Starting /dee2/code/volunteer_pipeline.sh SRR5423407 current disk space = 3052988174336 free memory = 1485027696 SRR5423407 SRAfilesize 28dd2b5c2af9d8f2a8a672c93e22614f SRR5423407.sra SRR5423407.sra file validated SRR5423407 is single end SRR5423407 is conventional basespace SRR5423407 read1 length is 52 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5423407_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 30.17475 31.0 28.0 34.0 25.0 34.0 2 31.39825 31.0 30.0 34.0 28.0 34.0 3 31.78825 31.0 31.0 34.0 30.0 34.0 4 35.55625 37.0 35.0 37.0 33.0 37.0 5 31.16275 35.0 26.0 37.0 19.0 37.0 6 32.28625 35.0 31.0 37.0 17.0 37.0 7 34.5345 35.0 33.0 37.0 31.0 37.0 8 35.23725 35.0 35.0 37.0 33.0 37.0 9 37.2365 39.0 37.0 39.0 34.0 39.0 10 37.20575 39.0 37.0 39.0 34.0 39.0 11 37.17125 39.0 37.0 39.0 33.0 39.0 12 37.27475 39.0 37.0 39.0 34.0 39.0 13 37.108 39.0 37.0 39.0 33.0 39.0 14 38.46675 40.0 38.0 41.0 33.0 41.0 15 38.439 40.0 38.0 41.0 33.0 41.0 16 38.4475 40.0 38.0 41.0 34.0 41.0 17 38.4455 40.0 38.0 41.0 34.0 41.0 18 38.403 40.0 38.0 41.0 34.0 41.0 19 38.37625 40.0 38.0 41.0 34.0 41.0 20 38.4875 40.0 38.0 41.0 34.0 41.0 21 38.42625 40.0 38.0 41.0 34.0 41.0 22 38.5265 40.0 38.0 41.0 34.0 41.0 23 38.452 40.0 38.0 41.0 34.0 41.0 24 38.42675 40.0 38.0 41.0 34.0 41.0 25 38.516 40.0 38.0 41.0 34.0 41.0 26 38.32075 40.0 38.0 41.0 34.0 41.0 27 38.232 40.0 38.0 41.0 33.0 41.0 28 38.27425 40.0 38.0 41.0 34.0 41.0 29 38.328 40.0 38.0 41.0 34.0 41.0 30 38.36425 40.0 38.0 41.0 34.0 41.0 31 38.148 40.0 38.0 41.0 33.0 41.0 32 38.232 40.0 38.0 41.0 34.0 41.0 33 38.275 40.0 38.0 41.0 34.0 41.0 34 38.2295 40.0 38.0 41.0 34.0 41.0 35 38.1555 40.0 38.0 41.0 34.0 41.0 36 37.99625 40.0 37.0 41.0 33.0 41.0 37 37.97 40.0 38.0 41.0 33.0 41.0 38 37.98275 40.0 37.0 41.0 33.0 41.0 39 37.6955 40.0 37.0 41.0 32.0 41.0 40 37.6195 40.0 37.0 41.0 32.0 41.0 41 37.687 40.0 37.0 41.0 32.0 41.0 42 37.72025 40.0 37.0 41.0 33.0 41.0 43 37.7685 40.0 37.0 41.0 33.0 41.0 44 37.68925 40.0 37.0 41.0 32.0 41.0 45 37.518 40.0 36.0 41.0 32.0 41.0 46 37.571 40.0 37.0 41.0 32.0 41.0 47 37.3345 40.0 36.0 41.0 31.0 41.0 48 37.235 39.0 36.0 41.0 31.0 41.0 49 36.911 39.0 36.0 41.0 30.0 41.0 50 37.06175 39.0 36.0 41.0 31.0 41.0 51 37.15325 39.0 36.0 41.0 31.0 41.0 52 36.43625 38.0 35.0 40.0 30.0 41.0 >>END_MODULE >>Per tile sequence quality pass #Tile Base Mean 2311 1 0.0 2311 2 0.0 2311 3 0.0 2311 4 0.0 2311 5 0.0 2311 6 0.0 2311 7 0.0 2311 8 0.0 2311 9 0.0 2311 10 0.0 2311 11 0.0 2311 12 0.0 2311 13 0.0 2311 14 0.0 2311 15 0.0 2311 16 0.0 2311 17 0.0 2311 18 0.0 2311 19 0.0 2311 20 0.0 2311 21 0.0 2311 22 0.0 2311 23 0.0 2311 24 0.0 2311 25 0.0 2311 26 0.0 2311 27 0.0 2311 28 0.0 2311 29 0.0 2311 30 0.0 2311 31 0.0 2311 32 0.0 2311 33 0.0 2311 34 0.0 2311 35 0.0 2311 36 0.0 2311 37 0.0 2311 38 0.0 2311 39 0.0 2311 40 0.0 2311 41 0.0 2311 42 0.0 2311 43 0.0 2311 44 0.0 2311 45 0.0 2311 46 0.0 2311 47 0.0 2311 48 0.0 2311 49 0.0 2311 50 0.0 2311 51 0.0 2311 52 0.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 13 1.0 14 0.0 15 0.0 16 0.0 17 1.0 18 0.0 19 0.0 20 0.0 21 0.0 22 1.0 23 4.0 24 6.0 25 8.0 26 15.0 27 28.0 28 23.0 29 39.0 30 66.0 31 97.0 32 124.0 33 135.0 34 188.0 35 266.0 36 376.0 37 516.0 38 937.0 39 1166.0 40 3.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 30.965482741370685 9.729864932466233 6.903451725862932 52.40120060030014 2 22.35 14.35 35.575 27.725 3 21.85 16.75 23.200000000000003 38.2 4 25.174999999999997 24.75 20.65 29.425 5 36.65 24.95 21.425 16.975 6 20.45 32.675 25.874999999999996 21.0 7 15.15 23.549999999999997 41.449999999999996 19.85 8 18.35 23.724999999999998 29.2 28.725 9 18.675 21.6 34.125 25.6 10 19.85 37.275000000000006 23.25 19.625 11 23.875 28.1 21.075 26.950000000000003 12 21.45 25.85 25.724999999999998 26.974999999999998 13 19.7 27.975 27.6 24.725 14 20.775 28.425 25.85 24.95 15 20.549999999999997 25.85 28.95 24.65 16 20.65 28.599999999999998 25.324999999999996 25.424999999999997 17 21.525 27.125 26.775 24.575 18 20.625 27.500000000000004 26.900000000000002 24.975 19 20.95 27.525 26.3 25.224999999999998 20 21.305326331582897 26.831707926981746 26.756689172293076 25.10627656914228 21 21.325 27.800000000000004 25.35 25.525 22 21.475 27.625 25.3 25.6 23 20.674999999999997 28.775000000000002 25.900000000000002 24.65 24 21.425 28.199999999999996 25.900000000000002 24.474999999999998 25 21.25 27.05 25.15 26.55 26 22.1 26.325 27.3 24.275 27 20.925 26.424999999999997 27.224999999999998 25.424999999999997 28 21.45 26.974999999999998 27.224999999999998 24.349999999999998 29 20.95 27.925 26.775 24.349999999999998 30 20.125 25.2 27.800000000000004 26.875 31 21.2 27.1 26.575 25.124999999999996 32 19.3 30.025000000000002 25.7 24.975 33 20.775 26.525 27.224999999999998 25.474999999999998 34 21.025 26.700000000000003 27.05 25.224999999999998 35 21.875 25.900000000000002 25.650000000000002 26.575 36 20.25 27.35 26.0 26.400000000000002 37 21.95 25.900000000000002 25.05 27.1 38 22.0 25.85 25.8 26.35 39 21.2 25.974999999999998 26.1 26.724999999999998 40 20.95 27.85 24.85 26.35 41 22.6 27.150000000000002 23.9 26.35 42 21.349999999999998 26.3 26.125 26.224999999999998 43 21.575 26.900000000000002 25.1 26.424999999999997 44 22.6 28.075 25.95 23.375 45 22.400000000000002 26.075 26.275 25.25 46 23.45 27.200000000000003 23.599999999999998 25.75 47 22.275 29.099999999999998 25.275 23.35 48 21.55 26.450000000000003 25.3 26.700000000000003 49 21.775 26.474999999999998 25.724999999999998 26.025 50 22.35 28.249999999999996 24.125 25.275 51 22.275 26.325 26.0 25.4 52 21.525 26.424999999999997 25.724999999999998 26.325 >>END_MODULE >>Per sequence GC content warn #GC Content Count 0 1.0 1 0.5 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 0.5 12 0.0 13 0.0 14 1.0 15 2.0 16 1.5 17 1.0 18 5.0 19 9.0 20 6.5 21 4.0 22 9.0 23 14.0 24 14.0 25 14.0 26 14.5 27 15.0 28 27.0 29 39.0 30 37.0 31 35.0 32 63.0 33 91.0 34 95.0 35 99.0 36 122.0 37 145.0 38 170.5 39 224.0 40 252.0 41 263.0 42 274.0 43 287.0 44 300.0 45 336.5 46 373.0 47 355.0 48 337.0 49 333.0 50 329.0 51 329.0 52 329.0 53 329.5 54 330.0 55 288.5 56 247.0 57 202.0 58 157.0 59 152.5 60 148.0 61 130.0 62 112.0 63 85.0 64 47.0 65 36.0 66 30.5 67 25.0 68 18.5 69 12.0 70 9.0 71 6.0 72 3.5 73 1.0 74 2.5 75 4.0 76 2.5 77 1.0 78 0.5 79 0.0 80 0.0 81 0.0 82 0.5 83 1.0 84 0.5 85 0.0 86 0.5 87 1.0 88 1.0 89 0.5 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 0.05 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 0.025 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 89.35 #Duplication Level Percentage of deduplicated Percentage of total 1 93.92837157246782 83.92500000000001 2 3.693340794627868 6.6000000000000005 3 1.1471740346950194 3.075 4 0.5595970900951315 2.0 5 0.08393956351426973 0.375 6 0.195858981533296 1.05 7 0.16787912702853947 1.05 8 0.08393956351426973 0.6 9 0.05595970900951316 0.44999999999999996 >10 0.08393956351426973 0.8750000000000001 >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 GGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCGA 13 0.325 No Hit CGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGC 12 0.3 No Hit CGCAGAAGTAGGAATAATGGCACCAGAAATGATATTGTTTCCATAAAGTAGA 10 0.25 No Hit CCTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAACGGC 9 0.22499999999999998 No Hit CCCACTTTTTGGTCTTAAGAATGCTGGTTTTAAGAATGAGTGATTGCCCTTC 9 0.22499999999999998 No Hit CTCGTATTTTCCCCTCTGCCTCGGGTTGTCTCGCGATACCTTCTACAGCTTG 8 0.2 No Hit CTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAACGGCA 8 0.2 No Hit CCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACT 8 0.2 No Hit GTCCCTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAAC 7 0.17500000000000002 No Hit CCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCCCTGCTTCCTCGGGC 7 0.17500000000000002 No Hit CACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCCCTG 7 0.17500000000000002 No Hit GTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCC 7 0.17500000000000002 No Hit GTGCATAAGGATGTTGTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTA 7 0.17500000000000002 No Hit CTCTGCCTCGGGTTGTCTCGCGATACCTTCTACAGCTTGGCCCGCAGCAGTA 7 0.17500000000000002 No Hit TAAGGATGTTGTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTACCAGA 6 0.15 No Hit GTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGA 6 0.15 No Hit GTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCGATG 6 0.15 No Hit GGGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCG 6 0.15 No Hit CTCGTACACACTAAGAAAAAAGCCTTATCCATTTACAAAAGTCTTATCCATT 6 0.15 No Hit CTCCAGCAACGGGCTCGATGTCGTAGCATCGTCCCTTATAACGATCAAGACT 6 0.15 No Hit GCCAGATACAAAGTATGGAAAGGTGTCTATGACTTCCCCGCCAGGACCCACC 6 0.15 No Hit CGCGTATTTAAGTCGTCTGCAAAGGATTCTACCCGCCGCTCGGTGGGAATTG 5 0.125 No Hit CTGAGTTGGAATCCCATTCTAACTAAGGATTCTTGTGGTTCCGGAGGATCCA 5 0.125 No Hit CTGGTTTTAAGAATGAGTGATTGCCCTTCTCCGACCCTTACTGCCCAACCTG 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 113283 spots for SRR5423407.sra Written 113283 spots for SRR5423407.sra Read 113283 spots for SRR5423407.sra Written 113283 spots for SRR5423407.sra Read 113283 spots for SRR5423407.sra Written 113283 spots for SRR5423407.sra Read 113283 spots for SRR5423407.sra Written 113283 spots for SRR5423407.sra Read 113283 spots for SRR5423407.sra Written 113283 spots for SRR5423407.sra Read 113283 spots for SRR5423407.sra Written 113283 spots for SRR5423407.sra Read 113283 spots for SRR5423407.sra Written 113283 spots for SRR5423407.sra Read 113283 spots for SRR5423407.sra Written 113283 spots for SRR5423407.sra Read 113283 spots for SRR5423407.sra Written 113283 spots for SRR5423407.sra Read 113283 spots for SRR5423407.sra Written 113283 spots for SRR5423407.sra Read 113283 spots for SRR5423407.sra Written 113283 spots for SRR5423407.sra Read 113283 spots for SRR5423407.sra Written 113283 spots for SRR5423407.sra Read 113283 spots for SRR5423407.sra Written 113283 spots for SRR5423407.sra Read 113283 spots for SRR5423407.sra Written 113283 spots for SRR5423407.sra Read 113283 spots for SRR5423407.sra Written 113283 spots for SRR5423407.sra Read 113283 spots for SRR5423407.sra Written 113283 spots for SRR5423407.sra Read 113283 spots for SRR5423407.sra Written 113283 spots for SRR5423407.sra Read 113292 spots for SRR5423407.sra Written 113292 spots for SRR5423407.sra Read 113283 spots for SRR5423407.sra Written 113283 spots for SRR5423407.sra Read 113283 spots for SRR5423407.sra Written 113283 spots for SRR5423407.sra SRR ids: ['SRR5423407.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_0_e_35g_ SRR5423407.sra spots: 2265669 blocks: [[1, 113283], [113284, 226566], [226567, 339849], [339850, 453132], [453133, 566415], [566416, 679698], [679699, 792981], [792982, 906264], [906265, 1019547], [1019548, 1132830], [1132831, 1246113], [1246114, 1359396], [1359397, 1472679], [1472680, 1585962], [1585963, 1699245], [1699246, 1812528], [1812529, 1925811], [1925812, 2039094], [2039095, 2152377], [2152378, 2265669]] SRR5423407 file size 398282 SRR5423407 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 SRR5423407 SRR5423407_1.fastq Input file: SRR5423407_1.fastq trimmed: SRR5423407-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 06:44:00 2025 >> started Thu Feb 13 06:44:01 2025 >> done (1.106s) 2265669 reads processed; of these: 73 ( 0.00%) short reads filtered out after trimming by size control 25 ( 0.00%) empty reads filtered out after trimming by size control 2265571 (100.00%) reads available; of these: 35149 ( 1.55%) trimmed reads available after processing 2230422 (98.45%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 3 0.00% 19 0 0.00% 20 2 0.00% 21 0 0.00% 22 0 0.00% 23 0 0.00% 24 0 0.00% 25 0 0.00% 26 0 0.00% 27 0 0.00% 28 1 0.00% 29 1 0.00% 30 1 0.00% 31 0 0.00% 32 1 0.00% 33 1 0.00% 34 3 0.00% 35 1 0.00% 36 4 0.00% 37 7 0.00% 38 14 0.00% 39 9 0.00% 40 7 0.00% 41 26 0.00% 42 25 0.00% 43 34 0.00% 44 63 0.00% 45 78 0.00% 46 127 0.01% 47 207 0.01% 48 464 0.02% 49 1145 0.05% 50 3928 0.17% 51 28997 1.28% 52 2230422 98.45% 2265571 reads passed initial QC criterion=sequence-density sequence-density=0.48 sequence-density-rank=1 fanout-score=1.95 fanout-score-rank=23 prefix-density=0.49 prefix-fanout=1.9 sequence=TGAGATGCCTCAGTGCATCCAAACATGGGTAG criterion=fanout-score sequence-density=0.05 sequence-density-rank=18 fanout-score=10.06 fanout-score-rank=1 prefix-density=0.11 prefix-fanout=5.2 sequence=GCTCCAAGCATGGCCCACCTGGAATGGATGACTTCAAGCTCACGGTTCTTGGCAAAGGTCTCTGGGTCAGCAGAGAGGCCAGCAGTGTCCCAGCCGTAGTCACCAGGGAACTCACCAGTCAAGTAGGATGGGGGCTCACCAGAGAACGGGCCCAAGTATTTAACACGGTCTGGTCCGTACCATGGGCTCCCGGAGGGAACAGGCTTGGTGGTTTTCCTCATGGAGACACGGCCATTGCCCATGATCTCAGAGGAGGAGGGGTTGAGCTTCACC Started job on | Feb 13 06:44:14 Started mapping on | Feb 13 06:44:15 Finished on | Feb 13 06:44:18 Mapping speed, Million of reads per hour | 2718.69 Number of input reads | 2265571 Average input read length | 51 UNIQUE READS: Uniquely mapped reads number | 1764194 Uniquely mapped reads % | 77.87% Average mapped length | 51.81 Number of splices: Total | 155739 Number of splices: Annotated (sjdb) | 153728 Number of splices: GT/AG | 151266 Number of splices: GC/AG | 3561 Number of splices: AT/AC | 610 Number of splices: Non-canonical | 302 Mismatch rate per base, % | 0.39% Deletion rate per base | 0.01% Deletion average length | 2.75 Insertion rate per base | 0.00% Insertion average length | 1.32 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 433821 % of reads mapped to multiple loci | 19.15% Number of reads mapped to too many loci | 32568 % of reads mapped to too many loci | 1.44% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.53% % of reads unmapped: other | 0.01% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 67556 67556 67556 N_multimapping 433821 433821 433821 N_noFeature 231125 1740843 248163 N_ambiguous 12605 80 6217 UnstrandedReadsAssigned:1520464 PositiveStrandReadsAssigned:23271 NegativeStrandReadsAssigned:1509814 Dataset is classified negative stranded MeadianReadLen=52 20thPercentileLength=52 echo kmer=47 SRR5423407 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: SRR5423407-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 2,265,571 reads, 1,858,565 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,034 rounds 52401 SRR5423407.ke.tsv 34699 SRR5423407.se.tsv 87100 total ==> SRR5423407.ke.tsv <== target_id length eff_length est_counts tpm Potri.005G200100.1.v4.1 2018 1919 41 10.1105 Potri.005G024800.1.v4.1 1035 936 3 1.51673 Potri.004G059700.1.v4.1 961 862 4 2.19591 Potri.007G009000.2.v4.1 1416 1317 0 0 Potri.003G141000.2.v4.1 2943 2844 34 5.65733 Potri.016G087400.1.v4.1 270 171 8 22.1389 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 2.69487 ==> SRR5423407.se.tsv <== Potri.001G166300.v4.1 0 Potri.001G448400.v4.1 3 Potri.001G233950.v4.1 0 Potri.001G122700.v4.1 15 Potri.001G212900.v4.1 0 Potri.001G182400.v4.1 0 Potri.001G256600.v4.1 0 Potri.001G040500.v4.1 2 Potri.001G416900.v4.1 0 Potri.001G452600.v4.1 1 SRR5423407 completed mapping pipeline successfully