Starting /dee2/code/volunteer_pipeline.sh SRR5423452 current disk space = 3051745378304 free memory = 1579636896 SRR5423452 SRAfilesize 652997eb8ece4074dac96312ecccf424 SRR5423452.sra SRR5423452.sra file validated SRR5423452 is single end SRR5423452 is conventional basespace SRR5423452 read1 length is 52 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5423452_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 32.27725 34.0 31.0 34.0 30.0 34.0 2 32.34425 34.0 31.0 34.0 30.0 34.0 3 32.3995 34.0 31.0 34.0 30.0 34.0 4 35.7195 37.0 35.0 37.0 33.0 37.0 5 35.724 37.0 35.0 37.0 35.0 37.0 6 35.742 37.0 35.0 37.0 35.0 37.0 7 35.71925 37.0 35.0 37.0 33.0 37.0 8 35.8375 37.0 35.0 37.0 35.0 37.0 9 37.407 39.0 37.0 39.0 34.0 39.0 10 37.38475 39.0 37.0 39.0 34.0 39.0 11 37.40975 39.0 37.0 39.0 34.0 39.0 12 37.429 39.0 37.0 39.0 34.0 39.0 13 37.31775 39.0 37.0 39.0 33.0 39.0 14 38.74 40.0 38.0 41.0 35.0 41.0 15 38.61475 40.0 38.0 41.0 34.0 41.0 16 38.66925 40.0 38.0 41.0 34.0 41.0 17 38.569 40.0 38.0 41.0 34.0 41.0 18 38.52575 40.0 38.0 41.0 34.0 41.0 19 38.7215 40.0 38.0 41.0 34.0 41.0 20 38.6695 40.0 38.0 41.0 34.0 41.0 21 38.61225 40.0 38.0 41.0 34.0 41.0 22 38.19275 40.0 38.0 41.0 33.0 41.0 23 38.354 40.0 38.0 41.0 34.0 41.0 24 38.2895 40.0 38.0 41.0 33.0 41.0 25 38.318 40.0 38.0 41.0 34.0 41.0 26 37.697 40.0 37.0 41.0 32.0 41.0 27 38.13225 40.0 38.0 41.0 33.0 41.0 28 38.138 40.0 38.0 41.0 33.0 41.0 29 38.1005 40.0 38.0 41.0 33.0 41.0 30 38.11025 40.0 38.0 41.0 33.0 41.0 31 37.902 40.0 38.0 41.0 33.0 41.0 32 37.85 40.0 38.0 41.0 33.0 41.0 33 37.969 40.0 37.0 41.0 33.0 41.0 34 38.10425 40.0 38.0 41.0 33.0 41.0 35 37.837 40.0 37.0 41.0 33.0 41.0 36 37.7545 40.0 37.0 41.0 33.0 41.0 37 37.35825 40.0 37.0 41.0 31.0 41.0 38 37.40375 40.0 37.0 41.0 31.0 41.0 39 37.41675 40.0 37.0 41.0 31.0 41.0 40 37.3825 40.0 37.0 41.0 31.0 41.0 41 37.45175 40.0 37.0 41.0 31.0 41.0 42 37.2155 40.0 36.0 41.0 31.0 41.0 43 37.2805 40.0 37.0 41.0 31.0 41.0 44 37.0425 40.0 36.0 41.0 30.0 41.0 45 37.036 39.0 36.0 41.0 31.0 41.0 46 36.9645 39.0 36.0 41.0 30.0 41.0 47 37.01625 39.0 36.0 41.0 30.0 41.0 48 36.6935 39.0 36.0 41.0 30.0 41.0 49 36.517 39.0 35.0 41.0 29.0 41.0 50 36.5855 39.0 35.0 41.0 30.0 41.0 51 36.35 39.0 35.0 40.0 29.0 41.0 52 34.74675 38.0 33.0 40.0 25.0 41.0 >>END_MODULE >>Per tile sequence quality pass #Tile Base Mean 2305 1 0.0 2305 2 0.0 2305 3 0.0 2305 4 0.0 2305 5 0.0 2305 6 0.0 2305 7 0.0 2305 8 0.0 2305 9 0.0 2305 10 0.0 2305 11 0.0 2305 12 0.0 2305 13 0.0 2305 14 0.0 2305 15 0.0 2305 16 0.0 2305 17 0.0 2305 18 0.0 2305 19 0.0 2305 20 0.0 2305 21 0.0 2305 22 0.0 2305 23 0.0 2305 24 0.0 2305 25 0.0 2305 26 0.0 2305 27 0.0 2305 28 0.0 2305 29 0.0 2305 30 0.0 2305 31 0.0 2305 32 0.0 2305 33 0.0 2305 34 0.0 2305 35 0.0 2305 36 0.0 2305 37 0.0 2305 38 0.0 2305 39 0.0 2305 40 0.0 2305 41 0.0 2305 42 0.0 2305 43 0.0 2305 44 0.0 2305 45 0.0 2305 46 0.0 2305 47 0.0 2305 48 0.0 2305 49 0.0 2305 50 0.0 2305 51 0.0 2305 52 0.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 10 1.0 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 2.0 22 5.0 23 8.0 24 13.0 25 20.0 26 15.0 27 23.0 28 41.0 29 46.0 30 64.0 31 71.0 32 103.0 33 151.0 34 167.0 35 245.0 36 314.0 37 448.0 38 789.0 39 1471.0 40 3.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 37.75 10.4 5.949999999999999 45.9 2 22.475 14.374999999999998 36.975 26.174999999999997 3 22.0 17.1 23.075000000000003 37.824999999999996 4 26.650000000000002 24.6 20.7 28.050000000000004 5 23.674999999999997 32.4 23.575 20.349999999999998 6 19.400000000000002 32.95 23.9 23.75 7 15.275 23.599999999999998 41.425 19.7 8 19.05 22.025 30.675 28.249999999999996 9 17.25 22.175 34.050000000000004 26.525 10 17.775 37.0 24.975 20.25 11 23.25 26.900000000000002 22.6 27.250000000000004 12 22.025 24.175 26.424999999999997 27.375 13 19.0 26.85 27.35 26.8 14 21.099999999999998 27.0 28.575 23.325000000000003 15 21.075 25.900000000000002 28.075 24.95 16 21.875 26.424999999999997 27.325 24.375 17 22.5 26.75 25.7 25.05 18 20.1 26.85 27.125 25.924999999999997 19 20.474999999999998 27.400000000000002 25.374999999999996 26.75 20 20.424999999999997 25.974999999999998 26.35 27.250000000000004 21 21.275 27.275 25.724999999999998 25.724999999999998 22 21.05 27.400000000000002 26.075 25.474999999999998 23 21.975 28.499999999999996 26.1 23.425 24 21.975 26.0 27.474999999999998 24.55 25 21.8 26.8 25.424999999999997 25.974999999999998 26 22.775000000000002 25.6 26.1 25.525 27 21.5 27.375 24.95 26.174999999999997 28 20.724999999999998 27.224999999999998 27.55 24.5 29 21.0 27.775 26.625 24.6 30 21.6 25.474999999999998 26.3 26.625 31 20.424999999999997 27.725 26.525 25.324999999999996 32 21.15 26.55 27.474999999999998 24.825 33 21.175 26.275 27.675 24.875 34 21.6 26.525 26.375 25.5 35 20.825 27.500000000000004 25.974999999999998 25.7 36 19.925 26.924999999999997 25.2 27.950000000000003 37 20.65 27.500000000000004 26.400000000000002 25.45 38 20.75 26.674999999999997 25.85 26.724999999999998 39 22.55 24.5 26.474999999999998 26.474999999999998 40 21.83591795897949 26.388194097048522 26.18809404702351 25.587793896948476 41 21.675 26.125 25.1 27.1 42 22.0 26.174999999999997 25.5 26.325 43 22.95 26.650000000000002 25.775 24.625 44 23.925 27.075 25.8 23.200000000000003 45 21.525 26.400000000000002 25.324999999999996 26.75 46 23.355838959739934 25.23130782695674 25.131282820705174 26.281570392598148 47 22.166624968726545 27.495621716287218 24.943707780835627 25.39404553415061 48 22.525000000000002 28.125 24.425 24.925 49 23.792844633475106 24.59344508381286 25.168876657493122 26.444833625218916 50 21.9 27.425 25.474999999999998 25.2 51 21.841381035776834 24.96872654490868 25.99449587190393 27.195396547410557 52 22.175 25.724999999999998 26.150000000000002 25.95 >>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 0.5 10 1.0 11 1.0 12 1.0 13 0.5 14 0.5 15 1.0 16 1.0 17 1.0 18 3.0 19 5.0 20 3.5 21 2.0 22 6.0 23 10.0 24 13.0 25 16.0 26 16.5 27 17.0 28 22.0 29 27.0 30 36.5 31 46.0 32 60.0 33 74.0 34 89.5 35 105.0 36 124.5 37 144.0 38 185.0 39 232.5 40 239.0 41 253.5 42 268.0 43 298.5 44 329.0 45 346.0 46 363.0 47 349.5 48 336.0 49 339.0 50 342.0 51 335.0 52 328.0 53 313.5 54 299.0 55 254.5 56 210.0 57 191.5 58 173.0 59 168.5 60 164.0 61 138.5 62 113.0 63 84.5 64 48.5 65 41.0 66 37.5 67 34.0 68 22.5 69 11.0 70 7.5 71 4.0 72 5.5 73 7.0 74 6.0 75 5.0 76 3.0 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 0.0 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 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 0.05 41 0.0 42 0.0 43 0.0 44 0.0 45 0.0 46 0.025 47 0.075 48 0.0 49 0.075 50 0.0 51 0.075 52 0.0 >>END_MODULE >>Sequence Length Distribution pass #Length Count 52 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 88.225 #Duplication Level Percentage of deduplicated Percentage of total 1 93.65259280249363 82.625 2 3.48540663077359 6.15 3 1.4451686030036837 3.8249999999999997 4 0.5383961462170587 1.9 5 0.22669311419665628 1.0 6 0.2833663927458203 1.5 7 0.11334655709832814 0.7000000000000001 8 0.05667327854916407 0.4 9 0.0 0.0 >10 0.19835647492207426 1.9 >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 CTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAACGGCA 13 0.325 No Hit CCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACT 13 0.325 No Hit CTCGTATTTTCCCCTCTGCCTCGGGTTGTCTCGCGATACCTTCTACAGCTTG 10 0.25 No Hit GTCGCGTATTTAAGTCGTCTGCAAAGGATTCTACCCGCCGCTCGGTGGGAAT 10 0.25 No Hit CTGCAAAGGATTCTACCCGCCGCTCGGTGGGAATTGTACTTCAAGGCGGCCC 10 0.25 No Hit GGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCGA 10 0.25 No Hit CGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGC 10 0.25 No Hit GTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGA 8 0.2 No Hit CTCGGTTGCTGGAACCTCCATGACTCCAGTGTAGACATGGCTCTTCTCAGTC 8 0.2 No Hit CGCAGAAGTAGGAATAATGGCACCAGAAATGATATTGTTTCCATAAAGTAGA 7 0.17500000000000002 No Hit CAGGGCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAG 7 0.17500000000000002 No Hit CTCCAGCAACGGGCTCGATGTCGTAGCATCGTCCCTTATAACGATCAAGACT 7 0.17500000000000002 No Hit CTCTGCCTCGGGTTGTCTCGCGATACCTTCTACAGCTTGGCCCGCAGCAGTA 7 0.17500000000000002 No Hit GGGCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAGAT 6 0.15 No Hit CCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCCCT 6 0.15 No Hit GGTGCATAAGGATGTTGTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGT 6 0.15 No Hit CGCGTATTTAAGTCGTCTGCAAAGGATTCTACCCGCCGCTCGGTGGGAATTG 6 0.15 No Hit GTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCG 6 0.15 No Hit CACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCCCTG 6 0.15 No Hit GTCCGCGACCCCTGGATGCCGAAGGCGTCCTTGGGGCGATCTCGTAGTTCCT 6 0.15 No Hit GGGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCG 6 0.15 No Hit GTGCATAAGGATGTTGTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTA 6 0.15 No Hit GCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAGATCA 6 0.15 No Hit GTCCCTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAAC 5 0.125 No Hit CCCTGATCAAACTAGAGGTTACCAAAGAACCATGCATAGCACTGAATAGGGA 5 0.125 No Hit GTCCTAGAAGTGCATGATAAATACCGCCAAAGCCCAATACTGCAGAGGAAAT 5 0.125 No Hit GGCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAGATC 5 0.125 No Hit GCTGGTTTTAAGAATGAGTGATTGCCCTTCTCCGACCCTTACTGCCCAACCT 5 0.125 No Hit CCCACTTTTTGGTCTTAAGAATGCTGGTTTTAAGAATGAGTGATTGCCCTTC 5 0.125 No Hit GCCGAACCTAAACCTGTGCTCGAGAGATAGCTGTCCATACACTGATAAGGGA 5 0.125 No Hit GCCAGATACAAAGTATGGAAAGGTGTCTATGACTTCCCCGCCAGGACCCACC 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 0.025 0.0 0.0 0.0 0.0 35 0.025 0.0 0.0 0.0 0.0 36 0.025 0.0 0.0 0.0 0.0 37 0.025 0.0 0.0 0.0 0.0 38 0.025 0.0 0.0 0.0 0.0 39 0.025 0.0 0.0 0.0 0.0 40 0.025 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Read 196931 spots for SRR5423452.sra Written 196931 spots for SRR5423452.sra Read 196931 spots for SRR5423452.sra Written 196931 spots for SRR5423452.sra Read 196931 spots for SRR5423452.sra Written 196931 spots for SRR5423452.sra Read 196931 spots for SRR5423452.sra Written 196931 spots for SRR5423452.sra Read 196931 spots for SRR5423452.sra Written 196931 spots for SRR5423452.sra Read 196931 spots for SRR5423452.sra Written 196931 spots for SRR5423452.sra Read 196931 spots for SRR5423452.sra Written 196931 spots for SRR5423452.sra Read 196931 spots for SRR5423452.sra Written 196931 spots for SRR5423452.sra Read 196931 spots for SRR5423452.sra Written 196931 spots for SRR5423452.sra Read 196931 spots for SRR5423452.sra Written 196931 spots for SRR5423452.sra Read 196931 spots for SRR5423452.sra Written 196931 spots for SRR5423452.sra Read 196931 spots for SRR5423452.sra Written 196931 spots for SRR5423452.sra Read 196931 spots for SRR5423452.sra Written 196931 spots for SRR5423452.sra Read 196931 spots for SRR5423452.sra Written 196931 spots for SRR5423452.sra Read 196931 spots for SRR5423452.sra Written 196931 spots for SRR5423452.sra Read 196931 spots for SRR5423452.sra Written 196931 spots for SRR5423452.sra Read 196931 spots for SRR5423452.sra Written 196931 spots for SRR5423452.sra Read 196931 spots for SRR5423452.sra Written 196931 spots for SRR5423452.sra Read 196931 spots for SRR5423452.sra Written 196931 spots for SRR5423452.sra Read 196932 spots for SRR5423452.sra Written 196932 spots for SRR5423452.sra SRR ids: ['SRR5423452.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_15hl15lz SRR5423452.sra spots: 3938621 blocks: [[1, 196931], [196932, 393862], [393863, 590793], [590794, 787724], [787725, 984655], [984656, 1181586], [1181587, 1378517], [1378518, 1575448], [1575449, 1772379], [1772380, 1969310], [1969311, 2166241], [2166242, 2363172], [2363173, 2560103], [2560104, 2757034], [2757035, 2953965], [2953966, 3150896], [3150897, 3347827], [3347828, 3544758], [3544759, 3741689], [3741690, 3938621]] SRR5423452 file size 693097 SRR5423452 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 SRR5423452 SRR5423452_1.fastq Input file: SRR5423452_1.fastq trimmed: SRR5423452-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 15:00:12 2025 >> started Wed Feb 12 15:00:14 2025 >> done (2.036s) 3938621 reads processed; of these: 154 ( 0.00%) short reads filtered out after trimming by size control 176 ( 0.00%) empty reads filtered out after trimming by size control 3938291 (99.99%) reads available; of these: 91538 ( 2.32%) trimmed reads available after processing 3846753 (97.68%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 8 0.00% 19 6 0.00% 20 6 0.00% 21 0 0.00% 22 1 0.00% 23 0 0.00% 24 3 0.00% 25 2 0.00% 26 2 0.00% 27 2 0.00% 28 3 0.00% 29 3 0.00% 30 0 0.00% 31 4 0.00% 32 2 0.00% 33 9 0.00% 34 9 0.00% 35 14 0.00% 36 9 0.00% 37 14 0.00% 38 26 0.00% 39 34 0.00% 40 55 0.00% 41 64 0.00% 42 108 0.00% 43 117 0.00% 44 213 0.01% 45 269 0.01% 46 426 0.01% 47 684 0.02% 48 1425 0.04% 49 3529 0.09% 50 11444 0.29% 51 73047 1.85% 52 3846753 97.68% 3938291 reads passed initial QC criterion=sequence-density sequence-density=0.18 sequence-density-rank=1 fanout-score=6.50 fanout-score-rank=5 prefix-density=0.79 prefix-fanout=1.5 sequence=ACGTGCTTAATACGTGCTTAA criterion=fanout-score sequence-density=0.02 sequence-density-rank=27 fanout-score=20.13 fanout-score-rank=1 prefix-density=0.31 prefix-fanout=1.3 sequence=CATTTTATTTCTATCTTTCCATACATAACCAAAAAATGGAAAAGATTCTTCAAGAGTCTCGGGTCCTAGAAGTGCATGATAAATACCGCCAAAGCCCAATACTGCAGAGGAAATTAAGTGAAGTACGCCAGATACAAAGTATGGAAAGGTGTCTATGACTTCCCCGCCAGGACCCACCCCCCAACCTAGAGTAGCTAGGTGGGGAAGTAAAATTAATCCTTGTTCATACATTGGCTTCTCCGGTACGAAATGGGCCACTTCAAATAGGTTCATTGCTCCGGCCCAGAATACGATTAATCCAGCATGGGCTACATGAGCTCCCAGCAG Started job on | Feb 12 15:00:26 Started mapping on | Feb 12 15:00:27 Finished on | Feb 12 15:00:33 Mapping speed, Million of reads per hour | 2362.97 Number of input reads | 3938291 Average input read length | 51 UNIQUE READS: Uniquely mapped reads number | 3087202 Uniquely mapped reads % | 78.39% Average mapped length | 51.74 Number of splices: Total | 292789 Number of splices: Annotated (sjdb) | 288228 Number of splices: GT/AG | 286517 Number of splices: GC/AG | 4940 Number of splices: AT/AC | 824 Number of splices: Non-canonical | 508 Mismatch rate per base, % | 0.44% Deletion rate per base | 0.01% Deletion average length | 2.31 Insertion rate per base | 0.00% Insertion average length | 1.37 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 672692 % of reads mapped to multiple loci | 17.08% Number of reads mapped to too many loci | 105563 % of reads mapped to too many loci | 2.68% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.84% % of reads unmapped: other | 0.01% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 178397 178397 178397 N_multimapping 672692 672692 672692 N_noFeature 403249 3041510 438819 N_ambiguous 19420 153 9155 UnstrandedReadsAssigned:2664533 PositiveStrandReadsAssigned:45539 NegativeStrandReadsAssigned:2639228 Dataset is classified negative stranded MeadianReadLen=52 20thPercentileLength=52 echo kmer=47 SRR5423452 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: SRR5423452-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 3,938,291 reads, 3,186,479 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,113 rounds 52401 SRR5423452.ke.tsv 34699 SRR5423452.se.tsv 87100 total ==> SRR5423452.ke.tsv <== target_id length eff_length est_counts tpm Potri.005G200100.1.v4.1 2018 1919 165 23.8551 Potri.005G024800.1.v4.1 1035 936 21 6.22467 Potri.004G059700.1.v4.1 961 862 0 0 Potri.007G009000.2.v4.1 1416 1317 0 0 Potri.003G141000.2.v4.1 2943 2844 67.4957 6.58445 Potri.016G087400.1.v4.1 270 171 10 16.2247 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 3 0.947981 ==> SRR5423452.se.tsv <== Potri.001G166300.v4.1 0 Potri.001G448400.v4.1 2 Potri.001G233950.v4.1 0 Potri.001G122700.v4.1 37 Potri.001G212900.v4.1 2 Potri.001G182400.v4.1 0 Potri.001G256600.v4.1 0 Potri.001G040500.v4.1 2 Potri.001G416900.v4.1 0 Potri.001G452600.v4.1 0 SRR5423452 completed mapping pipeline successfully