Starting /dee2/code/volunteer_pipeline.sh SRR5423446 current disk space = 3051538485248 free memory = 1582403052 SRR5423446 SRAfilesize 42e7297213a21938ab07367b6c247dae SRR5423446.sra SRR5423446.sra file validated SRR5423446 is single end SRR5423446 is conventional basespace SRR5423446 read1 length is 52 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5423446_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 30.7035 31.0 30.0 33.0 28.0 34.0 2 31.08675 31.0 31.0 34.0 28.0 34.0 3 31.34025 31.0 31.0 34.0 28.0 34.0 4 30.23875 35.0 26.0 37.0 16.0 37.0 5 33.6585 35.0 33.0 37.0 28.0 37.0 6 34.567 35.0 35.0 37.0 31.0 37.0 7 34.774 35.0 35.0 37.0 32.0 37.0 8 34.97075 36.0 35.0 37.0 32.0 37.0 9 36.38625 38.0 35.0 39.0 32.0 39.0 10 36.57 39.0 35.0 39.0 32.0 39.0 11 36.69 39.0 35.0 39.0 32.0 39.0 12 36.8475 39.0 37.0 39.0 33.0 39.0 13 36.771 39.0 37.0 39.0 32.0 39.0 14 37.94525 40.0 37.0 41.0 33.0 41.0 15 37.38125 39.0 36.0 41.0 31.0 41.0 16 37.828 39.0 37.0 41.0 32.0 41.0 17 37.70925 39.0 36.0 41.0 32.0 41.0 18 38.04375 40.0 37.0 41.0 33.0 41.0 19 37.75625 40.0 37.0 41.0 32.0 41.0 20 38.05925 40.0 37.0 41.0 33.0 41.0 21 38.01475 40.0 37.0 41.0 33.0 41.0 22 37.904 40.0 37.0 41.0 33.0 41.0 23 37.87425 40.0 37.0 41.0 33.0 41.0 24 37.802 40.0 37.0 41.0 32.0 41.0 25 37.448 39.0 36.0 41.0 32.0 41.0 26 37.40225 39.0 37.0 41.0 32.0 41.0 27 37.5695 39.0 37.0 41.0 32.0 41.0 28 37.55275 39.0 37.0 41.0 32.0 41.0 29 37.3855 39.0 36.0 41.0 31.0 41.0 30 37.12 39.0 36.0 41.0 31.0 41.0 31 37.095 39.0 36.0 40.0 31.0 41.0 32 37.18425 39.0 36.0 40.0 31.0 41.0 33 37.229 39.0 36.0 40.0 31.0 41.0 34 37.15225 39.0 36.0 40.0 31.0 41.0 35 37.189 39.0 36.0 40.0 31.0 41.0 36 37.045 39.0 36.0 40.0 30.0 41.0 37 36.88325 39.0 35.0 40.0 30.0 41.0 38 36.811 39.0 35.0 40.0 30.0 41.0 39 36.926 39.0 36.0 40.0 30.0 41.0 40 36.917 39.0 35.0 40.0 30.0 41.0 41 36.8085 39.0 35.0 40.0 30.0 41.0 42 36.6955 39.0 35.0 40.0 30.0 41.0 43 36.531 39.0 35.0 40.0 30.0 41.0 44 36.51425 39.0 35.0 40.0 30.0 41.0 45 36.509 38.0 35.0 40.0 30.0 41.0 46 36.40725 38.0 35.0 40.0 30.0 41.0 47 36.269 38.0 35.0 40.0 29.0 41.0 48 36.32575 38.0 35.0 40.0 30.0 41.0 49 36.128 38.0 35.0 40.0 29.0 41.0 50 36.3365 38.0 35.0 40.0 29.0 41.0 51 36.15625 38.0 34.0 40.0 29.0 41.0 52 34.93925 37.0 33.0 40.0 26.0 41.0 >>END_MODULE >>Per tile sequence quality pass #Tile Base Mean 1112 1 0.0 1112 2 0.0 1112 3 0.0 1112 4 0.0 1112 5 0.0 1112 6 0.0 1112 7 0.0 1112 8 0.0 1112 9 0.0 1112 10 0.0 1112 11 0.0 1112 12 0.0 1112 13 0.0 1112 14 0.0 1112 15 0.0 1112 16 0.0 1112 17 0.0 1112 18 0.0 1112 19 0.0 1112 20 0.0 1112 21 0.0 1112 22 0.0 1112 23 0.0 1112 24 0.0 1112 25 0.0 1112 26 0.0 1112 27 0.0 1112 28 0.0 1112 29 0.0 1112 30 0.0 1112 31 0.0 1112 32 0.0 1112 33 0.0 1112 34 0.0 1112 35 0.0 1112 36 0.0 1112 37 0.0 1112 38 0.0 1112 39 0.0 1112 40 0.0 1112 41 0.0 1112 42 0.0 1112 43 0.0 1112 44 0.0 1112 45 0.0 1112 46 0.0 1112 47 0.0 1112 48 0.0 1112 49 0.0 1112 50 0.0 1112 51 0.0 1112 52 0.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 1.0 21 2.0 22 3.0 23 7.0 24 4.0 25 17.0 26 21.0 27 34.0 28 51.0 29 64.0 30 118.0 31 133.0 32 158.0 33 203.0 34 228.0 35 313.0 36 443.0 37 569.0 38 774.0 39 854.0 40 3.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 36.61161161161161 10.31031031031031 6.106106106106106 46.97197197197197 2 22.075 14.575 36.1 27.250000000000004 3 21.575 18.5 24.099999999999998 35.825 4 25.8 25.45 22.85 25.900000000000002 5 25.15 31.15 23.45 20.25 6 19.2 32.975 24.075 23.75 7 14.025000000000002 23.75 41.325 20.9 8 17.7 23.275000000000002 30.4 28.625 9 17.675 20.125 34.449999999999996 27.750000000000004 10 18.2 36.825 25.6 19.375 11 21.45 29.799999999999997 21.95 26.8 12 21.0 24.15 27.975 26.875 13 19.925 26.825 28.875 24.375 14 20.549999999999997 25.674999999999997 28.799999999999997 24.975 15 21.05 25.624999999999996 27.775 25.55 16 20.65 27.525 26.650000000000002 25.174999999999997 17 21.075 27.450000000000003 26.150000000000002 25.324999999999996 18 19.175 26.55 27.325 26.950000000000003 19 20.95 28.249999999999996 25.825 24.975 20 21.3 26.35 26.3 26.05 21 20.225 26.474999999999998 27.05 26.25 22 20.75 28.525 24.875 25.85 23 21.425 28.7 26.224999999999998 23.65 24 20.424999999999997 26.974999999999998 26.6 26.0 25 21.475 27.725 25.674999999999997 25.124999999999996 26 22.0 27.224999999999998 25.775 25.0 27 20.825 26.35 26.625 26.200000000000003 28 20.8 28.125 25.575 25.5 29 21.825 27.425 25.874999999999996 24.875 30 19.7 25.7 27.650000000000002 26.950000000000003 31 20.875 28.1 26.0 25.025 32 21.575 26.224999999999998 26.575 25.624999999999996 33 20.974999999999998 26.974999999999998 26.75 25.3 34 20.375 27.175 26.6 25.85 35 20.674999999999997 26.05 25.825 27.450000000000003 36 21.375 26.6 25.374999999999996 26.650000000000002 37 21.6 27.750000000000004 24.975 25.674999999999997 38 21.575 26.450000000000003 25.55 26.424999999999997 39 21.3 25.374999999999996 24.725 28.599999999999998 40 20.599999999999998 27.775 25.95 25.674999999999997 41 21.95 27.775 24.85 25.424999999999997 42 20.424999999999997 26.700000000000003 26.474999999999998 26.400000000000002 43 21.475 27.85 25.4 25.275 44 22.85 27.425 25.1 24.625 45 21.525 25.95 26.55 25.974999999999998 46 23.25 25.7 24.6 26.450000000000003 47 22.275 26.400000000000002 25.424999999999997 25.900000000000002 48 21.45 27.250000000000004 25.424999999999997 25.874999999999996 49 22.025 26.3 25.2 26.474999999999998 50 22.5 26.224999999999998 24.775 26.5 51 22.650000000000002 26.075 25.025 26.25 52 22.3 25.424999999999997 25.724999999999998 26.55 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 0.0 1 0.0 2 0.0 3 1.0 4 2.0 5 1.0 6 0.0 7 0.5 8 1.0 9 0.5 10 0.0 11 0.0 12 0.0 13 0.0 14 0.0 15 0.0 16 1.5 17 3.0 18 3.0 19 3.0 20 4.5 21 6.0 22 6.5 23 7.0 24 9.5 25 12.0 26 15.5 27 19.0 28 26.5 29 34.0 30 41.5 31 49.0 32 76.0 33 103.0 34 117.5 35 132.0 36 150.5 37 169.0 38 190.0 39 225.5 40 240.0 41 252.0 42 264.0 43 289.0 44 314.0 45 327.0 46 340.0 47 332.5 48 325.0 49 316.5 50 308.0 51 325.5 52 343.0 53 312.0 54 281.0 55 256.0 56 231.0 57 201.0 58 171.0 59 169.5 60 168.0 61 138.5 62 109.0 63 79.0 64 40.0 65 31.0 66 31.0 67 31.0 68 23.0 69 15.0 70 13.0 71 11.0 72 9.0 73 7.0 74 5.5 75 4.0 76 2.5 77 1.0 78 1.5 79 2.0 80 1.5 81 1.0 82 1.5 83 2.0 84 1.5 85 1.0 86 0.5 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 0.1 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 0.0 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 90.64999999999999 #Duplication Level Percentage of deduplicated Percentage of total 1 94.62217319360177 85.775 2 3.1991174848317705 5.800000000000001 3 0.882515168229454 2.4 4 0.63430777716492 2.3 5 0.27578599007170435 1.25 6 0.19305019305019305 1.05 7 0.0827357970215113 0.525 8 0.05515719801434087 0.4 9 0.027578599007170437 0.22499999999999998 >10 0.027578599007170437 0.27499999999999997 >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 CTGCAAAGGATTCTACCCGCCGCTCGGTGGGAATTGTACTTCAAGGCGGCCC 11 0.27499999999999997 No Hit CTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAACGGCA 9 0.22499999999999998 No Hit GTCGCGTATTTAAGTCGTCTGCAAAGGATTCTACCCGCCGCTCGGTGGGAAT 8 0.2 No Hit CGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGC 8 0.2 No Hit CTACGCCACACACATGACGGTTTACGTGCTTAATGACCGCATGTGCAGGTAG 7 0.17500000000000002 No Hit CAGGGCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAG 7 0.17500000000000002 No Hit GCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAGATCA 7 0.17500000000000002 No Hit CTCCTTCCATACTTCACAAGCAGCAGCTAGTTCAGGGCTCCATTTGCTAGCT 6 0.15 No Hit GGGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCG 6 0.15 No Hit GCAAAGGATTCTACCCGCCGCTCGGTGGGAATTGTACTTCAAGGCGGCCCGC 6 0.15 No Hit CCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACT 6 0.15 No Hit GGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCGA 6 0.15 No Hit CTCGTACACACTAAGAAAAAAGCCTTATCCATTTACAAAAGTCTTATCCATT 6 0.15 No Hit CTCAGCCTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGAGGC 6 0.15 No Hit CCCTACGCCACACACATGACGGTTTACGTGCTTAATGACCGCATGTGCAGGT 5 0.125 No Hit CCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCCCT 5 0.125 No Hit GCAGCAATGAAAGCGATAATAAATACAGAAGTTGCGGTCAATAAAGTAGGAA 5 0.125 No Hit CGCGTATTTAAGTCGTCTGCAAAGGATTCTACCCGCCGCTCGGTGGGAATTG 5 0.125 No Hit CCTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAACGGC 5 0.125 No Hit GTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCGATG 5 0.125 No Hit CGAAAAACTTCCTTGACCGATTGGATAAATCAAGAAAACAGCAGTAGCCGCC 5 0.125 No Hit CAGCAACGGGCTCGATGTCGTAGCATCGTCCCTTATAACGATCAAGACTGGT 5 0.125 No Hit ATCAAACTAGAGGTTACCAAAGAACCATGCATAGCACTGAATAGGGAGCCGC 5 0.125 No Hit GACCGCATGTGCAGGTAGTGCAAGTGCAGCCAGTACCGCAGTTGCACTTGCC 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 SRR5423446.sra Written 200000 spots for SRR5423446.sra Read 200000 spots for SRR5423446.sra Written 200000 spots for SRR5423446.sra Read 200000 spots for SRR5423446.sra Written 200000 spots for SRR5423446.sra Read 200000 spots for SRR5423446.sra Written 200000 spots for SRR5423446.sra Read 200000 spots for SRR5423446.sra Written 200000 spots for SRR5423446.sra Read 200000 spots for SRR5423446.sra Written 200000 spots for SRR5423446.sra Read 200000 spots for SRR5423446.sra Written 200000 spots for SRR5423446.sra Read 200000 spots for SRR5423446.sra Written 200000 spots for SRR5423446.sra Read 200000 spots for SRR5423446.sra Written 200000 spots for SRR5423446.sra Read 200000 spots for SRR5423446.sra Written 200000 spots for SRR5423446.sra Read 200000 spots for SRR5423446.sra Written 200000 spots for SRR5423446.sra Read 200000 spots for SRR5423446.sra Written 200000 spots for SRR5423446.sra Read 200000 spots for SRR5423446.sra Written 200000 spots for SRR5423446.sra Read 200000 spots for SRR5423446.sra Written 200000 spots for SRR5423446.sra Read 200000 spots for SRR5423446.sra Written 200000 spots for SRR5423446.sra Read 200000 spots for SRR5423446.sra Written 200000 spots for SRR5423446.sra Read 200000 spots for SRR5423446.sra Written 200000 spots for SRR5423446.sra Read 200000 spots for SRR5423446.sra Written 200000 spots for SRR5423446.sra Read 200000 spots for SRR5423446.sra Written 200000 spots for SRR5423446.sra Read 200000 spots for SRR5423446.sra Written 200000 spots for SRR5423446.sra SRR ids: ['SRR5423446.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_b1dnpmto SRR5423446.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]] SRR5423446 file size 703975 SRR5423446 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 SRR5423446 SRR5423446_1.fastq Input file: SRR5423446_1.fastq trimmed: SRR5423446-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 13:59:15 2025 >> started Wed Feb 12 13:59:17 2025 >> done (1.860s) 4000000 reads processed; of these: 148 ( 0.00%) short reads filtered out after trimming by size control 178 ( 0.00%) empty reads filtered out after trimming by size control 3999674 (99.99%) reads available; of these: 113703 ( 2.84%) trimmed reads available after processing 3885971 (97.16%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 14 0.00% 19 10 0.00% 20 2 0.00% 21 1 0.00% 22 1 0.00% 23 0 0.00% 24 3 0.00% 25 2 0.00% 26 2 0.00% 27 1 0.00% 28 5 0.00% 29 6 0.00% 30 7 0.00% 31 5 0.00% 32 15 0.00% 33 10 0.00% 34 24 0.00% 35 27 0.00% 36 31 0.00% 37 37 0.00% 38 48 0.00% 39 83 0.00% 40 81 0.00% 41 104 0.00% 42 187 0.00% 43 232 0.01% 44 440 0.01% 45 601 0.02% 46 783 0.02% 47 1249 0.03% 48 2533 0.06% 49 5425 0.14% 50 15378 0.38% 51 86356 2.16% 52 3885971 97.16% 3999674 reads passed initial QC criterion=sequence-density sequence-density=0.18 sequence-density-rank=1 fanout-score=6.63 fanout-score-rank=8 prefix-density=0.76 prefix-fanout=1.5 sequence=ACGTGCTTAATACGTGCTTAA criterion=fanout-score sequence-density=0.02 sequence-density-rank=24 fanout-score=21.16 fanout-score-rank=1 prefix-density=0.31 prefix-fanout=1.3 sequence=CATTTTATTTCTATCTTTCCATACATAACCAAAAAATGGAAAAGATTCTTCAAGAGTCTCGGGTCCTAGAAGTGCATGATAAATACCGCCAAAGCCCAATACTGCAGAGGAAATTAAGTGAAGTACGCCAGATACAAAGTATGGAAAGGTGTCTATGACTTCCCCGCCAGGACCCACCCCCCAACCTAGAGTAGCTAGGTGGGGAAGTAAAATTAATCCTTGTTCATACATTGGCTTCTCCGGTACGAAATGGGCCACTTCAAATAGGTTCATTGCTCCGGCCCAGAATACGATTAATCCAGCATGGGCTACATGAGCTCCCAGCAG Started job on | Feb 12 13:59:30 Started mapping on | Feb 12 13:59:30 Finished on | Feb 12 13:59:37 Mapping speed, Million of reads per hour | 2056.98 Number of input reads | 3999674 Average input read length | 51 UNIQUE READS: Uniquely mapped reads number | 3137650 Uniquely mapped reads % | 78.45% Average mapped length | 51.72 Number of splices: Total | 298078 Number of splices: Annotated (sjdb) | 293359 Number of splices: GT/AG | 291577 Number of splices: GC/AG | 5209 Number of splices: AT/AC | 804 Number of splices: Non-canonical | 488 Mismatch rate per base, % | 0.50% Deletion rate per base | 0.01% Deletion average length | 2.35 Insertion rate per base | 0.00% Insertion average length | 1.38 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 679600 % of reads mapped to multiple loci | 16.99% Number of reads mapped to too many loci | 104604 % of reads mapped to too many loci | 2.62% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.93% % of reads unmapped: other | 0.01% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 182424 182424 182424 N_multimapping 679600 679600 679600 N_noFeature 404625 3091401 440573 N_ambiguous 19788 145 9354 UnstrandedReadsAssigned:2713237 PositiveStrandReadsAssigned:46104 NegativeStrandReadsAssigned:2687723 Dataset is classified negative stranded MeadianReadLen=52 20thPercentileLength=52 echo kmer=47 SRR5423446 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: SRR5423446-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 3,999,674 reads, 3,227,560 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,338 rounds 52401 SRR5423446.ke.tsv 34699 SRR5423446.se.tsv 87100 total ==> SRR5423446.ke.tsv <== target_id length eff_length est_counts tpm Potri.005G200100.1.v4.1 2018 1919 180 25.8466 Potri.005G024800.1.v4.1 1035 936 14.0312 4.13071 Potri.004G059700.1.v4.1 961 862 5 1.59834 Potri.007G009000.2.v4.1 1416 1317 0 0 Potri.003G141000.2.v4.1 2943 2844 70.376 6.8187 Potri.016G087400.1.v4.1 270 171 12 19.3371 Potri.015G069301.1.v4.1 564 465 0 0 Potri.010G195200.1.v4.1 1773 1674 1 0.164608 Potri.012G127500.1.v4.1 977 878 5 1.56921 ==> SRR5423446.se.tsv <== Potri.001G166300.v4.1 0 Potri.001G448400.v4.1 0 Potri.001G233950.v4.1 0 Potri.001G122700.v4.1 39 Potri.001G212900.v4.1 0 Potri.001G182400.v4.1 0 Potri.001G256600.v4.1 0 Potri.001G040500.v4.1 0 Potri.001G416900.v4.1 0 Potri.001G452600.v4.1 0 SRR5423446 completed mapping pipeline successfully