Starting /dee2/code/volunteer_pipeline.sh SRR5423392 current disk space = 3051652923392 free memory = 1560076104 SRR5423392 SRAfilesize 9fa59f07d518fdfa1fce89f602a988ae SRR5423392.sra SRR5423392.sra file validated SRR5423392 is single end SRR5423392 is conventional basespace SRR5423392 read1 length is 52 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5423392_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 31.95175 33.0 31.0 34.0 30.0 34.0 2 32.00375 34.0 31.0 34.0 30.0 34.0 3 32.033 34.0 31.0 34.0 30.0 34.0 4 35.33025 37.0 35.0 37.0 32.0 37.0 5 35.54525 37.0 35.0 37.0 33.0 37.0 6 35.4775 37.0 35.0 37.0 33.0 37.0 7 35.66025 37.0 35.0 37.0 33.0 37.0 8 35.52825 37.0 35.0 37.0 33.0 37.0 9 37.144 39.0 37.0 39.0 33.0 39.0 10 37.34825 39.0 37.0 39.0 34.0 39.0 11 36.9625 39.0 37.0 39.0 33.0 39.0 12 37.25625 39.0 37.0 39.0 34.0 39.0 13 37.21275 39.0 37.0 39.0 33.0 39.0 14 38.30375 40.0 38.0 41.0 33.0 41.0 15 38.503 40.0 38.0 41.0 34.0 41.0 16 38.28775 40.0 38.0 41.0 33.0 41.0 17 38.26075 40.0 38.0 41.0 33.0 41.0 18 38.4385 40.0 38.0 41.0 34.0 41.0 19 38.178 40.0 37.0 41.0 33.0 41.0 20 38.35025 40.0 38.0 41.0 33.0 41.0 21 38.33025 40.0 37.0 41.0 34.0 41.0 22 38.27025 40.0 37.0 41.0 33.0 41.0 23 38.286 40.0 38.0 41.0 34.0 41.0 24 38.1515 40.0 38.0 41.0 33.0 41.0 25 38.1045 40.0 37.0 41.0 33.0 41.0 26 38.197 40.0 37.0 41.0 33.0 41.0 27 38.13525 40.0 38.0 41.0 33.0 41.0 28 38.11725 40.0 37.0 41.0 33.0 41.0 29 37.9055 40.0 37.0 41.0 33.0 41.0 30 38.014 40.0 37.0 41.0 33.0 41.0 31 37.96225 40.0 37.0 41.0 33.0 41.0 32 37.84775 40.0 37.0 41.0 33.0 41.0 33 37.82775 40.0 37.0 41.0 33.0 41.0 34 37.98025 40.0 37.0 41.0 33.0 41.0 35 37.7075 40.0 37.0 41.0 32.0 41.0 36 37.746 40.0 37.0 41.0 32.0 41.0 37 37.7225 40.0 37.0 41.0 33.0 41.0 38 37.682 40.0 37.0 41.0 32.0 41.0 39 37.58525 40.0 37.0 41.0 32.0 41.0 40 37.472 40.0 37.0 41.0 31.0 41.0 41 37.6395 40.0 37.0 41.0 32.0 41.0 42 37.49925 40.0 37.0 41.0 32.0 41.0 43 37.346 40.0 36.0 41.0 31.0 41.0 44 37.4755 40.0 36.0 41.0 32.0 41.0 45 37.24375 40.0 36.0 41.0 31.0 41.0 46 37.342 40.0 36.0 41.0 31.0 41.0 47 37.21325 39.0 36.0 41.0 31.0 41.0 48 36.82725 39.0 35.0 41.0 30.0 41.0 49 36.996 39.0 35.0 41.0 30.0 41.0 50 36.798 39.0 35.0 41.0 30.0 41.0 51 36.49275 39.0 35.0 40.0 30.0 41.0 52 35.358 38.0 33.0 40.0 27.0 41.0 >>END_MODULE >>Per tile sequence quality pass #Tile Base Mean 1309 1 0.0 1309 2 0.0 1309 3 0.0 1309 4 0.0 1309 5 0.0 1309 6 0.0 1309 7 0.0 1309 8 0.0 1309 9 0.0 1309 10 0.0 1309 11 0.0 1309 12 0.0 1309 13 0.0 1309 14 0.0 1309 15 0.0 1309 16 0.0 1309 17 0.0 1309 18 0.0 1309 19 0.0 1309 20 0.0 1309 21 0.0 1309 22 0.0 1309 23 0.0 1309 24 0.0 1309 25 0.0 1309 26 0.0 1309 27 0.0 1309 28 0.0 1309 29 0.0 1309 30 0.0 1309 31 0.0 1309 32 0.0 1309 33 0.0 1309 34 0.0 1309 35 0.0 1309 36 0.0 1309 37 0.0 1309 38 0.0 1309 39 0.0 1309 40 0.0 1309 41 0.0 1309 42 0.0 1309 43 0.0 1309 44 0.0 1309 45 0.0 1309 46 0.0 1309 47 0.0 1309 48 0.0 1309 49 0.0 1309 50 0.0 1309 51 0.0 1309 52 0.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 7 1.0 8 0.0 9 0.0 10 1.0 11 0.0 12 0.0 13 0.0 14 0.0 15 1.0 16 0.0 17 0.0 18 0.0 19 1.0 20 0.0 21 3.0 22 5.0 23 4.0 24 6.0 25 8.0 26 12.0 27 25.0 28 35.0 29 40.0 30 65.0 31 98.0 32 143.0 33 160.0 34 197.0 35 224.0 36 344.0 37 423.0 38 714.0 39 1488.0 40 2.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 43.25 12.875 6.25 37.625 2 20.8 14.35 36.025 28.825 3 19.575 19.775000000000002 24.65 36.0 4 24.2 28.1 21.625 26.075 5 24.2 33.0 22.0 20.8 6 20.575 33.575 25.3 20.549999999999997 7 16.0 23.375 41.6 19.025 8 16.575 22.900000000000002 30.225 30.3 9 18.8 22.975 31.15 27.075 10 19.525000000000002 37.974999999999994 22.55 19.950000000000003 11 22.975 29.125 21.099999999999998 26.8 12 20.3 25.025 25.775 28.9 13 20.9 28.849999999999998 26.05 24.2 14 19.8 28.749999999999996 26.474999999999998 24.975 15 22.400000000000002 26.875 26.275 24.45 16 20.25 26.200000000000003 26.125 27.425 17 21.825 28.000000000000004 24.275 25.900000000000002 18 23.0 26.924999999999997 25.624999999999996 24.45 19 23.400000000000002 26.924999999999997 24.85 24.825 20 20.45 27.85 26.400000000000002 25.3 21 21.0 26.5 25.900000000000002 26.6 22 21.9 27.975 24.9 25.224999999999998 23 22.45 27.525 24.975 25.05 24 23.525 26.325 25.224999999999998 24.925 25 21.675 26.974999999999998 25.7 25.650000000000002 26 21.85 28.375 25.874999999999996 23.9 27 21.425 27.425 26.424999999999997 24.725 28 23.525 27.474999999999998 24.85 24.15 29 21.125 27.325 26.6 24.95 30 21.075 26.224999999999998 25.224999999999998 27.474999999999998 31 20.724999999999998 29.049999999999997 25.85 24.375 32 20.424999999999997 27.650000000000002 26.75 25.174999999999997 33 20.8 25.874999999999996 27.625 25.7 34 20.325 26.825 26.1 26.75 35 21.45 26.6 24.825 27.125 36 20.4 27.925 24.4 27.275 37 21.275 27.250000000000004 24.775 26.700000000000003 38 22.75 26.575 25.6 25.074999999999996 39 22.25 26.0 24.8 26.950000000000003 40 20.375 28.199999999999996 26.05 25.374999999999996 41 22.025 26.125 24.95 26.900000000000002 42 20.375 25.85 27.800000000000004 25.974999999999998 43 21.85546386596649 26.206551637909474 26.506626656664167 25.431357839459867 44 22.225 27.35 24.75 25.674999999999997 45 21.96098049024512 25.662831415707853 25.512756378189096 26.863431715857928 46 22.436218109054526 28.68934467233617 24.61230615307654 24.262131065532767 47 22.961480740370185 26.713356678339167 25.6128064032016 24.712356178089045 48 21.625 26.6 25.575 26.200000000000003 49 21.95 25.85 25.424999999999997 26.775 50 22.80570142535634 27.60690172543136 24.15603900975244 25.431357839459867 51 22.675 26.224999999999998 24.7 26.400000000000002 52 22.825 28.1 24.025 25.05 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 3.0 1 1.5 2 0.0 3 0.5 4 1.0 5 2.0 6 3.0 7 3.5 8 4.0 9 3.0 10 2.0 11 1.0 12 0.0 13 0.5 14 0.5 15 0.0 16 1.0 17 2.0 18 6.0 19 10.0 20 9.5 21 9.0 22 8.5 23 8.0 24 9.5 25 11.0 26 17.0 27 23.0 28 34.0 29 45.0 30 51.0 31 57.0 32 81.0 33 105.0 34 120.5 35 136.0 36 151.5 37 167.0 38 194.5 39 219.0 40 216.0 41 228.5 42 241.0 43 269.0 44 297.0 45 278.5 46 260.0 47 268.0 48 276.0 49 282.0 50 288.0 51 330.5 52 373.0 53 345.5 54 318.0 55 287.0 56 256.0 57 223.5 58 191.0 59 174.0 60 157.0 61 140.5 62 124.0 63 97.5 64 58.5 65 46.0 66 39.5 67 33.0 68 25.0 69 17.0 70 12.5 71 8.0 72 7.5 73 7.0 74 4.5 75 2.0 76 2.5 77 3.0 78 3.5 79 4.0 80 3.0 81 2.0 82 1.5 83 1.0 84 0.5 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 0.0 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 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 0.025 44 0.0 45 0.05 46 0.05 47 0.05 48 0.0 49 0.0 50 0.025 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 87.575 #Duplication Level Percentage of deduplicated Percentage of total 1 92.8918070225521 81.35 2 4.2820439623180135 7.5 3 1.4558949471881244 3.8249999999999997 4 0.5138452754781616 1.7999999999999998 5 0.3425635169854411 1.5 6 0.11418783899514702 0.6 7 0.14273479874393377 0.8750000000000001 8 0.08564087924636027 0.6 9 0.028546959748786755 0.22499999999999998 >10 0.14273479874393377 1.725 >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 18 0.44999999999999996 No Hit GTCCCTTATAACGATCAAGACTGGTAAGCCCGTCGGTCCACACAGTTGTCCA 16 0.4 No Hit CTCGTATTTTCCCCTCTGCCTCGGGTTGTCTCGCGATACCTTCTACAGCTTG 13 0.325 No Hit CCCTGATCAAACTAGAGGTTACCAAAGAACCATGCATAGCACTGAATAGGGA 11 0.27499999999999997 No Hit CCAGCAACGGGCTCGATGTCGTAGCATCGTCCCTTATAACGATCAAGACTGG 11 0.27499999999999997 No Hit GGTTAATAATATCAGCCCAGGTATTAATTACACGACCTTGACTATCAACTAC 9 0.22499999999999998 No Hit GCCAGACTAAGCAATAAAGTACCTCGTATTTTCCCCTCTGCCTCGGGTTGTC 8 0.2 No Hit GGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCGA 8 0.2 No Hit GTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCC 8 0.2 No Hit CTCACGAGCAAGATCACGTCCCTCATTACGAGCTTGTACACATGCTTCTAGA 7 0.17500000000000002 No Hit GCCAACTTGATCCTCTTCCCCAGGGATCCCAGATGAGGGAACCCTAGGAGAG 7 0.17500000000000002 No Hit CCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACT 7 0.17500000000000002 No Hit GTTCAATTAGATCAGCCCATCAGGCCATGCGGATCCAGGTGGCACCGGCCCG 7 0.17500000000000002 No Hit ATCAAACTAGAGGTTACCAAAGAACCATGCATAGCACTGAATAGGGAGCCGC 7 0.17500000000000002 No Hit GCCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTAC 6 0.15 No Hit GCATAAGGATGTTGTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTACC 6 0.15 No Hit CCCGAAGCCACGGGTAGAACACCCGGTAGAGAGACCCAATCTTGAGTGAAAT 6 0.15 No Hit CCAGGTATTAATTACACGACCTTGACTATCAACTACAGATTGGTTGAAATTG 6 0.15 No Hit GTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCCCTGCTTCCTCGG 5 0.125 No Hit GTGGAGACGATGGGGTCGGTCCATGGATTTTCCTTCCTTTTTCCGCATTTCG 5 0.125 No Hit CCCAGGTATTAATTACACGACCTTGACTATCAACTACAGATTGGTTGAAATT 5 0.125 No Hit GGGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCG 5 0.125 No Hit CCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTG 5 0.125 No Hit CTCGTACACACTAAGAAAAAAGCCTTATCCATTTACAAAAGTCTTATCCATT 5 0.125 No Hit CTCCAGCAACGGGCTCGATGTCGTAGCATCGTCCCTTATAACGATCAAGACT 5 0.125 No Hit GTGCATAAGGATGTTGTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTA 5 0.125 No Hit CCGCATTTCGCTAAAGGGTTGAAGGAGGATAGTGCATCAAGCTGTTCGCAAG 5 0.125 No Hit GCCGAATACACCAGCTACGCCTAACATGTGAAATGGGTGCATAAGGATGTTG 5 0.125 No Hit GCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAGATCA 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 0.025 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 SRR5423392.sra Written 200000 spots for SRR5423392.sra Read 200000 spots for SRR5423392.sra Written 200000 spots for SRR5423392.sra Read 200000 spots for SRR5423392.sra Written 200000 spots for SRR5423392.sra Read 200000 spots for SRR5423392.sra Written 200000 spots for SRR5423392.sra Read 200000 spots for SRR5423392.sra Written 200000 spots for SRR5423392.sra Read 200000 spots for SRR5423392.sra Written 200000 spots for SRR5423392.sra Read 200000 spots for SRR5423392.sra Written 200000 spots for SRR5423392.sra Read 200000 spots for SRR5423392.sra Written 200000 spots for SRR5423392.sra Read 200000 spots for SRR5423392.sra Written 200000 spots for SRR5423392.sra Read 200000 spots for SRR5423392.sra Written 200000 spots for SRR5423392.sra Read 200000 spots for SRR5423392.sra Written 200000 spots for SRR5423392.sra Read 200000 spots for SRR5423392.sra Written 200000 spots for SRR5423392.sra Read 200000 spots for SRR5423392.sra Written 200000 spots for SRR5423392.sra Read 200000 spots for SRR5423392.sra Written 200000 spots for SRR5423392.sra Read 200000 spots for SRR5423392.sra Written 200000 spots for SRR5423392.sra Read 200000 spots for SRR5423392.sra Written 200000 spots for SRR5423392.sra Read 200000 spots for SRR5423392.sra Written 200000 spots for SRR5423392.sra Read 200000 spots for SRR5423392.sra Written 200000 spots for SRR5423392.sra Read 200000 spots for SRR5423392.sra Written 200000 spots for SRR5423392.sra Read 200000 spots for SRR5423392.sra Written 200000 spots for SRR5423392.sra SRR ids: ['SRR5423392.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_f5c7242z SRR5423392.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]] SRR5423392 file size 703942 SRR5423392 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 SRR5423392 SRR5423392_1.fastq Input file: SRR5423392_1.fastq trimmed: SRR5423392-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 05:17:19 2025 >> started Thu Feb 13 05:23:20 2025 >> done (361.033s) 4000000 reads processed; of these: 78 ( 0.00%) short reads filtered out after trimming by size control 853 ( 0.02%) empty reads filtered out after trimming by size control 3999069 (99.98%) reads available; of these: 98550 ( 2.46%) trimmed reads available after processing 3900519 (97.54%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 6 0.00% 19 1 0.00% 20 7 0.00% 21 0 0.00% 22 1 0.00% 23 2 0.00% 24 5 0.00% 25 6 0.00% 26 12 0.00% 27 5 0.00% 28 6 0.00% 29 6 0.00% 30 10 0.00% 31 6 0.00% 32 19 0.00% 33 15 0.00% 34 27 0.00% 35 24 0.00% 36 35 0.00% 37 53 0.00% 38 52 0.00% 39 72 0.00% 40 93 0.00% 41 123 0.00% 42 154 0.00% 43 234 0.01% 44 292 0.01% 45 426 0.01% 46 626 0.02% 47 995 0.02% 48 1893 0.05% 49 4081 0.10% 50 12083 0.30% 51 77180 1.93% 52 3900519 97.54% 3999069 reads passed initial QC criterion=sequence-density sequence-density=0.36 sequence-density-rank=1 fanout-score=1.91 fanout-score-rank=29 prefix-density=0.34 prefix-fanout=1.9 sequence=TGGCACCGGCCCGTAATCCTTCCACTGCCAGGAGCGGGAGGTGATCGCTGCTCTGTGAGACCAGCCTCACGCTGTGCCCTCCCCTCTAGGAGCCACGACACC criterion=fanout-score sequence-density=0.01 sequence-density-rank=39 fanout-score=21.54 fanout-score-rank=1 prefix-density=0.06 prefix-fanout=1.7 sequence=TGGGCCGAGTTTAATTTAATTGCAATTCAATTACGAGAATGAACATTAATTAGTGGATTACAACGTATCCATTGCTTGGAATTCAAATTTAATCTCCTTCCATACTTCACAAGCAGCAGCTAGTTCAGGGCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAGATCACGTCCCTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAACGGCACCGGGTGCATTTCCCCAAGGGTGCCCTAAAGTTCCTCCACCGAATTGTAGTACGGAATCATCTCCAAAGATCTCGGTCAGAGCAGGCATATGCCAAACGTGAATACCCCCCGAAGCCACGGGTAGAACACCCGGTAGAGAGACCCAATCTTGAGTGAAATAAATACCGCGGCTTCGATCTTTTTCAACAAAATCATCACGCAGTAAATCAACAAAACCCAAAGTTATGTCTCTTTCCCCTTCAAGTTTACCTACTACGGTACCAGAGTGAATA Started job on | Feb 13 05:29:04 Started mapping on | Feb 13 05:29:23 Finished on | Feb 13 05:55:12 Mapping speed, Million of reads per hour | 9.29 Number of input reads | 3999069 Average input read length | 51 UNIQUE READS: Uniquely mapped reads number | 2999632 Uniquely mapped reads % | 75.01% Average mapped length | 51.79 Number of splices: Total | 257603 Number of splices: Annotated (sjdb) | 254198 Number of splices: GT/AG | 249839 Number of splices: GC/AG | 6263 Number of splices: AT/AC | 850 Number of splices: Non-canonical | 651 Mismatch rate per base, % | 0.43% Deletion rate per base | 0.01% Deletion average length | 2.32 Insertion rate per base | 0.00% Insertion average length | 1.34 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 848128 % of reads mapped to multiple loci | 21.21% Number of reads mapped to too many loci | 73800 % of reads mapped to too many loci | 1.85% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.81% % of reads unmapped: other | 0.12% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 151309 151309 151309 N_multimapping 848128 848128 848128 N_noFeature 455189 2929840 513943 N_ambiguous 22096 146 10927 UnstrandedReadsAssigned:2522347 PositiveStrandReadsAssigned:69646 NegativeStrandReadsAssigned:2474762 Dataset is classified negative stranded MeadianReadLen=52 20thPercentileLength=52 echo kmer=47 SRR5423392 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: SRR5423392-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 3,999,069 reads, 3,146,693 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,040 rounds 52401 SRR5423392.ke.tsv 34699 SRR5423392.se.tsv 87100 total ==> SRR5423392.ke.tsv <== target_id length eff_length est_counts tpm Potri.005G200100.1.v4.1 2018 1919 87 12.1537 Potri.005G024800.1.v4.1 1035 936 1 0.28641 Potri.004G059700.1.v4.1 961 862 10 3.10998 Potri.007G009000.2.v4.1 1416 1317 0 0 Potri.003G141000.2.v4.1 2943 2844 77.5402 7.30907 Potri.016G087400.1.v4.1 270 171 18 28.219 Potri.015G069301.1.v4.1 564 465 0 0 Potri.010G195200.1.v4.1 1773 1674 1 0.160143 Potri.012G127500.1.v4.1 977 878 5 1.52665 ==> SRR5423392.se.tsv <== Potri.001G166300.v4.1 0 Potri.001G448400.v4.1 8 Potri.001G233950.v4.1 0 Potri.001G122700.v4.1 23 Potri.001G212900.v4.1 3 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 SRR5423392 completed mapping pipeline successfully