Starting /dee2/code/volunteer_pipeline.sh SRR5423431 current disk space = 3051301093376 free memory = 1581969956 SRR5423431 SRAfilesize d3eb4797142548b0811ed24b29fd1e83 SRR5423431.sra SRR5423431.sra file validated SRR5423431 is single end SRR5423431 is conventional basespace SRR5423431 read1 length is 52 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5423431_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 31.62975 31.0 31.0 34.0 30.0 34.0 2 31.68625 31.0 31.0 34.0 30.0 34.0 3 31.87425 31.0 31.0 34.0 30.0 34.0 4 34.08325 37.0 35.0 37.0 28.0 37.0 5 34.87025 37.0 35.0 37.0 32.0 37.0 6 35.1355 37.0 35.0 37.0 32.0 37.0 7 35.2115 37.0 35.0 37.0 32.0 37.0 8 35.23075 37.0 35.0 37.0 32.0 37.0 9 36.936 39.0 37.0 39.0 33.0 39.0 10 37.01075 39.0 37.0 39.0 33.0 39.0 11 37.0185 39.0 37.0 39.0 33.0 39.0 12 36.9695 39.0 37.0 39.0 33.0 39.0 13 36.95 39.0 37.0 39.0 33.0 39.0 14 38.2035 40.0 37.0 41.0 33.0 41.0 15 37.9785 40.0 37.0 41.0 33.0 41.0 16 38.00125 40.0 37.0 41.0 33.0 41.0 17 37.93375 40.0 37.0 41.0 33.0 41.0 18 37.8275 40.0 37.0 41.0 32.0 41.0 19 38.1625 40.0 37.0 41.0 33.0 41.0 20 38.097 40.0 37.0 41.0 33.0 41.0 21 38.2025 40.0 37.0 41.0 33.0 41.0 22 38.1155 40.0 37.0 41.0 33.0 41.0 23 38.13675 40.0 37.0 41.0 33.0 41.0 24 37.96325 40.0 37.0 41.0 32.0 41.0 25 37.7755 40.0 37.0 41.0 32.0 41.0 26 37.7815 40.0 37.0 41.0 32.0 41.0 27 37.77725 40.0 37.0 41.0 32.0 41.0 28 37.8405 40.0 37.0 41.0 33.0 41.0 29 37.80725 40.0 37.0 41.0 33.0 41.0 30 37.73125 40.0 37.0 41.0 32.0 41.0 31 37.626 40.0 37.0 41.0 32.0 41.0 32 37.257 39.0 36.0 41.0 31.0 41.0 33 37.5605 40.0 37.0 41.0 32.0 41.0 34 37.49425 40.0 37.0 41.0 31.0 41.0 35 37.47375 40.0 37.0 41.0 31.0 41.0 36 37.37225 39.0 36.0 41.0 31.0 41.0 37 37.5505 40.0 37.0 41.0 32.0 41.0 38 37.3695 40.0 36.0 41.0 31.0 41.0 39 37.32525 39.0 36.0 41.0 31.0 41.0 40 37.37125 39.0 36.0 41.0 31.0 41.0 41 37.2635 39.0 36.0 41.0 31.0 41.0 42 37.091 39.0 36.0 41.0 31.0 41.0 43 37.16175 39.0 36.0 41.0 31.0 41.0 44 36.88675 39.0 36.0 41.0 30.0 41.0 45 36.70775 39.0 35.0 40.0 30.0 41.0 46 36.75125 39.0 35.0 40.0 30.0 41.0 47 36.7045 39.0 35.0 40.0 30.0 41.0 48 36.5855 39.0 35.0 40.0 30.0 41.0 49 36.595 39.0 35.0 40.0 30.0 41.0 50 36.4775 39.0 35.0 40.0 29.0 41.0 51 36.5465 39.0 35.0 40.0 30.0 41.0 52 35.78625 38.0 34.0 40.0 28.0 41.0 >>END_MODULE >>Per tile sequence quality pass #Tile Base Mean 1312 1 0.0 1312 2 0.0 1312 3 0.0 1312 4 0.0 1312 5 0.0 1312 6 0.0 1312 7 0.0 1312 8 0.0 1312 9 0.0 1312 10 0.0 1312 11 0.0 1312 12 0.0 1312 13 0.0 1312 14 0.0 1312 15 0.0 1312 16 0.0 1312 17 0.0 1312 18 0.0 1312 19 0.0 1312 20 0.0 1312 21 0.0 1312 22 0.0 1312 23 0.0 1312 24 0.0 1312 25 0.0 1312 26 0.0 1312 27 0.0 1312 28 0.0 1312 29 0.0 1312 30 0.0 1312 31 0.0 1312 32 0.0 1312 33 0.0 1312 34 0.0 1312 35 0.0 1312 36 0.0 1312 37 0.0 1312 38 0.0 1312 39 0.0 1312 40 0.0 1312 41 0.0 1312 42 0.0 1312 43 0.0 1312 44 0.0 1312 45 0.0 1312 46 0.0 1312 47 0.0 1312 48 0.0 1312 49 0.0 1312 50 0.0 1312 51 0.0 1312 52 0.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 18 1.0 19 1.0 20 0.0 21 0.0 22 3.0 23 5.0 24 9.0 25 14.0 26 14.0 27 24.0 28 45.0 29 69.0 30 77.0 31 86.0 32 153.0 33 168.0 34 204.0 35 301.0 36 377.0 37 518.0 38 701.0 39 1226.0 40 4.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 39.07930948211158 11.358518889166875 5.354015511633725 44.20815611708782 2 22.725 15.049999999999999 35.775 26.450000000000003 3 22.55 16.875 23.549999999999997 37.025000000000006 4 24.925 27.250000000000004 21.099999999999998 26.724999999999998 5 24.425 31.275 23.474999999999998 20.825 6 18.625 32.975 24.85 23.549999999999997 7 15.45 23.474999999999998 41.275 19.8 8 17.95 23.799999999999997 29.75 28.499999999999996 9 17.4 21.85 33.225 27.525 10 19.175 36.9 24.3 19.625 11 22.6 28.15 22.650000000000002 26.6 12 19.725 25.174999999999997 26.375 28.725 13 20.125 28.575 27.725 23.575 14 21.725 28.000000000000004 27.425 22.85 15 20.7 27.375 28.325 23.599999999999998 16 21.224999999999998 27.35 27.150000000000002 24.275 17 21.375 28.575 25.825 24.224999999999998 18 19.7 25.874999999999996 27.675 26.75 19 20.0 28.125 27.0 24.875 20 22.125 27.150000000000002 26.25 24.474999999999998 21 20.25 27.825 25.2 26.724999999999998 22 19.6 27.975 25.825 26.6 23 21.25 28.000000000000004 26.025 24.725 24 21.575 24.975 25.900000000000002 27.55 25 20.599999999999998 27.900000000000002 26.900000000000002 24.6 26 22.85 26.325 25.025 25.8 27 20.175 27.925 26.275 25.624999999999996 28 20.4 28.199999999999996 26.950000000000003 24.45 29 21.525 28.225 26.950000000000003 23.3 30 20.424999999999997 26.625 26.85 26.1 31 21.075 27.175 26.924999999999997 24.825 32 21.125 27.150000000000002 26.325 25.4 33 20.0 26.5 26.25 27.250000000000004 34 21.15 27.1 26.5 25.25 35 21.349999999999998 26.724999999999998 25.2 26.724999999999998 36 21.125 26.525 25.275 27.075 37 19.8 27.775 25.15 27.275 38 21.375 26.375 25.2 27.05 39 20.630157539384847 25.331332833208304 26.156539134783696 27.881970492623154 40 21.475 28.275 24.75 25.5 41 21.6 26.85 24.925 26.625 42 20.075000000000003 26.3 26.775 26.85 43 22.48062015503876 27.181795448862218 25.03125781445361 25.30632658164541 44 22.775000000000002 27.575 26.200000000000003 23.45 45 23.85596399099775 25.10627656914228 26.03150787696924 25.006251562890725 46 22.911455727863935 27.113556778389196 25.86293146573287 24.112056028014006 47 22.36118059029515 27.688844422211105 24.787393696848426 25.162581290645324 48 21.5 26.3 25.35 26.85 49 22.275 26.05 24.9 26.775 50 22.355588897224308 27.031757939484873 25.481370342585645 25.131282820705174 51 22.225 25.75 24.95 27.075 52 22.080520130032507 26.9567391847962 25.85646411602901 25.10627656914228 >>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 0.5 14 1.0 15 1.0 16 3.0 17 5.0 18 4.5 19 4.0 20 5.5 21 7.0 22 8.5 23 10.0 24 12.0 25 14.0 26 18.5 27 23.0 28 30.0 29 37.0 30 43.0 31 49.0 32 67.0 33 85.0 34 102.5 35 120.0 36 150.5 37 181.0 38 204.0 39 232.5 40 238.0 41 248.5 42 259.0 43 277.5 44 296.0 45 318.5 46 341.0 47 341.5 48 342.0 49 332.5 50 323.0 51 325.5 52 328.0 53 317.0 54 306.0 55 271.0 56 236.0 57 205.5 58 175.0 59 157.5 60 140.0 61 119.5 62 99.0 63 80.5 64 48.5 65 35.0 66 28.5 67 22.0 68 15.0 69 8.0 70 9.5 71 11.0 72 8.0 73 5.0 74 3.5 75 2.0 76 3.0 77 4.0 78 3.5 79 3.0 80 1.5 81 0.0 82 0.5 83 1.0 84 0.5 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 0.075 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 0.025 40 0.0 41 0.0 42 0.0 43 0.025 44 0.0 45 0.025 46 0.05 47 0.05 48 0.0 49 0.0 50 0.025 51 0.0 52 0.025 >>END_MODULE >>Sequence Length Distribution pass #Length Count 52 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 90.3 #Duplication Level Percentage of deduplicated Percentage of total 1 94.24141749723145 85.1 2 3.820598006644518 6.9 3 0.9413067552602437 2.55 4 0.3599114064230343 1.3 5 0.13842746400885936 0.625 6 0.22148394241417496 1.2 7 0.08305647840531562 0.525 8 0.05537098560354374 0.4 9 0.02768549280177187 0.22499999999999998 >10 0.11074197120708748 1.175 >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 16 0.4 No Hit CTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAACGGCA 11 0.27499999999999997 No Hit GTCCCTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAAC 10 0.25 No Hit GGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCGA 10 0.25 No Hit GTCCTAGAAGTGCATGATAAATACCGCCAAAGCCCAATACTGCAGAGGAAAT 9 0.22499999999999998 No Hit GTCGCGTATTTAAGTCGTCTGCAAAGGATTCTACCCGCCGCTCGGTGGGAAT 8 0.2 No Hit GTGCATAAGGATGTTGTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTA 8 0.2 No Hit GATCAAACTAGAGGTTACCAAAGAACCATGCATAGCACTGAATAGGGAGCCG 7 0.17500000000000002 No Hit GGGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCG 7 0.17500000000000002 No Hit GTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCC 7 0.17500000000000002 No Hit CGCAGAAGTAGGAATAATGGCACCAGAAATGATATTGTTTCCATAAAGTAGA 6 0.15 No Hit CCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCCCT 6 0.15 No Hit GCCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTAC 6 0.15 No Hit CAGGGCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAG 6 0.15 No Hit CTGCAAAGGATTCTACCCGCCGCTCGGTGGGAATTGTACTTCAAGGCGGCCC 6 0.15 No Hit GTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGA 6 0.15 No Hit CTCCAGCAACGGGCTCGATGTCGTAGCATCGTCCCTTATAACGATCAAGACT 6 0.15 No Hit ATCAAACTAGAGGTTACCAAAGAACCATGCATAGCACTGAATAGGGAGCCGC 6 0.15 No Hit CCTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAACGGC 5 0.125 No Hit GCCTAACATGTGAAATGGGTGCATAAGGATGTTGTGCTCAGCCTGGAATACA 5 0.125 No Hit CTTATAACGATCAAGACTGGTAAGCCCGTCGGTCCACACAGTTGTCCATGTA 5 0.125 No Hit GTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCGATG 5 0.125 No Hit AGCACGGTTAATAATATCAGCCCAGGTATTAATTACACGACCTTGACTATCA 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 SRR5423431.sra Written 200000 spots for SRR5423431.sra Read 200000 spots for SRR5423431.sra Written 200000 spots for SRR5423431.sra Read 200000 spots for SRR5423431.sra Written 200000 spots for SRR5423431.sra Read 200000 spots for SRR5423431.sra Written 200000 spots for SRR5423431.sra Read 200000 spots for SRR5423431.sra Written 200000 spots for SRR5423431.sra Read 200000 spots for SRR5423431.sra Written 200000 spots for SRR5423431.sra Read 200000 spots for SRR5423431.sra Written 200000 spots for SRR5423431.sra Read 200000 spots for SRR5423431.sra Written 200000 spots for SRR5423431.sra Read 200000 spots for SRR5423431.sra Written 200000 spots for SRR5423431.sra Read 200000 spots for SRR5423431.sra Written 200000 spots for SRR5423431.sra Read 200000 spots for SRR5423431.sra Written 200000 spots for SRR5423431.sra Read 200000 spots for SRR5423431.sra Written 200000 spots for SRR5423431.sra Read 200000 spots for SRR5423431.sra Written 200000 spots for SRR5423431.sra Read 200000 spots for SRR5423431.sra Written 200000 spots for SRR5423431.sra Read 200000 spots for SRR5423431.sra Written 200000 spots for SRR5423431.sra Read 200000 spots for SRR5423431.sra Written 200000 spots for SRR5423431.sra Read 200000 spots for SRR5423431.sra Written 200000 spots for SRR5423431.sra Read 200000 spots for SRR5423431.sra Written 200000 spots for SRR5423431.sra Read 200000 spots for SRR5423431.sra Written 200000 spots for SRR5423431.sra Read 200000 spots for SRR5423431.sra Written 200000 spots for SRR5423431.sra SRR ids: ['SRR5423431.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_tfmyjvw0 SRR5423431.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]] SRR5423431 file size 703937 SRR5423431 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 SRR5423431 SRR5423431_1.fastq Input file: SRR5423431_1.fastq trimmed: SRR5423431-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 11:16:40 2025 >> started Wed Feb 12 11:16:42 2025 >> done (1.925s) 4000000 reads processed; of these: 117 ( 0.00%) short reads filtered out after trimming by size control 79 ( 0.00%) empty reads filtered out after trimming by size control 3999804 (100.00%) reads available; of these: 102966 ( 2.57%) trimmed reads available after processing 3896838 (97.43%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 9 0.00% 19 3 0.00% 20 6 0.00% 21 0 0.00% 22 0 0.00% 23 0 0.00% 24 3 0.00% 25 5 0.00% 26 2 0.00% 27 2 0.00% 28 2 0.00% 29 4 0.00% 30 8 0.00% 31 6 0.00% 32 11 0.00% 33 18 0.00% 34 14 0.00% 35 22 0.00% 36 18 0.00% 37 41 0.00% 38 46 0.00% 39 58 0.00% 40 92 0.00% 41 109 0.00% 42 141 0.00% 43 209 0.01% 44 346 0.01% 45 473 0.01% 46 615 0.02% 47 1066 0.03% 48 1884 0.05% 49 4493 0.11% 50 12786 0.32% 51 80474 2.01% 52 3896838 97.43% 3999804 reads passed initial QC criterion=sequence-density sequence-density=0.46 sequence-density-rank=1 fanout-score=1.97 fanout-score-rank=31 prefix-density=0.46 prefix-fanout=2.0 sequence=TGCTTAATGACCGCATGTGCAGGTAGTGCAAGTGCAGCCAGTACCGCAGTTGCACTTGCCATCGTTCTCAGCTGCTGGCACCTCCATGAC criterion=fanout-score sequence-density=0.01 sequence-density-rank=30 fanout-score=27.42 fanout-score-rank=1 prefix-density=0.30 prefix-fanout=1.2 sequence=CATTTTATTTCTATCTTTCCATACATAACCAAAAAATGGAAAAGATTCTTCAAGAGTCTCGGGTCCTAGAAGTGCATGATAAATACCGCCAAAGCCCAATACTGCAGAGGAAATTAAGTGAAGTACGCCAGATACAAAGTATGGAAAGGTGTCTATGACTTCCCCGCCAGGACCCACCCCCCAACCTAGAGTAGCTAGGTGGGGAAGTAAAATTAATCCTTGTTCATACATTGGCTTCTCCGGTACGAAATGGGCCACTTCAAATAGGTTCATTGCTCCGGCCCAGAATACGATTAATCCAGCATGGGCTACATGAGCTCCCAGCAGTTTACCGGATAAA Started job on | Feb 12 11:16:55 Started mapping on | Feb 12 11:16:55 Finished on | Feb 12 11:17:04 Mapping speed, Million of reads per hour | 1599.92 Number of input reads | 3999804 Average input read length | 51 UNIQUE READS: Uniquely mapped reads number | 3132092 Uniquely mapped reads % | 78.31% Average mapped length | 51.78 Number of splices: Total | 286272 Number of splices: Annotated (sjdb) | 281669 Number of splices: GT/AG | 279598 Number of splices: GC/AG | 5370 Number of splices: AT/AC | 775 Number of splices: Non-canonical | 529 Mismatch rate per base, % | 0.42% Deletion rate per base | 0.01% Deletion average length | 2.24 Insertion rate per base | 0.00% Insertion average length | 1.35 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 714405 % of reads mapped to multiple loci | 17.86% Number of reads mapped to too many loci | 82253 % of reads mapped to too many loci | 2.06% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.76% % of reads unmapped: other | 0.01% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 153307 153307 153307 N_multimapping 714405 714405 714405 N_noFeature 395723 3086516 429816 N_ambiguous 22174 171 10537 UnstrandedReadsAssigned:2714195 PositiveStrandReadsAssigned:45405 NegativeStrandReadsAssigned:2691739 Dataset is classified negative stranded MeadianReadLen=52 20thPercentileLength=52 echo kmer=47 SRR5423431 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: SRR5423431-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 3,999,804 reads, 3,265,825 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,114 rounds 52401 SRR5423431.ke.tsv 34699 SRR5423431.se.tsv 87100 total ==> SRR5423431.ke.tsv <== target_id length eff_length est_counts tpm Potri.005G200100.1.v4.1 2018 1919 138 20.2634 Potri.005G024800.1.v4.1 1035 936 25.0655 7.54588 Potri.004G059700.1.v4.1 961 862 3 0.98067 Potri.007G009000.2.v4.1 1416 1317 0 0 Potri.003G141000.2.v4.1 2943 2844 49 4.85484 Potri.016G087400.1.v4.1 270 171 13 21.4218 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 9 2.8884 ==> SRR5423431.se.tsv <== Potri.001G166300.v4.1 0 Potri.001G448400.v4.1 2 Potri.001G233950.v4.1 0 Potri.001G122700.v4.1 31 Potri.001G212900.v4.1 6 Potri.001G182400.v4.1 0 Potri.001G256600.v4.1 0 Potri.001G040500.v4.1 1 Potri.001G416900.v4.1 0 Potri.001G452600.v4.1 0 SRR5423431 completed mapping pipeline successfully