Starting /dee2/code/volunteer_pipeline.sh SRR5423421 current disk space = 3053634260992 free memory = 1574269944 SRR5423421 SRAfilesize 6b3869dc1f4541e0117edcc9a2440bb4 SRR5423421.sra SRR5423421.sra file validated SRR5423421 is single end SRR5423421 is conventional basespace SRR5423421 read1 length is 52 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5423421_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 32.627 34.0 31.0 34.0 31.0 34.0 2 32.6805 34.0 31.0 34.0 31.0 34.0 3 32.793 34.0 31.0 34.0 31.0 34.0 4 36.20675 37.0 37.0 37.0 35.0 37.0 5 36.2265 37.0 37.0 37.0 35.0 37.0 6 36.12125 37.0 36.0 37.0 35.0 37.0 7 36.1725 37.0 36.0 37.0 35.0 37.0 8 36.12175 37.0 36.0 37.0 35.0 37.0 9 37.89375 39.0 38.0 39.0 35.0 39.0 10 37.75475 39.0 38.0 39.0 35.0 39.0 11 37.7995 39.0 38.0 39.0 35.0 39.0 12 37.87925 39.0 38.0 39.0 35.0 39.0 13 37.77225 39.0 38.0 39.0 35.0 39.0 14 39.23075 40.0 39.0 41.0 36.0 41.0 15 39.20275 40.0 39.0 41.0 36.0 41.0 16 39.14525 40.0 39.0 41.0 36.0 41.0 17 39.1845 40.0 39.0 41.0 36.0 41.0 18 39.25925 40.0 39.0 41.0 36.0 41.0 19 39.123 40.0 39.0 41.0 36.0 41.0 20 39.2 40.0 39.0 41.0 36.0 41.0 21 39.166 40.0 39.0 41.0 36.0 41.0 22 39.12925 40.0 39.0 41.0 36.0 41.0 23 39.12675 40.0 39.0 41.0 36.0 41.0 24 39.122 40.0 39.0 41.0 36.0 41.0 25 39.0335 40.0 39.0 41.0 36.0 41.0 26 39.0615 40.0 39.0 41.0 36.0 41.0 27 38.949 40.0 39.0 41.0 35.0 41.0 28 39.0015 40.0 39.0 41.0 36.0 41.0 29 39.0385 40.0 39.0 41.0 36.0 41.0 30 38.869 40.0 39.0 41.0 35.0 41.0 31 38.77825 40.0 38.0 41.0 35.0 41.0 32 38.804 40.0 38.0 41.0 35.0 41.0 33 38.7105 40.0 38.0 41.0 35.0 41.0 34 38.73725 40.0 38.0 41.0 35.0 41.0 35 38.609 40.0 38.0 41.0 34.0 41.0 36 38.514 40.0 38.0 41.0 34.0 41.0 37 38.388 40.0 38.0 41.0 34.0 41.0 38 38.3585 40.0 38.0 41.0 34.0 41.0 39 38.431 40.0 38.0 41.0 34.0 41.0 40 38.347 40.0 38.0 41.0 34.0 41.0 41 37.99675 40.0 38.0 41.0 33.0 41.0 42 38.0315 40.0 38.0 41.0 33.0 41.0 43 38.004 40.0 38.0 41.0 33.0 41.0 44 38.00625 40.0 38.0 41.0 33.0 41.0 45 37.97075 40.0 38.0 41.0 33.0 41.0 46 37.8495 40.0 37.0 41.0 33.0 41.0 47 37.74275 40.0 37.0 41.0 33.0 41.0 48 37.75525 40.0 37.0 41.0 33.0 41.0 49 37.637 40.0 37.0 41.0 33.0 41.0 50 37.576 40.0 37.0 41.0 32.0 41.0 51 37.481 40.0 37.0 41.0 32.0 41.0 52 35.978 38.0 34.0 40.0 28.0 41.0 >>END_MODULE >>Per tile sequence quality pass #Tile Base Mean 1302 1 0.0 1302 2 0.0 1302 3 0.0 1302 4 0.0 1302 5 0.0 1302 6 0.0 1302 7 0.0 1302 8 0.0 1302 9 0.0 1302 10 0.0 1302 11 0.0 1302 12 0.0 1302 13 0.0 1302 14 0.0 1302 15 0.0 1302 16 0.0 1302 17 0.0 1302 18 0.0 1302 19 0.0 1302 20 0.0 1302 21 0.0 1302 22 0.0 1302 23 0.0 1302 24 0.0 1302 25 0.0 1302 26 0.0 1302 27 0.0 1302 28 0.0 1302 29 0.0 1302 30 0.0 1302 31 0.0 1302 32 0.0 1302 33 0.0 1302 34 0.0 1302 35 0.0 1302 36 0.0 1302 37 0.0 1302 38 0.0 1302 39 0.0 1302 40 0.0 1302 41 0.0 1302 42 0.0 1302 43 0.0 1302 44 0.0 1302 45 0.0 1302 46 0.0 1302 47 0.0 1302 48 0.0 1302 49 0.0 1302 50 0.0 1302 51 0.0 1302 52 0.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 10 2.0 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 1.0 22 2.0 23 4.0 24 8.0 25 12.0 26 14.0 27 10.0 28 25.0 29 39.0 30 40.0 31 45.0 32 59.0 33 86.0 34 111.0 35 162.0 36 246.0 37 388.0 38 738.0 39 2003.0 40 5.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 38.36131295414683 9.99749436231521 5.437233775995991 46.20395890754197 2 22.45 14.000000000000002 35.675000000000004 27.875 3 20.424999999999997 17.474999999999998 23.45 38.65 4 26.6 25.85 20.3 27.250000000000004 5 24.525 30.075000000000003 23.35 22.05 6 18.625 32.525 25.575 23.275000000000002 7 15.425 23.3 40.825 20.45 8 17.724999999999998 21.775 31.25 29.25 9 17.9 21.875 33.0 27.224999999999998 10 17.974999999999998 38.3 24.6 19.125 11 22.7 29.549999999999997 21.275 26.474999999999998 12 22.875 24.3 25.275 27.55 13 19.25 27.250000000000004 28.425 25.074999999999996 14 20.075000000000003 29.349999999999998 27.825 22.75 15 20.849999999999998 27.075 26.474999999999998 25.6 16 21.375 27.400000000000002 26.6 24.625 17 22.425 26.974999999999998 26.575 24.025 18 21.725 26.700000000000003 26.55 25.025 19 21.875 28.025 25.55 24.55 20 21.275 27.250000000000004 26.200000000000003 25.275 21 21.275 26.85 25.6 26.275 22 21.275 27.35 24.45 26.924999999999997 23 21.8 27.075 25.3 25.825 24 21.275 26.75 25.974999999999998 26.0 25 21.55 27.35 24.575 26.525 26 22.45 26.224999999999998 27.224999999999998 24.099999999999998 27 21.65 27.325 25.874999999999996 25.15 28 21.95 26.85 26.625 24.575 29 21.425 26.650000000000002 27.425 24.5 30 19.6 26.375 27.575 26.450000000000003 31 20.0 28.325 26.05 25.624999999999996 32 21.75 26.400000000000002 25.575 26.275 33 19.875 26.525 27.6 26.0 34 21.224999999999998 26.875 26.35 25.55 35 21.15 26.025 25.874999999999996 26.950000000000003 36 20.925 28.050000000000004 23.7 27.325 37 21.6 26.424999999999997 25.35 26.625 38 21.175 25.5 26.474999999999998 26.85 39 20.849999999999998 25.674999999999997 26.400000000000002 27.075 40 22.025 27.325 25.674999999999997 24.975 41 21.099999999999998 27.125 25.324999999999996 26.450000000000003 42 20.599999999999998 25.775 26.0 27.625 43 21.425 26.8 25.85 25.924999999999997 44 23.400000000000002 27.400000000000002 24.425 24.775 45 22.35 25.6 24.8 27.250000000000004 46 22.650000000000002 27.224999999999998 24.275 25.85 47 23.200000000000003 27.525 24.55 24.725 48 22.275 27.675 25.7 24.349999999999998 49 21.45 27.500000000000004 23.674999999999997 27.375 50 21.625 27.05 24.8 26.525 51 21.3 24.349999999999998 25.7 28.65 52 22.575 26.150000000000002 24.725 26.55 >>END_MODULE >>Per sequence GC content warn #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 0.5 10 1.0 11 0.5 12 0.0 13 0.5 14 1.5 15 2.0 16 3.0 17 4.0 18 3.0 19 2.0 20 3.0 21 4.0 22 5.0 23 6.0 24 10.0 25 14.0 26 16.5 27 19.0 28 27.5 29 36.0 30 42.5 31 49.0 32 58.5 33 68.0 34 90.5 35 113.0 36 132.5 37 152.0 38 183.0 39 222.0 40 230.0 41 249.0 42 268.0 43 293.5 44 319.0 45 334.5 46 350.0 47 338.0 48 326.0 49 320.0 50 314.0 51 314.0 52 314.0 53 322.0 54 330.0 55 281.0 56 232.0 57 207.5 58 183.0 59 175.0 60 167.0 61 140.5 62 114.0 63 87.5 64 55.0 65 49.0 66 37.0 67 25.0 68 20.0 69 15.0 70 13.0 71 11.0 72 8.0 73 5.0 74 3.0 75 1.0 76 1.0 77 1.0 78 0.5 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 0.22499999999999998 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 89.5 #Duplication Level Percentage of deduplicated Percentage of total 1 93.96648044692736 84.1 2 3.6592178770949726 6.550000000000001 3 0.9776536312849162 2.625 4 0.5307262569832402 1.9 5 0.41899441340782123 1.875 6 0.16759776536312848 0.8999999999999999 7 0.13966480446927373 0.8750000000000001 8 0.055865921787709494 0.4 9 0.027932960893854747 0.22499999999999998 >10 0.055865921787709494 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 12 0.3 No Hit GGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCGA 10 0.25 No Hit CCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACT 9 0.22499999999999998 No Hit GGGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCG 8 0.2 No Hit GCTGGTTTTAAGAATGAGTGATTGCCCTTCTCCGACCCTTACTGCCCAACCT 8 0.2 No Hit GCCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTAC 7 0.17500000000000002 No Hit GTCGCGTATTTAAGTCGTCTGCAAAGGATTCTACCCGCCGCTCGGTGGGAAT 7 0.17500000000000002 No Hit GCCTAACATGTGAAATGGGTGCATAAGGATGTTGTGCTCAGCCTGGAATACA 7 0.17500000000000002 No Hit GTCCTAGAAGTGCATGATAAATACCGCCAAAGCCCAATACTGCAGAGGAAAT 7 0.17500000000000002 No Hit ATCAAACTAGAGGTTACCAAAGAACCATGCATAGCACTGAATAGGGAGCCGC 7 0.17500000000000002 No Hit GTCCCTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAAC 6 0.15 No Hit CTCACGAGCAAGATCACGTCCCTCATTACGAGCTTGTACACATGCTTCTAGA 6 0.15 No Hit CTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAACGGCA 6 0.15 No Hit GGCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAGATC 6 0.15 No Hit GTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCC 6 0.15 No Hit AGCACGGTTAATAATATCAGCCCAGGTATTAATTACACGACCTTGACTATCA 6 0.15 No Hit GTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCCCTGCTTCCTCGG 5 0.125 No Hit GTTGTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCT 5 0.125 No Hit CGCGTATTTAAGTCGTCTGCAAAGGATTCTACCCGCCGCTCGGTGGGAATTG 5 0.125 No Hit GCCGCCGCAACAGGAGCTGAATATGCAACAGCAATCCAAGGACGCATACCCA 5 0.125 No Hit GCATAAGGATGTTGTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTACC 5 0.125 No Hit CACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCCCTG 5 0.125 No Hit CTGCAAAGGATTCTACCCGCCGCTCGGTGGGAATTGTACTTCAAGGCGGCCC 5 0.125 No Hit CCCGAAGCCACGGGTAGAACACCCGGTAGAGAGACCCAATCTTGAGTGAAAT 5 0.125 No Hit GTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGA 5 0.125 No Hit CCAGCAACGGGCTCGATGTCGTAGCATCGTCCCTTATAACGATCAAGACTGG 5 0.125 No Hit CTCGTACACACTAAGAAAAAAGCCTTATCCATTTACAAAAGTCTTATCCATT 5 0.125 No Hit CTCCAGCAACGGGCTCGATGTCGTAGCATCGTCCCTTATAACGATCAAGACT 5 0.125 No Hit GCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAGATCA 5 0.125 No Hit GCCAGATACAAAGTATGGAAAGGTGTCTATGACTTCCCCGCCAGGACCCACC 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 SRR5423421.sra Written 200000 spots for SRR5423421.sra Read 200000 spots for SRR5423421.sra Written 200000 spots for SRR5423421.sra Read 200000 spots for SRR5423421.sra Written 200000 spots for SRR5423421.sra Read 200000 spots for SRR5423421.sra Written 200000 spots for SRR5423421.sra Read 200000 spots for SRR5423421.sra Written 200000 spots for SRR5423421.sra Read 200000 spots for SRR5423421.sra Written 200000 spots for SRR5423421.sra Read 200000 spots for SRR5423421.sra Written 200000 spots for SRR5423421.sra Read 200000 spots for SRR5423421.sra Written 200000 spots for SRR5423421.sra Read 200000 spots for SRR5423421.sra Written 200000 spots for SRR5423421.sra Read 200000 spots for SRR5423421.sra Written 200000 spots for SRR5423421.sra Read 200000 spots for SRR5423421.sra Written 200000 spots for SRR5423421.sra Read 200000 spots for SRR5423421.sra Written 200000 spots for SRR5423421.sra Read 200000 spots for SRR5423421.sra Written 200000 spots for SRR5423421.sra Read 200000 spots for SRR5423421.sra Written 200000 spots for SRR5423421.sra Read 200000 spots for SRR5423421.sra Written 200000 spots for SRR5423421.sra Read 200000 spots for SRR5423421.sra Written 200000 spots for SRR5423421.sra Read 200000 spots for SRR5423421.sra Written 200000 spots for SRR5423421.sra Read 200000 spots for SRR5423421.sra Written 200000 spots for SRR5423421.sra Read 200000 spots for SRR5423421.sra Written 200000 spots for SRR5423421.sra Read 200000 spots for SRR5423421.sra Written 200000 spots for SRR5423421.sra SRR ids: ['SRR5423421.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_hgx1u0lz SRR5423421.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]] SRR5423421 file size 703966 SRR5423421 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 SRR5423421 SRR5423421_1.fastq Input file: SRR5423421_1.fastq trimmed: SRR5423421-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 08:14:16 2025 >> started Thu Feb 13 08:23:57 2025 >> done (580.992s) 4000000 reads processed; of these: 170 ( 0.00%) short reads filtered out after trimming by size control 82 ( 0.00%) empty reads filtered out after trimming by size control 3999748 (99.99%) reads available; of these: 65713 ( 1.64%) trimmed reads available after processing 3934035 (98.36%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 10 0.00% 19 5 0.00% 20 7 0.00% 21 2 0.00% 22 2 0.00% 23 1 0.00% 24 3 0.00% 25 2 0.00% 26 0 0.00% 27 4 0.00% 28 1 0.00% 29 1 0.00% 30 6 0.00% 31 9 0.00% 32 2 0.00% 33 12 0.00% 34 12 0.00% 35 16 0.00% 36 23 0.00% 37 23 0.00% 38 27 0.00% 39 25 0.00% 40 52 0.00% 41 63 0.00% 42 80 0.00% 43 122 0.00% 44 201 0.01% 45 264 0.01% 46 346 0.01% 47 572 0.01% 48 1142 0.03% 49 2664 0.07% 50 7866 0.20% 51 52148 1.30% 52 3934035 98.36% 3999748 reads passed initial QC criterion=sequence-density sequence-density=0.46 sequence-density-rank=1 fanout-score=2.02 fanout-score-rank=30 prefix-density=0.47 prefix-fanout=2.0 sequence=TGCTTAATGACCGCATGTGCAGGTAGTGCAAGTGCAGCCAGTACCGCAGTTGCACTTGCCATCGTTCTCAGCTGCTGGCACCTCCATGAC criterion=fanout-score sequence-density=0.01 sequence-density-rank=30 fanout-score=29.12 fanout-score-rank=1 prefix-density=0.31 prefix-fanout=1.2 sequence=CATTTTATTTCTATCTTTCCATACATAACCAAAAAATGGAAAAGATTCTTCAAGAGTCTCGGGTCCTAGAAGTGCATGATAAATACCGCCAAAGCCCAATACTGCAGAGGAAATTAAGTGAAGTACGCCAGATACAAAGTATGGAAAGGTGTCTATGACTTCCCCGCCAGGACCCACCCCCCAACCTAGAGTAGCTAGGTGGGGAAGTAAAATTAATCCTTGTTCATACATTGGCTTCTCCGGTACGAAATGGGCCACTTCAAATAGGTTCATTGCTCCGGCCCAGAATACGATTAATCCAGCATGGGCTACATGAGCTCCCAGCAG Started job on | Feb 13 08:31:32 Started mapping on | Feb 13 08:31:54 Finished on | Feb 13 09:25:56 Mapping speed, Million of reads per hour | 4.44 Number of input reads | 3999748 Average input read length | 51 UNIQUE READS: Uniquely mapped reads number | 3137424 Uniquely mapped reads % | 78.44% Average mapped length | 51.80 Number of splices: Total | 288646 Number of splices: Annotated (sjdb) | 284009 Number of splices: GT/AG | 281974 Number of splices: GC/AG | 5411 Number of splices: AT/AC | 788 Number of splices: Non-canonical | 473 Mismatch rate per base, % | 0.29% Deletion rate per base | 0.01% Deletion average length | 2.21 Insertion rate per base | 0.00% Insertion average length | 1.36 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 708730 % of reads mapped to multiple loci | 17.72% Number of reads mapped to too many loci | 85250 % of reads mapped to too many loci | 2.13% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.70% % of reads unmapped: other | 0.01% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 153594 153594 153594 N_multimapping 708730 708730 708730 N_noFeature 395637 3091619 430232 N_ambiguous 21911 174 10538 UnstrandedReadsAssigned:2719876 PositiveStrandReadsAssigned:45631 NegativeStrandReadsAssigned:2696654 Dataset is classified negative stranded MeadianReadLen=52 20thPercentileLength=52 echo kmer=47 SRR5423421 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: SRR5423421-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 3,999,748 reads, 3,288,876 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,085 rounds 52401 SRR5423421.ke.tsv 34699 SRR5423421.se.tsv 87100 total ==> SRR5423421.ke.tsv <== target_id length eff_length est_counts tpm Potri.005G200100.1.v4.1 2018 1919 140 20.3622 Potri.005G024800.1.v4.1 1035 936 21 6.26202 Potri.004G059700.1.v4.1 961 862 7 2.26653 Potri.007G009000.2.v4.1 1416 1317 0 0 Potri.003G141000.2.v4.1 2943 2844 58.324 5.72386 Potri.016G087400.1.v4.1 270 171 15 24.4831 Potri.015G069301.1.v4.1 564 465 0 0 Potri.010G195200.1.v4.1 1773 1674 2 0.333462 Potri.012G127500.1.v4.1 977 878 6 1.90734 ==> SRR5423421.se.tsv <== Potri.001G166300.v4.1 0 Potri.001G448400.v4.1 1 Potri.001G233950.v4.1 0 Potri.001G122700.v4.1 36 Potri.001G212900.v4.1 2 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 SRR5423421 completed mapping pipeline successfully