Starting /dee2/code/volunteer_pipeline.sh SRR5423436 current disk space = 3051213393920 free memory = 1581353068 SRR5423436 SRAfilesize 6dc51bdb16db37b4eacc4e1fc6b7e789 SRR5423436.sra SRR5423436.sra file validated SRR5423436 is single end SRR5423436 is conventional basespace SRR5423436 read1 length is 52 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5423436_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 29.82075 34.0 31.0 34.0 25.0 34.0 2 31.225 34.0 31.0 34.0 25.0 34.0 3 32.23475 34.0 31.0 34.0 28.0 34.0 4 35.80675 37.0 35.0 37.0 35.0 37.0 5 35.96675 37.0 35.0 37.0 35.0 37.0 6 35.92975 37.0 35.0 37.0 35.0 37.0 7 35.998 37.0 35.0 37.0 35.0 37.0 8 35.9625 37.0 35.0 37.0 35.0 37.0 9 37.7485 39.0 38.0 39.0 35.0 39.0 10 37.6525 39.0 37.0 39.0 35.0 39.0 11 37.764 39.0 37.0 39.0 35.0 39.0 12 37.75825 39.0 38.0 39.0 35.0 39.0 13 37.668 39.0 37.0 39.0 35.0 39.0 14 39.199 40.0 39.0 41.0 36.0 41.0 15 39.12675 40.0 39.0 41.0 36.0 41.0 16 38.99725 40.0 39.0 41.0 36.0 41.0 17 38.9575 40.0 38.0 41.0 36.0 41.0 18 38.98175 40.0 38.0 41.0 36.0 41.0 19 38.88425 40.0 38.0 41.0 35.0 41.0 20 38.95875 40.0 39.0 41.0 35.0 41.0 21 38.801 40.0 38.0 41.0 35.0 41.0 22 38.8175 40.0 38.0 41.0 35.0 41.0 23 38.79875 40.0 38.0 41.0 35.0 41.0 24 38.79225 40.0 38.0 41.0 35.0 41.0 25 38.675 40.0 38.0 41.0 34.0 41.0 26 38.641 40.0 38.0 41.0 34.0 41.0 27 38.61575 40.0 38.0 41.0 34.0 41.0 28 38.34475 40.0 38.0 41.0 33.0 41.0 29 38.318 40.0 38.0 41.0 34.0 41.0 30 38.3335 40.0 38.0 41.0 33.0 41.0 31 38.27175 40.0 38.0 41.0 33.0 41.0 32 37.974 40.0 38.0 41.0 33.0 41.0 33 37.9455 40.0 38.0 41.0 33.0 41.0 34 37.9605 40.0 38.0 41.0 33.0 41.0 35 38.1385 40.0 38.0 41.0 33.0 41.0 36 37.814 40.0 38.0 41.0 33.0 41.0 37 37.7565 40.0 38.0 41.0 32.0 41.0 38 37.72725 40.0 38.0 41.0 32.0 41.0 39 37.58025 40.0 37.0 41.0 31.0 41.0 40 37.54 40.0 37.0 41.0 31.0 41.0 41 37.56275 40.0 37.0 41.0 31.0 41.0 42 37.44075 40.0 37.0 41.0 31.0 41.0 43 37.37025 40.0 37.0 41.0 31.0 41.0 44 37.2805 40.0 37.0 41.0 31.0 41.0 45 37.1475 40.0 37.0 41.0 30.0 41.0 46 37.09325 40.0 37.0 41.0 30.0 41.0 47 36.761 40.0 36.0 41.0 29.0 41.0 48 36.804 40.0 36.0 41.0 30.0 41.0 49 36.76125 40.0 36.0 41.0 29.0 41.0 50 36.78225 40.0 36.0 41.0 29.0 41.0 51 36.605 39.0 36.0 41.0 29.0 41.0 52 34.56025 38.0 33.0 40.0 24.0 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 14 1.0 15 0.0 16 0.0 17 0.0 18 0.0 19 0.0 20 1.0 21 5.0 22 8.0 23 10.0 24 15.0 25 14.0 26 17.0 27 24.0 28 30.0 29 44.0 30 58.0 31 83.0 32 81.0 33 121.0 34 159.0 35 189.0 36 290.0 37 438.0 38 792.0 39 1618.0 40 2.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 37.07557502738226 9.884994523548741 5.7502738225629795 47.28915662650602 2 23.724999999999998 13.125 34.9 28.249999999999996 3 22.35 18.625 22.375 36.65 4 25.4 26.0 20.724999999999998 27.875 5 25.3 32.05 22.5 20.150000000000002 6 19.275000000000002 32.175 24.325 24.224999999999998 7 14.899999999999999 23.9 41.925000000000004 19.275000000000002 8 19.15 21.55 30.075000000000003 29.225 9 17.474999999999998 21.825 32.824999999999996 27.875 10 17.05 39.35 24.625 18.975 11 22.45 27.525 22.25 27.775 12 21.3 24.9 27.125 26.674999999999997 13 19.25 27.675 28.675 24.4 14 20.549999999999997 27.175 28.625 23.65 15 20.599999999999998 26.275 27.325 25.8 16 20.0 26.825 27.1 26.075 17 21.9 27.500000000000004 27.275 23.325000000000003 18 22.375 26.85 25.5 25.275 19 21.4 26.950000000000003 27.675 23.974999999999998 20 21.45 27.55 25.224999999999998 25.775 21 21.575 26.474999999999998 25.525 26.424999999999997 22 20.45 27.875 25.3 26.375 23 21.775 27.625 26.3 24.3 24 22.0 26.474999999999998 26.700000000000003 24.825 25 21.95 26.724999999999998 25.874999999999996 25.45 26 22.650000000000002 27.85 25.45 24.05 27 20.625 25.924999999999997 27.250000000000004 26.200000000000003 28 21.025 27.400000000000002 26.85 24.725 29 21.45 27.025 27.474999999999998 24.05 30 21.475 25.224999999999998 27.625 25.674999999999997 31 20.5 26.700000000000003 26.35 26.450000000000003 32 21.125 26.924999999999997 27.375 24.575 33 21.05 25.5 28.599999999999998 24.85 34 20.525 26.85 26.525 26.1 35 21.525 27.400000000000002 24.474999999999998 26.6 36 21.475 25.45 25.874999999999996 27.200000000000003 37 21.025 25.8 26.625 26.55 38 21.45 26.424999999999997 25.15 26.974999999999998 39 20.45 25.5 26.375 27.675 40 20.4 28.050000000000004 24.375 27.175 41 21.275 26.700000000000003 25.474999999999998 26.55 42 20.150000000000002 26.075 26.1 27.675 43 21.349999999999998 27.775 24.25 26.625 44 22.15 27.975 25.35 24.525 45 23.849999999999998 25.275 25.2 25.674999999999997 46 23.599999999999998 24.525 25.474999999999998 26.400000000000002 47 23.674999999999997 26.924999999999997 23.95 25.45 48 23.35 25.474999999999998 24.349999999999998 26.825 49 21.725 26.174999999999997 25.324999999999996 26.775 50 22.075 26.025 25.874999999999996 26.025 51 23.775 24.5 25.074999999999996 26.650000000000002 52 21.175 27.150000000000002 24.325 27.35 >>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 0.5 17 1.0 18 2.0 19 3.0 20 3.5 21 4.0 22 8.5 23 13.0 24 14.5 25 16.0 26 21.0 27 26.0 28 34.0 29 42.0 30 42.5 31 43.0 32 58.0 33 73.0 34 98.0 35 123.0 36 133.5 37 144.0 38 178.0 39 217.5 40 223.0 41 246.0 42 269.0 43 300.5 44 332.0 45 335.0 46 338.0 47 329.5 48 321.0 49 324.0 50 327.0 51 338.0 52 349.0 53 338.5 54 328.0 55 275.0 56 222.0 57 200.5 58 179.0 59 165.0 60 151.0 61 123.0 62 95.0 63 76.0 64 51.5 65 46.0 66 35.0 67 24.0 68 16.0 69 8.0 70 10.0 71 12.0 72 9.5 73 7.0 74 7.0 75 7.0 76 3.5 77 0.0 78 1.0 79 2.0 80 1.0 81 0.0 82 0.5 83 1.0 84 1.0 85 1.0 86 1.0 87 1.0 88 0.5 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 warn #Base N-Count 1 8.7 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 94.12756392245014 83.75 2 3.399831413318348 6.05 3 1.12391121101433 3.0 4 0.5900533857825232 2.1 5 0.2528800224782242 1.125 6 0.2528800224782242 1.35 7 0.0 0.0 8 0.112391121101433 0.8 9 0.0 0.0 >10 0.14048890137679124 1.825 >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 23 0.575 No Hit GGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCGA 16 0.4 No Hit GGGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCG 13 0.325 No Hit CCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACT 11 0.27499999999999997 No Hit CTGCAAAGGATTCTACCCGCCGCTCGGTGGGAATTGTACTTCAAGGCGGCCC 10 0.25 No Hit CAGGGCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAG 8 0.2 No Hit GCTCAGCCTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGAGG 8 0.2 No Hit CTCACGAGCAAGATCACGTCCCTCATTACGAGCTTGTACACATGCTTCTAGA 8 0.2 No Hit CTCAGCCTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGAGGC 8 0.2 No Hit GTCCCTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAAC 6 0.15 No Hit CCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCCCT 6 0.15 No Hit GCCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTAC 6 0.15 No Hit GCCAAAATAACCATGAGCGGCTACGATATTATAAGTTTCTTCCTCTTGACCA 6 0.15 No Hit CACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCCCTG 6 0.15 No Hit CCCTGATCAAACTAGAGGTTACCAAAGAACCATGCATAGCACTGAATAGGGA 6 0.15 No Hit GCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCGATGTCGT 6 0.15 No Hit GTCGTCTGCAAAGGATTCTACCCGCCGCTCGGTGGGAATTGTACTTCAAGGC 6 0.15 No Hit GCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAGATCA 6 0.15 No Hit CGCGTATTTAAGTCGTCTGCAAAGGATTCTACCCGCCGCTCGGTGGGAATTG 5 0.125 No Hit CCTAGAAGTGCATGATAAATACCGCCAAAGCCCAATACTGCAGAGGAAATTA 5 0.125 No Hit CAGAAATGATATTGTTTCCATAAAGTAGAGATCCAGAAACAGGTTCACGAAT 5 0.125 No Hit CCTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAACGGC 5 0.125 No Hit CGAAAAACTTCCTTGACCGATTGGATAAATCAAGAAAACAGCAGTAGCCGCC 5 0.125 No Hit GCAAAGGATTCTACCCGCCGCTCGGTGGGAATTGTACTTCAAGGCGGCCCGC 5 0.125 No Hit CCCAATCCCACATCAAACATGATAGTTGATGTGCTTGCTTAATGACCGCATG 5 0.125 No Hit GTGAAGATACGTTGTTAGGTGCTCCATTTTATTTTCCCATTGAGGCCGAACC 5 0.125 No Hit ATCAAACTAGAGGTTACCAAAGAACCATGCATAGCACTGAATAGGGAGCCGC 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 200000 spots for SRR5423436.sra Written 200000 spots for SRR5423436.sra Read 200000 spots for SRR5423436.sra Written 200000 spots for SRR5423436.sra Read 200000 spots for SRR5423436.sra Written 200000 spots for SRR5423436.sra Read 200000 spots for SRR5423436.sra Written 200000 spots for SRR5423436.sra Read 200000 spots for SRR5423436.sra Written 200000 spots for SRR5423436.sra Read 200000 spots for SRR5423436.sra Written 200000 spots for SRR5423436.sra Read 200000 spots for SRR5423436.sra Written 200000 spots for SRR5423436.sra Read 200000 spots for SRR5423436.sra Written 200000 spots for SRR5423436.sra Read 200000 spots for SRR5423436.sra Written 200000 spots for SRR5423436.sra Read 200000 spots for SRR5423436.sra Written 200000 spots for SRR5423436.sra Read 200000 spots for SRR5423436.sra Written 200000 spots for SRR5423436.sra Read 200000 spots for SRR5423436.sra Written 200000 spots for SRR5423436.sra Read 200000 spots for SRR5423436.sra Written 200000 spots for SRR5423436.sra Read 200000 spots for SRR5423436.sra Written 200000 spots for SRR5423436.sra Read 200000 spots for SRR5423436.sra Written 200000 spots for SRR5423436.sra Read 200000 spots for SRR5423436.sra Written 200000 spots for SRR5423436.sra Read 200000 spots for SRR5423436.sra Written 200000 spots for SRR5423436.sra Read 200000 spots for SRR5423436.sra Written 200000 spots for SRR5423436.sra Read 200000 spots for SRR5423436.sra Written 200000 spots for SRR5423436.sra Read 200000 spots for SRR5423436.sra Written 200000 spots for SRR5423436.sra SRR ids: ['SRR5423436.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_ntm_pq4d SRR5423436.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]] SRR5423436 file size 703976 SRR5423436 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 SRR5423436 SRR5423436_1.fastq Input file: SRR5423436_1.fastq trimmed: SRR5423436-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 12:14:17 2025 >> started Wed Feb 12 12:14:19 2025 >> done (2.476s) 4000000 reads processed; of these: 156 ( 0.00%) short reads filtered out after trimming by size control 190 ( 0.00%) empty reads filtered out after trimming by size control 3999654 (99.99%) reads available; of these: 116799 ( 2.92%) trimmed reads available after processing 3882855 (97.08%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 11 0.00% 19 4 0.00% 20 5 0.00% 21 1 0.00% 22 3 0.00% 23 0 0.00% 24 4 0.00% 25 1 0.00% 26 2 0.00% 27 5 0.00% 28 5 0.00% 29 6 0.00% 30 11 0.00% 31 9 0.00% 32 8 0.00% 33 15 0.00% 34 23 0.00% 35 27 0.00% 36 30 0.00% 37 47 0.00% 38 59 0.00% 39 71 0.00% 40 99 0.00% 41 113 0.00% 42 198 0.00% 43 268 0.01% 44 452 0.01% 45 669 0.02% 46 822 0.02% 47 1302 0.03% 48 2415 0.06% 49 5403 0.14% 50 15022 0.38% 51 89689 2.24% 52 3882855 97.08% 3999654 reads passed initial QC criterion=sequence-density sequence-density=0.18 sequence-density-rank=1 fanout-score=6.52 fanout-score-rank=7 prefix-density=0.79 prefix-fanout=1.5 sequence=ACGTGCTTAATACGTGCTTAA criterion=fanout-score sequence-density=0.02 sequence-density-rank=25 fanout-score=20.39 fanout-score-rank=1 prefix-density=0.32 prefix-fanout=1.3 sequence=CATTTTATTTCTATCTTTCCATACATAACCAAAAAATGGAAAAGATTCTTCAAGAGTCTCGGGTCCTAGAAGTGCATGATAAATACCGCCAAAGCCCAATACTGCAGAGGAAATTAAGTGAAGTACGCCAGATACAAAGTATGGAAAGGTGTCTATGACTTCCCCGCCAGGACCCACCCCCCAACCTAGAGTAGCTAGGTGGGGAAGTAAAATTAATCCTTGTTCATACATTGGCTTCTCCGGTACGAAATGGGCCACTTCAAATAGGTTCATTGCTCCGGCCCAGAATACGATTAATCCAGCATGGGCTACATGAGCTCCCAGCAG Started job on | Feb 12 12:14:30 Started mapping on | Feb 12 12:14:30 Finished on | Feb 12 12:14:35 Mapping speed, Million of reads per hour | 2879.75 Number of input reads | 3999654 Average input read length | 51 UNIQUE READS: Uniquely mapped reads number | 3143365 Uniquely mapped reads % | 78.59% Average mapped length | 51.72 Number of splices: Total | 299571 Number of splices: Annotated (sjdb) | 294824 Number of splices: GT/AG | 292969 Number of splices: GC/AG | 5280 Number of splices: AT/AC | 829 Number of splices: Non-canonical | 493 Mismatch rate per base, % | 0.36% Deletion rate per base | 0.01% Deletion average length | 2.36 Insertion rate per base | 0.00% Insertion average length | 1.37 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 678966 % of reads mapped to multiple loci | 16.98% Number of reads mapped to too many loci | 102370 % of reads mapped to too many loci | 2.56% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.86% % of reads unmapped: other | 0.01% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 177323 177323 177323 N_multimapping 678966 678966 678966 N_noFeature 407608 3097433 443355 N_ambiguous 19765 149 9441 UnstrandedReadsAssigned:2715992 PositiveStrandReadsAssigned:45783 NegativeStrandReadsAssigned:2690569 Dataset is classified negative stranded MeadianReadLen=52 20thPercentileLength=52 echo kmer=47 SRR5423436 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: SRR5423436-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 3,999,654 reads, 3,260,224 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,356 rounds 52401 SRR5423436.ke.tsv 34699 SRR5423436.se.tsv 87100 total ==> SRR5423436.ke.tsv <== target_id length eff_length est_counts tpm Potri.005G200100.1.v4.1 2018 1919 166 23.6575 Potri.005G024800.1.v4.1 1035 936 19 5.55153 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 54 5.19277 Potri.016G087400.1.v4.1 270 171 11 17.5927 Potri.015G069301.1.v4.1 564 465 0 0 Potri.010G195200.1.v4.1 1773 1674 2.267 0.370366 Potri.012G127500.1.v4.1 977 878 4 1.24595 ==> SRR5423436.se.tsv <== Potri.001G166300.v4.1 0 Potri.001G448400.v4.1 1 Potri.001G233950.v4.1 0 Potri.001G122700.v4.1 40 Potri.001G212900.v4.1 1 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 SRR5423436 completed mapping pipeline successfully