Starting /dee2/code/volunteer_pipeline.sh SRR5423423 current disk space = 3049690284032 free memory = 1310931804 SRR5423423 SRAfilesize 3d708920936f08915015c0ae7773ef09 SRR5423423.sra SRR5423423.sra file validated SRR5423423 is single end SRR5423423 is conventional basespace SRR5423423 read1 length is 52 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5423423_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 31.993 33.0 31.0 34.0 30.0 34.0 2 32.1585 34.0 31.0 34.0 30.0 34.0 3 32.188 34.0 31.0 34.0 30.0 34.0 4 35.128 37.0 35.0 37.0 32.0 37.0 5 35.477 37.0 35.0 37.0 33.0 37.0 6 35.47325 37.0 35.0 37.0 33.0 37.0 7 35.6035 37.0 35.0 37.0 33.0 37.0 8 35.64425 37.0 35.0 37.0 33.0 37.0 9 37.3245 39.0 37.0 39.0 34.0 39.0 10 37.33375 39.0 37.0 39.0 34.0 39.0 11 37.248 39.0 37.0 39.0 33.0 39.0 12 37.2695 39.0 37.0 39.0 33.0 39.0 13 37.335 39.0 37.0 39.0 34.0 39.0 14 38.4795 40.0 38.0 41.0 33.0 41.0 15 38.66275 40.0 38.0 41.0 34.0 41.0 16 38.567 40.0 38.0 41.0 34.0 41.0 17 38.51825 40.0 38.0 41.0 34.0 41.0 18 38.4965 40.0 38.0 41.0 34.0 41.0 19 38.37325 40.0 38.0 41.0 33.0 41.0 20 38.476 40.0 38.0 41.0 34.0 41.0 21 38.53425 40.0 38.0 41.0 34.0 41.0 22 38.491 40.0 38.0 41.0 34.0 41.0 23 38.4535 40.0 38.0 41.0 34.0 41.0 24 38.463 40.0 38.0 41.0 34.0 41.0 25 38.36525 40.0 38.0 41.0 34.0 41.0 26 38.27125 40.0 38.0 41.0 34.0 41.0 27 38.23225 40.0 38.0 41.0 34.0 41.0 28 38.1205 40.0 38.0 41.0 33.0 41.0 29 38.21825 40.0 38.0 41.0 33.0 41.0 30 38.18775 40.0 38.0 41.0 34.0 41.0 31 38.20575 40.0 38.0 41.0 34.0 41.0 32 37.884 40.0 37.0 41.0 33.0 41.0 33 38.06925 40.0 38.0 41.0 33.0 41.0 34 37.8115 40.0 37.0 41.0 33.0 41.0 35 37.8055 40.0 37.0 41.0 32.0 41.0 36 37.914 40.0 37.0 41.0 33.0 41.0 37 37.823 40.0 37.0 41.0 33.0 41.0 38 37.78625 40.0 37.0 41.0 32.0 41.0 39 37.60975 40.0 37.0 41.0 32.0 41.0 40 37.3385 40.0 37.0 41.0 31.0 41.0 41 37.36975 40.0 37.0 41.0 31.0 41.0 42 37.4005 40.0 37.0 41.0 31.0 41.0 43 37.38875 40.0 37.0 41.0 31.0 41.0 44 37.38375 40.0 37.0 41.0 31.0 41.0 45 37.21475 40.0 36.0 41.0 31.0 41.0 46 36.99125 39.0 36.0 41.0 30.0 41.0 47 36.9635 39.0 36.0 41.0 30.0 41.0 48 37.078 39.0 36.0 41.0 31.0 41.0 49 36.9445 39.0 36.0 41.0 30.0 41.0 50 36.99775 39.0 36.0 41.0 31.0 41.0 51 36.96275 39.0 35.0 41.0 31.0 41.0 52 35.97225 38.0 34.0 40.0 28.0 41.0 >>END_MODULE >>Per tile sequence quality pass #Tile Base Mean 2108 1 0.0 2108 2 0.0 2108 3 0.0 2108 4 0.0 2108 5 0.0 2108 6 0.0 2108 7 0.0 2108 8 0.0 2108 9 0.0 2108 10 0.0 2108 11 0.0 2108 12 0.0 2108 13 0.0 2108 14 0.0 2108 15 0.0 2108 16 0.0 2108 17 0.0 2108 18 0.0 2108 19 0.0 2108 20 0.0 2108 21 0.0 2108 22 0.0 2108 23 0.0 2108 24 0.0 2108 25 0.0 2108 26 0.0 2108 27 0.0 2108 28 0.0 2108 29 0.0 2108 30 0.0 2108 31 0.0 2108 32 0.0 2108 33 0.0 2108 34 0.0 2108 35 0.0 2108 36 0.0 2108 37 0.0 2108 38 0.0 2108 39 0.0 2108 40 0.0 2108 41 0.0 2108 42 0.0 2108 43 0.0 2108 44 0.0 2108 45 0.0 2108 46 0.0 2108 47 0.0 2108 48 0.0 2108 49 0.0 2108 50 0.0 2108 51 0.0 2108 52 0.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 9 1.0 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 3.0 22 3.0 23 6.0 24 8.0 25 12.0 26 17.0 27 31.0 28 31.0 29 52.0 30 67.0 31 84.0 32 120.0 33 134.0 34 189.0 35 201.0 36 319.0 37 402.0 38 749.0 39 1562.0 40 9.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 38.92365456821027 10.563204005006257 5.782227784730914 44.73091364205256 2 22.85 14.575 35.425000000000004 27.150000000000002 3 20.875 17.9 24.349999999999998 36.875 4 25.124999999999996 27.224999999999998 18.925 28.725 5 24.349999999999998 31.825 23.65 20.175 6 20.4 32.475 23.75 23.375 7 14.799999999999999 24.525 41.099999999999994 19.575 8 17.75 22.275 30.75 29.225 9 18.325 21.75 33.550000000000004 26.375 10 18.375 37.475 24.975 19.175 11 24.05 27.725 22.05 26.174999999999997 12 22.95 23.875 26.174999999999997 27.0 13 19.825 28.4 26.575 25.2 14 19.875 27.975 27.85 24.3 15 21.925 26.025 26.575 25.474999999999998 16 20.4 27.825 27.650000000000002 24.125 17 21.55 28.349999999999998 26.974999999999998 23.125 18 21.0 27.675 27.05 24.275 19 21.025 28.050000000000004 25.324999999999996 25.6 20 21.05 26.974999999999998 25.95 26.025 21 19.7 27.1 25.900000000000002 27.3 22 20.125 28.575 26.1 25.2 23 22.475 27.625 26.150000000000002 23.75 24 21.475 25.7 26.375 26.450000000000003 25 21.3 27.575 25.7 25.424999999999997 26 21.65 28.349999999999998 26.05 23.95 27 21.65 26.85 26.474999999999998 25.025 28 22.45 28.000000000000004 26.0 23.549999999999997 29 22.625 26.924999999999997 26.75 23.7 30 21.9 26.525 26.8 24.775 31 20.674999999999997 28.849999999999998 25.45 25.025 32 21.525 28.249999999999996 26.724999999999998 23.5 33 21.175 26.224999999999998 26.424999999999997 26.174999999999997 34 20.95 26.700000000000003 26.724999999999998 25.624999999999996 35 21.15 26.424999999999997 24.625 27.800000000000004 36 20.724999999999998 26.650000000000002 25.474999999999998 27.150000000000002 37 21.275 27.325 25.25 26.150000000000002 38 22.7 26.575 24.725 26.0 39 21.2 26.1 25.775 26.924999999999997 40 20.724999999999998 27.1 25.674999999999997 26.5 41 21.2 26.674999999999997 26.200000000000003 25.924999999999997 42 20.75 26.575 26.5 26.174999999999997 43 21.575 27.85 25.324999999999996 25.25 44 22.85 26.924999999999997 24.65 25.575 45 22.775000000000002 25.7 25.25 26.275 46 23.13078269567392 26.006501625406354 25.156289072268066 25.70642660665166 47 23.575 28.225 24.875 23.325000000000003 48 22.375 26.450000000000003 24.85 26.325 49 21.205301325331334 25.28132033008252 26.406601650412604 27.106776694173547 50 22.45 26.400000000000002 26.55 24.6 51 22.1 25.174999999999997 24.65 28.075 52 22.75 26.375 24.9 25.974999999999998 >>END_MODULE >>Per sequence GC content pass #GC Content Count 0 1.0 1 0.5 2 0.0 3 0.0 4 0.0 5 0.5 6 1.0 7 0.5 8 0.0 9 0.5 10 1.0 11 0.5 12 0.0 13 0.0 14 0.0 15 0.0 16 0.5 17 1.0 18 1.5 19 2.0 20 2.5 21 3.0 22 7.0 23 11.0 24 14.0 25 17.0 26 15.0 27 13.0 28 23.5 29 34.0 30 47.0 31 60.0 32 69.5 33 79.0 34 102.5 35 126.0 36 133.0 37 140.0 38 193.5 39 241.5 40 236.0 41 259.0 42 282.0 43 303.5 44 325.0 45 317.5 46 310.0 47 319.0 48 328.0 49 322.0 50 316.0 51 324.5 52 333.0 53 331.5 54 330.0 55 272.5 56 215.0 57 195.5 58 176.0 59 160.5 60 145.0 61 125.5 62 106.0 63 79.0 64 44.5 65 37.0 66 36.0 67 35.0 68 23.5 69 12.0 70 10.0 71 8.0 72 7.5 73 7.0 74 5.5 75 4.0 76 2.5 77 1.0 78 2.5 79 4.0 80 2.0 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 0.5 90 1.0 91 1.0 92 1.0 93 0.5 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 0.125 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 0.0 52 0.0 >>END_MODULE >>Sequence Length Distribution pass #Length Count 52 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 89.825 #Duplication Level Percentage of deduplicated Percentage of total 1 94.32229334817701 84.725 2 3.339827442248817 6.0 3 0.9184525466184247 2.475 4 0.695797383801837 2.5 5 0.30615084887280825 1.375 6 0.19482326746451434 1.05 7 0.08349568605622043 0.525 8 0.027831895352073477 0.2 9 0.027831895352073477 0.22499999999999998 >10 0.08349568605622043 0.9249999999999999 >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 17 0.42500000000000004 No Hit GTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCGATG 10 0.25 No Hit GTCCTAGAAGTGCATGATAAATACCGCCAAAGCCCAATACTGCAGAGGAAAT 10 0.25 No Hit CTCACGAGCAAGATCACGTCCCTCATTACGAGCTTGTACACATGCTTCTAGA 9 0.22499999999999998 No Hit GATCAAACTAGAGGTTACCAAAGAACCATGCATAGCACTGAATAGGGAGCCG 8 0.2 No Hit GGGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCG 7 0.17500000000000002 No Hit CCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACT 7 0.17500000000000002 No Hit GTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCC 7 0.17500000000000002 No Hit CCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCCCT 6 0.15 No Hit GCTCAGCCTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGAGG 6 0.15 No Hit CCTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAACGGC 6 0.15 No Hit CTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAACGGCA 6 0.15 No Hit GGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCGA 6 0.15 No Hit GTGAAGATACGTTGTTAGGTGCTCCATTTTATTTTCCCATTGAGGCCGAACC 6 0.15 No Hit GCTCCATTTGCTAGCTTCACGGATAATTTCATTACCCTCACGAGCAAGATCA 6 0.15 No Hit GTCGGTCCGCGACCCCTGGATGCCGAAGGCGTCCTTGGGGCGATCTCGTAGT 5 0.125 No Hit CGCAGAAGTAGGAATAATGGCACCAGAAATGATATTGTTTCCATAAAGTAGA 5 0.125 No Hit CTCCCAATCCCACATCAAACATGATAGTTGATGTGCTTGCTTAATGACCGCA 5 0.125 No Hit GTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCG 5 0.125 No Hit GTCCCTTATAACGATCAAGACTGGTAAGCCCGTCGGTCCACACAGTTGTCCA 5 0.125 No Hit CTTATAACGATCAAGACTGGTAAGCCCGTCGGTCCACACAGTTGTCCATGTA 5 0.125 No Hit GCACGGTTAATAATATCAGCCCAGGTATTAATTACACGACCTTGACTATCAA 5 0.125 No Hit GTAGAAGATTCAGCAGCTACTGCGGCCCCTGCTTCCTCGGGCGGAACTCCAG 5 0.125 No Hit GTGCATAAGGATGTTGTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTA 5 0.125 No Hit ATCAAACTAGAGGTTACCAAAGAACCATGCATAGCACTGAATAGGGAGCCGC 5 0.125 No Hit CCGCAGAAGTAGGAATAATGGCACCAGAAATGATATTGTTTCCATAAAGTAG 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 0.025 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 SRR5423423.sra Written 200000 spots for SRR5423423.sra Read 200000 spots for SRR5423423.sra Written 200000 spots for SRR5423423.sra Read 200000 spots for SRR5423423.sra Written 200000 spots for SRR5423423.sra Read 200000 spots for SRR5423423.sra Written 200000 spots for SRR5423423.sra Read 200000 spots for SRR5423423.sra Written 200000 spots for SRR5423423.sra Read 200000 spots for SRR5423423.sra Written 200000 spots for SRR5423423.sra Read 200000 spots for SRR5423423.sra Written 200000 spots for SRR5423423.sra Read 200000 spots for SRR5423423.sra Written 200000 spots for SRR5423423.sra Read 200000 spots for SRR5423423.sra Written 200000 spots for SRR5423423.sra Read 200000 spots for SRR5423423.sra Written 200000 spots for SRR5423423.sra Read 200000 spots for SRR5423423.sra Written 200000 spots for SRR5423423.sra Read 200000 spots for SRR5423423.sra Written 200000 spots for SRR5423423.sra Read 200000 spots for SRR5423423.sra Written 200000 spots for SRR5423423.sra Read 200000 spots for SRR5423423.sra Written 200000 spots for SRR5423423.sra Read 200000 spots for SRR5423423.sra Written 200000 spots for SRR5423423.sra Read 200000 spots for SRR5423423.sra Written 200000 spots for SRR5423423.sra Read 200000 spots for SRR5423423.sra Written 200000 spots for SRR5423423.sra Read 200000 spots for SRR5423423.sra Written 200000 spots for SRR5423423.sra Read 200000 spots for SRR5423423.sra Written 200000 spots for SRR5423423.sra Read 200000 spots for SRR5423423.sra Written 200000 spots for SRR5423423.sra SRR ids: ['SRR5423423.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_m7jl6osx SRR5423423.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]] SRR5423423 file size 704025 SRR5423423 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 SRR5423423 SRR5423423_1.fastq Input file: SRR5423423_1.fastq trimmed: SRR5423423-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 09:01:49 2025 >> started Wed Feb 12 09:01:52 2025 >> done (2.014s) 4000000 reads processed; of these: 138 ( 0.00%) short reads filtered out after trimming by size control 74 ( 0.00%) empty reads filtered out after trimming by size control 3999788 (99.99%) reads available; of these: 78802 ( 1.97%) trimmed reads available after processing 3920986 (98.03%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 18 0.00% 19 2 0.00% 20 4 0.00% 21 1 0.00% 22 0 0.00% 23 0 0.00% 24 2 0.00% 25 1 0.00% 26 0 0.00% 27 7 0.00% 28 1 0.00% 29 5 0.00% 30 5 0.00% 31 3 0.00% 32 11 0.00% 33 9 0.00% 34 10 0.00% 35 16 0.00% 36 23 0.00% 37 22 0.00% 38 25 0.00% 39 41 0.00% 40 58 0.00% 41 63 0.00% 42 82 0.00% 43 129 0.00% 44 236 0.01% 45 284 0.01% 46 439 0.01% 47 706 0.02% 48 1434 0.04% 49 3206 0.08% 50 9984 0.25% 51 61975 1.55% 52 3920986 98.03% 3999788 reads passed initial QC criterion=sequence-density sequence-density=0.45 sequence-density-rank=1 fanout-score=2.02 fanout-score-rank=27 prefix-density=0.46 prefix-fanout=2.0 sequence=TGCTTAATGACCGCATGTGCAGGTAGTGCAAGTGCAGCCAGTACCGCAGTTGCACTTGCCATCGTTCTCAGCTGCTGGCACCTCCATGAC criterion=fanout-score sequence-density=0.01 sequence-density-rank=30 fanout-score=24.46 fanout-score-rank=1 prefix-density=0.30 prefix-fanout=1.2 sequence=CATTTTATTTCTATCTTTCCATACATAACCAAAAAATGGAAAAGATTCTTCAAGAGTCTCGGGTCCTAGAAGTGCATGATAAATACCGCCAAAGCCCAATACTGCAGAGGAAATTAAGTGAAGTACGCCAGATACAAAGTATGGAAAGGTGTCTATGACTTCCCCGCCAGGACCCACCCCCCAACCTAGAGTAGCTAGGTGGGGAAGTAAAATTAATCCTTGTTCATACATTGGCTTCTCCGGTACGAAATGGGCCACTTCAAATAGGTTCATTGCTCCGGCCCAGAATACGATTAATCCAGCATGGGCTACATGAGCTCCCAGCAG Started job on | Feb 12 09:02:04 Started mapping on | Feb 12 09:02:04 Finished on | Feb 12 09:02:09 Mapping speed, Million of reads per hour | 2879.85 Number of input reads | 3999788 Average input read length | 51 UNIQUE READS: Uniquely mapped reads number | 3130673 Uniquely mapped reads % | 78.27% Average mapped length | 51.77 Number of splices: Total | 286914 Number of splices: Annotated (sjdb) | 282430 Number of splices: GT/AG | 280380 Number of splices: GC/AG | 5317 Number of splices: AT/AC | 756 Number of splices: Non-canonical | 461 Mismatch rate per base, % | 0.41% Deletion rate per base | 0.01% Deletion average length | 2.23 Insertion rate per base | 0.00% Insertion average length | 1.35 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 714507 % of reads mapped to multiple loci | 17.86% Number of reads mapped to too many loci | 84368 % of reads mapped to too many loci | 2.11% 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 154608 154608 154608 N_multimapping 714507 714507 714507 N_noFeature 396674 3085389 430562 N_ambiguous 21993 159 10451 UnstrandedReadsAssigned:2712006 PositiveStrandReadsAssigned:45125 NegativeStrandReadsAssigned:2689660 Dataset is classified negative stranded MeadianReadLen=52 20thPercentileLength=52 echo kmer=47 SRR5423423 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: SRR5423423-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 3,999,788 reads, 3,263,723 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,063 rounds 52401 SRR5423423.ke.tsv 34699 SRR5423423.se.tsv 87100 total ==> SRR5423423.ke.tsv <== target_id length eff_length est_counts tpm Potri.005G200100.1.v4.1 2018 1919 132 19.3187 Potri.005G024800.1.v4.1 1035 936 25 7.50142 Potri.004G059700.1.v4.1 961 862 3 0.977447 Potri.007G009000.2.v4.1 1416 1317 0 0 Potri.003G141000.2.v4.1 2943 2844 52.6048 5.19488 Potri.016G087400.1.v4.1 270 171 14 22.9938 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 7 2.23915 ==> SRR5423423.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 6 Potri.001G416900.v4.1 0 Potri.001G452600.v4.1 0 SRR5423423 completed mapping pipeline successfully