2024 >> done (28.962s) 21166292 read pairs processed; of these: 58080 ( 0.27%) short read pairs filtered out after trimming by size control 629382 ( 2.97%) empty read pairs filtered out after trimming by size control 20478830 (96.75%) read pairs available; of these: 12184778 (59.50%) trimmed read pairs available after processing 8294052 (40.50%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 18 20 0.00% 19 73 0.00% 20 37 0.00% 21 43 0.00% 22 40 0.00% 23 44 0.00% 24 222 0.00% 25 46 0.00% 26 59 0.00% 27 62 0.00% 28 70 0.00% 29 55 0.00% 30 87 0.00% 31 80 0.00% 32 70 0.00% 33 86 0.00% 34 70 0.00% 35 95 0.00% 36 98 0.00% 37 131 0.00% 38 124 0.00% 39 138 0.00% 40 189 0.00% 41 218 0.00% 42 209 0.00% 43 264 0.00% 44 300 0.00% 45 427 0.00% 46 440 0.00% 47 477 0.00% 48 600 0.00% 49 590 0.00% 50 765 0.00% 51 798 0.00% 52 918 0.00% 53 988 0.00% 54 1058 0.01% 55 1227 0.01% 56 1383 0.01% 57 1526 0.01% 58 1705 0.01% 59 2085 0.01% 60 2329 0.01% 61 2727 0.01% 62 2927 0.01% 63 3268 0.02% 64 3675 0.02% 65 4293 0.02% 66 5146 0.03% 67 7165 0.03% 68 10932 0.05% 69 21116 0.10% 70 21469 0.10% 71 13445 0.07% 72 10955 0.05% 73 10925 0.05% 74 11778 0.06% 75 12993 0.06% 76 13418 0.07% 77 14638 0.07% 78 15865 0.08% 79 17461 0.09% 80 19026 0.09% 81 21363 0.10% 82 23914 0.12% 83 26554 0.13% 84 31222 0.15% 85 34298 0.17% 86 36355 0.18% 87 38599 0.19% 88 39855 0.19% 89 41293 0.20% 90 43559 0.21% 91 45732 0.22% 92 48622 0.24% 93 52219 0.25% 94 54980 0.27% 95 57075 0.28% 96 58971 0.29% 97 60053 0.29% 98 61112 0.30% 99 64165 0.31% 100 66796 0.33% 101 69122 0.34% 102 72414 0.35% 103 76083 0.37% 104 79569 0.39% 105 81867 0.40% 106 84335 0.41% 107 86054 0.42% 108 88138 0.43% 109 87417 0.43% 110 88418 0.43% 111 91331 0.45% 112 95360 0.47% 113 102396 0.50% 114 106303 0.52% 115 110297 0.54% 116 110823 0.54% 117 111365 0.54% 118 110488 0.54% 119 109579 0.54% 120 113874 0.56% 121 115269 0.56% 122 119687 0.58% 123 123484 0.60% 124 127821 0.62% 125 130690 0.64% 126 135178 0.66% 127 135187 0.66% 128 132811 0.65% 129 138955 0.68% 130 138425 0.68% 131 141140 0.69% 132 144414 0.71% 133 149356 0.73% 134 153540 0.75% 135 156960 0.77% 136 160851 0.79% 137 164673 0.80% 138 172772 0.84% 139 179194 0.88% 140 184523 0.90% 141 189853 0.93% 142 212046 1.04% 143 220507 1.08% 144 237375 1.16% 145 265580 1.30% 146 303502 1.48% 147 372075 1.82% 148 499725 2.44% 149 813279 3.97% 150 3140468 15.34% 151 8294052 40.50% 20478830 reads passed initial QC criterion=sequence-density sequence-density=0.49 sequence-density-rank=1 fanout-score=2.03 fanout-score-rank=31 prefix-density=0.48 prefix-fanout=2.0 sequence=TTCAAATGTACA criterion=fanout-score sequence-density=0.01 sequence-density-rank=34 fanout-score=46.04 fanout-score-rank=1 prefix-density=0.35 prefix-fanout=1.5 sequence=TTTTTTTTCTCGTTCTTTGGTCGCAATCCTGCGTAATCAACGCCGCAACTTTACGTCGGATTAGCTCTTCTTTGATTAGCATGAAACTCCAAGGTCCGGGGGGGTCACTTATCCTGGGCTTCATCCAATGGTGGGTGCTAACTCTTTAATAGCCTTCAGTGACTGTGAGATGCCGTCTACGAGTGGCACGAATCGCACGGATGTTTGGTTAAAGAACAGTCGCAGTTTTCCTCAAATCCCGCCACGAAACTAAGCGATTGAACTCTTGCCTGGTTACTGTATGCCCCTGTGTTATTGCAGCGTCTCGATTAGGGGGAAACCTTGTCACCGTCAGCTTATTCCCGAGGCATATGGCCCTACTTAACTGATCTGAAGTATTACGGTAACCGCGACGATAATAACCCGGACCAAATATAGCCTGATATGAGCGTGCCCGTCCATAGTCCCAGAGACGGGCGGAGGCTCTTAACCGTACGAGACAATCTCC criterion=sequence-density sequence-density=0.59 sequence-density-rank=1 fanout-score=4.95 fanout-score-rank=19 prefix-density=2.82 prefix-fanout=1.0 sequence=CAAGAAAAAAAACGAA criterion=fanout-score sequence-density=0.01 sequence-density-rank=40 fanout-score=42.02 fanout-score-rank=1 prefix-density=0.21 prefix-fanout=1.1 sequence=AATTCATCTCCTCTAACTTTGGAGAGGTAGGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATGGTTTTTACTATGTTGGGTATGCTGTTCGATTTCTTAAAGGACTGAATATTCGGTGGCAGTATGGGATTTCTAAAAATAATGTTAAGAATTTTTGCTGGTTTTTTGCGACGTTGGTGTTGTATTCTATAGCTCCATTATGGCCGTTATATGGAATCATTGGAGTGCCAGTAATTCTACCACGCCTTATATTTAAAGACAAAAAGAAGTGTCTAACAACAACATCCACACTACTACTCCTTGTCATATTTCTTCCTGAATTGCTGATTCTTATTGGATTTCTGATATTTCCTATTGTTATGGGCTATTACATCTCTAAGGAATTGGTGAAGTAAAATGGTGAAGCTTATGAATTTGTGGAGTGAGAGGATTAAAGATAGGGAAGTTGTTGAAGTTATTGGCTGTGAGAGAGTGCCATTGATGAAACGT SRR5578486 testing PE reads STAR mapping to Ensembl genome Started job on | Dec 09 20:28:38 Started mapping on | Dec 09 20:28:38 Finished on | Dec 09 20:55:05 Mapping speed, Million of reads per hour | 46.45 Number of input reads | 20478830 Average input read length | 280 UNIQUE READS: Uniquely mapped reads number | 12045397 Uniquely mapped reads % | 58.82% Average mapped length | 277.58 Number of splices: Total | 8023545 Number of splices: Annotated (sjdb) | 7500129 Number of splices: GT/AG | 7909965 Number of splices: GC/AG | 100324 Number of splices: AT/AC | 4922 Number of splices: Non-canonical | 8334 Mismatch rate per base, % | 0.15% Deletion rate per base | 0.01% Deletion average length | 1.44 Insertion rate per base | 0.00% Insertion average length | 1.11 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 185633 % of reads mapped to multiple loci | 0.91% Number of reads mapped to too many loci | 42367 % of reads mapped to too many loci | 0.21% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 39.27% % of reads unmapped: other | 0.80% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 8272805 8272805 8272805 N_multimapping 185633 185633 185633 N_noFeature 298201 11633041 391866 N_ambiguous 351312 1080 34700 UnstrandedReadsAssigned:11395884 PositiveStrandReadsAssigned:411276 NegativeStrandReadsAssigned:11618831 Dataset is classified negative stranded MeadianReadLen=151 20thPercentileLength=134 echo kmer=129 SRR5578486 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: SRR5578486-trimmed-pair1.fastq SRR5578486-trimmed-pair2.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 20,478,830 reads, 11,756,843 reads pseudoaligned [quant] estimated average fragment length: 191.069 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,117 rounds 52973 SRR5578486.ke.tsv 35125 SRR5578486.se.tsv 88098 total ==> SRR5578486.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 746.071 0 0 PNS24247 1044 853.931 0 0 PNS24249 1928 1737.93 14.6953 0.952796 PNS24246 1044 853.931 0 0 PNS24248 1044 853.931 0 0 PNS24244 1471 1280.93 239.305 21.0513 PNS24243 293 125.293 0 0 KQK14069 1603 1412.93 431.602 34.4205 KQK14071 474 288.893 2.87819 1.12263 ==> SRR5578486.se.tsv <== BRADI_1g14170v3 442 BRADI_1g53295v3 31 BRADI_1g59795v3 231 BRADI_1g07683v3 0 BRADI_1g00485v3 21 BRADI_1g20270v3 1322 BRADI_1g74790v3 35 BRADI_1g09890v3 0 BRADI_1g77505v3 273 BRADI_1g48960v3 0 SRR5578486 completed mapping pipeline successfully