Starting /dee2/code/volunteer_pipeline.sh ERR6133322 current disk space = 1548310446080 free memory = 1600844448 ERR6133322 SRAfilesize 631bc7f287d455a52fcddf974ae5218d ERR6133322.sra ERR6133322.sra file validated ERR6133322 is single end ERR6133322 is conventional basespace ERR6133322 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133322_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 44 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 35.22975 37.0 33.0 37.0 33.0 37.0 2 36.38025 37.0 37.0 37.0 33.0 37.0 3 35.97275 37.0 37.0 37.0 33.0 37.0 4 35.50275 37.0 37.0 37.0 33.0 37.0 5 35.40525 37.0 37.0 37.0 33.0 37.0 6 35.879 37.0 37.0 37.0 33.0 37.0 7 37.5965 40.0 37.0 40.0 33.0 40.0 8 37.5855 40.0 37.0 40.0 33.0 40.0 9 37.6625 40.0 37.0 40.0 33.0 40.0 10-11 37.591125000000005 40.0 37.0 40.0 33.0 40.0 12-13 37.590374999999995 40.0 37.0 40.0 33.0 40.0 14-15 37.51575 40.0 37.0 40.0 33.0 40.0 16-17 37.427375 40.0 37.0 40.0 33.0 40.0 18-19 37.350750000000005 37.0 37.0 40.0 33.0 40.0 20-21 37.093 37.0 37.0 40.0 33.0 40.0 22-23 37.045 37.0 37.0 40.0 33.0 40.0 24-25 37.14 37.0 37.0 40.0 33.0 40.0 26-27 37.057500000000005 37.0 37.0 40.0 33.0 40.0 28-29 37.004125 37.0 37.0 40.0 33.0 40.0 30-31 37.0265 37.0 37.0 40.0 33.0 40.0 32-33 36.848124999999996 37.0 37.0 40.0 33.0 40.0 34-35 36.69225 37.0 37.0 40.0 33.0 40.0 36-37 36.620625000000004 37.0 37.0 40.0 33.0 40.0 38-39 36.354375000000005 37.0 37.0 40.0 33.0 40.0 40-41 36.1335 37.0 37.0 40.0 33.0 40.0 42-43 35.860375 37.0 37.0 40.0 33.0 40.0 44-45 35.72025 37.0 33.0 40.0 33.0 40.0 46-47 35.374 37.0 33.0 38.5 27.0 40.0 48-49 35.34975 37.0 33.0 37.0 27.0 40.0 50-51 35.150625000000005 37.0 33.0 37.0 27.0 40.0 52-53 34.90025 37.0 33.0 37.0 27.0 40.0 54-55 34.809124999999995 37.0 33.0 37.0 27.0 40.0 56-57 34.53775 37.0 33.0 37.0 27.0 40.0 58-59 32.18175 33.0 30.0 37.0 24.5 37.0 60-61 33.675375 37.0 33.0 37.0 27.0 37.0 62-63 34.0095 37.0 33.0 37.0 27.0 37.0 64-65 33.9075 37.0 33.0 37.0 27.0 37.0 66-67 33.62575 37.0 33.0 37.0 27.0 37.0 68-69 32.987375 35.0 33.0 37.0 27.0 37.0 70-71 33.07782453668921 35.0 33.0 37.0 27.0 37.0 72-73 33.335513737709306 37.0 33.0 37.0 27.0 37.0 74-75 33.36027759723144 37.0 33.0 37.0 27.0 37.0 76-77 33.36403196400191 37.0 33.0 37.0 27.0 37.0 78-79 33.440942054723294 37.0 33.0 37.0 27.0 37.0 80-81 33.33416143282784 37.0 33.0 37.0 27.0 37.0 82-83 33.18648868258695 37.0 33.0 37.0 27.0 37.0 84-85 32.991352777710745 35.0 33.0 37.0 27.0 37.0 86-87 32.96194049852586 35.0 33.0 37.0 27.0 37.0 88-89 33.11538461538461 37.0 33.0 37.0 27.0 37.0 90-91 32.78946663093005 33.0 33.0 37.0 27.0 37.0 92-93 32.798713481640306 33.0 33.0 37.0 27.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 14.0 21 17.0 22 19.0 23 27.0 24 43.0 25 44.0 26 56.0 27 59.0 28 55.0 29 80.0 30 95.0 31 104.0 32 138.0 33 181.0 34 240.0 35 469.0 36 782.0 37 938.0 38 623.0 39 16.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 85.625 3.125 3.3000000000000003 7.95 2 63.74999999999999 20.875 10.025 5.35 3 32.35 38.275 16.8 12.575 4 31.775 26.625 20.7 20.9 5 21.775 32.0 29.575000000000003 16.650000000000002 6 19.0 38.025 27.05 15.925 7 34.2 29.75 20.4 15.65 8 28.475 30.15 25.374999999999996 16.0 9 23.75 27.700000000000003 29.5 19.05 10-11 24.325 28.1 28.5875 18.987499999999997 12-13 25.25 26.0125 29.262500000000003 19.475 14-15 20.625 28.7375 31.362499999999997 19.275000000000002 16-17 23.7125 31.275 25.662499999999998 19.35 18-19 23.9875 25.912499999999998 29.175 20.925 20-21 24.05300662582823 25.715714464308036 29.2911613951744 20.940117514689334 22-23 26.1 24.3125 27.474999999999998 22.112499999999997 24-25 24.887500000000003 25.0 30.075000000000003 20.0375 26-27 23.5 26.5375 31.7875 18.175 28-29 23.9375 28.1 28.549999999999997 19.412499999999998 30-31 25.937500000000004 26.237500000000004 27.287499999999998 20.5375 32-33 23.4125 27.187499999999996 29.6875 19.7125 34-35 24.837500000000002 26.224999999999998 28.487499999999997 20.45 36-37 25.009378516943855 25.109416031011627 28.448168063023633 21.433037389020885 38-39 24.987487487487485 25.08758758758759 31.806806806806808 18.11811811811812 40-41 25.4375 25.8625 27.1625 21.5375 42-43 23.108665749656122 27.860447667875455 29.51106664999375 19.51981993247468 44-45 22.15 27.200000000000003 30.125 20.525 46-47 23.6625 27.075 28.0875 21.175 48-49 23.45 25.650000000000002 31.525 19.375 50-51 22.494682847491553 26.99862379582134 30.301513824596523 20.20517953209058 52-53 24.146127861879144 27.81183535593644 27.236331790316527 20.805704991867884 54-55 23.625 27.925 30.3875 18.0625 56-57 25.412499999999998 25.9875 29.275000000000002 19.325 58-59 22.95 25.9875 30.562499999999996 20.5 60-61 24.275 26.2125 30.7625 18.75 62-63 21.337500000000002 29.562500000000004 31.2625 17.837500000000002 64-65 22.7 28.025 30.662499999999998 18.6125 66-67 23.175 29.75 28.95 18.125 68-69 21.3125 27.8875 29.2 21.6 70-71 24.246215438508695 25.359689728512446 29.776054047291378 20.618040785687477 72-73 25.07884445565788 25.532988520247258 30.04919894033052 19.33896808376435 74-75 23.38719938923527 26.61916274335157 29.443949611909915 20.549688255503245 76-77 21.606363869643317 27.521170130869898 30.27970233512959 20.592763664357197 78-79 21.96539256198347 25.568181818181817 33.264462809917354 19.201962809917354 80-81 22.48142838524697 29.12811156001564 30.32712107389548 18.063338980841912 82-83 22.76562088056947 26.83891378855787 30.503559187977853 19.891906142894804 84-85 21.977287909151634 23.83433533734135 33.587174348697395 20.60120240480962 86-87 21.88421334762798 28.182792816939156 30.930045564191904 19.002948271240953 88-89 20.517287590458324 30.889841865451622 29.978558027338515 18.61431251675154 90-91 24.63146609488073 27.177700348432055 29.268292682926827 18.922540873760386 92-93 20.557491289198605 31.50629857946931 29.080675422138835 18.855534709193243 >>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 0.5 16 1.0 17 5.5 18 6.0 19 1.0 20 1.5 21 4.0 22 3.5 23 4.0 24 8.0 25 9.5 26 13.0 27 23.0 28 40.0 29 46.0 30 45.5 31 62.0 32 78.5 33 96.5 34 110.0 35 119.0 36 137.5 37 176.5 38 212.5 39 203.0 40 194.0 41 201.0 42 222.5 43 247.0 44 221.0 45 164.0 46 162.5 47 174.0 48 157.0 49 163.5 50 148.0 51 125.5 52 134.0 53 131.0 54 105.5 55 71.0 56 52.5 57 53.5 58 47.5 59 33.5 60 28.0 61 24.0 62 18.5 63 19.0 64 17.0 65 15.0 66 14.0 67 11.0 68 10.0 69 9.5 70 7.0 71 6.0 72 4.5 73 4.5 74 6.0 75 3.0 76 1.0 77 1.0 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 0.0125 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 0.0375 38-39 0.1 40-41 0.0 42-43 0.0375 44-45 0.0 46-47 0.0 48-49 0.0 50-51 0.08750000000000001 52-53 0.08750000000000001 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 0.0 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 7.0 71 20.0 72 19.0 73 11.0 74 27.0 75 14.0 76 10.0 77 13.0 78 14.0 79 19.0 80 19.0 81 21.0 82 26.0 83 26.0 84 23.0 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 3731.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 76.9 #Duplication Level Percentage of deduplicated Percentage of total 1 91.3849154746424 70.275 2 4.778933680104031 7.35 3 1.1053315994798438 2.55 4 0.5851755526657998 1.7999999999999998 5 0.5851755526657998 2.25 6 0.3250975292587776 1.5 7 0.1625487646293888 0.8750000000000001 8 0.13003901170351106 0.8 9 0.1950585175552666 1.35 >10 0.7477243172951885 11.25 >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 GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 40 1.0 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 31 0.775 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 30 0.75 No Hit GGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGC 26 0.65 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 25 0.625 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 25 0.625 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 23 0.575 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 23 0.575 No Hit GGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTC 22 0.5499999999999999 No Hit CAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTC 19 0.475 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 19 0.475 No Hit GGGTTGTTTGGGAATGCAGCCCAAATCGGGCGGTAGACTCCGTCCAAGGC 19 0.475 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 19 0.475 No Hit GGGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACG 16 0.4 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 16 0.4 No Hit GGGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTT 14 0.35000000000000003 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 14 0.35000000000000003 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 13 0.325 No Hit GGGCATTCGTATTTCATAGTCAGAGGTGAAATTCTTGGATTTATGAAAGA 12 0.3 No Hit GGTTTTGAAAAGGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAA 12 0.3 No Hit GGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAA 11 0.27499999999999997 No Hit GTATTTAGCCTTGCAAGGTGGTCCTTGCTGATTCACACGGGATTCCACGT 11 0.27499999999999997 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 10 0.25 No Hit GGACATTTCTTCGAAAAAATTCGAATAGTGAGACGCATTAAAACGCAATT 9 0.22499999999999998 No Hit GTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAA 9 0.22499999999999998 No Hit CAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCT 9 0.22499999999999998 No Hit GGAGTATCCTTGATATATAAATATATAGATAAATAGATTTAAATGGAAAA 9 0.22499999999999998 No Hit GGGCCGGGTATCTCTCTGCATGTACGTATGCCTGTAATGTACGTAGCTAC 9 0.22499999999999998 No Hit CACGAACGTAATGCTCACAACTTCCCTCTAGATCTAGCTGCTCTTGAAGT 9 0.22499999999999998 No Hit GAAGTATGGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGA 8 0.2 No Hit GTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCT 8 0.2 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 8 0.2 No Hit GTATGGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGATTA 8 0.2 No Hit GGTGGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGC 7 0.17500000000000002 No Hit GGAAGAGCCCGAGCTGCTGCAGCAGGTTTTGAAAAGGGAATCGATCGTGA 7 0.17500000000000002 No Hit GAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTG 7 0.17500000000000002 No Hit GGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACT 7 0.17500000000000002 No Hit GGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTTG 7 0.17500000000000002 No Hit GGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAA 6 0.15 No Hit GGCCTGTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCG 6 0.15 No Hit GCAGCTTGCAAATGGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAA 6 0.15 No Hit GAAGCCTGTGTACAAGCTCGTAACGAAGGGCGCGATCTTGCTCGTGAAGG 6 0.15 No Hit GGGCCTGTTATCTCTATCAATATGATTCTAATTCGTCAGATATTATTTAT 6 0.15 No Hit GGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTTGAAATCGGAG 6 0.15 No Hit GGAAGAGTCCTCTTAATATTTATCTAATCTTATATAGGTTTCAGTATATT 6 0.15 No Hit GGCATATGCCAGCTCTGACCGAAATCTTTGGGGATGATTCTGTATTACAA 6 0.15 No Hit GAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACTAA 6 0.15 No Hit GAACGTAATGCTCACAACTTCCCTCTAGATCTAGCTGCTCTTGAAGTTCC 6 0.15 No Hit GGCTTTAGAAGCCTGTGTACAAGCTCGTAACGAAGGGCGCGATCTTGCTC 5 0.125 No Hit GGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCG 5 0.125 No Hit GGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACGA 5 0.125 No Hit GGCAGCTGCCTTTACACCTTTTAAGCATGCCACTTTAATTATTCTGATGT 5 0.125 No Hit GAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAAT 5 0.125 No Hit GAAGTAATGCACGAACGTAATGCTCACAACTTCCCTCTAGATCTAGCTGC 5 0.125 No Hit GGGAGTATTATGAAAGGAGATTAATCATAGATTATCAAAAACCCTAGAAA 5 0.125 No Hit GGAATAAGAATAAATCGCAACTCCTTTCCACTACACATAAAAATTGATTT 5 0.125 No Hit GGACATCAGAAAGTATACTGTGTTTTACCACCCTAATTAAGTAAACAACT 5 0.125 No Hit GGGCACGTGGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAA 5 0.125 No Hit CAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAACGAAGGG 5 0.125 No Hit GGAGTGGGGGTGCCATACGCAAAAAGGAAGCGACTCATAGAATGGCAGAG 5 0.125 No Hit GTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGCA 5 0.125 No Hit GGGAGGGTGAGAGCCCCGTCCGGCCCGGACCCTGTCGCCCCACGAGGCGC 5 0.125 No Hit GGACATTATGGCAAAAAAAAGTTTGATTCAGAGGGAAAAGAAGCGGCAGA 5 0.125 No Hit GTGGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAAATACTC 5 0.125 No Hit TCAGTGTCGGCCCAGCAGAGTGCTTTCGCCGTTGGTGTTCTTTCCGATCT 5 0.125 No Hit AAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCC 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 0.0 0.0 0.0 0.0 0.0 28-29 0.0125 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 0.075 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 0.075 0.0 0.0 0.0 0.0 60-61 0.075 0.0 0.0 0.0 0.0 62-63 0.075 0.0 0.0 0.0 0.0 64-65 0.075 0.0 0.0 0.0 0.0 66-67 0.075 0.0 0.0 0.0 0.0 68-69 0.075 0.0 0.0 0.0 0.0 70-71 0.075 0.0 0.0 0.0 0.0 72-73 0.15 0.0 0.0 0.0 0.0 74-75 0.16249999999999998 0.0 0.0 0.0 0.0 76-77 0.1875 0.0 0.0 0.0 0.0 78-79 0.225 0.0 0.0 0.0 0.0 80-81 0.25 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Rejected 270541 READS because READLEN < 1 Read 270541 spots for ERR6133322.sra Written 270541 spots for ERR6133322.sra Rejected 270541 READS because READLEN < 1 Read 270541 spots for ERR6133322.sra Written 270541 spots for ERR6133322.sra Rejected 270541 READS because READLEN < 1 Read 270541 spots for ERR6133322.sra Written 270541 spots for ERR6133322.sra Rejected 270541 READS because READLEN < 1 Read 270541 spots for ERR6133322.sra Written 270541 spots for ERR6133322.sra Rejected 270541 READS because READLEN < 1 Read 270541 spots for ERR6133322.sra Written 270541 spots for ERR6133322.sra Rejected 270541 READS because READLEN < 1 Read 270541 spots for ERR6133322.sra Written 270541 spots for ERR6133322.sra Rejected 270541 READS because READLEN < 1 Read 270541 spots for ERR6133322.sra Written 270541 spots for ERR6133322.sra Rejected 270541 READS because READLEN < 1 Read 270541 spots for ERR6133322.sra Written 270541 spots for ERR6133322.sra Rejected 270541 READS because READLEN < 1 Read 270541 spots for ERR6133322.sra Written 270541 spots for ERR6133322.sra Rejected 270541 READS because READLEN < 1 Read 270541 spots for ERR6133322.sra Written 270541 spots for ERR6133322.sra Rejected 270541 READS because READLEN < 1 Read 270541 spots for ERR6133322.sra Written 270541 spots for ERR6133322.sra Rejected 270541 READS because READLEN < 1 Read 270541 spots for ERR6133322.sra Written 270541 spots for ERR6133322.sra Rejected 270541 READS because READLEN < 1 Read 270541 spots for ERR6133322.sra Written 270541 spots for ERR6133322.sra Rejected 270541 READS because READLEN < 1 Read 270541 spots for ERR6133322.sra Written 270541 spots for ERR6133322.sra Rejected 270541 READS because READLEN < 1 Read 270541 spots for ERR6133322.sra Written 270541 spots for ERR6133322.sra Rejected 270541 READS because READLEN < 1 Read 270541 spots for ERR6133322.sra Written 270541 spots for ERR6133322.sra Rejected 270555 READS because READLEN < 1 Read 270555 spots for ERR6133322.sra Written 270555 spots for ERR6133322.sra Rejected 270541 READS because READLEN < 1 Read 270541 spots for ERR6133322.sra Written 270541 spots for ERR6133322.sra Rejected 270541 READS because READLEN < 1 Read 270541 spots for ERR6133322.sra Written 270541 spots for ERR6133322.sra Rejected 270541 READS because READLEN < 1 Read 270541 spots for ERR6133322.sra Written 270541 spots for ERR6133322.sra SRR ids: ['ERR6133322.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_89c481t3 ERR6133322.sra spots: 5410834 blocks: [[1, 270541], [270542, 541082], [541083, 811623], [811624, 1082164], [1082165, 1352705], [1352706, 1623246], [1623247, 1893787], [1893788, 2164328], [2164329, 2434869], [2434870, 2705410], [2705411, 2975951], [2975952, 3246492], [3246493, 3517033], [3517034, 3787574], [3787575, 4058115], [4058116, 4328656], [4328657, 4599197], [4599198, 4869738], [4869739, 5140279], [5140280, 5410834]] ERR6133322 file size 1190269 ERR6133322 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 ERR6133322 ERR6133322_1.fastq Input file: ERR6133322_1.fastq trimmed: ERR6133322-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 00:36:56 2024 >> started Sat Dec 7 00:37:00 2024 >> done (4.253s) 5410834 reads processed; of these: 452 ( 0.01%) short reads filtered out after trimming by size control 64 ( 0.00%) empty reads filtered out after trimming by size control 5410318 (99.99%) reads available; of these: 88561 ( 1.64%) trimmed reads available after processing 5321757 (98.36%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 63 0.00% 19 202 0.00% 20 84 0.00% 21 90 0.00% 22 122 0.00% 23 26 0.00% 24 35 0.00% 25 21 0.00% 26 30 0.00% 27 37 0.00% 28 89 0.00% 29 59 0.00% 30 62 0.00% 31 88 0.00% 32 128 0.00% 33 39 0.00% 34 80 0.00% 35 818 0.02% 36 738 0.01% 37 83 0.00% 38 123 0.00% 39 441 0.01% 40 343 0.01% 41 131 0.00% 42 36 0.00% 43 50 0.00% 44 71 0.00% 45 40 0.00% 46 22 0.00% 47 30 0.00% 48 36 0.00% 49 36 0.00% 50 35 0.00% 51 178 0.00% 52 39 0.00% 53 24 0.00% 54 29 0.00% 55 21 0.00% 56 44 0.00% 57 46 0.00% 58 65 0.00% 59 32 0.00% 60 108 0.00% 61 48 0.00% 62 3 0.00% 63 5 0.00% 64 9 0.00% 65 10 0.00% 66 11 0.00% 67 38 0.00% 68 64 0.00% 69 272 0.01% 70 26350 0.49% 71 24226 0.45% 72 29375 0.54% 73 23733 0.44% 74 25067 0.46% 75 26403 0.49% 76 22051 0.41% 77 22148 0.41% 78 26019 0.48% 79 28467 0.53% 80 25258 0.47% 81 28573 0.53% 82 32201 0.60% 83 32424 0.60% 84 28125 0.52% 85 288 0.01% 86 405 0.01% 87 715 0.01% 88 1273 0.02% 89 2482 0.05% 90 4965 0.09% 91 14917 0.28% 92 53929 1.00% 93 4925590 91.04% 5410318 reads passed initial QC criterion=sequence-density sequence-density=0.41 sequence-density-rank=1 fanout-score=5.46 fanout-score-rank=20 prefix-density=1.25 prefix-fanout=1.8 sequence=AGGCTAAATACTCCTGGGTGACCGATAGCG criterion=fanout-score sequence-density=0.03 sequence-density-rank=16 fanout-score=86.13 fanout-score-rank=1 prefix-density=0.29 prefix-fanout=8.5 sequence=AAAAAAAGATTTTGAATCTGCCTTTTCCTTTTTTCCTTAGAAAAATAACTCAATCAAAATCCAATTATTTACTCTACAAGAACGAAATGCTTGTTATGCCTAATATACTTAGTTTAACCTGTATCTGTTTTAATTGTGTTCTTTATCCGACTAGTTTTTTCTTTGCTAAACTACCCGAAGCTTATGCTATTTTCAACCCAATCGTGGATTTTATGCCTGTCATACCTCTATTCTTTTTTCTATTAGCCTTTGTTTGGCAAGCTGCTGTAAGTTTTCGATGAAATCTTTACTACTCCGTCTGCCAAATTGAATGGTCTATTCATTCCAAAACC Started job on | Dec 07 00:37:17 Started mapping on | Dec 07 00:37:17 Finished on | Dec 07 00:37:25 Mapping speed, Million of reads per hour | 2434.64 Number of input reads | 5410318 Average input read length | 91 UNIQUE READS: Uniquely mapped reads number | 3462352 Uniquely mapped reads % | 64.00% Average mapped length | 91.13 Number of splices: Total | 104843 Number of splices: Annotated (sjdb) | 83101 Number of splices: GT/AG | 96814 Number of splices: GC/AG | 3725 Number of splices: AT/AC | 35 Number of splices: Non-canonical | 4269 Mismatch rate per base, % | 0.51% Deletion rate per base | 0.05% Deletion average length | 1.80 Insertion rate per base | 0.02% Insertion average length | 1.66 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 1727806 % of reads mapped to multiple loci | 31.94% Number of reads mapped to too many loci | 128475 % of reads mapped to too many loci | 2.37% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.51% % of reads unmapped: other | 0.19% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 220160 220160 220160 N_multimapping 1727806 1727806 1727806 N_noFeature 308021 344714 3291893 N_ambiguous 151110 17139 837 UnstrandedReadsAssigned:3003221 PositiveStrandReadsAssigned:3100499 NegativeStrandReadsAssigned:169622 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133322 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: ERR6133322-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 5,410,318 reads, 4,270,294 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,067 rounds 52973 ERR6133322.ke.tsv 35125 ERR6133322.se.tsv 88098 total ==> ERR6133322.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 69 15.9681 PNS24243 293 194 0 0 KQK14069 1603 1504 13 2.74445 KQK14071 474 375 0 0 ==> ERR6133322.se.tsv <== BRADI_1g14170v3 13 BRADI_1g53295v3 65 BRADI_1g59795v3 38 BRADI_1g07683v3 0 BRADI_1g00485v3 2 BRADI_1g20270v3 66 BRADI_1g74790v3 34 BRADI_1g09890v3 0 BRADI_1g77505v3 91 BRADI_1g48960v3 0 ERR6133322 completed mapping pipeline successfully