Starting /dee2/code/volunteer_pipeline.sh SRR5423428 current disk space = 3051118710784 free memory = 1579921592 SRR5423428 SRAfilesize 7891066655219f05cc9b20aa471f90f1 SRR5423428.sra SRR5423428.sra file validated SRR5423428 is single end SRR5423428 is conventional basespace SRR5423428 read1 length is 52 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5423428_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 30.835 31.0 30.0 34.0 28.0 34.0 2 31.17325 31.0 31.0 34.0 28.0 34.0 3 31.67 31.0 31.0 34.0 30.0 34.0 4 31.00525 35.0 28.0 37.0 16.0 37.0 5 33.944 35.0 33.0 37.0 28.0 37.0 6 34.64625 35.0 35.0 37.0 32.0 37.0 7 34.981 36.0 35.0 37.0 32.0 37.0 8 35.24225 37.0 35.0 37.0 33.0 37.0 9 36.89275 39.0 37.0 39.0 33.0 39.0 10 36.9105 39.0 37.0 39.0 33.0 39.0 11 37.032 39.0 37.0 39.0 33.0 39.0 12 36.75725 39.0 37.0 39.0 32.0 39.0 13 36.87775 39.0 37.0 39.0 33.0 39.0 14 38.0235 40.0 37.0 41.0 33.0 41.0 15 37.893 40.0 37.0 41.0 33.0 41.0 16 38.22075 40.0 37.0 41.0 33.0 41.0 17 37.97375 40.0 37.0 41.0 33.0 41.0 18 37.95375 40.0 37.0 41.0 33.0 41.0 19 38.1015 40.0 37.0 41.0 33.0 41.0 20 38.06625 40.0 37.0 41.0 33.0 41.0 21 38.1545 40.0 37.0 41.0 33.0 41.0 22 38.22725 40.0 37.0 41.0 33.0 41.0 23 38.22775 40.0 37.0 41.0 34.0 41.0 24 38.01175 40.0 37.0 41.0 33.0 41.0 25 37.96525 40.0 37.0 41.0 33.0 41.0 26 37.90025 40.0 37.0 41.0 33.0 41.0 27 37.839 40.0 37.0 41.0 32.0 41.0 28 38.05575 40.0 37.0 41.0 33.0 41.0 29 37.833 40.0 37.0 41.0 33.0 41.0 30 37.41475 40.0 37.0 41.0 31.0 41.0 31 37.794 40.0 37.0 41.0 33.0 41.0 32 37.67825 40.0 37.0 41.0 32.0 41.0 33 37.58875 40.0 37.0 41.0 32.0 41.0 34 37.00925 39.0 36.0 41.0 30.0 41.0 35 37.55475 39.0 37.0 41.0 32.0 41.0 36 37.55125 40.0 37.0 41.0 32.0 41.0 37 37.5055 40.0 36.0 41.0 31.0 41.0 38 37.33875 39.0 36.0 41.0 31.0 41.0 39 37.4495 40.0 36.0 41.0 32.0 41.0 40 37.10575 39.0 36.0 41.0 31.0 41.0 41 37.206 39.0 36.0 41.0 31.0 41.0 42 37.20975 39.0 36.0 41.0 31.0 41.0 43 37.01525 39.0 36.0 41.0 31.0 41.0 44 36.59275 39.0 35.0 40.0 30.0 41.0 45 36.7725 39.0 35.0 40.0 30.0 41.0 46 36.634 39.0 35.0 40.0 30.0 41.0 47 36.74825 39.0 35.0 40.0 30.0 41.0 48 36.82175 39.0 35.0 40.0 30.0 41.0 49 36.77775 39.0 35.0 40.0 30.0 41.0 50 36.54575 39.0 35.0 40.0 30.0 41.0 51 36.65925 39.0 35.0 40.0 30.0 41.0 52 35.55275 38.0 34.0 40.0 27.0 41.0 >>END_MODULE >>Per tile sequence quality pass #Tile Base Mean 1111 1 0.0 1111 2 0.0 1111 3 0.0 1111 4 0.0 1111 5 0.0 1111 6 0.0 1111 7 0.0 1111 8 0.0 1111 9 0.0 1111 10 0.0 1111 11 0.0 1111 12 0.0 1111 13 0.0 1111 14 0.0 1111 15 0.0 1111 16 0.0 1111 17 0.0 1111 18 0.0 1111 19 0.0 1111 20 0.0 1111 21 0.0 1111 22 0.0 1111 23 0.0 1111 24 0.0 1111 25 0.0 1111 26 0.0 1111 27 0.0 1111 28 0.0 1111 29 0.0 1111 30 0.0 1111 31 0.0 1111 32 0.0 1111 33 0.0 1111 34 0.0 1111 35 0.0 1111 36 0.0 1111 37 0.0 1111 38 0.0 1111 39 0.0 1111 40 0.0 1111 41 0.0 1111 42 0.0 1111 43 0.0 1111 44 0.0 1111 45 0.0 1111 46 0.0 1111 47 0.0 1111 48 0.0 1111 49 0.0 1111 50 0.0 1111 51 0.0 1111 52 0.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 21 1.0 22 5.0 23 10.0 24 13.0 25 11.0 26 18.0 27 23.0 28 47.0 29 73.0 30 76.0 31 104.0 32 123.0 33 189.0 34 222.0 35 283.0 36 406.0 37 526.0 38 786.0 39 1084.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 37.10849411175144 11.901779002756202 5.637684790779254 45.3520420947131 2 22.975 15.5 35.425000000000004 26.1 3 21.475 18.575 23.75 36.199999999999996 4 25.724999999999998 24.6 22.15 27.525 5 22.900000000000002 33.15 23.150000000000002 20.8 6 19.6 33.7 24.6 22.1 7 14.899999999999999 23.974999999999998 42.125 19.0 8 17.825 23.3 29.925 28.95 9 18.325 21.025 34.0 26.650000000000002 10 18.525 39.074999999999996 22.025 20.375 11 22.275 28.599999999999998 21.85 27.275 12 21.25 25.124999999999996 26.150000000000002 27.474999999999998 13 19.75 28.050000000000004 26.875 25.324999999999996 14 20.95 29.525000000000002 26.8 22.725 15 21.6 25.7 27.400000000000002 25.3 16 21.05 26.700000000000003 27.325 24.925 17 22.175 28.000000000000004 26.05 23.775 18 20.7 26.875 26.55 25.874999999999996 19 20.7 26.6 26.55 26.150000000000002 20 21.175 26.650000000000002 27.650000000000002 24.525 21 20.95 27.1 25.85 26.1 22 20.05 26.650000000000002 26.325 26.974999999999998 23 20.974999999999998 28.65 26.275 24.099999999999998 24 21.099999999999998 27.700000000000003 25.75 25.45 25 20.825 27.175 26.150000000000002 25.85 26 21.55 27.075 26.474999999999998 24.9 27 20.025000000000002 27.35 26.400000000000002 26.224999999999998 28 22.7 26.825 26.275 24.2 29 20.9 27.55 27.500000000000004 24.05 30 21.375 26.174999999999997 26.35 26.1 31 20.150000000000002 28.1 26.35 25.4 32 21.5 26.900000000000002 26.875 24.725 33 21.0 26.424999999999997 27.325 25.25 34 20.525 28.075 26.025 25.374999999999996 35 21.025 27.575 25.074999999999996 26.325 36 21.0 26.85 25.75 26.400000000000002 37 21.2 26.35 26.5 25.95 38 20.8 26.900000000000002 26.55 25.75 39 21.15 26.3 25.724999999999998 26.825 40 20.474999999999998 27.150000000000002 26.0 26.375 41 20.925 27.650000000000002 26.075 25.35 42 20.349999999999998 27.200000000000003 26.474999999999998 25.974999999999998 43 21.325 28.875 24.45 25.35 44 23.25 27.575 25.825 23.35 45 22.7 26.075 25.2 26.025 46 22.35 26.8 25.324999999999996 25.525 47 23.625 28.275 24.675 23.425 48 21.625 26.825 26.025 25.525 49 22.925 26.575 24.725 25.775 50 21.325 28.15 25.374999999999996 25.15 51 22.775000000000002 24.9 25.924999999999997 26.400000000000002 52 21.7 26.825 25.55 25.924999999999997 >>END_MODULE >>Per sequence GC content fail #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 0.5 15 1.0 16 1.5 17 2.0 18 4.5 19 7.0 20 6.5 21 6.0 22 7.5 23 9.0 24 9.5 25 10.0 26 15.5 27 21.0 28 36.0 29 51.0 30 43.0 31 35.0 32 59.5 33 84.0 34 102.5 35 121.0 36 159.5 37 198.0 38 207.5 39 236.0 40 255.0 41 258.5 42 262.0 43 298.5 44 335.0 45 328.5 46 322.0 47 332.5 48 343.0 49 321.5 50 300.0 51 325.5 52 351.0 53 338.0 54 325.0 55 266.0 56 207.0 57 180.5 58 154.0 59 142.5 60 131.0 61 118.5 62 106.0 63 81.5 64 49.0 65 41.0 66 32.5 67 24.0 68 15.5 69 7.0 70 6.5 71 6.0 72 6.0 73 6.0 74 3.5 75 1.0 76 0.5 77 0.0 78 0.5 79 1.0 80 1.0 81 1.0 82 0.5 83 0.0 84 0.0 85 0.0 86 0.0 87 0.0 88 0.0 89 0.5 90 1.0 91 0.5 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 90.325 #Duplication Level Percentage of deduplicated Percentage of total 1 94.63050096872405 85.475 2 3.127594796567949 5.65 3 0.996401882092444 2.7 4 0.5535566011624689 2.0 5 0.3044561306393579 1.375 6 0.1383891502906172 0.75 7 0.05535566011624688 0.35000000000000003 8 0.08303349017437033 0.6 9 0.02767783005812344 0.22499999999999998 >10 0.08303349017437033 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 CGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGC 14 0.35000000000000003 No Hit CCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACT 11 0.27499999999999997 No Hit GGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCGA 10 0.25 No Hit CTCCAGCAACGGGCTCGATGTCGTAGCATCGTCCCTTATAACGATCAAGACT 9 0.22499999999999998 No Hit GTCGCGTATTTAAGTCGTCTGCAAAGGATTCTACCCGCCGCTCGGTGGGAAT 8 0.2 No Hit CTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGAGGCATCCCA 8 0.2 No Hit ATCAAACTAGAGGTTACCAAAGAACCATGCATAGCACTGAATAGGGAGCCGC 8 0.2 No Hit CTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAACGGCA 7 0.17500000000000002 No Hit GTGCATAAGGATGTTGTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTA 7 0.17500000000000002 No Hit GTCCCTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAAC 6 0.15 No Hit GTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGA 6 0.15 No Hit CCAGCAACGGGCTCGATGTCGTAGCATCGTCCCTTATAACGATCAAGACTGG 6 0.15 No Hit GCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAGATCA 6 0.15 No Hit AGCACGGTTAATAATATCAGCCCAGGTATTAATTACACGACCTTGACTATCA 6 0.15 No Hit GGGCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAGAT 5 0.125 No Hit CAGGGCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAG 5 0.125 No Hit GGTGCATAAGGATGTTGTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGT 5 0.125 No Hit GATCAAACTAGAGGTTACCAAAGAACCATGCATAGCACTGAATAGGGAGCCG 5 0.125 No Hit GTGGAGACGATGGGGTCGGTCCATGGATTTTCCTTCCTTTTTCCGCATTTCG 5 0.125 No Hit GTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCGATG 5 0.125 No Hit GGGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCG 5 0.125 No Hit CATGTAACAAGCTACACCAAGTAAGAAGTGTAGAACAATTAGCTCATAAGGA 5 0.125 No Hit GTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCC 5 0.125 No Hit CCGCATTTCGCTAAAGGGTTGAAGGAGGATAGTGCATCAAGCTGTTCGCAAG 5 0.125 No Hit GCCGAATACACCAGCTACGCCTAACATGTGAAATGGGTGCATAAGGATGTTG 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 SRR5423428.sra Written 200000 spots for SRR5423428.sra Read 200000 spots for SRR5423428.sra Written 200000 spots for SRR5423428.sra Read 200000 spots for SRR5423428.sra Written 200000 spots for SRR5423428.sra Read 200000 spots for SRR5423428.sra Written 200000 spots for SRR5423428.sra Read 200000 spots for SRR5423428.sra Written 200000 spots for SRR5423428.sra Read 200000 spots for SRR5423428.sra Written 200000 spots for SRR5423428.sra Read 200000 spots for SRR5423428.sra Written 200000 spots for SRR5423428.sra Read 200000 spots for SRR5423428.sra Written 200000 spots for SRR5423428.sra Read 200000 spots for SRR5423428.sra Written 200000 spots for SRR5423428.sra Read 200000 spots for SRR5423428.sra Written 200000 spots for SRR5423428.sra Read 200000 spots for SRR5423428.sra Written 200000 spots for SRR5423428.sra Read 200000 spots for SRR5423428.sra Written 200000 spots for SRR5423428.sra Read 200000 spots for SRR5423428.sra Written 200000 spots for SRR5423428.sra Read 200000 spots for SRR5423428.sra Written 200000 spots for SRR5423428.sra Read 200000 spots for SRR5423428.sra Written 200000 spots for SRR5423428.sra Read 200000 spots for SRR5423428.sra Written 200000 spots for SRR5423428.sra Read 200000 spots for SRR5423428.sra Written 200000 spots for SRR5423428.sra Read 200000 spots for SRR5423428.sra Written 200000 spots for SRR5423428.sra Read 200000 spots for SRR5423428.sra Written 200000 spots for SRR5423428.sra Read 200000 spots for SRR5423428.sra Written 200000 spots for SRR5423428.sra SRR ids: ['SRR5423428.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_h13x_xxt SRR5423428.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]] SRR5423428 file size 703983 SRR5423428 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 SRR5423428 SRR5423428_1.fastq Input file: SRR5423428_1.fastq trimmed: SRR5423428-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 10:48:55 2025 >> started Wed Feb 12 10:48:57 2025 >> done (1.989s) 4000000 reads processed; of these: 131 ( 0.00%) short reads filtered out after trimming by size control 81 ( 0.00%) empty reads filtered out after trimming by size control 3999788 (99.99%) reads available; of these: 101772 ( 2.54%) trimmed reads available after processing 3898016 (97.46%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 8 0.00% 19 3 0.00% 20 5 0.00% 21 0 0.00% 22 1 0.00% 23 1 0.00% 24 2 0.00% 25 4 0.00% 26 4 0.00% 27 3 0.00% 28 3 0.00% 29 5 0.00% 30 14 0.00% 31 13 0.00% 32 12 0.00% 33 21 0.00% 34 24 0.00% 35 28 0.00% 36 26 0.00% 37 35 0.00% 38 43 0.00% 39 51 0.00% 40 69 0.00% 41 91 0.00% 42 158 0.00% 43 187 0.00% 44 363 0.01% 45 429 0.01% 46 657 0.02% 47 990 0.02% 48 1869 0.05% 49 4447 0.11% 50 13194 0.33% 51 79012 1.98% 52 3898016 97.46% 3999788 reads passed initial QC criterion=sequence-density sequence-density=0.44 sequence-density-rank=1 fanout-score=1.99 fanout-score-rank=30 prefix-density=0.44 prefix-fanout=2.0 sequence=TGCTTAATGACCGCATGTGCAGGTAGTGCAAGTGCAGCCAGTACCGCAGTTGCACTTGCCATCGTTCTCAGCTGCTGGCACCTCCATGAC criterion=fanout-score sequence-density=0.01 sequence-density-rank=29 fanout-score=26.16 fanout-score-rank=1 prefix-density=0.29 prefix-fanout=1.2 sequence=CATTTTATTTCTATCTTTCCATACATAACCAAAAAATGGAAAAGATTCTTCAAGAGTCTCGGGTCCTAGAAGTGCATGATAAATACCGCCAAAGCCCAATACTGCAGAGGAAATTAAGTGAAGTACGCCAGATACAAAGTATGGAAAGGTGTCTATGACTTCCCCGCCAGGACCCACCCCCCAACCTAGAGTAGCTAGGTGGGGAAGTAAAATTAATCCTTGTTCATACATTGGCTTCTCCGGTACGAAATGGGCCACTTCAAATAGGTTCATTGCTCCGGCCCAGAATACGATTAATCCAGCATGGGCTACATGAGCTCCCAGCAG Started job on | Feb 12 10:49:10 Started mapping on | Feb 12 10:49:10 Finished on | Feb 12 10:49:17 Mapping speed, Million of reads per hour | 2057.03 Number of input reads | 3999788 Average input read length | 51 UNIQUE READS: Uniquely mapped reads number | 3128153 Uniquely mapped reads % | 78.21% Average mapped length | 51.77 Number of splices: Total | 285921 Number of splices: Annotated (sjdb) | 281426 Number of splices: GT/AG | 279514 Number of splices: GC/AG | 5206 Number of splices: AT/AC | 753 Number of splices: Non-canonical | 448 Mismatch rate per base, % | 0.52% 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 | 716163 % of reads mapped to multiple loci | 17.91% Number of reads mapped to too many loci | 81809 % of reads mapped to too many loci | 2.05% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.83% % of reads unmapped: other | 0.01% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 155472 155472 155472 N_multimapping 716163 716163 716163 N_noFeature 395078 3083166 428775 N_ambiguous 21708 165 10268 UnstrandedReadsAssigned:2711367 PositiveStrandReadsAssigned:44822 NegativeStrandReadsAssigned:2689110 Dataset is classified negative stranded MeadianReadLen=52 20thPercentileLength=52 echo kmer=47 SRR5423428 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: SRR5423428-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 3,999,788 reads, 3,239,329 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,112 rounds 52401 SRR5423428.ke.tsv 34699 SRR5423428.se.tsv 87100 total ==> SRR5423428.ke.tsv <== target_id length eff_length est_counts tpm Potri.005G200100.1.v4.1 2018 1919 139 20.6042 Potri.005G024800.1.v4.1 1035 936 20 6.07813 Potri.004G059700.1.v4.1 961 862 3 0.989987 Potri.007G009000.2.v4.1 1416 1317 0 0 Potri.003G141000.2.v4.1 2943 2844 54.3107 5.43215 Potri.016G087400.1.v4.1 270 171 15 24.9523 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 8 2.59186 ==> SRR5423428.se.tsv <== Potri.001G166300.v4.1 0 Potri.001G448400.v4.1 1 Potri.001G233950.v4.1 0 Potri.001G122700.v4.1 37 Potri.001G212900.v4.1 3 Potri.001G182400.v4.1 0 Potri.001G256600.v4.1 0 Potri.001G040500.v4.1 1 Potri.001G416900.v4.1 0 Potri.001G452600.v4.1 0 SRR5423428 completed mapping pipeline successfully