Starting /dee2/code/volunteer_pipeline.sh SRR5423444 current disk space = 3051188822016 free memory = 1572756844 SRR5423444 SRAfilesize c07e8725cd193bef44005abebffced54 SRR5423444.sra SRR5423444.sra file validated SRR5423444 is single end SRR5423444 is conventional basespace SRR5423444 read1 length is 52 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5423444_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 31.49575 31.0 31.0 34.0 30.0 34.0 2 31.4085 31.0 31.0 34.0 28.0 34.0 3 31.53125 31.0 31.0 34.0 28.0 34.0 4 35.2365 37.0 35.0 37.0 32.0 37.0 5 35.0765 37.0 35.0 37.0 32.0 37.0 6 35.02475 37.0 35.0 37.0 32.0 37.0 7 34.97275 36.0 35.0 37.0 32.0 37.0 8 34.93675 37.0 35.0 37.0 32.0 37.0 9 36.319 38.0 35.0 39.0 32.0 39.0 10 36.2895 38.0 35.0 39.0 32.0 39.0 11 36.546 38.0 35.0 39.0 32.0 39.0 12 36.51075 38.0 35.0 39.0 32.0 39.0 13 35.85075 38.0 35.0 39.0 30.0 39.0 14 36.9595 39.0 36.0 40.0 31.0 41.0 15 37.28225 39.0 36.0 40.0 32.0 41.0 16 37.2025 39.0 36.0 40.0 31.0 41.0 17 37.519 39.0 36.0 40.0 32.0 41.0 18 37.4765 39.0 36.0 40.0 32.0 41.0 19 37.49775 39.0 36.0 40.0 32.0 41.0 20 37.22775 39.0 36.0 40.0 31.0 41.0 21 37.26425 39.0 36.0 40.0 31.0 41.0 22 37.33175 39.0 36.0 40.0 32.0 41.0 23 37.31475 39.0 36.0 40.0 32.0 41.0 24 37.4105 39.0 36.0 41.0 32.0 41.0 25 37.24025 39.0 36.0 40.0 31.0 41.0 26 36.837 39.0 36.0 40.0 30.0 41.0 27 37.14375 39.0 36.0 40.0 31.0 41.0 28 36.9815 39.0 36.0 40.0 30.0 41.0 29 36.97875 39.0 36.0 40.0 31.0 41.0 30 37.14275 39.0 36.0 40.0 31.0 41.0 31 36.85125 39.0 36.0 40.0 30.0 41.0 32 36.78425 39.0 36.0 40.0 30.0 41.0 33 36.949 39.0 36.0 40.0 30.0 41.0 34 37.013 39.0 36.0 40.0 30.0 41.0 35 36.84025 39.0 36.0 40.0 30.0 41.0 36 36.90425 39.0 36.0 40.0 30.0 41.0 37 36.633 39.0 35.0 40.0 30.0 41.0 38 36.86375 39.0 36.0 40.0 30.0 41.0 39 36.74725 39.0 35.0 40.0 30.0 41.0 40 36.6615 39.0 35.0 40.0 30.0 41.0 41 36.7835 39.0 35.0 40.0 30.0 41.0 42 36.66775 39.0 35.0 40.0 30.0 41.0 43 36.48125 38.0 35.0 40.0 30.0 41.0 44 36.38275 38.0 35.0 40.0 30.0 41.0 45 36.31325 38.0 35.0 40.0 30.0 41.0 46 36.141 38.0 35.0 40.0 29.0 41.0 47 36.30175 38.0 35.0 40.0 30.0 41.0 48 35.914 38.0 34.0 40.0 28.0 41.0 49 35.77575 38.0 34.0 40.0 27.0 41.0 50 35.882 38.0 34.0 40.0 28.0 41.0 51 35.85575 38.0 34.0 40.0 28.0 41.0 52 35.051 37.0 33.0 40.0 26.0 41.0 >>END_MODULE >>Per tile sequence quality pass #Tile Base Mean 2316 1 0.0 2316 2 0.0 2316 3 0.0 2316 4 0.0 2316 5 0.0 2316 6 0.0 2316 7 0.0 2316 8 0.0 2316 9 0.0 2316 10 0.0 2316 11 0.0 2316 12 0.0 2316 13 0.0 2316 14 0.0 2316 15 0.0 2316 16 0.0 2316 17 0.0 2316 18 0.0 2316 19 0.0 2316 20 0.0 2316 21 0.0 2316 22 0.0 2316 23 0.0 2316 24 0.0 2316 25 0.0 2316 26 0.0 2316 27 0.0 2316 28 0.0 2316 29 0.0 2316 30 0.0 2316 31 0.0 2316 32 0.0 2316 33 0.0 2316 34 0.0 2316 35 0.0 2316 36 0.0 2316 37 0.0 2316 38 0.0 2316 39 0.0 2316 40 0.0 2316 41 0.0 2316 42 0.0 2316 43 0.0 2316 44 0.0 2316 45 0.0 2316 46 0.0 2316 47 0.0 2316 48 0.0 2316 49 0.0 2316 50 0.0 2316 51 0.0 2316 52 0.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 19 2.0 20 1.0 21 1.0 22 3.0 23 3.0 24 13.0 25 17.0 26 29.0 27 42.0 28 50.0 29 88.0 30 115.0 31 138.0 32 158.0 33 200.0 34 245.0 35 348.0 36 410.0 37 518.0 38 710.0 39 908.0 40 1.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 36.83420855213804 10.877719429857464 5.401350337584396 46.88672168042011 2 21.75 13.900000000000002 36.875 27.474999999999998 3 20.95 18.6 22.85 37.6 4 26.450000000000003 25.25 19.825 28.475 5 23.275000000000002 31.275 24.6 20.849999999999998 6 19.400000000000002 33.0 24.224999999999998 23.375 7 15.225 22.625 43.15 19.0 8 16.85 23.225 31.574999999999996 28.349999999999998 9 17.675 21.349999999999998 33.15 27.825 10 17.125 37.75 25.124999999999996 20.0 11 21.675 29.25 21.775 27.3 12 21.725 24.45 25.474999999999998 28.349999999999998 13 19.900000000000002 27.750000000000004 27.975 24.375 14 20.1 28.4 27.125 24.375 15 20.0 27.750000000000004 27.474999999999998 24.775 16 19.475 27.825 27.05 25.650000000000002 17 21.224999999999998 27.575 26.950000000000003 24.25 18 19.975 28.15 25.650000000000002 26.224999999999998 19 21.6 27.450000000000003 26.0 24.95 20 20.599999999999998 27.625 26.424999999999997 25.35 21 20.125 26.650000000000002 26.125 27.1 22 19.05 28.549999999999997 26.924999999999997 25.474999999999998 23 21.85 27.925 26.55 23.674999999999997 24 20.575 27.125 27.125 25.174999999999997 25 22.85 26.575 24.875 25.7 26 21.6 26.424999999999997 26.474999999999998 25.5 27 20.8 27.150000000000002 26.224999999999998 25.825 28 21.725 28.275 25.85 24.15 29 21.125 28.875 26.5 23.5 30 21.349999999999998 25.8 26.174999999999997 26.674999999999997 31 20.8 27.925 27.0 24.275 32 21.9 26.224999999999998 26.900000000000002 24.975 33 20.200000000000003 27.800000000000004 27.150000000000002 24.85 34 21.575 27.725 25.45 25.25 35 19.925 27.625 25.324999999999996 27.125 36 21.3 27.775 24.25 26.674999999999997 37 21.05 27.325 25.174999999999997 26.450000000000003 38 22.525000000000002 26.3 24.425 26.75 39 20.724999999999998 25.45 26.125 27.700000000000003 40 20.525 27.950000000000003 25.7 25.825 41 21.475 26.424999999999997 25.575 26.525 42 20.575 26.55 25.374999999999996 27.500000000000004 43 21.525 27.800000000000004 25.374999999999996 25.3 44 22.650000000000002 26.85 25.674999999999997 24.825 45 20.275000000000002 26.1 26.25 27.375 46 22.175 26.424999999999997 26.5 24.9 47 23.400000000000002 26.924999999999997 24.375 25.3 48 22.400000000000002 25.775 24.6 27.224999999999998 49 21.975 27.425 24.65 25.95 50 22.875 26.224999999999998 25.650000000000002 25.25 51 21.525 25.85 25.775 26.85 52 22.5 26.55 24.975 25.974999999999998 >>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 0.0 11 1.0 12 2.0 13 1.0 14 1.0 15 2.0 16 3.0 17 4.0 18 5.5 19 7.0 20 7.0 21 7.0 22 8.5 23 10.0 24 13.5 25 17.0 26 19.5 27 22.0 28 33.0 29 44.0 30 46.0 31 48.0 32 66.0 33 84.0 34 96.0 35 108.0 36 143.0 37 178.0 38 205.0 39 241.5 40 251.0 41 259.0 42 267.0 43 283.0 44 299.0 45 310.5 46 322.0 47 320.0 48 318.0 49 313.0 50 308.0 51 326.0 52 344.0 53 323.0 54 302.0 55 265.5 56 229.0 57 214.5 58 200.0 59 169.5 60 139.0 61 121.5 62 104.0 63 76.5 64 42.0 65 35.0 66 31.0 67 27.0 68 22.5 69 18.0 70 11.0 71 4.0 72 6.0 73 8.0 74 5.5 75 3.0 76 4.0 77 5.0 78 2.5 79 0.0 80 0.0 81 0.0 82 1.0 83 2.0 84 1.5 85 1.0 86 0.5 87 0.0 88 0.0 89 0.0 90 0.0 91 0.0 92 0.0 93 0.0 94 0.0 95 0.0 96 0.0 97 0.0 98 0.0 99 0.0 100 0.0 >>END_MODULE >>Per base N content pass #Base N-Count 1 0.025 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 89.14999999999999 #Duplication Level Percentage of deduplicated Percentage of total 1 94.22321929332585 84.0 2 3.3370723499719577 5.949999999999999 3 1.065619742007852 2.85 4 0.4206393718452047 1.5 5 0.3925967470555244 1.7500000000000002 6 0.16825574873808188 0.8999999999999999 7 0.056085249579360626 0.35000000000000003 8 0.2243409983174425 1.6 9 0.056085249579360626 0.44999999999999996 >10 0.056085249579360626 0.65 >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 GGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCGA 15 0.375 No Hit CGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGC 11 0.27499999999999997 No Hit CTCGTATTTTCCCCTCTGCCTCGGGTTGTCTCGCGATACCTTCTACAGCTTG 9 0.22499999999999998 No Hit GTGCATAAGGATGTTGTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTA 9 0.22499999999999998 No Hit CGCAGAAGTAGGAATAATGGCACCAGAAATGATATTGTTTCCATAAAGTAGA 8 0.2 No Hit GTCCCTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAAC 8 0.2 No Hit GTCGCGTATTTAAGTCGTCTGCAAAGGATTCTACCCGCCGCTCGGTGGGAAT 8 0.2 No Hit GTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCG 8 0.2 No Hit CTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGAGGCATCCCA 8 0.2 No Hit GTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCGATG 8 0.2 No Hit GTCGTCTGCAAAGGATTCTACCCGCCGCTCGGTGGGAATTGTACTTCAAGGC 8 0.2 No Hit CTCAGCCTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGAGGC 8 0.2 No Hit GGTCGGTCCGCGACCCCTGGATGCCGAAGGCGTCCTTGGGGCGATCTCGTAG 7 0.17500000000000002 No Hit CCCGTCGCGTATTTAAGTCGTCTGCAAAGGATTCTACCCGCCGCTCGGTGGG 7 0.17500000000000002 No Hit CCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTG 6 0.15 No Hit GCAAAGGATTCTACCCGCCGCTCGGTGGGAATTGTACTTCAAGGCGGCCCGC 6 0.15 No Hit CCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACT 6 0.15 No Hit CGCCGAATACACCAGCTACGCCTAACATGTGAAATGGGTGCATAAGGATGTT 6 0.15 No Hit CTCGTACACACTAAGAAAAAAGCCTTATCCATTTACAAAAGTCTTATCCATT 6 0.15 No Hit ATCAAACTAGAGGTTACCAAAGAACCATGCATAGCACTGAATAGGGAGCCGC 6 0.15 No Hit CAGGGCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAG 5 0.125 No Hit CTCGGGTCCTAGAAGTGCATGATAAATACCGCCAAAGCCCAATACTGCAGAG 5 0.125 No Hit CGCGTATTTAAGTCGTCTGCAAAGGATTCTACCCGCCGCTCGGTGGGAATTG 5 0.125 No Hit GCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAGATCACGTCCCTCA 5 0.125 No Hit GTCCCTTATAACGATCAAGACTGGTAAGCCCGTCGGTCCACACAGTTGTCCA 5 0.125 No Hit CTGCAAAGGATTCTACCCGCCGCTCGGTGGGAATTGTACTTCAAGGCGGCCC 5 0.125 No Hit GTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGA 5 0.125 No Hit CCAGCAACGGGCTCGATGTCGTAGCATCGTCCCTTATAACGATCAAGACTGG 5 0.125 No Hit GGGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCG 5 0.125 No Hit CTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAACGGCA 5 0.125 No Hit CTCCAGCAACGGGCTCGATGTCGTAGCATCGTCCCTTATAACGATCAAGACT 5 0.125 No Hit GTTAAAACTAGCATATTGGAAGATCAATCGGCCAAAATAACCATGAGCGGCT 5 0.125 No Hit GCCGAATACACCAGCTACGCCTAACATGTGAAATGGGTGCATAAGGATGTTG 5 0.125 No Hit GCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAGATCA 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 6988 spots for SRR5423444.sra Written 6988 spots for SRR5423444.sra Read 6988 spots for SRR5423444.sra Written 6988 spots for SRR5423444.sra Read 6988 spots for SRR5423444.sra Written 6988 spots for SRR5423444.sra Read 6988 spots for SRR5423444.sra Written 6988 spots for SRR5423444.sra Read 6988 spots for SRR5423444.sra Written 6988 spots for SRR5423444.sra Read 6988 spots for SRR5423444.sra Written 6988 spots for SRR5423444.sra Read 6988 spots for SRR5423444.sra Written 6988 spots for SRR5423444.sra Read 6988 spots for SRR5423444.sra Written 6988 spots for SRR5423444.sra Read 6988 spots for SRR5423444.sra Written 6988 spots for SRR5423444.sra Read 6988 spots for SRR5423444.sra Written 6988 spots for SRR5423444.sra Read 6988 spots for SRR5423444.sra Written 6988 spots for SRR5423444.sra Read 6988 spots for SRR5423444.sra Written 6988 spots for SRR5423444.sra Read 6988 spots for SRR5423444.sra Written 6988 spots for SRR5423444.sra Read 6988 spots for SRR5423444.sra Written 6988 spots for SRR5423444.sra Read 7007 spots for SRR5423444.sra Written 7007 spots for SRR5423444.sra Read 6988 spots for SRR5423444.sra Written 6988 spots for SRR5423444.sra Read 6988 spots for SRR5423444.sra Written 6988 spots for SRR5423444.sra Read 6988 spots for SRR5423444.sra Written 6988 spots for SRR5423444.sra Read 6988 spots for SRR5423444.sra Written 6988 spots for SRR5423444.sra Read 6988 spots for SRR5423444.sra Written 6988 spots for SRR5423444.sra SRR ids: ['SRR5423444.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_zbvc5r1g SRR5423444.sra spots: 139779 blocks: [[1, 6988], [6989, 13976], [13977, 20964], [20965, 27952], [27953, 34940], [34941, 41928], [41929, 48916], [48917, 55904], [55905, 62892], [62893, 69880], [69881, 76868], [76869, 83856], [83857, 90844], [90845, 97832], [97833, 104820], [104821, 111808], [111809, 118796], [118797, 125784], [125785, 132772], [132773, 139779]] SRR5423444 file size 24405 SRR5423444 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 SRR5423444 SRR5423444_1.fastq Input file: SRR5423444_1.fastq trimmed: SRR5423444-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 Wed Feb 12 13:13:08 2025 >> started Wed Feb 12 13:13:08 2025 >> done (0.101s) 139779 reads processed; of these: 7 ( 0.01%) short reads filtered out after trimming by size control 7 ( 0.01%) empty reads filtered out after trimming by size control 139765 (99.99%) reads available; of these: 2891 ( 2.07%) trimmed reads available after processing 136874 (97.93%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 20 2 0.00% 21 0 0.00% 22 0 0.00% 23 0 0.00% 24 0 0.00% 25 0 0.00% 26 0 0.00% 27 0 0.00% 28 0 0.00% 29 0 0.00% 30 0 0.00% 31 0 0.00% 32 1 0.00% 33 0 0.00% 34 0 0.00% 35 0 0.00% 36 0 0.00% 37 0 0.00% 38 1 0.00% 39 0 0.00% 40 2 0.00% 41 3 0.00% 42 1 0.00% 43 6 0.00% 44 3 0.00% 45 2 0.00% 46 3 0.00% 47 25 0.02% 48 35 0.03% 49 89 0.06% 50 357 0.26% 51 2361 1.69% 52 136874 97.93% 139765 reads passed initial QC criterion=sequence-density sequence-density=0.28 sequence-density-rank=1 fanout-score=1.89 fanout-score-rank=7 prefix-density=0.54 prefix-fanout=1.0 sequence=TGCAAGTGCAGCCAGTACCGCAGTTGCACTTGCC criterion=fanout-score sequence-density=0.19 sequence-density-rank=5 fanout-score=6.24 fanout-score-rank=1 prefix-density=0.78 prefix-fanout=1.6 sequence=ACGTGCTTAATACGTGCTTAA Started job on | Feb 12 13:13:16 Started mapping on | Feb 12 13:13:16 Finished on | Feb 12 13:13:19 Mapping speed, Million of reads per hour | 167.72 Number of input reads | 139765 Average input read length | 51 UNIQUE READS: Uniquely mapped reads number | 109527 Uniquely mapped reads % | 78.37% Average mapped length | 51.74 Number of splices: Total | 10288 Number of splices: Annotated (sjdb) | 10129 Number of splices: GT/AG | 10037 Number of splices: GC/AG | 197 Number of splices: AT/AC | 31 Number of splices: Non-canonical | 23 Mismatch rate per base, % | 0.35% Deletion rate per base | 0.01% Deletion average length | 2.23 Insertion rate per base | 0.00% Insertion average length | 1.42 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 23765 % of reads mapped to multiple loci | 17.00% Number of reads mapped to too many loci | 3939 % of reads mapped to too many loci | 2.82% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.80% % of reads unmapped: other | 0.02% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 6473 6473 6473 N_multimapping 23765 23765 23765 N_noFeature 14626 107926 15892 N_ambiguous 698 5 358 UnstrandedReadsAssigned:94203 PositiveStrandReadsAssigned:1596 NegativeStrandReadsAssigned:93277 Dataset is classified negative stranded MeadianReadLen=52 20thPercentileLength=52 echo kmer=47 SRR5423444 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: SRR5423444-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 139,765 reads, 112,967 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 982 rounds 52401 SRR5423444.ke.tsv 34699 SRR5423444.se.tsv 87100 total ==> SRR5423444.ke.tsv <== target_id length eff_length est_counts tpm Potri.005G200100.1.v4.1 2018 1919 5 19.8197 Potri.005G024800.1.v4.1 1035 936 1 8.12692 Potri.004G059700.1.v4.1 961 862 1 8.82459 Potri.007G009000.2.v4.1 1416 1317 0 0 Potri.003G141000.2.v4.1 2943 2844 0 0 Potri.016G087400.1.v4.1 270 171 1 44.4842 Potri.015G069301.1.v4.1 564 465 0 0 Potri.010G195200.1.v4.1 1773 1674 0 0 Potri.012G127500.1.v4.1 977 878 0 0 ==> SRR5423444.se.tsv <== Potri.001G166300.v4.1 0 Potri.001G448400.v4.1 0 Potri.001G233950.v4.1 0 Potri.001G122700.v4.1 0 Potri.001G212900.v4.1 0 Potri.001G182400.v4.1 0 Potri.001G256600.v4.1 0 Potri.001G040500.v4.1 0 Potri.001G416900.v4.1 0 Potri.001G452600.v4.1 0 SRR5423444 completed mapping pipeline successfully