Starting /dee2/code/volunteer_pipeline.sh SRR5423398 current disk space = 3050071326720 free memory = 1581581960 SRR5423398 SRAfilesize 59dbcfebd72d4f06438175234069443b SRR5423398.sra SRR5423398.sra file validated SRR5423398 is single end SRR5423398 is conventional basespace SRR5423398 read1 length is 52 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5423398_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 29.53675 34.0 31.0 34.0 16.0 34.0 2 31.081 34.0 31.0 34.0 19.0 34.0 3 32.13975 34.0 31.0 34.0 28.0 34.0 4 35.84825 37.0 35.0 37.0 35.0 37.0 5 35.9375 37.0 35.0 37.0 35.0 37.0 6 35.9185 37.0 35.0 37.0 35.0 37.0 7 36.05225 37.0 35.0 37.0 35.0 37.0 8 35.9775 37.0 35.0 37.0 35.0 37.0 9 37.748 39.0 38.0 39.0 35.0 39.0 10 37.68825 39.0 38.0 39.0 35.0 39.0 11 37.815 39.0 38.0 39.0 35.0 39.0 12 37.819 39.0 38.0 39.0 35.0 39.0 13 37.7525 39.0 38.0 39.0 35.0 39.0 14 39.085 40.0 39.0 41.0 36.0 41.0 15 39.074 40.0 39.0 41.0 36.0 41.0 16 39.02975 40.0 38.0 41.0 36.0 41.0 17 39.0675 40.0 38.0 41.0 36.0 41.0 18 39.05675 40.0 38.0 41.0 36.0 41.0 19 38.9875 40.0 39.0 41.0 36.0 41.0 20 39.048 40.0 39.0 41.0 36.0 41.0 21 38.9795 40.0 39.0 41.0 35.0 41.0 22 39.03025 40.0 39.0 41.0 36.0 41.0 23 38.81825 40.0 38.0 41.0 34.0 41.0 24 38.784 40.0 38.0 41.0 35.0 41.0 25 38.7005 40.0 38.0 41.0 34.0 41.0 26 38.588 40.0 38.0 41.0 34.0 41.0 27 38.6275 40.0 38.0 41.0 34.0 41.0 28 38.34225 40.0 38.0 41.0 34.0 41.0 29 38.38025 40.0 38.0 41.0 34.0 41.0 30 38.41325 40.0 38.0 41.0 34.0 41.0 31 38.2525 40.0 38.0 41.0 33.0 41.0 32 37.97275 40.0 38.0 41.0 33.0 41.0 33 38.02725 40.0 38.0 41.0 33.0 41.0 34 37.84175 40.0 38.0 41.0 33.0 41.0 35 37.9375 40.0 38.0 41.0 33.0 41.0 36 37.8445 40.0 38.0 41.0 33.0 41.0 37 37.777 40.0 38.0 41.0 32.0 41.0 38 37.6795 40.0 38.0 41.0 32.0 41.0 39 37.58825 40.0 37.0 41.0 32.0 41.0 40 37.5235 40.0 37.0 41.0 31.0 41.0 41 37.531 40.0 37.0 41.0 31.0 41.0 42 37.39325 40.0 37.0 41.0 31.0 41.0 43 37.34425 40.0 37.0 41.0 31.0 41.0 44 37.32175 40.0 37.0 41.0 31.0 41.0 45 36.9915 40.0 37.0 41.0 30.0 41.0 46 36.999 40.0 36.0 41.0 30.0 41.0 47 36.7855 40.0 36.0 41.0 30.0 41.0 48 36.8245 40.0 36.0 41.0 30.0 41.0 49 36.96575 40.0 36.0 41.0 30.0 41.0 50 36.8605 40.0 36.0 41.0 30.0 41.0 51 36.65175 40.0 36.0 41.0 29.0 41.0 52 34.49725 38.0 33.0 40.0 23.0 41.0 >>END_MODULE >>Per tile sequence quality pass #Tile Base Mean 1101 1 0.0 1101 2 0.0 1101 3 0.0 1101 4 0.0 1101 5 0.0 1101 6 0.0 1101 7 0.0 1101 8 0.0 1101 9 0.0 1101 10 0.0 1101 11 0.0 1101 12 0.0 1101 13 0.0 1101 14 0.0 1101 15 0.0 1101 16 0.0 1101 17 0.0 1101 18 0.0 1101 19 0.0 1101 20 0.0 1101 21 0.0 1101 22 0.0 1101 23 0.0 1101 24 0.0 1101 25 0.0 1101 26 0.0 1101 27 0.0 1101 28 0.0 1101 29 0.0 1101 30 0.0 1101 31 0.0 1101 32 0.0 1101 33 0.0 1101 34 0.0 1101 35 0.0 1101 36 0.0 1101 37 0.0 1101 38 0.0 1101 39 0.0 1101 40 0.0 1101 41 0.0 1101 42 0.0 1101 43 0.0 1101 44 0.0 1101 45 0.0 1101 46 0.0 1101 47 0.0 1101 48 0.0 1101 49 0.0 1101 50 0.0 1101 51 0.0 1101 52 0.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 16 1.0 17 0.0 18 0.0 19 2.0 20 1.0 21 6.0 22 9.0 23 8.0 24 21.0 25 12.0 26 25.0 27 23.0 28 35.0 29 34.0 30 49.0 31 76.0 32 102.0 33 114.0 34 147.0 35 192.0 36 279.0 37 437.0 38 774.0 39 1649.0 40 4.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 29.955703211517164 9.02547065337763 7.142857142857142 53.875968992248055 2 21.625 13.100000000000001 36.75 28.525 3 21.3 17.424999999999997 22.45 38.824999999999996 4 25.624999999999996 26.025 20.349999999999998 28.000000000000004 5 24.85 29.925 24.425 20.8 6 19.275000000000002 32.550000000000004 25.45 22.725 7 14.649999999999999 24.55 41.575 19.225 8 19.45 22.375 29.9 28.275 9 18.325 22.0 32.824999999999996 26.85 10 17.7 39.125 23.45 19.725 11 22.925 29.325000000000003 20.95 26.8 12 21.45 25.124999999999996 25.3 28.125 13 19.875 28.175 27.200000000000003 24.75 14 20.549999999999997 27.150000000000002 28.65 23.65 15 21.05 26.5 27.125 25.324999999999996 16 20.474999999999998 27.525 26.875 25.124999999999996 17 20.65 27.224999999999998 27.900000000000002 24.224999999999998 18 20.424999999999997 27.725 26.3 25.55 19 20.349999999999998 28.675 25.124999999999996 25.85 20 21.75 26.474999999999998 25.75 26.025 21 20.025000000000002 26.625 26.625 26.724999999999998 22 21.6 27.925 24.85 25.624999999999996 23 20.724999999999998 28.475 26.05 24.75 24 21.575 27.075 25.05 26.3 25 20.4 27.775 24.7 27.125 26 20.45 27.0 27.425 25.124999999999996 27 22.375 25.2 27.425 25.0 28 22.15 27.6 24.85 25.4 29 20.7 27.925 27.200000000000003 24.175 30 20.150000000000002 25.85 26.8 27.200000000000003 31 20.625 26.575 26.25 26.55 32 20.974999999999998 28.299999999999997 26.325 24.4 33 21.5 26.775 25.7 26.025 34 21.325 27.6 24.325 26.75 35 20.525 27.075 26.75 25.650000000000002 36 21.4 28.175 25.624999999999996 24.8 37 20.424999999999997 26.450000000000003 26.3 26.825 38 21.375 27.625 25.95 25.05 39 21.55 25.474999999999998 25.95 27.025 40 22.15 26.6 25.924999999999997 25.324999999999996 41 20.599999999999998 27.35 25.974999999999998 26.075 42 20.175 25.900000000000002 27.275 26.650000000000002 43 21.725 26.474999999999998 25.15 26.650000000000002 44 23.525 25.974999999999998 26.775 23.724999999999998 45 22.825 26.6 24.275 26.3 46 22.900000000000002 27.200000000000003 23.075000000000003 26.825 47 22.3 28.349999999999998 25.05 24.3 48 21.75 27.675 24.45 26.125 49 21.75 26.1 25.224999999999998 26.924999999999997 50 21.375 27.525 26.224999999999998 24.875 51 23.0 24.725 25.874999999999996 26.400000000000002 52 22.325 26.125 25.75 25.8 >>END_MODULE >>Per sequence GC content pass #GC Content Count 0 1.0 1 0.5 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 1.0 14 1.5 15 1.0 16 1.5 17 2.0 18 4.5 19 7.0 20 6.0 21 5.0 22 7.5 23 10.0 24 13.0 25 16.0 26 19.5 27 23.0 28 24.0 29 25.0 30 46.5 31 68.0 32 75.0 33 82.0 34 95.5 35 109.0 36 140.0 37 171.0 38 196.0 39 237.5 40 254.0 41 245.5 42 237.0 43 279.5 44 322.0 45 328.0 46 334.0 47 336.0 48 338.0 49 341.0 50 344.0 51 340.0 52 336.0 53 311.0 54 286.0 55 252.5 56 219.0 57 203.5 58 188.0 59 164.0 60 140.0 61 127.0 62 114.0 63 83.5 64 43.5 65 34.0 66 25.5 67 17.0 68 17.5 69 18.0 70 12.5 71 7.0 72 7.0 73 7.0 74 5.5 75 4.0 76 3.0 77 2.0 78 1.5 79 1.0 80 1.0 81 1.0 82 0.5 83 0.0 84 0.0 85 0.0 86 0.0 87 0.0 88 0.5 89 0.5 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 warn #Base N-Count 1 9.700000000000001 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 88.675 #Duplication Level Percentage of deduplicated Percentage of total 1 93.43106850859881 82.85 2 4.144347335776713 7.35 3 0.9021708486044545 2.4 4 0.7330138144911192 2.6 5 0.2537355511700028 1.125 6 0.31012122920778123 1.6500000000000001 7 0.05638567803777841 0.35000000000000003 8 0.05638567803777841 0.4 9 0.028192839018889203 0.22499999999999998 >10 0.08457851705666761 1.05 >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 19 0.475 No Hit GGGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCG 13 0.325 No Hit CCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACT 10 0.25 No Hit CGCAGAAGTAGGAATAATGGCACCAGAAATGATATTGTTTCCATAAAGTAGA 9 0.22499999999999998 No Hit CTCCAGCAACGGGCTCGATGTCGTAGCATCGTCCCTTATAACGATCAAGACT 8 0.2 No Hit GTGCATAAGGATGTTGTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTA 8 0.2 No Hit CAGAAATGATATTGTTTCCATAAAGTAGAGATCCAGAAACAGGTTCACGAAT 7 0.17500000000000002 No Hit CCCTGATCAAACTAGAGGTTACCAAAGAACCATGCATAGCACTGAATAGGGA 7 0.17500000000000002 No Hit GTCCCTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAAC 6 0.15 No Hit CTCGTATTTTCCCCTCTGCCTCGGGTTGTCTCGCGATACCTTCTACAGCTTG 6 0.15 No Hit CTCCTTCCATACTTCACAAGCAGCAGCTAGTTCAGGGCTCCATTTGCTAGCT 6 0.15 No Hit CTCCATTTTATTTTCCCATTGAGGCCGAACCTAAACCTGTGCTCGAGAGATA 6 0.15 No Hit CCTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAACGGC 6 0.15 No Hit GTCCCTTATAACGATCAAGACTGGTAAGCCCGTCGGTCCACACAGTTGTCCA 6 0.15 No Hit CTCTTGACCAAATCTGTAACCTTCATTAGCAGATTCATTTTCTGTGGTTTCC 6 0.15 No Hit CCCGAAGCCACGGGTAGAACACCCGGTAGAGAGACCCAATCTTGAGTGAAAT 6 0.15 No Hit CCCACTTTTTGGTCTTAAGAATGCTGGTTTTAAGAATGAGTGATTGCCCTTC 6 0.15 No Hit ATCAAACTAGAGGTTACCAAAGAACCATGCATAGCACTGAATAGGGAGCCGC 6 0.15 No Hit CTAACATGTGAAATGGGTGCATAAGGATGTTGTGCTCAGCCTGGAATACAAT 6 0.15 No Hit GGGCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAGAT 5 0.125 No Hit CTTAAGAATGCTGGTTTTAAGAATGAGTGATTGCCCTTCTCCGACCCTTACT 5 0.125 No Hit CTCGGGTCCTAGAAGTGCATGATAAATACCGCCAAAGCCCAATACTGCAGAG 5 0.125 No Hit CTCACGAGCAAGATCACGTCCCTCATTACGAGCTTGTACACATGCTTCTAGA 5 0.125 No Hit CCAGTCCATAAATTGTTAAAGCTTCCATAAAAGCCAGACTAAGCAATAAAGT 5 0.125 No Hit CTGCAAAGGATTCTACCCGCCGCTCGGTGGGAATTGTACTTCAAGGCGGCCC 5 0.125 No Hit CCCGAACACAGCTTACAACTTTCATCGTACTGTGCTCTCCAAAGAGCAACTC 5 0.125 No Hit CTTATAACGATCAAGACTGGTAAGCCCGTCGGTCCACACAGTTGTCCATGTA 5 0.125 No Hit GTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCGATG 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 SRR5423398.sra Written 200000 spots for SRR5423398.sra Read 200000 spots for SRR5423398.sra Written 200000 spots for SRR5423398.sra Read 200000 spots for SRR5423398.sra Written 200000 spots for SRR5423398.sra Read 200000 spots for SRR5423398.sra Written 200000 spots for SRR5423398.sra Read 200000 spots for SRR5423398.sra Written 200000 spots for SRR5423398.sra Read 200000 spots for SRR5423398.sra Written 200000 spots for SRR5423398.sra Read 200000 spots for SRR5423398.sra Written 200000 spots for SRR5423398.sra Read 200000 spots for SRR5423398.sra Written 200000 spots for SRR5423398.sra Read 200000 spots for SRR5423398.sra Written 200000 spots for SRR5423398.sra Read 200000 spots for SRR5423398.sra Written 200000 spots for SRR5423398.sra Read 200000 spots for SRR5423398.sra Written 200000 spots for SRR5423398.sra Read 200000 spots for SRR5423398.sra Written 200000 spots for SRR5423398.sra Read 200000 spots for SRR5423398.sra Written 200000 spots for SRR5423398.sra Read 200000 spots for SRR5423398.sra Written 200000 spots for SRR5423398.sra Read 200000 spots for SRR5423398.sra Written 200000 spots for SRR5423398.sra Read 200000 spots for SRR5423398.sra Written 200000 spots for SRR5423398.sra Read 200000 spots for SRR5423398.sra Written 200000 spots for SRR5423398.sra Read 200000 spots for SRR5423398.sra Written 200000 spots for SRR5423398.sra Read 200000 spots for SRR5423398.sra Written 200000 spots for SRR5423398.sra Read 200000 spots for SRR5423398.sra Written 200000 spots for SRR5423398.sra SRR ids: ['SRR5423398.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_2es6ji76 SRR5423398.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]] SRR5423398 file size 703979 SRR5423398 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 SRR5423398 SRR5423398_1.fastq Input file: SRR5423398_1.fastq trimmed: SRR5423398-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 10:04:11 2025 >> started Wed Feb 12 10:04:13 2025 >> done (1.943s) 4000000 reads processed; of these: 128 ( 0.00%) short reads filtered out after trimming by size control 57 ( 0.00%) empty reads filtered out after trimming by size control 3999815 (100.00%) reads available; of these: 102556 ( 2.56%) trimmed reads available after processing 3897259 (97.44%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 3 0.00% 19 3 0.00% 20 0 0.00% 21 2 0.00% 22 2 0.00% 23 3 0.00% 24 4 0.00% 25 4 0.00% 26 3 0.00% 27 4 0.00% 28 8 0.00% 29 7 0.00% 30 3 0.00% 31 12 0.00% 32 9 0.00% 33 9 0.00% 34 18 0.00% 35 17 0.00% 36 33 0.00% 37 35 0.00% 38 29 0.00% 39 69 0.00% 40 68 0.00% 41 98 0.00% 42 146 0.00% 43 206 0.01% 44 548 0.01% 45 721 0.02% 46 700 0.02% 47 982 0.02% 48 1856 0.05% 49 4203 0.11% 50 12405 0.31% 51 80346 2.01% 52 3897259 97.44% 3999815 reads passed initial QC criterion=sequence-density sequence-density=0.34 sequence-density-rank=1 fanout-score=3.61 fanout-score-rank=11 prefix-density=0.42 prefix-fanout=2.9 sequence=CCATTGCTTGCAATGGAAGTAATGTCATT criterion=fanout-score sequence-density=0.02 sequence-density-rank=29 fanout-score=27.88 fanout-score-rank=1 prefix-density=0.38 prefix-fanout=1.1 sequence=CATTTTATTTCTATCTTTCCATACATAACCAAAAAATGGAAAAGATTCTTCAAGAGTCTCGGGTCCTAGAAGTGCATGATAAATACCGCCAAAGCCCAATACTGCAGAGGAAATTAAGTGAAGTACGCCAGATACAAAGTATGGAAAGGTGTCTATGACTTCCCCGCCAGGACCCACCCCCCAACCTAGAGTAGCTAGGTGGGGAAGTAAAATTAATCCTTGTTCATACATTGGCTTCTCCGGTACGAAATGGGCCACTTCAAATAGGTTCATTGCTCCGGCCCAGAATACGATTAATCCAGCATGGGCTACATGAGCTCCCAGCAG Started job on | Feb 12 10:04:23 Started mapping on | Feb 12 10:04:23 Finished on | Feb 12 10:04:28 Mapping speed, Million of reads per hour | 2879.87 Number of input reads | 3999815 Average input read length | 51 UNIQUE READS: Uniquely mapped reads number | 3116926 Uniquely mapped reads % | 77.93% Average mapped length | 51.79 Number of splices: Total | 277187 Number of splices: Annotated (sjdb) | 273727 Number of splices: GT/AG | 269544 Number of splices: GC/AG | 6184 Number of splices: AT/AC | 978 Number of splices: Non-canonical | 481 Mismatch rate per base, % | 0.33% Deletion rate per base | 0.01% Deletion average length | 2.75 Insertion rate per base | 0.00% Insertion average length | 1.33 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 767116 % of reads mapped to multiple loci | 19.18% Number of reads mapped to too many loci | 52864 % of reads mapped to too many loci | 1.32% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.56% % of reads unmapped: other | 0.01% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 115773 115773 115773 N_multimapping 767116 767116 767116 N_noFeature 402130 3076340 431441 N_ambiguous 22484 145 11075 UnstrandedReadsAssigned:2692312 PositiveStrandReadsAssigned:40441 NegativeStrandReadsAssigned:2674410 Dataset is classified negative stranded MeadianReadLen=52 20thPercentileLength=52 echo kmer=47 SRR5423398 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: SRR5423398-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 3,999,815 reads, 3,290,555 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,064 rounds 52401 SRR5423398.ke.tsv 34699 SRR5423398.se.tsv 87100 total ==> SRR5423398.ke.tsv <== target_id length eff_length est_counts tpm Potri.005G200100.1.v4.1 2018 1919 84.6631 11.8947 Potri.005G024800.1.v4.1 1035 936 6 1.72826 Potri.004G059700.1.v4.1 961 862 4 1.25108 Potri.007G009000.2.v4.1 1416 1317 0 0 Potri.003G141000.2.v4.1 2943 2844 82 7.7735 Potri.016G087400.1.v4.1 270 171 17 26.8031 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 8 2.45656 ==> SRR5423398.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 0 Potri.001G182400.v4.1 0 Potri.001G256600.v4.1 0 Potri.001G040500.v4.1 4 Potri.001G416900.v4.1 0 Potri.001G452600.v4.1 0 SRR5423398 completed mapping pipeline successfully