Starting /dee2/code/volunteer_pipeline.sh ERR6133505 current disk space = 1544361517056 free memory = 1597979568 ERR6133505 SRAfilesize 81ce811ce0ac81e2b0c56887c23d47a7 ERR6133505.sra ERR6133505.sra file validated ERR6133505 is single end ERR6133505 is conventional basespace ERR6133505 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133505_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 45 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 36.6315 37.0 37.0 37.0 37.0 37.0 2 36.81675 37.0 37.0 37.0 37.0 37.0 3 36.57875 37.0 37.0 37.0 37.0 37.0 4 35.87225 37.0 37.0 37.0 33.0 37.0 5 35.943 37.0 37.0 37.0 33.0 37.0 6 36.26175 37.0 37.0 37.0 33.0 37.0 7 38.19825 40.0 37.0 40.0 37.0 40.0 8 38.22775 40.0 37.0 40.0 37.0 40.0 9 38.233 40.0 37.0 40.0 37.0 40.0 10-11 38.258125 40.0 37.0 40.0 37.0 40.0 12-13 38.108625 40.0 37.0 40.0 37.0 40.0 14-15 38.082125000000005 40.0 37.0 40.0 37.0 40.0 16-17 38.051625 40.0 37.0 40.0 37.0 40.0 18-19 37.972625 40.0 37.0 40.0 35.0 40.0 20-21 37.911125 40.0 37.0 40.0 33.0 40.0 22-23 38.11325 40.0 37.0 40.0 37.0 40.0 24-25 37.946875000000006 40.0 37.0 40.0 35.0 40.0 26-27 37.89575 40.0 37.0 40.0 33.0 40.0 28-29 37.884125 40.0 37.0 40.0 37.0 40.0 30-31 37.968125 40.0 37.0 40.0 37.0 40.0 32-33 37.969 40.0 37.0 40.0 37.0 40.0 34-35 37.93125 38.5 37.0 40.0 37.0 40.0 36-37 37.8665 37.0 37.0 40.0 37.0 40.0 38-39 37.71325 37.0 37.0 40.0 37.0 40.0 40-41 37.50775 37.0 37.0 40.0 37.0 40.0 42-43 37.484375 37.0 37.0 40.0 37.0 40.0 44-45 37.309375 37.0 37.0 40.0 35.0 40.0 46-47 37.1575 37.0 37.0 40.0 33.0 40.0 48-49 36.97175 37.0 37.0 37.0 33.0 40.0 50-51 36.792125 37.0 37.0 37.0 33.0 40.0 52-53 36.398625 37.0 37.0 37.0 33.0 40.0 54-55 36.408 37.0 37.0 37.0 33.0 40.0 56-57 36.239625000000004 37.0 37.0 37.0 33.0 38.5 58-59 35.927375 37.0 37.0 37.0 33.0 37.0 60-61 36.015375 37.0 37.0 37.0 33.0 37.0 62-63 35.9415 37.0 37.0 37.0 33.0 37.0 64-65 35.854625 37.0 37.0 37.0 33.0 37.0 66-67 35.823625 37.0 37.0 37.0 33.0 37.0 68-69 34.922875000000005 35.0 35.0 37.0 33.0 37.0 70-71 35.166323990469024 37.0 33.0 37.0 33.0 37.0 72-73 35.57110708045276 37.0 33.0 37.0 33.0 37.0 74-75 35.61793753234515 37.0 33.0 37.0 33.0 37.0 76-77 35.59086922195287 37.0 33.0 37.0 33.0 37.0 78-79 35.431091354903685 37.0 33.0 37.0 33.0 37.0 80-81 35.382092904086846 37.0 33.0 37.0 33.0 37.0 82-83 35.199474111928986 37.0 33.0 37.0 33.0 37.0 84-85 35.13883491098681 37.0 33.0 37.0 33.0 37.0 86-87 35.08288008288008 37.0 33.0 37.0 33.0 37.0 88-89 35.091168091168086 37.0 33.0 37.0 33.0 37.0 90-91 35.03431753431754 37.0 33.0 37.0 33.0 37.0 92-93 34.97992747992748 37.0 33.0 37.0 33.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 2.0 21 5.0 22 4.0 23 5.0 24 3.0 25 7.0 26 7.0 27 8.0 28 15.0 29 23.0 30 26.0 31 36.0 32 61.0 33 68.0 34 106.0 35 297.0 36 1184.0 37 1390.0 38 734.0 39 19.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 88.25 4.0 2.9749999999999996 4.775 2 76.275 13.850000000000001 6.0249999999999995 3.85 3 37.775 38.6 12.7 10.925 4 33.900000000000006 28.749999999999996 18.2 19.15 5 24.2 31.35 27.250000000000004 17.2 6 21.825 37.125 25.874999999999996 15.174999999999999 7 38.224999999999994 29.875 18.3 13.600000000000001 8 30.65 31.924999999999997 22.95 14.475 9 27.05 29.325000000000003 27.224999999999998 16.400000000000002 10-11 25.637500000000003 27.1375 28.199999999999996 19.025 12-13 27.962500000000002 27.237499999999997 27.5125 17.2875 14-15 21.337500000000002 31.2375 29.6625 17.7625 16-17 23.175 33.3375 25.112499999999997 18.375 18-19 23.9375 29.5875 26.5875 19.8875 20-21 23.6125 27.55 29.25 19.5875 22-23 27.700000000000003 23.5 27.5875 21.212500000000002 24-25 26.224999999999998 27.437499999999996 27.675 18.6625 26-27 24.65 27.5125 31.8 16.037499999999998 28-29 25.5375 29.8875 25.924999999999997 18.65 30-31 27.6375 26.924999999999997 25.8 19.6375 32-33 23.0375 28.262500000000003 28.375 20.325 34-35 24.2375 27.3 27.6375 20.825 36-37 25.924999999999997 24.8625 28.625 20.5875 38-39 25.45 26.224999999999998 31.662499999999998 16.662499999999998 40-41 28.160560210078778 25.459547330248846 24.98436913842691 21.395523321245467 42-43 24.815601950243778 28.89111138892362 26.24078009751219 20.052506563320417 44-45 23.400000000000002 26.450000000000003 28.9875 21.1625 46-47 24.1125 25.7 27.5625 22.625 48-49 24.1875 26.6125 30.349999999999998 18.85 50-51 25.0375 27.5625 28.287499999999998 19.112499999999997 52-53 26.036692636340792 28.72581050515205 25.245036441316916 19.99246041719025 54-55 24.793698424606152 30.120030007501875 28.107026756689173 16.9792448112028 56-57 26.674999999999997 25.45 29.025000000000002 18.85 58-59 23.9375 24.375 28.95 22.7375 60-61 23.0625 27.700000000000003 28.599999999999998 20.6375 62-63 22.3875 29.1125 31.912499999999998 16.5875 64-65 24.55 27.237499999999997 29.075 19.1375 66-67 24.5375 27.6375 28.249999999999996 19.575 68-69 22.1875 27.175 27.487499999999997 23.150000000000002 70-71 24.164266933767372 26.981344685113307 27.494678853136346 21.35970952798297 72-73 26.85966016362492 23.876651982378856 28.596601636249215 20.66708621774701 74-75 23.4951947395043 27.47850278199292 29.033889731917046 19.992412746585735 76-77 23.502538071065988 27.043147208121827 28.705583756345177 20.748730964467004 78-79 23.594646271510516 24.678138942001272 32.04588910133843 19.68132568514978 80-81 23.043422569488918 30.613551940566158 28.90995260663507 17.43307288330985 82-83 23.353062274832734 25.69480185280494 30.45548121461657 20.496654657745754 84-85 24.24987066735644 23.26694257630626 31.971029487842735 20.51215726849457 86-87 22.57187257187257 27.415177415177418 32.556332556332556 17.456617456617458 88-89 20.02072002072002 31.753431753431755 31.002331002331 17.223517223517224 90-91 26.94897694897695 26.599326599326602 28.47707847707848 17.974617974617974 92-93 23.05102305102305 31.015281015281015 27.143227143227143 18.79046879046879 >>END_MODULE >>Per sequence GC content pass #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 0.5 16 0.5 17 10.0 18 11.5 19 3.5 20 3.0 21 2.0 22 2.5 23 6.5 24 6.5 25 4.5 26 7.5 27 10.0 28 16.0 29 21.5 30 25.0 31 34.5 32 47.0 33 54.5 34 66.0 35 94.0 36 108.0 37 121.5 38 179.5 39 187.5 40 182.5 41 206.0 42 209.5 43 216.5 44 210.0 45 215.5 46 248.5 47 223.0 48 189.0 49 211.0 50 205.0 51 178.0 52 150.0 53 153.0 54 131.0 55 77.0 56 56.0 57 46.5 58 36.5 59 27.0 60 20.5 61 14.5 62 11.5 63 10.5 64 12.5 65 13.5 66 8.5 67 5.0 68 6.5 69 9.5 70 7.5 71 2.0 72 1.5 73 1.0 74 0.5 75 0.5 76 0.5 77 0.0 78 0.0 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 0.0 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 0.0 22-23 0.0 24-25 0.0 26-27 0.0 28-29 0.0 30-31 0.0 32-33 0.0 34-35 0.0 36-37 0.0 38-39 0.0 40-41 0.0375 42-43 0.0125 44-45 0.0 46-47 0.0 48-49 0.0 50-51 0.0 52-53 0.525 54-55 0.025 56-57 0.0 58-59 0.0 60-61 0.0 62-63 0.0 64-65 0.0 66-67 0.0 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 0.0 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 13.0 71 8.0 72 13.0 73 9.0 74 6.0 75 7.0 76 8.0 77 10.0 78 7.0 79 13.0 80 5.0 81 7.0 82 16.0 83 7.0 84 10.0 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 3861.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 71.5 #Duplication Level Percentage of deduplicated Percentage of total 1 90.4895104895105 64.7 2 5.454545454545454 7.8 3 1.5734265734265735 3.375 4 0.4195804195804196 1.2 5 0.34965034965034963 1.25 6 0.38461538461538464 1.6500000000000001 7 0.17482517482517482 0.8750000000000001 8 0.13986013986013987 0.8 9 0.1048951048951049 0.675 >10 0.8041958041958042 13.0 >50 0.1048951048951049 4.675 >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 fail #Sequence Count Percentage Possible Source GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 68 1.7000000000000002 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 65 1.625 No Hit GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 54 1.35 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 47 1.175 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 37 0.9249999999999999 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 36 0.8999999999999999 No Hit GGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACGA 34 0.8500000000000001 No Hit GGGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACG 34 0.8500000000000001 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 33 0.8250000000000001 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 30 0.75 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 28 0.7000000000000001 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 27 0.675 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 23 0.575 No Hit GGAGTATCCTTGATATATAAATATATAGATAAATAGATTTAAATGGAAAA 22 0.5499999999999999 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 21 0.525 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 16 0.4 No Hit GGAGTCCCATATATATATGTATAAGATGCCAGCCCGGTTTCGTCAACCAT 16 0.4 No Hit GGCCTGTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCG 15 0.375 No Hit GGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAA 15 0.375 No Hit GTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAA 14 0.35000000000000003 No Hit GGGAGTGGGGGTGCCATACGCAAAAAGGAAGCGACTCATAGAATGGCAGA 13 0.325 No Hit GGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTT 13 0.325 No Hit GGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGC 13 0.325 No Hit GGGCAAGGAGAAGTACAAGTGCGGATCCAACGTCTTCTGGAAATGGTGAA 12 0.3 No Hit GGAAATGGTGAAGATGATACGAATATGCCGGCCGGGTGCTGATATTGTGA 11 0.27499999999999997 No Hit GGAAGAGCCCGAGCTGCTGCAGCAGGTTTTGAAAAGGGAATCGATCGTGA 10 0.25 No Hit CAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCT 9 0.22499999999999998 No Hit GGGAGTATTATGAAAGGAGATTAATCATAGATTATCAAAAACCCTAGAAA 9 0.22499999999999998 No Hit CAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTC 9 0.22499999999999998 No Hit GAGGAAGGGCGTAGCAAGCGACGAAATGCTTCGGGGAGTTGAAAATAAGC 8 0.2 No Hit GGGAGGGGCTTGGCTACAATTCCGAATACGCTATTACATGTTTGCGCTAG 8 0.2 No Hit GGGCCGGGTATCTCTCTGCATGTACGTATGCCTGTAATGTACGTAGCTAC 8 0.2 No Hit GTACAAGCTCGTAACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAAT 8 0.2 No Hit GGGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTT 7 0.17500000000000002 No Hit GGAGTGGGGGTGCCATACGCAAAAAGGAAGCGACTCATAGAATGGCAGAG 7 0.17500000000000002 No Hit GTAACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCA 7 0.17500000000000002 No Hit GGTGGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGC 7 0.17500000000000002 No Hit GGATTTGAAGAAAAAAAAGACTTCGATTCATTTTCTATTTATTTCGTTAG 7 0.17500000000000002 No Hit GGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTC 6 0.15 No Hit CAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGATAT 6 0.15 No Hit GGACATTTCTTCGAAAAAATTCGAATAGTGAGACGCATTAAAACGCAATT 6 0.15 No Hit GGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACGAGCCGT 6 0.15 No Hit GGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACTA 6 0.15 No Hit GGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAA 6 0.15 No Hit GGATATCGTGTGTGTACATTTGAATGTACCGACATGGGCTCGAGGAGCAT 6 0.15 No Hit GGGTGGAATGGGAATTGCTATTCTTTCTACTTCTCGAGGGATAATGACAG 6 0.15 No Hit GGAGAAGTACAAGTGCGGATCCAACGTCTTCTGGAAATGGTGAAGATGAT 6 0.15 No Hit GGGGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCT 6 0.15 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 6 0.15 No Hit GGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCTAAATGGATTC 5 0.125 No Hit GGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGT 5 0.125 No Hit GGGCTGCGAGGAATCCGGCAAGGCATAAACAACCAAGGACAGCTCCGTAT 5 0.125 No Hit GGATCGGTCGATCATCGGAGAAGAACACTTCCTCCGTGCATATGCGTGTA 5 0.125 No Hit GGGCCTGTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGC 5 0.125 No Hit GTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCT 5 0.125 No Hit GGGGGTGCCATACGCAAAAAGGAAGCGACTCATAGAATGGCAGAGGCAAA 5 0.125 No Hit GGGAAACAACGAGGTCATCATCGACATGATATATTGCTGCTATTTTCCAC 5 0.125 No Hit GGGACGCATGCAACGACCATCTACATATAGCTACTCGATCTACCGCTACC 5 0.125 No Hit GGAGATGGTGAATTTGAGAACAGTCCTTGCACTGCCGAGCTGGTGGAAGA 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 0.025 0.0 0.0 0.0 0.0 14-15 0.037500000000000006 0.0 0.0 0.0 0.0 16-17 0.05 0.0 0.0 0.0 0.0 18-19 0.05 0.0 0.0 0.0 0.0 20-21 0.05 0.0 0.0 0.0 0.0 22-23 0.05 0.0 0.0 0.0 0.0 24-25 0.05 0.0 0.0 0.0 0.0 26-27 0.05 0.0 0.0 0.0 0.0 28-29 0.05 0.0 0.0 0.0 0.0 30-31 0.05 0.0 0.0 0.0 0.0 32-33 0.05 0.0 0.0 0.0 0.0 34-35 0.05 0.0 0.0 0.0 0.0 36-37 0.0625 0.0 0.0 0.0 0.0 38-39 0.075 0.0 0.0 0.0 0.0 40-41 0.075 0.0 0.0 0.0 0.0 42-43 0.075 0.0 0.0 0.0 0.0 44-45 0.075 0.0 0.0 0.0 0.0 46-47 0.075 0.0 0.0 0.0 0.0 48-49 0.075 0.0 0.0 0.0 0.0 50-51 0.075 0.0 0.0 0.0 0.0 52-53 0.075 0.0 0.0 0.0 0.0 54-55 0.075 0.0 0.0 0.0 0.0 56-57 0.075 0.0 0.0 0.0 0.0 58-59 0.1 0.0 0.0 0.0 0.0 60-61 0.1 0.0 0.0 0.0 0.0 62-63 0.1 0.0 0.0 0.0 0.0 64-65 0.1 0.0 0.0 0.0 0.0 66-67 0.1 0.0 0.0 0.0 0.0 68-69 0.1 0.0 0.0 0.0 0.0 70-71 0.1 0.0 0.0 0.0 0.0 72-73 0.1 0.0 0.0 0.0 0.0 74-75 0.1 0.0 0.0 0.0 0.0 76-77 0.1 0.0 0.0 0.0 0.0 78-79 0.1 0.0 0.0 0.0 0.0 80-81 0.1 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position TTCTGTA 20 2.4532965E-5 86.4875 8 TGATTCT 20 2.4532965E-5 86.4875 5 GGATGAT 25 7.4195836E-5 69.19 2 ATGATTC 25 7.4195836E-5 69.19 4 GATGATT 25 7.4195836E-5 69.19 3 GATTCTG 25 7.4195836E-5 69.19 6 GGGATGA 25 7.4195836E-5 69.19 1 ATTCTGT 25 7.4195836E-5 69.19 7 GGATGGA 20 0.0027946017 64.86562 2 TCTGTAT 30 1.8296401E-4 57.658333 9 GGGATGG 25 0.006763133 51.8925 1 CAATTTG 20 8.05595E-4 43.24375 18-19 TTACAAT 20 8.05595E-4 43.24375 14-15 GTATTAC 20 8.05595E-4 43.24375 12-13 TGGAGGA 20 8.05595E-4 43.24375 26-27 ATTACAA 20 8.05595E-4 43.24375 14-15 TACAATT 20 8.05595E-4 43.24375 16-17 TATTACA 20 8.05595E-4 43.24375 12-13 GGTGGAG 20 8.05595E-4 43.24375 24-25 TGGTGGA 20 8.05595E-4 43.24375 22-23 >>END_MODULE Rejected 101474 READS because READLEN < 1 Read 101474 spots for ERR6133505.sra Written 101474 spots for ERR6133505.sra Rejected 101474 READS because READLEN < 1 Read 101474 spots for ERR6133505.sra Written 101474 spots for ERR6133505.sra Rejected 101474 READS because READLEN < 1 Read 101474 spots for ERR6133505.sra Written 101474 spots for ERR6133505.sra Rejected 101474 READS because READLEN < 1 Read 101474 spots for ERR6133505.sra Written 101474 spots for ERR6133505.sra Rejected 101474 READS because READLEN < 1 Read 101474 spots for ERR6133505.sra Written 101474 spots for ERR6133505.sra Rejected 101474 READS because READLEN < 1 Read 101474 spots for ERR6133505.sra Written 101474 spots for ERR6133505.sra Rejected 101474 READS because READLEN < 1 Read 101474 spots for ERR6133505.sra Written 101474 spots for ERR6133505.sra Rejected 101477 READS because READLEN < 1 Read 101477 spots for ERR6133505.sra Written 101477 spots for ERR6133505.sra Rejected 101474 READS because READLEN < 1 Read 101474 spots for ERR6133505.sra Written 101474 spots for ERR6133505.sra Rejected 101474 READS because READLEN < 1 Read 101474 spots for ERR6133505.sra Written 101474 spots for ERR6133505.sra Rejected 101474 READS because READLEN < 1 Read 101474 spots for ERR6133505.sra Written 101474 spots for ERR6133505.sra Rejected 101474 READS because READLEN < 1 Read 101474 spots for ERR6133505.sra Written 101474 spots for ERR6133505.sra Rejected 101474 READS because READLEN < 1 Read 101474 spots for ERR6133505.sra Written 101474 spots for ERR6133505.sra Rejected 101474 READS because READLEN < 1 Read 101474 spots for ERR6133505.sra Written 101474 spots for ERR6133505.sra Rejected 101474 READS because READLEN < 1 Read 101474 spots for ERR6133505.sra Written 101474 spots for ERR6133505.sra Rejected 101474 READS because READLEN < 1 Read 101474 spots for ERR6133505.sra Written 101474 spots for ERR6133505.sra Rejected 101474 READS because READLEN < 1 Read 101474 spots for ERR6133505.sra Written 101474 spots for ERR6133505.sra Rejected 101474 READS because READLEN < 1 Read 101474 spots for ERR6133505.sra Written 101474 spots for ERR6133505.sra Rejected 101474 READS because READLEN < 1 Read 101474 spots for ERR6133505.sra Written 101474 spots for ERR6133505.sra Rejected 101474 READS because READLEN < 1 Read 101474 spots for ERR6133505.sra Written 101474 spots for ERR6133505.sra SRR ids: ['ERR6133505.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_gipq2cqp ERR6133505.sra spots: 2029483 blocks: [[1, 101474], [101475, 202948], [202949, 304422], [304423, 405896], [405897, 507370], [507371, 608844], [608845, 710318], [710319, 811792], [811793, 913266], [913267, 1014740], [1014741, 1116214], [1116215, 1217688], [1217689, 1319162], [1319163, 1420636], [1420637, 1522110], [1522111, 1623584], [1623585, 1725058], [1725059, 1826532], [1826533, 1928006], [1928007, 2029483]] ERR6133505 file size 447313 ERR6133505 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 ERR6133505 ERR6133505_1.fastq Input file: ERR6133505_1.fastq trimmed: ERR6133505-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 07:31:25 2024 >> started Sat Dec 7 07:31:26 2024 >> done (1.147s) 2029483 reads processed; of these: 548 ( 0.03%) short reads filtered out after trimming by size control 10 ( 0.00%) empty reads filtered out after trimming by size control 2028925 (99.97%) reads available; of these: 10946 ( 0.54%) trimmed reads available after processing 2017979 (99.46%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 66 0.00% 19 205 0.01% 20 50 0.00% 21 46 0.00% 22 30 0.00% 23 29 0.00% 24 11 0.00% 25 20 0.00% 26 17 0.00% 27 20 0.00% 28 37 0.00% 29 240 0.01% 30 26 0.00% 31 34 0.00% 32 37 0.00% 33 36 0.00% 34 42 0.00% 35 106 0.01% 36 330 0.02% 37 30 0.00% 38 59 0.00% 39 171 0.01% 40 157 0.01% 41 90 0.00% 42 34 0.00% 43 22 0.00% 44 121 0.01% 45 62 0.00% 46 65 0.00% 47 20 0.00% 48 17 0.00% 49 8 0.00% 50 31 0.00% 51 293 0.01% 52 45 0.00% 53 8 0.00% 54 13 0.00% 55 13 0.00% 56 25 0.00% 57 119 0.01% 58 18 0.00% 59 20 0.00% 60 28 0.00% 61 10 0.00% 62 2 0.00% 63 1 0.00% 64 3 0.00% 65 2 0.00% 66 4 0.00% 67 4 0.00% 68 1 0.00% 69 37 0.00% 70 6233 0.31% 71 5292 0.26% 72 4923 0.24% 73 4593 0.23% 74 5083 0.25% 75 4954 0.24% 76 4189 0.21% 77 4408 0.22% 78 4819 0.24% 79 5088 0.25% 80 4654 0.23% 81 5180 0.26% 82 5627 0.28% 83 6106 0.30% 84 4801 0.24% 85 30 0.00% 86 53 0.00% 87 86 0.00% 88 139 0.01% 89 234 0.01% 90 509 0.03% 91 1300 0.06% 92 5323 0.26% 93 1942386 95.73% 2028925 reads passed initial QC criterion=sequence-density sequence-density=0.37 sequence-density-rank=1 fanout-score=2.09 fanout-score-rank=28 prefix-density=0.38 prefix-fanout=2.0 sequence=CAAGGCTAAATAC criterion=fanout-score sequence-density=0.01 sequence-density-rank=43 fanout-score=161.62 fanout-score-rank=1 prefix-density=0.68 prefix-fanout=1.3 sequence=CAAGTGCGGAGAGGATAACTGCTGAAAGCATATAAGTAGTAAGCCCACCCCAAGATGAGTGCTCTCTCCTCCGACTTCCCTAGAGCCTCCGGTATCACAGCCGAGACAGCGACGGGTTCTCCACCCATACGGGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACGAGCCGTTTAAATAGGTGTCAAGTGGAAGTGCAGTGATGTATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACCTTGTTCCTACACGGCCTGATCAAATCGATCAGGCACTTGCCATCTATCTTCATTGTT Started job on | Dec 07 07:31:40 Started mapping on | Dec 07 07:31:40 Finished on | Dec 07 07:31:46 Mapping speed, Million of reads per hour | 1217.36 Number of input reads | 2028925 Average input read length | 92 UNIQUE READS: Uniquely mapped reads number | 1251939 Uniquely mapped reads % | 61.70% Average mapped length | 92.19 Number of splices: Total | 56560 Number of splices: Annotated (sjdb) | 46040 Number of splices: GT/AG | 54054 Number of splices: GC/AG | 1534 Number of splices: AT/AC | 32 Number of splices: Non-canonical | 940 Mismatch rate per base, % | 0.44% Deletion rate per base | 0.05% Deletion average length | 1.85 Insertion rate per base | 0.02% Insertion average length | 1.86 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 652602 % of reads mapped to multiple loci | 32.16% Number of reads mapped to too many loci | 13232 % of reads mapped to too many loci | 0.65% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 5.44% % of reads unmapped: other | 0.04% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 124384 124384 124384 N_multimapping 652602 652602 652602 N_noFeature 122013 134362 1193780 N_ambiguous 53576 7781 156 UnstrandedReadsAssigned:1076350 PositiveStrandReadsAssigned:1109796 NegativeStrandReadsAssigned:58003 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133505 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: ERR6133505-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 2,028,925 reads, 1,596,099 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,058 rounds 52973 ERR6133505.ke.tsv 35125 ERR6133505.se.tsv 88098 total ==> ERR6133505.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 45 26.5626 PNS24243 293 194 0 0 KQK14069 1603 1504 37 19.9235 KQK14071 474 375 0 0 ==> ERR6133505.se.tsv <== BRADI_1g14170v3 37 BRADI_1g53295v3 23 BRADI_1g59795v3 7 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 5 BRADI_1g74790v3 13 BRADI_1g09890v3 0 BRADI_1g77505v3 27 BRADI_1g48960v3 0 ERR6133505 completed mapping pipeline successfully