Starting /dee2/code/volunteer_pipeline.sh ERR6133514 current disk space = 1544360574976 free memory = 1597878416 ERR6133514 SRAfilesize d2fcf0fa4b6ce3c56ec276e7702545a6 ERR6133514.sra ERR6133514.sra file validated ERR6133514 is single end ERR6133514 is conventional basespace ERR6133514 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133514_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 36.59275 37.0 37.0 37.0 37.0 37.0 2 36.81575 37.0 37.0 37.0 37.0 37.0 3 36.547 37.0 37.0 37.0 37.0 37.0 4 36.002 37.0 37.0 37.0 33.0 37.0 5 36.127 37.0 37.0 37.0 33.0 37.0 6 36.29975 37.0 37.0 37.0 33.0 37.0 7 38.4185 40.0 37.0 40.0 37.0 40.0 8 38.401 40.0 37.0 40.0 37.0 40.0 9 38.472 40.0 37.0 40.0 37.0 40.0 10-11 38.43475 40.0 37.0 40.0 37.0 40.0 12-13 38.358875 40.0 37.0 40.0 37.0 40.0 14-15 38.33325 40.0 37.0 40.0 37.0 40.0 16-17 38.256874999999994 40.0 37.0 40.0 37.0 40.0 18-19 38.18825 40.0 37.0 40.0 37.0 40.0 20-21 38.136250000000004 40.0 37.0 40.0 37.0 40.0 22-23 38.318625 40.0 37.0 40.0 37.0 40.0 24-25 38.192750000000004 40.0 37.0 40.0 37.0 40.0 26-27 38.160375 40.0 37.0 40.0 37.0 40.0 28-29 38.111125 40.0 37.0 40.0 37.0 40.0 30-31 38.1755 40.0 37.0 40.0 37.0 40.0 32-33 38.21925 40.0 37.0 40.0 37.0 40.0 34-35 38.139250000000004 40.0 37.0 40.0 37.0 40.0 36-37 38.01675 40.0 37.0 40.0 37.0 40.0 38-39 37.934 37.0 37.0 40.0 37.0 40.0 40-41 37.747749999999996 37.0 37.0 40.0 37.0 40.0 42-43 37.685625 37.0 37.0 40.0 37.0 40.0 44-45 37.388875 37.0 37.0 40.0 35.0 40.0 46-47 37.25325 37.0 37.0 40.0 33.0 40.0 48-49 37.089749999999995 37.0 37.0 40.0 33.0 40.0 50-51 36.938375 37.0 37.0 37.0 33.0 40.0 52-53 36.602000000000004 37.0 37.0 37.0 33.0 40.0 54-55 36.548 37.0 37.0 37.0 33.0 40.0 56-57 36.384874999999994 37.0 37.0 37.0 33.0 40.0 58-59 35.908500000000004 37.0 37.0 37.0 33.0 37.0 60-61 36.143 37.0 37.0 37.0 33.0 37.0 62-63 36.03 37.0 37.0 37.0 33.0 37.0 64-65 35.8635 37.0 37.0 37.0 33.0 37.0 66-67 35.841875 37.0 37.0 37.0 33.0 37.0 68-69 34.955124999999995 35.0 35.0 37.0 33.0 37.0 70-71 35.11896307884856 37.0 33.0 37.0 33.0 37.0 72-73 35.6132480781049 37.0 33.0 37.0 33.0 37.0 74-75 35.53692941319686 37.0 33.0 37.0 33.0 37.0 76-77 35.51557882352642 37.0 33.0 37.0 33.0 37.0 78-79 35.44555962607377 37.0 33.0 37.0 33.0 37.0 80-81 35.280779659325304 37.0 33.0 37.0 33.0 37.0 82-83 35.18928705292281 37.0 33.0 37.0 33.0 37.0 84-85 35.09200254595503 37.0 33.0 37.0 33.0 37.0 86-87 35.090654443595625 37.0 33.0 37.0 33.0 37.0 88-89 34.96320346320346 37.0 33.0 37.0 33.0 37.0 90-91 34.97313470842883 37.0 33.0 37.0 33.0 37.0 92-93 34.90119684237331 37.0 33.0 37.0 33.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 2.0 21 4.0 22 3.0 23 3.0 24 8.0 25 15.0 26 5.0 27 11.0 28 15.0 29 13.0 30 34.0 31 39.0 32 46.0 33 58.0 34 106.0 35 283.0 36 990.0 37 1475.0 38 880.0 39 10.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 82.325 4.3 7.124999999999999 6.25 2 66.7 18.925 8.774999999999999 5.6000000000000005 3 32.574999999999996 36.425000000000004 16.325 14.674999999999999 4 32.05 25.75 20.674999999999997 21.525 5 24.375 27.3 31.324999999999996 17.0 6 17.75 36.225 27.500000000000004 18.525 7 35.725 27.775 19.650000000000002 16.85 8 30.175 30.9 22.900000000000002 16.025 9 24.7 29.25 26.974999999999998 19.075 10-11 24.775 26.6625 29.8875 18.675 12-13 27.275 27.6875 26.237500000000004 18.8 14-15 21.975 32.225 27.800000000000004 18.0 16-17 24.025 32.574999999999996 25.137500000000003 18.2625 18-19 22.35 29.875 27.9375 19.8375 20-21 24.69058632329041 27.61595199399925 28.34104263032879 19.35241905238155 22-23 27.9375 23.2375 27.712500000000002 21.1125 24-25 24.6125 29.012500000000003 27.6625 18.712500000000002 26-27 25.087500000000002 25.35 32.525 17.0375 28-29 25.174999999999997 28.262500000000003 27.200000000000003 19.3625 30-31 25.112499999999997 26.724999999999998 29.25 18.912499999999998 32-33 23.5875 27.1125 28.95 20.349999999999998 34-35 23.1375 29.462500000000002 26.787499999999998 20.6125 36-37 25.2 27.237499999999997 27.400000000000002 20.1625 38-39 27.325 24.2625 30.049999999999997 18.3625 40-41 26.1 26.75 25.85 21.3 42-43 25.174999999999997 27.950000000000003 27.6125 19.2625 44-45 22.7 28.1125 29.875 19.3125 46-47 24.4125 24.875 30.0375 20.674999999999997 48-49 23.674999999999997 25.874999999999996 30.587500000000002 19.8625 50-51 22.537499999999998 28.962500000000002 28.825 19.675 52-53 26.650795639644155 27.61558701917053 26.187194587144468 19.546422754040847 54-55 26.887499999999996 25.724999999999998 30.912499999999998 16.475 56-57 26.737499999999997 25.7375 28.95 18.575 58-59 24.5625 23.7 31.424999999999997 20.3125 60-61 24.05 26.450000000000003 30.587500000000002 18.912499999999998 62-63 21.712500000000002 30.1375 31.55 16.6 64-65 22.35 27.8875 32.175 17.5875 66-67 22.912499999999998 28.962500000000002 29.1125 19.0125 68-69 21.0625 26.950000000000003 28.5875 23.400000000000002 70-71 22.163852407754845 28.017510944340213 30.081300813008134 19.73733583489681 72-73 25.65615973879191 24.927791033530077 29.19753861609946 20.218510611578548 74-75 23.153391216811375 27.557568893922234 30.84182710456776 18.44721278469863 76-77 22.765662422790875 25.097693180385733 29.068448254128327 23.068196142695072 78-79 25.801970194493556 24.80424349583228 30.66430916898207 18.729477140692094 80-81 21.95522954344252 31.08637915770836 29.960794232958136 16.997597065890982 82-83 22.58596624793808 27.179291968024362 30.83365055196041 19.401091232077146 84-85 23.56533910166688 21.66942359078763 33.846545362005344 20.918691945540143 86-87 21.65775401069519 26.508785332314744 31.23249299719888 20.600967659791188 88-89 19.811560988031577 30.863254392666157 30.11204481792717 19.213139801375096 90-91 25.146422205245734 26.07588489941431 30.977845683728038 17.79984721161192 92-93 22.63814616755793 30.888719124013242 27.603768780239367 18.869365928189456 >>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 18.5 18 21.0 19 3.0 20 1.5 21 3.0 22 2.5 23 4.5 24 8.0 25 6.5 26 6.5 27 11.0 28 18.0 29 23.0 30 26.5 31 26.0 32 37.5 33 68.5 34 77.0 35 80.0 36 108.5 37 148.0 38 193.0 39 205.0 40 222.0 41 222.0 42 222.5 43 251.0 44 217.0 45 187.0 46 210.5 47 226.0 48 200.5 49 184.0 50 219.5 51 204.5 52 127.0 53 115.0 54 109.5 55 61.5 56 40.0 57 41.0 58 34.5 59 24.5 60 21.0 61 16.5 62 12.5 63 16.0 64 15.0 65 9.0 66 6.0 67 3.0 68 3.0 69 4.5 70 4.5 71 5.0 72 2.5 73 0.0 74 0.5 75 1.0 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 0.0125 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 0.0 38-39 0.0 40-41 0.0 42-43 0.0 44-45 0.0 46-47 0.0 48-49 0.0 50-51 0.0 52-53 0.2375 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 5.0 71 9.0 72 9.0 73 3.0 74 1.0 75 5.0 76 3.0 77 5.0 78 2.0 79 3.0 80 3.0 81 7.0 82 9.0 83 4.0 84 5.0 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 3927.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 73.97500000000001 #Duplication Level Percentage of deduplicated Percentage of total 1 92.39607975667455 68.35 2 3.7850625211220006 5.6000000000000005 3 1.2166272389320716 2.7 4 0.9462656302805001 2.8000000000000003 5 0.27036160865157144 1.0 6 0.16897600540723218 0.75 7 0.2027712064886786 1.05 8 0.1013856032443393 0.6 9 0.06759040216289286 0.44999999999999996 >10 0.7434944237918215 10.625 >50 0.06759040216289286 3.5249999999999995 >100 0.03379520108144643 2.55 >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 TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 102 2.55 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 80 2.0 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 61 1.525 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 45 1.125 No Hit GGAGTATCCTTGATATATAAATATATAGATAAATAGATTTAAATGGAAAA 36 0.8999999999999999 No Hit GGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGC 29 0.7250000000000001 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 27 0.675 No Hit GGGAGTATTATGAAAGGAGATTAATCATAGATTATCAAAAACCCTAGAAA 27 0.675 No Hit GTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAA 25 0.625 No Hit CAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTC 21 0.525 No Hit GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 20 0.5 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 19 0.475 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 19 0.475 No Hit GGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACGA 16 0.4 No Hit GGGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACG 16 0.4 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 15 0.375 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 15 0.375 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 15 0.375 No Hit GGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAA 13 0.325 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 13 0.325 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 12 0.3 No Hit GGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTC 11 0.27499999999999997 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 11 0.27499999999999997 No Hit GGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAA 10 0.25 No Hit TCAAAAGAGGAAAGGCTTGCGGTGGATACCTAGGCACCCAGAGACGAGGA 10 0.25 No Hit CAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCT 9 0.22499999999999998 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 9 0.22499999999999998 No Hit GGTGGGGCAATGGGCATTCCGTTGAGTTTGTATGGTGGGTGCTGTTTTGC 8 0.2 No Hit GGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTA 8 0.2 No Hit GGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACT 8 0.2 No Hit GGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCTAAATGGATTC 7 0.17500000000000002 No Hit GGCCTGTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCG 7 0.17500000000000002 No Hit GGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTT 7 0.17500000000000002 No Hit GTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCT 7 0.17500000000000002 No Hit GGGCCATTTGTGGCATGCAGGAAGAGCCCGAGCTGCTGCAGCAGGTTTTG 7 0.17500000000000002 No Hit GGTTTTGAAAAGGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAA 7 0.17500000000000002 No Hit GGGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTT 6 0.15 No Hit GAAGGAACAAACGAGGATAAGATAAAATTTCTTTAAATTTATTTTGCCCA 6 0.15 No Hit AGTTCCATCTTGTCTTCTCATTTTATTTTGTTCGCATCGTCGAAGGCAAC 6 0.15 No Hit GGAAGAGCCCGAGCTGCTGCAGCAGGTTTTGAAAAGGGAATCGATCGTGA 6 0.15 No Hit TGAGTATGATGAGTCTGGTCCAGCGATTGTTCACAGGAAGTGCTTCTAAG 6 0.15 No Hit GGAAAGGCTTGCGGTGGATACCTAGGCACCCAGAGACGAGGAAGGGCGTA 5 0.125 No Hit CACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTTCGGGGAGT 5 0.125 No Hit GGTGGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGC 5 0.125 No Hit GGAAACAACGAGGTCATCATCGACATGATATATTGCTGCTATTTTCCACC 5 0.125 No Hit GGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAAATACTCCT 5 0.125 No Hit GGAGTCCCATATATATATGTATAAGATGCCAGCCCGGTTTCGTCAACCAT 5 0.125 No Hit GGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCTAAA 5 0.125 No Hit GGAATAAGAATAAATCGCAACTCCTTTCCACTACACATAAAAATTGATTT 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 0.05 0.0 0.0 0.0 0.0 32-33 0.07500000000000001 0.0 0.0 0.0 0.0 34-35 0.125 0.0 0.0 0.0 0.0 36-37 0.1375 0.0 0.0 0.0 0.0 38-39 0.175 0.0 0.0 0.0 0.0 40-41 0.175 0.0 0.0 0.0 0.0 42-43 0.175 0.0 0.0 0.0 0.0 44-45 0.175 0.0 0.0 0.0 0.0 46-47 0.175 0.0 0.0 0.0 0.0 48-49 0.175 0.0 0.0 0.0 0.0 50-51 0.175 0.0 0.0 0.0 0.0 52-53 0.175 0.0 0.0 0.0 0.0 54-55 0.175 0.0 0.0 0.0 0.0 56-57 0.175 0.0 0.0 0.0 0.0 58-59 0.175 0.0 0.0 0.0 0.0 60-61 0.1875 0.0 0.0 0.0 0.0 62-63 0.2 0.0 0.0 0.0 0.0 64-65 0.2 0.0 0.0 0.0 0.0 66-67 0.2 0.0 0.0 0.0 0.0 68-69 0.2 0.0 0.0 0.0 0.0 70-71 0.2 0.0 0.0 0.0 0.0 72-73 0.2 0.0 0.0 0.0 0.0 74-75 0.2 0.0 0.0 0.0 0.0 76-77 0.2 0.0 0.0 0.0 0.0 78-79 0.2 0.0 0.0 0.0 0.0 80-81 0.2 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position GGCACCC 20 0.0027643808 65.043755 7 CTAGGCA 20 0.0027643808 65.043755 4 CACCCAG 20 0.0027643808 65.043755 9 AGGCACC 20 0.0027643808 65.043755 6 GCACCCA 20 0.0027643808 65.043755 8 ACCTAGG 20 0.0027643808 65.043755 2 CCTAGGC 20 0.0027643808 65.043755 3 TAGGCAC 20 0.0027643808 65.043755 5 TTCAATT 25 0.0066901566 52.035 4 CAATTTC 25 0.0066901566 52.035 6 GGATTCA 25 0.0066901566 52.035 1 TCAATTT 25 0.0066901566 52.035 5 GATTCAA 25 0.0066901566 52.035 2 TACCTAG 25 0.0066901566 52.035 1 ATTTCAA 25 0.0066901566 52.035 8 ATTCAAT 25 0.0066901566 52.035 3 CGAAATG 30 0.005815267 28.908335 40-41 >>END_MODULE Rejected 31382 READS because READLEN < 1 Read 31382 spots for ERR6133514.sra Written 31382 spots for ERR6133514.sra Rejected 31382 READS because READLEN < 1 Read 31382 spots for ERR6133514.sra Written 31382 spots for ERR6133514.sra Rejected 31382 READS because READLEN < 1 Read 31382 spots for ERR6133514.sra Written 31382 spots for ERR6133514.sra Rejected 31382 READS because READLEN < 1 Read 31382 spots for ERR6133514.sra Written 31382 spots for ERR6133514.sra Rejected 31382 READS because READLEN < 1 Read 31382 spots for ERR6133514.sra Written 31382 spots for ERR6133514.sra Rejected 31382 READS because READLEN < 1 Read 31382 spots for ERR6133514.sra Written 31382 spots for ERR6133514.sra Rejected 31382 READS because READLEN < 1 Read 31382 spots for ERR6133514.sra Written 31382 spots for ERR6133514.sra Rejected 31391 READS because READLEN < 1 Read 31391 spots for ERR6133514.sra Written 31391 spots for ERR6133514.sra Rejected 31382 READS because READLEN < 1 Read 31382 spots for ERR6133514.sra Written 31382 spots for ERR6133514.sra Rejected 31382 READS because READLEN < 1 Read 31382 spots for ERR6133514.sra Written 31382 spots for ERR6133514.sra Rejected 31382 READS because READLEN < 1 Read 31382 spots for ERR6133514.sra Written 31382 spots for ERR6133514.sra Rejected 31382 READS because READLEN < 1 Read 31382 spots for ERR6133514.sra Written 31382 spots for ERR6133514.sra Rejected 31382 READS because READLEN < 1 Read 31382 spots for ERR6133514.sra Written 31382 spots for ERR6133514.sra Rejected 31382 READS because READLEN < 1 Read 31382 spots for ERR6133514.sra Written 31382 spots for ERR6133514.sra Rejected 31382 READS because READLEN < 1 Read 31382 spots for ERR6133514.sra Written 31382 spots for ERR6133514.sra Rejected 31382 READS because READLEN < 1 Read 31382 spots for ERR6133514.sra Written 31382 spots for ERR6133514.sra Rejected 31382 READS because READLEN < 1 Read 31382 spots for ERR6133514.sra Written 31382 spots for ERR6133514.sra Rejected 31382 READS because READLEN < 1 Read 31382 spots for ERR6133514.sra Written 31382 spots for ERR6133514.sra Rejected 31382 READS because READLEN < 1 Read 31382 spots for ERR6133514.sra Written 31382 spots for ERR6133514.sra Rejected 31382 READS because READLEN < 1 Read 31382 spots for ERR6133514.sra Written 31382 spots for ERR6133514.sra SRR ids: ['ERR6133514.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_tax3llpi ERR6133514.sra spots: 627649 blocks: [[1, 31382], [31383, 62764], [62765, 94146], [94147, 125528], [125529, 156910], [156911, 188292], [188293, 219674], [219675, 251056], [251057, 282438], [282439, 313820], [313821, 345202], [345203, 376584], [376585, 407966], [407967, 439348], [439349, 470730], [470731, 502112], [502113, 533494], [533495, 564876], [564877, 596258], [596259, 627649]] ERR6133514 file size 137849 ERR6133514 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 ERR6133514 ERR6133514_1.fastq Input file: ERR6133514_1.fastq trimmed: ERR6133514-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 07:41:48 2024 >> started Sat Dec 7 07:41:49 2024 >> done (0.401s) 627649 reads processed; of these: 186 ( 0.03%) short reads filtered out after trimming by size control 16 ( 0.00%) empty reads filtered out after trimming by size control 627447 (99.97%) reads available; of these: 3688 ( 0.59%) trimmed reads available after processing 623759 (99.41%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 24 0.00% 19 33 0.01% 20 34 0.01% 21 18 0.00% 22 17 0.00% 23 10 0.00% 24 16 0.00% 25 8 0.00% 26 9 0.00% 27 21 0.00% 28 290 0.05% 29 83 0.01% 30 13 0.00% 31 17 0.00% 32 44 0.01% 33 52 0.01% 34 12 0.00% 35 55 0.01% 36 100 0.02% 37 13 0.00% 38 16 0.00% 39 35 0.01% 40 26 0.00% 41 20 0.00% 42 1 0.00% 43 9 0.00% 44 3 0.00% 45 7 0.00% 46 2 0.00% 47 5 0.00% 48 2 0.00% 49 4 0.00% 50 1 0.00% 51 13 0.00% 52 3 0.00% 53 2 0.00% 54 2 0.00% 55 2 0.00% 56 4 0.00% 57 7 0.00% 58 1 0.00% 59 6 0.00% 60 8 0.00% 61 1 0.00% 62 0 0.00% 63 1 0.00% 64 0 0.00% 65 1 0.00% 66 1 0.00% 67 3 0.00% 68 4 0.00% 69 15 0.00% 70 1039 0.17% 71 1009 0.16% 72 918 0.15% 73 923 0.15% 74 912 0.15% 75 994 0.16% 76 802 0.13% 77 838 0.13% 78 944 0.15% 79 1013 0.16% 80 956 0.15% 81 1098 0.17% 82 1021 0.16% 83 1154 0.18% 84 938 0.15% 85 10 0.00% 86 12 0.00% 87 35 0.01% 88 61 0.01% 89 76 0.01% 90 188 0.03% 91 464 0.07% 92 1684 0.27% 93 609284 97.11% 627447 reads passed initial QC criterion=sequence-density sequence-density=0.71 sequence-density-rank=1 fanout-score=1.00 fanout-score-rank=23 prefix-density=0.04 prefix-fanout=1.0 sequence=GGGAGTATTATGAAAGGAGATTAATCATAGATTATCAAAAACCCTAGAAAAAATTCTTCCTGGGTCGATGCCCGAGCGGTTAATGGGGACGGACTGTAAATTCGTTGACAAAATGTCTACGCTGGTTCAAATCCAGCTCGGCCCAAAAATCTGGGGCTTCGTGAATATGAACTAAAT criterion=fanout-score sequence-density=0.04 sequence-density-rank=18 fanout-score=25.78 fanout-score-rank=1 prefix-density=0.72 prefix-fanout=1.6 sequence=TGCTGCAGCAGCTTAATTTGCATGCCAGGGACGCATGCAACGACCATCTACATATAGCTACTCGATCTACCGCTACCATGAACCGATCCAAGGCTAGCTGCACAAGCTAGGCCCTTATTTCCCT Started job on | Dec 07 07:42:01 Started mapping on | Dec 07 07:42:01 Finished on | Dec 07 07:42:08 Mapping speed, Million of reads per hour | 322.69 Number of input reads | 627447 Average input read length | 92 UNIQUE READS: Uniquely mapped reads number | 407871 Uniquely mapped reads % | 65.00% Average mapped length | 92.19 Number of splices: Total | 16660 Number of splices: Annotated (sjdb) | 13051 Number of splices: GT/AG | 15804 Number of splices: GC/AG | 352 Number of splices: AT/AC | 12 Number of splices: Non-canonical | 492 Mismatch rate per base, % | 0.37% Deletion rate per base | 0.04% Deletion average length | 1.82 Insertion rate per base | 0.03% Insertion average length | 1.94 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 194698 % of reads mapped to multiple loci | 31.03% Number of reads mapped to too many loci | 2218 % of reads mapped to too many loci | 0.35% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 3.59% % of reads unmapped: other | 0.02% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 24878 24878 24878 N_multimapping 194698 194698 194698 N_noFeature 32331 36759 389780 N_ambiguous 15675 2000 75 UnstrandedReadsAssigned:359865 PositiveStrandReadsAssigned:369112 NegativeStrandReadsAssigned:18016 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133514 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: ERR6133514-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 627,447 reads, 503,598 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 817 rounds 52973 ERR6133514.ke.tsv 35125 ERR6133514.se.tsv 88098 total ==> ERR6133514.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 11 21.169 PNS24243 293 194 0 0 KQK14069 1603 1504 24 42.1333 KQK14071 474 375 0 0 ==> ERR6133514.se.tsv <== BRADI_1g14170v3 24 BRADI_1g53295v3 3 BRADI_1g59795v3 3 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 0 BRADI_1g74790v3 3 BRADI_1g09890v3 0 BRADI_1g77505v3 13 BRADI_1g48960v3 0 ERR6133514 completed mapping pipeline successfully