Starting /dee2/code/volunteer_pipeline.sh SRR5423403 current disk space = 3053119700992 free memory = 1579174836 SRR5423403 SRAfilesize ac9a16426f8bef03d52fae7f261f1f99 SRR5423403.sra SRR5423403.sra file validated SRR5423403 is single end SRR5423403 is conventional basespace SRR5423403 read1 length is 52 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5423403_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 31.73525 31.0 31.0 34.0 30.0 34.0 2 31.806 31.0 31.0 34.0 30.0 34.0 3 31.86925 33.0 31.0 34.0 30.0 34.0 4 34.6075 37.0 35.0 37.0 30.0 37.0 5 35.13325 37.0 35.0 37.0 32.0 37.0 6 35.2145 37.0 35.0 37.0 32.0 37.0 7 35.178 37.0 35.0 37.0 32.0 37.0 8 35.10175 37.0 35.0 37.0 32.0 37.0 9 36.753 39.0 37.0 39.0 32.0 39.0 10 36.76175 39.0 37.0 39.0 32.0 39.0 11 36.9135 39.0 37.0 39.0 33.0 39.0 12 36.769 39.0 37.0 39.0 32.0 39.0 13 36.793 39.0 37.0 39.0 32.0 39.0 14 37.9035 40.0 37.0 41.0 32.0 41.0 15 38.1455 40.0 37.0 41.0 33.0 41.0 16 37.9765 40.0 37.0 41.0 33.0 41.0 17 37.90075 40.0 37.0 41.0 33.0 41.0 18 38.045 40.0 37.0 41.0 33.0 41.0 19 38.09875 40.0 37.0 41.0 33.0 41.0 20 38.001 40.0 37.0 41.0 33.0 41.0 21 37.956 40.0 37.0 41.0 32.0 41.0 22 38.0115 40.0 37.0 41.0 33.0 41.0 23 38.06575 40.0 37.0 41.0 33.0 41.0 24 38.2055 40.0 37.0 41.0 34.0 41.0 25 38.195 40.0 37.0 41.0 34.0 41.0 26 38.01025 40.0 37.0 41.0 33.0 41.0 27 38.0075 40.0 37.0 41.0 33.0 41.0 28 38.05275 40.0 37.0 41.0 33.0 41.0 29 38.0 40.0 37.0 41.0 33.0 41.0 30 37.80875 40.0 37.0 41.0 32.0 41.0 31 38.00225 40.0 37.0 41.0 33.0 41.0 32 38.02225 40.0 37.0 41.0 33.0 41.0 33 38.0005 40.0 37.0 41.0 33.0 41.0 34 37.8955 40.0 37.0 41.0 33.0 41.0 35 37.80825 40.0 37.0 41.0 33.0 41.0 36 37.64625 40.0 37.0 41.0 32.0 41.0 37 37.601 40.0 37.0 41.0 32.0 41.0 38 37.37225 39.0 36.0 41.0 31.0 41.0 39 37.4235 40.0 37.0 41.0 31.0 41.0 40 37.358 40.0 36.0 41.0 31.0 41.0 41 37.33075 40.0 36.0 41.0 31.0 41.0 42 37.27525 39.0 36.0 41.0 31.0 41.0 43 37.24975 39.0 36.0 41.0 31.0 41.0 44 36.84075 39.0 35.0 41.0 30.0 41.0 45 36.953 39.0 35.0 41.0 31.0 41.0 46 36.7515 39.0 35.0 41.0 30.0 41.0 47 37.0075 39.0 35.0 40.0 31.0 41.0 48 36.7245 39.0 35.0 40.0 30.0 41.0 49 36.65725 39.0 35.0 40.0 30.0 41.0 50 36.60975 39.0 35.0 40.0 30.0 41.0 51 36.719 39.0 35.0 40.0 30.0 41.0 52 35.71025 38.0 34.0 40.0 28.0 41.0 >>END_MODULE >>Per tile sequence quality pass #Tile Base Mean 1314 1 0.0 1314 2 0.0 1314 3 0.0 1314 4 0.0 1314 5 0.0 1314 6 0.0 1314 7 0.0 1314 8 0.0 1314 9 0.0 1314 10 0.0 1314 11 0.0 1314 12 0.0 1314 13 0.0 1314 14 0.0 1314 15 0.0 1314 16 0.0 1314 17 0.0 1314 18 0.0 1314 19 0.0 1314 20 0.0 1314 21 0.0 1314 22 0.0 1314 23 0.0 1314 24 0.0 1314 25 0.0 1314 26 0.0 1314 27 0.0 1314 28 0.0 1314 29 0.0 1314 30 0.0 1314 31 0.0 1314 32 0.0 1314 33 0.0 1314 34 0.0 1314 35 0.0 1314 36 0.0 1314 37 0.0 1314 38 0.0 1314 39 0.0 1314 40 0.0 1314 41 0.0 1314 42 0.0 1314 43 0.0 1314 44 0.0 1314 45 0.0 1314 46 0.0 1314 47 0.0 1314 48 0.0 1314 49 0.0 1314 50 0.0 1314 51 0.0 1314 52 0.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 21 1.0 22 0.0 23 4.0 24 7.0 25 22.0 26 17.0 27 27.0 28 38.0 29 56.0 30 82.0 31 103.0 32 110.0 33 168.0 34 201.0 35 264.0 36 391.0 37 506.0 38 731.0 39 1271.0 40 1.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 29.884769539078153 9.619238476953909 7.014028056112225 53.481963927855716 2 21.85 14.6 35.975 27.575 3 21.349999999999998 16.1 23.275000000000002 39.275 4 24.825 25.724999999999998 20.375 29.075 5 24.6 31.175000000000004 23.575 20.65 6 19.875 33.025 24.775 22.325 7 15.75 22.7 41.8 19.75 8 18.125 22.15 31.55 28.175 9 18.2 22.125 33.575 26.1 10 17.9 36.95 24.85 20.3 11 22.375 28.349999999999998 21.675 27.6 12 21.675 24.6 25.974999999999998 27.750000000000004 13 19.025 28.975 27.275 24.725 14 18.9 29.25 27.1 24.75 15 20.825 27.3 26.05 25.825 16 21.675 27.500000000000004 26.400000000000002 24.425 17 22.45 27.925 25.650000000000002 23.974999999999998 18 21.825 26.85 27.0 24.325 19 21.175 27.05 26.474999999999998 25.3 20 21.8 27.450000000000003 25.374999999999996 25.374999999999996 21 20.05501375343836 27.431857964491122 27.35683920980245 25.156289072268066 22 20.25 27.800000000000004 24.5 27.450000000000003 23 20.45 28.1 26.075 25.374999999999996 24 22.3 27.675 25.7 24.325 25 20.974999999999998 27.900000000000002 25.45 25.674999999999997 26 22.175 27.224999999999998 25.974999999999998 24.625 27 22.025 27.3 26.674999999999997 24.0 28 21.7 27.6 26.400000000000002 24.3 29 21.875 28.050000000000004 27.025 23.05 30 19.925 27.0 27.175 25.900000000000002 31 20.674999999999997 27.35 26.375 25.6 32 20.674999999999997 27.075 27.725 24.525 33 22.675 25.874999999999996 27.400000000000002 24.05 34 20.575 25.25 27.55 26.625 35 21.2 27.275 25.025 26.5 36 21.099999999999998 27.650000000000002 25.624999999999996 25.624999999999996 37 20.525 25.85 27.05 26.575 38 23.075000000000003 25.324999999999996 24.75 26.85 39 21.05 26.224999999999998 25.6 27.125 40 21.325 27.1 25.374999999999996 26.200000000000003 41 21.475 27.450000000000003 24.625 26.450000000000003 42 20.5 26.05 27.474999999999998 25.974999999999998 43 21.5 27.975 24.65 25.874999999999996 44 23.325000000000003 27.575 23.9 25.2 45 22.525000000000002 26.6 25.55 25.324999999999996 46 21.975 26.775 26.025 25.224999999999998 47 23.724999999999998 26.924999999999997 24.75 24.6 48 21.775 26.3 24.95 26.974999999999998 49 20.305076269067268 25.881470367591895 25.806451612903224 28.00700175043761 50 21.555388847211805 27.831957989497376 25.756439109777446 24.85621405351338 51 22.900000000000002 25.275 24.375 27.450000000000003 52 21.9 26.575 24.875 26.650000000000002 >>END_MODULE >>Per sequence GC content pass #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 0.5 8 1.0 9 0.5 10 0.0 11 0.0 12 0.0 13 0.0 14 0.0 15 0.0 16 0.5 17 1.0 18 4.0 19 7.0 20 8.0 21 9.0 22 9.0 23 9.0 24 13.0 25 17.0 26 18.5 27 20.0 28 28.0 29 36.0 30 42.0 31 48.0 32 59.5 33 71.0 34 87.0 35 103.0 36 127.5 37 152.0 38 191.5 39 233.0 40 235.0 41 260.0 42 285.0 43 302.5 44 320.0 45 311.5 46 303.0 47 335.0 48 367.0 49 355.0 50 343.0 51 348.5 52 354.0 53 325.0 54 296.0 55 251.5 56 207.0 57 190.5 58 174.0 59 162.0 60 150.0 61 134.5 62 119.0 63 85.5 64 49.0 65 46.0 66 34.5 67 23.0 68 16.5 69 10.0 70 6.0 71 2.0 72 3.5 73 5.0 74 4.0 75 3.0 76 1.5 77 0.0 78 0.0 79 0.0 80 0.5 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 0.2 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 0.025 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 0.025 50 0.025 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 87.8 #Duplication Level Percentage of deduplicated Percentage of total 1 93.10933940774487 81.75 2 4.2995444191343966 7.55 3 0.9965831435079727 2.625 4 0.683371298405467 2.4 5 0.2847380410022779 1.25 6 0.25626423690205014 1.35 7 0.08542141230068337 0.525 8 0.11389521640091116 0.8 9 0.05694760820045558 0.44999999999999996 >10 0.11389521640091116 1.3 >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 CCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACT 17 0.42500000000000004 No Hit CGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGC 15 0.375 No Hit CTCGTATTTTCCCCTCTGCCTCGGGTTGTCTCGCGATACCTTCTACAGCTTG 10 0.25 No Hit GGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCGA 10 0.25 No Hit CGCAGAAGTAGGAATAATGGCACCAGAAATGATATTGTTTCCATAAAGTAGA 9 0.22499999999999998 No Hit CTCAGCCTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGAGGC 9 0.22499999999999998 No Hit GTCCCTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAAC 8 0.2 No Hit CCTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAACGGC 8 0.2 No Hit CTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGAGGCATCCCA 8 0.2 No Hit GGGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCG 8 0.2 No Hit GGGCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAGAT 7 0.17500000000000002 No Hit CCCGAAGCCACGGGTAGAACACCCGGTAGAGAGACCCAATCTTGAGTGAAAT 7 0.17500000000000002 No Hit CCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTG 7 0.17500000000000002 No Hit CTCCATTTTATTTTCCCATTGAGGCCGAACCTAAACCTGTGCTCGAGAGATA 6 0.15 No Hit CTCACGAGCAAGATCACGTCCCTCATTACGAGCTTGTACACATGCTTCTAGA 6 0.15 No Hit GTCGCGTATTTAAGTCGTCTGCAAAGGATTCTACCCGCCGCTCGGTGGGAAT 6 0.15 No Hit CTCCGGTGTACTGCGCTCTCCAAGTGTGCTTGTTCCCCCCTTCTTCCTTACC 6 0.15 No Hit GTCCGCGACCCCTGGATGCCGAAGGCGTCCTTGGGGCGATCTCGTAGTTCCT 6 0.15 No Hit CTACGATATTATAAGTTTCTTCCTCTTGACCAAATCTGTAACCTTCATTAGC 6 0.15 No Hit CTTATAACGATCAAGACTGGTAAGCCCGTCGGTCCACACAGTTGTCCATGTA 6 0.15 No Hit GTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCGATG 6 0.15 No Hit CTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAACGGCA 6 0.15 No Hit CTCCTTCCATACTTCACAAGCAGCAGCTAGTTCAGGGCTCCATTTGCTAGCT 5 0.125 No Hit CAGGGCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAG 5 0.125 No Hit GTCAGAGCAGGCATATGCCAAACGTGAATACCCCCCGAAGCCACGGGTAGAA 5 0.125 No Hit CTCATAAGGACCGCCGTTGTATAACCATTCATCAACGGATGCCGCTTCCCAT 5 0.125 No Hit CTCGACGATGCCAGCAGTGTAGCTGCTTCCCTTCTTGACACACTGGGTCTTG 5 0.125 No Hit GCATAAGGATGTTGTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTACC 5 0.125 No Hit GTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGA 5 0.125 No Hit CCCTTCTCCGACCCTTACTGCCCAACCTGAGAGCGGACAGCTAATGCGTTCC 5 0.125 No Hit GTGAAGATACGTTGTTAGGTGCTCCATTTTATTTTCCCATTGAGGCCGAACC 5 0.125 No Hit CCCGTCGCGTATTTAAGTCGTCTGCAAAGGATTCTACCCGCCGCTCGGTGGG 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 SRR5423403.sra Written 200000 spots for SRR5423403.sra Read 200000 spots for SRR5423403.sra Written 200000 spots for SRR5423403.sra Read 200000 spots for SRR5423403.sra Written 200000 spots for SRR5423403.sra Read 200000 spots for SRR5423403.sra Written 200000 spots for SRR5423403.sra Read 200000 spots for SRR5423403.sra Written 200000 spots for SRR5423403.sra Read 200000 spots for SRR5423403.sra Written 200000 spots for SRR5423403.sra Read 200000 spots for SRR5423403.sra Written 200000 spots for SRR5423403.sra Read 200000 spots for SRR5423403.sra Written 200000 spots for SRR5423403.sra Read 200000 spots for SRR5423403.sra Written 200000 spots for SRR5423403.sra Read 200000 spots for SRR5423403.sra Written 200000 spots for SRR5423403.sra Read 200000 spots for SRR5423403.sra Written 200000 spots for SRR5423403.sra Read 200000 spots for SRR5423403.sra Written 200000 spots for SRR5423403.sra Read 200000 spots for SRR5423403.sra Written 200000 spots for SRR5423403.sra Read 200000 spots for SRR5423403.sra Written 200000 spots for SRR5423403.sra Read 200000 spots for SRR5423403.sra Written 200000 spots for SRR5423403.sra Read 200000 spots for SRR5423403.sra Written 200000 spots for SRR5423403.sra Read 200000 spots for SRR5423403.sra Written 200000 spots for SRR5423403.sra Read 200000 spots for SRR5423403.sra Written 200000 spots for SRR5423403.sra Read 200000 spots for SRR5423403.sra Written 200000 spots for SRR5423403.sra Read 200000 spots for SRR5423403.sra Written 200000 spots for SRR5423403.sra SRR ids: ['SRR5423403.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_tjchk0eb SRR5423403.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]] SRR5423403 file size 703963 SRR5423403 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 SRR5423403 SRR5423403_1.fastq Input file: SRR5423403_1.fastq trimmed: SRR5423403-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 06:28:58 2025 >> started Thu Feb 13 06:29:00 2025 >> done (1.955s) 4000000 reads processed; of these: 138 ( 0.00%) short reads filtered out after trimming by size control 45 ( 0.00%) empty reads filtered out after trimming by size control 3999817 (100.00%) reads available; of these: 78330 ( 1.96%) trimmed reads available after processing 3921487 (98.04%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 8 0.00% 19 2 0.00% 20 9 0.00% 21 2 0.00% 22 3 0.00% 23 0 0.00% 24 4 0.00% 25 3 0.00% 26 4 0.00% 27 4 0.00% 28 6 0.00% 29 4 0.00% 30 0 0.00% 31 4 0.00% 32 4 0.00% 33 12 0.00% 34 12 0.00% 35 19 0.00% 36 17 0.00% 37 20 0.00% 38 31 0.00% 39 34 0.00% 40 50 0.00% 41 60 0.00% 42 103 0.00% 43 165 0.00% 44 381 0.01% 45 507 0.01% 46 638 0.02% 47 728 0.02% 48 1416 0.04% 49 3372 0.08% 50 9536 0.24% 51 61172 1.53% 52 3921487 98.04% 3999817 reads passed initial QC criterion=sequence-density sequence-density=0.49 sequence-density-rank=1 fanout-score=1.95 fanout-score-rank=22 prefix-density=0.50 prefix-fanout=1.9 sequence=TGAGATGCCTCAGTGCATCCAAACATGGGTAG criterion=fanout-score sequence-density=0.06 sequence-density-rank=19 fanout-score=10.13 fanout-score-rank=1 prefix-density=0.11 prefix-fanout=5.1 sequence=GCTCCAAGCATGGCCCACCTGGAATGGATGACTTCAAGCTCACGGTTCTTGGCAAAGGTCTCTGGGTCAGCAGAGAGGCCAGCAGTGTCCCAGCCGTAGTCACCAGGGAACTCACCAGTCAAGTAGGATGGGGGCTCACCAGAGAACGGGCCCAAGTATTTAACACGGTCTGGTCCGTACCATGGGCTCCCGGAGGGAACAGGCTTGGTGGTTTTCCTCATGGAGACACGGCCATTGCCCATGATCTCAGAGGAGGAGGGGTTGAGCTTCACC Started job on | Feb 13 06:29:10 Started mapping on | Feb 13 06:29:10 Finished on | Feb 13 06:29:15 Mapping speed, Million of reads per hour | 2879.87 Number of input reads | 3999817 Average input read length | 51 UNIQUE READS: Uniquely mapped reads number | 3116373 Uniquely mapped reads % | 77.91% Average mapped length | 51.80 Number of splices: Total | 277465 Number of splices: Annotated (sjdb) | 273975 Number of splices: GT/AG | 269584 Number of splices: GC/AG | 6400 Number of splices: AT/AC | 996 Number of splices: Non-canonical | 485 Mismatch rate per base, % | 0.33% Deletion rate per base | 0.01% Deletion average length | 2.74 Insertion rate per base | 0.00% Insertion average length | 1.35 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 766442 % of reads mapped to multiple loci | 19.16% Number of reads mapped to too many loci | 54277 % of reads mapped to too many loci | 1.36% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.56% % of reads unmapped: other | 0.01% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 117002 117002 117002 N_multimapping 766442 766442 766442 N_noFeature 404201 3075331 433833 N_ambiguous 22541 149 10997 UnstrandedReadsAssigned:2689631 PositiveStrandReadsAssigned:40893 NegativeStrandReadsAssigned:2671543 Dataset is classified negative stranded MeadianReadLen=52 20thPercentileLength=52 echo kmer=47 SRR5423403 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: SRR5423403-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 3,999,817 reads, 3,289,490 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,095 rounds 52401 SRR5423403.ke.tsv 34699 SRR5423403.se.tsv 87100 total ==> SRR5423403.ke.tsv <== target_id length eff_length est_counts tpm Potri.005G200100.1.v4.1 2018 1919 76 10.6285 Potri.005G024800.1.v4.1 1035 936 2 0.573439 Potri.004G059700.1.v4.1 961 862 3 0.934 Potri.007G009000.2.v4.1 1416 1317 0 0 Potri.003G141000.2.v4.1 2943 2844 75.9675 7.16855 Potri.016G087400.1.v4.1 270 171 8 12.5553 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 6 1.83396 ==> SRR5423403.se.tsv <== Potri.001G166300.v4.1 0 Potri.001G448400.v4.1 3 Potri.001G233950.v4.1 0 Potri.001G122700.v4.1 23 Potri.001G212900.v4.1 0 Potri.001G182400.v4.1 0 Potri.001G256600.v4.1 0 Potri.001G040500.v4.1 6 Potri.001G416900.v4.1 0 Potri.001G452600.v4.1 0 SRR5423403 completed mapping pipeline successfully