Starting /dee2/code/volunteer_pipeline.sh SRR5423449 current disk space = 3051413504000 free memory = 1579891392 SRR5423449 SRAfilesize 0225114c9179f674b04f5a108c6ed59f SRR5423449.sra SRR5423449.sra file validated SRR5423449 is single end SRR5423449 is conventional basespace SRR5423449 read1 length is 52 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5423449_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 30.88625 31.0 30.0 34.0 27.0 34.0 2 31.1225 31.0 31.0 34.0 27.0 34.0 3 31.30375 31.0 31.0 34.0 28.0 34.0 4 34.2485 35.0 35.0 37.0 30.0 37.0 5 34.906 35.0 35.0 37.0 32.0 37.0 6 34.8965 35.0 35.0 37.0 32.0 37.0 7 34.893 35.0 35.0 37.0 32.0 37.0 8 34.9695 36.0 35.0 37.0 32.0 37.0 9 36.34125 38.0 35.0 39.0 32.0 39.0 10 36.092 38.0 35.0 39.0 30.0 39.0 11 35.9985 38.0 35.0 39.0 30.0 39.0 12 36.194 38.0 35.0 39.0 31.0 39.0 13 36.17075 38.0 35.0 39.0 32.0 39.0 14 37.123 39.0 36.0 40.0 31.0 41.0 15 37.549 39.0 36.0 41.0 32.0 41.0 16 36.946 39.0 36.0 40.0 31.0 41.0 17 37.1865 39.0 36.0 40.0 31.0 41.0 18 37.17275 39.0 36.0 40.0 31.0 41.0 19 37.42975 39.0 36.0 41.0 32.0 41.0 20 37.3705 39.0 36.0 40.0 32.0 41.0 21 37.2415 39.0 36.0 40.0 31.0 41.0 22 37.005 39.0 36.0 40.0 31.0 41.0 23 37.46575 39.0 36.0 40.0 32.0 41.0 24 37.40125 39.0 36.0 41.0 32.0 41.0 25 36.91275 39.0 36.0 40.0 30.0 41.0 26 36.7015 39.0 36.0 40.0 30.0 41.0 27 36.6675 39.0 36.0 40.0 30.0 41.0 28 36.927 39.0 36.0 40.0 30.0 41.0 29 36.867 39.0 36.0 40.0 30.0 41.0 30 36.71325 39.0 36.0 40.0 30.0 41.0 31 36.789 39.0 36.0 40.0 30.0 41.0 32 36.25025 38.0 35.0 40.0 29.0 41.0 33 36.75975 39.0 35.0 40.0 30.0 41.0 34 36.8035 39.0 35.0 40.0 30.0 41.0 35 37.08275 39.0 36.0 40.0 31.0 41.0 36 36.94425 39.0 36.0 40.0 31.0 41.0 37 36.59525 39.0 35.0 40.0 30.0 41.0 38 36.541 38.0 35.0 40.0 30.0 41.0 39 36.59 39.0 35.0 40.0 30.0 41.0 40 36.51325 39.0 35.0 40.0 30.0 41.0 41 36.73825 39.0 35.0 40.0 30.0 41.0 42 36.12175 38.0 35.0 40.0 28.0 41.0 43 36.328 38.0 35.0 40.0 30.0 41.0 44 36.49375 39.0 35.0 40.0 30.0 41.0 45 36.34725 38.0 35.0 40.0 30.0 41.0 46 36.05225 38.0 34.0 40.0 28.0 41.0 47 35.8775 38.0 34.0 40.0 28.0 41.0 48 35.78325 38.0 34.0 40.0 28.0 41.0 49 35.82075 38.0 34.0 40.0 28.0 41.0 50 35.93975 38.0 34.0 40.0 28.0 41.0 51 35.7105 38.0 34.0 40.0 28.0 41.0 52 35.367 38.0 33.0 40.0 27.0 41.0 >>END_MODULE >>Per tile sequence quality pass #Tile Base Mean 1316 1 0.0 1316 2 0.0 1316 3 0.0 1316 4 0.0 1316 5 0.0 1316 6 0.0 1316 7 0.0 1316 8 0.0 1316 9 0.0 1316 10 0.0 1316 11 0.0 1316 12 0.0 1316 13 0.0 1316 14 0.0 1316 15 0.0 1316 16 0.0 1316 17 0.0 1316 18 0.0 1316 19 0.0 1316 20 0.0 1316 21 0.0 1316 22 0.0 1316 23 0.0 1316 24 0.0 1316 25 0.0 1316 26 0.0 1316 27 0.0 1316 28 0.0 1316 29 0.0 1316 30 0.0 1316 31 0.0 1316 32 0.0 1316 33 0.0 1316 34 0.0 1316 35 0.0 1316 36 0.0 1316 37 0.0 1316 38 0.0 1316 39 0.0 1316 40 0.0 1316 41 0.0 1316 42 0.0 1316 43 0.0 1316 44 0.0 1316 45 0.0 1316 46 0.0 1316 47 0.0 1316 48 0.0 1316 49 0.0 1316 50 0.0 1316 51 0.0 1316 52 0.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 19 2.0 20 3.0 21 1.0 22 3.0 23 4.0 24 11.0 25 21.0 26 33.0 27 40.0 28 63.0 29 76.0 30 134.0 31 137.0 32 188.0 33 213.0 34 278.0 35 325.0 36 407.0 37 499.0 38 698.0 39 864.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 34.4672336168084 10.880440220110055 6.128064032016009 48.524262131065534 2 21.224999999999998 15.4 35.475 27.900000000000002 3 21.099999999999998 18.675 22.925 37.3 4 26.424999999999997 25.374999999999996 20.474999999999998 27.725 5 24.075 31.324999999999996 24.325 20.275000000000002 6 17.549999999999997 33.5 24.474999999999998 24.474999999999998 7 14.95 23.5 41.65 19.900000000000002 8 16.225 22.8 31.624999999999996 29.349999999999998 9 17.724999999999998 21.2 35.025 26.05 10 19.025 38.625 23.35 19.0 11 22.125 27.975 21.9 28.000000000000004 12 21.2 24.9 25.974999999999998 27.925 13 18.775 28.050000000000004 28.349999999999998 24.825 14 19.775000000000002 27.55 28.449999999999996 24.224999999999998 15 21.075 25.6 26.375 26.950000000000003 16 20.375 27.200000000000003 27.150000000000002 25.275 17 21.25 26.75 27.800000000000004 24.2 18 21.5 26.650000000000002 26.5 25.35 19 22.0 27.750000000000004 26.05 24.2 20 20.025000000000002 26.625 27.200000000000003 26.150000000000002 21 21.3 27.125 26.375 25.2 22 20.125 28.825 25.825 25.224999999999998 23 21.725 27.825 26.150000000000002 24.3 24 21.15 26.924999999999997 26.400000000000002 25.525 25 20.674999999999997 27.1 26.950000000000003 25.275 26 21.85 28.9 25.674999999999997 23.575 27 20.724999999999998 27.474999999999998 25.25 26.55 28 20.45 29.725 25.825 24.0 29 20.9 27.975 26.200000000000003 24.925 30 20.175 26.200000000000003 27.775 25.85 31 21.175 27.525 26.6 24.7 32 20.974999999999998 27.150000000000002 26.325 25.55 33 20.5 26.35 27.3 25.85 34 19.7 27.725 26.025 26.55 35 21.099999999999998 26.5 25.974999999999998 26.424999999999997 36 21.0 27.200000000000003 26.325 25.474999999999998 37 21.125 27.525 25.6 25.75 38 22.45 25.374999999999996 25.2 26.974999999999998 39 20.8 26.775 26.0 26.424999999999997 40 20.674999999999997 28.4 26.05 24.875 41 21.275 26.55 26.55 25.624999999999996 42 19.925 26.55 26.25 27.275 43 21.25 27.825 25.15 25.775 44 21.775 27.825 25.45 24.95 45 22.075 27.175 24.65 26.1 46 22.375 27.725 24.05 25.85 47 21.85546386596649 27.506876719179797 25.70642660665166 24.93123280820205 48 23.075000000000003 25.974999999999998 25.074999999999996 25.874999999999996 49 21.4 26.6 24.875 27.125 50 21.475 28.725 26.200000000000003 23.599999999999998 51 22.875 24.75 25.55 26.825 52 21.675 27.1 25.35 25.874999999999996 >>END_MODULE >>Per sequence GC content warn #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 0.0 17 0.0 18 1.0 19 2.0 20 2.5 21 3.0 22 10.5 23 18.0 24 14.0 25 10.0 26 17.5 27 25.0 28 31.0 29 37.0 30 47.5 31 58.0 32 77.5 33 97.0 34 103.0 35 109.0 36 135.0 37 161.0 38 206.0 39 243.5 40 236.0 41 262.5 42 289.0 43 296.5 44 304.0 45 317.0 46 330.0 47 326.0 48 322.0 49 339.0 50 356.0 51 341.5 52 327.0 53 324.0 54 321.0 55 277.5 56 234.0 57 187.5 58 141.0 59 135.5 60 130.0 61 119.5 62 109.0 63 77.0 64 42.0 65 39.0 66 31.5 67 24.0 68 17.5 69 11.0 70 7.0 71 3.0 72 3.5 73 4.0 74 3.0 75 2.0 76 2.0 77 2.0 78 1.0 79 0.0 80 0.0 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 0.05 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 0.025 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 88.425 #Duplication Level Percentage of deduplicated Percentage of total 1 93.46904156064461 82.65 2 3.8733389878428044 6.8500000000000005 3 1.2439920836867402 3.3000000000000003 4 0.5371783997738196 1.9 5 0.31099802092168505 1.375 6 0.2544529262086514 1.35 7 0.08481764206955046 0.525 8 0.08481764206955046 0.6 9 0.05654509471303364 0.44999999999999996 >10 0.08481764206955046 1.0 >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 GGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCGA 16 0.4 No Hit CCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACT 14 0.35000000000000003 No Hit CCAGCAACGGGCTCGATGTCGTAGCATCGTCCCTTATAACGATCAAGACTGG 10 0.25 No Hit CGCAGAAGTAGGAATAATGGCACCAGAAATGATATTGTTTCCATAAAGTAGA 9 0.22499999999999998 No Hit CTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAACGGCA 9 0.22499999999999998 No Hit CTCGTATTTTCCCCTCTGCCTCGGGTTGTCTCGCGATACCTTCTACAGCTTG 8 0.2 No Hit CGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGC 8 0.2 No Hit GTGCATAAGGATGTTGTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTA 8 0.2 No Hit CGCCGCAACAGGAGCTGAATATGCAACAGCAATCCAAGGACGCATACCCAGA 7 0.17500000000000002 No Hit GTCCCTTATAACGATCAAGACTGGTAAGCCCGTCGGTCCACACAGTTGTCCA 7 0.17500000000000002 No Hit CTCAGCCTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGAGGC 7 0.17500000000000002 No Hit CTACGCCACACACATGACGGTTTACGTGCTTAATGACCGCATGTGCAGGTAG 6 0.15 No Hit GCCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTAC 6 0.15 No Hit CAGGGCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAG 6 0.15 No Hit CTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGAGGCATCCCA 6 0.15 No Hit CTCGTACACACTAAGAAAAAAGCCTTATCCATTTACAAAAGTCTTATCCATT 6 0.15 No Hit GTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCC 6 0.15 No Hit AAGGATTCTACCCGCCGCTCGGTGGGAATTGTACTTCAAGGCGGCCCGCGCG 6 0.15 No Hit GCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAGATCA 6 0.15 No Hit GCCAGATACAAAGTATGGAAAGGTGTCTATGACTTCCCCGCCAGGACCCACC 6 0.15 No Hit CCTAGAAGTGCATGATAAATACCGCCAAAGCCCAATACTGCAGAGGAAATTA 5 0.125 No Hit CCAGTCCATAAATTGTTAAAGCTTCCATAAAAGCCAGACTAAGCAATAAAGT 5 0.125 No Hit CTTGTACACATGCTTCTAGAGCTACTCGATTAGCAACGGCACCGGGTGCATT 5 0.125 No Hit GTCCGCGACCCCTGGATGCCGAAGGCGTCCTTGGGGCGATCTCGTAGTTCCT 5 0.125 No Hit GTTCTATGGTCGGTCCGCGACCCCTGGATGCCGAAGGCGTCCTTGGGGCGAT 5 0.125 No Hit GTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCGATG 5 0.125 No Hit GGTCGGTCCGCGACCCCTGGATGCCGAAGGCGTCCTTGGGGCGATCTCGTAG 5 0.125 No Hit GTCCTAGAAGTGCATGATAAATACCGCCAAAGCCCAATACTGCAGAGGAAAT 5 0.125 No Hit GGCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAGATC 5 0.125 No Hit CCTCTGCCTCGGGTTGTCTCGCGATACCTTCTACAGCTTGGCCCGCAGCAGT 5 0.125 No Hit GTACACACTAAGAAAAAAGCCTTATCCATTTACAAAAGTCTTATCCATTTGT 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 SRR5423449.sra Written 200000 spots for SRR5423449.sra Read 200000 spots for SRR5423449.sra Written 200000 spots for SRR5423449.sra Read 200000 spots for SRR5423449.sra Written 200000 spots for SRR5423449.sra Read 200000 spots for SRR5423449.sra Written 200000 spots for SRR5423449.sra Read 200000 spots for SRR5423449.sra Written 200000 spots for SRR5423449.sra Read 200000 spots for SRR5423449.sra Written 200000 spots for SRR5423449.sra Read 200000 spots for SRR5423449.sra Written 200000 spots for SRR5423449.sra Read 200000 spots for SRR5423449.sra Written 200000 spots for SRR5423449.sra Read 200000 spots for SRR5423449.sra Written 200000 spots for SRR5423449.sra Read 200000 spots for SRR5423449.sra Written 200000 spots for SRR5423449.sra Read 200000 spots for SRR5423449.sra Written 200000 spots for SRR5423449.sra Read 200000 spots for SRR5423449.sra Written 200000 spots for SRR5423449.sra Read 200000 spots for SRR5423449.sra Written 200000 spots for SRR5423449.sra Read 200000 spots for SRR5423449.sra Written 200000 spots for SRR5423449.sra Read 200000 spots for SRR5423449.sra Written 200000 spots for SRR5423449.sra Read 200000 spots for SRR5423449.sra Written 200000 spots for SRR5423449.sra Read 200000 spots for SRR5423449.sra Written 200000 spots for SRR5423449.sra Read 200000 spots for SRR5423449.sra Written 200000 spots for SRR5423449.sra Read 200000 spots for SRR5423449.sra Written 200000 spots for SRR5423449.sra Read 200000 spots for SRR5423449.sra Written 200000 spots for SRR5423449.sra SRR ids: ['SRR5423449.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_hqbbrn94 SRR5423449.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]] SRR5423449 file size 703971 SRR5423449 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 SRR5423449 SRR5423449_1.fastq Input file: SRR5423449_1.fastq trimmed: SRR5423449-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 14:07:43 2025 >> started Wed Feb 12 14:07:45 2025 >> done (1.942s) 4000000 reads processed; of these: 137 ( 0.00%) short reads filtered out after trimming by size control 165 ( 0.00%) empty reads filtered out after trimming by size control 3999698 (99.99%) reads available; of these: 121579 ( 3.04%) trimmed reads available after processing 3878119 (96.96%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 15 0.00% 19 5 0.00% 20 3 0.00% 21 0 0.00% 22 1 0.00% 23 3 0.00% 24 0 0.00% 25 2 0.00% 26 1 0.00% 27 5 0.00% 28 6 0.00% 29 6 0.00% 30 5 0.00% 31 9 0.00% 32 16 0.00% 33 10 0.00% 34 35 0.00% 35 32 0.00% 36 38 0.00% 37 48 0.00% 38 56 0.00% 39 77 0.00% 40 99 0.00% 41 132 0.00% 42 197 0.00% 43 270 0.01% 44 502 0.01% 45 671 0.02% 46 831 0.02% 47 1417 0.04% 48 2644 0.07% 49 5887 0.15% 50 15559 0.39% 51 92997 2.33% 52 3878119 96.96% 3999698 reads passed initial QC criterion=sequence-density sequence-density=0.19 sequence-density-rank=1 fanout-score=6.47 fanout-score-rank=8 prefix-density=0.79 prefix-fanout=1.5 sequence=ACGTGCTTAATACGTGCTTAA criterion=fanout-score sequence-density=0.02 sequence-density-rank=24 fanout-score=18.90 fanout-score-rank=1 prefix-density=0.32 prefix-fanout=1.3 sequence=CATTTTATTTCTATCTTTCCATACATAACCAAAAAATGGAAAAGATTCTTCAAGAGTCTCGGGTCCTAGAAGTGCATGATAAATACCGCCAAAGCCCAATACTGCAGAGGAAATTAAGTGAAGTACGCCAGATACAAAGTATGGAAAGGTGTCTATGACTTCCCCGCCAGGACCCACCCCCCAACCTAGAGTAGCTAGGTGGGGAAGTAAAATTAATCCTTGTTCATACATTGGCTTCTCCGGTACGAAATGGGCCACTTCAAATAGGTTCATTGCTCCGGCCCAGAATACGATTAATCCAGCATGGGCTACATGAGCTCCCAGCAG Started job on | Feb 12 14:07:55 Started mapping on | Feb 12 14:07:55 Finished on | Feb 12 14:08:03 Mapping speed, Million of reads per hour | 1799.86 Number of input reads | 3999698 Average input read length | 51 UNIQUE READS: Uniquely mapped reads number | 3139872 Uniquely mapped reads % | 78.50% Average mapped length | 51.72 Number of splices: Total | 297411 Number of splices: Annotated (sjdb) | 292511 Number of splices: GT/AG | 290961 Number of splices: GC/AG | 5102 Number of splices: AT/AC | 904 Number of splices: Non-canonical | 444 Mismatch rate per base, % | 0.42% Deletion rate per base | 0.01% Deletion average length | 2.36 Insertion rate per base | 0.00% Insertion average length | 1.39 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 682027 % of reads mapped to multiple loci | 17.05% Number of reads mapped to too many loci | 101941 % of reads mapped to too many loci | 2.55% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.89% % of reads unmapped: other | 0.01% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 177799 177799 177799 N_multimapping 682027 682027 682027 N_noFeature 406790 3093366 442794 N_ambiguous 19921 143 9285 UnstrandedReadsAssigned:2713161 PositiveStrandReadsAssigned:46363 NegativeStrandReadsAssigned:2687793 Dataset is classified negative stranded MeadianReadLen=52 20thPercentileLength=52 echo kmer=47 SRR5423449 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: SRR5423449-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 3,999,698 reads, 3,250,906 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,132 rounds 52401 SRR5423449.ke.tsv 34699 SRR5423449.se.tsv 87100 total ==> SRR5423449.ke.tsv <== target_id length eff_length est_counts tpm Potri.005G200100.1.v4.1 2018 1919 139 19.8652 Potri.005G024800.1.v4.1 1035 936 22 6.44615 Potri.004G059700.1.v4.1 961 862 1 0.318161 Potri.007G009000.2.v4.1 1416 1317 0 0 Potri.003G141000.2.v4.1 2943 2844 59.7073 5.75773 Potri.016G087400.1.v4.1 270 171 9 14.4345 Potri.015G069301.1.v4.1 564 465 0 0 Potri.010G195200.1.v4.1 1773 1674 2.72688 0.446749 Potri.012G127500.1.v4.1 977 878 1 0.312363 ==> SRR5423449.se.tsv <== Potri.001G166300.v4.1 0 Potri.001G448400.v4.1 2 Potri.001G233950.v4.1 0 Potri.001G122700.v4.1 25 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 SRR5423449 completed mapping pipeline successfully