Starting /dee2/code/volunteer_pipeline.sh SRR5423430 current disk space = 3051306213376 free memory = 1572113948 SRR5423430 SRAfilesize 164a7d00eb255d9d2f46aef5b0c51df2 SRR5423430.sra SRR5423430.sra file validated SRR5423430 is single end SRR5423430 is conventional basespace SRR5423430 read1 length is 52 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5423430_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 32.33925 34.0 31.0 34.0 30.0 34.0 2 32.5175 34.0 31.0 34.0 30.0 34.0 3 32.5155 34.0 31.0 34.0 30.0 34.0 4 35.9005 37.0 35.0 37.0 35.0 37.0 5 36.04225 37.0 35.0 37.0 35.0 37.0 6 35.91925 37.0 35.0 37.0 35.0 37.0 7 35.95875 37.0 35.0 37.0 35.0 37.0 8 35.9465 37.0 35.0 37.0 35.0 37.0 9 37.8145 39.0 38.0 39.0 35.0 39.0 10 37.64875 39.0 37.0 39.0 35.0 39.0 11 37.5625 39.0 37.0 39.0 35.0 39.0 12 37.65225 39.0 37.0 39.0 35.0 39.0 13 37.591 39.0 37.0 39.0 35.0 39.0 14 38.948 40.0 38.0 41.0 36.0 41.0 15 38.948 40.0 38.0 41.0 35.0 41.0 16 38.98675 40.0 38.0 41.0 36.0 41.0 17 39.00825 40.0 38.0 41.0 36.0 41.0 18 38.969 40.0 38.0 41.0 35.0 41.0 19 38.99875 40.0 39.0 41.0 35.0 41.0 20 38.9075 40.0 38.0 41.0 34.0 41.0 21 38.8585 40.0 38.0 41.0 35.0 41.0 22 38.7485 40.0 38.0 41.0 34.0 41.0 23 38.73125 40.0 38.0 41.0 34.0 41.0 24 38.69175 40.0 38.0 41.0 34.0 41.0 25 38.59275 40.0 38.0 41.0 34.0 41.0 26 38.56275 40.0 38.0 41.0 34.0 41.0 27 38.489 40.0 38.0 41.0 34.0 41.0 28 38.27025 40.0 38.0 41.0 33.0 41.0 29 38.3155 40.0 38.0 41.0 34.0 41.0 30 38.16125 40.0 38.0 41.0 33.0 41.0 31 38.0635 40.0 38.0 41.0 33.0 41.0 32 37.7875 40.0 38.0 41.0 32.0 41.0 33 37.73475 40.0 38.0 41.0 32.0 41.0 34 38.0115 40.0 38.0 41.0 33.0 41.0 35 37.97325 40.0 38.0 41.0 33.0 41.0 36 37.46525 40.0 37.0 41.0 31.0 41.0 37 37.65825 40.0 37.0 41.0 32.0 41.0 38 37.66175 40.0 37.0 41.0 32.0 41.0 39 37.5355 40.0 37.0 41.0 31.0 41.0 40 37.63325 40.0 37.0 41.0 32.0 41.0 41 37.64275 40.0 37.0 41.0 32.0 41.0 42 37.281 40.0 37.0 41.0 31.0 41.0 43 37.18725 40.0 37.0 41.0 30.0 41.0 44 37.05525 40.0 37.0 41.0 30.0 41.0 45 37.08875 40.0 37.0 41.0 30.0 41.0 46 37.10875 40.0 37.0 41.0 31.0 41.0 47 36.936 40.0 36.0 41.0 30.0 41.0 48 36.8795 40.0 36.0 41.0 30.0 41.0 49 36.62225 40.0 36.0 41.0 29.0 41.0 50 36.4065 39.0 35.0 41.0 28.0 41.0 51 36.35 39.0 36.0 41.0 28.0 41.0 52 34.4315 38.0 33.0 40.0 23.0 41.0 >>END_MODULE >>Per tile sequence quality pass #Tile Base Mean 1301 1 0.0 1301 2 0.0 1301 3 0.0 1301 4 0.0 1301 5 0.0 1301 6 0.0 1301 7 0.0 1301 8 0.0 1301 9 0.0 1301 10 0.0 1301 11 0.0 1301 12 0.0 1301 13 0.0 1301 14 0.0 1301 15 0.0 1301 16 0.0 1301 17 0.0 1301 18 0.0 1301 19 0.0 1301 20 0.0 1301 21 0.0 1301 22 0.0 1301 23 0.0 1301 24 0.0 1301 25 0.0 1301 26 0.0 1301 27 0.0 1301 28 0.0 1301 29 0.0 1301 30 0.0 1301 31 0.0 1301 32 0.0 1301 33 0.0 1301 34 0.0 1301 35 0.0 1301 36 0.0 1301 37 0.0 1301 38 0.0 1301 39 0.0 1301 40 0.0 1301 41 0.0 1301 42 0.0 1301 43 0.0 1301 44 0.0 1301 45 0.0 1301 46 0.0 1301 47 0.0 1301 48 0.0 1301 49 0.0 1301 50 0.0 1301 51 0.0 1301 52 0.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 19 2.0 20 1.0 21 1.0 22 6.0 23 10.0 24 12.0 25 10.0 26 26.0 27 32.0 28 35.0 29 37.0 30 53.0 31 87.0 32 98.0 33 113.0 34 178.0 35 191.0 36 284.0 37 407.0 38 700.0 39 1716.0 40 1.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 39.73973973973974 10.86086086086086 4.754754754754755 44.64464464464464 2 24.2 12.950000000000001 35.05 27.800000000000004 3 22.475 17.075000000000003 23.549999999999997 36.9 4 25.8 25.1 21.275 27.825 5 25.15 30.8 22.875 21.175 6 19.025 33.125 23.674999999999997 24.175 7 15.4 23.849999999999998 40.325 20.424999999999997 8 18.224999999999998 23.075000000000003 30.175 28.525 9 17.525 21.7 33.6 27.175 10 18.175 38.324999999999996 24.05 19.45 11 23.025000000000002 28.025 21.8 27.150000000000002 12 21.775 24.275 26.674999999999997 27.275 13 20.325 27.925 27.975 23.775 14 19.725 28.9 26.650000000000002 24.725 15 20.7 26.525 27.650000000000002 25.124999999999996 16 21.224999999999998 28.225 26.275 24.275 17 22.275 26.8 25.8 25.124999999999996 18 20.65 26.375 25.3 27.675 19 21.05 27.6 25.324999999999996 26.025 20 22.375 26.0 25.35 26.275 21 20.674999999999997 27.450000000000003 26.575 25.3 22 21.5 27.85 24.6 26.05 23 20.9 28.4 25.324999999999996 25.374999999999996 24 21.675 27.0 26.974999999999998 24.349999999999998 25 21.875 27.650000000000002 25.4 25.074999999999996 26 22.45 26.900000000000002 26.650000000000002 24.0 27 21.2 27.175 26.025 25.6 28 21.45 28.575 25.275 24.7 29 21.25 27.900000000000002 26.450000000000003 24.4 30 21.3 25.900000000000002 26.224999999999998 26.575 31 21.275 28.349999999999998 26.150000000000002 24.224999999999998 32 21.2 27.775 27.175 23.849999999999998 33 20.549999999999997 27.425 26.3 25.724999999999998 34 21.349999999999998 27.925 25.75 24.975 35 20.849999999999998 26.3 25.724999999999998 27.125 36 22.1 26.474999999999998 24.2 27.224999999999998 37 20.849999999999998 26.700000000000003 25.924999999999997 26.525 38 21.9 26.200000000000003 26.450000000000003 25.45 39 20.375 25.5 26.974999999999998 27.150000000000002 40 21.7 26.825 25.525 25.95 41 22.95 26.900000000000002 25.474999999999998 24.675 42 21.95 25.15 27.425 25.474999999999998 43 21.75 26.075 25.874999999999996 26.3 44 21.95 28.075 24.925 25.05 45 22.35 25.124999999999996 25.924999999999997 26.6 46 23.674999999999997 25.900000000000002 25.074999999999996 25.35 47 23.305826456614152 26.481620405101275 25.55638909727432 24.656164041010253 48 22.925 26.924999999999997 24.15 26.0 49 22.25 26.924999999999997 24.7 26.125 50 23.05 26.275 25.1 25.575 51 23.25 25.924999999999997 23.974999999999998 26.85 52 23.1 26.3 25.900000000000002 24.7 >>END_MODULE >>Per sequence GC content fail #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 0.5 15 1.0 16 0.5 17 0.0 18 1.5 19 3.0 20 3.5 21 4.0 22 6.0 23 8.0 24 10.5 25 13.0 26 11.5 27 10.0 28 24.0 29 38.0 30 42.0 31 46.0 32 61.0 33 76.0 34 92.0 35 108.0 36 132.0 37 156.0 38 192.0 39 239.0 40 250.0 41 249.0 42 248.0 43 280.0 44 312.0 45 326.5 46 341.0 47 331.5 48 322.0 49 323.0 50 324.0 51 344.5 52 365.0 53 347.5 54 330.0 55 281.5 56 233.0 57 201.5 58 170.0 59 155.0 60 140.0 61 122.0 62 104.0 63 81.0 64 49.0 65 40.0 66 37.5 67 35.0 68 23.0 69 11.0 70 12.0 71 13.0 72 9.0 73 5.0 74 4.0 75 3.0 76 2.0 77 1.0 78 2.0 79 3.0 80 1.5 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 0.5 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 0.1 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 89.725 #Duplication Level Percentage of deduplicated Percentage of total 1 94.28810253552523 84.6 2 3.3435497353023127 6.0 3 1.1145165784341042 3.0 4 0.4736695458344943 1.7000000000000002 5 0.27862914460852606 1.25 6 0.30649205906937865 1.6500000000000001 7 0.05572582892170522 0.35000000000000003 8 0.05572582892170522 0.4 9 0.0 0.0 >10 0.08358874338255781 1.05 >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 19 0.475 No Hit GGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCGA 13 0.325 No Hit GCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAGATCA 10 0.25 No Hit CCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACT 8 0.2 No Hit ATCAAACTAGAGGTTACCAAAGAACCATGCATAGCACTGAATAGGGAGCCGC 8 0.2 No Hit CTCCAGCAACGGGCTCGATGTCGTAGCATCGTCCCTTATAACGATCAAGACT 7 0.17500000000000002 No Hit CTCAGCCTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGAGGC 7 0.17500000000000002 No Hit CGCAGAAGTAGGAATAATGGCACCAGAAATGATATTGTTTCCATAAAGTAGA 6 0.15 No Hit GTCCCTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAAC 6 0.15 No Hit CAGGGCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAG 6 0.15 No Hit GATCAAACTAGAGGTTACCAAAGAACCATGCATAGCACTGAATAGGGAGCCG 6 0.15 No Hit CGCGTATTTAAGTCGTCTGCAAAGGATTCTACCCGCCGCTCGGTGGGAATTG 6 0.15 No Hit GTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCG 6 0.15 No Hit CCCTGATCAAACTAGAGGTTACCAAAGAACCATGCATAGCACTGAATAGGGA 6 0.15 No Hit CTCTTGACCAAATCTGTAACCTTCATTAGCAGATTCATTTTCTGTGGTTTCC 6 0.15 No Hit CTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAACGGCA 6 0.15 No Hit GTGCATAAGGATGTTGTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTA 6 0.15 No Hit GTCGTCTGCAAAGGATTCTACCCGCCGCTCGGTGGGAATTGTACTTCAAGGC 6 0.15 No Hit GCCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTAC 5 0.125 No Hit CACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCCCTG 5 0.125 No Hit CCATACTTCACAAGCAGCAGCTAGTTCAGGGCTCCATTTGCTAGCTTCACGG 5 0.125 No Hit CTGCAAAGGATTCTACCCGCCGCTCGGTGGGAATTGTACTTCAAGGCGGCCC 5 0.125 No Hit CCCGAAGCCACGGGTAGAACACCCGGTAGAGAGACCCAATCTTGAGTGAAAT 5 0.125 No Hit CCAGCAACGGGCTCGATGTCGTAGCATCGTCCCTTATAACGATCAAGACTGG 5 0.125 No Hit CACGGTTAATAATATCAGCCCAGGTATTAATTACACGACCTTGACTATCAAC 5 0.125 No Hit CTCGTACACACTAAGAAAAAAGCCTTATCCATTTACAAAAGTCTTATCCATT 5 0.125 No Hit GTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCC 5 0.125 No Hit CTCTGCCTCGGGTTGTCTCGCGATACCTTCTACAGCTTGGCCCGCAGCAGTA 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 SRR5423430.sra Written 200000 spots for SRR5423430.sra Read 200000 spots for SRR5423430.sra Written 200000 spots for SRR5423430.sra Read 200000 spots for SRR5423430.sra Written 200000 spots for SRR5423430.sra Read 200000 spots for SRR5423430.sra Written 200000 spots for SRR5423430.sra Read 200000 spots for SRR5423430.sra Written 200000 spots for SRR5423430.sra Read 200000 spots for SRR5423430.sra Written 200000 spots for SRR5423430.sra Read 200000 spots for SRR5423430.sra Written 200000 spots for SRR5423430.sra Read 200000 spots for SRR5423430.sra Written 200000 spots for SRR5423430.sra Read 200000 spots for SRR5423430.sra Written 200000 spots for SRR5423430.sra Read 200000 spots for SRR5423430.sra Written 200000 spots for SRR5423430.sra Read 200000 spots for SRR5423430.sra Written 200000 spots for SRR5423430.sra Read 200000 spots for SRR5423430.sra Written 200000 spots for SRR5423430.sra Read 200000 spots for SRR5423430.sra Written 200000 spots for SRR5423430.sra Read 200000 spots for SRR5423430.sra Written 200000 spots for SRR5423430.sra Read 200000 spots for SRR5423430.sra Written 200000 spots for SRR5423430.sra Read 200000 spots for SRR5423430.sra Written 200000 spots for SRR5423430.sra Read 200000 spots for SRR5423430.sra Written 200000 spots for SRR5423430.sra Read 200000 spots for SRR5423430.sra Written 200000 spots for SRR5423430.sra Read 200000 spots for SRR5423430.sra Written 200000 spots for SRR5423430.sra Read 200000 spots for SRR5423430.sra Written 200000 spots for SRR5423430.sra SRR ids: ['SRR5423430.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_fg_abrxb SRR5423430.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]] SRR5423430 file size 703953 SRR5423430 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 SRR5423430 SRR5423430_1.fastq Input file: SRR5423430_1.fastq trimmed: SRR5423430-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 11:15:13 2025 >> started Wed Feb 12 11:15:15 2025 >> done (1.879s) 4000000 reads processed; of these: 135 ( 0.00%) short reads filtered out after trimming by size control 79 ( 0.00%) empty reads filtered out after trimming by size control 3999786 (99.99%) reads available; of these: 93266 ( 2.33%) trimmed reads available after processing 3906520 (97.67%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 13 0.00% 19 6 0.00% 20 5 0.00% 21 4 0.00% 22 3 0.00% 23 3 0.00% 24 1 0.00% 25 3 0.00% 26 8 0.00% 27 5 0.00% 28 5 0.00% 29 5 0.00% 30 5 0.00% 31 10 0.00% 32 14 0.00% 33 16 0.00% 34 13 0.00% 35 26 0.00% 36 23 0.00% 37 33 0.00% 38 47 0.00% 39 67 0.00% 40 81 0.00% 41 100 0.00% 42 128 0.00% 43 173 0.00% 44 349 0.01% 45 440 0.01% 46 579 0.01% 47 865 0.02% 48 1691 0.04% 49 4162 0.10% 50 11371 0.28% 51 73012 1.83% 52 3906520 97.67% 3999786 reads passed initial QC criterion=sequence-density sequence-density=0.46 sequence-density-rank=1 fanout-score=2.00 fanout-score-rank=34 prefix-density=0.47 prefix-fanout=2.0 sequence=TGCTTAATGACCGCATGTGCAGGTAGTGCAAGTGCAGCCAGTACCGCAGTTGCACTTGCCATCGTTCTCAGCTGCTGGCACCTCCATGAC criterion=fanout-score sequence-density=0.02 sequence-density-rank=30 fanout-score=22.29 fanout-score-rank=1 prefix-density=0.31 prefix-fanout=1.2 sequence=CATTTTATTTCTATCTTTCCATACATAACCAAAAAATGGAAAAGATTCTTCAAGAGTCTCGGGTCCTAGAAGTGCATGATAAATACCGCCAAAGCCCAATACTGCAGAGGAAATTAAGTGAAGTACGCCAGATACAAAGTATGGAAAGGTGTCTATGACTTCCCCGCCAGGACCCACCCCCCAACCTAGAGTAGCTAGGTGGGGAAGTAAAATTAATCCTTGTTCATACATTGGCTTCTCCGGTACGAAATGGGCCACTTCAAATAGGTTCATTGCTCCGGCCCAGAATACGATTAATCCAGCATGGGCTACATGAGCTCCCAGCAG Started job on | Feb 12 11:15:25 Started mapping on | Feb 12 11:15:25 Finished on | Feb 12 11:15:30 Mapping speed, Million of reads per hour | 2879.85 Number of input reads | 3999786 Average input read length | 51 UNIQUE READS: Uniquely mapped reads number | 3136027 Uniquely mapped reads % | 78.40% Average mapped length | 51.79 Number of splices: Total | 288529 Number of splices: Annotated (sjdb) | 284004 Number of splices: GT/AG | 281991 Number of splices: GC/AG | 5317 Number of splices: AT/AC | 737 Number of splices: Non-canonical | 484 Mismatch rate per base, % | 0.32% Deletion rate per base | 0.01% Deletion average length | 2.23 Insertion rate per base | 0.00% Insertion average length | 1.38 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 711888 % of reads mapped to multiple loci | 17.80% Number of reads mapped to too many loci | 82186 % of reads mapped to too many loci | 2.05% 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 151871 151871 151871 N_multimapping 711888 711888 711888 N_noFeature 394947 3090874 428752 N_ambiguous 22046 169 10543 UnstrandedReadsAssigned:2719034 PositiveStrandReadsAssigned:44984 NegativeStrandReadsAssigned:2696732 Dataset is classified negative stranded MeadianReadLen=52 20thPercentileLength=52 echo kmer=47 SRR5423430 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: SRR5423430-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 3,999,786 reads, 3,283,316 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,140 rounds 52401 SRR5423430.ke.tsv 34699 SRR5423430.se.tsv 87100 total ==> SRR5423430.ke.tsv <== target_id length eff_length est_counts tpm Potri.005G200100.1.v4.1 2018 1919 125 18.2999 Potri.005G024800.1.v4.1 1035 936 13 3.90194 Potri.004G059700.1.v4.1 961 862 1 0.325916 Potri.007G009000.2.v4.1 1416 1317 0 0 Potri.003G141000.2.v4.1 2943 2844 54.7041 5.40385 Potri.016G087400.1.v4.1 270 171 20 32.8584 Potri.015G069301.1.v4.1 564 465 0 0 Potri.010G195200.1.v4.1 1773 1674 2 0.335651 Potri.012G127500.1.v4.1 977 878 3 0.959931 ==> SRR5423430.se.tsv <== Potri.001G166300.v4.1 0 Potri.001G448400.v4.1 1 Potri.001G233950.v4.1 0 Potri.001G122700.v4.1 26 Potri.001G212900.v4.1 5 Potri.001G182400.v4.1 0 Potri.001G256600.v4.1 0 Potri.001G040500.v4.1 2 Potri.001G416900.v4.1 0 Potri.001G452600.v4.1 0 SRR5423430 completed mapping pipeline successfully