Starting /dee2/code/volunteer_pipeline.sh SRR5423383 current disk space = 3049317871616 free memory = 1576918828 SRR5423383 SRAfilesize 62c4f5c99cf07d612097040bd8427eff SRR5423383.sra SRR5423383.sra file validated SRR5423383 is single end SRR5423383 is conventional basespace SRR5423383 read1 length is 52 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5423383_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 31.64475 31.0 31.0 34.0 30.0 34.0 2 31.8605 33.0 31.0 34.0 30.0 34.0 3 32.01175 33.0 31.0 34.0 30.0 34.0 4 33.7315 37.0 33.0 37.0 26.0 37.0 5 34.98625 37.0 35.0 37.0 32.0 37.0 6 35.41275 37.0 35.0 37.0 32.0 37.0 7 35.51625 37.0 35.0 37.0 33.0 37.0 8 35.443 37.0 35.0 37.0 33.0 37.0 9 37.30575 39.0 37.0 39.0 34.0 39.0 10 37.1925 39.0 37.0 39.0 33.0 39.0 11 37.0365 39.0 37.0 39.0 33.0 39.0 12 37.2115 39.0 37.0 39.0 33.0 39.0 13 37.21275 39.0 37.0 39.0 33.0 39.0 14 38.405 40.0 38.0 41.0 33.0 41.0 15 38.21975 40.0 38.0 41.0 33.0 41.0 16 38.12725 40.0 37.0 41.0 33.0 41.0 17 38.3245 40.0 38.0 41.0 33.0 41.0 18 38.3085 40.0 38.0 41.0 33.0 41.0 19 38.277 40.0 38.0 41.0 33.0 41.0 20 38.1195 40.0 37.0 41.0 33.0 41.0 21 38.174 40.0 38.0 41.0 34.0 41.0 22 38.29375 40.0 38.0 41.0 34.0 41.0 23 38.1555 40.0 37.0 41.0 33.0 41.0 24 37.99375 40.0 37.0 41.0 33.0 41.0 25 38.3875 40.0 38.0 41.0 34.0 41.0 26 38.1375 40.0 38.0 41.0 33.0 41.0 27 38.085 40.0 37.0 41.0 33.0 41.0 28 37.998 40.0 37.0 41.0 33.0 41.0 29 38.094 40.0 38.0 41.0 33.0 41.0 30 37.8455 40.0 37.0 41.0 33.0 41.0 31 37.78975 40.0 37.0 41.0 33.0 41.0 32 37.82025 40.0 37.0 41.0 32.0 41.0 33 37.75575 40.0 37.0 41.0 32.0 41.0 34 37.5515 40.0 37.0 41.0 31.0 41.0 35 37.7155 40.0 37.0 41.0 33.0 41.0 36 37.5775 40.0 37.0 41.0 31.0 41.0 37 37.5955 40.0 37.0 41.0 32.0 41.0 38 37.4335 40.0 36.0 41.0 31.0 41.0 39 37.481 40.0 37.0 41.0 31.0 41.0 40 37.31675 39.0 36.0 41.0 31.0 41.0 41 37.44875 39.0 36.0 41.0 32.0 41.0 42 37.2985 39.0 36.0 41.0 31.0 41.0 43 36.9535 39.0 36.0 41.0 30.0 41.0 44 37.058 39.0 36.0 41.0 31.0 41.0 45 36.87325 39.0 35.0 41.0 30.0 41.0 46 36.666 39.0 35.0 41.0 30.0 41.0 47 36.72375 39.0 35.0 41.0 30.0 41.0 48 36.76075 39.0 35.0 40.0 30.0 41.0 49 36.88875 39.0 35.0 41.0 31.0 41.0 50 36.7835 39.0 35.0 40.0 30.0 41.0 51 36.74 39.0 35.0 41.0 30.0 41.0 52 35.8375 38.0 34.0 40.0 28.0 41.0 >>END_MODULE >>Per tile sequence quality pass #Tile Base Mean 1212 1 0.0 1212 2 0.0 1212 3 0.0 1212 4 0.0 1212 5 0.0 1212 6 0.0 1212 7 0.0 1212 8 0.0 1212 9 0.0 1212 10 0.0 1212 11 0.0 1212 12 0.0 1212 13 0.0 1212 14 0.0 1212 15 0.0 1212 16 0.0 1212 17 0.0 1212 18 0.0 1212 19 0.0 1212 20 0.0 1212 21 0.0 1212 22 0.0 1212 23 0.0 1212 24 0.0 1212 25 0.0 1212 26 0.0 1212 27 0.0 1212 28 0.0 1212 29 0.0 1212 30 0.0 1212 31 0.0 1212 32 0.0 1212 33 0.0 1212 34 0.0 1212 35 0.0 1212 36 0.0 1212 37 0.0 1212 38 0.0 1212 39 0.0 1212 40 0.0 1212 41 0.0 1212 42 0.0 1212 43 0.0 1212 44 0.0 1212 45 0.0 1212 46 0.0 1212 47 0.0 1212 48 0.0 1212 49 0.0 1212 50 0.0 1212 51 0.0 1212 52 0.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 14 1.0 15 0.0 16 0.0 17 1.0 18 0.0 19 0.0 20 1.0 21 3.0 22 4.0 23 6.0 24 8.0 25 8.0 26 15.0 27 35.0 28 50.0 29 51.0 30 57.0 31 95.0 32 120.0 33 162.0 34 206.0 35 235.0 36 371.0 37 502.0 38 733.0 39 1333.0 40 3.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 43.390085127691535 13.495242864296445 5.85878818227341 37.25588382573861 2 20.95 15.7 37.1 26.25 3 19.85 19.825 25.7 34.625 4 25.05 27.05 22.25 25.650000000000002 5 24.275 31.275 23.35 21.099999999999998 6 19.525000000000002 35.475 22.525000000000002 22.475 7 15.9 24.9 40.175 19.025 8 18.175 22.925 29.575000000000003 29.325000000000003 9 19.675 21.675 30.925000000000004 27.725 10 18.9 38.35 23.5 19.25 11 22.1 30.025000000000002 20.575 27.3 12 21.099999999999998 25.650000000000002 25.8 27.450000000000003 13 19.925 29.375 26.8 23.9 14 19.975 28.375 26.950000000000003 24.7 15 22.1 26.3 26.05 25.55 16 20.875 27.3 26.025 25.8 17 22.400000000000002 25.95 25.025 26.625 18 21.05 27.750000000000004 26.55 24.65 19 22.400000000000002 28.249999999999996 25.35 24.0 20 20.599999999999998 26.200000000000003 27.075 26.125 21 20.150000000000002 27.125 26.900000000000002 25.825 22 20.724999999999998 27.875 25.75 25.650000000000002 23 21.5 28.525 23.925 26.05 24 20.45 26.974999999999998 27.175 25.4 25 21.825 27.725 24.6 25.85 26 21.95 26.200000000000003 25.724999999999998 26.125 27 21.15 28.499999999999996 25.05 25.3 28 20.7 28.499999999999996 26.525 24.275 29 21.0 29.099999999999998 26.224999999999998 23.674999999999997 30 22.45 25.55 25.825 26.174999999999997 31 22.075 28.4 24.375 25.15 32 22.225 27.575 25.3 24.9 33 21.725 27.575 26.174999999999997 24.525 34 20.875 28.275 25.900000000000002 24.95 35 20.599999999999998 26.8 24.825 27.775 36 20.9 28.249999999999996 25.7 25.15 37 20.375 26.700000000000003 26.924999999999997 26.0 38 23.05 26.325 24.4 26.224999999999998 39 22.225 25.974999999999998 25.324999999999996 26.474999999999998 40 20.474999999999998 29.225 24.825 25.474999999999998 41 22.375 25.5 25.1 27.025 42 21.075 27.025 25.35 26.55 43 22.650000000000002 28.125 25.124999999999996 24.099999999999998 44 21.625 26.650000000000002 25.75 25.974999999999998 45 22.575 27.775 24.875 24.775 46 23.1807951987997 26.78169542385596 25.23130782695674 24.8062015503876 47 22.650000000000002 27.800000000000004 24.474999999999998 25.074999999999996 48 21.65 27.0 25.35 26.0 49 22.255563890972745 27.00675168792198 25.156289072268066 25.581395348837212 50 23.025000000000002 26.474999999999998 25.474999999999998 25.025 51 22.85571392848212 24.706176544136035 24.88122030507627 27.556889222305575 52 22.475 25.974999999999998 25.575 25.974999999999998 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 9.0 1 5.5 2 2.0 3 2.0 4 2.0 5 1.0 6 0.0 7 1.0 8 2.0 9 1.5 10 1.0 11 0.5 12 0.0 13 0.5 14 1.0 15 1.0 16 3.0 17 5.0 18 5.0 19 5.0 20 5.5 21 6.0 22 8.5 23 11.0 24 14.0 25 17.0 26 20.0 27 23.0 28 33.5 29 44.0 30 55.0 31 66.0 32 83.5 33 101.0 34 108.0 35 115.0 36 144.0 37 173.0 38 192.5 39 228.5 40 245.0 41 243.5 42 242.0 43 263.0 44 284.0 45 291.0 46 298.0 47 285.5 48 273.0 49 284.0 50 295.0 51 312.0 52 329.0 53 328.5 54 328.0 55 286.0 56 244.0 57 229.0 58 214.0 59 197.5 60 181.0 61 138.5 62 96.0 63 81.0 64 55.0 65 44.0 66 38.5 67 33.0 68 23.5 69 14.0 70 9.0 71 4.0 72 3.0 73 2.0 74 3.0 75 4.0 76 3.5 77 3.0 78 2.0 79 1.0 80 1.5 81 2.0 82 1.5 83 1.0 84 0.5 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 0.15 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 0.025 47 0.0 48 0.0 49 0.025 50 0.0 51 0.025 52 0.0 >>END_MODULE >>Sequence Length Distribution pass #Length Count 52 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 88.775 #Duplication Level Percentage of deduplicated Percentage of total 1 93.01605181638975 82.575 2 4.421289777527456 7.85 3 1.4362151506617853 3.8249999999999997 4 0.42241622078287805 1.5 5 0.25344973246972685 1.125 6 0.14080540692762603 0.75 7 0.14080540692762603 0.8750000000000001 8 0.028161081385525203 0.2 9 0.028161081385525203 0.22499999999999998 >10 0.11264432554210081 1.075 >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 13 0.325 No Hit GTCCCTTATAACGATCAAGACTGGTAAGCCCGTCGGTCCACACAGTTGTCCA 10 0.25 No Hit CCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACT 10 0.25 No Hit GGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCGA 10 0.25 No Hit AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA 9 0.22499999999999998 No Hit GCCGAATACACCAGCTACGCCTAACATGTGAAATGGGTGCATAAGGATGTTG 8 0.2 No Hit GCCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTAC 7 0.17500000000000002 No Hit CTCACGAGCAAGATCACGTCCCTCATTACGAGCTTGTACACATGCTTCTAGA 7 0.17500000000000002 No Hit GTTAATAATATCAGCCCAGGTATTAATTACACGACCTTGACTATCAACTACA 7 0.17500000000000002 No Hit CCCAGGTATTAATTACACGACCTTGACTATCAACTACAGATTGGTTGAAATT 7 0.17500000000000002 No Hit CTCCAGCAACGGGCTCGATGTCGTAGCATCGTCCCTTATAACGATCAAGACT 7 0.17500000000000002 No Hit CTCGTATTTTCCCCTCTGCCTCGGGTTGTCTCGCGATACCTTCTACAGCTTG 6 0.15 No Hit GGTGCATAAGGATGTTGTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGT 6 0.15 No Hit GCCAGACTAAGCAATAAAGTACCTCGTATTTTCCCCTCTGCCTCGGGTTGTC 6 0.15 No Hit GTTCTATGGTCGGTCCGCGACCCCTGGATGCCGAAGGCGTCCTTGGGGCGAT 6 0.15 No Hit GGGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCG 6 0.15 No Hit GGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCC 5 0.125 No Hit CAGAGATTCCTAGAGGCATCCCATCCGAAAAACTTCCTTGACCGATTGGATA 5 0.125 No Hit GTGCTGAGTTGGAATCCCATTCTAACTAAGGATTCTTGTGGTTCCGGAGGAT 5 0.125 No Hit CCAGTCCATAAATTGTTAAAGCTTCCATAAAAGCCAGACTAAGCAATAAAGT 5 0.125 No Hit CCCTGATCAAACTAGAGGTTACCAAAGAACCATGCATAGCACTGAATAGGGA 5 0.125 No Hit CTTATAACGATCAAGACTGGTAAGCCCGTCGGTCCACACAGTTGTCCATGTA 5 0.125 No Hit GTGGTTTCCCTGATCAAACTAGAGGTTACCAAAGAACCATGCATAGCACTGA 5 0.125 No Hit GTACACACTAAGAAAAAAGCCTTATCCATTTACAAAAGTCTTATCCATTTGT 5 0.125 No Hit CTAACATGTGAAATGGGTGCATAAGGATGTTGTGCTCAGCCTGGAATACAAT 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 SRR5423383.sra Written 200000 spots for SRR5423383.sra Read 200000 spots for SRR5423383.sra Written 200000 spots for SRR5423383.sra Read 200000 spots for SRR5423383.sra Written 200000 spots for SRR5423383.sra Read 200000 spots for SRR5423383.sra Written 200000 spots for SRR5423383.sra Read 200000 spots for SRR5423383.sra Written 200000 spots for SRR5423383.sra Read 200000 spots for SRR5423383.sra Written 200000 spots for SRR5423383.sra Read 200000 spots for SRR5423383.sra Written 200000 spots for SRR5423383.sra Read 200000 spots for SRR5423383.sra Written 200000 spots for SRR5423383.sra Read 200000 spots for SRR5423383.sra Written 200000 spots for SRR5423383.sra Read 200000 spots for SRR5423383.sra Written 200000 spots for SRR5423383.sra Read 200000 spots for SRR5423383.sra Written 200000 spots for SRR5423383.sra Read 200000 spots for SRR5423383.sra Written 200000 spots for SRR5423383.sra Read 200000 spots for SRR5423383.sra Written 200000 spots for SRR5423383.sra Read 200000 spots for SRR5423383.sra Written 200000 spots for SRR5423383.sra Read 200000 spots for SRR5423383.sra Written 200000 spots for SRR5423383.sra Read 200000 spots for SRR5423383.sra Written 200000 spots for SRR5423383.sra Read 200000 spots for SRR5423383.sra Written 200000 spots for SRR5423383.sra Read 200000 spots for SRR5423383.sra Written 200000 spots for SRR5423383.sra Read 200000 spots for SRR5423383.sra Written 200000 spots for SRR5423383.sra Read 200000 spots for SRR5423383.sra Written 200000 spots for SRR5423383.sra SRR ids: ['SRR5423383.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_10cjcfny SRR5423383.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]] SRR5423383 file size 703957 SRR5423383 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 SRR5423383 SRR5423383_1.fastq Input file: SRR5423383_1.fastq trimmed: SRR5423383-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 08:16:37 2025 >> started Wed Feb 12 08:16:39 2025 >> done (1.941s) 4000000 reads processed; of these: 102 ( 0.00%) short reads filtered out after trimming by size control 993 ( 0.02%) empty reads filtered out after trimming by size control 3998905 (99.97%) reads available; of these: 70748 ( 1.77%) trimmed reads available after processing 3928157 (98.23%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 16 0.00% 19 7 0.00% 20 8 0.00% 21 1 0.00% 22 2 0.00% 23 2 0.00% 24 3 0.00% 25 5 0.00% 26 5 0.00% 27 9 0.00% 28 3 0.00% 29 14 0.00% 30 8 0.00% 31 12 0.00% 32 18 0.00% 33 21 0.00% 34 22 0.00% 35 23 0.00% 36 35 0.00% 37 35 0.00% 38 55 0.00% 39 67 0.00% 40 78 0.00% 41 96 0.00% 42 128 0.00% 43 183 0.00% 44 231 0.01% 45 356 0.01% 46 461 0.01% 47 743 0.02% 48 1293 0.03% 49 2727 0.07% 50 8286 0.21% 51 55795 1.40% 52 3928157 98.23% 3998905 reads passed initial QC criterion=sequence-density sequence-density=0.37 sequence-density-rank=1 fanout-score=1.90 fanout-score-rank=27 prefix-density=0.35 prefix-fanout=1.9 sequence=TGGCACCGGCCCGTAATCCTTCCACTGCCAGGAGCGGGAGGTGATCGCTGCTCTGTGAGACCAGCCTCACGCTGTGCCCTCCCCTCTAGGAGCCACGACACC criterion=fanout-score sequence-density=0.01 sequence-density-rank=31 fanout-score=17.00 fanout-score-rank=1 prefix-density=0.04 prefix-fanout=3.2 sequence=AAGAAGTTCACACTTTCTGGCGACGTCTTTCTTTTTCTTCAAAACCCCAATCCGCTCTCGCTCGCCGCTACTAACGGGGTCTCGGTTGATTTCCCTTCCTTTAGCTAGTCAGATGTTTCAGTTCGCTAAGTTTGAAAAGTCCAAAGAGCGCAGACTCGCCACGGAGCTTGGAGACGGTTTCCCGATCGGAGATCCATGGATCACAGACGGTATCTCCCCATGGCCTTTCGCC Started job on | Feb 12 08:16:50 Started mapping on | Feb 12 08:16:50 Finished on | Feb 12 08:16:55 Mapping speed, Million of reads per hour | 2879.21 Number of input reads | 3998905 Average input read length | 51 UNIQUE READS: Uniquely mapped reads number | 3006347 Uniquely mapped reads % | 75.18% Average mapped length | 51.80 Number of splices: Total | 257727 Number of splices: Annotated (sjdb) | 254386 Number of splices: GT/AG | 249812 Number of splices: GC/AG | 6423 Number of splices: AT/AC | 852 Number of splices: Non-canonical | 640 Mismatch rate per base, % | 0.36% Deletion rate per base | 0.01% Deletion average length | 2.29 Insertion rate per base | 0.00% Insertion average length | 1.35 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 840233 % of reads mapped to multiple loci | 21.01% Number of reads mapped to too many loci | 75536 % of reads mapped to too many loci | 1.89% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.80% % of reads unmapped: other | 0.12% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 152325 152325 152325 N_multimapping 840233 840233 840233 N_noFeature 457112 2935144 517311 N_ambiguous 22328 173 11163 UnstrandedReadsAssigned:2526907 PositiveStrandReadsAssigned:71030 NegativeStrandReadsAssigned:2477873 Dataset is classified negative stranded MeadianReadLen=52 20thPercentileLength=52 echo kmer=47 SRR5423383 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: SRR5423383-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 3,998,905 reads, 3,159,874 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,087 rounds 52401 SRR5423383.ke.tsv 34699 SRR5423383.se.tsv 87100 total ==> SRR5423383.ke.tsv <== target_id length eff_length est_counts tpm Potri.005G200100.1.v4.1 2018 1919 76 10.5272 Potri.005G024800.1.v4.1 1035 936 2 0.567975 Potri.004G059700.1.v4.1 961 862 2 0.616734 Potri.007G009000.2.v4.1 1416 1317 0 0 Potri.003G141000.2.v4.1 2943 2844 68.7011 6.4211 Potri.016G087400.1.v4.1 270 171 16 24.8713 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 0 0 ==> SRR5423383.se.tsv <== Potri.001G166300.v4.1 0 Potri.001G448400.v4.1 4 Potri.001G233950.v4.1 0 Potri.001G122700.v4.1 22 Potri.001G212900.v4.1 0 Potri.001G182400.v4.1 0 Potri.001G256600.v4.1 0 Potri.001G040500.v4.1 4 Potri.001G416900.v4.1 0 Potri.001G452600.v4.1 0 SRR5423383 completed mapping pipeline successfully