Starting /dee2/code/volunteer_pipeline.sh SRR5423405 current disk space = 3052657442816 free memory = 1582179620 SRR5423405 SRAfilesize d7d788c58ebc7828638590c8eedcc7e2 SRR5423405.sra SRR5423405.sra file validated SRR5423405 is single end SRR5423405 is conventional basespace SRR5423405 read1 length is 52 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5423405_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 32.54175 34.0 31.0 34.0 31.0 34.0 2 32.562 34.0 31.0 34.0 31.0 34.0 3 32.659 34.0 31.0 34.0 31.0 34.0 4 35.9915 37.0 35.0 37.0 35.0 37.0 5 36.076 37.0 35.0 37.0 35.0 37.0 6 36.037 37.0 35.0 37.0 35.0 37.0 7 36.0935 37.0 35.0 37.0 35.0 37.0 8 36.11375 37.0 35.0 37.0 35.0 37.0 9 37.78325 39.0 37.0 39.0 35.0 39.0 10 37.7365 39.0 38.0 39.0 35.0 39.0 11 37.73125 39.0 38.0 39.0 35.0 39.0 12 37.63575 39.0 37.0 39.0 35.0 39.0 13 37.6265 39.0 37.0 39.0 35.0 39.0 14 38.98975 40.0 38.0 41.0 36.0 41.0 15 38.927 40.0 38.0 41.0 35.0 41.0 16 39.04425 40.0 38.0 41.0 36.0 41.0 17 39.08825 40.0 39.0 41.0 36.0 41.0 18 38.9825 40.0 38.0 41.0 36.0 41.0 19 39.076 40.0 39.0 41.0 36.0 41.0 20 38.96475 40.0 38.0 41.0 36.0 41.0 21 38.89 40.0 38.0 41.0 35.0 41.0 22 38.97125 40.0 39.0 41.0 36.0 41.0 23 38.87 40.0 38.0 41.0 35.0 41.0 24 38.73425 40.0 38.0 41.0 34.0 41.0 25 38.842 40.0 38.0 41.0 35.0 41.0 26 38.74425 40.0 38.0 41.0 34.0 41.0 27 38.651 40.0 38.0 41.0 34.0 41.0 28 38.564 40.0 38.0 41.0 34.0 41.0 29 38.66925 40.0 38.0 41.0 34.0 41.0 30 38.69425 40.0 38.0 41.0 35.0 41.0 31 38.55875 40.0 38.0 41.0 34.0 41.0 32 38.68375 40.0 38.0 41.0 35.0 41.0 33 38.5215 40.0 38.0 41.0 34.0 41.0 34 38.55575 40.0 38.0 41.0 35.0 41.0 35 38.4815 40.0 38.0 41.0 34.0 41.0 36 38.29375 40.0 38.0 41.0 34.0 41.0 37 38.31425 40.0 38.0 41.0 34.0 41.0 38 38.13725 40.0 38.0 41.0 33.0 41.0 39 38.15975 40.0 38.0 41.0 33.0 41.0 40 38.1075 40.0 38.0 41.0 33.0 41.0 41 38.068 40.0 38.0 41.0 33.0 41.0 42 38.047 40.0 38.0 41.0 33.0 41.0 43 37.731 40.0 37.0 41.0 32.0 41.0 44 37.7295 40.0 37.0 41.0 33.0 41.0 45 37.69 40.0 37.0 41.0 32.0 41.0 46 37.55975 40.0 37.0 41.0 32.0 41.0 47 37.675 40.0 37.0 41.0 32.0 41.0 48 37.29875 40.0 37.0 41.0 31.0 41.0 49 37.2225 40.0 36.0 41.0 31.0 41.0 50 37.4755 40.0 37.0 41.0 32.0 41.0 51 37.12475 40.0 36.0 41.0 31.0 41.0 52 35.793 38.0 34.0 40.0 27.0 41.0 >>END_MODULE >>Per tile sequence quality pass #Tile Base Mean 2205 1 0.0 2205 2 0.0 2205 3 0.0 2205 4 0.0 2205 5 0.0 2205 6 0.0 2205 7 0.0 2205 8 0.0 2205 9 0.0 2205 10 0.0 2205 11 0.0 2205 12 0.0 2205 13 0.0 2205 14 0.0 2205 15 0.0 2205 16 0.0 2205 17 0.0 2205 18 0.0 2205 19 0.0 2205 20 0.0 2205 21 0.0 2205 22 0.0 2205 23 0.0 2205 24 0.0 2205 25 0.0 2205 26 0.0 2205 27 0.0 2205 28 0.0 2205 29 0.0 2205 30 0.0 2205 31 0.0 2205 32 0.0 2205 33 0.0 2205 34 0.0 2205 35 0.0 2205 36 0.0 2205 37 0.0 2205 38 0.0 2205 39 0.0 2205 40 0.0 2205 41 0.0 2205 42 0.0 2205 43 0.0 2205 44 0.0 2205 45 0.0 2205 46 0.0 2205 47 0.0 2205 48 0.0 2205 49 0.0 2205 50 0.0 2205 51 0.0 2205 52 0.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 9 1.0 10 0.0 11 0.0 12 1.0 13 0.0 14 0.0 15 0.0 16 0.0 17 0.0 18 0.0 19 0.0 20 2.0 21 2.0 22 1.0 23 0.0 24 2.0 25 10.0 26 17.0 27 12.0 28 33.0 29 29.0 30 53.0 31 65.0 32 72.0 33 109.0 34 151.0 35 182.0 36 260.0 37 411.0 38 737.0 39 1845.0 40 5.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 30.58823529411765 9.586983729662078 7.234042553191489 52.59073842302878 2 21.175 12.45 38.074999999999996 28.299999999999997 3 20.7 13.925 24.4 40.975 4 25.674999999999997 24.55 19.650000000000002 30.125 5 24.45 29.95 23.925 21.675 6 19.425 33.025 25.05 22.5 7 14.924999999999999 23.5 40.75 20.825 8 18.0 23.325000000000003 30.599999999999998 28.075 9 17.775 20.599999999999998 34.9 26.724999999999998 10 19.625 37.025000000000006 23.375 19.975 11 23.674999999999997 26.900000000000002 21.45 27.975 12 21.775 24.125 26.0 28.1 13 19.650000000000002 28.449999999999996 27.175 24.725 14 20.125 28.95 26.450000000000003 24.474999999999998 15 21.9 27.325 27.900000000000002 22.875 16 20.150000000000002 27.400000000000002 27.075 25.374999999999996 17 21.75 27.800000000000004 26.775 23.674999999999997 18 22.400000000000002 26.3 27.05 24.25 19 20.95 28.375 25.874999999999996 24.8 20 22.725 26.8 25.074999999999996 25.4 21 20.605151287821954 26.406601650412604 26.906726681670417 26.081520380095025 22 20.65 28.525 24.675 26.150000000000002 23 20.9 29.299999999999997 24.6 25.2 24 21.15 26.25 26.650000000000002 25.95 25 21.525 25.95 26.025 26.5 26 21.325 26.775 27.200000000000003 24.7 27 20.5 27.150000000000002 26.25 26.1 28 21.275 27.525 26.775 24.425 29 21.425 26.775 27.650000000000002 24.15 30 20.7 25.05 27.1 27.150000000000002 31 21.45 26.275 27.875 24.4 32 22.125 26.775 25.8 25.3 33 20.825 26.900000000000002 26.775 25.5 34 20.674999999999997 26.924999999999997 26.325 26.075 35 20.45 27.075 25.95 26.525 36 20.275000000000002 26.450000000000003 26.5 26.775 37 21.475 25.825 25.924999999999997 26.775 38 22.8 25.75 24.7 26.75 39 21.2 25.4 25.575 27.825 40 20.8 28.525 26.474999999999998 24.2 41 22.1 27.325 25.0 25.575 42 21.125 27.3 24.85 26.724999999999998 43 21.925 25.900000000000002 26.05 26.125 44 22.575 27.825 25.974999999999998 23.625 45 23.35 24.85 25.924999999999997 25.874999999999996 46 22.775000000000002 26.325 24.325 26.575 47 22.080520130032507 27.68192048012003 25.331332833208304 24.90622655663916 48 21.57157157157157 26.126126126126124 26.126126126126124 26.176176176176174 49 20.68017004251063 25.18129532383096 25.95648912228057 28.182045511377847 50 21.325 27.450000000000003 24.5 26.724999999999998 51 22.386193096548272 24.512256128064035 26.338169084542272 26.76338169084542 52 23.3 26.075 25.0 25.624999999999996 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 0.0 1 0.5 2 1.0 3 1.0 4 1.0 5 0.5 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 0.0 15 0.0 16 1.5 17 3.0 18 3.0 19 3.0 20 4.0 21 5.0 22 6.5 23 8.0 24 8.0 25 8.0 26 10.0 27 12.0 28 25.5 29 39.0 30 48.0 31 57.0 32 62.5 33 68.0 34 85.0 35 102.0 36 128.0 37 154.0 38 172.5 39 214.0 40 237.0 41 254.5 42 272.0 43 305.0 44 338.0 45 338.5 46 339.0 47 325.5 48 312.0 49 333.5 50 355.0 51 358.0 52 361.0 53 347.0 54 333.0 55 262.5 56 192.0 57 192.5 58 193.0 59 183.0 60 173.0 61 139.5 62 106.0 63 78.0 64 44.0 65 38.0 66 29.5 67 21.0 68 15.5 69 10.0 70 7.5 71 5.0 72 5.0 73 5.0 74 5.0 75 5.0 76 3.5 77 2.0 78 1.0 79 0.0 80 0.0 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 0.0 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 0.125 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 0.025 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 0.025 48 0.1 49 0.025 50 0.0 51 0.05 52 0.0 >>END_MODULE >>Sequence Length Distribution pass #Length Count 52 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 86.275 #Duplication Level Percentage of deduplicated Percentage of total 1 92.49492900608519 79.80000000000001 2 4.462474645030426 7.7 3 1.3619240799768184 3.5249999999999995 4 0.7534048101999421 2.6 5 0.3187481889307447 1.375 6 0.14488554042306578 0.75 7 0.08693132425383947 0.525 8 0.11590843233845263 0.8 9 0.057954216169226316 0.44999999999999996 >10 0.2028397565922921 2.475 >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 21 0.525 No Hit CTCGTATTTTCCCCTCTGCCTCGGGTTGTCTCGCGATACCTTCTACAGCTTG 18 0.44999999999999996 No Hit CTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAACGGCA 13 0.325 No Hit CCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACT 13 0.325 No Hit GGGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCG 12 0.3 No Hit CTCCAGCAACGGGCTCGATGTCGTAGCATCGTCCCTTATAACGATCAAGACT 12 0.3 No Hit GTCCCTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAAC 10 0.25 No Hit CCCTCATTACGAGCTTGTACACATGCTTCTAGAGCTACTCGATTAGCAACGG 9 0.22499999999999998 No Hit CTTATAACGATCAAGACTGGTAAGCCCGTCGGTCCACACAGTTGTCCATGTA 9 0.22499999999999998 No Hit CTGCAAAGGATTCTACCCGCCGCTCGGTGGGAATTGTACTTCAAGGCGGCCC 8 0.2 No Hit GTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGA 8 0.2 No Hit GGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCGA 8 0.2 No Hit GTTTCCCTGATCAAACTAGAGGTTACCAAAGAACCATGCATAGCACTGAATA 8 0.2 No Hit GTCCCTTATAACGATCAAGACTGGTAAGCCCGTCGGTCCACACAGTTGTCCA 7 0.17500000000000002 No Hit GTGCATAAGGATGTTGTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTA 7 0.17500000000000002 No Hit CTCAGCCTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGAGGC 7 0.17500000000000002 No Hit GTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCG 6 0.15 No Hit CCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCCCTGCTTCCTCGGGC 6 0.15 No Hit GCCAGACTAAGCAATAAAGTACCTCGTATTTTCCCCTCTGCCTCGGGTTGTC 6 0.15 No Hit CTCGTACACACTAAGAAAAAAGCCTTATCCATTTACAAAAGTCTTATCCATT 6 0.15 No Hit CCGCCGAATACACCAGCTACGCCTAACATGTGAAATGGGTGCATAAGGATGT 6 0.15 No Hit CCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCCCT 5 0.125 No Hit CTTCCATACTTCACAAGCAGCAGCTAGTTCAGGGCTCCATTTGCTAGCTTCA 5 0.125 No Hit CTTAAGAATGCTGGTTTTAAGAATGAGTGATTGCCCTTCTCCGACCCTTACT 5 0.125 No Hit CTCGGGTCCTAGAAGTGCATGATAAATACCGCCAAAGCCCAATACTGCAGAG 5 0.125 No Hit CTCACGAGCAAGATCACGTCCCTCATTACGAGCTTGTACACATGCTTCTAGA 5 0.125 No Hit CCAGCAACGGGCTCGATGTCGTAGCATCGTCCCTTATAACGATCAAGACTGG 5 0.125 No Hit CTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGAGGCATCCCA 5 0.125 No Hit CTCGATTAGCAACGGCACCGGGTGCATTTCCCCAAGGGTGCCCTAAAGTTCC 5 0.125 No Hit CCGCATTTCGCTAAAGGGTTGAAGGAGGATAGTGCATCAAGCTGTTCGCAAG 5 0.125 No Hit CCCGGTTCGAACAGGAGAAGTACGCCATGCTAATGTGCCTTGGATGATCCAC 5 0.125 No Hit GCCAGATACAAAGTATGGAAAGGTGTCTATGACTTCCCCGCCAGGACCCACC 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 SRR5423405.sra Written 200000 spots for SRR5423405.sra Read 200000 spots for SRR5423405.sra Written 200000 spots for SRR5423405.sra Read 200000 spots for SRR5423405.sra Written 200000 spots for SRR5423405.sra Read 200000 spots for SRR5423405.sra Written 200000 spots for SRR5423405.sra Read 200000 spots for SRR5423405.sra Written 200000 spots for SRR5423405.sra Read 200000 spots for SRR5423405.sra Written 200000 spots for SRR5423405.sra Read 200000 spots for SRR5423405.sra Written 200000 spots for SRR5423405.sra Read 200000 spots for SRR5423405.sra Written 200000 spots for SRR5423405.sra Read 200000 spots for SRR5423405.sra Written 200000 spots for SRR5423405.sra Read 200000 spots for SRR5423405.sra Written 200000 spots for SRR5423405.sra Read 200000 spots for SRR5423405.sra Written 200000 spots for SRR5423405.sra Read 200000 spots for SRR5423405.sra Written 200000 spots for SRR5423405.sra Read 200000 spots for SRR5423405.sra Written 200000 spots for SRR5423405.sra Read 200000 spots for SRR5423405.sra Written 200000 spots for SRR5423405.sra Read 200000 spots for SRR5423405.sra Written 200000 spots for SRR5423405.sra Read 200000 spots for SRR5423405.sra Written 200000 spots for SRR5423405.sra Read 200000 spots for SRR5423405.sra Written 200000 spots for SRR5423405.sra Read 200000 spots for SRR5423405.sra Written 200000 spots for SRR5423405.sra Read 200000 spots for SRR5423405.sra Written 200000 spots for SRR5423405.sra Read 200000 spots for SRR5423405.sra Written 200000 spots for SRR5423405.sra SRR ids: ['SRR5423405.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_k1xt0t1i SRR5423405.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]] SRR5423405 file size 703959 SRR5423405 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 SRR5423405 SRR5423405_1.fastq Input file: SRR5423405_1.fastq trimmed: SRR5423405-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 07:55:44 2025 >> started Thu Feb 13 08:00:43 2025 >> done (298.647s) 4000000 reads processed; of these: 160 ( 0.00%) short reads filtered out after trimming by size control 47 ( 0.00%) empty reads filtered out after trimming by size control 3999793 (99.99%) reads available; of these: 70218 ( 1.76%) trimmed reads available after processing 3929575 (98.24%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 9 0.00% 19 4 0.00% 20 5 0.00% 21 1 0.00% 22 1 0.00% 23 1 0.00% 24 2 0.00% 25 1 0.00% 26 0 0.00% 27 4 0.00% 28 2 0.00% 29 3 0.00% 30 2 0.00% 31 6 0.00% 32 6 0.00% 33 12 0.00% 34 13 0.00% 35 18 0.00% 36 21 0.00% 37 20 0.00% 38 30 0.00% 39 29 0.00% 40 39 0.00% 41 60 0.00% 42 93 0.00% 43 109 0.00% 44 352 0.01% 45 382 0.01% 46 402 0.01% 47 565 0.01% 48 1222 0.03% 49 3073 0.08% 50 8689 0.22% 51 55042 1.38% 52 3929575 98.24% 3999793 reads passed initial QC criterion=sequence-density sequence-density=0.49 sequence-density-rank=1 fanout-score=1.95 fanout-score-rank=21 prefix-density=0.50 prefix-fanout=1.9 sequence=TGAGATGCCTCAGTGCATCCAAACATGGGTAG criterion=fanout-score sequence-density=0.01 sequence-density-rank=35 fanout-score=150.74 fanout-score-rank=1 prefix-density=0.74 prefix-fanout=1.1 sequence=CCCTCTGCCACAAATTTTGACGTAGGCTCTCCCTCTTGGGGAGACCTTAG Started job on | Feb 13 08:05:09 Started mapping on | Feb 13 08:05:31 Finished on | Feb 13 08:21:44 Mapping speed, Million of reads per hour | 14.80 Number of input reads | 3999793 Average input read length | 51 UNIQUE READS: Uniquely mapped reads number | 3118393 Uniquely mapped reads % | 77.96% Average mapped length | 51.81 Number of splices: Total | 276081 Number of splices: Annotated (sjdb) | 272803 Number of splices: GT/AG | 268275 Number of splices: GC/AG | 6261 Number of splices: AT/AC | 1030 Number of splices: Non-canonical | 515 Mismatch rate per base, % | 0.33% Deletion rate per base | 0.01% Deletion average length | 2.75 Insertion rate per base | 0.00% Insertion average length | 1.35 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 764606 % of reads mapped to multiple loci | 19.12% Number of reads mapped to too many loci | 54999 % of reads mapped to too many loci | 1.38% 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 116794 116794 116794 N_multimapping 764606 764606 764606 N_noFeature 403934 3077516 433408 N_ambiguous 22522 146 10988 UnstrandedReadsAssigned:2691937 PositiveStrandReadsAssigned:40731 NegativeStrandReadsAssigned:2673997 Dataset is classified negative stranded MeadianReadLen=52 20thPercentileLength=52 echo kmer=47 SRR5423405 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: SRR5423405-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 3,999,793 reads, 3,294,037 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,116 rounds 52401 SRR5423405.ke.tsv 34699 SRR5423405.se.tsv 87100 total ==> SRR5423405.ke.tsv <== target_id length eff_length est_counts tpm Potri.005G200100.1.v4.1 2018 1919 72 10.0519 Potri.005G024800.1.v4.1 1035 936 2 0.572459 Potri.004G059700.1.v4.1 961 862 2 0.621603 Potri.007G009000.2.v4.1 1416 1317 0 0 Potri.003G141000.2.v4.1 2943 2844 61.6128 5.80406 Potri.016G087400.1.v4.1 270 171 14 21.9342 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 4 1.22055 ==> SRR5423405.se.tsv <== Potri.001G166300.v4.1 1 Potri.001G448400.v4.1 5 Potri.001G233950.v4.1 0 Potri.001G122700.v4.1 11 Potri.001G212900.v4.1 1 Potri.001G182400.v4.1 0 Potri.001G256600.v4.1 0 Potri.001G040500.v4.1 3 Potri.001G416900.v4.1 0 Potri.001G452600.v4.1 2 SRR5423405 completed mapping pipeline successfully