Starting /dee2/code/volunteer_pipeline.sh SRR5578515 current disk space = 1522480263168 free memory = 1372493292 SRR5578515 SRAfilesize f49eeedd7905372cca988b007ec2a360 SRR5578515.sra SRR5578515.sra file validated SRR5578515 is paired end SRR5578515 is conventional basespace SRR5578515 read1 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5578515_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 32.212 34.0 33.0 34.0 32.0 34.0 2 33.24225 34.0 33.0 34.0 32.0 34.0 3 33.31925 34.0 33.0 34.0 32.0 34.0 4 33.3575 34.0 33.0 34.0 33.0 34.0 5 33.41725 34.0 33.0 34.0 33.0 34.0 6 37.05975 38.0 37.0 38.0 36.0 38.0 7 37.3135 38.0 38.0 38.0 37.0 38.0 8 37.494 38.0 38.0 38.0 37.0 38.0 9 37.495 38.0 38.0 38.0 38.0 38.0 10-14 37.44975 38.0 38.0 38.0 38.0 38.0 15-19 37.47825 38.0 38.0 38.0 37.6 38.0 20-24 37.46255 38.0 38.0 38.0 37.6 38.0 25-29 37.3762 38.0 38.0 38.0 37.0 38.0 30-34 37.248850000000004 38.0 38.0 38.0 37.0 38.0 35-39 37.19255 38.0 38.0 38.0 37.0 38.0 40-44 37.017450000000004 38.0 38.0 38.0 36.2 38.0 45-49 37.0441 38.0 38.0 38.0 36.0 38.0 50-54 37.0072 38.0 38.0 38.0 36.2 38.0 55-59 36.9633 38.0 38.0 38.0 36.0 38.0 60-64 36.87645 38.0 38.0 38.0 36.0 38.0 65-69 36.8519 38.0 38.0 38.0 36.0 38.0 70-74 36.6665 38.0 38.0 38.0 35.0 38.0 75-79 36.29545 38.0 38.0 38.0 34.0 38.0 80-84 36.2744 38.0 38.0 38.0 34.0 38.0 85-89 36.0805 38.0 38.0 38.0 33.8 38.0 90-94 36.0416 38.0 38.0 38.0 33.6 38.0 95-99 35.911150000000006 38.0 38.0 38.0 33.4 38.0 100-104 35.8328 38.0 37.8 38.0 33.0 38.0 105-109 35.63025 38.0 37.0 38.0 32.6 38.0 110-114 35.39149999999999 38.0 36.6 38.0 31.4 38.0 115-119 35.324149999999996 38.0 36.6 38.0 31.0 38.0 120-124 34.978449999999995 38.0 36.0 38.0 29.4 38.0 125-129 34.799 38.0 36.0 38.0 28.0 38.0 130-134 34.42165 38.0 35.0 38.0 26.6 38.0 135-139 34.2605 38.0 35.0 38.0 24.8 38.0 140-144 33.8449 38.0 34.8 38.0 23.0 38.0 145-149 33.07340000000001 38.0 34.0 38.0 17.0 38.0 150-151 29.006 36.0 24.5 38.0 2.0 38.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 7 4.0 8 9.0 9 3.0 10 3.0 11 1.0 12 3.0 13 1.0 14 1.0 15 4.0 16 7.0 17 9.0 18 20.0 19 21.0 20 5.0 21 12.0 22 8.0 23 2.0 24 13.0 25 15.0 26 10.0 27 18.0 28 29.0 29 24.0 30 39.0 31 51.0 32 67.0 33 96.0 34 126.0 35 263.0 36 764.0 37 2372.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 42.54158004158004 12.24012474012474 11.538461538461538 33.679833679833685 2 27.825 13.475000000000001 29.549999999999997 29.15 3 25.237618809404704 17.333666833416707 24.037018509254626 33.39169584792396 4 26.224999999999998 24.525 22.975 26.275 5 26.575 26.3 26.85 20.275000000000002 6 23.775 31.45 26.075 18.7 7 16.0 25.900000000000002 40.825 17.275 8 18.925 26.325 32.15 22.6 9 21.025 23.3 35.125 20.549999999999997 10-14 22.99 28.78 26.405 21.825 15-19 22.95 26.729999999999997 26.99 23.330000000000002 20-24 22.865 26.14 27.235 23.76 25-29 21.32 27.235 28.325 23.119999999999997 30-34 21.935 27.544999999999998 27.025 23.494999999999997 35-39 22.415 26.97 26.735 23.880000000000003 40-44 24.15 26.005 26.119999999999997 23.724999999999998 45-49 23.68 27.189999999999998 26.810000000000002 22.32 50-54 24.62 26.55 25.705 23.125 55-59 23.0 27.145000000000003 26.275 23.580000000000002 60-64 22.09 27.35 26.375 24.185000000000002 65-69 21.73 28.384999999999998 25.88 24.005000000000003 70-74 22.900000000000002 28.4 25.264999999999997 23.435 75-79 22.7 26.645000000000003 26.279999999999998 24.375 80-84 23.13 28.075 25.045 23.75 85-89 23.9 26.495 25.96 23.645 90-94 23.735 26.064999999999998 26.375 23.825 95-99 22.24 26.69 27.029999999999998 24.04 100-104 23.18 26.77 26.235000000000003 23.815 105-109 23.28 27.665 25.979999999999997 23.075000000000003 110-114 22.555 26.884999999999998 25.480000000000004 25.080000000000002 115-119 22.15 28.125 25.080000000000002 24.645 120-124 23.13 27.36 24.55 24.959999999999997 125-129 22.965 28.455000000000002 23.26 25.319999999999997 130-134 23.64 27.639999999999997 23.815 24.905 135-139 22.215 28.24 25.86 23.685000000000002 140-144 23.005 27.97 24.4 24.625 145-149 22.400000000000002 29.39 23.425 24.785 150-151 21.825 28.0875 24.6125 25.474999999999998 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 0.0 1 0.0 2 1.0 3 2.0 4 1.0 5 0.0 6 0.5 7 2.5 8 2.5 9 0.5 10 0.5 11 0.5 12 0.0 13 1.0 14 1.5 15 0.5 16 0.5 17 0.5 18 0.5 19 0.5 20 1.5 21 1.5 22 0.5 23 1.0 24 2.0 25 2.5 26 3.0 27 4.0 28 5.5 29 13.0 30 25.0 31 49.0 32 61.0 33 62.5 34 74.5 35 79.0 36 110.5 37 151.0 38 149.5 39 141.0 40 150.5 41 136.5 42 110.0 43 104.5 44 124.0 45 131.0 46 146.5 47 166.5 48 149.0 49 147.0 50 157.5 51 160.5 52 170.5 53 180.5 54 155.0 55 121.5 56 102.0 57 95.5 58 82.5 59 70.5 60 63.5 61 52.0 62 48.5 63 32.5 64 27.5 65 30.0 66 20.5 67 15.5 68 15.5 69 15.5 70 16.0 71 14.5 72 10.0 73 6.0 74 3.5 75 3.0 76 3.5 77 1.5 78 1.5 79 2.5 80 1.0 81 0.0 82 0.5 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 3.8 2 0.0 3 0.05 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 0.0 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 78.225 #Duplication Level Percentage of deduplicated Percentage of total 1 88.23905401086608 69.025 2 6.45573665707894 10.100000000000001 3 2.205177372962608 5.175 4 1.310322786832854 4.1000000000000005 5 0.5752636625119847 2.25 6 0.4793863854266539 2.25 7 0.19175455417066153 1.05 8 0.15979546180888463 1.0 9 0.03195909236177692 0.22499999999999998 >10 0.3515500159795462 4.825 >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 GATCGGAAGAGCACACGTCTGAACTCCAGTCACAAAGCAATCTCGTATGC 37 0.9249999999999999 TruSeq Adapter, Index 5 (97% over 37bp) GCCTTATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGA 36 0.8999999999999999 No Hit GCCTCACTTAGTTACAGTTTTATGGATAATTGGGATATTCTTTGGTATAG 20 0.5 No Hit GGAAGCTATACTATATAGGTGGCTATCTATCCCTACCAAGGCTTATATTG 20 0.5 No Hit CCCATTTTTAGTTATAATGATGCCTTATGTGATAGATGCCTCTTTAAAAT 14 0.35000000000000003 No Hit GGGAAGCTATACTATATAGGTGGCTATCTATCCCTACCAAGGCTTATATT 12 0.3 No Hit CTTATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGT 12 0.3 No Hit GGGGTTATGAGTAGGGATGAGCATAAACCAACAACTCTCAAAGAAGATGG 11 0.27499999999999997 No Hit GCCATTCGGACCTACCGTAAGCCTATATTTCGTTTTTCTGAGACCTATCC 11 0.27499999999999997 No Hit GTGGCTATCTATCCCTACCAAGGCTTATATTGAAGTATAAACCAATGAGA 10 0.25 No Hit GCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGTAGGGATGAGCATAA 10 0.25 No Hit TGGCTATCTATCCCTACCAAGGCTTATATTGAAGTATAAACCAATGAGAG 9 0.22499999999999998 No Hit GCAGTAGTTTATAAGGAATATATCCCATTTTTAGTTATAATGATGCCTTA 8 0.2 No Hit CCTGAGACAGAGTCGCTATCGTTATGTCTCCTTCCCGCGGTCAAGGCGAA 8 0.2 No Hit GTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGTAGGGA 8 0.2 No Hit GTTATGAGTAGGGATGAGCATAAACCAACAACTCTCAAAGAAGATGGGAA 8 0.2 No Hit GGATAATTGGGATATTCTTTGGTATAGTTGGGATTTTAATATCATTAATA 8 0.2 No Hit CCAGGAGATGTTGGAACTCTACCAATTGGAGCTTTCTTAGCTGTCTTAGC 7 0.17500000000000002 No Hit CCTCACTTAGTTACAGTTTTATGGATAATTGGGATATTCTTTGGTATAGT 7 0.17500000000000002 No Hit CGACGAACAACGAAGAGCGACGATGCCCGTTTCAGGTGGTCCTCAGCGTA 7 0.17500000000000002 No Hit CTGAGACAGAGTCGCTATCGTTATGTCTCCTTCCCGCGGTCAAGGCGAAA 7 0.17500000000000002 No Hit GGCAGTTTCCAGAAACGTGTATCACATCTAGGCATGGAATCTTATGCCAG 7 0.17500000000000002 No Hit GTCGAGTTGTACGGCCGTTCAGCCACGAGTCACGGGGTCTAACGCCTACC 7 0.17500000000000002 No Hit GTAGTTTATAAGGAATATATCCCATTTTTAGTTATAATGATGCCTTATGT 6 0.15 No Hit AGCAGTAGTTTATAAGGAATATATCCCATTTTTAGTTATAATGATGCCTT 6 0.15 No Hit ATGCCTTATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTAT 6 0.15 No Hit CGGCTGTCGAGTTGTACGGCCGTTCAGCCACGAGTCACGGGGTCTAACGC 6 0.15 No Hit TGAGAATTGGGATACAGGACCCAAAAGGCTGAAAGGGGGCAGTGAAGTCG 6 0.15 No Hit GGGATAATTGCGCGGTTTTGACTGCGGAAGGAAGCCAAGGCCCACCTAAA 6 0.15 No Hit CTTACAAGTCCGCTCCTCGGGGAGCTTGATTGATAATTCTGTATAAGGTG 6 0.15 No Hit CGGGGAACAGTCGCATGACGAGGCAGTTTCCAGAAACGTGTATCACATCT 6 0.15 No Hit GGGCTATTGATATTTAACAAATATCCAGCAAAGGTTTTTCCAGGAGATGT 6 0.15 No Hit GCAGTTTCCAGAAACGTGTATCACATCTAGGCATGGAATCTTATGCCAGC 6 0.15 No Hit TGGGAAGCTATACTATATAGGTGGCTATCTATCCCTACCAAGGCTTATAT 6 0.15 No Hit CCCTGACCCCGGGGAACAGTCGCATGACGAGGCAGTTTCCAGAAACGTGT 6 0.15 No Hit GGGATATTCTTTGGTATAGTTGGGATTTTAATATCATTAATAGCATGATG 6 0.15 No Hit CCGGGATCGGGCAAAGGGGCAACTCGAGCTAATCTCCCCAGCGGCTAGCA 6 0.15 No Hit GTTTTATGGATAATTGGGATATTCTTTGGTATAGTTGGGATTTTAATATC 6 0.15 No Hit GCCCATAACAATAGGAAATATCAGAAATCCAATAAGAATCAGCAATTCAG 5 0.125 No Hit CTTGGTATACGGACAACTGATGGACCCACGTTGCGAGTCCAGTAAATCAG 5 0.125 No Hit ATCACATCTAGGCATGGAATCTTATGCCAGCTAACGGAACAAGCTTTGTG 5 0.125 No Hit GTGTGCTAGCCCGTCGAGACTGAAAAGCTATAACCCGCAGACCCGAGCGA 5 0.125 No Hit CTTTAAAATATCTAAGTGCTGGGGTTATGAGTAGGGATGAGCATAAACCA 5 0.125 No Hit GTTTATAAGGAATATATCCCATTTTTAGTTATAATGATGCCTTATGTGAT 5 0.125 No Hit GATATTCTTTGGTATAGTTGGGATTTTAATATCATTAATAGCATGATGGT 5 0.125 No Hit GTGCTAGCCCGTCGAGACTGAAAAGCTATAACCCGCAGACCCGAGCGAAA 5 0.125 No Hit ACAGTTTTATGGATAATTGGGATATTCTTTGGTATAGTTGGGATTTTAAT 5 0.125 No Hit GCCCTGACCCCGGGGAACAGTCGCATGACGAGGCAGTTTCCAGAAACGTG 5 0.125 No Hit GGGGATAATTGCGCGGTTTTGACTGCGGAAGGAAGCCAAGGCCCACCTAA 5 0.125 No Hit GTCCTTACAAGTCCGCTCCTCGGGGAGCTTGATTGATAATTCTGTATAAG 5 0.125 No Hit CATAACAATAGGAAATATCAGAAATCCAATAAGAATCAGCAATTCAGGAA 5 0.125 No Hit CCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGTAGGGATGAGCATAAA 5 0.125 No Hit CCGGGGAACAGTCGCATGACGAGGCAGTTTCCAGAAACGTGTATCACATC 5 0.125 No Hit GTCTCCTTCCCGCGGTCAAGGCGAAACCGCAGCAAACTTCCTCAGACGCT 5 0.125 No Hit GGTCCTTACAAGTCCGCTCCTCGGGGAGCTTGATTGATAATTCTGTATAA 5 0.125 No Hit ATAAGGTGATCGCAGGTTGTGCAATCATTGCTCAAAAGGGTGTACACCGC 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 0.025 0.0 0.0 0.0 0.0 2 0.025 0.0 0.0 0.0 0.0 3 0.025 0.0 0.0 0.0 0.0 4 0.025 0.0 0.0 0.0 0.0 5 0.025 0.0 0.0 0.0 0.0 6 0.025 0.0 0.0 0.0 0.0 7 0.025 0.0 0.0 0.0 0.0 8 0.025 0.0 0.0 0.0 0.0 9 0.025 0.0 0.0 0.0 0.0 10-11 0.025 0.0 0.0 0.0 0.0 12-13 0.025 0.0 0.0 0.0 0.0 14-15 0.025 0.0 0.0 0.0 0.0 16-17 0.025 0.0 0.0 0.0 0.0 18-19 0.025 0.0 0.0 0.0 0.0 20-21 0.025 0.0 0.0 0.0 0.0 22-23 0.025 0.0 0.0 0.0 0.0 24-25 0.025 0.0 0.0 0.0 0.0 26-27 0.025 0.0 0.0 0.0 0.0 28-29 0.025 0.0 0.0 0.0 0.0 30-31 0.025 0.0 0.0 0.0 0.0 32-33 0.025 0.0 0.0 0.0 0.0 34-35 0.025 0.0 0.0 0.0 0.0 36-37 0.025 0.0 0.0 0.0 0.0 38-39 0.025 0.0 0.0 0.0 0.0 40-41 0.025 0.0 0.0 0.0 0.0 42-43 0.025 0.0 0.0 0.0 0.0 44-45 0.025 0.0 0.0 0.0 0.0 46-47 0.025 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 0.025 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 0.025 0.0 0.0 0.0 0.0 66-67 0.025 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 0.0625 0.0 0.0 0.0 0.0 74-75 0.075 0.0 0.0 0.0 0.0 76-77 0.16249999999999998 0.0 0.0 0.0 0.0 78-79 0.1875 0.0 0.0 0.0 0.0 80-81 0.21250000000000002 0.0 0.0 0.0 0.0 82-83 0.2875 0.0 0.0 0.0 0.0 84-85 0.4 0.0 0.0 0.0 0.0 86-87 0.4625 0.0 0.0 0.0 0.0 88-89 0.5625 0.0 0.0 0.0 0.0 90-91 0.675 0.0 0.0 0.0 0.0 92-93 0.8125 0.0 0.0 0.0 0.0 94-95 1.15 0.0 0.0 0.0 0.0 96-97 1.5 0.0 0.0 0.0 0.0 98-99 1.8625 0.0 0.0 0.0 0.0 100-101 2.1625 0.0 0.0 0.0 0.0 102-103 2.4375 0.0 0.0 0.0 0.0 104-105 2.75 0.0 0.0 0.0 0.0 106-107 3.0875000000000004 0.0 0.0 0.0 0.0 108-109 3.525 0.0 0.0 0.0 0.0 110-111 4.199999999999999 0.0 0.0 0.0 0.0 112-113 4.6625 0.0 0.0 0.0 0.0 114-115 5.2875 0.0 0.0 0.0 0.0 116-117 5.9375 0.0 0.0 0.0 0.0 118-119 6.6125 0.0 0.0 0.0 0.0 120-121 7.125 0.0 0.0 0.0 0.0 122-123 7.800000000000001 0.0 0.0 0.0 0.0 124-125 8.524999999999999 0.0 0.0 0.0 0.0 126-127 9.2875 0.0 0.0 0.0 0.0 128-129 9.9875 0.0 0.0 0.0 0.0 130-131 10.8125 0.0 0.0 0.0 0.0 132-133 11.7625 0.0 0.0 0.0 0.0 134-135 12.7625 0.0 0.0 0.0 0.0 136-137 13.7 0.0 0.0 0.0 0.0 138-139 14.587499999999999 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position CGGCGGG 10 0.006577216 146.82278 1 GCGGGAC 10 0.006832588 144.9875 3 CGGGACC 10 0.006832588 144.9875 4 GGCGGGA 10 0.006832588 144.9875 2 >>END_MODULE SRR5578515 read2 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5578515_2.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 151 %GC 47 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 32.8515 33.0 33.0 34.0 32.0 34.0 2 32.92975 33.0 33.0 34.0 32.0 34.0 3 32.90775 34.0 33.0 34.0 32.0 34.0 4 32.81425 34.0 33.0 34.0 32.0 34.0 5 32.8825 34.0 33.0 34.0 32.0 34.0 6 36.903 38.0 38.0 38.0 36.0 38.0 7 36.97525 38.0 38.0 38.0 36.0 38.0 8 37.01475 38.0 38.0 38.0 37.0 38.0 9 36.8985 38.0 38.0 38.0 36.0 38.0 10-14 37.00035 38.0 38.0 38.0 36.8 38.0 15-19 36.926249999999996 38.0 38.0 38.0 36.4 38.0 20-24 36.950599999999994 38.0 38.0 38.0 36.4 38.0 25-29 36.940250000000006 38.0 38.0 38.0 36.6 38.0 30-34 36.936449999999994 38.0 38.0 38.0 36.8 38.0 35-39 36.86945 38.0 38.0 38.0 36.2 38.0 40-44 36.8482 38.0 38.0 38.0 36.6 38.0 45-49 36.8009 38.0 38.0 38.0 36.0 38.0 50-54 36.742 38.0 38.0 38.0 36.0 38.0 55-59 36.7201 38.0 38.0 38.0 36.0 38.0 60-64 36.69395 38.0 38.0 38.0 35.8 38.0 65-69 36.568650000000005 38.0 38.0 38.0 35.2 38.0 70-74 36.227250000000005 38.0 38.0 38.0 34.4 38.0 75-79 36.23195 38.0 38.0 38.0 34.8 38.0 80-84 36.2573 38.0 38.0 38.0 34.6 38.0 85-89 36.143 38.0 38.0 38.0 34.0 38.0 90-94 36.039249999999996 38.0 38.0 38.0 34.0 38.0 95-99 35.89640000000001 38.0 38.0 38.0 33.8 38.0 100-104 35.61035 38.0 38.0 38.0 32.8 38.0 105-109 35.49915 38.0 38.0 38.0 32.0 38.0 110-114 35.416000000000004 38.0 37.4 38.0 31.8 38.0 115-119 35.3082 38.0 37.0 38.0 31.4 38.0 120-124 34.94895 38.0 36.2 38.0 29.2 38.0 125-129 34.613299999999995 38.0 35.6 38.0 28.0 38.0 130-134 34.2109 38.0 35.2 38.0 24.8 38.0 135-139 33.57405 38.0 33.8 38.0 20.6 38.0 140-144 32.818400000000004 38.0 33.0 38.0 13.4 38.0 145-149 31.578450000000004 38.0 32.4 38.0 6.0 38.0 150-151 26.416625 33.0 17.5 37.0 2.0 38.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 2 7.0 3 5.0 4 4.0 5 4.0 6 5.0 7 3.0 8 1.0 9 1.0 10 6.0 11 2.0 12 2.0 13 5.0 14 7.0 15 10.0 16 12.0 17 30.0 18 9.0 19 4.0 20 8.0 21 7.0 22 15.0 23 14.0 24 12.0 25 17.0 26 14.0 27 19.0 28 20.0 29 43.0 30 45.0 31 50.0 32 72.0 33 86.0 34 152.0 35 268.0 36 625.0 37 2416.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 36.05 18.224999999999998 15.35 30.375000000000004 2 29.975 25.85 23.625 20.549999999999997 3 24.2 25.7 27.875 22.225 4 25.55 30.625000000000004 21.375 22.45 5 26.924999999999997 32.175 20.9 20.0 6 24.15 34.35 21.95 19.55 7 21.7 22.3 33.875 22.125 8 23.974999999999998 24.45 25.874999999999996 25.7 9 24.05 25.05 27.150000000000002 23.75 10-14 26.57 26.465 22.785 24.18 15-19 25.7 26.68 24.755 22.865 20-24 25.619999999999997 26.165 24.705 23.51 25-29 26.445 25.900000000000002 24.295 23.36 30-34 26.85 25.2 24.915000000000003 23.035 35-39 25.745 25.080000000000002 25.19 23.985 40-44 26.505000000000003 25.374999999999996 25.27 22.85 45-49 25.445 24.915000000000003 25.979999999999997 23.66 50-54 24.39 24.645 27.85 23.115 55-59 24.02 25.335 27.675 22.97 60-64 23.27 26.165 27.26 23.305 65-69 23.905 26.490000000000002 26.93 22.675 70-74 22.905 26.72 26.14 24.235 75-79 22.994999999999997 27.13 26.19 23.685000000000002 80-84 22.994999999999997 26.534999999999997 26.384999999999998 24.085 85-89 22.98 27.025 26.484999999999996 23.51 90-94 23.380000000000003 27.82 26.57 22.23 95-99 23.16 28.365000000000002 26.355 22.12 100-104 24.6 27.72 25.259999999999998 22.42 105-109 24.755 28.1 25.275 21.87 110-114 23.185 27.92 25.540000000000003 23.355 115-119 23.95 29.154999999999998 24.88 22.015 120-124 24.005000000000003 28.955 25.14 21.9 125-129 24.255 29.285 24.72 21.740000000000002 130-134 25.06 27.67 25.855 21.415 135-139 25.290000000000003 28.199999999999996 25.34 21.17 140-144 26.555 26.83 25.840000000000003 20.775 145-149 26.57 26.979999999999997 25.83 20.62 150-151 26.174999999999997 26.325 26.4125 21.087500000000002 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 0.0 1 0.0 2 0.0 3 0.0 4 0.0 5 0.0 6 0.0 7 0.0 8 0.0 9 0.0 10 0.5 11 0.5 12 0.0 13 0.0 14 0.0 15 0.0 16 0.5 17 0.5 18 1.0 19 1.0 20 2.0 21 2.5 22 1.0 23 1.5 24 1.0 25 1.0 26 1.5 27 2.5 28 4.0 29 11.0 30 18.5 31 23.5 32 26.5 33 29.0 34 46.5 35 64.5 36 82.5 37 108.0 38 127.0 39 144.5 40 217.5 41 182.5 42 96.0 43 106.5 44 98.5 45 114.0 46 147.0 47 159.0 48 167.0 49 159.5 50 140.5 51 141.5 52 180.5 53 193.0 54 186.0 55 173.0 56 133.0 57 108.0 58 96.5 59 83.0 60 62.5 61 50.0 62 45.0 63 40.0 64 32.5 65 28.0 66 21.5 67 17.5 68 18.5 69 17.5 70 15.0 71 12.5 72 12.0 73 10.5 74 11.0 75 8.5 76 3.5 77 2.5 78 1.0 79 2.0 80 2.0 81 1.0 82 0.5 83 0.0 84 0.0 85 0.0 86 0.0 87 0.0 88 0.0 89 0.0 90 0.0 91 0.0 92 0.0 93 0.0 94 0.0 95 0.0 96 0.0 97 0.0 98 0.0 99 0.0 100 0.0 >>END_MODULE >>Per base N content pass #Base N-Count 1 0.0 2 0.0 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 0.0 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 73.8 #Duplication Level Percentage of deduplicated Percentage of total 1 87.33062330623305 64.45 2 7.046070460704606 10.4 3 2.33739837398374 5.175 4 1.0501355013550135 3.1 5 0.5081300813008129 1.875 6 0.5081300813008129 2.25 7 0.06775067750677506 0.35000000000000003 8 0.13550135501355012 0.8 9 0.27100271002710025 1.7999999999999998 >10 0.7452574525745257 9.8 >50 0.0 0.0 >100 0.0 0.0 >500 0.0 0.0 >1k 0.0 0.0 >5k 0.0 0.0 >10k+ 0.0 0.0 >>END_MODULE >>Overrepresented sequences fail #Sequence Count Percentage Possible Source CATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAAT 42 1.05 No Hit GATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCG 35 0.8750000000000001 Illumina Single End PCR Primer 1 (100% over 50bp) ATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAG 27 0.675 No Hit GGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTC 22 0.5499999999999999 No Hit GAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCC 20 0.5 No Hit AATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGA 20 0.5 No Hit TAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGT 20 0.5 No Hit GCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCC 19 0.475 No Hit GGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTT 19 0.475 No Hit CTTCAATATAAGCCTTGGTAGGGATAGATAGCCACCTATATAGTATAGCT 16 0.4 No Hit GCCCAAGCTGCTCACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGA 16 0.4 No Hit CCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGG 16 0.4 No Hit AGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTT 14 0.35000000000000003 No Hit GCTGCTCACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGATCGTGG 14 0.35000000000000003 No Hit CCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGT 14 0.35000000000000003 No Hit GTAGGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGAT 14 0.35000000000000003 No Hit TAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGG 13 0.325 No Hit TGGACATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCC 11 0.27499999999999997 No Hit GGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATGGT 10 0.25 No Hit GGACATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCC 10 0.25 No Hit AGCTGCTCACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGATCGTG 10 0.25 No Hit CGGGCGTCGGCATCCAGACCGTCGGCTGATCGTGGTTTTACTAGGCTAGA 10 0.25 No Hit CTTCCATTTCCGCCCAAGCTGCTCACAGTATACGGGCGTCGGCATCCAGA 9 0.22499999999999998 No Hit CGAATTGCCAGAATTATTAACTGCGCAGTTAGGGCAGCGTCTGAGGAAGT 9 0.22499999999999998 No Hit GCCACAGGCGTCATACTTCCCAAGAAGCGGCCATAGCCCAGATGCGAGGT 9 0.22499999999999998 No Hit AAGCTGCTCACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGATCGT 9 0.22499999999999998 No Hit CCCAATTATCCATAAAACTGTAACTAAGTGAGGCTCTCTCATTGGTTTAT 9 0.22499999999999998 No Hit TGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATGGTTTTT 9 0.22499999999999998 No Hit ATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATA 9 0.22499999999999998 No Hit CGAATAGCTCGTAACCAAACATGCACAGCGGTCAAACAGTATGTCCCAAG 9 0.22499999999999998 No Hit GGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTCAAAACAATCACC 8 0.2 No Hit GGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTCAAAACAATCAC 8 0.2 No Hit TAGGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATG 8 0.2 No Hit CTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTT 8 0.2 No Hit CAAGCTGCTCACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGATCG 7 0.17500000000000002 No Hit GCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATG 7 0.17500000000000002 No Hit TGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTCAAAACA 6 0.15 No Hit AAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCT 6 0.15 No Hit CCTTGACCGCGGGAAGGAGACATAACGATAGCGACTCTGTCTCAGGGGAT 6 0.15 No Hit CTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTCA 6 0.15 No Hit CCATTTCCGCCCAAGCTGCTCACAGTATACGGGCGTCGGCATCCAGACCG 6 0.15 No Hit GTCGCACTGAACTCGGATAGGTCTCAGAAAAACGAAATATAGGCTTACGG 6 0.15 No Hit GGGATTTCTAAAAATAATGTTAAGAATTTTTGCTGGTTTTTTGCGACGTT 6 0.15 No Hit TGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTC 6 0.15 No Hit AAAGAATATCCCAATTATCCATAAAACTGTAACTAAGTGAGGCTCTCTCA 6 0.15 No Hit GGATAGATAGCCACCTATATAGTATAGCTTCCCATCTTCTTTGAGAGTTG 6 0.15 No Hit ATTACTTCCATTTCCGCCCAAGCTGCTCACAGTATACGGGCGTCGGCATC 6 0.15 No Hit GCTGAGGACCACCTGAAACGGGCATCGTCGCTCTTCGTTGTTCGTCGACT 6 0.15 No Hit CACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGATCGTGGTTTTAC 6 0.15 No Hit CTGGACATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATC 6 0.15 No Hit CGGCATCCAGACCGTCGGCTGATCGTGGTTTTACTAGGCTAGACTAGCGT 6 0.15 No Hit CACGCCACAGGCGTCATACTTCCCAAGAAGCGGCCATAGCCCAGATGCGA 5 0.125 No Hit CAATAACGTCTCTTTCAGAAGGCATTGGTATCTTTTCCCCACTTCCAAGC 5 0.125 No Hit AATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTCAAAA 5 0.125 No Hit CTCTCATTGGTTTATACTTCAATATAAGCCTTGGTAGGGATAGATAGCCA 5 0.125 No Hit ATAACGATAGCGACTCTGTCTCAGGGGATCTGCATATGTTTGCAGCATAC 5 0.125 No Hit TTCCATTTCCGCCCAAGCTGCTCACAGTATACGGGCGTCGGCATCCAGAC 5 0.125 No Hit CAGTTGTCCGTATACCAAGACGTCTAAGGGCGGTGTACACCCTTTTGAGC 5 0.125 No Hit CAATTATCCATAAAACTGTAACTAAGTGAGGCTCTCTCATTGGTTTATAC 5 0.125 No Hit GCGCAATTATCCCCGTCCTGATTTACTGGACTCGCAACGTGGGTCCATCA 5 0.125 No Hit GGTAGGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGA 5 0.125 No Hit CTCGTAACCAAACATGCACAGCGGTCAAACAGTATGTCCCAAGGGGACTT 5 0.125 No Hit CGGGAAGGAGACATAACGATAGCGACTCTGTCTCAGGGGATCTGCATATG 5 0.125 No Hit CCCAAGCTGCTCACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGAT 5 0.125 No Hit CTAGCGTACGAGCACTATGGTCAGTAATTCCTGGAGGAATAGGTACCAAG 5 0.125 No Hit TCCATTTCCGCCCAAGCTGCTCACAGTATACGGGCGTCGGCATCCAGACC 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 0.025 0.0 0.0 0.0 0.0 2 0.025 0.0 0.0 0.0 0.0 3 0.025 0.0 0.0 0.0 0.0 4 0.025 0.0 0.0 0.0 0.0 5 0.025 0.0 0.0 0.0 0.0 6 0.025 0.0 0.0 0.0 0.0 7 0.025 0.0 0.0 0.0 0.0 8 0.025 0.0 0.0 0.0 0.0 9 0.025 0.0 0.0 0.0 0.0 10-11 0.025 0.0 0.0 0.0 0.0 12-13 0.025 0.0 0.0 0.0 0.0 14-15 0.025 0.0 0.0 0.0 0.0 16-17 0.025 0.0 0.0 0.0 0.0 18-19 0.025 0.0 0.0 0.0 0.0 20-21 0.025 0.0 0.0 0.0 0.0 22-23 0.025 0.0 0.0 0.0 0.0 24-25 0.025 0.0 0.0 0.0 0.0 26-27 0.025 0.0 0.0 0.0 0.0 28-29 0.025 0.0 0.0 0.0 0.0 30-31 0.025 0.0 0.0 0.0 0.0 32-33 0.025 0.0 0.0 0.0 0.0 34-35 0.025 0.0 0.0 0.0 0.0 36-37 0.025 0.0 0.0 0.0 0.0 38-39 0.025 0.0 0.0 0.0 0.0 40-41 0.025 0.0 0.0 0.0 0.0 42-43 0.025 0.0 0.0 0.0 0.0 44-45 0.025 0.0 0.0 0.0 0.0 46-47 0.025 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 0.025 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 0.025 0.0 0.0 0.0 0.0 66-67 0.025 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 0.0625 0.0 0.0 0.0 0.0 74-75 0.075 0.0 0.0 0.0 0.0 76-77 0.16249999999999998 0.0 0.0 0.0 0.0 78-79 0.1875 0.0 0.0 0.0 0.0 80-81 0.21250000000000002 0.0 0.0 0.0 0.0 82-83 0.2875 0.0 0.0 0.0 0.0 84-85 0.4 0.0 0.0 0.0 0.0 86-87 0.4625 0.0 0.0 0.0 0.0 88-89 0.5625 0.0 0.0 0.0 0.0 90-91 0.675 0.0 0.0 0.0 0.0 92-93 0.8875 0.0 0.0 0.0 0.0 94-95 1.225 0.0 0.0 0.0 0.0 96-97 1.5625 0.0 0.0 0.0 0.0 98-99 1.925 0.0 0.0 0.0 0.0 100-101 2.2 0.0 0.0 0.0 0.0 102-103 2.4749999999999996 0.0 0.0 0.0 0.0 104-105 2.825 0.0 0.0 0.0 0.0 106-107 3.1624999999999996 0.0 0.0 0.0 0.0 108-109 3.6125 0.0 0.0 0.0 0.0 110-111 4.3125 0.0 0.0 0.0 0.0 112-113 4.75 0.0 0.0 0.0 0.0 114-115 5.375 0.0 0.0 0.0 0.0 116-117 6.05 0.0 0.0 0.0 0.0 118-119 6.6875 0.0 0.0 0.0 0.0 120-121 7.199999999999999 0.0 0.0 0.0 0.0 122-123 7.875 0.0 0.0 0.0 0.0 124-125 8.6625 0.0 0.0 0.0 0.0 126-127 9.375 0.0 0.0 0.0 0.0 128-129 10.0875 0.0 0.0 0.0 0.0 130-131 10.9 0.0 0.0 0.0 0.0 132-133 11.875 0.0 0.0 0.0 0.0 134-135 12.8875 0.0 0.0 0.0 0.0 136-137 13.7125 0.0 0.0 0.0 0.0 138-139 14.587499999999999 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Read 987670 spots for SRR5578515.sra Written 987670 spots for SRR5578515.sra Read 987684 spots for SRR5578515.sra Written 987684 spots for SRR5578515.sra Read 987670 spots for SRR5578515.sra Written 987670 spots for SRR5578515.sra Read 987670 spots for SRR5578515.sra Written 987670 spots for SRR5578515.sra Read 987670 spots for SRR5578515.sra Written 987670 spots for SRR5578515.sra Read 987670 spots for SRR5578515.sra Written 987670 spots for SRR5578515.sra Read 987670 spots for SRR5578515.sra Written 987670 spots for SRR5578515.sra Read 987670 spots for SRR5578515.sra Written 987670 spots for SRR5578515.sra Read 987670 spots for SRR5578515.sra Written 987670 spots for SRR5578515.sra Read 987670 spots for SRR5578515.sra Written 987670 spots for SRR5578515.sra Read 987670 spots for SRR5578515.sra Written 987670 spots for SRR5578515.sra Read 987670 spots for SRR5578515.sra Written 987670 spots for SRR5578515.sra Read 987670 spots for SRR5578515.sra Written 987670 spots for SRR5578515.sra Read 987670 spots for SRR5578515.sra Written 987670 spots for SRR5578515.sra Read 987670 spots for SRR5578515.sra Written 987670 spots for SRR5578515.sra Read 987670 spots for SRR5578515.sra Written 987670 spots for SRR5578515.sra Read 987670 spots for SRR5578515.sra Written 987670 spots for SRR5578515.sra Read 987670 spots for SRR5578515.sra Written 987670 spots for SRR5578515.sra Read 987670 spots for SRR5578515.sra Written 987670 spots for SRR5578515.sra Read 987670 spots for SRR5578515.sra Written 987670 spots for SRR5578515.sra SRR ids: ['SRR5578515.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_flzberwo SRR5578515.sra spots: 19753414 blocks: [[1, 987670], [987671, 1975340], [1975341, 2963010], [2963011, 3950680], [3950681, 4938350], [4938351, 5926020], [5926021, 6913690], [6913691, 7901360], [7901361, 8889030], [8889031, 9876700], [9876701, 10864370], [10864371, 11852040], [11852041, 12839710], [12839711, 13827380], [13827381, 14815050], [14815051, 15802720], [15802721, 16790390], [16790391, 17778060], [17778061, 18765730], [18765731, 19753414]] SRR5578515 file size 6672083 SRR5578515 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 SRR5578515 SRR5578515_1.fastq SRR5578515_2.fastq Input file: SRR5578515_1.fastq Paired file: SRR5578515_2.fastq trimmed: SRR5578515-trimmed-pair1.fastq, SRR5578515-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 21:54:47 2024 >> started Mon Dec 9 21:55:14 2024 >> done (27.860s) 19753414 read pairs processed; of these: 43392 ( 0.22%) short read pairs filtered out after trimming by size control 321450 ( 1.63%) empty read pairs filtered out after trimming by size control 19388572 (98.15%) read pairs available; of these: 10482496 (54.07%) trimmed read pairs available after processing 8906076 (45.93%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 18 14 0.00% 19 17 0.00% 20 19 0.00% 21 24 0.00% 22 39 0.00% 23 26 0.00% 24 93 0.00% 25 26 0.00% 26 33 0.00% 27 40 0.00% 28 98 0.00% 29 48 0.00% 30 70 0.00% 31 51 0.00% 32 33 0.00% 33 45 0.00% 34 51 0.00% 35 85 0.00% 36 67 0.00% 37 54 0.00% 38 68 0.00% 39 76 0.00% 40 83 0.00% 41 87 0.00% 42 87 0.00% 43 120 0.00% 44 131 0.00% 45 206 0.00% 46 244 0.00% 47 275 0.00% 48 286 0.00% 49 299 0.00% 50 370 0.00% 51 363 0.00% 52 488 0.00% 53 433 0.00% 54 492 0.00% 55 507 0.00% 56 627 0.00% 57 636 0.00% 58 726 0.00% 59 731 0.00% 60 880 0.00% 61 988 0.01% 62 1095 0.01% 63 1163 0.01% 64 1409 0.01% 65 2001 0.01% 66 2346 0.01% 67 2957 0.02% 68 5257 0.03% 69 21053 0.11% 70 22042 0.11% 71 12411 0.06% 72 7167 0.04% 73 5251 0.03% 74 5158 0.03% 75 5316 0.03% 76 5840 0.03% 77 6292 0.03% 78 6736 0.03% 79 7532 0.04% 80 8100 0.04% 81 8914 0.05% 82 10417 0.05% 83 11647 0.06% 84 14916 0.08% 85 17487 0.09% 86 19508 0.10% 87 23018 0.12% 88 24830 0.13% 89 25504 0.13% 90 26392 0.14% 91 26007 0.13% 92 27374 0.14% 93 28730 0.15% 94 30279 0.16% 95 31646 0.16% 96 32703 0.17% 97 34833 0.18% 98 35647 0.18% 99 37860 0.20% 100 39986 0.21% 101 42731 0.22% 102 43630 0.23% 103 45333 0.23% 104 48494 0.25% 105 51233 0.26% 106 54000 0.28% 107 56141 0.29% 108 57842 0.30% 109 57810 0.30% 110 58336 0.30% 111 61375 0.32% 112 63977 0.33% 113 69199 0.36% 114 74618 0.38% 115 77934 0.40% 116 77356 0.40% 117 77060 0.40% 118 77389 0.40% 119 77493 0.40% 120 81427 0.42% 121 81002 0.42% 122 83697 0.43% 123 87196 0.45% 124 89788 0.46% 125 91188 0.47% 126 94918 0.49% 127 97179 0.50% 128 95056 0.49% 129 99574 0.51% 130 99186 0.51% 131 99750 0.51% 132 104517 0.54% 133 107310 0.55% 134 108932 0.56% 135 110020 0.57% 136 112510 0.58% 137 115361 0.59% 138 120775 0.62% 139 126926 0.65% 140 131694 0.68% 141 133906 0.69% 142 149799 0.77% 143 157364 0.81% 144 169526 0.87% 145 193599 1.00% 146 226796 1.17% 147 284508 1.47% 148 405632 2.09% 149 794264 4.10% 150 4010185 20.68% 151 8906076 45.93% 19388572 reads passed initial QC criterion=sequence-density sequence-density=0.66 sequence-density-rank=1 fanout-score=21.50 fanout-score-rank=3 prefix-density=7.27 prefix-fanout=1.9 sequence=TTCGTTTTTTTTCTTG criterion=fanout-score sequence-density=0.01 sequence-density-rank=38 fanout-score=851.43 fanout-score-rank=1 prefix-density=5.06 prefix-fanout=1.0 sequence=ATATTCTTTTACAAAATATACTTATCTTAATATGTATAACCGGAGTTTATATTACATGCCCCTCTCCCAACGATAGTTGTAGTACTCTTATAATAGTAGTACTCATGAATACAGTTAATCCGGGTTGTTGGGAGAGATCACATGCATAAATACAACATGAAACAAACGTGTGAAAAAGGTACATAAAATCGGTGTGACCCGTTCTTGTATTATAAGAAATCAACTTGCTTAGGCCTTGCCGGACTCCTC criterion=sequence-density sequence-density=1.19 sequence-density-rank=1 fanout-score=4.67 fanout-score-rank=12 prefix-density=5.52 prefix-fanout=1.0 sequence=CAAGAAAAAAAACGAA criterion=fanout-score sequence-density=0.11 sequence-density-rank=19 fanout-score=88.39 fanout-score-rank=1 prefix-density=10.11 prefix-fanout=1.0 sequence=GGTTTTCAAAAA SRR5578515 testing PE reads STAR mapping to Ensembl genome Started job on | Dec 09 21:57:25 Started mapping on | Dec 09 21:57:25 Finished on | Dec 09 22:41:02 Mapping speed, Million of reads per hour | 26.67 Number of input reads | 19388572 Average input read length | 287 UNIQUE READS: Uniquely mapped reads number | 7057276 Uniquely mapped reads % | 36.40% Average mapped length | 284.48 Number of splices: Total | 4521283 Number of splices: Annotated (sjdb) | 4199214 Number of splices: GT/AG | 4455493 Number of splices: GC/AG | 55549 Number of splices: AT/AC | 4800 Number of splices: Non-canonical | 5441 Mismatch rate per base, % | 0.11% Deletion rate per base | 0.01% Deletion average length | 1.46 Insertion rate per base | 0.00% Insertion average length | 1.12 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 235100 % of reads mapped to multiple loci | 1.21% Number of reads mapped to too many loci | 70008 % of reads mapped to too many loci | 0.36% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 60.42% % of reads unmapped: other | 1.61% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 12107661 12107661 12107661 N_multimapping 235100 235100 235100 N_noFeature 275566 6819132 337266 N_ambiguous 199435 848 24149 UnstrandedReadsAssigned:6582275 PositiveStrandReadsAssigned:237296 NegativeStrandReadsAssigned:6695861 Dataset is classified negative stranded MeadianReadLen=151 20thPercentileLength=142 echo kmer=137 SRR5578515 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: SRR5578515-trimmed-pair1.fastq SRR5578515-trimmed-pair2.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 19,388,572 reads, 6,785,297 reads pseudoaligned [quant] estimated average fragment length: 198.963 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,114 rounds 52973 SRR5578515.ke.tsv 35125 SRR5578515.se.tsv 88098 total ==> SRR5578515.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 738.158 0 0 PNS24247 1044 846.037 0 0 PNS24249 1928 1730.04 21.5937 2.22006 PNS24246 1044 846.037 0 0 PNS24248 1044 846.037 0 0 PNS24244 1471 1273.04 107.406 15.0065 PNS24243 293 117.195 0 0 KQK14069 1603 1405.04 499.669 63.2537 KQK14071 474 280.954 0 0 ==> SRR5578515.se.tsv <== BRADI_1g14170v3 505 BRADI_1g53295v3 822 BRADI_1g59795v3 257 BRADI_1g07683v3 0 BRADI_1g00485v3 10 BRADI_1g20270v3 315 BRADI_1g74790v3 29 BRADI_1g09890v3 1 BRADI_1g77505v3 97 BRADI_1g48960v3 0 SRR5578515 completed mapping pipeline successfully