Starting /dee2/code/volunteer_pipeline.sh SRR5423402 current disk space = 3052555542528 free memory = 1576382496 SRR5423402 SRAfilesize 39742793a8d2209a3fc19dbe98525e8b SRR5423402.sra SRR5423402.sra file validated SRR5423402 is single end SRR5423402 is conventional basespace SRR5423402 read1 length is 52 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5423402_1.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 52 %GC 47 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 32.77125 34.0 31.0 34.0 31.0 34.0 2 32.88225 34.0 31.0 34.0 31.0 34.0 3 32.91025 34.0 31.0 34.0 31.0 34.0 4 36.27225 37.0 37.0 37.0 35.0 37.0 5 36.2775 37.0 37.0 37.0 35.0 37.0 6 36.17075 37.0 37.0 37.0 35.0 37.0 7 36.3015 37.0 37.0 37.0 35.0 37.0 8 36.23425 37.0 37.0 37.0 35.0 37.0 9 38.0715 39.0 38.0 39.0 35.0 39.0 10 37.98225 39.0 38.0 39.0 35.0 39.0 11 38.0375 39.0 39.0 39.0 35.0 39.0 12 38.03 39.0 38.0 39.0 35.0 39.0 13 37.94 39.0 38.0 39.0 35.0 39.0 14 39.5075 41.0 39.0 41.0 37.0 41.0 15 39.4635 41.0 39.0 41.0 36.0 41.0 16 39.44125 41.0 39.0 41.0 36.0 41.0 17 39.44975 41.0 39.0 41.0 37.0 41.0 18 39.356 41.0 39.0 41.0 37.0 41.0 19 39.417 41.0 39.0 41.0 37.0 41.0 20 39.44275 41.0 39.0 41.0 36.0 41.0 21 39.43875 41.0 39.0 41.0 37.0 41.0 22 39.37825 41.0 39.0 41.0 36.0 41.0 23 39.38075 41.0 39.0 41.0 36.0 41.0 24 39.26175 41.0 39.0 41.0 36.0 41.0 25 39.254 41.0 39.0 41.0 36.0 41.0 26 39.24675 41.0 39.0 41.0 36.0 41.0 27 39.09325 40.0 39.0 41.0 36.0 41.0 28 39.10625 41.0 39.0 41.0 36.0 41.0 29 39.07375 40.0 39.0 41.0 36.0 41.0 30 38.989 40.0 39.0 41.0 36.0 41.0 31 39.04075 40.0 39.0 41.0 36.0 41.0 32 39.0455 40.0 39.0 41.0 36.0 41.0 33 39.0155 40.0 39.0 41.0 36.0 41.0 34 39.03575 40.0 39.0 41.0 36.0 41.0 35 38.73775 40.0 39.0 41.0 35.0 41.0 36 38.705 40.0 38.0 41.0 35.0 41.0 37 38.709 40.0 38.0 41.0 35.0 41.0 38 38.581 40.0 38.0 41.0 34.0 41.0 39 38.759 40.0 38.0 41.0 35.0 41.0 40 38.6175 40.0 38.0 41.0 35.0 41.0 41 38.737 40.0 38.0 41.0 35.0 41.0 42 38.5335 40.0 38.0 41.0 34.0 41.0 43 38.43525 40.0 38.0 41.0 34.0 41.0 44 38.30775 40.0 38.0 41.0 33.0 41.0 45 38.31475 40.0 38.0 41.0 33.0 41.0 46 38.173 40.0 38.0 41.0 33.0 41.0 47 38.16825 40.0 38.0 41.0 33.0 41.0 48 38.09875 40.0 38.0 41.0 33.0 41.0 49 38.054 40.0 38.0 41.0 33.0 41.0 50 38.0895 40.0 38.0 41.0 33.0 41.0 51 38.02275 40.0 37.0 41.0 33.0 41.0 52 36.67975 39.0 35.0 40.0 30.0 41.0 >>END_MODULE >>Per tile sequence quality pass #Tile Base Mean 1303 1 0.0 1303 2 0.0 1303 3 0.0 1303 4 0.0 1303 5 0.0 1303 6 0.0 1303 7 0.0 1303 8 0.0 1303 9 0.0 1303 10 0.0 1303 11 0.0 1303 12 0.0 1303 13 0.0 1303 14 0.0 1303 15 0.0 1303 16 0.0 1303 17 0.0 1303 18 0.0 1303 19 0.0 1303 20 0.0 1303 21 0.0 1303 22 0.0 1303 23 0.0 1303 24 0.0 1303 25 0.0 1303 26 0.0 1303 27 0.0 1303 28 0.0 1303 29 0.0 1303 30 0.0 1303 31 0.0 1303 32 0.0 1303 33 0.0 1303 34 0.0 1303 35 0.0 1303 36 0.0 1303 37 0.0 1303 38 0.0 1303 39 0.0 1303 40 0.0 1303 41 0.0 1303 42 0.0 1303 43 0.0 1303 44 0.0 1303 45 0.0 1303 46 0.0 1303 47 0.0 1303 48 0.0 1303 49 0.0 1303 50 0.0 1303 51 0.0 1303 52 0.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 21 2.0 22 5.0 23 3.0 24 3.0 25 10.0 26 7.0 27 24.0 28 22.0 29 22.0 30 38.0 31 52.0 32 42.0 33 73.0 34 112.0 35 125.0 36 196.0 37 310.0 38 621.0 39 2319.0 40 14.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 29.611041405269763 9.284818067754077 7.277289836888332 53.826850690087824 2 21.125 13.725000000000001 36.575 28.575 3 21.575 16.475 22.05 39.900000000000006 4 25.4 24.75 19.400000000000002 30.45 5 24.675 30.4 23.5 21.425 6 18.575 32.75 25.374999999999996 23.3 7 15.35 24.7 39.85 20.1 8 19.125 23.025000000000002 30.375000000000004 27.474999999999998 9 18.025 21.9 33.800000000000004 26.275 10 18.325 37.9 24.05 19.725 11 23.075000000000003 29.5 20.875 26.55 12 21.425 24.85 25.224999999999998 28.499999999999996 13 19.35 28.050000000000004 26.625 25.974999999999998 14 20.974999999999998 28.025 26.400000000000002 24.6 15 22.45 26.25 27.250000000000004 24.05 16 20.45 28.849999999999998 25.424999999999997 25.275 17 21.275 27.675 27.425 23.625 18 21.349999999999998 27.0 27.575 24.075 19 20.424999999999997 28.075 25.825 25.674999999999997 20 22.8 26.424999999999997 25.25 25.525 21 20.424999999999997 27.200000000000003 26.3 26.075 22 21.5 28.325 24.075 26.1 23 21.775 27.500000000000004 25.724999999999998 25.0 24 21.425 27.3 24.975 26.3 25 21.025 28.15 25.624999999999996 25.2 26 22.25 27.925 25.624999999999996 24.2 27 21.75 26.724999999999998 26.075 25.45 28 20.424999999999997 27.675 28.050000000000004 23.849999999999998 29 20.775 26.700000000000003 28.199999999999996 24.325 30 20.9 26.150000000000002 25.85 27.1 31 20.599999999999998 28.425 26.35 24.625 32 22.05 26.900000000000002 25.324999999999996 25.724999999999998 33 20.3 26.3 26.450000000000003 26.950000000000003 34 20.4 28.000000000000004 25.900000000000002 25.7 35 21.525 27.200000000000003 24.725 26.55 36 19.900000000000002 27.175 26.200000000000003 26.724999999999998 37 20.275000000000002 26.075 27.175 26.474999999999998 38 21.9 25.95 24.75 27.400000000000002 39 20.525 25.650000000000002 26.950000000000003 26.875 40 20.625 27.250000000000004 27.025 25.1 41 20.875 28.15 25.025 25.95 42 22.15 25.35 25.474999999999998 27.025 43 22.225 26.974999999999998 25.825 24.975 44 22.95 26.85 26.0 24.2 45 22.975 25.45 25.7 25.874999999999996 46 22.325 28.449999999999996 24.05 25.174999999999997 47 22.95 27.975 24.6 24.474999999999998 48 20.45 26.75 26.075 26.724999999999998 49 21.85 25.95 25.525 26.674999999999997 50 21.575 27.450000000000003 24.8 26.174999999999997 51 23.549999999999997 25.900000000000002 24.275 26.275 52 22.55 27.400000000000002 25.25 24.8 >>END_MODULE >>Per sequence GC content warn #GC Content Count 0 0.0 1 0.0 2 0.0 3 0.0 4 0.0 5 0.0 6 0.0 7 0.0 8 0.0 9 0.0 10 0.0 11 0.0 12 0.0 13 0.0 14 1.0 15 2.0 16 2.0 17 2.0 18 4.0 19 6.0 20 6.0 21 6.0 22 9.5 23 13.0 24 12.5 25 12.0 26 16.5 27 21.0 28 25.0 29 29.0 30 40.0 31 51.0 32 64.0 33 77.0 34 88.5 35 100.0 36 130.0 37 160.0 38 198.0 39 232.0 40 228.0 41 257.0 42 286.0 43 278.0 44 270.0 45 279.0 46 288.0 47 324.0 48 360.0 49 356.0 50 352.0 51 359.5 52 367.0 53 362.0 54 357.0 55 288.5 56 220.0 57 192.0 58 164.0 59 153.0 60 142.0 61 120.5 62 99.0 63 77.5 64 48.0 65 40.0 66 36.0 67 32.0 68 22.5 69 13.0 70 9.0 71 5.0 72 3.5 73 2.0 74 2.0 75 2.0 76 1.5 77 1.0 78 1.0 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 0.375 2 0.0 3 0.0 4 0.0 5 0.0 6 0.0 7 0.0 8 0.0 9 0.0 10 0.0 11 0.0 12 0.0 13 0.0 14 0.0 15 0.0 16 0.0 17 0.0 18 0.0 19 0.0 20 0.0 21 0.0 22 0.0 23 0.0 24 0.0 25 0.0 26 0.0 27 0.0 28 0.0 29 0.0 30 0.0 31 0.0 32 0.0 33 0.0 34 0.0 35 0.0 36 0.0 37 0.0 38 0.0 39 0.0 40 0.0 41 0.0 42 0.0 43 0.0 44 0.0 45 0.0 46 0.0 47 0.0 48 0.0 49 0.0 50 0.0 51 0.0 52 0.0 >>END_MODULE >>Sequence Length Distribution pass #Length Count 52 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 85.32499999999999 #Duplication Level Percentage of deduplicated Percentage of total 1 92.49926750659245 78.925 2 4.2484617638441255 7.249999999999999 3 1.4063873425139173 3.5999999999999996 4 0.5566949897450924 1.9 5 0.41019630823322595 1.7500000000000002 6 0.17579841781423966 0.8999999999999999 7 0.2929973630237328 1.7500000000000002 8 0.11719894520949312 0.8 9 0.02929973630237328 0.22499999999999998 >10 0.2636976267213595 2.9000000000000004 >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 CGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGC 18 0.44999999999999996 No Hit CCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACT 17 0.42500000000000004 No Hit CTCGTATTTTCCCCTCTGCCTCGGGTTGTCTCGCGATACCTTCTACAGCTTG 14 0.35000000000000003 No Hit GGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCGA 14 0.35000000000000003 No Hit CGCAGAAGTAGGAATAATGGCACCAGAAATGATATTGTTTCCATAAAGTAGA 11 0.27499999999999997 No Hit CCAGCAACGGGCTCGATGTCGTAGCATCGTCCCTTATAACGATCAAGACTGG 11 0.27499999999999997 No Hit CTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAACGGCA 11 0.27499999999999997 No Hit CTCACGAGCAAGATCACGTCCCTCATTACGAGCTTGTACACATGCTTCTAGA 10 0.25 No Hit CTCCAGCAACGGGCTCGATGTCGTAGCATCGTCCCTTATAACGATCAAGACT 10 0.25 No Hit GTCCGCGACCCCTGGATGCCGAAGGCGTCCTTGGGGCGATCTCGTAGTTCCT 9 0.22499999999999998 No Hit CCCTGATCAAACTAGAGGTTACCAAAGAACCATGCATAGCACTGAATAGGGA 8 0.2 No Hit GCTGGTTTTAAGAATGAGTGATTGCCCTTCTCCGACCCTTACTGCCCAACCT 8 0.2 No Hit CCCGGTTCGAACAGGAGAAGTACGCCATGCTAATGTGCCTTGGATGATCCAC 8 0.2 No Hit CTCTGCCTCGGGTTGTCTCGCGATACCTTCTACAGCTTGGCCCGCAGCAGTA 8 0.2 No Hit CCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCCCT 7 0.17500000000000002 No Hit CTTCCATACTTCACAAGCAGCAGCTAGTTCAGGGCTCCATTTGCTAGCTTCA 7 0.17500000000000002 No Hit CACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCCCTG 7 0.17500000000000002 No Hit CCTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAACGGC 7 0.17500000000000002 No Hit CCCGAACACAGCTTACAACTTTCATCGTACTGTGCTCTCCAAAGAGCAACTC 7 0.17500000000000002 No Hit CTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGAGGCATCCCA 7 0.17500000000000002 No Hit GGGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCG 7 0.17500000000000002 No Hit GTCCTAGAAGTGCATGATAAATACCGCCAAAGCCCAATACTGCAGAGGAAAT 7 0.17500000000000002 No Hit CTCGTACACACTAAGAAAAAAGCCTTATCCATTTACAAAAGTCTTATCCATT 7 0.17500000000000002 No Hit CTCGATTAGCAACGGCACCGGGTGCATTTCCCCAAGGGTGCCCTAAAGTTCC 7 0.17500000000000002 No Hit GTCCCTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAAC 6 0.15 No Hit CTTAAGAATGCTGGTTTTAAGAATGAGTGATTGCCCTTCTCCGACCCTTACT 6 0.15 No Hit CCCTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAACGG 6 0.15 No Hit CTCTTGACCAAATCTGTAACCTTCATTAGCAGATTCATTTTCTGTGGTTTCC 6 0.15 No Hit GCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAGATCA 6 0.15 No Hit CTCAGCCTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGAGGC 6 0.15 No Hit GGTGCATAAGGATGTTGTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGT 5 0.125 No Hit CGCGTATTTAAGTCGTCTGCAAAGGATTCTACCCGCCGCTCGGTGGGAATTG 5 0.125 No Hit CTCATAAGGACCGCCGTTGTATAACCATTCATCAACGGATGCCGCTTCCCAT 5 0.125 No Hit GCCGCCGCAACAGGAGCTGAATATGCAACAGCAATCCAAGGACGCATACCCA 5 0.125 No Hit CTGCAAAGGATTCTACCCGCCGCTCGGTGGGAATTGTACTTCAAGGCGGCCC 5 0.125 No Hit GTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGA 5 0.125 No Hit CCTCTGCCTCGGGTTGTCTCGCGATACCTTCTACAGCTTGGCCCGCAGCAGT 5 0.125 No Hit GTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCC 5 0.125 No Hit GGGCGATCTCGTAGTTCCTACGGGGTGGAGACGATGGGGTCGGTCCATGGAT 5 0.125 No Hit GTGCATAAGGATGTTGTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTA 5 0.125 No Hit CCGCATTTCGCTAAAGGGTTGAAGGAGGATAGTGCATCAAGCTGTTCGCAAG 5 0.125 No Hit GCCCCATCTATCCTCCTGAGGAGAAGTTTGGTTTCAAACCCCGGTTCGAACA 5 0.125 No Hit GGGGGCTCACCAGAGAACGGGCCCAAGTATTTAACACGGTCTGGTCCGTACC 5 0.125 No Hit CGCCTAACATGTGAAATGGGTGCATAAGGATGTTGTGCTCAGCCTGGAATAC 5 0.125 No Hit >>END_MODULE >>Adapter Content pass #Position Illumina Universal Adapter Illumina Small RNA 3' Adapter Illumina Small RNA 5' Adapter Nextera Transposase Sequence SOLID Small RNA Adapter 1 0.0 0.0 0.0 0.0 0.0 2 0.0 0.0 0.0 0.0 0.0 3 0.0 0.0 0.0 0.0 0.0 4 0.0 0.0 0.0 0.0 0.0 5 0.0 0.0 0.0 0.0 0.0 6 0.0 0.0 0.0 0.0 0.0 7 0.0 0.0 0.0 0.0 0.0 8 0.0 0.0 0.0 0.0 0.0 9 0.0 0.0 0.0 0.0 0.0 10 0.0 0.0 0.0 0.0 0.0 11 0.0 0.0 0.0 0.0 0.0 12 0.0 0.0 0.0 0.0 0.0 13 0.0 0.0 0.0 0.0 0.0 14 0.0 0.0 0.0 0.0 0.0 15 0.0 0.0 0.0 0.0 0.0 16 0.0 0.0 0.0 0.0 0.0 17 0.0 0.0 0.0 0.0 0.0 18 0.0 0.0 0.0 0.0 0.0 19 0.0 0.0 0.0 0.0 0.0 20 0.0 0.0 0.0 0.0 0.0 21 0.0 0.0 0.0 0.0 0.0 22 0.0 0.0 0.0 0.0 0.0 23 0.0 0.0 0.0 0.0 0.0 24 0.0 0.0 0.0 0.0 0.0 25 0.0 0.0 0.0 0.0 0.0 26 0.0 0.0 0.0 0.0 0.0 27 0.0 0.0 0.0 0.0 0.0 28 0.0 0.0 0.0 0.0 0.0 29 0.0 0.0 0.0 0.0 0.0 30 0.0 0.0 0.0 0.0 0.0 31 0.0 0.0 0.0 0.0 0.0 32 0.0 0.0 0.0 0.0 0.0 33 0.0 0.0 0.0 0.0 0.0 34 0.0 0.0 0.0 0.0 0.0 35 0.0 0.0 0.0 0.0 0.0 36 0.0 0.0 0.0 0.0 0.0 37 0.0 0.0 0.0 0.0 0.0 38 0.0 0.0 0.0 0.0 0.0 39 0.0 0.0 0.0 0.0 0.0 40 0.0 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Read 200000 spots for SRR5423402.sra Written 200000 spots for SRR5423402.sra Read 200000 spots for SRR5423402.sra Written 200000 spots for SRR5423402.sra Read 200000 spots for SRR5423402.sra Written 200000 spots for SRR5423402.sra Read 200000 spots for SRR5423402.sra Written 200000 spots for SRR5423402.sra Read 200000 spots for SRR5423402.sra Written 200000 spots for SRR5423402.sra Read 200000 spots for SRR5423402.sra Written 200000 spots for SRR5423402.sra Read 200000 spots for SRR5423402.sra Written 200000 spots for SRR5423402.sra Read 200000 spots for SRR5423402.sra Written 200000 spots for SRR5423402.sra Read 200000 spots for SRR5423402.sra Written 200000 spots for SRR5423402.sra Read 200000 spots for SRR5423402.sra Written 200000 spots for SRR5423402.sra Read 200000 spots for SRR5423402.sra Written 200000 spots for SRR5423402.sra Read 200000 spots for SRR5423402.sra Written 200000 spots for SRR5423402.sra Read 200000 spots for SRR5423402.sra Written 200000 spots for SRR5423402.sra Read 200000 spots for SRR5423402.sra Written 200000 spots for SRR5423402.sra Read 200000 spots for SRR5423402.sra Written 200000 spots for SRR5423402.sra Read 200000 spots for SRR5423402.sra Written 200000 spots for SRR5423402.sra Read 200000 spots for SRR5423402.sra Written 200000 spots for SRR5423402.sra Read 200000 spots for SRR5423402.sra Written 200000 spots for SRR5423402.sra Read 200000 spots for SRR5423402.sra Written 200000 spots for SRR5423402.sra Read 200000 spots for SRR5423402.sra Written 200000 spots for SRR5423402.sra SRR ids: ['SRR5423402.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_qzx5dj1t SRR5423402.sra spots: 4000000 blocks: [[1, 200000], [200001, 400000], [400001, 600000], [600001, 800000], [800001, 1000000], [1000001, 1200000], [1200001, 1400000], [1400001, 1600000], [1600001, 1800000], [1800001, 2000000], [2000001, 2200000], [2200001, 2400000], [2400001, 2600000], [2600001, 2800000], [2800001, 3000000], [3000001, 3200000], [3200001, 3400000], [3400001, 3600000], [3600001, 3800000], [3800001, 4000000]] SRR5423402 file size 703966 SRR5423402 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 SRR5423402 SRR5423402_1.fastq Input file: SRR5423402_1.fastq trimmed: SRR5423402-trimmed.fastq Parameters used: -- 3' end adapter sequence (-x): AGATCGGAAGAGCACACGTCTGAACTCCAGTCAC -- 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 -- minimum overlap length for adapter detection (-k): inf -- number of concurrent threads (-t): 20 Thu Feb 13 05:58:56 2025 >> started Thu Feb 13 05:58:58 2025 >> done (2.787s) 4000000 reads processed; of these: 151 ( 0.00%) short reads filtered out after trimming by size control 45 ( 0.00%) empty reads filtered out after trimming by size control 3999804 (100.00%) reads available; of these: 62184 ( 1.55%) trimmed reads available after processing 3937620 (98.45%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 6 0.00% 19 3 0.00% 20 7 0.00% 21 0 0.00% 22 0 0.00% 23 2 0.00% 24 2 0.00% 25 1 0.00% 26 1 0.00% 27 2 0.00% 28 3 0.00% 29 4 0.00% 30 2 0.00% 31 3 0.00% 32 6 0.00% 33 9 0.00% 34 12 0.00% 35 8 0.00% 36 16 0.00% 37 17 0.00% 38 19 0.00% 39 30 0.00% 40 49 0.00% 41 45 0.00% 42 81 0.00% 43 67 0.00% 44 241 0.01% 45 262 0.01% 46 332 0.01% 47 469 0.01% 48 938 0.02% 49 2697 0.07% 50 7192 0.18% 51 49658 1.24% 52 3937620 98.45% 3999804 reads passed initial QC criterion=sequence-density sequence-density=0.49 sequence-density-rank=1 fanout-score=1.96 fanout-score-rank=23 prefix-density=0.50 prefix-fanout=1.9 sequence=TGAGATGCCTCAGTGCATCCAAACATGGGTAG criterion=fanout-score sequence-density=0.01 sequence-density-rank=27 fanout-score=28.14 fanout-score-rank=1 prefix-density=0.38 prefix-fanout=1.1 sequence=CATTTTATTTCTATCTTTCCATACATAACCAAAAAATGGAAAAGATTCTTCAAGAGTCTCGGGTCCTAGAAGTGCATGATAAATACCGCCAAAGCCCAATACTGCAGAGGAAATTAAGTGAAGTACGCCAGATACAAAGTATGGAAAGGTGTCTATGACTTCCCCGCCAGGACCCACCCCCCAACCTAGAGTAGCTAGGTGGGGAAGTAAAATTAATCCTTGTTCATACATTGGCTTCTCCGGTACGAAATGGGCCACTTCAAATAGGTTCATTGCTCCGGCCCAGAATACGATTAATCCAGCATGGGCTACATGAGCTCCCAGCAG Started job on | Feb 13 05:59:14 Started mapping on | Feb 13 05:59:15 Finished on | Feb 13 06:04:46 Mapping speed, Million of reads per hour | 43.50 Number of input reads | 3999804 Average input read length | 51 UNIQUE READS: Uniquely mapped reads number | 3119838 Uniquely mapped reads % | 78.00% Average mapped length | 51.82 Number of splices: Total | 276515 Number of splices: Annotated (sjdb) | 273151 Number of splices: GT/AG | 268679 Number of splices: GC/AG | 6254 Number of splices: AT/AC | 1081 Number of splices: Non-canonical | 501 Mismatch rate per base, % | 0.29% Deletion rate per base | 0.01% Deletion average length | 2.73 Insertion rate per base | 0.00% Insertion average length | 1.33 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 761687 % of reads mapped to multiple loci | 19.04% Number of reads mapped to too many loci | 56841 % of reads mapped to too many loci | 1.42% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.52% % of reads unmapped: other | 0.01% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 118279 118279 118279 N_multimapping 761687 761687 761687 N_noFeature 405912 3078681 435674 N_ambiguous 22635 162 11090 UnstrandedReadsAssigned:2691291 PositiveStrandReadsAssigned:40995 NegativeStrandReadsAssigned:2673074 Dataset is classified negative stranded MeadianReadLen=52 20thPercentileLength=52 echo kmer=47 SRR5423402 Starting Kallisto single end mapping to ensembl reference transcriptome. kmer=31 [quant] fragment length distribution is truncated gaussian with mean = 100, sd = 20 [index] k-mer length: 31 [index] number of targets: 52,400 [index] number of k-mers: 62,057,036 [index] number of equivalence classes: 130,681 [quant] running in single-end mode [quant] will process file 1: SRR5423402-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 3,999,804 reads, 3,295,899 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,096 rounds 52401 SRR5423402.ke.tsv 34699 SRR5423402.se.tsv 87100 total ==> SRR5423402.ke.tsv <== target_id length eff_length est_counts tpm Potri.005G200100.1.v4.1 2018 1919 71 9.88643 Potri.005G024800.1.v4.1 1035 936 3 0.856449 Potri.004G059700.1.v4.1 961 862 1 0.309991 Potri.007G009000.2.v4.1 1416 1317 0 0 Potri.003G141000.2.v4.1 2943 2844 79.9261 7.50958 Potri.016G087400.1.v4.1 270 171 15 23.4397 Potri.015G069301.1.v4.1 564 465 0 0 Potri.010G195200.1.v4.1 1773 1674 1 0.159625 Potri.012G127500.1.v4.1 977 878 5 1.52171 ==> SRR5423402.se.tsv <== Potri.001G166300.v4.1 0 Potri.001G448400.v4.1 5 Potri.001G233950.v4.1 0 Potri.001G122700.v4.1 25 Potri.001G212900.v4.1 0 Potri.001G182400.v4.1 0 Potri.001G256600.v4.1 0 Potri.001G040500.v4.1 3 Potri.001G416900.v4.1 0 Potri.001G452600.v4.1 0 SRR5423402 completed mapping pipeline successfully