Starting /dee2/code/volunteer_pipeline.sh SRR5423393 current disk space = 3051924230144 free memory = 1558127180 SRR5423393 SRAfilesize 05c0acc0c3c7c17d5d66826ee5bf745b SRR5423393.sra SRR5423393.sra file validated SRR5423393 is single end SRR5423393 is conventional basespace SRR5423393 read1 length is 52 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5423393_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 32.0685 34.0 31.0 34.0 30.0 34.0 2 31.86625 34.0 31.0 34.0 30.0 34.0 3 32.18125 34.0 31.0 34.0 30.0 34.0 4 35.6665 37.0 35.0 37.0 33.0 37.0 5 35.65925 37.0 35.0 37.0 33.0 37.0 6 35.728 37.0 35.0 37.0 33.0 37.0 7 35.74375 37.0 35.0 37.0 33.0 37.0 8 35.755 37.0 35.0 37.0 35.0 37.0 9 37.3095 39.0 37.0 39.0 34.0 39.0 10 37.361 39.0 37.0 39.0 34.0 39.0 11 37.39675 39.0 37.0 39.0 34.0 39.0 12 37.36275 39.0 37.0 39.0 34.0 39.0 13 37.242 39.0 37.0 39.0 34.0 39.0 14 38.70325 40.0 38.0 41.0 34.0 41.0 15 38.6925 40.0 38.0 41.0 35.0 41.0 16 38.64125 40.0 38.0 41.0 34.0 41.0 17 38.738 40.0 38.0 41.0 34.0 41.0 18 38.627 40.0 38.0 41.0 34.0 41.0 19 38.63825 40.0 38.0 41.0 34.0 41.0 20 38.70825 40.0 38.0 41.0 34.0 41.0 21 38.57075 40.0 38.0 41.0 34.0 41.0 22 38.54525 40.0 38.0 41.0 34.0 41.0 23 38.4745 40.0 38.0 41.0 34.0 41.0 24 38.2195 40.0 38.0 41.0 33.0 41.0 25 38.42875 40.0 38.0 41.0 34.0 41.0 26 38.395 40.0 38.0 41.0 33.0 41.0 27 38.155 40.0 38.0 41.0 33.0 41.0 28 38.1435 40.0 38.0 41.0 33.0 41.0 29 38.14575 40.0 38.0 41.0 33.0 41.0 30 37.9185 40.0 37.0 41.0 33.0 41.0 31 38.1425 40.0 38.0 41.0 34.0 41.0 32 37.995 40.0 38.0 41.0 33.0 41.0 33 37.91 40.0 37.0 41.0 33.0 41.0 34 37.909 40.0 37.0 41.0 33.0 41.0 35 37.95375 40.0 37.0 41.0 33.0 41.0 36 37.9485 40.0 38.0 41.0 33.0 41.0 37 37.8315 40.0 37.0 41.0 33.0 41.0 38 37.66475 40.0 37.0 41.0 32.0 41.0 39 37.56 40.0 37.0 41.0 31.0 41.0 40 37.4755 40.0 37.0 41.0 31.0 41.0 41 37.45775 40.0 37.0 41.0 31.0 41.0 42 37.51325 40.0 37.0 41.0 31.0 41.0 43 37.34475 40.0 37.0 41.0 31.0 41.0 44 37.166 40.0 36.0 41.0 31.0 41.0 45 37.2695 40.0 36.0 41.0 31.0 41.0 46 37.19025 40.0 36.0 41.0 31.0 41.0 47 37.22425 40.0 36.0 41.0 31.0 41.0 48 36.90775 39.0 36.0 41.0 30.0 41.0 49 36.9895 39.0 36.0 41.0 31.0 41.0 50 36.83725 39.0 36.0 41.0 30.0 41.0 51 36.7315 39.0 35.0 40.0 30.0 41.0 52 35.1675 38.0 33.0 40.0 26.0 41.0 >>END_MODULE >>Per tile sequence quality pass #Tile Base Mean 2106 1 0.0 2106 2 0.0 2106 3 0.0 2106 4 0.0 2106 5 0.0 2106 6 0.0 2106 7 0.0 2106 8 0.0 2106 9 0.0 2106 10 0.0 2106 11 0.0 2106 12 0.0 2106 13 0.0 2106 14 0.0 2106 15 0.0 2106 16 0.0 2106 17 0.0 2106 18 0.0 2106 19 0.0 2106 20 0.0 2106 21 0.0 2106 22 0.0 2106 23 0.0 2106 24 0.0 2106 25 0.0 2106 26 0.0 2106 27 0.0 2106 28 0.0 2106 29 0.0 2106 30 0.0 2106 31 0.0 2106 32 0.0 2106 33 0.0 2106 34 0.0 2106 35 0.0 2106 36 0.0 2106 37 0.0 2106 38 0.0 2106 39 0.0 2106 40 0.0 2106 41 0.0 2106 42 0.0 2106 43 0.0 2106 44 0.0 2106 45 0.0 2106 46 0.0 2106 47 0.0 2106 48 0.0 2106 49 0.0 2106 50 0.0 2106 51 0.0 2106 52 0.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 9 1.0 10 0.0 11 0.0 12 0.0 13 1.0 14 0.0 15 0.0 16 0.0 17 1.0 18 0.0 19 0.0 20 1.0 21 2.0 22 6.0 23 5.0 24 15.0 25 9.0 26 21.0 27 19.0 28 30.0 29 47.0 30 69.0 31 80.0 32 102.0 33 133.0 34 177.0 35 212.0 36 312.0 37 450.0 38 749.0 39 1554.0 40 4.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 44.20762286860582 12.963891675025074 5.516549648946841 37.31193580742227 2 19.475 14.549999999999999 36.875 29.099999999999998 3 20.549999999999997 20.3 24.224999999999998 34.925 4 24.375 28.249999999999996 20.325 27.05 5 24.4 33.550000000000004 21.85 20.200000000000003 6 20.825 35.15 23.3 20.724999999999998 7 15.625 24.175 40.725 19.475 8 17.925 22.15 30.425 29.5 9 18.975 22.05 32.75 26.224999999999998 10 20.349999999999998 38.125 22.900000000000002 18.625 11 23.525 29.175 19.475 27.825 12 20.875 25.874999999999996 26.375 26.875 13 19.625 29.075 27.125 24.175 14 19.675 29.099999999999998 27.3 23.925 15 21.425 27.6 26.125 24.85 16 20.599999999999998 29.175 25.95 24.275 17 20.775 27.325 26.55 25.35 18 20.925 27.725 25.4 25.95 19 21.8 27.150000000000002 26.05 25.0 20 20.7 26.700000000000003 25.95 26.650000000000002 21 20.525 26.8 25.25 27.425 22 20.849999999999998 27.925 24.9 26.325 23 21.325 28.349999999999998 24.25 26.075 24 21.525 26.950000000000003 25.55 25.974999999999998 25 23.1 26.525 25.474999999999998 24.9 26 20.875 28.499999999999996 24.45 26.174999999999997 27 20.625 27.900000000000002 25.650000000000002 25.825 28 21.625 27.925 25.75 24.7 29 21.075 28.249999999999996 26.3 24.375 30 20.349999999999998 25.5 26.0 28.15 31 21.375 27.900000000000002 25.174999999999997 25.55 32 21.7 28.999999999999996 24.725 24.575 33 21.2 27.05 27.175 24.575 34 19.7 27.575 26.8 25.924999999999997 35 21.625 27.075 24.45 26.85 36 20.775 28.849999999999998 24.775 25.6 37 21.575 27.025 24.85 26.55 38 21.349999999999998 27.075 24.15 27.425 39 21.95 26.025 24.55 27.474999999999998 40 20.95 28.325 25.4 25.324999999999996 41 22.225 26.724999999999998 25.2 25.85 42 20.75 27.400000000000002 25.05 26.8 43 21.825 27.55 25.5 25.124999999999996 44 22.5 26.650000000000002 25.474999999999998 25.374999999999996 45 22.825 26.150000000000002 25.224999999999998 25.8 46 22.875 27.1 24.925 25.1 47 21.85 28.499999999999996 24.7 24.95 48 22.625 27.900000000000002 24.425 25.05 49 22.95 26.174999999999997 24.775 26.1 50 22.675 26.924999999999997 24.65 25.75 51 22.7 25.4 25.55 26.35 52 23.200000000000003 27.500000000000004 24.725 24.575 >>END_MODULE >>Per sequence GC content pass #GC Content Count 0 5.0 1 3.0 2 1.0 3 1.5 4 2.0 5 1.5 6 1.0 7 1.0 8 1.0 9 0.5 10 0.0 11 0.5 12 1.0 13 1.5 14 1.0 15 0.0 16 2.5 17 5.0 18 5.5 19 6.0 20 8.5 21 11.0 22 13.0 23 15.0 24 15.0 25 15.0 26 16.0 27 17.0 28 33.0 29 49.0 30 64.0 31 79.0 32 79.5 33 80.0 34 99.5 35 119.0 36 144.5 37 170.0 38 185.5 39 207.5 40 214.0 41 222.5 42 231.0 43 257.5 44 284.0 45 293.5 46 303.0 47 330.0 48 357.0 49 344.0 50 331.0 51 331.0 52 331.0 53 319.5 54 308.0 55 268.5 56 229.0 57 207.0 58 185.0 59 173.0 60 161.0 61 132.0 62 103.0 63 78.0 64 52.0 65 51.0 66 43.5 67 36.0 68 27.0 69 18.0 70 12.0 71 6.0 72 4.0 73 2.0 74 3.5 75 5.0 76 3.0 77 1.0 78 3.5 79 6.0 80 3.5 81 1.0 82 1.5 83 2.0 84 1.0 85 0.0 86 0.5 87 1.0 88 0.5 89 0.0 90 0.0 91 0.5 92 1.0 93 0.5 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 0.3 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 87.725 #Duplication Level Percentage of deduplicated Percentage of total 1 93.18894271872328 81.75 2 4.3032202906811055 7.55 3 0.8264462809917356 2.175 4 0.7124536905101169 2.5 5 0.3134796238244514 1.375 6 0.2279851809632374 1.2 7 0.05699629524080935 0.35000000000000003 8 0.17098888572242804 1.2 9 0.028498147620404674 0.22499999999999998 >10 0.17098888572242804 1.675 >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 CGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGC 14 0.35000000000000003 No Hit CTCGTATTTTCCCCTCTGCCTCGGGTTGTCTCGCGATACCTTCTACAGCTTG 11 0.27499999999999997 No Hit GTCCCTTATAACGATCAAGACTGGTAAGCCCGTCGGTCCACACAGTTGTCCA 11 0.27499999999999997 No Hit CCAGCAACGGGCTCGATGTCGTAGCATCGTCCCTTATAACGATCAAGACTGG 11 0.27499999999999997 No Hit GTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCCCTGCTTCCTCGG 10 0.25 No Hit CTCACGAGCAAGATCACGTCCCTCATTACGAGCTTGTACACATGCTTCTAGA 10 0.25 No Hit GCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAGATCA 9 0.22499999999999998 No Hit GCCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTAC 8 0.2 No Hit CCCAGGTATTAATTACACGACCTTGACTATCAACTACAGATTGGTTGAAATT 8 0.2 No Hit CCCTGATCAAACTAGAGGTTACCAAAGAACCATGCATAGCACTGAATAGGGA 8 0.2 No Hit GCCAGACTAAGCAATAAAGTACCTCGTATTTTCCCCTCTGCCTCGGGTTGTC 8 0.2 No Hit GGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCGA 8 0.2 No Hit CCGCATTTCGCTAAAGGGTTGAAGGAGGATAGTGCATCAAGCTGTTCGCAAG 8 0.2 No Hit CTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGAGGCATCCCA 7 0.17500000000000002 No Hit GTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCC 7 0.17500000000000002 No Hit CTTATAACGATCAAGACTGGTAAGCCCGTCGGTCCACACAGTTGTCCATGTA 6 0.15 No Hit GCCAACTTGATCCTCTTCCCCAGGGATCCCAGATGAGGGAACCCTAGGAGAG 6 0.15 No Hit GGGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCG 6 0.15 No Hit CCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACT 6 0.15 No Hit GCACGGTTAATAATATCAGCCCAGGTATTAATTACACGACCTTGACTATCAA 6 0.15 No Hit GTTCAATTAGATCAGCCCATCAGGCCATGCGGATCCAGGTGGCACCGGCCCG 6 0.15 No Hit GCCGCTTCCCATATTGGGTAAAAGTGCAACCCTATAGCCGCAGAAGTAGGAA 6 0.15 No Hit AGCACGGTTAATAATATCAGCCCAGGTATTAATTACACGACCTTGACTATCA 6 0.15 No Hit CGCAGAAGTAGGAATAATGGCACCAGAAATGATATTGTTTCCATAAAGTAGA 5 0.125 No Hit GGTGCATAAGGATGTTGTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGT 5 0.125 No Hit GTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCG 5 0.125 No Hit CAGAAATGATATTGTTTCCATAAAGTAGAGATCCAGAAACAGGTTCACGAAT 5 0.125 No Hit GTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGA 5 0.125 No Hit ATTAATTACACGACCTTGACTATCAACTACAGATTGGTTGAAATTGAAACCA 5 0.125 No Hit GTACACACTAAGAAAAAAGCCTTATCCATTTACAAAAGTCTTATCCATTTGT 5 0.125 No Hit GGATAAATCAAGAAAACAGCAGTAGCCGCCGCAACAGGAGCTGAATATGCAA 5 0.125 No Hit GTGCATAAGGATGTTGTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTA 5 0.125 No Hit AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA 5 0.125 No Hit CTCAGCCTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGAGGC 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 200000 spots for SRR5423393.sra Written 200000 spots for SRR5423393.sra Read 200000 spots for SRR5423393.sra Written 200000 spots for SRR5423393.sra Read 200000 spots for SRR5423393.sra Written 200000 spots for SRR5423393.sra Read 200000 spots for SRR5423393.sra Written 200000 spots for SRR5423393.sra Read 200000 spots for SRR5423393.sra Written 200000 spots for SRR5423393.sra Read 200000 spots for SRR5423393.sra Written 200000 spots for SRR5423393.sra Read 200000 spots for SRR5423393.sra Written 200000 spots for SRR5423393.sra Read 200000 spots for SRR5423393.sra Written 200000 spots for SRR5423393.sra Read 200000 spots for SRR5423393.sra Written 200000 spots for SRR5423393.sra Read 200000 spots for SRR5423393.sra Written 200000 spots for SRR5423393.sra Read 200000 spots for SRR5423393.sra Written 200000 spots for SRR5423393.sra Read 200000 spots for SRR5423393.sra Written 200000 spots for SRR5423393.sra Read 200000 spots for SRR5423393.sra Written 200000 spots for SRR5423393.sra Read 200000 spots for SRR5423393.sra Written 200000 spots for SRR5423393.sra Read 200000 spots for SRR5423393.sra Written 200000 spots for SRR5423393.sra Read 200000 spots for SRR5423393.sra Written 200000 spots for SRR5423393.sra Read 200000 spots for SRR5423393.sra Written 200000 spots for SRR5423393.sra Read 200000 spots for SRR5423393.sra Written 200000 spots for SRR5423393.sra Read 200000 spots for SRR5423393.sra Written 200000 spots for SRR5423393.sra Read 200000 spots for SRR5423393.sra Written 200000 spots for SRR5423393.sra SRR ids: ['SRR5423393.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_xqvs2_u9 SRR5423393.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]] SRR5423393 file size 704008 SRR5423393 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 SRR5423393 SRR5423393_1.fastq Input file: SRR5423393_1.fastq trimmed: SRR5423393-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 05:40:39 2025 >> started Thu Feb 13 05:41:54 2025 >> done (75.419s) 4000000 reads processed; of these: 80 ( 0.00%) short reads filtered out after trimming by size control 828 ( 0.02%) empty reads filtered out after trimming by size control 3999092 (99.98%) reads available; of these: 138181 ( 3.46%) trimmed reads available after processing 3860911 (96.54%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 11 0.00% 19 2 0.00% 20 4 0.00% 21 1 0.00% 22 0 0.00% 23 2 0.00% 24 2 0.00% 25 2 0.00% 26 4 0.00% 27 5 0.00% 28 8 0.00% 29 12 0.00% 30 12 0.00% 31 14 0.00% 32 22 0.00% 33 23 0.00% 34 28 0.00% 35 20 0.00% 36 31 0.00% 37 42 0.00% 38 57 0.00% 39 74 0.00% 40 104 0.00% 41 115 0.00% 42 196 0.00% 43 232 0.01% 44 400 0.01% 45 551 0.01% 46 714 0.02% 47 1163 0.03% 48 2169 0.05% 49 4713 0.12% 50 14547 0.36% 51 112901 2.82% 52 3860911 96.54% 3999092 reads passed initial QC criterion=sequence-density sequence-density=0.37 sequence-density-rank=1 fanout-score=1.91 fanout-score-rank=27 prefix-density=0.35 prefix-fanout=1.9 sequence=TGGCACCGGCCCGTAATCCTTCCACTGCCAGGAGCGGGAGGTGATCGCTGCTCTGTGAGACCAGCCTCACGCTGTGCCCTCCCCTCTAGGAGCCACGACACC criterion=fanout-score sequence-density=0.01 sequence-density-rank=36 fanout-score=19.62 fanout-score-rank=1 prefix-density=0.03 prefix-fanout=3.3 sequence=AAGAAGTTCACACTTTCTGGCGACGTCTTTCTTTTTCTTCAAAACCCCAATCCGCTCTCGCTCGCCGCTACTAACGGGGTCTCGGTTGATTTCCCTTCCTTTAGCTAGTCAGATGTTTCAGTTCGCTAAGTTTGAAAAGTCCAAAGAGCGCAGACTCGCCACGGAGCTTGGAGACGGTTTCCCGATCGGAGATCCATGGATCACAGACGGTATCTCCCCATGGCCTTTCGC Started job on | Feb 13 05:46:38 Started mapping on | Feb 13 05:46:50 Finished on | Feb 13 05:55:12 Mapping speed, Million of reads per hour | 28.68 Number of input reads | 3999092 Average input read length | 51 UNIQUE READS: Uniquely mapped reads number | 2991878 Uniquely mapped reads % | 74.81% Average mapped length | 51.76 Number of splices: Total | 254887 Number of splices: Annotated (sjdb) | 251546 Number of splices: GT/AG | 247259 Number of splices: GC/AG | 6166 Number of splices: AT/AC | 850 Number of splices: Non-canonical | 612 Mismatch rate per base, % | 0.63% Deletion rate per base | 0.01% Deletion average length | 2.30 Insertion rate per base | 0.00% Insertion average length | 1.35 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 849533 % of reads mapped to multiple loci | 21.24% Number of reads mapped to too many loci | 71675 % of reads mapped to too many loci | 1.79% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 2.03% % of reads unmapped: other | 0.12% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 157681 157681 157681 N_multimapping 849533 849533 849533 N_noFeature 452581 2922725 510863 N_ambiguous 22173 119 11203 UnstrandedReadsAssigned:2517124 PositiveStrandReadsAssigned:69034 NegativeStrandReadsAssigned:2469812 Dataset is classified negative stranded MeadianReadLen=52 20thPercentileLength=52 echo kmer=47 SRR5423393 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: SRR5423393-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 3,999,092 reads, 3,059,821 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,068 rounds 52401 SRR5423393.ke.tsv 34699 SRR5423393.se.tsv 87100 total ==> SRR5423393.ke.tsv <== target_id length eff_length est_counts tpm Potri.005G200100.1.v4.1 2018 1919 81.723 11.7338 Potri.005G024800.1.v4.1 1035 936 4 1.17748 Potri.004G059700.1.v4.1 961 862 3 0.958926 Potri.007G009000.2.v4.1 1416 1317 0 0 Potri.003G141000.2.v4.1 2943 2844 63 6.10354 Potri.016G087400.1.v4.1 270 171 23 37.0598 Potri.015G069301.1.v4.1 564 465 0 0 Potri.010G195200.1.v4.1 1773 1674 1 0.164595 Potri.012G127500.1.v4.1 977 878 6 1.8829 ==> SRR5423393.se.tsv <== Potri.001G166300.v4.1 0 Potri.001G448400.v4.1 5 Potri.001G233950.v4.1 0 Potri.001G122700.v4.1 29 Potri.001G212900.v4.1 0 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 SRR5423393 completed mapping pipeline successfully