Starting /dee2/code/volunteer_pipeline.sh SRR5423422 current disk space = 3050712809472 free memory = 1582526624 SRR5423422 SRAfilesize 3bbdb976b65adce832d37a2eeac6da69 SRR5423422.sra SRR5423422.sra file validated SRR5423422 is single end SRR5423422 is conventional basespace SRR5423422 read1 length is 52 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5423422_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 31.821 31.0 31.0 34.0 30.0 34.0 2 31.9 33.0 31.0 34.0 30.0 34.0 3 32.01725 34.0 31.0 34.0 30.0 34.0 4 35.41275 37.0 35.0 37.0 33.0 37.0 5 35.512 37.0 35.0 37.0 33.0 37.0 6 35.5665 37.0 35.0 37.0 33.0 37.0 7 35.4555 37.0 35.0 37.0 33.0 37.0 8 35.55625 37.0 35.0 37.0 33.0 37.0 9 37.03275 39.0 37.0 39.0 33.0 39.0 10 36.999 39.0 37.0 39.0 33.0 39.0 11 36.81975 39.0 37.0 39.0 32.0 39.0 12 36.9225 39.0 37.0 39.0 33.0 39.0 13 36.8675 39.0 37.0 39.0 32.0 39.0 14 37.96975 40.0 37.0 41.0 33.0 41.0 15 37.9435 40.0 37.0 41.0 33.0 41.0 16 38.29175 40.0 37.0 41.0 34.0 41.0 17 38.33875 40.0 38.0 41.0 34.0 41.0 18 38.119 40.0 37.0 41.0 33.0 41.0 19 38.15025 40.0 38.0 41.0 33.0 41.0 20 38.2675 40.0 38.0 41.0 34.0 41.0 21 38.186 40.0 37.0 41.0 33.0 41.0 22 38.1315 40.0 37.0 41.0 33.0 41.0 23 38.1815 40.0 37.0 41.0 33.0 41.0 24 38.22275 40.0 38.0 41.0 33.0 41.0 25 38.23475 40.0 38.0 41.0 33.0 41.0 26 38.03275 40.0 37.0 41.0 33.0 41.0 27 37.97875 40.0 37.0 41.0 33.0 41.0 28 37.99725 40.0 37.0 41.0 33.0 41.0 29 38.0205 40.0 37.0 41.0 33.0 41.0 30 38.138 40.0 37.0 41.0 33.0 41.0 31 38.00425 40.0 37.0 41.0 33.0 41.0 32 38.079 40.0 38.0 41.0 33.0 41.0 33 38.03025 40.0 37.0 41.0 33.0 41.0 34 37.8165 40.0 37.0 41.0 33.0 41.0 35 37.853 40.0 37.0 41.0 33.0 41.0 36 37.556 40.0 37.0 41.0 31.0 41.0 37 37.52175 40.0 37.0 41.0 31.0 41.0 38 37.527 40.0 37.0 41.0 31.0 41.0 39 37.66875 40.0 37.0 41.0 33.0 41.0 40 37.60225 40.0 37.0 41.0 32.0 41.0 41 37.555 40.0 37.0 41.0 32.0 41.0 42 37.3075 39.0 36.0 41.0 31.0 41.0 43 37.33475 39.0 37.0 41.0 31.0 41.0 44 37.27325 39.0 36.0 41.0 31.0 41.0 45 37.076 39.0 36.0 41.0 30.0 41.0 46 37.057 39.0 36.0 41.0 30.0 41.0 47 37.026 39.0 35.0 41.0 31.0 41.0 48 36.876 39.0 35.0 41.0 31.0 41.0 49 36.898 39.0 35.0 41.0 30.0 41.0 50 36.8585 39.0 35.0 41.0 30.0 41.0 51 36.91475 39.0 35.0 41.0 31.0 41.0 52 36.0085 38.0 34.0 40.0 29.0 41.0 >>END_MODULE >>Per tile sequence quality pass #Tile Base Mean 1313 1 0.0 1313 2 0.0 1313 3 0.0 1313 4 0.0 1313 5 0.0 1313 6 0.0 1313 7 0.0 1313 8 0.0 1313 9 0.0 1313 10 0.0 1313 11 0.0 1313 12 0.0 1313 13 0.0 1313 14 0.0 1313 15 0.0 1313 16 0.0 1313 17 0.0 1313 18 0.0 1313 19 0.0 1313 20 0.0 1313 21 0.0 1313 22 0.0 1313 23 0.0 1313 24 0.0 1313 25 0.0 1313 26 0.0 1313 27 0.0 1313 28 0.0 1313 29 0.0 1313 30 0.0 1313 31 0.0 1313 32 0.0 1313 33 0.0 1313 34 0.0 1313 35 0.0 1313 36 0.0 1313 37 0.0 1313 38 0.0 1313 39 0.0 1313 40 0.0 1313 41 0.0 1313 42 0.0 1313 43 0.0 1313 44 0.0 1313 45 0.0 1313 46 0.0 1313 47 0.0 1313 48 0.0 1313 49 0.0 1313 50 0.0 1313 51 0.0 1313 52 0.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 14 1.0 15 0.0 16 0.0 17 0.0 18 0.0 19 0.0 20 1.0 21 2.0 22 3.0 23 3.0 24 7.0 25 12.0 26 17.0 27 29.0 28 37.0 29 42.0 30 71.0 31 91.0 32 121.0 33 161.0 34 187.0 35 275.0 36 333.0 37 491.0 38 731.0 39 1373.0 40 12.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 41.11751440741669 10.849411175144075 5.236782761212728 42.79629165622651 2 23.75 13.775 34.2 28.275 3 21.725 18.325 23.175 36.775000000000006 4 25.1 26.55 21.025 27.325 5 25.15 31.025000000000002 22.400000000000002 21.425 6 18.7 31.724999999999998 24.625 24.95 7 14.524999999999999 23.474999999999998 41.65 20.349999999999998 8 18.575 23.075000000000003 29.549999999999997 28.799999999999997 9 18.825 20.7 34.1 26.375 10 18.525 37.275000000000006 24.224999999999998 19.975 11 23.525 27.575 21.625 27.275 12 21.85 25.575 25.650000000000002 26.924999999999997 13 21.5 27.1 28.449999999999996 22.95 14 20.575 28.7 26.55 24.175 15 20.75 27.525 27.3 24.425 16 20.325 27.175 27.1 25.4 17 21.575 28.975 26.474999999999998 22.975 18 20.974999999999998 27.500000000000004 26.3 25.224999999999998 19 21.825 27.224999999999998 26.150000000000002 24.8 20 22.425 26.575 26.825 24.175 21 22.125 26.150000000000002 25.424999999999997 26.3 22 21.475 28.425 23.974999999999998 26.125 23 20.9 28.799999999999997 25.1 25.2 24 20.8 27.1 26.275 25.825 25 21.825 28.1 25.575 24.5 26 21.575 25.924999999999997 26.174999999999997 26.325 27 20.974999999999998 27.6 26.775 24.65 28 21.349999999999998 28.299999999999997 26.1 24.25 29 20.875 27.425 27.975 23.724999999999998 30 21.75 25.874999999999996 26.825 25.55 31 21.275 26.924999999999997 25.05 26.75 32 20.474999999999998 26.674999999999997 27.375 25.474999999999998 33 21.0 27.150000000000002 26.825 25.025 34 20.849999999999998 26.0 27.925 25.224999999999998 35 21.125 26.424999999999997 26.325 26.125 36 21.625 25.275 25.724999999999998 27.375 37 21.375 25.324999999999996 26.35 26.950000000000003 38 21.6 25.174999999999997 26.900000000000002 26.325 39 22.575 25.724999999999998 25.8 25.900000000000002 40 21.475 26.924999999999997 26.224999999999998 25.374999999999996 41 22.075 26.125 26.424999999999997 25.374999999999996 42 21.675 25.45 26.75 26.125 43 22.6 27.275 23.5 26.625 44 22.3 26.575 26.075 25.05 45 22.0 25.75 26.8 25.45 46 23.625 25.1 26.625 24.65 47 23.575 27.400000000000002 24.45 24.575 48 23.599999999999998 26.174999999999997 24.925 25.3 49 21.95 25.575 25.025 27.450000000000003 50 21.85 27.750000000000004 25.55 24.85 51 21.275 26.025 25.974999999999998 26.724999999999998 52 22.225 26.6 24.224999999999998 26.950000000000003 >>END_MODULE >>Per sequence GC content pass #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 0.5 10 1.0 11 1.5 12 2.0 13 1.5 14 1.0 15 1.0 16 2.0 17 3.0 18 2.0 19 1.0 20 6.0 21 11.0 22 11.0 23 11.0 24 11.5 25 12.0 26 14.5 27 17.0 28 24.0 29 31.0 30 41.5 31 52.0 32 58.5 33 65.0 34 91.5 35 118.0 36 136.5 37 155.0 38 177.0 39 222.0 40 245.0 41 261.5 42 278.0 43 310.5 44 343.0 45 339.5 46 336.0 47 324.5 48 313.0 49 314.5 50 316.0 51 325.0 52 334.0 53 323.5 54 313.0 55 267.5 56 222.0 57 201.0 58 180.0 59 173.0 60 166.0 61 132.5 62 99.0 63 82.5 64 54.5 65 43.0 66 39.5 67 36.0 68 24.5 69 13.0 70 8.5 71 4.0 72 6.5 73 9.0 74 5.0 75 1.0 76 1.0 77 1.0 78 1.5 79 2.0 80 1.0 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 0.22499999999999998 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 90.075 #Duplication Level Percentage of deduplicated Percentage of total 1 93.78295864557313 84.475 2 4.1354426866500145 7.449999999999999 3 0.9436580627255066 2.55 4 0.4995836802664446 1.7999999999999998 5 0.22203719122953097 1.0 6 0.19428254232583958 1.05 7 0.05550929780738274 0.35000000000000003 8 0.08326394671107411 0.6 9 0.02775464890369137 0.22499999999999998 >10 0.05550929780738274 0.5 >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 GTCCCTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAAC 10 0.25 No Hit CGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGC 10 0.25 No Hit GGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCGA 9 0.22499999999999998 No Hit GTCGCGTATTTAAGTCGTCTGCAAAGGATTCTACCCGCCGCTCGGTGGGAAT 8 0.2 No Hit GGGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCG 8 0.2 No Hit CCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACT 8 0.2 No Hit GGGCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAGAT 7 0.17500000000000002 No Hit GCCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTAC 7 0.17500000000000002 No Hit GATCAAACTAGAGGTTACCAAAGAACCATGCATAGCACTGAATAGGGAGCCG 6 0.15 No Hit CTGCAAAGGATTCTACCCGCCGCTCGGTGGGAATTGTACTTCAAGGCGGCCC 6 0.15 No Hit GTAGAAGATTCAGCAGCTACTGCGGCCCCTGCTTCCTCGGGCGGAACTCCAG 6 0.15 No Hit GTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCC 6 0.15 No Hit CCGTCGCGTATTTAAGTCGTCTGCAAAGGATTCTACCCGCCGCTCGGTGGGA 6 0.15 No Hit AGCACGGTTAATAATATCAGCCCAGGTATTAATTACACGACCTTGACTATCA 6 0.15 No Hit CTCAGCCTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGAGGC 6 0.15 No Hit CGCAGAAGTAGGAATAATGGCACCAGAAATGATATTGTTTCCATAAAGTAGA 5 0.125 No Hit CCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCCCT 5 0.125 No Hit CTCGGGTCCTAGAAGTGCATGATAAATACCGCCAAAGCCCAATACTGCAGAG 5 0.125 No Hit GTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCG 5 0.125 No Hit CTCATAAGGACCGCCGTTGTATAACCATTCATCAACGGATGCCGCTTCCCAT 5 0.125 No Hit CTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAACGGCA 5 0.125 No Hit ATCAAACTAGAGGTTACCAAAGAACCATGCATAGCACTGAATAGGGAGCCGC 5 0.125 No Hit GTCGTCTGCAAAGGATTCTACCCGCCGCTCGGTGGGAATTGTACTTCAAGGC 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 0.025 0.0 0.0 0.0 0.0 27 0.025 0.0 0.0 0.0 0.0 28 0.025 0.0 0.0 0.0 0.0 29 0.025 0.0 0.0 0.0 0.0 30 0.025 0.0 0.0 0.0 0.0 31 0.025 0.0 0.0 0.0 0.0 32 0.025 0.0 0.0 0.0 0.0 33 0.025 0.0 0.0 0.0 0.0 34 0.025 0.0 0.0 0.0 0.0 35 0.025 0.0 0.0 0.0 0.0 36 0.025 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 SRR5423422.sra Written 200000 spots for SRR5423422.sra Read 200000 spots for SRR5423422.sra Written 200000 spots for SRR5423422.sra Read 200000 spots for SRR5423422.sra Written 200000 spots for SRR5423422.sra Read 200000 spots for SRR5423422.sra Written 200000 spots for SRR5423422.sra Read 200000 spots for SRR5423422.sra Written 200000 spots for SRR5423422.sra Read 200000 spots for SRR5423422.sra Written 200000 spots for SRR5423422.sra Read 200000 spots for SRR5423422.sra Written 200000 spots for SRR5423422.sra Read 200000 spots for SRR5423422.sra Written 200000 spots for SRR5423422.sra Read 200000 spots for SRR5423422.sra Written 200000 spots for SRR5423422.sra Read 200000 spots for SRR5423422.sra Written 200000 spots for SRR5423422.sra Read 200000 spots for SRR5423422.sra Written 200000 spots for SRR5423422.sra Read 200000 spots for SRR5423422.sra Written 200000 spots for SRR5423422.sra Read 200000 spots for SRR5423422.sra Written 200000 spots for SRR5423422.sra Read 200000 spots for SRR5423422.sra Written 200000 spots for SRR5423422.sra Read 200000 spots for SRR5423422.sra Written 200000 spots for SRR5423422.sra Read 200000 spots for SRR5423422.sra Written 200000 spots for SRR5423422.sra Read 200000 spots for SRR5423422.sra Written 200000 spots for SRR5423422.sra Read 200000 spots for SRR5423422.sra Written 200000 spots for SRR5423422.sra Read 200000 spots for SRR5423422.sra Written 200000 spots for SRR5423422.sra Read 200000 spots for SRR5423422.sra Written 200000 spots for SRR5423422.sra SRR ids: ['SRR5423422.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_9c9ru1g5 SRR5423422.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]] SRR5423422 file size 703948 SRR5423422 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 SRR5423422 SRR5423422_1.fastq Input file: SRR5423422_1.fastq trimmed: SRR5423422-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 10:11:25 2025 >> started Wed Feb 12 10:11:28 2025 >> done (2.794s) 4000000 reads processed; of these: 169 ( 0.00%) short reads filtered out after trimming by size control 81 ( 0.00%) empty reads filtered out after trimming by size control 3999750 (99.99%) reads available; of these: 79772 ( 1.99%) trimmed reads available after processing 3919978 (98.01%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 12 0.00% 19 4 0.00% 20 5 0.00% 21 1 0.00% 22 1 0.00% 23 1 0.00% 24 0 0.00% 25 1 0.00% 26 4 0.00% 27 2 0.00% 28 4 0.00% 29 4 0.00% 30 5 0.00% 31 10 0.00% 32 7 0.00% 33 11 0.00% 34 16 0.00% 35 11 0.00% 36 27 0.00% 37 27 0.00% 38 30 0.00% 39 57 0.00% 40 54 0.00% 41 75 0.00% 42 103 0.00% 43 122 0.00% 44 284 0.01% 45 409 0.01% 46 520 0.01% 47 776 0.02% 48 1459 0.04% 49 3226 0.08% 50 9840 0.25% 51 62664 1.57% 52 3919978 98.01% 3999750 reads passed initial QC criterion=sequence-density sequence-density=0.47 sequence-density-rank=1 fanout-score=1.99 fanout-score-rank=28 prefix-density=0.47 prefix-fanout=2.0 sequence=TGCTTAATGACCGCATGTGCAGGTAGTGCAAGTGCAGCCAGTACCGCAGTTGCACTTGCCATCGTTCTCAGCTGCTGGCACCTCCATGAC criterion=fanout-score sequence-density=0.01 sequence-density-rank=30 fanout-score=25.59 fanout-score-rank=1 prefix-density=0.30 prefix-fanout=1.2 sequence=CATTTTATTTCTATCTTTCCATACATAACCAAAAAATGGAAAAGATTCTTCAAGAGTCTCGGGTCCTAGAAGTGCATGATAAATACCGCCAAAGCCCAATACTGCAGAGGAAATTAAGTGAAGTACGCCAGATACAAAGTATGGAAAGGTGTCTATGACTTCCCCGCCAGGACCCACCCCCCAACCTAGAGTAGCTAGGTGGGGAAGTAAAATTAATCCTTGTTCATACATTGGCTTCTCCGGTACGAAATGGGCCACTTCAAATAGGTTCATTGCTCCGGCCCAGAATACGATTAATCCAGCATGGGCTACATGAGCTCCCAGCAG Started job on | Feb 12 10:11:40 Started mapping on | Feb 12 10:11:40 Finished on | Feb 12 10:11:46 Mapping speed, Million of reads per hour | 2399.85 Number of input reads | 3999750 Average input read length | 51 UNIQUE READS: Uniquely mapped reads number | 3136575 Uniquely mapped reads % | 78.42% Average mapped length | 51.79 Number of splices: Total | 288721 Number of splices: Annotated (sjdb) | 284221 Number of splices: GT/AG | 282082 Number of splices: GC/AG | 5366 Number of splices: AT/AC | 784 Number of splices: Non-canonical | 489 Mismatch rate per base, % | 0.34% Deletion rate per base | 0.01% Deletion average length | 2.23 Insertion rate per base | 0.00% Insertion average length | 1.37 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 710181 % of reads mapped to multiple loci | 17.76% Number of reads mapped to too many loci | 83111 % of reads mapped to too many loci | 2.08% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.74% % of reads unmapped: other | 0.01% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 152994 152994 152994 N_multimapping 710181 710181 710181 N_noFeature 395362 3091317 429323 N_ambiguous 21928 174 10475 UnstrandedReadsAssigned:2719285 PositiveStrandReadsAssigned:45084 NegativeStrandReadsAssigned:2696777 Dataset is classified negative stranded MeadianReadLen=52 20thPercentileLength=52 echo kmer=47 SRR5423422 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: SRR5423422-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 3,999,750 reads, 3,282,391 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,110 rounds 52401 SRR5423422.ke.tsv 34699 SRR5423422.se.tsv 87100 total ==> SRR5423422.ke.tsv <== target_id length eff_length est_counts tpm Potri.005G200100.1.v4.1 2018 1919 121 17.6537 Potri.005G024800.1.v4.1 1035 936 13 3.88859 Potri.004G059700.1.v4.1 961 862 9 2.92321 Potri.007G009000.2.v4.1 1416 1317 0 0 Potri.003G141000.2.v4.1 2943 2844 54.3196 5.34751 Potri.016G087400.1.v4.1 270 171 17 27.8341 Potri.015G069301.1.v4.1 564 465 0 0 Potri.010G195200.1.v4.1 1773 1674 1.30499 0.218262 Potri.012G127500.1.v4.1 977 878 9 2.86994 ==> SRR5423422.se.tsv <== Potri.001G166300.v4.1 0 Potri.001G448400.v4.1 1 Potri.001G233950.v4.1 0 Potri.001G122700.v4.1 32 Potri.001G212900.v4.1 2 Potri.001G182400.v4.1 0 Potri.001G256600.v4.1 0 Potri.001G040500.v4.1 1 Potri.001G416900.v4.1 0 Potri.001G452600.v4.1 1 SRR5423422 completed mapping pipeline successfully