Starting /dee2/code/volunteer_pipeline.sh ERR6133575 current disk space = 1544423927808 free memory = 1597332796 ERR6133575 SRAfilesize 00006e4caa674dfee491066c20d48096 ERR6133575.sra ERR6133575.sra file validated ERR6133575 is single end ERR6133575 is conventional basespace ERR6133575 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133575_1.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 70-93 %GC 46 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 35.4585 37.0 33.0 37.0 33.0 37.0 2 36.42825 37.0 37.0 37.0 37.0 37.0 3 35.8985 37.0 37.0 37.0 33.0 37.0 4 35.47425 37.0 37.0 37.0 33.0 37.0 5 35.22925 37.0 37.0 37.0 33.0 37.0 6 35.59675 37.0 37.0 37.0 33.0 37.0 7 37.42675 37.0 37.0 40.0 33.0 40.0 8 37.40475 37.0 37.0 40.0 33.0 40.0 9 37.513 37.0 37.0 40.0 33.0 40.0 10-11 37.427 37.0 37.0 40.0 33.0 40.0 12-13 37.3835 37.0 37.0 40.0 33.0 40.0 14-15 37.34025 37.0 37.0 40.0 33.0 40.0 16-17 37.222624999999994 37.0 37.0 40.0 33.0 40.0 18-19 37.191500000000005 37.0 37.0 40.0 33.0 40.0 20-21 37.091375 37.0 37.0 40.0 33.0 40.0 22-23 37.066500000000005 37.0 37.0 40.0 33.0 40.0 24-25 37.130875 37.0 37.0 40.0 33.0 40.0 26-27 37.062250000000006 37.0 37.0 40.0 33.0 40.0 28-29 37.055125000000004 37.0 37.0 40.0 33.0 40.0 30-31 36.925 37.0 37.0 40.0 33.0 40.0 32-33 36.726749999999996 37.0 37.0 40.0 33.0 40.0 34-35 36.620125 37.0 37.0 40.0 33.0 40.0 36-37 36.50375 37.0 37.0 40.0 33.0 40.0 38-39 36.250125 37.0 37.0 40.0 33.0 40.0 40-41 36.037375 37.0 37.0 40.0 33.0 40.0 42-43 35.995000000000005 37.0 37.0 40.0 33.0 40.0 44-45 35.732749999999996 37.0 33.0 38.5 33.0 40.0 46-47 35.360375000000005 37.0 33.0 37.0 33.0 40.0 48-49 35.325 37.0 33.0 37.0 30.0 40.0 50-51 35.20325 37.0 33.0 37.0 33.0 40.0 52-53 34.838499999999996 37.0 33.0 37.0 27.0 40.0 54-55 34.888374999999996 37.0 33.0 37.0 27.0 40.0 56-57 34.656 37.0 33.0 37.0 27.0 37.0 58-59 33.640875 35.0 33.0 37.0 27.0 37.0 60-61 34.0985 37.0 33.0 37.0 27.0 37.0 62-63 34.17275 37.0 33.0 37.0 27.0 37.0 64-65 34.002625 37.0 33.0 37.0 27.0 37.0 66-67 34.05875 37.0 33.0 37.0 27.0 37.0 68-69 33.320125000000004 35.0 33.0 37.0 27.0 37.0 70-71 33.4458098534202 35.0 33.0 37.0 27.0 37.0 72-73 33.796121329125654 37.0 33.0 37.0 27.0 37.0 74-75 33.45590571772979 37.0 33.0 37.0 27.0 37.0 76-77 33.77236919452371 37.0 33.0 37.0 27.0 37.0 78-79 33.88268863613743 37.0 33.0 37.0 27.0 37.0 80-81 33.70442858226579 37.0 33.0 37.0 27.0 37.0 82-83 33.54086649096034 37.0 33.0 37.0 27.0 37.0 84-85 33.49869123386005 37.0 33.0 37.0 27.0 37.0 86-87 33.26119979402678 37.0 33.0 37.0 27.0 37.0 88-89 33.55986096807415 37.0 33.0 37.0 27.0 37.0 90-91 33.294799176107105 35.0 33.0 37.0 27.0 37.0 92-93 33.06192070030896 35.0 33.0 37.0 27.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 12.0 21 15.0 22 15.0 23 24.0 24 33.0 25 42.0 26 51.0 27 46.0 28 57.0 29 80.0 30 80.0 31 110.0 32 139.0 33 197.0 34 228.0 35 470.0 36 903.0 37 874.0 38 611.0 39 13.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 87.825 2.5250000000000004 3.075 6.575 2 70.7 16.875 7.6 4.825 3 36.75 38.824999999999996 14.499999999999998 9.925 4 32.05 29.599999999999998 18.8 19.55 5 25.45 30.2 25.95 18.4 6 19.2 39.175 24.4 17.224999999999998 7 36.1 28.975 18.7 16.225 8 27.474999999999998 29.825000000000003 24.525 18.175 9 24.775 29.275000000000002 27.425 18.525 10-11 24.925 27.6 27.025 20.45 12-13 26.775 26.474999999999998 25.7125 21.0375 14-15 22.0875 31.4375 28.375 18.099999999999998 16-17 25.7625 29.525000000000002 24.5125 20.200000000000003 18-19 24.2625 26.424999999999997 27.0125 22.3 20-21 25.815726965870734 25.99074884360545 28.153519189898734 20.040005000625076 22-23 27.224999999999998 22.6125 27.6 22.5625 24-25 25.84073009126141 23.427928491061383 28.153519189898734 22.577822227778473 26-27 25.4625 24.962500000000002 30.4875 19.0875 28-29 25.268817204301076 27.406851712928233 27.656914228557138 19.667416854213553 30-31 28.487499999999997 24.975 25.587500000000002 20.95 32-33 24.95 28.237499999999997 26.400000000000002 20.4125 34-35 24.887500000000003 27.200000000000003 26.787499999999998 21.125 36-37 25.0625 24.462500000000002 27.650000000000002 22.825 38-39 26.976976976976978 25.287787787787785 30.180180180180184 17.555055055055053 40-41 26.72176308539945 25.90783871775607 26.646631605309288 20.72376659153519 42-43 25.65032516258129 28.751875937968986 25.78789394697349 19.809904952476238 44-45 24.1375 26.674999999999997 28.9 20.2875 46-47 25.3125 23.0 26.887499999999996 24.8 48-49 25.4875 23.4125 30.5125 20.5875 50-51 24.45 26.4625 27.5875 21.5 52-53 25.294412427962914 27.461789025306942 24.53019293410173 22.713605612628417 54-55 23.775 28.037499999999998 27.762500000000003 20.424999999999997 56-57 27.275 25.025 27.8375 19.8625 58-59 23.35 25.162499999999998 28.462500000000002 23.025000000000002 60-61 27.237499999999997 23.1875 28.625 20.95 62-63 21.4 28.212500000000002 31.75 18.637500000000003 64-65 24.0125 28.6125 28.549999999999997 18.825 66-67 25.85646411602901 28.394598649662417 27.25681420355089 18.49212303075769 68-69 22.9375 27.400000000000002 26.525 23.1375 70-71 26.154423726692528 25.541233888124136 25.89162808159179 22.412714303591542 72-73 27.414291096320483 23.094311189250284 28.293356775084767 21.198040939344466 74-75 24.015151515151516 28.131313131313128 28.194444444444443 19.65909090909091 76-77 22.941697230302264 26.381687112684965 27.57050714556722 23.106108511445555 78-79 24.1896529808059 26.185331130036865 29.09622473623999 20.52879115291725 80-81 24.196428571428573 29.51530612244898 27.946428571428573 18.341836734693878 82-83 24.58365359979503 24.519600307455804 28.34998718934153 22.546758903407635 84-85 24.022633744855966 23.791152263374485 31.0570987654321 21.12911522633745 86-87 22.541194644696187 27.381565396498452 30.187950566426363 19.88928939237899 88-89 20.7389289392379 28.810504634397528 29.82749742533471 20.62306900102987 90-91 28.050978372811535 25.785272914521112 28.102471678681773 18.061277033985583 92-93 22.760041194644696 29.273944387229662 27.742018537590113 20.22399588053553 >>END_MODULE >>Per sequence GC content warn #GC Content Count 0 0.0 1 0.0 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 8.0 18 10.0 19 2.5 20 2.5 21 5.0 22 4.5 23 7.0 24 9.5 25 7.0 26 8.0 27 13.5 28 22.0 29 27.0 30 28.0 31 26.0 32 36.5 33 66.0 34 72.0 35 71.5 36 97.0 37 128.5 38 158.0 39 157.5 40 163.5 41 191.5 42 195.5 43 191.5 44 180.5 45 168.0 46 205.0 47 201.0 48 152.5 49 153.5 50 168.5 51 169.0 52 159.5 53 161.5 54 171.0 55 125.5 56 71.0 57 69.0 58 60.0 59 47.0 60 39.0 61 38.0 62 37.0 63 29.5 64 35.0 65 36.0 66 25.5 67 23.0 68 24.0 69 21.0 70 13.0 71 8.0 72 5.0 73 3.5 74 4.0 75 3.0 76 2.0 77 0.5 78 0.0 79 0.5 80 0.5 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 0.0 2 0.0 3 0.0 4 0.0 5 0.0 6 0.0 7 0.0 8 0.0 9 0.0 10-11 0.0 12-13 0.0 14-15 0.0 16-17 0.0 18-19 0.0 20-21 0.0125 22-23 0.0 24-25 0.0125 26-27 0.0 28-29 0.025 30-31 0.0 32-33 0.0 34-35 0.0 36-37 0.0 38-39 0.1 40-41 0.17500000000000002 42-43 0.05 44-45 0.0 46-47 0.0 48-49 0.0 50-51 0.0 52-53 0.22499999999999998 54-55 0.0 56-57 0.0 58-59 0.0 60-61 0.0 62-63 0.0 64-65 0.0 66-67 0.025 68-69 0.0 70-71 0.0 72-73 0.0 74-75 0.0 76-77 0.0 78-79 0.0 80-81 0.012753475322025252 82-83 0.0 84-85 0.0 86-87 0.0 88-89 0.0 90-91 0.0 92-93 0.0 >>END_MODULE >>Sequence Length Distribution warn #Length Count 70 9.0 71 2.0 72 15.0 73 11.0 74 6.0 75 1.0 76 5.0 77 11.0 78 13.0 79 4.0 80 5.0 81 9.0 82 12.0 83 5.0 84 8.0 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 3884.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 73.825 #Duplication Level Percentage of deduplicated Percentage of total 1 91.3647138503217 67.45 2 4.673213681002371 6.9 3 1.2868269556383338 2.85 4 1.015916017609211 3.0 5 0.5079580088046055 1.875 6 0.06772773450728073 0.3 7 0.13545546901456146 0.7000000000000001 8 0.06772773450728073 0.4 9 0.06772773450728073 0.44999999999999996 >10 0.7111412123264477 10.8 >50 0.06772773450728073 2.75 >100 0.033863867253640365 2.5250000000000004 >500 0.0 0.0 >1k 0.0 0.0 >5k 0.0 0.0 >10k+ 0.0 0.0 >>END_MODULE >>Overrepresented sequences fail #Sequence Count Percentage Possible Source GGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGC 101 2.5250000000000004 No Hit GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 57 1.425 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 53 1.325 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 46 1.15 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 41 1.0250000000000001 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 33 0.8250000000000001 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 27 0.675 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 27 0.675 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 27 0.675 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 26 0.65 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 23 0.575 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 23 0.575 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 19 0.475 No Hit GGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAA 16 0.4 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 16 0.4 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 16 0.4 No Hit GGAGTATCCTTGATATATAAATATATAGATAAATAGATTTAAATGGAAAA 15 0.375 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 13 0.325 No Hit GGGAGTATTATGAAAGGAGATTAATCATAGATTATCAAAAACCCTAGAAA 12 0.3 No Hit CAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTC 11 0.27499999999999997 No Hit GGAAAAGAAAGCAAAAGCGATTCCCGTAGTAGCGGCGAGCGAAATGGGAG 11 0.27499999999999997 No Hit GGTGGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGC 10 0.25 No Hit GGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTT 10 0.25 No Hit GGAAGAGCCCGAGCTGCTGCAGCAGGTTTTGAAAAGGGAATCGATCGTGA 10 0.25 No Hit GGAATAAGAATAAATCGCAACTCCTTTCCACTACACATAAAAATTGATTT 9 0.22499999999999998 No Hit GGTTTTGAAAAGGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAA 9 0.22499999999999998 No Hit GGAGTCCCATATATATATGTATAAGATGCCAGCCCGGTTTCGTCAACCAT 8 0.2 No Hit GGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTTG 8 0.2 No Hit GGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTC 7 0.17500000000000002 No Hit GGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCG 7 0.17500000000000002 No Hit GGCCTGTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCG 7 0.17500000000000002 No Hit GGCATATGCCAGCTCTGACCGAAATCTTTGGGGATGATTCTGTATTACAA 7 0.17500000000000002 No Hit GGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAA 6 0.15 No Hit GGGCACTGTAGCCAGTGTGTCAGTCGTTGTTAAATTACAGGTTGAGATCA 6 0.15 No Hit GGGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTT 5 0.125 No Hit GGTGGGGCAATGGGCATTCCGTTGAGTTTGTATGGTGGGTGCTGTTTTGC 5 0.125 No Hit GGAACAAACGAGGATAAGATAAAATTTCTTTAAATTTATTTTGCCCAAGT 5 0.125 No Hit GGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGT 5 0.125 No Hit GGGCTCGAGGAGCATATGTACATTTGAACCCTGACTACACATATACACAC 5 0.125 No Hit GGGAATTTGATCAACAAGTGTCTTCGTCTTCAGTTCAGTATGTTGATTTC 5 0.125 No Hit GGAGTGGGGGTGCCATACGCAAAAAGGAAGCGACTCATAGAATGGCAGAG 5 0.125 No Hit GTACTATGGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTT 5 0.125 No Hit GTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAA 5 0.125 No Hit GGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACTA 5 0.125 No Hit GTACAAGCTCGTAACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAAT 5 0.125 No Hit GGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACT 5 0.125 No Hit GGGACGCATGCAACGACCATCTACATATAGCTACTCGATCTACCGCTACC 5 0.125 No Hit GGTAAAGGAGCACAACAAGGTAATTTGCCCGTCCCAGAAGGTTGCACTGA 5 0.125 No Hit GGATTCTTCTTTTTTGTGGGCCATTTGTGGCATGCAGGAAGAGCCCGAGC 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 10-11 0.0 0.0 0.0 0.0 0.0 12-13 0.0 0.0 0.0 0.0 0.0 14-15 0.0 0.0 0.0 0.0 0.0 16-17 0.0 0.0 0.0 0.0 0.0 18-19 0.0 0.0 0.0 0.0 0.0 20-21 0.0 0.0 0.0 0.0 0.0 22-23 0.0 0.0 0.0 0.0 0.0 24-25 0.0 0.0 0.0 0.0 0.0 26-27 0.0125 0.0 0.0 0.0 0.0 28-29 0.025 0.0 0.0 0.0 0.0 30-31 0.025 0.0 0.0 0.0 0.0 32-33 0.025 0.0 0.0 0.0 0.0 34-35 0.025 0.0 0.0 0.0 0.0 36-37 0.025 0.0 0.0 0.0 0.0 38-39 0.025 0.0 0.0 0.0 0.0 40-41 0.025 0.0 0.0 0.0 0.0 42-43 0.025 0.0 0.0 0.0 0.0 44-45 0.025 0.0 0.0 0.0 0.0 46-47 0.025 0.0 0.0 0.0 0.0 48-49 0.025 0.0 0.0 0.0 0.0 50-51 0.025 0.0 0.0 0.0 0.0 52-53 0.025 0.0 0.0 0.0 0.0 54-55 0.025 0.0 0.0 0.0 0.0 56-57 0.025 0.0 0.0 0.0 0.0 58-59 0.025 0.0 0.0 0.0 0.0 60-61 0.025 0.0 0.0 0.0 0.0 62-63 0.025 0.0 0.0 0.0 0.0 64-65 0.025 0.0 0.0 0.0 0.0 66-67 0.025 0.0 0.0 0.0 0.0 68-69 0.025 0.0 0.0 0.0 0.0 70-71 0.037500000000000006 0.0 0.0 0.0 0.0 72-73 0.05 0.0 0.0 0.0 0.0 74-75 0.05 0.0 0.0 0.0 0.0 76-77 0.05 0.0 0.0 0.0 0.0 78-79 0.05 0.0 0.0 0.0 0.0 80-81 0.05 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Rejected 232032 READS because READLEN < 1 Read 232032 spots for ERR6133575.sra Written 232032 spots for ERR6133575.sra Rejected 232032 READS because READLEN < 1 Read 232032 spots for ERR6133575.sra Written 232032 spots for ERR6133575.sra Rejected 232032 READS because READLEN < 1 Read 232032 spots for ERR6133575.sra Written 232032 spots for ERR6133575.sra Rejected 232032 READS because READLEN < 1 Read 232032 spots for ERR6133575.sra Written 232032 spots for ERR6133575.sra Rejected 232032 READS because READLEN < 1 Read 232032 spots for ERR6133575.sra Written 232032 spots for ERR6133575.sra Rejected 232032 READS because READLEN < 1 Read 232032 spots for ERR6133575.sra Written 232032 spots for ERR6133575.sra Rejected 232032 READS because READLEN < 1 Read 232032 spots for ERR6133575.sra Written 232032 spots for ERR6133575.sra Rejected 232032 READS because READLEN < 1 Read 232032 spots for ERR6133575.sra Written 232032 spots for ERR6133575.sra Rejected 232032 READS because READLEN < 1 Read 232032 spots for ERR6133575.sra Written 232032 spots for ERR6133575.sra Rejected 232032 READS because READLEN < 1 Read 232032 spots for ERR6133575.sra Written 232032 spots for ERR6133575.sra Rejected 232032 READS because READLEN < 1 Read 232032 spots for ERR6133575.sra Written 232032 spots for ERR6133575.sra Rejected 232038 READS because READLEN < 1 Read 232038 spots for ERR6133575.sra Written 232038 spots for ERR6133575.sra Rejected 232032 READS because READLEN < 1 Read 232032 spots for ERR6133575.sra Written 232032 spots for ERR6133575.sra Rejected 232032 READS because READLEN < 1 Read 232032 spots for ERR6133575.sra Written 232032 spots for ERR6133575.sra Rejected 232032 READS because READLEN < 1 Read 232032 spots for ERR6133575.sra Written 232032 spots for ERR6133575.sra Rejected 232032 READS because READLEN < 1 Read 232032 spots for ERR6133575.sra Written 232032 spots for ERR6133575.sra Rejected 232032 READS because READLEN < 1 Read 232032 spots for ERR6133575.sra Written 232032 spots for ERR6133575.sra Rejected 232032 READS because READLEN < 1 Read 232032 spots for ERR6133575.sra Written 232032 spots for ERR6133575.sra Rejected 232032 READS because READLEN < 1 Read 232032 spots for ERR6133575.sra Written 232032 spots for ERR6133575.sra Rejected 232032 READS because READLEN < 1 Read 232032 spots for ERR6133575.sra Written 232032 spots for ERR6133575.sra SRR ids: ['ERR6133575.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_2vcq5sap ERR6133575.sra spots: 4640646 blocks: [[1, 232032], [232033, 464064], [464065, 696096], [696097, 928128], [928129, 1160160], [1160161, 1392192], [1392193, 1624224], [1624225, 1856256], [1856257, 2088288], [2088289, 2320320], [2320321, 2552352], [2552353, 2784384], [2784385, 3016416], [3016417, 3248448], [3248449, 3480480], [3480481, 3712512], [3712513, 3944544], [3944545, 4176576], [4176577, 4408608], [4408609, 4640646]] ERR6133575 file size 1026877 ERR6133575 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 ERR6133575 ERR6133575_1.fastq Input file: ERR6133575_1.fastq trimmed: ERR6133575-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 Sat Dec 7 08:56:36 2024 >> started Sat Dec 7 08:56:39 2024 >> done (2.355s) 4640646 reads processed; of these: 295 ( 0.01%) short reads filtered out after trimming by size control 53 ( 0.00%) empty reads filtered out after trimming by size control 4640298 (99.99%) reads available; of these: 100279 ( 2.16%) trimmed reads available after processing 4540019 (97.84%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 65 0.00% 19 132 0.00% 20 64 0.00% 21 49 0.00% 22 67 0.00% 23 11 0.00% 24 15 0.00% 25 17 0.00% 26 19 0.00% 27 37 0.00% 28 56 0.00% 29 47 0.00% 30 37 0.00% 31 40 0.00% 32 57 0.00% 33 31 0.00% 34 41 0.00% 35 285 0.01% 36 820 0.02% 37 57 0.00% 38 75 0.00% 39 239 0.01% 40 170 0.00% 41 92 0.00% 42 27 0.00% 43 27 0.00% 44 30 0.00% 45 23 0.00% 46 21 0.00% 47 16 0.00% 48 19 0.00% 49 18 0.00% 50 20 0.00% 51 63 0.00% 52 24 0.00% 53 9 0.00% 54 11 0.00% 55 16 0.00% 56 17 0.00% 57 21 0.00% 58 21 0.00% 59 9 0.00% 60 16 0.00% 61 13 0.00% 62 3 0.00% 63 3 0.00% 64 6 0.00% 65 9 0.00% 66 10 0.00% 67 19 0.00% 68 32 0.00% 69 105 0.00% 70 9908 0.21% 71 8337 0.18% 72 9224 0.20% 73 8257 0.18% 74 8688 0.19% 75 8781 0.19% 76 7509 0.16% 77 7670 0.17% 78 8804 0.19% 79 10666 0.23% 80 8782 0.19% 81 9334 0.20% 82 10515 0.23% 83 11014 0.24% 84 9321 0.20% 85 211 0.00% 86 376 0.01% 87 609 0.01% 88 1122 0.02% 89 2130 0.05% 90 4829 0.10% 91 13681 0.29% 92 72443 1.56% 93 4404956 94.93% 4640298 reads passed initial QC criterion=sequence-density sequence-density=0.37 sequence-density-rank=1 fanout-score=5.68 fanout-score-rank=20 prefix-density=0.83 prefix-fanout=2.5 sequence=GCCGCCGCCGCCAAGGAAGGCATGTTCGTCAAGAACTACAGCTACTGATCCTAATCGCATCAAGCTTCAACGCCTGTGAGTGAAAACCAGTGATGAGAGTGCTGCTGCTAGCTAGCGCCGGCATTGATGAGCTTGAGAGGGCACTGTAGCCAGTGTGTCAGTCGTTGTTAAATTACAGGTTGAGATCATCAGCGTACTCCGATGGGAGGTGGACATCAGAAAGTATACTGTGTTTTACCACCCTAATTAAGTAAACAACTTTTGGAATGGTGATCATCTTACTGTTTTAAATAAATCTGTTTC criterion=fanout-score sequence-density=0.01 sequence-density-rank=41 fanout-score=190.04 fanout-score-rank=1 prefix-density=0.50 prefix-fanout=2.1 sequence=CAAGTGCGGAGAGGATAACTGCTGAAAGCATATAAGTAGTAAGCCCACCCCAAGATGAGTGCTCTCTCCTCCGACTTCCCTAGAGCCTCCGGTATCACAGCCGAGACAGCGACGGGTTCTCCACCCATACGGGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACGAGCCGTTTAAATAGGTGTCAAGTGGAAGTGCAGTGATGTATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACCTTGTTCCTACACGGCCTGATCAAATCGAT Started job on | Dec 07 08:56:51 Started mapping on | Dec 07 08:56:51 Finished on | Dec 07 08:56:58 Mapping speed, Million of reads per hour | 2386.44 Number of input reads | 4640298 Average input read length | 92 UNIQUE READS: Uniquely mapped reads number | 2914621 Uniquely mapped reads % | 62.81% Average mapped length | 92.03 Number of splices: Total | 168952 Number of splices: Annotated (sjdb) | 140867 Number of splices: GT/AG | 161821 Number of splices: GC/AG | 3041 Number of splices: AT/AC | 143 Number of splices: Non-canonical | 3947 Mismatch rate per base, % | 0.44% Deletion rate per base | 0.04% Deletion average length | 1.89 Insertion rate per base | 0.03% Insertion average length | 2.16 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 1616338 % of reads mapped to multiple loci | 34.83% Number of reads mapped to too many loci | 32130 % of reads mapped to too many loci | 0.69% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.62% % of reads unmapped: other | 0.05% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 109339 109339 109339 N_multimapping 1616338 1616338 1616338 N_noFeature 198346 227459 2789896 N_ambiguous 107267 11879 351 UnstrandedReadsAssigned:2609008 PositiveStrandReadsAssigned:2675283 NegativeStrandReadsAssigned:124374 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133575 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: 52,972 [index] number of k-mers: 66,720,672 [index] number of equivalence classes: 111,837 [quant] running in single-end mode [quant] will process file 1: ERR6133575-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 4,640,298 reads, 3,782,432 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,004 rounds 52973 ERR6133575.ke.tsv 35125 ERR6133575.se.tsv 88098 total ==> ERR6133575.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 837 0 0 PNS24247 1044 945 0 0 PNS24249 1928 1829 0 0 PNS24246 1044 945 0 0 PNS24248 1044 945 0 0 PNS24244 1471 1372 97 24.5032 PNS24243 293 194 1 1.7865 KQK14069 1603 1504 97 22.3526 KQK14071 474 375 0 0 ==> ERR6133575.se.tsv <== BRADI_1g14170v3 95 BRADI_1g53295v3 14 BRADI_1g59795v3 30 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 21 BRADI_1g74790v3 16 BRADI_1g09890v3 0 BRADI_1g77505v3 58 BRADI_1g48960v3 0 ERR6133575 completed mapping pipeline successfully