Starting /dee2/code/volunteer_pipeline.sh SRR5423386 current disk space = 3049678376960 free memory = 1299493064 SRR5423386 SRAfilesize 0ecd9f842e80185b4752ee92edf65fcb SRR5423386.sra SRR5423386.sra file validated SRR5423386 is single end SRR5423386 is conventional basespace SRR5423386 read1 length is 52 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5423386_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 32.47725 34.0 31.0 34.0 31.0 34.0 2 32.5585 34.0 31.0 34.0 31.0 34.0 3 32.61325 34.0 31.0 34.0 31.0 34.0 4 36.05675 37.0 35.0 37.0 35.0 37.0 5 36.03275 37.0 35.0 37.0 35.0 37.0 6 36.00375 37.0 35.0 37.0 35.0 37.0 7 36.10075 37.0 35.0 37.0 35.0 37.0 8 36.0925 37.0 36.0 37.0 35.0 37.0 9 37.738 39.0 38.0 39.0 35.0 39.0 10 37.73125 39.0 38.0 39.0 35.0 39.0 11 37.69425 39.0 38.0 39.0 35.0 39.0 12 37.67425 39.0 38.0 39.0 35.0 39.0 13 37.75025 39.0 38.0 39.0 35.0 39.0 14 39.11275 40.0 39.0 41.0 36.0 41.0 15 39.102 40.0 39.0 41.0 36.0 41.0 16 39.13775 40.0 39.0 41.0 36.0 41.0 17 39.03625 40.0 39.0 41.0 36.0 41.0 18 38.93925 40.0 38.0 41.0 36.0 41.0 19 39.06975 40.0 39.0 41.0 35.0 41.0 20 38.906 40.0 39.0 41.0 35.0 41.0 21 38.889 40.0 38.0 41.0 35.0 41.0 22 38.91575 40.0 39.0 41.0 35.0 41.0 23 38.99 40.0 39.0 41.0 35.0 41.0 24 38.7265 40.0 38.0 41.0 34.0 41.0 25 38.74175 40.0 38.0 41.0 34.0 41.0 26 38.612 40.0 38.0 41.0 34.0 41.0 27 38.6225 40.0 38.0 41.0 34.0 41.0 28 38.72575 40.0 38.0 41.0 35.0 41.0 29 38.64 40.0 38.0 41.0 34.0 41.0 30 38.651 40.0 38.0 41.0 34.0 41.0 31 38.641 40.0 38.0 41.0 34.0 41.0 32 38.63725 40.0 38.0 41.0 34.0 41.0 33 38.562 40.0 38.0 41.0 34.0 41.0 34 38.4455 40.0 38.0 41.0 34.0 41.0 35 38.43575 40.0 38.0 41.0 34.0 41.0 36 38.3275 40.0 38.0 41.0 34.0 41.0 37 38.23625 40.0 38.0 41.0 33.0 41.0 38 38.18475 40.0 38.0 41.0 33.0 41.0 39 38.19175 40.0 38.0 41.0 33.0 41.0 40 38.009 40.0 38.0 41.0 33.0 41.0 41 37.9575 40.0 38.0 41.0 33.0 41.0 42 37.77125 40.0 37.0 41.0 32.0 41.0 43 37.87225 40.0 37.0 41.0 33.0 41.0 44 37.94775 40.0 38.0 41.0 33.0 41.0 45 37.843 40.0 37.0 41.0 32.0 41.0 46 37.721 40.0 37.0 41.0 32.0 41.0 47 37.6595 40.0 37.0 41.0 32.0 41.0 48 37.4985 40.0 37.0 41.0 32.0 41.0 49 37.477 40.0 37.0 41.0 32.0 41.0 50 37.29525 40.0 36.0 41.0 31.0 41.0 51 37.13975 39.0 36.0 41.0 31.0 41.0 52 36.0655 38.0 35.0 40.0 28.0 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 11 2.0 12 0.0 13 1.0 14 0.0 15 1.0 16 0.0 17 0.0 18 0.0 19 1.0 20 0.0 21 2.0 22 3.0 23 2.0 24 7.0 25 12.0 26 11.0 27 16.0 28 25.0 29 33.0 30 48.0 31 60.0 32 76.0 33 96.0 34 137.0 35 183.0 36 272.0 37 412.0 38 751.0 39 1843.0 40 6.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 45.381727158948685 13.642052565707132 5.256570713391739 35.71964956195244 2 21.55 14.149999999999999 36.025 28.275 3 19.525000000000002 19.8 25.525 35.15 4 25.0 26.700000000000003 21.349999999999998 26.950000000000003 5 24.75 31.900000000000002 22.575 20.775 6 20.200000000000003 33.75 23.849999999999998 22.2 7 15.9 25.224999999999998 39.225 19.650000000000002 8 17.7 22.85 29.575000000000003 29.875 9 17.575 22.925 33.074999999999996 26.424999999999997 10 19.225 39.525 21.85 19.400000000000002 11 22.7 29.075 21.05 27.175 12 22.5 24.099999999999998 25.825 27.575 13 20.95 28.7 27.0 23.35 14 19.975 28.575 26.924999999999997 24.525 15 21.125 26.6 26.625 25.650000000000002 16 21.425 26.8 25.55 26.224999999999998 17 21.349999999999998 26.400000000000002 25.624999999999996 26.625 18 20.75 27.275 25.775 26.200000000000003 19 22.85 27.375 25.324999999999996 24.45 20 21.6 27.525 25.650000000000002 25.224999999999998 21 20.230057514378593 27.28182045511378 25.85646411602901 26.63165791447862 22 22.175 27.6 24.0 26.224999999999998 23 21.875 27.650000000000002 25.7 24.775 24 21.85 26.674999999999997 25.575 25.900000000000002 25 21.099999999999998 26.825 25.424999999999997 26.650000000000002 26 21.725 28.249999999999996 26.05 23.974999999999998 27 20.95 27.800000000000004 25.4 25.85 28 21.9 27.775 26.0 24.325 29 19.675 28.1 28.375 23.849999999999998 30 20.65 26.6 26.3 26.450000000000003 31 21.099999999999998 27.450000000000003 26.674999999999997 24.775 32 21.925 27.6 25.074999999999996 25.4 33 21.075 26.200000000000003 26.025 26.700000000000003 34 21.525 28.050000000000004 25.275 25.15 35 21.224999999999998 26.55 25.275 26.950000000000003 36 20.95 27.3 25.775 25.974999999999998 37 21.175 27.125 26.174999999999997 25.525 38 22.75 25.95 24.65 26.650000000000002 39 20.575 26.325 25.424999999999997 27.675 40 22.05 27.55 25.525 24.875 41 21.875 27.150000000000002 23.775 27.200000000000003 42 20.65 26.85 25.5 27.0 43 21.7 28.050000000000004 25.724999999999998 24.525 44 23.1 26.174999999999997 25.825 24.9 45 22.3 26.1 25.825 25.775 46 23.75 26.075 24.9 25.275 47 22.88072018004501 28.182045511377847 25.256314078519633 23.680920230057513 48 21.79134350763072 26.444833625218916 25.444083062296723 26.319739804853644 49 22.630657664416105 26.431607901975497 25.431357839459867 25.506376594148538 50 22.85571392848212 26.806701675418854 24.256064016004 26.081520380095025 51 22.155538884721178 25.85646411602901 25.03125781445361 26.9567391847962 52 23.9 26.025 24.55 25.525 >>END_MODULE >>Per sequence GC content warn #GC Content Count 0 3.0 1 3.5 2 4.0 3 3.5 4 3.0 5 2.0 6 1.0 7 1.0 8 1.0 9 1.0 10 1.0 11 0.5 12 0.0 13 0.0 14 1.0 15 2.0 16 2.0 17 2.0 18 4.0 19 6.0 20 8.0 21 10.0 22 8.0 23 6.0 24 12.0 25 18.0 26 22.0 27 26.0 28 29.0 29 32.0 30 48.0 31 64.0 32 75.0 33 86.0 34 106.0 35 126.0 36 146.0 37 166.0 38 182.0 39 219.0 40 240.0 41 247.5 42 255.0 43 260.0 44 265.0 45 289.5 46 314.0 47 318.0 48 322.0 49 314.0 50 306.0 51 319.5 52 333.0 53 325.0 54 317.0 55 274.5 56 232.0 57 201.5 58 171.0 59 176.5 60 182.0 61 152.0 62 122.0 63 92.0 64 52.0 65 42.0 66 34.5 67 27.0 68 25.5 69 24.0 70 19.0 71 14.0 72 8.0 73 2.0 74 2.0 75 2.0 76 3.5 77 5.0 78 3.0 79 1.0 80 2.5 81 4.0 82 3.5 83 3.0 84 1.5 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 0.075 49 0.025 50 0.025 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 87.8 #Duplication Level Percentage of deduplicated Percentage of total 1 92.96697038724373 81.625 2 4.242596810933941 7.449999999999999 3 1.3952164009111616 3.675 4 0.4271070615034169 1.5 5 0.48405466970387245 2.125 6 0.17084282460136674 0.8999999999999999 7 0.05694760820045558 0.35000000000000003 8 0.08542141230068337 0.6 9 0.02847380410022779 0.22499999999999998 >10 0.14236902050113895 1.55 >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 GTCCCTTATAACGATCAAGACTGGTAAGCCCGTCGGTCCACACAGTTGTCCA 17 0.42500000000000004 No Hit GCCAGACTAAGCAATAAAGTACCTCGTATTTTCCCCTCTGCCTCGGGTTGTC 12 0.3 No Hit GGGTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCGA 12 0.3 No Hit CGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGC 11 0.27499999999999997 No Hit GTTAATAATATCAGCCCAGGTATTAATTACACGACCTTGACTATCAACTACA 10 0.25 No Hit CTCCAGCAACGGGCTCGATGTCGTAGCATCGTCCCTTATAACGATCAAGACT 9 0.22499999999999998 No Hit GTAAGCTACATAAGCAATAAATTGATTTTCTTCTCCAGCAACGGGCTCGATG 8 0.2 No Hit GTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCC 8 0.2 No Hit GTGCATAAGGATGTTGTGCTCAGCCTGGAATACAATCATAAAGTTAAAAGTA 8 0.2 No Hit CCAGCAACGGGCTCGATGTCGTAGCATCGTCCCTTATAACGATCAAGACTGG 7 0.17500000000000002 No Hit CTCAGCCTGGAATACAATCATAAAGTTAAAAGTACCAGAGATTCCTAGAGGC 7 0.17500000000000002 No Hit CTCGTATTTTCCCCTCTGCCTCGGGTTGTCTCGCGATACCTTCTACAGCTTG 6 0.15 No Hit CAGGTATTAATTACACGACCTTGACTATCAACTACAGATTGGTTGAAATTGA 6 0.15 No Hit CTCACGAGCAAGATCACGTCCCTCATTACGAGCTTGTACACATGCTTCTAGA 6 0.15 No Hit GGTCGGTCCATGGATTTTCCTTCCTTTTTCCGCATTTCGCTAAAGGGTTGAA 6 0.15 No Hit GCACGGTTAATAATATCAGCCCAGGTATTAATTACACGACCTTGACTATCAA 6 0.15 No Hit GTTAAAACTAGCATATTGGAAGATCAATCGGCCAAAATAACCATGAGCGGCT 6 0.15 No Hit CCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTACTGCGGCCCCT 5 0.125 No Hit GGTTAATAATATCAGCCCAGGTATTAATTACACGACCTTGACTATCAACTAC 5 0.125 No Hit GATCAAACTAGAGGTTACCAAAGAACCATGCATAGCACTGAATAGGGAGCCG 5 0.125 No Hit GTGGAGACGATGGGGTCGGTCCATGGATTTTCCTTCCTTTTTCCGCATTTCG 5 0.125 No Hit CCCAGGTATTAATTACACGACCTTGACTATCAACTACAGATTGGTTGAAATT 5 0.125 No Hit CCAGTCCATAAATTGTTAAAGCTTCCATAAAAGCCAGACTAAGCAATAAAGT 5 0.125 No Hit CCCTGATCAAACTAGAGGTTACCAAAGAACCATGCATAGCACTGAATAGGGA 5 0.125 No Hit CTGCAAAGGATTCTACCCGCCGCTCGGTGGGAATTGTACTTCAAGGCGGCCC 5 0.125 No Hit GGCCCGTCGGTCCACACAGTTGTCCATGTACCAGTAGAAGATTCAGCAGCTA 5 0.125 No Hit GCAAAGGATTCTACCCGCCGCTCGGTGGGAATTGTACTTCAAGGCGGCCCGC 5 0.125 No Hit CAGCAACGGGCTCGATGTCGTAGCATCGTCCCTTATAACGATCAAGACTGGT 5 0.125 No Hit CGATTGGATAAATCAAGAAAACAGCAGTAGCCGCCGCAACAGGAGCTGAATA 5 0.125 No Hit CCAGGTATTAATTACACGACCTTGACTATCAACTACAGATTGGTTGAAATTG 5 0.125 No Hit CTCGTACACACTAAGAAAAAAGCCTTATCCATTTACAAAAGTCTTATCCATT 5 0.125 No Hit CCGCATTTCGCTAAAGGGTTGAAGGAGGATAGTGCATCAAGCTGTTCGCAAG 5 0.125 No Hit GCCGAACCTAAACCTGTGCTCGAGAGATAGCTGTCCATACACTGATAAGGGA 5 0.125 No Hit CCGTGAAGTAAATCATCGCACCTACGGTCCAACCAATTGGGAGAGAATCAAT 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 SRR5423386.sra Written 200000 spots for SRR5423386.sra Read 200000 spots for SRR5423386.sra Written 200000 spots for SRR5423386.sra Read 200000 spots for SRR5423386.sra Written 200000 spots for SRR5423386.sra Read 200000 spots for SRR5423386.sra Written 200000 spots for SRR5423386.sra Read 200000 spots for SRR5423386.sra Written 200000 spots for SRR5423386.sra Read 200000 spots for SRR5423386.sra Written 200000 spots for SRR5423386.sra Read 200000 spots for SRR5423386.sra Written 200000 spots for SRR5423386.sra Read 200000 spots for SRR5423386.sra Written 200000 spots for SRR5423386.sra Read 200000 spots for SRR5423386.sra Written 200000 spots for SRR5423386.sra Read 200000 spots for SRR5423386.sra Written 200000 spots for SRR5423386.sra Read 200000 spots for SRR5423386.sra Written 200000 spots for SRR5423386.sra Read 200000 spots for SRR5423386.sra Written 200000 spots for SRR5423386.sra Read 200000 spots for SRR5423386.sra Written 200000 spots for SRR5423386.sra Read 200000 spots for SRR5423386.sra Written 200000 spots for SRR5423386.sra Read 200000 spots for SRR5423386.sra Written 200000 spots for SRR5423386.sra Read 200000 spots for SRR5423386.sra Written 200000 spots for SRR5423386.sra Read 200000 spots for SRR5423386.sra Written 200000 spots for SRR5423386.sra Read 200000 spots for SRR5423386.sra Written 200000 spots for SRR5423386.sra Read 200000 spots for SRR5423386.sra Written 200000 spots for SRR5423386.sra Read 200000 spots for SRR5423386.sra Written 200000 spots for SRR5423386.sra SRR ids: ['SRR5423386.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_m6hjf3ds SRR5423386.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]] SRR5423386 file size 703983 SRR5423386 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 SRR5423386 SRR5423386_1.fastq Input file: SRR5423386_1.fastq trimmed: SRR5423386-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 08:57:55 2025 >> started Wed Feb 12 08:57:57 2025 >> done (2.013s) 4000000 reads processed; of these: 95 ( 0.00%) short reads filtered out after trimming by size control 953 ( 0.02%) empty reads filtered out after trimming by size control 3998952 (99.97%) reads available; of these: 75967 ( 1.90%) trimmed reads available after processing 3922985 (98.10%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 17 0.00% 19 1 0.00% 20 2 0.00% 21 1 0.00% 22 2 0.00% 23 3 0.00% 24 6 0.00% 25 5 0.00% 26 1 0.00% 27 9 0.00% 28 10 0.00% 29 7 0.00% 30 8 0.00% 31 10 0.00% 32 15 0.00% 33 17 0.00% 34 22 0.00% 35 21 0.00% 36 32 0.00% 37 39 0.00% 38 43 0.00% 39 68 0.00% 40 83 0.00% 41 94 0.00% 42 146 0.00% 43 182 0.00% 44 266 0.01% 45 412 0.01% 46 546 0.01% 47 766 0.02% 48 1495 0.04% 49 3258 0.08% 50 9340 0.23% 51 59040 1.48% 52 3922985 98.10% 3998952 reads passed initial QC criterion=sequence-density sequence-density=0.38 sequence-density-rank=1 fanout-score=1.91 fanout-score-rank=27 prefix-density=0.36 prefix-fanout=1.9 sequence=TGGCACCGGCCCGTAATCCTTCCACTGCCAGGAGCGGGAGGTGATCGCTGCTCTGTGAGACCAGCCTCACGCTGTGCCCTCCCCTCTAGGAGCCACGACACC criterion=fanout-score sequence-density=0.01 sequence-density-rank=39 fanout-score=21.33 fanout-score-rank=1 prefix-density=0.04 prefix-fanout=3.1 sequence=AAGAAGTTCACACTTTCTGGCGACGTCTTTCTTTTTCTTCAAAACCCCAATCCGCTCTCGCTCGCCGCTACTAACGGGGTCTCGGTTGATTTCCCTTCCTTTAGCTAGTCAGATGTTTCAGTTCGCTAAGTTTGAAAAGTCCAAAGAGCGCAGACTCGCCACGGAGCTTGGAGACGGTTTCCCGATCGGAGATCCATGGATCACAGACGGTATCTCCCCATGGCCTTTCGCC Started job on | Feb 12 08:58:09 Started mapping on | Feb 12 08:58:09 Finished on | Feb 12 08:58:14 Mapping speed, Million of reads per hour | 2879.25 Number of input reads | 3998952 Average input read length | 51 UNIQUE READS: Uniquely mapped reads number | 3004233 Uniquely mapped reads % | 75.13% Average mapped length | 51.80 Number of splices: Total | 257647 Number of splices: Annotated (sjdb) | 254318 Number of splices: GT/AG | 249762 Number of splices: GC/AG | 6350 Number of splices: AT/AC | 845 Number of splices: Non-canonical | 690 Mismatch rate per base, % | 0.37% Deletion rate per base | 0.01% Deletion average length | 2.35 Insertion rate per base | 0.00% Insertion average length | 1.36 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 843581 % of reads mapped to multiple loci | 21.10% Number of reads mapped to too many loci | 74175 % of reads mapped to too many loci | 1.85% 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 151138 151138 151138 N_multimapping 843581 843581 843581 N_noFeature 455009 2933829 514410 N_ambiguous 22402 156 11252 UnstrandedReadsAssigned:2526822 PositiveStrandReadsAssigned:70248 NegativeStrandReadsAssigned:2478571 Dataset is classified negative stranded MeadianReadLen=52 20thPercentileLength=52 echo kmer=47 SRR5423386 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: SRR5423386-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 3,998,952 reads, 3,158,461 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,070 rounds 52401 SRR5423386.ke.tsv 34699 SRR5423386.se.tsv 87100 total ==> SRR5423386.ke.tsv <== target_id length eff_length est_counts tpm Potri.005G200100.1.v4.1 2018 1919 71 9.85756 Potri.005G024800.1.v4.1 1035 936 5 1.42325 Potri.004G059700.1.v4.1 961 862 7 2.1636 Potri.007G009000.2.v4.1 1416 1317 0 0 Potri.003G141000.2.v4.1 2943 2844 68.6561 6.43185 Potri.016G087400.1.v4.1 270 171 19 29.6035 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 11 3.33798 ==> SRR5423386.se.tsv <== Potri.001G166300.v4.1 0 Potri.001G448400.v4.1 6 Potri.001G233950.v4.1 0 Potri.001G122700.v4.1 21 Potri.001G212900.v4.1 3 Potri.001G182400.v4.1 0 Potri.001G256600.v4.1 0 Potri.001G040500.v4.1 2 Potri.001G416900.v4.1 0 Potri.001G452600.v4.1 0 SRR5423386 completed mapping pipeline successfully