Starting /dee2/code/volunteer_pipeline.sh ERR6133302 current disk space = 1547779395584 free memory = 1600131568 ERR6133302 SRAfilesize 3f70eadd481af96611b56d0a3bf5e7d2 ERR6133302.sra ERR6133302.sra file validated ERR6133302 is single end ERR6133302 is conventional basespace ERR6133302 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133302_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 35.097 37.0 33.0 37.0 33.0 37.0 2 36.40625 37.0 37.0 37.0 37.0 37.0 3 35.9685 37.0 37.0 37.0 33.0 37.0 4 35.4775 37.0 37.0 37.0 33.0 37.0 5 35.384 37.0 37.0 37.0 33.0 37.0 6 35.7105 37.0 37.0 37.0 33.0 37.0 7 37.42375 40.0 37.0 40.0 33.0 40.0 8 37.46725 40.0 37.0 40.0 33.0 40.0 9 37.561 40.0 37.0 40.0 33.0 40.0 10-11 37.418375 40.0 37.0 40.0 33.0 40.0 12-13 37.42275 37.0 37.0 40.0 33.0 40.0 14-15 37.400875 37.0 37.0 40.0 33.0 40.0 16-17 37.291 37.0 37.0 40.0 33.0 40.0 18-19 37.141625000000005 37.0 37.0 40.0 33.0 40.0 20-21 36.954125000000005 37.0 37.0 40.0 33.0 40.0 22-23 36.97525 37.0 37.0 40.0 33.0 40.0 24-25 37.1 37.0 37.0 40.0 33.0 40.0 26-27 37.0895 37.0 37.0 40.0 33.0 40.0 28-29 36.8915 37.0 37.0 40.0 33.0 40.0 30-31 36.865125 37.0 37.0 40.0 33.0 40.0 32-33 36.736875 37.0 37.0 40.0 33.0 40.0 34-35 36.707125000000005 37.0 37.0 40.0 33.0 40.0 36-37 36.56625 37.0 37.0 40.0 33.0 40.0 38-39 36.115624999999994 37.0 37.0 40.0 33.0 40.0 40-41 35.958875 37.0 37.0 40.0 33.0 40.0 42-43 35.692875 37.0 33.0 40.0 30.0 40.0 44-45 35.36725 37.0 33.0 40.0 27.0 40.0 46-47 35.002375 37.0 33.0 38.5 27.0 40.0 48-49 34.9885 37.0 33.0 37.0 27.0 40.0 50-51 34.881625 37.0 33.0 37.0 27.0 40.0 52-53 34.551500000000004 37.0 33.0 37.0 27.0 40.0 54-55 34.604124999999996 37.0 33.0 37.0 27.0 40.0 56-57 34.081 37.0 33.0 37.0 27.0 40.0 58-59 31.822249999999997 33.0 30.0 37.0 22.0 37.0 60-61 33.503125 37.0 33.0 37.0 27.0 37.0 62-63 33.55925 37.0 33.0 37.0 27.0 37.0 64-65 33.44675 37.0 33.0 37.0 27.0 37.0 66-67 33.253375 37.0 33.0 37.0 27.0 37.0 68-69 32.697500000000005 35.0 33.0 37.0 27.0 37.0 70-71 32.75976857429718 35.0 33.0 37.0 27.0 37.0 72-73 33.1203613275966 37.0 33.0 37.0 27.0 37.0 74-75 33.141404636898386 37.0 33.0 37.0 27.0 37.0 76-77 33.2140391728984 37.0 33.0 37.0 27.0 37.0 78-79 33.194055983115696 37.0 33.0 37.0 27.0 37.0 80-81 33.18652743490536 37.0 33.0 37.0 27.0 37.0 82-83 32.96593086375898 33.0 33.0 37.0 27.0 37.0 84-85 32.69415204678363 33.0 33.0 37.0 27.0 37.0 86-87 32.607486631016044 33.0 33.0 37.0 27.0 37.0 88-89 32.791443850267385 33.0 33.0 37.0 27.0 37.0 90-91 32.47553475935829 33.0 33.0 37.0 24.5 37.0 92-93 32.39625668449198 33.0 33.0 37.0 24.5 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 18.0 21 23.0 22 29.0 23 32.0 24 33.0 25 47.0 26 60.0 27 61.0 28 70.0 29 75.0 30 92.0 31 133.0 32 173.0 33 212.0 34 247.0 35 466.0 36 715.0 37 885.0 38 608.0 39 21.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 84.0 3.775 4.725 7.5 2 64.25 21.5 9.375 4.875 3 32.275 39.1 16.975 11.65 4 30.425 26.200000000000003 21.45 21.925 5 23.95 28.125 31.65 16.275000000000002 6 19.825 35.8 26.875 17.5 7 35.175 28.625 21.675 14.524999999999999 8 28.050000000000004 29.275000000000002 26.85 15.825 9 23.45 26.275 31.5 18.775 10-11 23.1875 27.3125 31.9625 17.5375 12-13 23.974999999999998 26.950000000000003 28.975 20.1 14-15 19.6375 29.9875 31.3 19.075 16-17 23.0125 31.624999999999996 25.275 20.0875 18-19 22.4375 27.85 30.075000000000003 19.6375 20-21 24.86560820102513 25.065633204150515 29.603700462557818 20.465058132266535 22-23 28.65 22.3125 28.812500000000004 20.225 24-25 24.15 27.500000000000004 28.762500000000003 19.5875 26-27 25.3 24.1875 32.225 18.2875 28-29 25.900000000000002 28.325 27.85 17.925 30-31 25.6125 26.8625 28.199999999999996 19.325 32-33 22.8 26.6625 30.975 19.5625 34-35 22.4875 28.8625 27.375 21.275 36-37 24.168542135533883 25.93148287071768 27.91947986996749 21.980495123780948 38-39 26.770077558168627 24.993745308981737 29.659744808606455 18.576432324243182 40-41 25.724999999999998 24.4375 27.6375 22.2 42-43 24.118529632408105 28.89472368092023 27.831957989497376 19.154788697174293 44-45 21.5375 27.187499999999996 32.074999999999996 19.2 46-47 23.7 26.5625 28.7 21.0375 48-49 24.5375 25.374999999999996 30.5 19.5875 50-51 22.989368355222016 26.71669793621013 30.06879299562226 20.225140712945592 52-53 25.07503751875938 28.101550775387697 26.475737868934466 20.34767383691846 54-55 23.95 27.675 31.4 16.975 56-57 25.337500000000002 27.287499999999998 28.625 18.75 58-59 22.9875 26.224999999999998 30.625000000000004 20.1625 60-61 25.087500000000002 26.375 29.275000000000002 19.2625 62-63 22.025 30.312499999999996 30.725 16.9375 64-65 22.55 29.725 30.112499999999997 17.6125 66-67 25.0 29.7375 26.775 18.4875 68-69 21.275 27.9125 28.6375 22.175 70-71 23.98547094188377 28.306613226452903 28.1312625250501 19.576653306613228 72-73 24.813927084647407 25.924057020310332 29.759051343509523 19.502964551532738 74-75 22.905027932960895 27.450482478415438 29.735906551549007 19.908583037074656 76-77 22.279129321382843 27.93854033290653 27.56722151088348 22.215108834827145 78-79 23.76224858174317 27.024239298607526 29.654461062403303 19.559051057246002 80-81 21.584699453551913 31.498829039812648 28.74056726515743 18.175904241478012 82-83 22.45489266429606 27.261951797708416 30.21203740287107 20.071118135124458 84-85 22.940549186883498 23.673687016795522 32.697947214076244 20.687816582244732 86-87 21.44385026737968 26.069518716577537 31.109625668449198 21.377005347593585 88-89 19.933155080213904 29.919786096256683 30.989304812834224 19.15775401069519 90-91 25.60160427807487 29.518716577540104 27.5668449197861 17.31283422459893 92-93 21.510695187165776 32.406417112299465 28.449197860962567 17.63368983957219 >>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 1.0 17 10.0 18 11.5 19 3.0 20 1.0 21 2.5 22 3.0 23 6.0 24 8.5 25 8.5 26 15.0 27 18.0 28 25.5 29 34.5 30 33.0 31 43.5 32 60.0 33 88.0 34 107.0 35 117.0 36 141.5 37 189.5 38 236.5 39 213.0 40 185.0 41 197.5 42 226.0 43 246.5 44 211.5 45 180.0 46 204.0 47 193.5 48 149.5 49 150.0 50 167.5 51 146.5 52 121.5 53 111.0 54 110.0 55 88.0 56 49.0 57 41.5 58 35.5 59 22.0 60 16.5 61 15.0 62 12.5 63 17.0 64 15.5 65 10.5 66 8.5 67 7.5 68 9.0 69 10.5 70 8.0 71 5.0 72 6.5 73 9.0 74 9.0 75 5.0 76 1.0 77 0.0 78 0.0 79 0.5 80 0.5 81 0.0 82 0.5 83 0.5 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 0.025 38-39 0.075 40-41 0.0 42-43 0.025 44-45 0.0 46-47 0.0 48-49 0.0 50-51 0.0625 52-53 0.05 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 16.0 71 14.0 72 13.0 73 11.0 74 16.0 75 17.0 76 16.0 77 11.0 78 16.0 79 21.0 80 12.0 81 29.0 82 23.0 83 23.0 84 22.0 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 3740.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 74.65 #Duplication Level Percentage of deduplicated Percentage of total 1 92.6992632283992 69.19999999999999 2 3.6838580040187545 5.5 3 1.0046885465505693 2.25 4 0.5693235097119892 1.7000000000000002 5 0.3014065639651708 1.125 6 0.26791694574681846 1.2 7 0.26791694574681846 1.4000000000000001 8 0.20093770931011384 1.2 9 0.06697923643670461 0.44999999999999996 >10 0.8037508372404554 9.525 >50 0.13395847287340923 6.45 >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 GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 70 1.7500000000000002 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 68 1.7000000000000002 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 62 1.55 No Hit GGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGC 58 1.4500000000000002 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 29 0.7250000000000001 No Hit GGGTTGTTTGGGAATGCAGCCCAAATCGGGCGGTAGACTCCGTCCAAGGC 26 0.65 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 21 0.525 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 20 0.5 No Hit GGGCATTCGTATTTCATAGTCAGAGGTGAAATTCTTGGATTTATGAAAGA 19 0.475 No Hit GGAGTATCCTTGATATATAAATATATAGATAAATAGATTTAAATGGAAAA 19 0.475 No Hit GGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTC 18 0.44999999999999996 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 18 0.44999999999999996 No Hit GGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAA 17 0.42500000000000004 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 17 0.42500000000000004 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 16 0.4 No Hit GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 16 0.4 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 14 0.35000000000000003 No Hit CAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTC 14 0.35000000000000003 No Hit GGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACGA 13 0.325 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 13 0.325 No Hit GGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAA 13 0.325 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 12 0.3 No Hit GTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAA 12 0.3 No Hit GGGTGAGAGCCCCGTCCGGCCCGGACCCTGTCGCCCCACGAGGCGCCGTC 12 0.3 No Hit CAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCT 11 0.27499999999999997 No Hit GTATTTAGCCTTGCAAGGTGGTCCTTGCTGATTCACACGGGATTCCACGT 11 0.27499999999999997 No Hit GGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTT 10 0.25 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 10 0.25 No Hit GGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTG 9 0.22499999999999998 No Hit GTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCT 9 0.22499999999999998 No Hit GGGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTT 8 0.2 No Hit GGAGGGTGAGAGCCCCGTCCGGCCCGGACCCTGTCGCCCCACGAGGCGCC 8 0.2 No Hit GGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCG 8 0.2 No Hit GGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAAATACTCCT 8 0.2 No Hit GGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACT 8 0.2 No Hit GGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTTG 8 0.2 No Hit GGTCTTGATCCCTCTGTGTTTCCCGTGTAACGGCTACTGATCCAGTGGTT 7 0.17500000000000002 No Hit GGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGATTAATAG 7 0.17500000000000002 No Hit GAAGCCTGTGTACAAGCTCGTAACGAAGGGCGCGATCTTGCTCGTGAAGG 7 0.17500000000000002 No Hit GGGAGTATTATGAAAGGAGATTAATCATAGATTATCAAAAACCCTAGAAA 7 0.17500000000000002 No Hit GGGGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCT 7 0.17500000000000002 No Hit GGGGCATTCGTATTTCATAGTCAGAGGTGAAATTCTTGGATTTATGAAAG 7 0.17500000000000002 No Hit GGTTTTGAAAAGGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAA 7 0.17500000000000002 No Hit GAACGTAATGCTCACAACTTCCCTCTAGATCTAGCTGCTCTTGAAGTTCC 7 0.17500000000000002 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 6 0.15 No Hit GGTGGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGC 6 0.15 No Hit GGGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACG 6 0.15 No Hit GGGAGGGTGAGAGCCCCGTCCGGCCCGGACCCTGTCGCCCCACGAGGCGC 6 0.15 No Hit GTGGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAAATACTC 6 0.15 No Hit GGGGAAGTACACCAGCGACGGCGAGGCCGCCGCCGCCAAGGAAGGCATGT 6 0.15 No Hit CACGAACGTAATGCTCACAACTTCCCTCTAGATCTAGCTGCTCTTGAAGT 6 0.15 No Hit AAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCC 6 0.15 No Hit GGAGGAGATCGAGTTGTTACTTGAGAGTTTGTAACCCTTTATCATACCAT 5 0.125 No Hit GGGAATGCAGCCCAAATCGGGCGGTAGACTCCGTCCAAGGCTAAATACAG 5 0.125 No Hit GGAAAGGCTTGCGGTGGATACCTAGGCACCCAGAGACGAGGAAGGGCGTA 5 0.125 No Hit GTATGGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGATTA 5 0.125 No Hit GGCCTGTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCG 5 0.125 No Hit GGGAAATTAACAGTTGGAAAGGGCGATCGGTCTTGATCCCTCTGTGTTTC 5 0.125 No Hit GGGCCGGGTATCTCTCTGCATGTACGTATGCCTGTAATGTACGTAGCTAC 5 0.125 No Hit AGTATGGCATCGGTTACATACTTCAGTGCCGTAGCGCCTGGTATGAGCCT 5 0.125 No Hit GTACAAGCTCGTAACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAAT 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 0.037500000000000006 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 0.05 0.0 0.0 0.0 0.0 38-39 0.05 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 0.1 0.0 0.0 0.0 0.0 48-49 0.1 0.0 0.0 0.0 0.0 50-51 0.1 0.0 0.0 0.0 0.0 52-53 0.1 0.0 0.0 0.0 0.0 54-55 0.1 0.0 0.0 0.0 0.0 56-57 0.1 0.0 0.0 0.0 0.0 58-59 0.1 0.0 0.0 0.0 0.0 60-61 0.1125 0.0 0.0 0.0 0.0 62-63 0.15 0.0 0.0 0.0 0.0 64-65 0.15 0.0 0.0 0.0 0.0 66-67 0.15 0.0 0.0 0.0 0.0 68-69 0.15 0.0 0.0 0.0 0.0 70-71 0.15 0.0 0.0 0.0 0.0 72-73 0.225 0.0 0.0 0.0 0.0 74-75 0.225 0.0 0.0 0.0 0.0 76-77 0.225 0.0 0.0 0.0 0.0 78-79 0.225 0.0 0.0 0.0 0.0 80-81 0.225 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position GCAATAC 15 9.0027123E-4 86.2875 7 CAATACA 15 9.0027123E-4 86.2875 8 GAGCAAT 15 9.0027123E-4 86.2875 5 AGAGCAA 15 9.0027123E-4 86.2875 4 GAGAGCA 15 9.0027123E-4 86.2875 3 AATACAA 15 9.0027123E-4 86.2875 9 AGCAATA 15 9.0027123E-4 86.2875 6 GGAGAGC 20 0.0028203723 64.71563 2 GGGAGAG 20 0.0028203723 64.71563 1 GTTGAGT 20 8.1483385E-4 43.14375 38-39 GTGTACA 25 0.0024406638 34.515003 48-49 GTACAAG 25 0.0024406638 34.515003 50-51 CTGTGTA 25 0.0024406638 34.515003 46-47 GCCTGTG 25 0.0024406638 34.515003 44-45 AAAAAAA 30 0.0046235686 30.276318 86-87 GCGCGAT 30 0.0054277163 29.312103 70-71 GGGCGCG 30 0.0056010457 29.126583 68-69 CTTTAGA 30 0.0059608263 28.762499 36-37 GAGTGGC 30 0.0059608263 28.762499 30-31 AACGAAG 30 0.0059608263 28.762499 62-63 >>END_MODULE Rejected 210738 READS because READLEN < 1 Read 210738 spots for ERR6133302.sra Written 210738 spots for ERR6133302.sra Rejected 210738 READS because READLEN < 1 Read 210738 spots for ERR6133302.sra Written 210738 spots for ERR6133302.sra Rejected 210738 READS because READLEN < 1 Read 210738 spots for ERR6133302.sra Written 210738 spots for ERR6133302.sra Rejected 210738 READS because READLEN < 1 Read 210738 spots for ERR6133302.sra Written 210738 spots for ERR6133302.sra Rejected 210738 READS because READLEN < 1 Read 210738 spots for ERR6133302.sra Written 210738 spots for ERR6133302.sra Rejected 210738 READS because READLEN < 1 Read 210738 spots for ERR6133302.sra Written 210738 spots for ERR6133302.sra Rejected 210738 READS because READLEN < 1 Read 210738 spots for ERR6133302.sra Written 210738 spots for ERR6133302.sra Rejected 210738 READS because READLEN < 1 Read 210738 spots for ERR6133302.sra Written 210738 spots for ERR6133302.sra Rejected 210738 READS because READLEN < 1 Read 210738 spots for ERR6133302.sra Written 210738 spots for ERR6133302.sra Rejected 210738 READS because READLEN < 1 Read 210738 spots for ERR6133302.sra Written 210738 spots for ERR6133302.sra Rejected 210738 READS because READLEN < 1 Read 210738 spots for ERR6133302.sra Written 210738 spots for ERR6133302.sra Rejected 210738 READS because READLEN < 1 Read 210738 spots for ERR6133302.sra Written 210738 spots for ERR6133302.sra Rejected 210738 READS because READLEN < 1 Read 210738 spots for ERR6133302.sra Written 210738 spots for ERR6133302.sra Rejected 210741 READS because READLEN < 1 Read 210741 spots for ERR6133302.sra Written 210741 spots for ERR6133302.sra Rejected 210738 READS because READLEN < 1 Read 210738 spots for ERR6133302.sra Written 210738 spots for ERR6133302.sra Rejected 210738 READS because READLEN < 1 Read 210738 spots for ERR6133302.sra Written 210738 spots for ERR6133302.sra Rejected 210738 READS because READLEN < 1 Read 210738 spots for ERR6133302.sra Written 210738 spots for ERR6133302.sra Rejected 210738 READS because READLEN < 1 Read 210738 spots for ERR6133302.sra Written 210738 spots for ERR6133302.sra Rejected 210738 READS because READLEN < 1 Read 210738 spots for ERR6133302.sra Written 210738 spots for ERR6133302.sra Rejected 210738 READS because READLEN < 1 Read 210738 spots for ERR6133302.sra Written 210738 spots for ERR6133302.sra SRR ids: ['ERR6133302.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_chetx248 ERR6133302.sra spots: 4214763 blocks: [[1, 210738], [210739, 421476], [421477, 632214], [632215, 842952], [842953, 1053690], [1053691, 1264428], [1264429, 1475166], [1475167, 1685904], [1685905, 1896642], [1896643, 2107380], [2107381, 2318118], [2318119, 2528856], [2528857, 2739594], [2739595, 2950332], [2950333, 3161070], [3161071, 3371808], [3371809, 3582546], [3582547, 3793284], [3793285, 4004022], [4004023, 4214763]] ERR6133302 file size 927566 ERR6133302 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 ERR6133302 ERR6133302_1.fastq Input file: ERR6133302_1.fastq trimmed: ERR6133302-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 00:07:00 2024 >> started Sat Dec 7 00:07:03 2024 >> done (2.705s) 4214763 reads processed; of these: 613 ( 0.01%) short reads filtered out after trimming by size control 44 ( 0.00%) empty reads filtered out after trimming by size control 4214106 (99.98%) reads available; of these: 74136 ( 1.76%) trimmed reads available after processing 4139970 (98.24%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 87 0.00% 19 206 0.00% 20 120 0.00% 21 190 0.00% 22 206 0.00% 23 55 0.00% 24 60 0.00% 25 43 0.00% 26 42 0.00% 27 70 0.00% 28 145 0.00% 29 123 0.00% 30 121 0.00% 31 179 0.00% 32 110 0.00% 33 70 0.00% 34 80 0.00% 35 656 0.02% 36 678 0.02% 37 110 0.00% 38 142 0.00% 39 653 0.02% 40 319 0.01% 41 240 0.01% 42 33 0.00% 43 34 0.00% 44 41 0.00% 45 33 0.00% 46 25 0.00% 47 18 0.00% 48 22 0.00% 49 34 0.00% 50 18 0.00% 51 128 0.00% 52 31 0.00% 53 19 0.00% 54 12 0.00% 55 17 0.00% 56 16 0.00% 57 43 0.00% 58 49 0.00% 59 20 0.00% 60 46 0.00% 61 27 0.00% 62 2 0.00% 63 5 0.00% 64 6 0.00% 65 6 0.00% 66 16 0.00% 67 11 0.00% 68 52 0.00% 69 218 0.01% 70 17398 0.41% 71 16591 0.39% 72 20031 0.48% 73 16083 0.38% 74 16702 0.40% 75 18144 0.43% 76 14944 0.35% 77 15226 0.36% 78 17803 0.42% 79 20110 0.48% 80 19287 0.46% 81 22976 0.55% 82 25641 0.61% 83 24449 0.58% 84 22408 0.53% 85 211 0.01% 86 384 0.01% 87 605 0.01% 88 1116 0.03% 89 2036 0.05% 90 3949 0.09% 91 12817 0.30% 92 43922 1.04% 93 3855586 91.49% 4214106 reads passed initial QC criterion=sequence-density sequence-density=0.66 sequence-density-rank=1 fanout-score=5.12 fanout-score-rank=20 prefix-density=1.81 prefix-fanout=1.9 sequence=AGGCTAAATACTCCTGGGTGACCGATAGCG criterion=fanout-score sequence-density=0.01 sequence-density-rank=28 fanout-score=152.79 fanout-score-rank=1 prefix-density=0.36 prefix-fanout=5.7 sequence=GAAGAAGAAAAGTTTTCTCAACATGGGGAGGAAGTCCCTCCGAAATTTGATTTGTTATTGTATTGTAAGGGGCTTTTTTAGTATTTATCTAAAGGAAGGAACAAACGAGGATAAGATAAAATTTCTTTAAATTTATTTTGCCCAAGTGGGATATATGGCATACTATTCTTTCCATTTTCATCTTTTTTTCTATTCCACTCCATCTAGATATAAGAAAGAACCCAATGCAATGAAATTCCACTAATATACAATACAAAAAAGAAGAATAGATACAGGGTCTCAAACCTTGCTATAGAGTTTTTGCTTTAAAG Started job on | Dec 07 00:07:23 Started mapping on | Dec 07 00:07:23 Finished on | Dec 07 00:07:30 Mapping speed, Million of reads per hour | 2167.25 Number of input reads | 4214106 Average input read length | 91 UNIQUE READS: Uniquely mapped reads number | 2431990 Uniquely mapped reads % | 57.71% Average mapped length | 91.26 Number of splices: Total | 75334 Number of splices: Annotated (sjdb) | 60969 Number of splices: GT/AG | 71765 Number of splices: GC/AG | 1864 Number of splices: AT/AC | 51 Number of splices: Non-canonical | 1654 Mismatch rate per base, % | 0.44% Deletion rate per base | 0.04% Deletion average length | 1.75 Insertion rate per base | 0.02% Insertion average length | 1.69 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 1537106 % of reads mapped to multiple loci | 36.48% Number of reads mapped to too many loci | 162625 % of reads mapped to too many loci | 3.86% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.70% % of reads unmapped: other | 0.26% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 245010 245010 245010 N_multimapping 1537106 1537106 1537106 N_noFeature 218709 242806 2323207 N_ambiguous 99758 14660 738 UnstrandedReadsAssigned:2113523 PositiveStrandReadsAssigned:2174524 NegativeStrandReadsAssigned:108045 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133302 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: ERR6133302-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 4,214,106 reads, 3,214,575 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,005 rounds 52973 ERR6133302.ke.tsv 35125 ERR6133302.se.tsv 88098 total ==> ERR6133302.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 21.172 PNS24243 293 194 0 0 KQK14069 1603 1504 28 7.83749 KQK14071 474 375 0 0 ==> ERR6133302.se.tsv <== BRADI_1g14170v3 28 BRADI_1g53295v3 63 BRADI_1g59795v3 18 BRADI_1g07683v3 0 BRADI_1g00485v3 1 BRADI_1g20270v3 35 BRADI_1g74790v3 39 BRADI_1g09890v3 0 BRADI_1g77505v3 78 BRADI_1g48960v3 0 ERR6133302 completed mapping pipeline successfully