Starting /dee2/code/volunteer_pipeline.sh ERR6133520 current disk space = 1544478597120 free memory = 1600482856 ERR6133520 SRAfilesize 78c9a8712dcb21624788a73e2ce6dfc6 ERR6133520.sra ERR6133520.sra file validated ERR6133520 is single end ERR6133520 is conventional basespace ERR6133520 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133520_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 36.554 37.0 37.0 37.0 37.0 37.0 2 36.7925 37.0 37.0 37.0 37.0 37.0 3 36.59575 37.0 37.0 37.0 37.0 37.0 4 36.133 37.0 37.0 37.0 33.0 37.0 5 36.191 37.0 37.0 37.0 33.0 37.0 6 36.395 37.0 37.0 37.0 37.0 37.0 7 38.503 40.0 37.0 40.0 37.0 40.0 8 38.56375 40.0 37.0 40.0 37.0 40.0 9 38.56025 40.0 37.0 40.0 37.0 40.0 10-11 38.583 40.0 37.0 40.0 37.0 40.0 12-13 38.5035 40.0 37.0 40.0 37.0 40.0 14-15 38.501625000000004 40.0 37.0 40.0 37.0 40.0 16-17 38.34525 40.0 37.0 40.0 37.0 40.0 18-19 38.3035 40.0 37.0 40.0 37.0 40.0 20-21 38.270875000000004 40.0 37.0 40.0 37.0 40.0 22-23 38.419624999999996 40.0 37.0 40.0 37.0 40.0 24-25 38.3755 40.0 37.0 40.0 37.0 40.0 26-27 38.333124999999995 40.0 37.0 40.0 37.0 40.0 28-29 38.278125 40.0 37.0 40.0 37.0 40.0 30-31 38.29275 40.0 37.0 40.0 37.0 40.0 32-33 38.364374999999995 40.0 37.0 40.0 37.0 40.0 34-35 38.301125 40.0 37.0 40.0 37.0 40.0 36-37 38.215 40.0 37.0 40.0 37.0 40.0 38-39 38.109375 40.0 37.0 40.0 37.0 40.0 40-41 37.918375 37.0 37.0 40.0 37.0 40.0 42-43 37.82 37.0 37.0 40.0 37.0 40.0 44-45 37.582499999999996 37.0 37.0 40.0 35.0 40.0 46-47 37.46025 37.0 37.0 40.0 37.0 40.0 48-49 37.289500000000004 37.0 37.0 40.0 35.0 40.0 50-51 37.166624999999996 37.0 37.0 40.0 35.0 40.0 52-53 36.783874999999995 37.0 37.0 37.0 33.0 40.0 54-55 36.778375 37.0 37.0 37.0 33.0 40.0 56-57 36.545875 37.0 37.0 37.0 33.0 40.0 58-59 36.085375 37.0 37.0 37.0 33.0 40.0 60-61 36.276875000000004 37.0 37.0 37.0 33.0 37.0 62-63 36.14725 37.0 37.0 37.0 33.0 37.0 64-65 36.00575 37.0 37.0 37.0 33.0 37.0 66-67 35.99675 37.0 37.0 37.0 33.0 37.0 68-69 35.1135 35.0 35.0 37.0 33.0 37.0 70-71 35.24629802878598 37.0 33.0 37.0 33.0 37.0 72-73 35.67327569282503 37.0 35.0 37.0 33.0 37.0 74-75 35.69964158222381 37.0 37.0 37.0 33.0 37.0 76-77 35.72500278043125 37.0 37.0 37.0 33.0 37.0 78-79 35.60462546759217 37.0 33.0 37.0 33.0 37.0 80-81 35.33867811476264 37.0 33.0 37.0 33.0 37.0 82-83 35.209689990117894 37.0 33.0 37.0 33.0 37.0 84-85 35.133270168330256 37.0 33.0 37.0 33.0 37.0 86-87 35.14945167049222 37.0 33.0 37.0 33.0 37.0 88-89 35.15353226217802 37.0 33.0 37.0 33.0 37.0 90-91 35.06745728130579 37.0 33.0 37.0 33.0 37.0 92-93 34.9790869676103 37.0 33.0 37.0 33.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 3.0 21 3.0 22 1.0 23 5.0 24 4.0 25 8.0 26 4.0 27 11.0 28 10.0 29 14.0 30 14.0 31 31.0 32 59.0 33 62.0 34 92.0 35 232.0 36 952.0 37 1530.0 38 947.0 39 18.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 82.65 3.2 7.074999999999999 7.074999999999999 2 64.97500000000001 18.825 11.25 4.95 3 31.924999999999997 36.975 15.45 15.65 4 31.775 26.1 18.525 23.599999999999998 5 24.05 27.275 32.65 16.025 6 18.0 40.65 25.074999999999996 16.275000000000002 7 34.75 29.349999999999998 20.325 15.575 8 30.375000000000004 27.6 25.55 16.475 9 24.175 29.125 26.85 19.85 10-11 20.674999999999997 28.075 30.5125 20.7375 12-13 25.0125 25.825 26.900000000000002 22.2625 14-15 23.5625 32.9 26.35 17.1875 16-17 23.549999999999997 30.5 26.137500000000003 19.8125 18-19 23.252906613326665 27.778472309038634 28.103512939117394 20.865108138517314 20-21 24.81240620310155 26.138069034517258 29.202101050525265 19.847423711855928 22-23 29.375 21.7875 27.775 21.0625 24-25 25.174999999999997 27.437499999999996 27.987499999999997 19.400000000000002 26-27 25.7875 25.624999999999996 32.300000000000004 16.287499999999998 28-29 25.8625 28.3375 25.7 20.1 30-31 27.3284160520065 26.253281660207527 28.178522315289413 18.23977997249656 32-33 24.9 28.4 27.2625 19.4375 34-35 23.225 30.312499999999996 26.0 20.4625 36-37 23.425 27.075 27.950000000000003 21.55 38-39 26.5625 23.2125 31.775 18.45 40-41 26.35329416177022 26.540817602200274 26.440805100637583 20.665083135391924 42-43 27.203400425053132 30.428803600450056 24.515564445555693 17.852231528941118 44-45 24.55 27.6625 27.6 20.1875 46-47 24.2375 23.525 29.875 22.3625 48-49 23.474999999999998 24.7875 30.925000000000004 20.8125 50-51 22.162499999999998 28.775000000000002 28.775000000000002 20.2875 52-53 25.025062656641605 26.92982456140351 26.2531328320802 21.791979949874687 54-55 25.662499999999998 29.012500000000003 28.287499999999998 17.0375 56-57 28.15 26.0125 25.7875 20.05 58-59 23.4625 24.4375 31.474999999999998 20.625 60-61 25.525 28.7 28.462500000000002 17.3125 62-63 21.05 30.2875 31.924999999999997 16.7375 64-65 21.25 32.3125 28.4 18.0375 66-67 22.825 30.2 28.287499999999998 18.6875 68-69 21.55 27.8375 25.825 24.7875 70-71 23.289555972482802 28.918073796122577 27.07942464040025 20.712945590994373 72-73 25.93753919478239 24.181612943684936 27.994481374639406 21.886366486893266 74-75 23.7275355033304 30.81563403292698 27.510368229232125 17.946462234510495 76-77 21.138825900730662 25.673973293020914 27.954144620811288 25.233056185437135 78-79 26.161029782937913 25.88339222614841 28.924785461887936 19.030792529025746 80-81 23.92102265536008 31.654220984685484 28.097709150740414 16.327047209214022 82-83 22.982077030634297 26.719206813270624 28.84199822041439 21.456717935680693 84-85 23.878695208970438 22.120285423037718 32.989296636085626 21.011722731906218 86-87 21.0660545779138 28.19433817903596 29.673552665136445 21.0660545779138 88-89 20.313695485845447 31.293037490436117 29.405763835756183 18.987503187962254 90-91 27.531242030094365 26.35807192042846 28.627901045651623 17.482785003825555 92-93 22.60902830910482 33.1038000510074 26.35807192042846 17.92909971945932 >>END_MODULE >>Per sequence GC content fail #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 10.5 18 14.0 19 5.0 20 2.5 21 4.5 22 5.0 23 7.5 24 8.5 25 4.5 26 7.5 27 12.0 28 11.5 29 10.5 30 20.0 31 28.0 32 31.0 33 48.5 34 62.0 35 61.0 36 119.5 37 195.0 38 220.0 39 191.0 40 199.5 41 208.0 42 183.5 43 197.5 44 183.5 45 171.5 46 213.5 47 202.5 48 156.5 49 185.0 50 223.0 51 212.0 52 172.5 53 178.5 54 168.5 55 96.0 56 49.5 57 45.0 58 38.0 59 27.5 60 18.5 61 10.5 62 10.5 63 10.5 64 7.0 65 7.5 66 5.0 67 2.5 68 2.0 69 2.0 70 2.5 71 1.0 72 0.5 73 1.0 74 1.0 75 1.0 76 1.0 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 0.0125 20-21 0.05 22-23 0.0 24-25 0.0 26-27 0.0 28-29 0.0 30-31 0.0125 32-33 0.0 34-35 0.0 36-37 0.0 38-39 0.0 40-41 0.0125 42-43 0.0125 44-45 0.0 46-47 0.0 48-49 0.0 50-51 0.0 52-53 0.25 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 7.0 72 3.0 73 4.0 74 5.0 75 4.0 76 6.0 77 2.0 78 4.0 79 6.0 80 7.0 81 10.0 82 7.0 83 3.0 84 6.0 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 3921.0 >>END_MODULE >>Sequence Duplication Levels warn #Total Deduplicated Percentage 64.075 #Duplication Level Percentage of deduplicated Percentage of total 1 91.41630901287554 58.575 2 4.330862270776434 5.55 3 1.1705033164260632 2.25 4 0.5462348809988294 1.4000000000000001 5 0.46820132657042524 1.5 6 0.46820132657042524 1.7999999999999998 7 0.3121342177136169 1.4000000000000001 8 0.03901677721420211 0.2 9 0.11705033164260631 0.675 >10 0.8193523214982443 11.55 >50 0.2731174404994147 12.35 >100 0.03901677721420211 2.75 >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 110 2.75 No Hit GGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGC 88 2.1999999999999997 No Hit GTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAA 83 2.075 No Hit GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 71 1.775 No Hit GGCCTGTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCG 68 1.7000000000000002 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 65 1.625 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 64 1.6 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 55 1.375 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 50 1.25 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 48 1.2 No Hit GTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCT 41 1.0250000000000001 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 39 0.975 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 34 0.8500000000000001 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 24 0.6 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 20 0.5 No Hit GGAGTATCCTTGATATATAAATATATAGATAAATAGATTTAAATGGAAAA 20 0.5 No Hit TCAAAAGAGGAAAGGCTTGCGGTGGATACCTAGGCACCCAGAGACGAGGA 19 0.475 No Hit GGGAGTATTATGAAAGGAGATTAATCATAGATTATCAAAAACCCTAGAAA 18 0.44999999999999996 No Hit GGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCTAAATGGATTC 16 0.4 No Hit GGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCG 16 0.4 No Hit GGGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACG 15 0.375 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 14 0.35000000000000003 No Hit GGTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCA 14 0.35000000000000003 No Hit CAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTC 14 0.35000000000000003 No Hit GGCTGCTTGGCCTGTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTA 13 0.325 No Hit GGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAA 13 0.325 No Hit CAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCT 13 0.325 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 11 0.27499999999999997 No Hit CAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTG 10 0.25 No Hit GGTGGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGC 9 0.22499999999999998 No Hit GGATTTGAAGAAAAAAAAGACTTCGATTCATTTTCTATTTATTTCGTTAG 9 0.22499999999999998 No Hit GGCATATGCCAGCTCTGACCGAAATCTTTGGGGATGATTCTGTATTACAA 9 0.22499999999999998 No Hit GGGAGGGGCTTGGCTACAATTCCGAATACGCTATTACATGTTTGCGCTAG 8 0.2 No Hit GGCTTTAGAAGCCTGTGTACAAGCTCGTAACGAAGGGCGCGATCTTGCTC 7 0.17500000000000002 No Hit GTACTATGGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTT 7 0.17500000000000002 No Hit GCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCT 7 0.17500000000000002 No Hit GGATACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATG 7 0.17500000000000002 No Hit GGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTT 7 0.17500000000000002 No Hit GGGCCGGGTATCTCTCTGCATGTACGTATGCCTGTAATGTACGTAGCTAC 7 0.17500000000000002 No Hit GAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAAT 7 0.17500000000000002 No Hit GGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCTAAA 7 0.17500000000000002 No Hit TAATTAAGAATCAAGTCATCTCATTCTCATCTATGCAATTGCAAACACAA 6 0.15 No Hit GGAAGAGACTTATAATATTGTGGCTGCTCATGGTTATTTTGGCCGATTAA 6 0.15 No Hit GGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTTGAAATCGGA 6 0.15 No Hit GCAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATC 6 0.15 No Hit GAAAAAAAAGACTTCGATTCATTTTCTATTTATTTCGTTAGTTTTTCTTA 6 0.15 No Hit GGGTCGAAATATGGCTTTCAAATTAAGTTCCGAATTAGTAGATGCTGCCA 6 0.15 No Hit GGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAA 6 0.15 No Hit CTGCTTGGCCTGTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACT 6 0.15 No Hit GGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAAATACTCCT 6 0.15 No Hit TGAGTATGATGAGTCTGGTCCAGCGATTGTTCACAGGAAGTGCTTCTAAG 6 0.15 No Hit GGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTTG 6 0.15 No Hit GTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAG 6 0.15 No Hit GGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGT 5 0.125 No Hit GATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGGG 5 0.125 No Hit GGGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCG 5 0.125 No Hit CAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGATAT 5 0.125 No Hit GTAACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCA 5 0.125 No Hit GTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGCA 5 0.125 No Hit GATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAAT 5 0.125 No Hit GGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTA 5 0.125 No Hit GATACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGC 5 0.125 No Hit CACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCT 5 0.125 No Hit GGGCCATTTGTGGCATGCAGGAAGAGCCCGAGCTGCTGCAGCAGGTTTTG 5 0.125 No Hit GGTTTTGAAAAGGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAA 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 0.0 0.0 0.0 0.0 0.0 30-31 0.0 0.0 0.0 0.0 0.0 32-33 0.0 0.0 0.0 0.0 0.0 34-35 0.0 0.0 0.0 0.0 0.0 36-37 0.0 0.0 0.0 0.0 0.0 38-39 0.0 0.0 0.0 0.0 0.0 40-41 0.025 0.0 0.0 0.0 0.0 42-43 0.05 0.0 0.0 0.0 0.0 44-45 0.05 0.0 0.0 0.0 0.0 46-47 0.05 0.0 0.0 0.0 0.0 48-49 0.05 0.0 0.0 0.0 0.0 50-51 0.05 0.0 0.0 0.0 0.0 52-53 0.05 0.0 0.0 0.0 0.0 54-55 0.05 0.0 0.0 0.0 0.0 56-57 0.05 0.0 0.0 0.0 0.0 58-59 0.05 0.0 0.0 0.0 0.0 60-61 0.05 0.0 0.0 0.0 0.0 62-63 0.05 0.0 0.0 0.0 0.0 64-65 0.05 0.0 0.0 0.0 0.0 66-67 0.05 0.0 0.0 0.0 0.0 68-69 0.05 0.0 0.0 0.0 0.0 70-71 0.05 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 warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position CCTGTAG 15 8.8794064E-4 86.5875 3 GGCCTGT 15 8.8794064E-4 86.5875 1 TGTAGTA 15 8.8794064E-4 86.5875 5 GCCTGTA 15 8.8794064E-4 86.5875 2 GGCACCC 20 0.0027818275 64.94063 7 CTAGGCA 20 0.0027818275 64.94063 4 CACCCAG 20 0.0027818275 64.94063 9 AGGCACC 20 0.0027818275 64.94063 6 GCACCCA 20 0.0027818275 64.94063 8 TACCTAG 20 0.0027818275 64.94063 1 ACCTAGG 20 0.0027818275 64.94063 2 CCTAGGC 20 0.0027818275 64.94063 3 TAGGCAC 20 0.0027818275 64.94063 5 TTCCCTC 20 7.523111E-4 43.841774 84-85 CCCTCTA 20 7.523111E-4 43.841774 86-87 CTTCCCT 20 7.523111E-4 43.841774 84-85 TCCCTCT 20 7.523111E-4 43.841774 86-87 CAACTTC 25 0.0022540754 35.073418 80-81 CACAACT 25 0.0022540754 35.073418 78-79 TAATGCT 25 0.0022540754 35.073418 72-73 >>END_MODULE Rejected 52970 READS because READLEN < 1 Read 52970 spots for ERR6133520.sra Written 52970 spots for ERR6133520.sra Rejected 52970 READS because READLEN < 1 Read 52970 spots for ERR6133520.sra Written 52970 spots for ERR6133520.sra Rejected 52970 READS because READLEN < 1 Read 52970 spots for ERR6133520.sra Written 52970 spots for ERR6133520.sra Rejected 52970 READS because READLEN < 1 Read 52970 spots for ERR6133520.sra Written 52970 spots for ERR6133520.sra Rejected 52970 READS because READLEN < 1 Read 52970 spots for ERR6133520.sra Written 52970 spots for ERR6133520.sra Rejected 52970 READS because READLEN < 1 Read 52970 spots for ERR6133520.sra Written 52970 spots for ERR6133520.sra Rejected 52970 READS because READLEN < 1 Read 52970 spots for ERR6133520.sra Written 52970 spots for ERR6133520.sra Rejected 52970 READS because READLEN < 1 Read 52970 spots for ERR6133520.sra Written 52970 spots for ERR6133520.sra Rejected 52970 READS because READLEN < 1 Read 52970 spots for ERR6133520.sra Written 52970 spots for ERR6133520.sra Rejected 52970 READS because READLEN < 1 Read 52970 spots for ERR6133520.sra Written 52970 spots for ERR6133520.sra Rejected 52970 READS because READLEN < 1 Read 52970 spots for ERR6133520.sra Written 52970 spots for ERR6133520.sra Rejected 52970 READS because READLEN < 1 Read 52970 spots for ERR6133520.sra Written 52970 spots for ERR6133520.sra Rejected 52970 READS because READLEN < 1 Read 52970 spots for ERR6133520.sra Written 52970 spots for ERR6133520.sra Rejected 52970 READS because READLEN < 1 Read 52970 spots for ERR6133520.sra Written 52970 spots for ERR6133520.sra Rejected 52986 READS because READLEN < 1 Read 52986 spots for ERR6133520.sra Written 52986 spots for ERR6133520.sra Rejected 52970 READS because READLEN < 1 Rejected 52970 READS because READLEN < 1 Read 52970 spots for ERR6133520.sra Read 52970 spots for ERR6133520.sra Written 52970 spots for ERR6133520.sra Written 52970 spots for ERR6133520.sra Rejected 52970 READS because READLEN < 1 Read 52970 spots for ERR6133520.sra Written 52970 spots for ERR6133520.sra Rejected 52970 READS because READLEN < 1 Read 52970 spots for ERR6133520.sra Written 52970 spots for ERR6133520.sra Rejected 52970 READS because READLEN < 1 Read 52970 spots for ERR6133520.sra Written 52970 spots for ERR6133520.sra SRR ids: ['ERR6133520.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_7f93q6_b ERR6133520.sra spots: 1059416 blocks: [[1, 52970], [52971, 105940], [105941, 158910], [158911, 211880], [211881, 264850], [264851, 317820], [317821, 370790], [370791, 423760], [423761, 476730], [476731, 529700], [529701, 582670], [582671, 635640], [635641, 688610], [688611, 741580], [741581, 794550], [794551, 847520], [847521, 900490], [900491, 953460], [953461, 1006430], [1006431, 1059416]] ERR6133520 file size 232856 ERR6133520 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 ERR6133520 ERR6133520_1.fastq Input file: ERR6133520_1.fastq trimmed: ERR6133520-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 07:48:14 2024 >> started Sat Dec 7 07:48:15 2024 >> done (0.592s) 1059416 reads processed; of these: 142 ( 0.01%) short reads filtered out after trimming by size control 3 ( 0.00%) empty reads filtered out after trimming by size control 1059271 (99.99%) reads available; of these: 5341 ( 0.50%) trimmed reads available after processing 1053930 (99.50%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 25 0.00% 19 44 0.00% 20 16 0.00% 21 20 0.00% 22 22 0.00% 23 7 0.00% 24 6 0.00% 25 4 0.00% 26 9 0.00% 27 7 0.00% 28 25 0.00% 29 17 0.00% 30 19 0.00% 31 18 0.00% 32 7 0.00% 33 12 0.00% 34 13 0.00% 35 125 0.01% 36 137 0.01% 37 11 0.00% 38 16 0.00% 39 62 0.01% 40 57 0.01% 41 23 0.00% 42 3 0.00% 43 7 0.00% 44 8 0.00% 45 4 0.00% 46 7 0.00% 47 6 0.00% 48 6 0.00% 49 2 0.00% 50 4 0.00% 51 17 0.00% 52 2 0.00% 53 4 0.00% 54 5 0.00% 55 2 0.00% 56 0 0.00% 57 3 0.00% 58 4 0.00% 59 4 0.00% 60 7 0.00% 61 4 0.00% 62 0 0.00% 63 0 0.00% 64 1 0.00% 65 0 0.00% 66 1 0.00% 67 1 0.00% 68 6 0.00% 69 10 0.00% 70 1975 0.19% 71 1743 0.16% 72 1918 0.18% 73 1666 0.16% 74 1771 0.17% 75 1723 0.16% 76 1453 0.14% 77 1530 0.14% 78 1780 0.17% 79 1864 0.18% 80 1801 0.17% 81 2160 0.20% 82 2203 0.21% 83 2318 0.22% 84 1895 0.18% 85 18 0.00% 86 32 0.00% 87 93 0.01% 88 127 0.01% 89 179 0.02% 90 298 0.03% 91 747 0.07% 92 2902 0.27% 93 1026255 96.88% 1059271 reads passed initial QC criterion=sequence-density sequence-density=0.49 sequence-density-rank=1 fanout-score=3.00 fanout-score-rank=17 prefix-density=0.09 prefix-fanout=3.0 sequence=TCAAAAGAGGAAAGGCTTGCGGTGGATACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTTCGGGGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTTTAAACTGCCTGCTGAATCCATGAGCAGGCAAGAGACAACCTGGCGAACTGAAACATCTTAGTAGCCAGAGGAAAAGAA criterion=fanout-score sequence-density=0.01 sequence-density-rank=34 fanout-score=49.56 fanout-score-rank=1 prefix-density=0.10 prefix-fanout=6.6 sequence=AAAAGAAGGGGTGTTCCATCTCCGGACGACGATCCTGCCTGCAGAGGAAGACATGCCGGCGATCATGTCGAGCTTCAAGAAGTTCAACGACTCATTCATGGAGCAATACCAAGACTACTCCAGGCTGTGATGTGAAGAGGGAAACAACGAGGTCATCATCGACATGATATATTGCTGCTATTTTCCACCAGCGATTAAAAGTTAAAAAATTTAGCTGTAAGCTGTAACTATCTTGAAGAAACTAAACTGGTTGC Started job on | Dec 07 07:48:25 Started mapping on | Dec 07 07:48:25 Finished on | Dec 07 07:48:29 Mapping speed, Million of reads per hour | 953.34 Number of input reads | 1059271 Average input read length | 92 UNIQUE READS: Uniquely mapped reads number | 551799 Uniquely mapped reads % | 52.09% Average mapped length | 91.99 Number of splices: Total | 33774 Number of splices: Annotated (sjdb) | 27486 Number of splices: GT/AG | 32319 Number of splices: GC/AG | 816 Number of splices: AT/AC | 9 Number of splices: Non-canonical | 630 Mismatch rate per base, % | 0.43% Deletion rate per base | 0.05% Deletion average length | 1.80 Insertion rate per base | 0.02% Insertion average length | 1.82 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 480498 % of reads mapped to multiple loci | 45.36% Number of reads mapped to too many loci | 5326 % of reads mapped to too many loci | 0.50% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 2.02% % of reads unmapped: other | 0.02% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 26974 26974 26974 N_multimapping 480498 480498 480498 N_noFeature 47498 53671 526733 N_ambiguous 21877 2994 81 UnstrandedReadsAssigned:482424 PositiveStrandReadsAssigned:495134 NegativeStrandReadsAssigned:24985 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133520 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: ERR6133520-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 1,059,271 reads, 848,143 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 842 rounds 52973 ERR6133520.ke.tsv 35125 ERR6133520.se.tsv 88098 total ==> ERR6133520.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 14 15.7302 PNS24243 293 194 0 0 KQK14069 1603 1504 46 47.1488 KQK14071 474 375 0 0 ==> ERR6133520.se.tsv <== BRADI_1g14170v3 46 BRADI_1g53295v3 10 BRADI_1g59795v3 9 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 4 BRADI_1g74790v3 3 BRADI_1g09890v3 0 BRADI_1g77505v3 9 BRADI_1g48960v3 0 ERR6133520 completed mapping pipeline successfully