Starting /dee2/code/volunteer_pipeline.sh SRR5423419 current disk space = 3052638773248 free memory = 1496892272 SRR5423419 SRAfilesize f3cc09150468214d44377e659171699c SRR5423419.sra SRR5423419.sra file validated SRR5423419 is single end SRR5423419 is conventional basespace SRR5423419 read1 length is 52 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5423419_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 31.8025 31.0 31.0 34.0 30.0 34.0 2 31.91125 33.0 31.0 34.0 30.0 34.0 3 32.03175 34.0 31.0 34.0 30.0 34.0 4 35.1455 37.0 35.0 37.0 32.0 37.0 5 35.4725 37.0 35.0 37.0 33.0 37.0 6 35.39475 37.0 35.0 37.0 33.0 37.0 7 35.535 37.0 35.0 37.0 33.0 37.0 8 35.527 37.0 35.0 37.0 33.0 37.0 9 37.131 39.0 37.0 39.0 33.0 39.0 10 37.065 39.0 37.0 39.0 33.0 39.0 11 37.11575 39.0 37.0 39.0 33.0 39.0 12 36.97525 39.0 37.0 39.0 33.0 39.0 13 37.145 39.0 37.0 39.0 33.0 39.0 14 38.42175 40.0 38.0 41.0 34.0 41.0 15 38.2665 40.0 38.0 41.0 33.0 41.0 16 38.2165 40.0 37.0 41.0 33.0 41.0 17 38.0395 40.0 37.0 41.0 33.0 41.0 18 37.97825 40.0 37.0 41.0 33.0 41.0 19 38.0815 40.0 37.0 41.0 33.0 41.0 20 37.809 40.0 37.0 41.0 32.0 41.0 21 38.05175 40.0 37.0 41.0 33.0 41.0 22 38.19325 40.0 37.0 41.0 34.0 41.0 23 38.024 40.0 37.0 41.0 33.0 41.0 24 38.11125 40.0 37.0 41.0 33.0 41.0 25 38.12075 40.0 37.0 41.0 33.0 41.0 26 37.9735 40.0 37.0 41.0 33.0 41.0 27 38.13225 40.0 37.0 41.0 33.0 41.0 28 38.03825 40.0 38.0 41.0 33.0 41.0 29 38.17325 40.0 38.0 41.0 34.0 41.0 30 37.96525 40.0 37.0 41.0 33.0 41.0 31 38.007 40.0 37.0 41.0 33.0 41.0 32 37.94025 40.0 37.0 41.0 33.0 41.0 33 37.9775 40.0 37.0 41.0 33.0 41.0 34 37.88475 40.0 37.0 41.0 33.0 41.0 35 37.70475 40.0 37.0 41.0 32.0 41.0 36 37.69775 40.0 37.0 41.0 32.0 41.0 37 37.47 39.0 37.0 41.0 31.0 41.0 38 36.9505 39.0 36.0 41.0 30.0 41.0 39 37.36 39.0 36.0 41.0 31.0 41.0 40 37.3085 39.0 36.0 41.0 31.0 41.0 41 37.40525 39.0 36.0 41.0 32.0 41.0 42 37.2425 39.0 36.0 41.0 31.0 41.0 43 37.2625 39.0 36.0 41.0 31.0 41.0 44 37.21275 39.0 36.0 41.0 31.0 41.0 45 36.97175 39.0 36.0 41.0 30.0 41.0 46 36.835 39.0 35.0 40.0 30.0 41.0 47 36.3805 39.0 35.0 40.0 29.0 41.0 48 36.37175 38.0 35.0 40.0 30.0 41.0 49 36.7915 39.0 35.0 40.0 30.0 41.0 50 36.86825 39.0 35.0 40.0 30.0 41.0 51 36.695 39.0 35.0 40.0 30.0 41.0 52 35.70425 38.0 34.0 40.0 28.0 41.0 >>END_MODULE >>Per tile sequence quality pass #Tile Base Mean 1112 1 0.0 1112 2 0.0 1112 3 0.0 1112 4 0.0 1112 5 0.0 1112 6 0.0 1112 7 0.0 1112 8 0.0 1112 9 0.0 1112 10 0.0 1112 11 0.0 1112 12 0.0 1112 13 0.0 1112 14 0.0 1112 15 0.0 1112 16 0.0 1112 17 0.0 1112 18 0.0 1112 19 0.0 1112 20 0.0 1112 21 0.0 1112 22 0.0 1112 23 0.0 1112 24 0.0 1112 25 0.0 1112 26 0.0 1112 27 0.0 1112 28 0.0 1112 29 0.0 1112 30 0.0 1112 31 0.0 1112 32 0.0 1112 33 0.0 1112 34 0.0 1112 35 0.0 1112 36 0.0 1112 37 0.0 1112 38 0.0 1112 39 0.0 1112 40 0.0 1112 41 0.0 1112 42 0.0 1112 43 0.0 1112 44 0.0 1112 45 0.0 1112 46 0.0 1112 47 0.0 1112 48 0.0 1112 49 0.0 1112 50 0.0 1112 51 0.0 1112 52 0.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 1.0 21 1.0 22 4.0 23 9.0 24 3.0 25 7.0 26 11.0 27 27.0 28 39.0 29 41.0 30 71.0 31 83.0 32 123.0 33 165.0 34 223.0 35 288.0 36 390.0 37 487.0 38 789.0 39 1234.0 40 4.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 38.93206317372775 11.13060917523189 5.515166708448232 44.42216094259213 2 22.425 15.0 36.15 26.424999999999997 3 21.875 19.275000000000002 23.0 35.85 4 25.825 27.05 20.825 26.3 5 24.375 32.05 22.025 21.55 6 19.425 32.074999999999996 23.25 25.25 7 16.875 23.5 40.875 18.75 8 17.95 22.275 29.825000000000003 29.95 9 18.575 21.0 33.324999999999996 27.1 10 17.65 40.150000000000006 22.6 19.6 11 23.75 27.500000000000004 21.725 27.025 12 22.425 24.775 25.3 27.500000000000004 13 20.825 27.3 28.225 23.65 14 21.7 27.400000000000002 26.3 24.6 15 21.349999999999998 27.35 26.05 25.25 16 21.224999999999998 28.725 26.450000000000003 23.599999999999998 17 22.400000000000002 27.950000000000003 26.200000000000003 23.45 18 20.225 27.800000000000004 26.075 25.900000000000002 19 21.9 26.674999999999997 26.3 25.124999999999996 20 20.625 27.775 26.674999999999997 24.925 21 21.0 27.425 24.8 26.775 22 20.625 28.475 25.924999999999997 24.975 23 21.2 28.725 24.55 25.525 24 21.75 27.425 25.224999999999998 25.6 25 22.075 28.4 24.7 24.825 26 22.325 25.95 26.275 25.45 27 20.925 27.275 26.825 24.975 28 21.375 28.349999999999998 25.674999999999997 24.6 29 21.775 27.625 26.450000000000003 24.15 30 21.3 26.625 27.075 25.0 31 22.1 27.150000000000002 26.35 24.4 32 21.8 26.700000000000003 26.5 25.0 33 21.224999999999998 25.75 27.1 25.924999999999997 34 20.5 27.750000000000004 25.3 26.450000000000003 35 20.45 27.750000000000004 25.900000000000002 25.900000000000002 36 21.7 26.3 25.05 26.950000000000003 37 21.575 26.450000000000003 25.525 26.450000000000003 38 22.475 26.625 25.275 25.624999999999996 39 21.575 25.900000000000002 26.674999999999997 25.85 40 21.625 26.0 26.575 25.8 41 22.0 26.400000000000002 26.5 25.1 42 20.424999999999997 26.825 25.874999999999996 26.875 43 22.125 28.050000000000004 24.4 25.424999999999997 44 22.525000000000002 26.85 25.124999999999996 25.5 45 22.3 26.424999999999997 25.074999999999996 26.200000000000003 46 24.0 25.5 25.15 25.35 47 23.474999999999998 27.025 25.124999999999996 24.375 48 21.575 25.825 26.400000000000002 26.200000000000003 49 20.674999999999997 26.700000000000003 24.925 27.700000000000003 50 21.775 26.325 25.3 26.6 51 21.775 26.075 25.174999999999997 26.974999999999998 52 21.925 27.950000000000003 25.575 24.55 >>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 0.0 14 1.0 15 2.0 16 2.0 17 2.0 18 2.5 19 3.0 20 4.0 21 5.0 22 7.0 23 9.0 24 9.0 25 9.0 26 13.5 27 18.0 28 25.0 29 32.0 30 33.5 31 35.0 32 57.5 33 80.0 34 92.5 35 105.0 36 139.5 37 174.0 38 208.5 39 255.5 40 268.0 41 269.0 42 270.0 43 289.5 44 309.0 45 310.5 46 312.0 47 318.5 48 325.0 49 313.5 50 302.0 51 323.0 52 344.0 53 310.0 54 276.0 55 265.0 56 254.0 57 225.5 58 197.0 59 175.5 60 154.0 61 130.5 62 107.0 63 85.5 64 51.0 65 38.0 66 34.0 67 30.0 68 22.0 69 14.0 70 10.0 71 6.0 72 6.0 73 6.0 74 4.0 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 0.27499999999999997 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 0.0 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 89.7 #Duplication Level Percentage of deduplicated Percentage of total 1 94.20289855072464 84.5 2 3.483835005574136 6.25 3 1.0033444816053512 2.7 4 0.5852842809364548 2.1 5 0.2787068004459309 1.25 6 0.16722408026755853 0.8999999999999999 7 0.027870680044593088 0.17500000000000002 8 0.055741360089186176 0.4 9 0.11148272017837235 0.8999999999999999 >10 0.08361204013377926 0.8250000000000001 >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 12 0.3 No Hit CGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGC 11 0.27499999999999997 No Hit GCCGCCGCAACAGGAGCTGAATATGCAACAGCAATCCAAGGACGCATACCCA 10 0.25 No Hit CGCAGAAGTAGGAATAATGGCACCAGAAATGATATTGTTTCCATAAAGTAGA 9 0.22499999999999998 No Hit GCCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTAC 9 0.22499999999999998 No Hit CCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACT 9 0.22499999999999998 No Hit GTCGTCTGCAAAGGATTCTACCCGCCGCTCGGTGGGAATTGTACTTCAAGGC 9 0.22499999999999998 No Hit CCAGCAACGGGCTCGATGTCGTAGCATCGTCCCTTATAACGATCAAGACTGG 8 0.2 No Hit GTGCATAAGGATGTTGTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTA 8 0.2 No Hit CCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTG 7 0.17500000000000002 No Hit CCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCCCT 6 0.15 No Hit CCCGAAGCCACGGGTAGAACACCCGGTAGAGAGACCCAATCTTGAGTGAAAT 6 0.15 No Hit GGGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCG 6 0.15 No Hit GTCCTAGAAGTGCATGATAAATACCGCCAAAGCCCAATACTGCAGAGGAAAT 6 0.15 No Hit CCCACTTTTTGGTCTTAAGAATGCTGGTTTTAAGAATGAGTGATTGCCCTTC 6 0.15 No Hit GTAGAAGATTCAGCAGCTACTGCGGCCCCTGCTTCCTCGGGCGGAACTCCAG 6 0.15 No Hit CTCGTATTTTCCCCTCTGCCTCGGGTTGTCTCGCGATACCTTCTACAGCTTG 5 0.125 No Hit CCTTCTCCGACCCTTACTGCCCAACCTGAGAGCGGACAGCTAATGCGTTCCA 5 0.125 No Hit GATCAAACTAGAGGTTACCAAAGAACCATGCATAGCACTGAATAGGGAGCCG 5 0.125 No Hit GTTGTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCT 5 0.125 No Hit GCCCCATGTAACAAGCTACACCAAGTAAGAAGTGTAGAACAATTAGCTCATA 5 0.125 No Hit GTCCGCGACCCCTGGATGCCGAAGGCGTCCTTGGGGCGATCTCGTAGTTCCT 5 0.125 No Hit GCCAGACTAAGCAATAAAGTACCTCGTATTTTCCCCTCTGCCTCGGGTTGTC 5 0.125 No Hit CTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAACGGCA 5 0.125 No Hit GTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCC 5 0.125 No Hit CTCAGCCTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGAGGC 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 SRR5423419.sra Written 200000 spots for SRR5423419.sra Read 200000 spots for SRR5423419.sra Written 200000 spots for SRR5423419.sra Read 200000 spots for SRR5423419.sra Written 200000 spots for SRR5423419.sra Read 200000 spots for SRR5423419.sra Written 200000 spots for SRR5423419.sra Read 200000 spots for SRR5423419.sra Written 200000 spots for SRR5423419.sra Read 200000 spots for SRR5423419.sra Written 200000 spots for SRR5423419.sra Read 200000 spots for SRR5423419.sra Written 200000 spots for SRR5423419.sra Read 200000 spots for SRR5423419.sra Written 200000 spots for SRR5423419.sra Read 200000 spots for SRR5423419.sra Written 200000 spots for SRR5423419.sra Read 200000 spots for SRR5423419.sra Written 200000 spots for SRR5423419.sra Read 200000 spots for SRR5423419.sra Written 200000 spots for SRR5423419.sra Read 200000 spots for SRR5423419.sra Written 200000 spots for SRR5423419.sra Read 200000 spots for SRR5423419.sra Written 200000 spots for SRR5423419.sra Read 200000 spots for SRR5423419.sra Written 200000 spots for SRR5423419.sra Read 200000 spots for SRR5423419.sra Written 200000 spots for SRR5423419.sra Read 200000 spots for SRR5423419.sra Written 200000 spots for SRR5423419.sra Read 200000 spots for SRR5423419.sra Written 200000 spots for SRR5423419.sra Read 200000 spots for SRR5423419.sra Written 200000 spots for SRR5423419.sra Read 200000 spots for SRR5423419.sra Written 200000 spots for SRR5423419.sra Read 200000 spots for SRR5423419.sra Written 200000 spots for SRR5423419.sra SRR ids: ['SRR5423419.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_4p1rcitr SRR5423419.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]] SRR5423419 file size 704048 SRR5423419 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 SRR5423419 SRR5423419_1.fastq Input file: SRR5423419_1.fastq trimmed: SRR5423419-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 07:53:12 2025 >> started Thu Feb 13 07:56:44 2025 >> done (211.959s) 4000000 reads processed; of these: 139 ( 0.00%) short reads filtered out after trimming by size control 95 ( 0.00%) empty reads filtered out after trimming by size control 3999766 (99.99%) reads available; of these: 85141 ( 2.13%) trimmed reads available after processing 3914625 (97.87%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 6 0.00% 19 0 0.00% 20 5 0.00% 21 0 0.00% 22 2 0.00% 23 0 0.00% 24 2 0.00% 25 0 0.00% 26 3 0.00% 27 9 0.00% 28 5 0.00% 29 3 0.00% 30 6 0.00% 31 12 0.00% 32 14 0.00% 33 13 0.00% 34 12 0.00% 35 17 0.00% 36 16 0.00% 37 47 0.00% 38 34 0.00% 39 47 0.00% 40 58 0.00% 41 87 0.00% 42 126 0.00% 43 153 0.00% 44 301 0.01% 45 382 0.01% 46 506 0.01% 47 955 0.02% 48 1585 0.04% 49 3502 0.09% 50 10269 0.26% 51 66964 1.67% 52 3914625 97.87% 3999766 reads passed initial QC criterion=sequence-density sequence-density=0.45 sequence-density-rank=1 fanout-score=1.97 fanout-score-rank=29 prefix-density=0.46 prefix-fanout=2.0 sequence=TGCTTAATGACCGCATGTGCAGGTAGTGCAAGTGCAGCCAGTACCGCAGTTGCACTTGCCATCGTTCTCAGCTGCTGGCACCTCCATGAC criterion=fanout-score sequence-density=0.01 sequence-density-rank=30 fanout-score=24.65 fanout-score-rank=1 prefix-density=0.30 prefix-fanout=1.2 sequence=CATTTTATTTCTATCTTTCCATACATAACCAAAAAATGGAAAAGATTCTTCAAGAGTCTCGGGTCCTAGAAGTGCATGATAAATACCGCCAAAGCCCAATACTGCAGAGGAAATTAAGTGAAGTACGCCAGATACAAAGTATGGAAAGGTGTCTATGACTTCCCCGCCAGGACCCACCCCCCAACCTAGAGTAGCTAGGTGGGGAAGTAAAATTAATCCTTGTTCATACATTGGCTTCTCCGGTACGAAATGGGCCACTTCAAATAGGTTCATTGCTCCGGCCCAGAATACGATTAATCCAGCATGGGCTACATGAGCTCCCAGCAG Started job on | Feb 13 08:05:57 Started mapping on | Feb 13 08:06:42 Finished on | Feb 13 08:32:36 Mapping speed, Million of reads per hour | 9.27 Number of input reads | 3999766 Average input read length | 51 UNIQUE READS: Uniquely mapped reads number | 3134851 Uniquely mapped reads % | 78.38% Average mapped length | 51.79 Number of splices: Total | 287519 Number of splices: Annotated (sjdb) | 282895 Number of splices: GT/AG | 280963 Number of splices: GC/AG | 5200 Number of splices: AT/AC | 845 Number of splices: Non-canonical | 511 Mismatch rate per base, % | 0.39% Deletion rate per base | 0.01% Deletion average length | 2.22 Insertion rate per base | 0.00% Insertion average length | 1.35 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 711004 % of reads mapped to multiple loci | 17.78% Number of reads mapped to too many loci | 83809 % of reads mapped to too many loci | 2.10% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.74% % of reads unmapped: other | 0.01% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 153911 153911 153911 N_multimapping 711004 711004 711004 N_noFeature 395626 3089139 429836 N_ambiguous 22158 166 10499 UnstrandedReadsAssigned:2717067 PositiveStrandReadsAssigned:45546 NegativeStrandReadsAssigned:2694516 Dataset is classified negative stranded MeadianReadLen=52 20thPercentileLength=52 echo kmer=47 SRR5423419 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: SRR5423419-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 3,999,766 reads, 3,253,169 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,160 rounds 52401 SRR5423419.ke.tsv 34699 SRR5423419.se.tsv 87100 total ==> SRR5423419.ke.tsv <== target_id length eff_length est_counts tpm Potri.005G200100.1.v4.1 2018 1919 140 20.6032 Potri.005G024800.1.v4.1 1035 936 16 4.82754 Potri.004G059700.1.v4.1 961 862 6 1.96574 Potri.007G009000.2.v4.1 1416 1317 0 0 Potri.003G141000.2.v4.1 2943 2844 57.2906 5.68899 Potri.016G087400.1.v4.1 270 171 17 28.0759 Potri.015G069301.1.v4.1 564 465 0 0 Potri.010G195200.1.v4.1 1773 1674 3 0.506113 Potri.012G127500.1.v4.1 977 878 6 1.92991 ==> SRR5423419.se.tsv <== Potri.001G166300.v4.1 0 Potri.001G448400.v4.1 2 Potri.001G233950.v4.1 0 Potri.001G122700.v4.1 29 Potri.001G212900.v4.1 4 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 SRR5423419 completed mapping pipeline successfully