Starting /dee2/code/volunteer_pipeline.sh SRR5423410 current disk space = 3052607275008 free memory = 1568851052 SRR5423410 SRAfilesize ebd6b4dd8cee8d7a5973812f80bc1ed4 SRR5423410.sra SRR5423410.sra file validated SRR5423410 is single end SRR5423410 is conventional basespace SRR5423410 read1 length is 52 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5423410_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 32.114 34.0 31.0 34.0 30.0 34.0 2 32.22375 34.0 31.0 34.0 30.0 34.0 3 32.3705 34.0 31.0 34.0 30.0 34.0 4 35.9025 37.0 35.0 37.0 35.0 37.0 5 35.80175 37.0 35.0 37.0 33.0 37.0 6 35.8515 37.0 35.0 37.0 35.0 37.0 7 35.84925 37.0 35.0 37.0 35.0 37.0 8 35.8895 37.0 35.0 37.0 35.0 37.0 9 37.58575 39.0 37.0 39.0 35.0 39.0 10 37.5265 39.0 37.0 39.0 35.0 39.0 11 37.297 39.0 37.0 39.0 33.0 39.0 12 37.47675 39.0 37.0 39.0 34.0 39.0 13 37.20825 39.0 37.0 39.0 33.0 39.0 14 38.77625 40.0 38.0 41.0 35.0 41.0 15 38.895 40.0 38.0 41.0 35.0 41.0 16 38.80525 40.0 38.0 41.0 35.0 41.0 17 38.73075 40.0 38.0 41.0 34.0 41.0 18 38.6855 40.0 38.0 41.0 35.0 41.0 19 38.741 40.0 38.0 41.0 34.0 41.0 20 38.78825 40.0 38.0 41.0 34.0 41.0 21 38.61125 40.0 38.0 41.0 34.0 41.0 22 38.61875 40.0 38.0 41.0 34.0 41.0 23 38.57775 40.0 38.0 41.0 34.0 41.0 24 38.6165 40.0 38.0 41.0 34.0 41.0 25 38.38925 40.0 38.0 41.0 34.0 41.0 26 38.47175 40.0 38.0 41.0 34.0 41.0 27 38.396 40.0 38.0 41.0 34.0 41.0 28 38.4525 40.0 38.0 41.0 34.0 41.0 29 38.24475 40.0 38.0 41.0 34.0 41.0 30 38.20425 40.0 38.0 41.0 33.0 41.0 31 38.03025 40.0 38.0 41.0 33.0 41.0 32 38.08175 40.0 38.0 41.0 33.0 41.0 33 37.8585 40.0 38.0 41.0 33.0 41.0 34 37.81025 40.0 37.0 41.0 32.0 41.0 35 37.82075 40.0 37.0 41.0 32.0 41.0 36 38.03325 40.0 38.0 41.0 33.0 41.0 37 37.91425 40.0 38.0 41.0 33.0 41.0 38 37.8115 40.0 37.0 41.0 33.0 41.0 39 37.72575 40.0 37.0 41.0 32.0 41.0 40 37.72775 40.0 37.0 41.0 32.0 41.0 41 37.41875 40.0 37.0 41.0 31.0 41.0 42 37.4815 40.0 37.0 41.0 31.0 41.0 43 37.4395 40.0 37.0 41.0 31.0 41.0 44 37.497 40.0 37.0 41.0 31.0 41.0 45 37.574 40.0 37.0 41.0 32.0 41.0 46 37.491 40.0 37.0 41.0 31.0 41.0 47 37.3955 40.0 37.0 41.0 31.0 41.0 48 37.376 40.0 37.0 41.0 31.0 41.0 49 37.2615 40.0 36.0 41.0 31.0 41.0 50 36.5065 39.0 35.0 41.0 29.0 41.0 51 36.84725 39.0 36.0 41.0 30.0 41.0 52 35.3915 38.0 34.0 40.0 27.0 41.0 >>END_MODULE >>Per tile sequence quality pass #Tile Base Mean 1207 1 0.0 1207 2 0.0 1207 3 0.0 1207 4 0.0 1207 5 0.0 1207 6 0.0 1207 7 0.0 1207 8 0.0 1207 9 0.0 1207 10 0.0 1207 11 0.0 1207 12 0.0 1207 13 0.0 1207 14 0.0 1207 15 0.0 1207 16 0.0 1207 17 0.0 1207 18 0.0 1207 19 0.0 1207 20 0.0 1207 21 0.0 1207 22 0.0 1207 23 0.0 1207 24 0.0 1207 25 0.0 1207 26 0.0 1207 27 0.0 1207 28 0.0 1207 29 0.0 1207 30 0.0 1207 31 0.0 1207 32 0.0 1207 33 0.0 1207 34 0.0 1207 35 0.0 1207 36 0.0 1207 37 0.0 1207 38 0.0 1207 39 0.0 1207 40 0.0 1207 41 0.0 1207 42 0.0 1207 43 0.0 1207 44 0.0 1207 45 0.0 1207 46 0.0 1207 47 0.0 1207 48 0.0 1207 49 0.0 1207 50 0.0 1207 51 0.0 1207 52 0.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 2.0 21 4.0 22 1.0 23 7.0 24 14.0 25 19.0 26 16.0 27 24.0 28 42.0 29 42.0 30 44.0 31 58.0 32 100.0 33 131.0 34 158.0 35 203.0 36 286.0 37 450.0 38 771.0 39 1623.0 40 5.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 29.506141890198045 9.952369014790674 7.01930308347957 53.522186011531716 2 20.7 13.3 37.0 28.999999999999996 3 20.4 16.3 22.900000000000002 40.400000000000006 4 25.275 25.525 20.125 29.075 5 22.75 30.875000000000004 25.15 21.224999999999998 6 18.725 31.900000000000002 26.5 22.875 7 16.150000000000002 23.65 40.65 19.55 8 18.325 22.75 31.225 27.700000000000003 9 18.275 20.525 34.699999999999996 26.5 10 18.6 37.55 23.35 20.5 11 24.05 27.3 21.45 27.200000000000003 12 22.525000000000002 23.775 25.7 28.000000000000004 13 20.05 26.974999999999998 28.025 24.95 14 19.975 28.749999999999996 27.175 24.099999999999998 15 22.45 26.200000000000003 27.775 23.575 16 20.625 27.200000000000003 26.950000000000003 25.224999999999998 17 20.724999999999998 27.125 26.950000000000003 25.2 18 21.25 27.35 26.875 24.525 19 21.525 26.625 26.974999999999998 24.875 20 22.3 25.775 26.525 25.4 21 19.825 25.874999999999996 28.525 25.775 22 20.0 27.0 24.525 28.475 23 21.975 28.525 25.05 24.45 24 21.224999999999998 27.575 26.5 24.7 25 22.0 28.050000000000004 25.174999999999997 24.775 26 22.375 27.375 26.05 24.2 27 21.075 26.950000000000003 26.950000000000003 25.025 28 21.675 27.35 27.05 23.925 29 20.9 28.075 27.900000000000002 23.125 30 21.825 25.1 26.075 27.0 31 21.125 27.0 27.250000000000004 24.625 32 21.575 27.6 26.325 24.5 33 20.724999999999998 26.55 27.325 25.4 34 21.425 27.650000000000002 24.925 26.0 35 20.375 27.500000000000004 25.624999999999996 26.5 36 21.7 26.575 25.474999999999998 26.25 37 22.075 25.5 25.025 27.400000000000002 38 21.099999999999998 25.75 26.150000000000002 27.0 39 21.375 25.775 25.6 27.250000000000004 40 20.9 26.525 26.125 26.450000000000003 41 20.325 28.475 26.174999999999997 25.025 42 19.975 26.150000000000002 27.224999999999998 26.650000000000002 43 21.125 26.724999999999998 24.775 27.375 44 21.55 28.449999999999996 25.874999999999996 24.125 45 23.875 25.025 25.85 25.25 46 22.900000000000002 26.424999999999997 25.025 25.650000000000002 47 23.45 28.249999999999996 24.125 24.175 48 21.780445111277817 27.93198299574894 25.256314078519633 25.03125781445361 49 22.0 26.525 24.6 26.875 50 23.325000000000003 27.1 25.2 24.375 51 22.475 25.525 25.374999999999996 26.625 52 22.6 26.625 25.424999999999997 25.35 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 2.0 1 1.0 2 0.0 3 0.0 4 0.0 5 0.0 6 0.0 7 0.0 8 0.0 9 0.5 10 1.0 11 0.5 12 0.0 13 0.5 14 1.0 15 1.0 16 2.5 17 4.0 18 4.5 19 5.0 20 5.0 21 5.0 22 7.0 23 9.0 24 10.5 25 12.0 26 17.5 27 23.0 28 28.5 29 34.0 30 43.0 31 52.0 32 65.5 33 79.0 34 94.5 35 110.0 36 133.5 37 157.0 38 190.5 39 233.5 40 243.0 41 248.5 42 254.0 43 290.5 44 327.0 45 336.5 46 346.0 47 333.0 48 320.0 49 316.0 50 312.0 51 333.0 52 354.0 53 327.5 54 301.0 55 261.0 56 221.0 57 207.5 58 194.0 59 163.5 60 133.0 61 116.5 62 100.0 63 81.0 64 58.5 65 55.0 66 43.0 67 31.0 68 19.5 69 8.0 70 8.0 71 8.0 72 6.5 73 5.0 74 4.5 75 4.0 76 3.5 77 3.0 78 1.5 79 0.0 80 0.0 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 0.27499999999999997 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 0.025 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 86.225 #Duplication Level Percentage of deduplicated Percentage of total 1 92.6355465352276 79.875 2 4.581037982023775 7.9 3 1.0437808060307336 2.7 4 0.4059147579008408 1.4000000000000001 5 0.6088721368512612 2.625 6 0.2899391127863149 1.5 7 0.14496955639315745 0.8750000000000001 8 0.028993911278631487 0.2 9 0.08698173383589447 0.675 >10 0.17396346767178894 2.25 >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 19 0.475 No Hit CCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACT 18 0.44999999999999996 No Hit CTCGTATTTTCCCCTCTGCCTCGGGTTGTCTCGCGATACCTTCTACAGCTTG 15 0.375 No Hit CTCCAGCAACGGGCTCGATGTCGTAGCATCGTCCCTTATAACGATCAAGACT 15 0.375 No Hit GGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCGA 13 0.325 No Hit CTCGATTAGCAACGGCACCGGGTGCATTTCCCCAAGGGTGCCCTAAAGTTCC 10 0.25 No Hit CGCAGAAGTAGGAATAATGGCACCAGAAATGATATTGTTTCCATAAAGTAGA 9 0.22499999999999998 No Hit CCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCCCT 9 0.22499999999999998 No Hit CTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAACGGCA 9 0.22499999999999998 No Hit GTCCGCGACCCCTGGATGCCGAAGGCGTCCTTGGGGCGATCTCGTAGTTCCT 8 0.2 No Hit CACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCCCTG 7 0.17500000000000002 No Hit CCTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAACGGC 7 0.17500000000000002 No Hit CCTCTGCCTCGGGTTGTCTCGCGATACCTTCTACAGCTTGGCCCGCAGCAGT 7 0.17500000000000002 No Hit CTCGTACACACTAAGAAAAAAGCCTTATCCATTTACAAAAGTCTTATCCATT 7 0.17500000000000002 No Hit CTCAGCCTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGAGGC 7 0.17500000000000002 No Hit GTCCCTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAAC 6 0.15 No Hit CTCACGAGCAAGATCACGTCCCTCATTACGAGCTTGTACACATGCTTCTAGA 6 0.15 No Hit CTTATAACGATCAAGACTGGTAAGCCCGTCGGTCCACACAGTTGTCCATGTA 6 0.15 No Hit CCAGCAACGGGCTCGATGTCGTAGCATCGTCCCTTATAACGATCAAGACTGG 6 0.15 No Hit GGGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCG 6 0.15 No Hit CCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTG 6 0.15 No Hit GTCCTAGAAGTGCATGATAAATACCGCCAAAGCCCAATACTGCAGAGGAAAT 6 0.15 No Hit CCCACTTTTTGGTCTTAAGAATGCTGGTTTTAAGAATGAGTGATTGCCCTTC 6 0.15 No Hit ATCAAACTAGAGGTTACCAAAGAACCATGCATAGCACTGAATAGGGAGCCGC 6 0.15 No Hit CTCTGCCTCGGGTTGTCTCGCGATACCTTCTACAGCTTGGCCCGCAGCAGTA 6 0.15 No Hit CAGGGCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAG 5 0.125 No Hit CTTCCATACTTCACAAGCAGCAGCTAGTTCAGGGCTCCATTTGCTAGCTTCA 5 0.125 No Hit GGTGCATAAGGATGTTGTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGT 5 0.125 No Hit GTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCCCTGCTTCCTCGG 5 0.125 No Hit CTCGGGTCCTAGAAGTGCATGATAAATACCGCCAAAGCCCAATACTGCAGAG 5 0.125 No Hit GTGGAGACGATGGGGTCGGTCCATGGATTTTCCTTCCTTTTTCCGCATTTCG 5 0.125 No Hit CTCGGTCAGAGCAGGCATATGCCAAACGTGAATACCCCCCGAAGCCACGGGT 5 0.125 No Hit GTCCCTTATAACGATCAAGACTGGTAAGCCCGTCGGTCCACACAGTTGTCCA 5 0.125 No Hit CTCTTGACCAAATCTGTAACCTTCATTAGCAGATTCATTTTCTGTGGTTTCC 5 0.125 No Hit CCCGAAGCCACGGGTAGAACACCCGGTAGAGAGACCCAATCTTGAGTGAAAT 5 0.125 No Hit GTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGA 5 0.125 No Hit CTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAGATCAC 5 0.125 No Hit CTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGAGGCATCCCA 5 0.125 No Hit CGAAAAACTTCCTTGACCGATTGGATAAATCAAGAAAACAGCAGTAGCCGCC 5 0.125 No Hit CGCCGTTGTATAACCATTCATCAACGGATGCCGCTTCCCATATTGGGTAAAA 5 0.125 No Hit CACTTTTTGGTCTTAAGAATGCTGGTTTTAAGAATGAGTGATTGCCCTTCTC 5 0.125 No Hit CTAAGGGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGG 5 0.125 No Hit CCGAAAAACTTCCTTGACCGATTGGATAAATCAAGAAAACAGCAGTAGCCGC 5 0.125 No Hit GCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAGATCA 5 0.125 No Hit CCGCCGAATACACCAGCTACGCCTAACATGTGAAATGGGTGCATAAGGATGT 5 0.125 No Hit CCAAGATATCAGTATCTTTGGTTTCATAGTCAGGAGTATAATAAGTCAATTT 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 0.025 0.0 0.0 0.0 0.0 39 0.025 0.0 0.0 0.0 0.0 40 0.025 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Read 200000 spots for SRR5423410.sra Written 200000 spots for SRR5423410.sra Read 200000 spots for SRR5423410.sra Written 200000 spots for SRR5423410.sra Read 200000 spots for SRR5423410.sra Written 200000 spots for SRR5423410.sra Read 200000 spots for SRR5423410.sra Written 200000 spots for SRR5423410.sra Read 200000 spots for SRR5423410.sra Written 200000 spots for SRR5423410.sra Read 200000 spots for SRR5423410.sra Written 200000 spots for SRR5423410.sra Read 200000 spots for SRR5423410.sra Written 200000 spots for SRR5423410.sra Read 200000 spots for SRR5423410.sra Written 200000 spots for SRR5423410.sra Read 200000 spots for SRR5423410.sra Written 200000 spots for SRR5423410.sra Read 200000 spots for SRR5423410.sra Written 200000 spots for SRR5423410.sra Read 200000 spots for SRR5423410.sra Written 200000 spots for SRR5423410.sra Read 200000 spots for SRR5423410.sra Written 200000 spots for SRR5423410.sra Read 200000 spots for SRR5423410.sra Written 200000 spots for SRR5423410.sra Read 200000 spots for SRR5423410.sra Written 200000 spots for SRR5423410.sra Read 200000 spots for SRR5423410.sra Written 200000 spots for SRR5423410.sra Read 200000 spots for SRR5423410.sra Written 200000 spots for SRR5423410.sra Read 200000 spots for SRR5423410.sra Written 200000 spots for SRR5423410.sra Read 200000 spots for SRR5423410.sra Written 200000 spots for SRR5423410.sra Read 200000 spots for SRR5423410.sra Written 200000 spots for SRR5423410.sra Read 200000 spots for SRR5423410.sra Written 200000 spots for SRR5423410.sra SRR ids: ['SRR5423410.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_9p6u96s_ SRR5423410.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]] SRR5423410 file size 703950 SRR5423410 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 SRR5423410 SRR5423410_1.fastq Input file: SRR5423410_1.fastq trimmed: SRR5423410-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 07:35:22 2025 >> started Thu Feb 13 07:43:11 2025 >> done (468.135s) 4000000 reads processed; of these: 134 ( 0.00%) short reads filtered out after trimming by size control 38 ( 0.00%) empty reads filtered out after trimming by size control 3999828 (100.00%) reads available; of these: 85601 ( 2.14%) trimmed reads available after processing 3914227 (97.86%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 7 0.00% 19 1 0.00% 20 3 0.00% 21 0 0.00% 22 0 0.00% 23 1 0.00% 24 4 0.00% 25 3 0.00% 26 2 0.00% 27 3 0.00% 28 2 0.00% 29 1 0.00% 30 5 0.00% 31 7 0.00% 32 6 0.00% 33 9 0.00% 34 8 0.00% 35 20 0.00% 36 15 0.00% 37 18 0.00% 38 20 0.00% 39 30 0.00% 40 40 0.00% 41 63 0.00% 42 99 0.00% 43 112 0.00% 44 310 0.01% 45 375 0.01% 46 455 0.01% 47 640 0.02% 48 1336 0.03% 49 3444 0.09% 50 10063 0.25% 51 68499 1.71% 52 3914227 97.86% 3999828 reads passed initial QC criterion=sequence-density sequence-density=0.49 sequence-density-rank=1 fanout-score=1.95 fanout-score-rank=24 prefix-density=0.50 prefix-fanout=1.9 sequence=TGAGATGCCTCAGTGCATCCAAACATGGGTAG criterion=fanout-score sequence-density=0.06 sequence-density-rank=20 fanout-score=9.66 fanout-score-rank=1 prefix-density=0.11 prefix-fanout=5.0 sequence=GCTCCAAGCATGGCCCACCTGGAATGGATGACTTCAAGCTCACGGTTCTTGGCAAAGGTCTCTGGGTCAGCAGAGAGGCCAGCAGTGTCCCAGCCGTAGTCACCAGGGAACTCACCAGTCAAGTAGGATGGGGGCTCACCAGAGAACGGGCCCAAGTATTTAACACGGTCTGGTCCGTACCATGGGCTCCCGGAGGGAACAGGCTTGGTGGTTTTCCTCATGGAGACACGGCCATTGCCCATGATCTCAGAGGAGGAGGGGTTGAGCTTCACC Started job on | Feb 13 07:50:29 Started mapping on | Feb 13 07:50:41 Finished on | Feb 13 08:39:06 Mapping speed, Million of reads per hour | 4.96 Number of input reads | 3999828 Average input read length | 51 UNIQUE READS: Uniquely mapped reads number | 3114932 Uniquely mapped reads % | 77.88% Average mapped length | 51.80 Number of splices: Total | 276043 Number of splices: Annotated (sjdb) | 272411 Number of splices: GT/AG | 268228 Number of splices: GC/AG | 6231 Number of splices: AT/AC | 1081 Number of splices: Non-canonical | 503 Mismatch rate per base, % | 0.36% 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 | 766523 % of reads mapped to multiple loci | 19.16% Number of reads mapped to too many loci | 56383 % of reads mapped to too many loci | 1.41% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.54% % of reads unmapped: other | 0.01% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 118373 118373 118373 N_multimapping 766523 766523 766523 N_noFeature 405273 3074348 434598 N_ambiguous 22619 167 11204 UnstrandedReadsAssigned:2687040 PositiveStrandReadsAssigned:40417 NegativeStrandReadsAssigned:2669130 Dataset is classified negative stranded MeadianReadLen=52 20thPercentileLength=52 echo kmer=47 SRR5423410 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: SRR5423410-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 3,999,828 reads, 3,282,355 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,059 rounds 52401 SRR5423410.ke.tsv 34699 SRR5423410.se.tsv 87100 total ==> SRR5423410.ke.tsv <== target_id length eff_length est_counts tpm Potri.005G200100.1.v4.1 2018 1919 80 11.2286 Potri.005G024800.1.v4.1 1035 936 3.0099 0.866139 Potri.004G059700.1.v4.1 961 862 0 0 Potri.007G009000.2.v4.1 1416 1317 1 0.204515 Potri.003G141000.2.v4.1 2943 2844 75.6961 7.16895 Potri.016G087400.1.v4.1 270 171 13 20.4766 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 3 0.920318 ==> SRR5423410.se.tsv <== Potri.001G166300.v4.1 0 Potri.001G448400.v4.1 5 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 4 Potri.001G416900.v4.1 0 Potri.001G452600.v4.1 1 SRR5423410 completed mapping pipeline successfully