Starting /dee2/code/volunteer_pipeline.sh SRR5423388 current disk space = 3051635179520 free memory = 1566983036 SRR5423388 SRAfilesize 2ad2cbd936c065a16024128017273913 SRR5423388.sra SRR5423388.sra file validated SRR5423388 is single end SRR5423388 is conventional basespace SRR5423388 read1 length is 52 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5423388_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 31.0665 31.0 30.0 34.0 28.0 34.0 2 31.32125 31.0 31.0 34.0 28.0 34.0 3 31.57025 31.0 31.0 34.0 30.0 34.0 4 31.523 35.0 30.0 37.0 19.0 37.0 5 33.9245 35.0 33.0 37.0 28.0 37.0 6 34.76825 35.0 35.0 37.0 32.0 37.0 7 35.13225 36.0 35.0 37.0 32.0 37.0 8 35.21175 37.0 35.0 37.0 32.0 37.0 9 36.91175 39.0 37.0 39.0 33.0 39.0 10 36.6305 39.0 35.0 39.0 32.0 39.0 11 36.61875 39.0 35.0 39.0 32.0 39.0 12 36.75 39.0 37.0 39.0 32.0 39.0 13 36.47075 39.0 35.0 39.0 32.0 39.0 14 37.71225 40.0 37.0 41.0 32.0 41.0 15 37.8365 40.0 37.0 41.0 32.0 41.0 16 37.9115 40.0 37.0 41.0 33.0 41.0 17 37.7835 40.0 37.0 41.0 32.0 41.0 18 37.68275 39.0 36.0 41.0 32.0 41.0 19 37.94925 40.0 37.0 41.0 33.0 41.0 20 37.8185 40.0 37.0 41.0 32.0 41.0 21 37.87725 40.0 37.0 41.0 33.0 41.0 22 37.87425 40.0 37.0 41.0 33.0 41.0 23 37.35075 39.0 36.0 41.0 31.0 41.0 24 37.68225 40.0 37.0 41.0 32.0 41.0 25 37.85375 40.0 37.0 41.0 33.0 41.0 26 37.519 39.0 37.0 41.0 32.0 41.0 27 37.21625 39.0 36.0 41.0 31.0 41.0 28 37.60825 39.0 37.0 41.0 32.0 41.0 29 37.6855 40.0 37.0 41.0 32.0 41.0 30 37.46925 40.0 36.0 41.0 32.0 41.0 31 37.4265 40.0 36.0 41.0 31.0 41.0 32 37.29675 40.0 36.0 41.0 31.0 41.0 33 37.4785 39.0 36.0 41.0 32.0 41.0 34 37.3215 39.0 36.0 41.0 31.0 41.0 35 37.1085 39.0 36.0 41.0 31.0 41.0 36 37.0775 39.0 36.0 40.0 31.0 41.0 37 37.0615 39.0 36.0 41.0 30.0 41.0 38 36.80725 39.0 35.0 40.0 30.0 41.0 39 37.11 39.0 36.0 40.0 31.0 41.0 40 36.60975 39.0 35.0 40.0 30.0 41.0 41 36.88125 39.0 36.0 40.0 30.0 41.0 42 36.835 39.0 35.0 41.0 30.0 41.0 43 36.57975 39.0 35.0 40.0 30.0 41.0 44 36.46925 39.0 35.0 40.0 30.0 41.0 45 36.54625 39.0 35.0 40.0 30.0 41.0 46 36.367 39.0 35.0 40.0 30.0 41.0 47 35.91975 38.0 34.0 40.0 28.0 41.0 48 36.1285 38.0 35.0 40.0 29.0 41.0 49 36.272 38.0 35.0 40.0 29.0 41.0 50 36.32925 38.0 35.0 40.0 30.0 41.0 51 36.4105 39.0 35.0 40.0 30.0 41.0 52 35.62275 38.0 34.0 40.0 28.0 41.0 >>END_MODULE >>Per tile sequence quality pass #Tile Base Mean 2315 1 0.0 2315 2 0.0 2315 3 0.0 2315 4 0.0 2315 5 0.0 2315 6 0.0 2315 7 0.0 2315 8 0.0 2315 9 0.0 2315 10 0.0 2315 11 0.0 2315 12 0.0 2315 13 0.0 2315 14 0.0 2315 15 0.0 2315 16 0.0 2315 17 0.0 2315 18 0.0 2315 19 0.0 2315 20 0.0 2315 21 0.0 2315 22 0.0 2315 23 0.0 2315 24 0.0 2315 25 0.0 2315 26 0.0 2315 27 0.0 2315 28 0.0 2315 29 0.0 2315 30 0.0 2315 31 0.0 2315 32 0.0 2315 33 0.0 2315 34 0.0 2315 35 0.0 2315 36 0.0 2315 37 0.0 2315 38 0.0 2315 39 0.0 2315 40 0.0 2315 41 0.0 2315 42 0.0 2315 43 0.0 2315 44 0.0 2315 45 0.0 2315 46 0.0 2315 47 0.0 2315 48 0.0 2315 49 0.0 2315 50 0.0 2315 51 0.0 2315 52 0.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 16 1.0 17 0.0 18 0.0 19 0.0 20 2.0 21 1.0 22 5.0 23 6.0 24 7.0 25 16.0 26 27.0 27 43.0 28 48.0 29 59.0 30 101.0 31 128.0 32 153.0 33 200.0 34 220.0 35 310.0 36 396.0 37 537.0 38 757.0 39 981.0 40 2.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 43.935983995999 12.953238309577394 5.951487871967992 37.15928982245561 2 21.775 14.75 35.725 27.750000000000004 3 20.625 19.8 24.675 34.9 4 23.724999999999998 26.75 23.175 26.35 5 22.875 34.050000000000004 23.1 19.975 6 20.825 35.875 22.7 20.599999999999998 7 16.35 23.875 40.425 19.35 8 18.65 22.425 29.099999999999998 29.825000000000003 9 19.025 22.6 32.574999999999996 25.8 10 19.425 38.875 23.1 18.6 11 22.900000000000002 28.849999999999998 21.175 27.075 12 20.7 25.825 26.474999999999998 27.0 13 20.424999999999997 28.999999999999996 26.6 23.974999999999998 14 19.15 29.625 26.325 24.9 15 20.849999999999998 27.250000000000004 26.325 25.575 16 20.474999999999998 27.1 26.650000000000002 25.775 17 20.9 26.525 27.3 25.275 18 22.400000000000002 26.775 24.875 25.95 19 21.975 27.275 24.474999999999998 26.275 20 20.7 27.55 26.6 25.15 21 20.325 27.075 25.75 26.85 22 20.175 28.4 25.0 26.424999999999997 23 21.7 27.925 24.7 25.674999999999997 24 21.099999999999998 27.200000000000003 26.150000000000002 25.55 25 20.75 28.249999999999996 25.5 25.5 26 21.675 26.974999999999998 27.625 23.724999999999998 27 20.275000000000002 28.725 25.4 25.6 28 21.725 27.6 26.35 24.325 29 20.3 28.575 26.35 24.775 30 21.5 27.125 26.325 25.05 31 20.65 27.950000000000003 25.5 25.900000000000002 32 21.349999999999998 27.0 26.174999999999997 25.474999999999998 33 21.525 26.6 25.575 26.3 34 19.725 27.700000000000003 27.1 25.474999999999998 35 20.349999999999998 27.425 24.6 27.625 36 21.175 27.55 24.65 26.625 37 22.05 25.85 25.25 26.85 38 20.724999999999998 27.05 26.25 25.974999999999998 39 22.725 26.5 24.85 25.924999999999997 40 21.15 27.450000000000003 25.650000000000002 25.75 41 21.65 26.3 24.55 27.500000000000004 42 20.175 26.85 25.8 27.175 43 21.099999999999998 27.900000000000002 26.025 24.975 44 22.0 27.175 25.424999999999997 25.4 45 22.55 26.825 26.275 24.349999999999998 46 23.95 27.05 24.875 24.125 47 23.0 27.575 24.55 24.875 48 21.38569284642321 27.813906953476735 25.162581290645324 25.63781890945473 49 22.15 26.625 26.474999999999998 24.75 50 21.510755377688845 26.588294147073537 25.26263131565783 26.638319159579787 51 21.975 26.700000000000003 25.324999999999996 26.0 52 22.425 27.474999999999998 25.1 25.0 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 9.0 1 5.5 2 2.0 3 1.0 4 0.0 5 0.5 6 1.0 7 2.5 8 4.0 9 3.0 10 2.0 11 1.5 12 1.0 13 2.0 14 2.0 15 1.0 16 3.5 17 6.0 18 6.5 19 7.0 20 9.0 21 11.0 22 12.5 23 14.0 24 16.5 25 19.0 26 22.0 27 25.0 28 31.0 29 37.0 30 43.0 31 49.0 32 68.5 33 88.0 34 112.5 35 137.0 36 166.5 37 196.0 38 210.0 39 229.0 40 234.0 41 242.0 42 250.0 43 269.0 44 288.0 45 294.5 46 301.0 47 289.5 48 278.0 49 287.5 50 297.0 51 316.0 52 335.0 53 332.5 54 330.0 55 272.0 56 214.0 57 197.0 58 180.0 59 154.0 60 128.0 61 124.0 62 120.0 63 99.0 64 60.5 65 43.0 66 40.0 67 37.0 68 30.0 69 23.0 70 15.5 71 8.0 72 6.5 73 5.0 74 4.5 75 4.0 76 5.5 77 7.0 78 5.0 79 3.0 80 2.0 81 1.0 82 0.5 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 0.025 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 0.05 49 0.0 50 0.05 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 88.725 #Duplication Level Percentage of deduplicated Percentage of total 1 93.60383206537053 83.05 2 3.8320653705269088 6.800000000000001 3 1.098901098901099 2.9250000000000003 4 0.6762468300929839 2.4 5 0.28176951253874327 1.25 6 0.08453085376162299 0.44999999999999996 7 0.16906170752324598 1.05 8 0.08453085376162299 0.6 9 0.05635390250774866 0.44999999999999996 >10 0.11270780501549732 1.0250000000000001 >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 CCCAGGTATTAATTACACGACCTTGACTATCAACTACAGATTGGTTGAAATT 11 0.27499999999999997 No Hit GCCAGACTAAGCAATAAAGTACCTCGTATTTTCCCCTCTGCCTCGGGTTGTC 10 0.25 No Hit CAGCAACGGGCTCGATGTCGTAGCATCGTCCCTTATAACGATCAAGACTGGT 10 0.25 No Hit GCCGAATACACCAGCTACGCCTAACATGTGAAATGGGTGCATAAGGATGTTG 10 0.25 No Hit CTCGTATTTTCCCCTCTGCCTCGGGTTGTCTCGCGATACCTTCTACAGCTTG 9 0.22499999999999998 No Hit GGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCGA 9 0.22499999999999998 No Hit CTCACGAGCAAGATCACGTCCCTCATTACGAGCTTGTACACATGCTTCTAGA 8 0.2 No Hit CCAGCAACGGGCTCGATGTCGTAGCATCGTCCCTTATAACGATCAAGACTGG 8 0.2 No Hit AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA 8 0.2 No Hit GCCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTAC 7 0.17500000000000002 No Hit GATCAAACTAGAGGTTACCAAAGAACCATGCATAGCACTGAATAGGGAGCCG 7 0.17500000000000002 No Hit GTTAATAATATCAGCCCAGGTATTAATTACACGACCTTGACTATCAACTACA 7 0.17500000000000002 No Hit GTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCC 7 0.17500000000000002 No Hit CGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGC 7 0.17500000000000002 No Hit GTGCATAAGGATGTTGTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTA 7 0.17500000000000002 No Hit GTCCCTTATAACGATCAAGACTGGTAAGCCCGTCGGTCCACACAGTTGTCCA 6 0.15 No Hit GTTCTATGGTCGGTCCGCGACCCCTGGATGCCGAAGGCGTCCTTGGGGCGAT 6 0.15 No Hit GTAGAAGATTCAGCAGCTACTGCGGCCCCTGCTTCCTCGGGCGGAACTCCAG 6 0.15 No Hit GGTTAATAATATCAGCCCAGGTATTAATTACACGACCTTGACTATCAACTAC 5 0.125 No Hit GTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCG 5 0.125 No Hit GCCCCATGTAACAAGCTACACCAAGTAAGAAGTGTAGAACAATTAGCTCATA 5 0.125 No Hit GGGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCG 5 0.125 No Hit CATGAATGTGATGGACCAAAAAATCCGCGGTTCCTAATGGAATAGGTAACAA 5 0.125 No Hit GCCGCAACAGGAGCTGAATATGCAACAGCAATCCAAGGACGCATACCCAGAC 5 0.125 No Hit CTAACATGTGAAATGGGTGCATAAGGATGTTGTGCTCAGCCTGGAATACAAT 5 0.125 No Hit GCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAGATCA 5 0.125 No Hit ATGCATAGCACTGAATAGGGAGCCGCCGAATACACCAGCTACGCCTAACATG 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 0.025 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Read 27144 spots for SRR5423388.sra Written 27144 spots for SRR5423388.sra Read 27144 spots for SRR5423388.sra Written 27144 spots for SRR5423388.sra Read 27144 spots for SRR5423388.sra Written 27144 spots for SRR5423388.sra Read 27144 spots for SRR5423388.sra Written 27144 spots for SRR5423388.sra Read 27144 spots for SRR5423388.sra Written 27144 spots for SRR5423388.sra Read 27144 spots for SRR5423388.sra Written 27144 spots for SRR5423388.sra Read 27144 spots for SRR5423388.sra Written 27144 spots for SRR5423388.sra Read 27144 spots for SRR5423388.sra Written 27144 spots for SRR5423388.sra Read 27144 spots for SRR5423388.sra Written 27144 spots for SRR5423388.sra Read 27144 spots for SRR5423388.sra Written 27144 spots for SRR5423388.sra Read 27144 spots for SRR5423388.sra Written 27144 spots for SRR5423388.sra Read 27144 spots for SRR5423388.sra Written 27144 spots for SRR5423388.sra Read 27144 spots for SRR5423388.sra Written 27144 spots for SRR5423388.sra Read 27144 spots for SRR5423388.sra Written 27144 spots for SRR5423388.sra Read 27161 spots for SRR5423388.sra Written 27161 spots for SRR5423388.sra Read 27144 spots for SRR5423388.sra Written 27144 spots for SRR5423388.sra Read 27144 spots for SRR5423388.sra Written 27144 spots for SRR5423388.sra Read 27144 spots for SRR5423388.sra Written 27144 spots for SRR5423388.sra Read 27144 spots for SRR5423388.sra Written 27144 spots for SRR5423388.sra Read 27144 spots for SRR5423388.sra Written 27144 spots for SRR5423388.sra SRR ids: ['SRR5423388.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_ah0x0tni SRR5423388.sra spots: 542897 blocks: [[1, 27144], [27145, 54288], [54289, 81432], [81433, 108576], [108577, 135720], [135721, 162864], [162865, 190008], [190009, 217152], [217153, 244296], [244297, 271440], [271441, 298584], [298585, 325728], [325729, 352872], [352873, 380016], [380017, 407160], [407161, 434304], [434305, 461448], [461449, 488592], [488593, 515736], [515737, 542897]] SRR5423388 file size 95068 SRR5423388 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 SRR5423388 SRR5423388_1.fastq Input file: SRR5423388_1.fastq trimmed: SRR5423388-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 Thu Feb 13 04:58:29 2025 >> started Thu Feb 13 05:03:49 2025 >> done (319.574s) 542897 reads processed; of these: 11 ( 0.00%) short reads filtered out after trimming by size control 144 ( 0.03%) empty reads filtered out after trimming by size control 542742 (99.97%) reads available; of these: 9901 ( 1.82%) trimmed reads available after processing 532841 (98.18%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 3 0.00% 19 0 0.00% 20 0 0.00% 21 0 0.00% 22 0 0.00% 23 0 0.00% 24 0 0.00% 25 0 0.00% 26 0 0.00% 27 0 0.00% 28 0 0.00% 29 0 0.00% 30 0 0.00% 31 0 0.00% 32 1 0.00% 33 0 0.00% 34 2 0.00% 35 2 0.00% 36 4 0.00% 37 1 0.00% 38 1 0.00% 39 1 0.00% 40 4 0.00% 41 3 0.00% 42 5 0.00% 43 8 0.00% 44 20 0.00% 45 13 0.00% 46 39 0.01% 47 68 0.01% 48 124 0.02% 49 296 0.05% 50 1037 0.19% 51 8269 1.52% 52 532841 98.18% 542742 reads passed initial QC criterion=sequence-density sequence-density=0.35 sequence-density-rank=1 fanout-score=1.90 fanout-score-rank=23 prefix-density=0.34 prefix-fanout=1.9 sequence=TGGCACCGGCCCGTAATCCTTCCACTGCCAGGAGCGGGAGGTGATCGCTGCTCTGTGAGACCAGCCTCACGCTGTGCCCTCCCCTCTAGGAGCCACGACACC criterion=fanout-score sequence-density=0.02 sequence-density-rank=28 fanout-score=32.74 fanout-score-rank=1 prefix-density=0.71 prefix-fanout=1.0 sequence=CCCCTCTGCCACAAATTTTGACGTAGGCTCTCCCTCTTGGGGAGACCTTAG Started job on | Feb 13 05:06:49 Started mapping on | Feb 13 05:06:55 Finished on | Feb 13 05:13:46 Mapping speed, Million of reads per hour | 4.75 Number of input reads | 542742 Average input read length | 51 UNIQUE READS: Uniquely mapped reads number | 406939 Uniquely mapped reads % | 74.98% Average mapped length | 51.80 Number of splices: Total | 34848 Number of splices: Annotated (sjdb) | 34407 Number of splices: GT/AG | 33831 Number of splices: GC/AG | 817 Number of splices: AT/AC | 106 Number of splices: Non-canonical | 94 Mismatch rate per base, % | 0.42% Deletion rate per base | 0.01% Deletion average length | 2.43 Insertion rate per base | 0.00% Insertion average length | 1.35 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 115326 % of reads mapped to multiple loci | 21.25% Number of reads mapped to too many loci | 10139 % of reads mapped to too many loci | 1.87% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.76% % of reads unmapped: other | 0.15% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 20477 20477 20477 N_multimapping 115326 115326 115326 N_noFeature 62700 397571 70611 N_ambiguous 2960 15 1490 UnstrandedReadsAssigned:341279 PositiveStrandReadsAssigned:9353 NegativeStrandReadsAssigned:334838 Dataset is classified negative stranded MeadianReadLen=52 20thPercentileLength=52 echo kmer=47 SRR5423388 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: SRR5423388-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 542,742 reads, 426,457 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 929 rounds 52401 SRR5423388.ke.tsv 34699 SRR5423388.se.tsv 87100 total ==> SRR5423388.ke.tsv <== target_id length eff_length est_counts tpm Potri.005G200100.1.v4.1 2018 1919 12 12.2474 Potri.005G024800.1.v4.1 1035 936 1 2.09249 Potri.004G059700.1.v4.1 961 862 2 4.54425 Potri.007G009000.2.v4.1 1416 1317 0 0 Potri.003G141000.2.v4.1 2943 2844 9 6.19801 Potri.016G087400.1.v4.1 270 171 1 11.4536 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 0 0 ==> SRR5423388.se.tsv <== Potri.001G166300.v4.1 0 Potri.001G448400.v4.1 0 Potri.001G233950.v4.1 0 Potri.001G122700.v4.1 0 Potri.001G212900.v4.1 0 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 SRR5423388 completed mapping pipeline successfully