Starting /dee2/code/volunteer_pipeline.sh SRR5423390 current disk space = 3051625385984 free memory = 1565612684 SRR5423390 SRAfilesize 55db14ff32dc69eb41bfa8993b68bf97 SRR5423390.sra SRR5423390.sra file validated SRR5423390 is single end SRR5423390 is conventional basespace SRR5423390 read1 length is 52 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5423390_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 30.70675 31.0 30.0 33.0 28.0 34.0 2 31.18525 31.0 31.0 34.0 28.0 34.0 3 31.2595 31.0 31.0 34.0 28.0 34.0 4 29.50125 33.0 25.0 37.0 10.0 37.0 5 33.514 35.0 32.0 37.0 28.0 37.0 6 34.59425 35.0 35.0 37.0 32.0 37.0 7 35.257 35.0 35.0 37.0 33.0 37.0 8 35.16275 37.0 35.0 37.0 33.0 37.0 9 36.998 39.0 37.0 39.0 33.0 39.0 10 37.04725 39.0 37.0 39.0 33.0 39.0 11 37.0665 39.0 37.0 39.0 33.0 39.0 12 37.022 39.0 37.0 39.0 33.0 39.0 13 36.8915 39.0 37.0 39.0 33.0 39.0 14 38.1535 40.0 37.0 41.0 33.0 41.0 15 38.233 40.0 38.0 41.0 33.0 41.0 16 38.141 40.0 37.0 41.0 33.0 41.0 17 38.27875 40.0 37.0 41.0 33.0 41.0 18 38.0315 40.0 37.0 41.0 33.0 41.0 19 37.92825 40.0 37.0 41.0 33.0 41.0 20 38.08525 40.0 37.0 41.0 33.0 41.0 21 38.18525 40.0 37.0 41.0 34.0 41.0 22 37.98 40.0 37.0 41.0 33.0 41.0 23 38.0425 40.0 37.0 41.0 33.0 41.0 24 37.8545 40.0 37.0 41.0 32.0 41.0 25 37.623 40.0 37.0 41.0 32.0 41.0 26 37.63625 40.0 37.0 41.0 32.0 41.0 27 37.6795 40.0 37.0 41.0 32.0 41.0 28 37.57275 40.0 37.0 41.0 32.0 41.0 29 37.3975 39.0 36.0 41.0 31.0 41.0 30 37.52525 40.0 37.0 41.0 32.0 41.0 31 37.59125 40.0 37.0 41.0 31.0 41.0 32 37.3845 40.0 36.0 41.0 31.0 41.0 33 37.3135 40.0 36.0 41.0 31.0 41.0 34 37.4955 40.0 37.0 41.0 31.0 41.0 35 37.49 40.0 37.0 41.0 32.0 41.0 36 37.637 40.0 37.0 41.0 32.0 41.0 37 37.53725 40.0 37.0 41.0 31.0 41.0 38 37.38825 40.0 37.0 41.0 31.0 41.0 39 37.39725 39.0 36.0 41.0 31.0 41.0 40 37.474 40.0 36.0 41.0 32.0 41.0 41 37.485 39.0 36.0 41.0 31.0 41.0 42 37.13675 39.0 36.0 41.0 31.0 41.0 43 37.2025 39.0 36.0 40.0 31.0 41.0 44 36.6695 39.0 35.0 40.0 30.0 41.0 45 36.88575 39.0 35.0 40.0 30.0 41.0 46 36.98075 39.0 36.0 40.0 31.0 41.0 47 36.926 39.0 35.0 40.0 31.0 41.0 48 36.96375 39.0 35.0 40.0 31.0 41.0 49 37.00675 39.0 35.0 40.0 31.0 41.0 50 36.72375 39.0 35.0 40.0 30.0 41.0 51 36.7555 39.0 35.0 40.0 30.0 41.0 52 35.5675 38.0 34.0 40.0 28.0 41.0 >>END_MODULE >>Per tile sequence quality pass #Tile Base Mean 1114 1 0.0 1114 2 0.0 1114 3 0.0 1114 4 0.0 1114 5 0.0 1114 6 0.0 1114 7 0.0 1114 8 0.0 1114 9 0.0 1114 10 0.0 1114 11 0.0 1114 12 0.0 1114 13 0.0 1114 14 0.0 1114 15 0.0 1114 16 0.0 1114 17 0.0 1114 18 0.0 1114 19 0.0 1114 20 0.0 1114 21 0.0 1114 22 0.0 1114 23 0.0 1114 24 0.0 1114 25 0.0 1114 26 0.0 1114 27 0.0 1114 28 0.0 1114 29 0.0 1114 30 0.0 1114 31 0.0 1114 32 0.0 1114 33 0.0 1114 34 0.0 1114 35 0.0 1114 36 0.0 1114 37 0.0 1114 38 0.0 1114 39 0.0 1114 40 0.0 1114 41 0.0 1114 42 0.0 1114 43 0.0 1114 44 0.0 1114 45 0.0 1114 46 0.0 1114 47 0.0 1114 48 0.0 1114 49 0.0 1114 50 0.0 1114 51 0.0 1114 52 0.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 9 1.0 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 3.0 22 1.0 23 6.0 24 10.0 25 11.0 26 17.0 27 32.0 28 53.0 29 54.0 30 94.0 31 86.0 32 128.0 33 170.0 34 231.0 35 290.0 36 422.0 37 605.0 38 781.0 39 1004.0 40 1.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 43.311623246492985 14.228456913827655 6.437875751503006 36.02204408817635 2 19.925 16.275000000000002 35.099999999999994 28.7 3 18.85 20.075000000000003 26.474999999999998 34.599999999999994 4 24.3 26.5 24.875 24.325 5 23.625 33.900000000000006 23.200000000000003 19.275000000000002 6 20.349999999999998 36.325 23.1 20.225 7 14.424999999999999 25.15 40.75 19.675 8 17.849999999999998 25.224999999999998 28.475 28.449999999999996 9 18.2 22.1 32.7 27.0 10 19.575 39.0 22.900000000000002 18.525 11 23.1 28.925 20.75 27.224999999999998 12 21.175 24.65 25.474999999999998 28.7 13 20.775 29.2 26.200000000000003 23.825 14 21.9 27.025 27.0 24.075 15 21.725 25.35 26.35 26.575 16 19.825 27.275 27.500000000000004 25.4 17 21.5 26.950000000000003 26.875 24.675 18 21.325 25.35 26.450000000000003 26.875 19 22.625 26.700000000000003 25.424999999999997 25.25 20 21.25 28.7 25.35 24.7 21 20.674999999999997 26.825 26.575 25.924999999999997 22 20.575 28.125 25.424999999999997 25.874999999999996 23 21.325 29.7 24.575 24.4 24 21.7 27.3 25.25 25.75 25 23.075000000000003 27.55 24.325 25.05 26 22.025 26.075 26.474999999999998 25.424999999999997 27 20.549999999999997 27.1 26.55 25.8 28 21.349999999999998 28.9 25.55 24.2 29 20.150000000000002 27.55 26.950000000000003 25.35 30 20.7 27.375 25.35 26.575 31 20.575 28.1 26.424999999999997 24.9 32 20.75 27.825 26.224999999999998 25.2 33 20.549999999999997 25.974999999999998 28.050000000000004 25.424999999999997 34 20.200000000000003 27.750000000000004 25.900000000000002 26.150000000000002 35 20.724999999999998 28.199999999999996 25.35 25.724999999999998 36 20.825 28.199999999999996 23.525 27.450000000000003 37 21.075 26.55 25.25 27.125 38 21.525 27.3 25.874999999999996 25.3 39 21.349999999999998 25.85 25.374999999999996 27.425 40 21.325 27.35 26.025 25.3 41 21.925 27.325 25.924999999999997 24.825 42 20.9 25.650000000000002 27.05 26.400000000000002 43 21.5 27.525 24.8 26.174999999999997 44 21.349999999999998 28.225 25.650000000000002 24.775 45 22.05 27.200000000000003 25.224999999999998 25.525 46 22.5 27.3 24.65 25.55 47 23.625 27.825 24.925 23.625 48 23.3 25.75 25.575 25.374999999999996 49 20.825 26.125 26.724999999999998 26.325 50 21.0 28.675 24.775 25.55 51 22.1 25.474999999999998 26.174999999999997 26.25 52 21.349999999999998 27.825 26.125 24.7 >>END_MODULE >>Per sequence GC content warn #GC Content Count 0 3.0 1 3.0 2 3.0 3 3.0 4 3.0 5 2.0 6 1.0 7 0.5 8 0.0 9 2.0 10 4.0 11 3.0 12 2.0 13 1.0 14 1.0 15 2.0 16 3.0 17 4.0 18 4.5 19 5.0 20 6.5 21 8.0 22 11.0 23 14.0 24 17.0 25 20.0 26 25.5 27 31.0 28 41.0 29 51.0 30 56.5 31 62.0 32 82.0 33 102.0 34 115.5 35 129.0 36 151.5 37 174.0 38 193.5 39 228.0 40 243.0 41 265.0 42 287.0 43 298.0 44 309.0 45 309.0 46 309.0 47 300.5 48 292.0 49 283.0 50 274.0 51 279.5 52 285.0 53 292.5 54 300.0 55 262.0 56 224.0 57 207.0 58 190.0 59 172.0 60 154.0 61 130.5 62 107.0 63 85.5 64 54.5 65 45.0 66 40.5 67 36.0 68 29.5 69 23.0 70 16.5 71 10.0 72 8.0 73 6.0 74 5.0 75 4.0 76 3.5 77 3.0 78 3.0 79 3.0 80 2.0 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 0.0 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 90.25 #Duplication Level Percentage of deduplicated Percentage of total 1 94.29362880886426 85.1 2 3.32409972299169 6.0 3 1.3019390581717452 3.5249999999999995 4 0.443213296398892 1.6 5 0.30470914127423826 1.375 6 0.0554016620498615 0.3 7 0.110803324099723 0.7000000000000001 8 0.0554016620498615 0.4 9 0.0554016620498615 0.44999999999999996 >10 0.0554016620498615 0.5499999999999999 >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 11 0.27499999999999997 No Hit GCCGAATACACCAGCTACGCCTAACATGTGAAATGGGTGCATAAGGATGTTG 11 0.27499999999999997 No Hit CCAGCAACGGGCTCGATGTCGTAGCATCGTCCCTTATAACGATCAAGACTGG 9 0.22499999999999998 No Hit CCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACT 9 0.22499999999999998 No Hit CTCGTACACACTAAGAAAAAAGCCTTATCCATTTACAAAAGTCTTATCCATT 8 0.2 No Hit GCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAGATCA 8 0.2 No Hit GATCAAACTAGAGGTTACCAAAGAACCATGCATAGCACTGAATAGGGAGCCG 7 0.17500000000000002 No Hit CAGGTATTAATTACACGACCTTGACTATCAACTACAGATTGGTTGAAATTGA 7 0.17500000000000002 No Hit GGGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCG 7 0.17500000000000002 No Hit GTAGAAGATTCAGCAGCTACTGCGGCCCCTGCTTCCTCGGGCGGAACTCCAG 7 0.17500000000000002 No Hit CCCAGGTATTAATTACACGACCTTGACTATCAACTACAGATTGGTTGAAATT 6 0.15 No Hit GTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCC 6 0.15 No Hit GTCCCTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAAC 5 0.125 No Hit GCTCAGCCTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGAGG 5 0.125 No Hit GCCGACTCCAACTATCGTCCATGTACGATCCATACTAGATCTGACCAACTGC 5 0.125 No Hit GTCCGCGACCCCTGGATGCCGAAGGCGTCCTTGGGGCGATCTCGTAGTTCCT 5 0.125 No Hit CTTATAACGATCAAGACTGGTAAGCCCGTCGGTCCACACAGTTGTCCATGTA 5 0.125 No Hit CAGCAACGGGCTCGATGTCGTAGCATCGTCCCTTATAACGATCAAGACTGGT 5 0.125 No Hit GGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCGA 5 0.125 No Hit GTGCATAAGGATGTTGTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTA 5 0.125 No Hit ATCAAACTAGAGGTTACCAAAGAACCATGCATAGCACTGAATAGGGAGCCGC 5 0.125 No Hit AGAAGATTCAGCAGCTACTGCGGCCCCTGCTTCCTCGGGCGGAACTCCAGGT 5 0.125 No Hit GTATTAATTACACGACCTTGACTATCAACTACAGATTGGTTGAAATTGAAAC 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 SRR5423390.sra Written 200000 spots for SRR5423390.sra Read 200000 spots for SRR5423390.sra Written 200000 spots for SRR5423390.sra Read 200000 spots for SRR5423390.sra Written 200000 spots for SRR5423390.sra Read 200000 spots for SRR5423390.sra Written 200000 spots for SRR5423390.sra Read 200000 spots for SRR5423390.sra Written 200000 spots for SRR5423390.sra Read 200000 spots for SRR5423390.sra Written 200000 spots for SRR5423390.sra Read 200000 spots for SRR5423390.sra Written 200000 spots for SRR5423390.sra Read 200000 spots for SRR5423390.sra Written 200000 spots for SRR5423390.sra Read 200000 spots for SRR5423390.sra Written 200000 spots for SRR5423390.sra Read 200000 spots for SRR5423390.sra Written 200000 spots for SRR5423390.sra Read 200000 spots for SRR5423390.sra Written 200000 spots for SRR5423390.sra Read 200000 spots for SRR5423390.sra Written 200000 spots for SRR5423390.sra Read 200000 spots for SRR5423390.sra Written 200000 spots for SRR5423390.sra Read 200000 spots for SRR5423390.sra Written 200000 spots for SRR5423390.sra Read 200000 spots for SRR5423390.sra Written 200000 spots for SRR5423390.sra Read 200000 spots for SRR5423390.sra Written 200000 spots for SRR5423390.sra Read 200000 spots for SRR5423390.sra Written 200000 spots for SRR5423390.sra Read 200000 spots for SRR5423390.sra Written 200000 spots for SRR5423390.sra Read 200000 spots for SRR5423390.sra Written 200000 spots for SRR5423390.sra Read 200000 spots for SRR5423390.sra Written 200000 spots for SRR5423390.sra SRR ids: ['SRR5423390.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_eztmc_n6 SRR5423390.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]] SRR5423390 file size 703986 SRR5423390 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 SRR5423390 SRR5423390_1.fastq Input file: SRR5423390_1.fastq trimmed: SRR5423390-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 05:08:58 2025 >> started Thu Feb 13 05:13:01 2025 >> done (243.432s) 4000000 reads processed; of these: 96 ( 0.00%) short reads filtered out after trimming by size control 853 ( 0.02%) empty reads filtered out after trimming by size control 3999051 (99.98%) reads available; of these: 101211 ( 2.53%) trimmed reads available after processing 3897840 (97.47%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 7 0.00% 19 8 0.00% 20 3 0.00% 21 2 0.00% 22 2 0.00% 23 4 0.00% 24 5 0.00% 25 2 0.00% 26 7 0.00% 27 11 0.00% 28 13 0.00% 29 11 0.00% 30 11 0.00% 31 10 0.00% 32 22 0.00% 33 20 0.00% 34 29 0.00% 35 34 0.00% 36 30 0.00% 37 49 0.00% 38 69 0.00% 39 96 0.00% 40 87 0.00% 41 121 0.00% 42 179 0.00% 43 231 0.01% 44 340 0.01% 45 485 0.01% 46 670 0.02% 47 1113 0.03% 48 2089 0.05% 49 4520 0.11% 50 12972 0.32% 51 77959 1.95% 52 3897840 97.47% 3999051 reads passed initial QC criterion=sequence-density sequence-density=0.36 sequence-density-rank=1 fanout-score=1.92 fanout-score-rank=25 prefix-density=0.34 prefix-fanout=1.9 sequence=TGGCACCGGCCCGTAATCCTTCCACTGCCAGGAGCGGGAGGTGATCGCTGCTCTGTGAGACCAGCCTCACGCTGTGCCCTCCCCTCTAGGAGCCACGACACC criterion=fanout-score sequence-density=0.04 sequence-density-rank=20 fanout-score=12.84 fanout-score-rank=1 prefix-density=0.19 prefix-fanout=2.6 sequence=GAGCTTCACCGTGTATGCTGCCATTGCTTTAACACGTCCTCCTCGACTGGCTTTCAAGCCAAGAAGAGACTCCCCCACGTTGGGAAGTGCCCGTAGGCTTGTCACTGGCACCCGGCGAGTAAACGATGTGCTGACCATGGCGCTGGAGAGGGCTGCTGTGGTGGCCAT Started job on | Feb 13 05:17:42 Started mapping on | Feb 13 05:17:57 Finished on | Feb 13 05:42:09 Mapping speed, Million of reads per hour | 9.92 Number of input reads | 3999051 Average input read length | 51 UNIQUE READS: Uniquely mapped reads number | 3001011 Uniquely mapped reads % | 75.04% Average mapped length | 51.78 Number of splices: Total | 257682 Number of splices: Annotated (sjdb) | 254369 Number of splices: GT/AG | 249970 Number of splices: GC/AG | 6283 Number of splices: AT/AC | 759 Number of splices: Non-canonical | 670 Mismatch rate per base, % | 0.48% Deletion rate per base | 0.01% Deletion average length | 2.35 Insertion rate per base | 0.00% Insertion average length | 1.32 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 844876 % of reads mapped to multiple loci | 21.13% Number of reads mapped to too many loci | 73289 % of reads mapped to too many loci | 1.83% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.88% % of reads unmapped: other | 0.12% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 153164 153164 153164 N_multimapping 844876 844876 844876 N_noFeature 452230 2931243 511068 N_ambiguous 22219 172 11128 UnstrandedReadsAssigned:2526562 PositiveStrandReadsAssigned:69596 NegativeStrandReadsAssigned:2478815 Dataset is classified negative stranded MeadianReadLen=52 20thPercentileLength=52 echo kmer=47 SRR5423390 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: SRR5423390-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 3,999,051 reads, 3,130,481 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,082 rounds 52401 SRR5423390.ke.tsv 34699 SRR5423390.se.tsv 87100 total ==> SRR5423390.ke.tsv <== target_id length eff_length est_counts tpm Potri.005G200100.1.v4.1 2018 1919 84 11.8001 Potri.005G024800.1.v4.1 1035 936 4 1.15203 Potri.004G059700.1.v4.1 961 862 4 1.25093 Potri.007G009000.2.v4.1 1416 1317 0 0 Potri.003G141000.2.v4.1 2943 2844 72.0611 6.83048 Potri.016G087400.1.v4.1 270 171 16 25.2234 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 5 1.53517 ==> SRR5423390.se.tsv <== Potri.001G166300.v4.1 0 Potri.001G448400.v4.1 5 Potri.001G233950.v4.1 0 Potri.001G122700.v4.1 15 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 0 SRR5423390 completed mapping pipeline successfully