Starting /dee2/code/volunteer_pipeline.sh SRR5423425 current disk space = 3049598230528 free memory = 1423451248 SRR5423425 SRAfilesize 5b43d866815edf6841fe07e815320b05 SRR5423425.sra SRR5423425.sra file validated SRR5423425 is single end SRR5423425 is conventional basespace SRR5423425 read1 length is 52 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5423425_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 31.6915 31.0 31.0 34.0 30.0 34.0 2 31.873 31.0 31.0 34.0 30.0 34.0 3 31.85725 33.0 31.0 34.0 30.0 34.0 4 33.8595 37.0 35.0 37.0 27.0 37.0 5 35.19525 37.0 35.0 37.0 32.0 37.0 6 35.299 37.0 35.0 37.0 32.0 37.0 7 35.4975 37.0 35.0 37.0 33.0 37.0 8 35.57875 37.0 35.0 37.0 33.0 37.0 9 37.03225 39.0 37.0 39.0 33.0 39.0 10 36.85225 39.0 37.0 39.0 32.0 39.0 11 36.964 39.0 37.0 39.0 33.0 39.0 12 37.0615 39.0 37.0 39.0 33.0 39.0 13 36.80575 39.0 37.0 39.0 32.0 39.0 14 37.93525 40.0 37.0 41.0 33.0 41.0 15 38.01925 40.0 37.0 41.0 33.0 41.0 16 37.83875 40.0 37.0 41.0 33.0 41.0 17 37.97525 40.0 37.0 41.0 33.0 41.0 18 37.99075 40.0 37.0 41.0 33.0 41.0 19 37.97875 40.0 37.0 41.0 33.0 41.0 20 37.9935 40.0 37.0 41.0 33.0 41.0 21 38.17275 40.0 37.0 41.0 34.0 41.0 22 38.05875 40.0 37.0 41.0 32.0 41.0 23 37.745 40.0 37.0 41.0 32.0 41.0 24 38.2125 40.0 38.0 41.0 34.0 41.0 25 38.06425 40.0 37.0 41.0 33.0 41.0 26 38.07325 40.0 38.0 41.0 34.0 41.0 27 38.04775 40.0 37.0 41.0 33.0 41.0 28 37.92675 40.0 37.0 41.0 33.0 41.0 29 37.854 40.0 37.0 41.0 33.0 41.0 30 37.8385 40.0 37.0 41.0 33.0 41.0 31 37.85775 40.0 37.0 41.0 33.0 41.0 32 37.785 40.0 37.0 41.0 32.0 41.0 33 37.8315 40.0 37.0 41.0 33.0 41.0 34 37.658 40.0 37.0 41.0 32.0 41.0 35 37.86575 40.0 37.0 41.0 33.0 41.0 36 37.892 40.0 37.0 41.0 33.0 41.0 37 37.616 40.0 37.0 41.0 32.0 41.0 38 37.56175 40.0 37.0 41.0 32.0 41.0 39 37.42225 40.0 36.0 41.0 31.0 41.0 40 37.342 39.0 36.0 41.0 31.0 41.0 41 37.1995 39.0 36.0 41.0 31.0 41.0 42 37.1675 39.0 36.0 41.0 31.0 41.0 43 37.00975 39.0 36.0 41.0 30.0 41.0 44 36.984 39.0 36.0 41.0 31.0 41.0 45 36.966 39.0 36.0 41.0 30.0 41.0 46 37.0355 39.0 36.0 41.0 31.0 41.0 47 36.92275 39.0 36.0 41.0 30.0 41.0 48 36.86925 39.0 36.0 40.0 30.0 41.0 49 36.578 39.0 35.0 40.0 30.0 41.0 50 36.7635 39.0 35.0 40.0 30.0 41.0 51 36.5715 39.0 35.0 40.0 30.0 41.0 52 35.5915 38.0 34.0 40.0 27.0 41.0 >>END_MODULE >>Per tile sequence quality pass #Tile Base Mean 2213 1 0.0 2213 2 0.0 2213 3 0.0 2213 4 0.0 2213 5 0.0 2213 6 0.0 2213 7 0.0 2213 8 0.0 2213 9 0.0 2213 10 0.0 2213 11 0.0 2213 12 0.0 2213 13 0.0 2213 14 0.0 2213 15 0.0 2213 16 0.0 2213 17 0.0 2213 18 0.0 2213 19 0.0 2213 20 0.0 2213 21 0.0 2213 22 0.0 2213 23 0.0 2213 24 0.0 2213 25 0.0 2213 26 0.0 2213 27 0.0 2213 28 0.0 2213 29 0.0 2213 30 0.0 2213 31 0.0 2213 32 0.0 2213 33 0.0 2213 34 0.0 2213 35 0.0 2213 36 0.0 2213 37 0.0 2213 38 0.0 2213 39 0.0 2213 40 0.0 2213 41 0.0 2213 42 0.0 2213 43 0.0 2213 44 0.0 2213 45 0.0 2213 46 0.0 2213 47 0.0 2213 48 0.0 2213 49 0.0 2213 50 0.0 2213 51 0.0 2213 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 1.0 23 4.0 24 7.0 25 15.0 26 17.0 27 25.0 28 47.0 29 60.0 30 74.0 31 91.0 32 120.0 33 173.0 34 206.0 35 283.0 36 375.0 37 467.0 38 770.0 39 1258.0 40 3.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 38.20365273955467 10.582937202902176 5.0287715786840135 46.18463847885915 2 21.975 13.350000000000001 37.1 27.575 3 21.0 18.825 21.95 38.224999999999994 4 24.8 26.224999999999998 22.0 26.974999999999998 5 25.15 30.075000000000003 24.575 20.200000000000003 6 19.25 33.75 24.825 22.175 7 15.475 24.349999999999998 39.6 20.575 8 18.4 21.9 29.825000000000003 29.875 9 17.549999999999997 20.9 33.775 27.775 10 18.55 38.6 24.15 18.7 11 22.775000000000002 28.275 22.375 26.575 12 21.625 24.474999999999998 25.35 28.549999999999997 13 19.75 27.775 27.975 24.5 14 20.849999999999998 27.950000000000003 28.375 22.825 15 21.95 26.275 26.424999999999997 25.35 16 20.95 28.1 26.025 24.925 17 21.325 27.500000000000004 27.375 23.799999999999997 18 21.975 26.875 25.25 25.900000000000002 19 21.45 27.55 26.025 24.975 20 21.125 27.85 25.525 25.5 21 20.349999999999998 26.825 26.25 26.575 22 20.424999999999997 27.725 26.35 25.5 23 21.4 27.650000000000002 26.6 24.349999999999998 24 20.9 27.675 24.9 26.525 25 21.8 27.325 25.874999999999996 25.0 26 20.95 27.025 27.224999999999998 24.8 27 21.65 28.475 26.075 23.799999999999997 28 22.15 27.375 25.95 24.525 29 20.549999999999997 28.175 27.0 24.275 30 20.95 26.075 26.424999999999997 26.55 31 20.674999999999997 28.349999999999998 26.5 24.474999999999998 32 21.85 27.675 27.05 23.425 33 21.2 26.400000000000002 26.674999999999997 25.724999999999998 34 19.875 27.224999999999998 26.150000000000002 26.75 35 21.05 26.924999999999997 26.150000000000002 25.874999999999996 36 20.65 26.424999999999997 26.6 26.325 37 21.25 26.625 27.250000000000004 24.875 38 20.674999999999997 26.650000000000002 25.775 26.900000000000002 39 20.75 25.05 26.174999999999997 28.025 40 21.95 26.525 25.05 26.474999999999998 41 21.275 26.400000000000002 27.275 25.05 42 20.825 25.15 27.1 26.924999999999997 43 21.55 28.075 24.9 25.474999999999998 44 23.25 25.95 26.200000000000003 24.6 45 21.95 25.5 26.275 26.275 46 23.075000000000003 27.075 25.95 23.9 47 22.7 26.625 24.8 25.874999999999996 48 22.961480740370185 26.463231615807903 24.862431215607803 25.71285642821411 49 21.224999999999998 26.174999999999997 25.224999999999998 27.375 50 22.6 27.025 25.6 24.775 51 21.65 24.875 24.95 28.525 52 22.5 27.025 24.75 25.724999999999998 >>END_MODULE >>Per sequence GC content pass #GC Content Count 0 0.0 1 1.0 2 2.0 3 1.0 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 0.5 14 1.5 15 2.0 16 1.5 17 1.0 18 4.0 19 7.0 20 7.5 21 8.0 22 9.0 23 10.0 24 9.5 25 9.0 26 14.5 27 20.0 28 31.5 29 43.0 30 46.5 31 50.0 32 62.0 33 74.0 34 93.0 35 112.0 36 139.0 37 166.0 38 193.0 39 224.0 40 228.0 41 246.0 42 264.0 43 295.5 44 327.0 45 328.0 46 329.0 47 333.5 48 338.0 49 326.5 50 315.0 51 313.0 52 311.0 53 327.0 54 343.0 55 303.0 56 263.0 57 223.5 58 184.0 59 160.5 60 137.0 61 120.0 62 103.0 63 77.5 64 39.5 65 27.0 66 25.5 67 24.0 68 18.5 69 13.0 70 10.5 71 8.0 72 6.5 73 5.0 74 4.0 75 3.0 76 2.0 77 1.0 78 0.5 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 0.075 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 0.0 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 89.925 #Duplication Level Percentage of deduplicated Percentage of total 1 94.43981095357242 84.925 2 3.252710592160134 5.8500000000000005 3 1.05643591882124 2.85 4 0.3336113427856547 1.2 5 0.4448151237142063 2.0 6 0.19460661662496526 1.05 7 0.11120378092855157 0.7000000000000001 8 0.027800945232137893 0.2 9 0.08340283569641367 0.675 >10 0.055601890464275786 0.5499999999999999 >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 12 0.3 No Hit CTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAACGGCA 10 0.25 No Hit CTCGTATTTTCCCCTCTGCCTCGGGTTGTCTCGCGATACCTTCTACAGCTTG 9 0.22499999999999998 No Hit GGGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCG 9 0.22499999999999998 No Hit CTCAGCCTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGAGGC 9 0.22499999999999998 No Hit CCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACT 8 0.2 No Hit CAGGGCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAG 7 0.17500000000000002 No Hit CACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCCCTG 7 0.17500000000000002 No Hit GTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGA 7 0.17500000000000002 No Hit CTAACATGTGAAATGGGTGCATAAGGATGTTGTGCTCAGCCTGGAATACAAT 7 0.17500000000000002 No Hit GTCCCTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAAC 6 0.15 No Hit CCTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAACGGC 6 0.15 No Hit CCCTGATCAAACTAGAGGTTACCAAAGAACCATGCATAGCACTGAATAGGGA 6 0.15 No Hit CTGCAAAGGATTCTACCCGCCGCTCGGTGGGAATTGTACTTCAAGGCGGCCC 6 0.15 No Hit CGATTGGATAAATCAAGAAAACAGCAGTAGCCGCCGCAACAGGAGCTGAATA 6 0.15 No Hit ATCAAACTAGAGGTTACCAAAGAACCATGCATAGCACTGAATAGGGAGCCGC 6 0.15 No Hit GCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAGATCA 6 0.15 No Hit GTGAGTTCCAGTTCCCTGGGGGGCTTGGAAAAGAGAGTCCACCATACCCTTT 5 0.125 No Hit GGTGCATAAGGATGTTGTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGT 5 0.125 No Hit GTTGTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCT 5 0.125 No Hit CGCGTATTTAAGTCGTCTGCAAAGGATTCTACCCGCCGCTCGGTGGGAATTG 5 0.125 No Hit GTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCG 5 0.125 No Hit GCCCCATGTAACAAGCTACACCAAGTAAGAAGTGTAGAACAATTAGCTCATA 5 0.125 No Hit ATAATATCAGCCCAGGTATTAATTACACGACCTTGACTATCAACTACAGATT 5 0.125 No Hit CTCTTGACCAAATCTGTAACCTTCATTAGCAGATTCATTTTCTGTGGTTTCC 5 0.125 No Hit CTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGAGGCATCCCA 5 0.125 No Hit CTCGTACACACTAAGAAAAAAGCCTTATCCATTTACAAAAGTCTTATCCATT 5 0.125 No Hit GTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCC 5 0.125 No Hit GCCTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGAGGCATCC 5 0.125 No Hit CTCCAGCAACGGGCTCGATGTCGTAGCATCGTCCCTTATAACGATCAAGACT 5 0.125 No Hit CTCGATTAGCAACGGCACCGGGTGCATTTCCCCAAGGGTGCCCTAAAGTTCC 5 0.125 No Hit GTCGTCTGCAAAGGATTCTACCCGCCGCTCGGTGGGAATTGTACTTCAAGGC 5 0.125 No Hit CCGTCGCGTATTTAAGTCGTCTGCAAAGGATTCTACCCGCCGCTCGGTGGGA 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 SRR5423425.sra Written 200000 spots for SRR5423425.sra Read 200000 spots for SRR5423425.sra Written 200000 spots for SRR5423425.sra Read 200000 spots for SRR5423425.sra Written 200000 spots for SRR5423425.sra Read 200000 spots for SRR5423425.sra Written 200000 spots for SRR5423425.sra Read 200000 spots for SRR5423425.sra Written 200000 spots for SRR5423425.sra Read 200000 spots for SRR5423425.sra Written 200000 spots for SRR5423425.sra Read 200000 spots for SRR5423425.sra Written 200000 spots for SRR5423425.sra Read 200000 spots for SRR5423425.sra Written 200000 spots for SRR5423425.sra Read 200000 spots for SRR5423425.sra Written 200000 spots for SRR5423425.sra Read 200000 spots for SRR5423425.sra Written 200000 spots for SRR5423425.sra Read 200000 spots for SRR5423425.sra Written 200000 spots for SRR5423425.sra Read 200000 spots for SRR5423425.sra Written 200000 spots for SRR5423425.sra Read 200000 spots for SRR5423425.sra Written 200000 spots for SRR5423425.sra Read 200000 spots for SRR5423425.sra Written 200000 spots for SRR5423425.sra Read 200000 spots for SRR5423425.sra Written 200000 spots for SRR5423425.sra Read 200000 spots for SRR5423425.sra Written 200000 spots for SRR5423425.sra Read 200000 spots for SRR5423425.sra Written 200000 spots for SRR5423425.sra Read 200000 spots for SRR5423425.sra Written 200000 spots for SRR5423425.sra Read 200000 spots for SRR5423425.sra Written 200000 spots for SRR5423425.sra Read 200000 spots for SRR5423425.sra Written 200000 spots for SRR5423425.sra SRR ids: ['SRR5423425.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_6h2w631b SRR5423425.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]] SRR5423425 file size 703956 SRR5423425 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 SRR5423425 SRR5423425_1.fastq Input file: SRR5423425_1.fastq trimmed: SRR5423425-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 09:19:38 2025 >> started Wed Feb 12 09:19:40 2025 >> done (2.059s) 4000000 reads processed; of these: 146 ( 0.00%) short reads filtered out after trimming by size control 81 ( 0.00%) empty reads filtered out after trimming by size control 3999773 (99.99%) reads available; of these: 70859 ( 1.77%) trimmed reads available after processing 3928914 (98.23%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 17 0.00% 19 15 0.00% 20 3 0.00% 21 0 0.00% 22 1 0.00% 23 2 0.00% 24 0 0.00% 25 2 0.00% 26 2 0.00% 27 4 0.00% 28 7 0.00% 29 2 0.00% 30 6 0.00% 31 3 0.00% 32 12 0.00% 33 11 0.00% 34 14 0.00% 35 17 0.00% 36 38 0.00% 37 34 0.00% 38 31 0.00% 39 50 0.00% 40 61 0.00% 41 71 0.00% 42 101 0.00% 43 159 0.00% 44 259 0.01% 45 367 0.01% 46 481 0.01% 47 722 0.02% 48 1330 0.03% 49 3134 0.08% 50 9028 0.23% 51 54875 1.37% 52 3928914 98.23% 3999773 reads passed initial QC criterion=sequence-density sequence-density=0.46 sequence-density-rank=1 fanout-score=2.00 fanout-score-rank=29 prefix-density=0.46 prefix-fanout=2.0 sequence=TGCTTAATGACCGCATGTGCAGGTAGTGCAAGTGCAGCCAGTACCGCAGTTGCACTTGCCATCGTTCTCAGCTGCTGGCACCTCCATGAC criterion=fanout-score sequence-density=0.01 sequence-density-rank=43 fanout-score=24.70 fanout-score-rank=1 prefix-density=0.08 prefix-fanout=1.6 sequence=AGTTCTTGGAGATGTGAACAACAAGCTTGTCCATGAAAGCAGGAGCAATGTAGAAACCATCCATGTTGTTGTCCAAGTTGTACGTACGAAGACCTTGACTGAGATACTCATAAGAATTCAAAACGGGGTTGTGAGTTCCAGTTCCCTGGGGGGCTTGGAAAAGAGAGTCCACCATACCCTTTCCTCTGCTGATATCTTGTTGGTCATCAGACATGTCTGTAACAAGGCCTCCCCATCTGTCCTT Started job on | Feb 12 09:19:53 Started mapping on | Feb 12 09:19:53 Finished on | Feb 12 09:19:58 Mapping speed, Million of reads per hour | 2879.84 Number of input reads | 3999773 Average input read length | 51 UNIQUE READS: Uniquely mapped reads number | 3135138 Uniquely mapped reads % | 78.38% Average mapped length | 51.79 Number of splices: Total | 287314 Number of splices: Annotated (sjdb) | 282687 Number of splices: GT/AG | 280693 Number of splices: GC/AG | 5383 Number of splices: AT/AC | 757 Number of splices: Non-canonical | 481 Mismatch rate per base, % | 0.36% Deletion rate per base | 0.01% Deletion average length | 2.22 Insertion rate per base | 0.00% Insertion average length | 1.35 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 711374 % of reads mapped to multiple loci | 17.79% Number of reads mapped to too many loci | 83481 % of reads mapped to too many loci | 2.09% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.73% % of reads unmapped: other | 0.01% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 153261 153261 153261 N_multimapping 711374 711374 711374 N_noFeature 395144 3089407 429680 N_ambiguous 22022 174 10666 UnstrandedReadsAssigned:2717972 PositiveStrandReadsAssigned:45557 NegativeStrandReadsAssigned:2694792 Dataset is classified negative stranded MeadianReadLen=52 20thPercentileLength=52 echo kmer=47 SRR5423425 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: SRR5423425-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 3,999,773 reads, 3,256,372 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,089 rounds 52401 SRR5423425.ke.tsv 34699 SRR5423425.se.tsv 87100 total ==> SRR5423425.ke.tsv <== target_id length eff_length est_counts tpm Potri.005G200100.1.v4.1 2018 1919 117 17.1839 Potri.005G024800.1.v4.1 1035 936 23 6.9257 Potri.004G059700.1.v4.1 961 862 4 1.30787 Potri.007G009000.2.v4.1 1416 1317 0 0 Potri.003G141000.2.v4.1 2943 2844 58.9905 5.84607 Potri.016G087400.1.v4.1 270 171 15 24.7233 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 5 1.60504 ==> SRR5423425.se.tsv <== Potri.001G166300.v4.1 0 Potri.001G448400.v4.1 0 Potri.001G233950.v4.1 0 Potri.001G122700.v4.1 28 Potri.001G212900.v4.1 3 Potri.001G182400.v4.1 0 Potri.001G256600.v4.1 0 Potri.001G040500.v4.1 5 Potri.001G416900.v4.1 0 Potri.001G452600.v4.1 0 SRR5423425 completed mapping pipeline successfully