Starting /dee2/code/volunteer_pipeline.sh SRR5423434 current disk space = 3051301900288 free memory = 1577858436 SRR5423434 SRAfilesize e83205a0e5c44b7c8a0141956d50d833 SRR5423434.sra SRR5423434.sra file validated SRR5423434 is single end SRR5423434 is conventional basespace SRR5423434 read1 length is 52 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5423434_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 31.4255 31.0 31.0 34.0 30.0 34.0 2 31.60625 31.0 31.0 34.0 30.0 34.0 3 31.7825 31.0 31.0 34.0 30.0 34.0 4 33.81725 37.0 35.0 37.0 27.0 37.0 5 35.06425 37.0 35.0 37.0 32.0 37.0 6 35.262 37.0 35.0 37.0 32.0 37.0 7 35.337 37.0 35.0 37.0 32.0 37.0 8 35.504 37.0 35.0 37.0 33.0 37.0 9 36.795 39.0 37.0 39.0 32.0 39.0 10 37.063 39.0 37.0 39.0 33.0 39.0 11 37.22175 39.0 37.0 39.0 33.0 39.0 12 36.9335 39.0 37.0 39.0 33.0 39.0 13 37.05125 39.0 37.0 39.0 33.0 39.0 14 38.23975 40.0 38.0 41.0 33.0 41.0 15 38.2625 40.0 38.0 41.0 33.0 41.0 16 38.21375 40.0 37.0 41.0 33.0 41.0 17 38.256 40.0 37.0 41.0 33.0 41.0 18 38.0305 40.0 37.0 41.0 33.0 41.0 19 38.26175 40.0 38.0 41.0 33.0 41.0 20 38.037 40.0 37.0 41.0 33.0 41.0 21 38.281 40.0 38.0 41.0 34.0 41.0 22 38.29275 40.0 38.0 41.0 34.0 41.0 23 38.191 40.0 37.0 41.0 33.0 41.0 24 38.2905 40.0 38.0 41.0 34.0 41.0 25 37.83875 40.0 37.0 41.0 32.0 41.0 26 38.027 40.0 37.0 41.0 33.0 41.0 27 37.93575 40.0 37.0 41.0 33.0 41.0 28 37.8195 40.0 37.0 41.0 32.0 41.0 29 37.86525 40.0 37.0 41.0 33.0 41.0 30 37.83825 40.0 37.0 41.0 32.0 41.0 31 37.6585 40.0 37.0 41.0 32.0 41.0 32 37.65225 40.0 37.0 41.0 32.0 41.0 33 37.54025 39.0 37.0 41.0 32.0 41.0 34 37.48875 40.0 37.0 41.0 31.0 41.0 35 37.65125 40.0 37.0 41.0 33.0 41.0 36 37.637 40.0 37.0 41.0 32.0 41.0 37 37.7385 40.0 37.0 41.0 33.0 41.0 38 37.459 40.0 37.0 41.0 31.0 41.0 39 37.55025 40.0 37.0 41.0 32.0 41.0 40 37.32775 39.0 37.0 41.0 31.0 41.0 41 37.14575 39.0 36.0 41.0 31.0 41.0 42 36.8555 39.0 35.0 40.0 30.0 41.0 43 37.07 39.0 36.0 41.0 30.0 41.0 44 37.02675 39.0 36.0 40.0 31.0 41.0 45 37.06125 39.0 36.0 41.0 31.0 41.0 46 36.897 39.0 35.0 41.0 30.0 41.0 47 36.87025 39.0 35.0 41.0 30.0 41.0 48 36.79825 39.0 35.0 41.0 30.0 41.0 49 36.88475 39.0 35.0 40.0 31.0 41.0 50 36.6705 39.0 35.0 40.0 30.0 41.0 51 36.6985 39.0 35.0 40.0 30.0 41.0 52 35.573 38.0 34.0 40.0 28.0 41.0 >>END_MODULE >>Per tile sequence quality pass #Tile Base Mean 2213 1 0.0 2213 2 0.0 2213 3 0.0 2213 4 0.0 2213 5 0.0 2213 6 0.0 2213 7 0.0 2213 8 0.0 2213 9 0.0 2213 10 0.0 2213 11 0.0 2213 12 0.0 2213 13 0.0 2213 14 0.0 2213 15 0.0 2213 16 0.0 2213 17 0.0 2213 18 0.0 2213 19 0.0 2213 20 0.0 2213 21 0.0 2213 22 0.0 2213 23 0.0 2213 24 0.0 2213 25 0.0 2213 26 0.0 2213 27 0.0 2213 28 0.0 2213 29 0.0 2213 30 0.0 2213 31 0.0 2213 32 0.0 2213 33 0.0 2213 34 0.0 2213 35 0.0 2213 36 0.0 2213 37 0.0 2213 38 0.0 2213 39 0.0 2213 40 0.0 2213 41 0.0 2213 42 0.0 2213 43 0.0 2213 44 0.0 2213 45 0.0 2213 46 0.0 2213 47 0.0 2213 48 0.0 2213 49 0.0 2213 50 0.0 2213 51 0.0 2213 52 0.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 19 1.0 20 0.0 21 1.0 22 0.0 23 5.0 24 12.0 25 14.0 26 15.0 27 21.0 28 46.0 29 51.0 30 78.0 31 102.0 32 103.0 33 161.0 34 230.0 35 285.0 36 347.0 37 526.0 38 792.0 39 1208.0 40 2.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 38.79849812265332 10.588235294117647 5.131414267834793 45.48185231539424 2 22.650000000000002 15.299999999999999 34.925 27.125 3 21.575 17.349999999999998 23.799999999999997 37.275000000000006 4 25.825 27.075 20.65 26.450000000000003 5 24.25 30.625000000000004 25.324999999999996 19.8 6 18.875 33.0 24.349999999999998 23.775 7 15.45 23.549999999999997 41.949999999999996 19.05 8 17.075000000000003 23.65 29.125 30.15 9 18.9 20.45 33.75 26.900000000000002 10 17.925 37.5 24.725 19.85 11 22.975 28.525 21.7 26.8 12 22.625 24.825 25.45 27.1 13 20.424999999999997 26.825 28.275 24.474999999999998 14 20.599999999999998 28.95 26.3 24.15 15 20.05 28.1 28.125 23.724999999999998 16 21.325 28.125 25.45 25.1 17 21.125 27.85 26.174999999999997 24.85 18 20.974999999999998 26.450000000000003 27.075 25.5 19 20.849999999999998 27.525 27.05 24.575 20 20.0 28.7 26.75 24.55 21 20.4 27.200000000000003 26.974999999999998 25.424999999999997 22 20.375 29.125 24.6 25.900000000000002 23 22.2 27.474999999999998 25.275 25.05 24 20.95 26.174999999999997 27.075 25.8 25 21.375 26.125 26.174999999999997 26.325 26 21.475 26.724999999999998 27.075 24.725 27 20.025000000000002 25.95 26.974999999999998 27.05 28 21.275 28.375 25.85 24.5 29 20.525 28.325 27.400000000000002 23.75 30 21.025 26.950000000000003 26.150000000000002 25.874999999999996 31 21.425 28.525 25.7 24.349999999999998 32 21.25 28.449999999999996 25.874999999999996 24.425 33 21.575 26.825 26.55 25.05 34 20.974999999999998 26.400000000000002 27.224999999999998 25.4 35 20.95 26.200000000000003 26.35 26.5 36 20.525 28.325 25.2 25.95 37 22.2 25.75 26.424999999999997 25.624999999999996 38 22.425 26.575 25.724999999999998 25.275 39 21.45 25.674999999999997 25.8 27.075 40 21.625 27.450000000000003 24.15 26.775 41 21.375 27.35 24.725 26.55 42 21.9 24.9 26.05 27.150000000000002 43 21.75 27.650000000000002 24.45 26.150000000000002 44 21.75 28.125 25.85 24.275 45 21.775 26.25 26.174999999999997 25.8 46 22.575 25.6 26.025 25.8 47 23.3 27.700000000000003 23.925 25.074999999999996 48 22.275 25.674999999999997 25.2 26.85 49 21.2 26.450000000000003 25.025 27.325 50 22.35 27.975 25.0 24.675 51 21.95 26.325 25.3 26.424999999999997 52 21.725 26.650000000000002 25.8 25.825 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 2.0 1 1.0 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 0.5 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 8.5 21 12.0 22 11.5 23 11.0 24 14.0 25 17.0 26 26.0 27 35.0 28 35.5 29 36.0 30 46.5 31 57.0 32 70.0 33 83.0 34 103.5 35 124.0 36 139.0 37 154.0 38 198.0 39 223.5 40 205.0 41 234.5 42 264.0 43 279.0 44 294.0 45 306.0 46 318.0 47 317.5 48 317.0 49 307.5 50 298.0 51 342.0 52 386.0 53 363.5 54 341.0 55 275.0 56 209.0 57 202.5 58 196.0 59 166.5 60 137.0 61 122.0 62 107.0 63 78.5 64 40.0 65 30.0 66 30.0 67 30.0 68 20.0 69 10.0 70 9.0 71 8.0 72 10.0 73 12.0 74 7.5 75 3.0 76 3.0 77 3.0 78 2.0 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 0.125 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 89.375 #Duplication Level Percentage of deduplicated Percentage of total 1 94.20979020979021 84.2 2 3.4125874125874125 6.1 3 1.062937062937063 2.85 4 0.5034965034965035 1.7999999999999998 5 0.2517482517482518 1.125 6 0.1958041958041958 1.05 7 0.11188811188811189 0.7000000000000001 8 0.08391608391608392 0.6 9 0.11188811188811189 0.8999999999999999 >10 0.055944055944055944 0.675 >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 CCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACT 14 0.35000000000000003 No Hit CGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGC 13 0.325 No Hit CTCGTATTTTCCCCTCTGCCTCGGGTTGTCTCGCGATACCTTCTACAGCTTG 9 0.22499999999999998 No Hit CTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAACGGCA 9 0.22499999999999998 No Hit GGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCGA 9 0.22499999999999998 No Hit CTCAGCCTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGAGGC 9 0.22499999999999998 No Hit GTCGCGTATTTAAGTCGTCTGCAAAGGATTCTACCCGCCGCTCGGTGGGAAT 8 0.2 No Hit GTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGA 8 0.2 No Hit CTCCAGCAACGGGCTCGATGTCGTAGCATCGTCCCTTATAACGATCAAGACT 8 0.2 No Hit CGCAGAAGTAGGAATAATGGCACCAGAAATGATATTGTTTCCATAAAGTAGA 7 0.17500000000000002 No Hit CCTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAACGGC 7 0.17500000000000002 No Hit CTGCAAAGGATTCTACCCGCCGCTCGGTGGGAATTGTACTTCAAGGCGGCCC 7 0.17500000000000002 No Hit GCCAGATACAAAGTATGGAAAGGTGTCTATGACTTCCCCGCCAGGACCCACC 7 0.17500000000000002 No Hit GGGCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAGAT 6 0.15 No Hit GTCCCTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAAC 6 0.15 No Hit CCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCCCT 6 0.15 No Hit GTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCG 6 0.15 No Hit CGGGAAAGCTGAGGTAGACTTGAGGCCGTTGAATGGTGCAACCATGTTGGCC 6 0.15 No Hit GGCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAGATC 6 0.15 No Hit GTCCTAGAAGTGCATGATAAATACCGCCAAAGCCCAATACTGCAGAGGAAAT 6 0.15 No Hit GCCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTAC 5 0.125 No Hit CTCACGAGCAAGATCACGTCCCTCATTACGAGCTTGTACACATGCTTCTAGA 5 0.125 No Hit CCAGCAACGGGCTCGATGTCGTAGCATCGTCCCTTATAACGATCAAGACTGG 5 0.125 No Hit CACGGTTAATAATATCAGCCCAGGTATTAATTACACGACCTTGACTATCAAC 5 0.125 No Hit CCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTG 5 0.125 No Hit CTCGGTTGCTGGAACCTCCATGACTCCAGTGTAGACATGGCTCTTCTCAGTC 5 0.125 No Hit GGGCGATCTCGTAGTTCCTACGGGGTGGAGACGATGGGGTCGGTCCATGGAT 5 0.125 No Hit GCCCCATCTATCCTCCTGAGGAGAAGTTTGGTTTCAAACCCCGGTTCGAACA 5 0.125 No Hit CCGCCGAATACACCAGCTACGCCTAACATGTGAAATGGGTGCATAAGGATGT 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 0.025 0.0 0.0 0.0 0.0 10 0.025 0.0 0.0 0.0 0.0 11 0.025 0.0 0.0 0.0 0.0 12 0.025 0.0 0.0 0.0 0.0 13 0.025 0.0 0.0 0.0 0.0 14 0.025 0.0 0.0 0.0 0.0 15 0.025 0.0 0.0 0.0 0.0 16 0.025 0.0 0.0 0.0 0.0 17 0.025 0.0 0.0 0.0 0.0 18 0.025 0.0 0.0 0.0 0.0 19 0.025 0.0 0.0 0.0 0.0 20 0.025 0.0 0.0 0.0 0.0 21 0.025 0.0 0.0 0.0 0.0 22 0.025 0.0 0.0 0.0 0.0 23 0.025 0.0 0.0 0.0 0.0 24 0.025 0.0 0.0 0.0 0.0 25 0.025 0.0 0.0 0.0 0.0 26 0.025 0.0 0.0 0.0 0.0 27 0.025 0.0 0.0 0.0 0.0 28 0.025 0.0 0.0 0.0 0.0 29 0.025 0.0 0.0 0.0 0.0 30 0.025 0.0 0.0 0.0 0.0 31 0.025 0.0 0.0 0.0 0.0 32 0.025 0.0 0.0 0.0 0.0 33 0.025 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 200000 spots for SRR5423434.sra Written 200000 spots for SRR5423434.sra Read 200000 spots for SRR5423434.sra Written 200000 spots for SRR5423434.sra Read 200000 spots for SRR5423434.sra Written 200000 spots for SRR5423434.sra Read 200000 spots for SRR5423434.sra Written 200000 spots for SRR5423434.sra Read 200000 spots for SRR5423434.sra Written 200000 spots for SRR5423434.sra Read 200000 spots for SRR5423434.sra Written 200000 spots for SRR5423434.sra Read 200000 spots for SRR5423434.sra Written 200000 spots for SRR5423434.sra Read 200000 spots for SRR5423434.sra Written 200000 spots for SRR5423434.sra Read 200000 spots for SRR5423434.sra Written 200000 spots for SRR5423434.sra Read 200000 spots for SRR5423434.sra Written 200000 spots for SRR5423434.sra Read 200000 spots for SRR5423434.sra Written 200000 spots for SRR5423434.sra Read 200000 spots for SRR5423434.sra Written 200000 spots for SRR5423434.sra Read 200000 spots for SRR5423434.sra Written 200000 spots for SRR5423434.sra Read 200000 spots for SRR5423434.sra Written 200000 spots for SRR5423434.sra Read 200000 spots for SRR5423434.sra Written 200000 spots for SRR5423434.sra Read 200000 spots for SRR5423434.sra Written 200000 spots for SRR5423434.sra Read 200000 spots for SRR5423434.sra Written 200000 spots for SRR5423434.sra Read 200000 spots for SRR5423434.sra Written 200000 spots for SRR5423434.sra Read 200000 spots for SRR5423434.sra Written 200000 spots for SRR5423434.sra Read 200000 spots for SRR5423434.sra Written 200000 spots for SRR5423434.sra SRR ids: ['SRR5423434.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_y8_j0ixp SRR5423434.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]] SRR5423434 file size 703951 SRR5423434 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 SRR5423434 SRR5423434_1.fastq Input file: SRR5423434_1.fastq trimmed: SRR5423434-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 11:31:07 2025 >> started Wed Feb 12 11:31:09 2025 >> done (2.011s) 4000000 reads processed; of these: 148 ( 0.00%) short reads filtered out after trimming by size control 77 ( 0.00%) empty reads filtered out after trimming by size control 3999775 (99.99%) reads available; of these: 105259 ( 2.63%) trimmed reads available after processing 3894516 (97.37%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 14 0.00% 19 3 0.00% 20 5 0.00% 21 2 0.00% 22 0 0.00% 23 2 0.00% 24 5 0.00% 25 1 0.00% 26 1 0.00% 27 4 0.00% 28 2 0.00% 29 6 0.00% 30 13 0.00% 31 8 0.00% 32 18 0.00% 33 15 0.00% 34 22 0.00% 35 20 0.00% 36 31 0.00% 37 34 0.00% 38 53 0.00% 39 58 0.00% 40 76 0.00% 41 129 0.00% 42 194 0.00% 43 197 0.00% 44 392 0.01% 45 545 0.01% 46 669 0.02% 47 1130 0.03% 48 2121 0.05% 49 4451 0.11% 50 13006 0.33% 51 82032 2.05% 52 3894516 97.37% 3999775 reads passed initial QC criterion=sequence-density sequence-density=0.46 sequence-density-rank=1 fanout-score=2.00 fanout-score-rank=28 prefix-density=0.46 prefix-fanout=2.0 sequence=TGCTTAATGACCGCATGTGCAGGTAGTGCAAGTGCAGCCAGTACCGCAGTTGCACTTGCCATCGTTCTCAGCTGCTGGCACCTCCATGAC criterion=fanout-score sequence-density=0.01 sequence-density-rank=30 fanout-score=26.52 fanout-score-rank=1 prefix-density=0.30 prefix-fanout=1.2 sequence=CATTTTATTTCTATCTTTCCATACATAACCAAAAAATGGAAAAGATTCTTCAAGAGTCTCGGGTCCTAGAAGTGCATGATAAATACCGCCAAAGCCCAATACTGCAGAGGAAATTAAGTGAAGTACGCCAGATACAAAGTATGGAAAGGTGTCTATGACTTCCCCGCCAGGACCCACCCCCCAACCTAGAGTAGCTAGGTGGGGAAGTAAAATTAATCCTTGTTCATACATTGGCTTCTCCGGTACGAAATGGGCCACTTCAAATAGGTTCATTGCTCCGGCCCAGAATACGATTAATCCAGCATGGGCTACATGAGCTCCCAGCAG Started job on | Feb 12 11:31:21 Started mapping on | Feb 12 11:31:22 Finished on | Feb 12 11:31:27 Mapping speed, Million of reads per hour | 2879.84 Number of input reads | 3999775 Average input read length | 51 UNIQUE READS: Uniquely mapped reads number | 3132854 Uniquely mapped reads % | 78.33% Average mapped length | 51.78 Number of splices: Total | 288269 Number of splices: Annotated (sjdb) | 283785 Number of splices: GT/AG | 281670 Number of splices: GC/AG | 5304 Number of splices: AT/AC | 798 Number of splices: Non-canonical | 497 Mismatch rate per base, % | 0.38% 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 | 714498 % of reads mapped to multiple loci | 17.86% Number of reads mapped to too many loci | 81103 % of reads mapped to too many loci | 2.03% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.77% % of reads unmapped: other | 0.01% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 152423 152423 152423 N_multimapping 714498 714498 714498 N_noFeature 393909 3087435 427832 N_ambiguous 22019 161 10372 UnstrandedReadsAssigned:2716926 PositiveStrandReadsAssigned:45258 NegativeStrandReadsAssigned:2694650 Dataset is classified negative stranded MeadianReadLen=52 20thPercentileLength=52 echo kmer=47 SRR5423434 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: SRR5423434-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 3,999,775 reads, 3,272,813 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,089 rounds 52401 SRR5423434.ke.tsv 34699 SRR5423434.se.tsv 87100 total ==> SRR5423434.ke.tsv <== target_id length eff_length est_counts tpm Potri.005G200100.1.v4.1 2018 1919 120 17.6153 Potri.005G024800.1.v4.1 1035 936 18 5.41728 Potri.004G059700.1.v4.1 961 862 5 1.63398 Potri.007G009000.2.v4.1 1416 1317 0 0 Potri.003G141000.2.v4.1 2943 2844 29.1873 2.891 Potri.016G087400.1.v4.1 270 171 7 11.5315 Potri.015G069301.1.v4.1 564 465 0 0 Potri.010G195200.1.v4.1 1773 1674 1 0.168279 Potri.012G127500.1.v4.1 977 878 3 0.962523 ==> SRR5423434.se.tsv <== Potri.001G166300.v4.1 0 Potri.001G448400.v4.1 2 Potri.001G233950.v4.1 0 Potri.001G122700.v4.1 23 Potri.001G212900.v4.1 1 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 SRR5423434 completed mapping pipeline successfully