Starting /dee2/code/volunteer_pipeline.sh SRR5423429 current disk space = 3051195977728 free memory = 1582256244 SRR5423429 SRAfilesize bc7a21933712280d09a4ea06a54fb2e5 SRR5423429.sra SRR5423429.sra file validated SRR5423429 is single end SRR5423429 is conventional basespace SRR5423429 read1 length is 52 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5423429_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 32.0755 34.0 31.0 34.0 30.0 34.0 2 32.12075 34.0 31.0 34.0 30.0 34.0 3 32.29925 34.0 31.0 34.0 30.0 34.0 4 35.816 37.0 35.0 37.0 35.0 37.0 5 35.78525 37.0 35.0 37.0 33.0 37.0 6 35.792 37.0 35.0 37.0 35.0 37.0 7 35.779 37.0 35.0 37.0 35.0 37.0 8 35.80175 37.0 35.0 37.0 35.0 37.0 9 37.46725 39.0 37.0 39.0 35.0 39.0 10 37.3825 39.0 37.0 39.0 34.0 39.0 11 37.43825 39.0 37.0 39.0 34.0 39.0 12 37.34975 39.0 37.0 39.0 34.0 39.0 13 37.3475 39.0 37.0 39.0 34.0 39.0 14 38.69225 40.0 38.0 41.0 34.0 41.0 15 38.80725 40.0 38.0 41.0 35.0 41.0 16 38.7795 40.0 38.0 41.0 34.0 41.0 17 38.80175 40.0 38.0 41.0 35.0 41.0 18 38.6705 40.0 38.0 41.0 34.0 41.0 19 38.691 40.0 38.0 41.0 34.0 41.0 20 38.648 40.0 38.0 41.0 34.0 41.0 21 38.6135 40.0 38.0 41.0 34.0 41.0 22 38.6295 40.0 38.0 41.0 34.0 41.0 23 38.19675 40.0 38.0 41.0 33.0 41.0 24 38.56 40.0 38.0 41.0 34.0 41.0 25 38.41925 40.0 38.0 41.0 34.0 41.0 26 38.58825 40.0 38.0 41.0 34.0 41.0 27 38.43175 40.0 38.0 41.0 34.0 41.0 28 38.05775 40.0 38.0 41.0 33.0 41.0 29 37.8345 40.0 37.0 41.0 32.0 41.0 30 38.181 40.0 38.0 41.0 34.0 41.0 31 38.20675 40.0 38.0 41.0 33.0 41.0 32 37.99325 40.0 38.0 41.0 33.0 41.0 33 38.0115 40.0 38.0 41.0 33.0 41.0 34 38.09925 40.0 38.0 41.0 33.0 41.0 35 38.06675 40.0 38.0 41.0 33.0 41.0 36 37.97125 40.0 38.0 41.0 33.0 41.0 37 37.737 40.0 37.0 41.0 32.0 41.0 38 37.551 40.0 37.0 41.0 31.0 41.0 39 37.69775 40.0 37.0 41.0 32.0 41.0 40 37.71375 40.0 37.0 41.0 32.0 41.0 41 37.65825 40.0 37.0 41.0 32.0 41.0 42 37.66525 40.0 37.0 41.0 32.0 41.0 43 37.55375 40.0 37.0 41.0 32.0 41.0 44 37.42275 40.0 37.0 41.0 31.0 41.0 45 37.478 40.0 37.0 41.0 31.0 41.0 46 37.4585 40.0 37.0 41.0 32.0 41.0 47 36.874 39.0 36.0 41.0 30.0 41.0 48 37.004 40.0 36.0 41.0 30.0 41.0 49 37.11075 39.0 36.0 41.0 31.0 41.0 50 36.85225 39.0 36.0 41.0 30.0 41.0 51 36.82375 39.0 35.0 41.0 30.0 41.0 52 35.40875 38.0 34.0 40.0 26.0 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 15 1.0 16 0.0 17 0.0 18 0.0 19 0.0 20 0.0 21 3.0 22 3.0 23 3.0 24 9.0 25 13.0 26 20.0 27 21.0 28 30.0 29 60.0 30 62.0 31 67.0 32 113.0 33 137.0 34 162.0 35 209.0 36 308.0 37 416.0 38 717.0 39 1636.0 40 10.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 38.60045146726862 10.960622021570103 5.166792074241284 45.27213443691999 2 23.375 15.1 34.425 27.1 3 20.925 17.299999999999997 23.974999999999998 37.8 4 25.275 26.25 20.275000000000002 28.199999999999996 5 24.425 31.35 23.05 21.175 6 19.2 32.95 24.7 23.150000000000002 7 15.625 23.5 40.275 20.599999999999998 8 17.675 22.7 30.775000000000002 28.849999999999998 9 17.275 21.425 33.475 27.825 10 18.15 37.625 24.325 19.900000000000002 11 22.475 28.225 21.775 27.525 12 20.825 24.75 27.35 27.075 13 19.425 28.050000000000004 26.85 25.674999999999997 14 20.599999999999998 28.15 27.625 23.625 15 20.575 26.875 28.199999999999996 24.349999999999998 16 20.925 27.375 26.775 24.925 17 22.025 26.85 26.775 24.349999999999998 18 21.475 25.8 26.0 26.724999999999998 19 20.875 28.275 25.275 25.575 20 21.3 26.900000000000002 26.6 25.2 21 21.3 26.25 25.8 26.650000000000002 22 21.15 29.049999999999997 24.675 25.124999999999996 23 22.275 28.825 25.624999999999996 23.275000000000002 24 21.325 26.625 25.95 26.1 25 21.875 27.800000000000004 24.925 25.4 26 22.900000000000002 26.974999999999998 25.75 24.375 27 20.724999999999998 26.625 26.424999999999997 26.224999999999998 28 22.95 26.950000000000003 26.55 23.549999999999997 29 21.025 27.525 27.1 24.349999999999998 30 19.7 27.05 26.825 26.424999999999997 31 20.225 28.375 26.450000000000003 24.95 32 21.15 27.925 26.275 24.65 33 20.575 26.0 27.425 26.0 34 20.474999999999998 26.150000000000002 26.325 27.05 35 19.5 28.125 25.874999999999996 26.5 36 21.075 26.150000000000002 25.8 26.974999999999998 37 21.2 26.700000000000003 25.825 26.275 38 22.15 25.0 25.7 27.150000000000002 39 21.825 24.4 26.325 27.450000000000003 40 20.200000000000003 27.474999999999998 26.275 26.05 41 21.775 26.05 26.474999999999998 25.7 42 20.8 26.75 25.374999999999996 27.075 43 22.175 26.35 25.0 26.474999999999998 44 22.075 28.025 25.95 23.95 45 22.400000000000002 25.674999999999997 25.55 26.375 46 23.25 26.224999999999998 24.65 25.874999999999996 47 23.549999999999997 27.075 24.55 24.825 48 23.025000000000002 25.874999999999996 25.874999999999996 25.224999999999998 49 22.45 25.924999999999997 25.025 26.6 50 23.575 27.400000000000002 24.6 24.425 51 22.975 25.55 24.3 27.175 52 22.95 26.924999999999997 25.525 24.6 >>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 0.0 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 1.5 17 3.0 18 4.0 19 5.0 20 7.0 21 9.0 22 9.0 23 9.0 24 8.5 25 8.0 26 18.5 27 29.0 28 26.5 29 24.0 30 36.5 31 49.0 32 58.5 33 68.0 34 90.0 35 112.0 36 136.0 37 160.0 38 194.5 39 235.5 40 242.0 41 244.5 42 247.0 43 282.5 44 318.0 45 329.0 46 340.0 47 343.0 48 346.0 49 346.0 50 346.0 51 331.5 52 317.0 53 306.5 54 296.0 55 275.0 56 254.0 57 215.0 58 176.0 59 164.0 60 152.0 61 124.5 62 97.0 63 83.0 64 49.5 65 30.0 66 30.0 67 30.0 68 21.5 69 13.0 70 12.5 71 12.0 72 8.0 73 4.0 74 4.0 75 4.0 76 2.5 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 0.325 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 88.97500000000001 #Duplication Level Percentage of deduplicated Percentage of total 1 93.90278168024726 83.55 2 3.737004776622647 6.65 3 0.9272267490868222 2.475 4 0.5338578252318067 1.9 5 0.3652711435796572 1.625 6 0.14048890137679124 0.75 7 0.1685866816521495 1.05 8 0.14048890137679124 1.0 9 0.02809778027535825 0.22499999999999998 >10 0.0561955605507165 0.775 >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 20 0.5 No Hit GGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCGA 11 0.27499999999999997 No Hit GGGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCG 9 0.22499999999999998 No Hit CTCGTATTTTCCCCTCTGCCTCGGGTTGTCTCGCGATACCTTCTACAGCTTG 8 0.2 No Hit CTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAACGGCA 8 0.2 No Hit CTCTGCCTCGGGTTGTCTCGCGATACCTTCTACAGCTTGGCCCGCAGCAGTA 8 0.2 No Hit GGGTGCATAAGGATGTTGTGCTCAGCCTGGAATACAATCATAAAGTTAAAAG 8 0.2 No Hit GCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAGATCA 8 0.2 No Hit CGCAGAAGTAGGAATAATGGCACCAGAAATGATATTGTTTCCATAAAGTAGA 7 0.17500000000000002 No Hit CCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCCCT 7 0.17500000000000002 No Hit GTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGA 7 0.17500000000000002 No Hit GTCCTAGAAGTGCATGATAAATACCGCCAAAGCCCAATACTGCAGAGGAAAT 7 0.17500000000000002 No Hit GTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCC 7 0.17500000000000002 No Hit AGCACGGTTAATAATATCAGCCCAGGTATTAATTACACGACCTTGACTATCA 7 0.17500000000000002 No Hit GCCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTAC 6 0.15 No Hit GTCGCGTATTTAAGTCGTCTGCAAAGGATTCTACCCGCCGCTCGGTGGGAAT 6 0.15 No Hit GCCCCATGTAACAAGCTACACCAAGTAAGAAGTGTAGAACAATTAGCTCATA 6 0.15 No Hit GGTCGGTCCATGGATTTTCCTTCCTTTTTCCGCATTTCGCTAAAGGGTTGAA 6 0.15 No Hit CCGTCGCGTATTTAAGTCGTCTGCAAAGGATTCTACCCGCCGCTCGGTGGGA 6 0.15 No Hit GGTGCATAAGGATGTTGTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGT 5 0.125 No Hit GTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCCCTGCTTCCTCGG 5 0.125 No Hit GATCAAACTAGAGGTTACCAAAGAACCATGCATAGCACTGAATAGGGAGCCG 5 0.125 No Hit CTGCAAAGGATTCTACCCGCCGCTCGGTGGGAATTGTACTTCAAGGCGGCCC 5 0.125 No Hit GCCAGACTAAGCAATAAAGTACCTCGTATTTTCCCCTCTGCCTCGGGTTGTC 5 0.125 No Hit CCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACT 5 0.125 No Hit CTCGTACACACTAAGAAAAAAGCCTTATCCATTTACAAAAGTCTTATCCATT 5 0.125 No Hit CTCCAGCAACGGGCTCGATGTCGTAGCATCGTCCCTTATAACGATCAAGACT 5 0.125 No Hit GTGAAGATACGTTGTTAGGTGCTCCATTTTATTTTCCCATTGAGGCCGAACC 5 0.125 No Hit GTGCATAAGGATGTTGTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTA 5 0.125 No Hit CCGCATTTCGCTAAAGGGTTGAAGGAGGATAGTGCATCAAGCTGTTCGCAAG 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 SRR5423429.sra Written 200000 spots for SRR5423429.sra Read 200000 spots for SRR5423429.sra Written 200000 spots for SRR5423429.sra Read 200000 spots for SRR5423429.sra Written 200000 spots for SRR5423429.sra Read 200000 spots for SRR5423429.sra Written 200000 spots for SRR5423429.sra Read 200000 spots for SRR5423429.sra Written 200000 spots for SRR5423429.sra Read 200000 spots for SRR5423429.sra Written 200000 spots for SRR5423429.sra Read 200000 spots for SRR5423429.sra Written 200000 spots for SRR5423429.sra Read 200000 spots for SRR5423429.sra Written 200000 spots for SRR5423429.sra Read 200000 spots for SRR5423429.sra Written 200000 spots for SRR5423429.sra Read 200000 spots for SRR5423429.sra Written 200000 spots for SRR5423429.sra Read 200000 spots for SRR5423429.sra Written 200000 spots for SRR5423429.sra Read 200000 spots for SRR5423429.sra Written 200000 spots for SRR5423429.sra Read 200000 spots for SRR5423429.sra Written 200000 spots for SRR5423429.sra Read 200000 spots for SRR5423429.sra Written 200000 spots for SRR5423429.sra Read 200000 spots for SRR5423429.sra Written 200000 spots for SRR5423429.sra Read 200000 spots for SRR5423429.sra Written 200000 spots for SRR5423429.sra Read 200000 spots for SRR5423429.sra Written 200000 spots for SRR5423429.sra Read 200000 spots for SRR5423429.sra Written 200000 spots for SRR5423429.sra Read 200000 spots for SRR5423429.sra Written 200000 spots for SRR5423429.sra Read 200000 spots for SRR5423429.sra Written 200000 spots for SRR5423429.sra SRR ids: ['SRR5423429.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_sdmp_9ug SRR5423429.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]] SRR5423429 file size 703964 SRR5423429 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 SRR5423429 SRR5423429_1.fastq Input file: SRR5423429_1.fastq trimmed: SRR5423429-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 Wed Feb 12 11:00:43 2025 >> started Wed Feb 12 11:00:45 2025 >> done (1.926s) 4000000 reads processed; of these: 160 ( 0.00%) short reads filtered out after trimming by size control 87 ( 0.00%) empty reads filtered out after trimming by size control 3999753 (99.99%) reads available; of these: 82760 ( 2.07%) trimmed reads available after processing 3916993 (97.93%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 17 0.00% 19 8 0.00% 20 7 0.00% 21 0 0.00% 22 1 0.00% 23 1 0.00% 24 3 0.00% 25 3 0.00% 26 3 0.00% 27 3 0.00% 28 4 0.00% 29 5 0.00% 30 3 0.00% 31 8 0.00% 32 9 0.00% 33 8 0.00% 34 19 0.00% 35 19 0.00% 36 11 0.00% 37 25 0.00% 38 30 0.00% 39 29 0.00% 40 45 0.00% 41 63 0.00% 42 101 0.00% 43 106 0.00% 44 217 0.01% 45 256 0.01% 46 398 0.01% 47 635 0.02% 48 1240 0.03% 49 3210 0.08% 50 9678 0.24% 51 66595 1.66% 52 3916993 97.93% 3999753 reads passed initial QC criterion=sequence-density sequence-density=0.46 sequence-density-rank=1 fanout-score=2.01 fanout-score-rank=31 prefix-density=0.47 prefix-fanout=2.0 sequence=TGCTTAATGACCGCATGTGCAGGTAGTGCAAGTGCAGCCAGTACCGCAGTTGCACTTGCCATCGTTCTCAGCTGCTGGCACCTCCATGAC criterion=fanout-score sequence-density=0.01 sequence-density-rank=41 fanout-score=34.66 fanout-score-rank=1 prefix-density=0.18 prefix-fanout=1.0 sequence=CATACTTCATAATCTGCTTCGATTCTTCACTTCACGCTTTTGCAATCTGTGGAAGGACTGATTTTGTAGGAGATGGATACACCACACTTTGAAGGGAGGCCAGCAGCCACGCCATAGTTGATGCCAGAGATCTTACCAGCCAAGGATTTCAAACAGTTGCAGACCCCTTGGCGGTCGGCGGTGGTCGTGGCTGCAGAATTAAGTCCTTTCAACCCACTGCAGCAAGCTGCAGGCACAGCCCCACCCTTCTGGAGGTAGGTTAT Started job on | Feb 12 11:00:56 Started mapping on | Feb 12 11:00:56 Finished on | Feb 12 11:01:02 Mapping speed, Million of reads per hour | 2399.85 Number of input reads | 3999753 Average input read length | 51 UNIQUE READS: Uniquely mapped reads number | 3131320 Uniquely mapped reads % | 78.29% Average mapped length | 51.79 Number of splices: Total | 287503 Number of splices: Annotated (sjdb) | 282910 Number of splices: GT/AG | 280909 Number of splices: GC/AG | 5280 Number of splices: AT/AC | 848 Number of splices: Non-canonical | 466 Mismatch rate per base, % | 0.36% Deletion rate per base | 0.01% Deletion average length | 2.23 Insertion rate per base | 0.00% Insertion average length | 1.35 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 713163 % of reads mapped to multiple loci | 17.83% Number of reads mapped to too many loci | 85702 % of reads mapped to too many loci | 2.14% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.73% % of reads unmapped: other | 0.01% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 155270 155270 155270 N_multimapping 713163 713163 713163 N_noFeature 397217 3086352 430904 N_ambiguous 21859 170 10425 UnstrandedReadsAssigned:2712244 PositiveStrandReadsAssigned:44798 NegativeStrandReadsAssigned:2689991 Dataset is classified negative stranded MeadianReadLen=52 20thPercentileLength=52 echo kmer=47 SRR5423429 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: SRR5423429-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 3,999,753 reads, 3,273,671 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,080 rounds 52401 SRR5423429.ke.tsv 34699 SRR5423429.se.tsv 87100 total ==> SRR5423429.ke.tsv <== target_id length eff_length est_counts tpm Potri.005G200100.1.v4.1 2018 1919 151 22.0909 Potri.005G024800.1.v4.1 1035 936 14 4.19918 Potri.004G059700.1.v4.1 961 862 9 2.93121 Potri.007G009000.2.v4.1 1416 1317 0 0 Potri.003G141000.2.v4.1 2943 2844 60 5.92289 Potri.016G087400.1.v4.1 270 171 12 19.7014 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 4 1.27902 ==> SRR5423429.se.tsv <== Potri.001G166300.v4.1 0 Potri.001G448400.v4.1 1 Potri.001G233950.v4.1 0 Potri.001G122700.v4.1 28 Potri.001G212900.v4.1 0 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 SRR5423429 completed mapping pipeline successfully