Starting /dee2/code/volunteer_pipeline.sh ERR6133495 current disk space = 1544626192384 free memory = 1596481656 ERR6133495 SRAfilesize 45b7f7474bb44dc13f604a16007e94c5 ERR6133495.sra ERR6133495.sra file validated ERR6133495 is single end ERR6133495 is conventional basespace ERR6133495 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133495_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 35.3745 37.0 33.0 37.0 33.0 37.0 2 36.42025 37.0 37.0 37.0 37.0 37.0 3 35.83 37.0 37.0 37.0 33.0 37.0 4 35.23675 37.0 37.0 37.0 33.0 37.0 5 35.40925 37.0 37.0 37.0 33.0 37.0 6 35.59875 37.0 37.0 37.0 33.0 37.0 7 37.48125 37.0 37.0 40.0 33.0 40.0 8 37.40575 37.0 37.0 40.0 33.0 40.0 9 37.553 40.0 37.0 40.0 33.0 40.0 10-11 37.544124999999994 37.0 37.0 40.0 33.0 40.0 12-13 37.4315 37.0 37.0 40.0 33.0 40.0 14-15 37.294624999999996 37.0 37.0 40.0 33.0 40.0 16-17 37.233375 37.0 37.0 40.0 33.0 40.0 18-19 37.0825 37.0 37.0 40.0 33.0 40.0 20-21 36.745625000000004 37.0 37.0 40.0 33.0 40.0 22-23 36.7425 37.0 37.0 40.0 33.0 40.0 24-25 36.6725 37.0 37.0 40.0 33.0 40.0 26-27 37.038 37.0 37.0 40.0 33.0 40.0 28-29 36.96075 37.0 37.0 40.0 33.0 40.0 30-31 36.86925 37.0 37.0 40.0 33.0 40.0 32-33 36.772625 37.0 37.0 40.0 33.0 40.0 34-35 36.680375 37.0 37.0 40.0 33.0 40.0 36-37 36.510999999999996 37.0 37.0 40.0 33.0 40.0 38-39 36.47475 37.0 37.0 40.0 33.0 40.0 40-41 36.2285 37.0 37.0 40.0 33.0 40.0 42-43 36.250125 37.0 37.0 40.0 33.0 40.0 44-45 36.315125 37.0 37.0 40.0 33.0 40.0 46-47 36.130375 37.0 37.0 40.0 33.0 40.0 48-49 36.064875 37.0 37.0 37.0 33.0 40.0 50-51 35.967875 37.0 37.0 37.0 33.0 40.0 52-53 35.571375 37.0 33.0 37.0 33.0 40.0 54-55 35.552499999999995 37.0 33.0 37.0 33.0 40.0 56-57 35.322625 37.0 33.0 37.0 33.0 40.0 58-59 34.26025 37.0 33.0 37.0 27.0 37.0 60-61 34.807125 37.0 33.0 37.0 33.0 37.0 62-63 34.758250000000004 37.0 33.0 37.0 33.0 37.0 64-65 34.695499999999996 37.0 33.0 37.0 33.0 37.0 66-67 34.643125 37.0 33.0 37.0 33.0 37.0 68-69 33.798125 35.0 33.0 37.0 30.0 37.0 70-71 33.98060691823899 35.0 33.0 37.0 27.0 37.0 72-73 34.3823059175226 37.0 33.0 37.0 33.0 37.0 74-75 34.30127035843439 37.0 33.0 37.0 27.0 37.0 76-77 34.133606701563984 37.0 33.0 37.0 27.0 37.0 78-79 34.06085241498235 37.0 33.0 37.0 27.0 37.0 80-81 33.868188692104354 37.0 33.0 37.0 27.0 37.0 82-83 33.82079208690551 37.0 33.0 37.0 27.0 37.0 84-85 33.71163179815638 37.0 33.0 37.0 27.0 37.0 86-87 33.7229565686539 37.0 33.0 37.0 27.0 37.0 88-89 33.78162934987861 37.0 33.0 37.0 27.0 37.0 90-91 33.463717291610465 35.0 33.0 37.0 27.0 37.0 92-93 33.486107364445644 37.0 33.0 37.0 27.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 8.0 21 12.0 22 14.0 23 10.0 24 21.0 25 23.0 26 24.0 27 59.0 28 47.0 29 56.0 30 91.0 31 104.0 32 138.0 33 169.0 34 288.0 35 465.0 36 866.0 37 935.0 38 633.0 39 37.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 84.125 3.75 4.275 7.85 2 64.7 19.975 9.5 5.825 3 35.075 36.35 16.25 12.325 4 30.475 28.925 19.925 20.674999999999997 5 28.625 26.724999999999998 25.85 18.8 6 19.0 37.75 25.474999999999998 17.775 7 35.9 29.525000000000002 19.6 14.975 8 27.825 29.5 23.75 18.925 9 23.525 30.275000000000002 28.125 18.075 10-11 23.3375 29.775000000000002 28.799999999999997 18.087500000000002 12-13 25.15 27.85 27.800000000000004 19.2 14-15 20.674999999999997 32.25 28.9375 18.1375 16-17 24.075 31.025000000000002 24.2875 20.6125 18-19 23.9875 27.250000000000004 29.1625 19.6 20-21 25.53776888444222 25.53776888444222 29.61480740370185 19.30965482741371 22-23 27.450000000000003 23.65 27.962500000000002 20.9375 24-25 24.9875 24.8 29.525000000000002 20.6875 26-27 25.362499999999997 24.975 29.475 20.1875 28-29 23.2875 28.449999999999996 28.725 19.537499999999998 30-31 28.4375 25.15 26.2875 20.125 32-33 24.675 26.8625 27.287499999999998 21.175 34-35 23.35 30.2375 26.7125 19.7 36-37 25.1937984496124 24.93123280820205 26.156539134783696 23.718429607401852 38-39 27.885457046392396 25.1219207202701 28.323121170438913 18.669501062898586 40-41 25.456364091022753 24.543635908977244 29.469867466866717 20.530132533133283 42-43 24.4875 29.4875 26.5875 19.4375 44-45 23.724999999999998 25.4625 30.7 20.1125 46-47 25.137500000000003 24.6875 27.325 22.85 48-49 25.112499999999997 25.224999999999998 29.2 20.4625 50-51 22.3125 28.599999999999998 27.5625 21.525 52-53 23.468237063024684 27.30234306477885 26.813682495927825 22.415737376268638 54-55 23.4375 26.987499999999997 29.7 19.875 56-57 26.2782847855982 28.46605825728216 27.29091136392049 17.96474559319915 58-59 23.2625 27.275 29.3875 20.075000000000003 60-61 26.3 26.4625 27.725 19.5125 62-63 21.512500000000003 28.0625 31.7875 18.637500000000003 64-65 21.75 31.624999999999996 27.474999999999998 19.15 66-67 24.8 29.099999999999998 27.212500000000002 18.8875 68-69 21.8875 27.525 28.4125 22.175 70-71 23.347962382445143 27.974921630094045 26.169278996865202 22.50783699059561 72-73 25.133079847908746 25.39923954372624 29.885931558935365 19.581749049429657 74-75 24.587014982712255 28.467153284671532 27.634780381610963 19.31105135100525 76-77 22.457408363448632 25.335570469798657 27.465152297367062 24.741868869385648 78-79 23.721961398017736 26.851851851851855 29.068857589984347 20.35732916014606 80-81 22.266035751840167 31.782334384858046 27.66824395373291 18.283385909568874 82-83 23.4480925162834 25.49514821214941 28.153662102884486 22.903097168682706 84-85 21.57760129223314 24.983174047651097 32.44043612868489 20.99878853143088 86-87 21.364985163204746 28.108983005125438 28.958726733207445 21.56730509846237 88-89 20.097113568923657 27.96061505260318 29.983814405179395 21.958456973293767 90-91 25.411383868357163 28.378742918802264 27.313191259778797 18.896681953061776 92-93 21.09522524952792 29.808470461289456 28.50013487995684 20.59616940922579 >>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 1.5 17 7.0 18 5.5 19 1.0 20 2.5 21 3.0 22 2.5 23 7.5 24 13.0 25 14.0 26 16.5 27 15.5 28 26.0 29 40.0 30 37.0 31 45.5 32 61.5 33 73.5 34 88.5 35 106.5 36 117.0 37 142.0 38 183.0 39 182.0 40 186.0 41 209.0 42 229.5 43 243.5 44 205.0 45 186.0 46 198.5 47 171.0 48 147.5 49 147.5 50 137.5 51 130.5 52 115.5 53 106.0 54 178.0 55 165.0 56 66.5 57 44.5 58 41.0 59 37.0 60 33.5 61 32.5 62 31.0 63 25.0 64 19.5 65 21.0 66 21.0 67 17.0 68 16.5 69 11.0 70 6.0 71 6.0 72 6.0 73 4.0 74 2.5 75 2.5 76 1.5 77 1.0 78 0.5 79 0.5 80 0.5 81 0.5 82 0.5 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 0.05 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 0.0375 40-41 0.025 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 0.0125 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 25.0 71 18.0 72 24.0 73 14.0 74 29.0 75 10.0 76 12.0 77 27.0 78 14.0 79 16.0 80 14.0 81 22.0 82 27.0 83 26.0 84 15.0 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 3707.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 77.47500000000001 #Duplication Level Percentage of deduplicated Percentage of total 1 92.41690868021942 71.6 2 4.162633107454018 6.45 3 1.3230074217489511 3.075 4 0.5485640529202969 1.7000000000000002 5 0.48402710551790895 1.875 6 0.22587931590835753 1.05 7 0.12907389480477574 0.7000000000000001 8 0.12907389480477574 0.8 9 0.0 0.0 >10 0.516295579219103 7.449999999999999 >50 0.032268473701193935 1.275 >100 0.032268473701193935 4.025 >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 GGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGC 161 4.025 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 51 1.275 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 37 0.9249999999999999 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 33 0.8250000000000001 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 29 0.7250000000000001 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 25 0.625 No Hit GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 22 0.5499999999999999 No Hit GGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAA 18 0.44999999999999996 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 17 0.42500000000000004 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 16 0.4 No Hit CAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCT 14 0.35000000000000003 No Hit GTATGGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGATTA 14 0.35000000000000003 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 13 0.325 No Hit GGGAGTATTATGAAAGGAGATTAATCATAGATTATCAAAAACCCTAGAAA 13 0.325 No Hit GGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTT 13 0.325 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 12 0.3 No Hit GGAGTATCCTTGATATATAAATATATAGATAAATAGATTTAAATGGAAAA 11 0.27499999999999997 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 11 0.27499999999999997 No Hit CAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTC 8 0.2 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 8 0.2 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 8 0.2 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 8 0.2 No Hit GGGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACG 7 0.17500000000000002 No Hit GGCCTGTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCG 7 0.17500000000000002 No Hit GGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGCA 7 0.17500000000000002 No Hit GGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTTGAAATCGGAG 7 0.17500000000000002 No Hit GGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTC 6 0.15 No Hit GGCTTTAGAAGCCTGTGTACAAGCTCGTAACGAAGGGCGCGATCTTGCTC 6 0.15 No Hit GCAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATC 6 0.15 No Hit GGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGT 6 0.15 No Hit GTACTATGGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTT 6 0.15 No Hit GGCATATGCCAGCTCTGACCGAAATCTTTGGGGATGATTCTGTATTACAA 6 0.15 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 6 0.15 No Hit GGGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTT 5 0.125 No Hit CAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGATAT 5 0.125 No Hit GTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAA 5 0.125 No Hit GCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCT 5 0.125 No Hit GGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACGAGCCGT 5 0.125 No Hit GCAGCTTGCAAATGGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAA 5 0.125 No Hit GGGCCTGTTATCTCTATCAATATGATTCTAATTCGTCAGATATTATTTAT 5 0.125 No Hit GGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTTGAAATCGGA 5 0.125 No Hit CAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAACGAAGGG 5 0.125 No Hit GAAGGAACAAACGAGGATAAGATAAAATTTCTTTAAATTTATTTTGCCCA 5 0.125 No Hit GGGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCG 5 0.125 No Hit GGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGATTAATAG 5 0.125 No Hit GGGGAAGTACACCAGCGACGGCGAGGCCGCCGCCGCCAAGGAAGGCATGT 5 0.125 No Hit GGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTTG 5 0.125 No Hit CAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTG 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 0.025 0.0 0.0 0.0 0.0 36-37 0.037500000000000006 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 0.075 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 0.1 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 0.1 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 0.125 0.0 0.0 0.0 0.0 80-81 0.15 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 9.2934666E-4 85.600006 7 GGGAGAG 15 9.2934666E-4 85.600006 1 CAATACA 15 9.2934666E-4 85.600006 8 GAGCAAT 15 9.2934666E-4 85.600006 5 AGCAATA 15 9.2934666E-4 85.600006 6 AGAGCAA 20 0.0029112545 64.200005 4 AATACAA 20 0.0029112545 64.200005 9 GAGAGCA 25 0.007044801 51.36 3 >>END_MODULE Rejected 169911 READS because READLEN < 1 Read 169911 spots for ERR6133495.sra Written 169911 spots for ERR6133495.sra Rejected 169911 READS because READLEN < 1 Read 169911 spots for ERR6133495.sra Written 169911 spots for ERR6133495.sra Rejected 169911 READS because READLEN < 1 Read 169911 spots for ERR6133495.sra Written 169911 spots for ERR6133495.sra Rejected 169911 READS because READLEN < 1 Read 169911 spots for ERR6133495.sra Written 169911 spots for ERR6133495.sra Rejected 169911 READS because READLEN < 1 Read 169911 spots for ERR6133495.sra Written 169911 spots for ERR6133495.sra Rejected 169911 READS because READLEN < 1 Read 169911 spots for ERR6133495.sra Written 169911 spots for ERR6133495.sra Rejected 169911 READS because READLEN < 1 Read 169911 spots for ERR6133495.sra Written 169911 spots for ERR6133495.sra Rejected 169911 READS because READLEN < 1 Read 169911 spots for ERR6133495.sra Written 169911 spots for ERR6133495.sra Rejected 169911 READS because READLEN < 1 Read 169911 spots for ERR6133495.sra Written 169911 spots for ERR6133495.sra Rejected 169911 READS because READLEN < 1 Read 169911 spots for ERR6133495.sra Written 169911 spots for ERR6133495.sra Rejected 169911 READS because READLEN < 1 Read 169911 spots for ERR6133495.sra Written 169911 spots for ERR6133495.sra Rejected 169911 READS because READLEN < 1 Read 169911 spots for ERR6133495.sra Written 169911 spots for ERR6133495.sra Rejected 169911 READS because READLEN < 1 Read 169911 spots for ERR6133495.sra Written 169911 spots for ERR6133495.sra Rejected 169914 READS because READLEN < 1 Read 169914 spots for ERR6133495.sra Written 169914 spots for ERR6133495.sra Rejected 169911 READS because READLEN < 1 Read 169911 spots for ERR6133495.sra Written 169911 spots for ERR6133495.sra Rejected 169911 READS because READLEN < 1 Read 169911 spots for ERR6133495.sra Written 169911 spots for ERR6133495.sra Rejected 169911 READS because READLEN < 1 Read 169911 spots for ERR6133495.sra Written 169911 spots for ERR6133495.sra Rejected 169911 READS because READLEN < 1 Read 169911 spots for ERR6133495.sra Written 169911 spots for ERR6133495.sra Rejected 169911 READS because READLEN < 1 Read 169911 spots for ERR6133495.sra Written 169911 spots for ERR6133495.sra Rejected 169911 READS because READLEN < 1 Read 169911 spots for ERR6133495.sra Written 169911 spots for ERR6133495.sra SRR ids: ['ERR6133495.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_enxwo65q ERR6133495.sra spots: 3398223 blocks: [[1, 169911], [169912, 339822], [339823, 509733], [509734, 679644], [679645, 849555], [849556, 1019466], [1019467, 1189377], [1189378, 1359288], [1359289, 1529199], [1529200, 1699110], [1699111, 1869021], [1869022, 2038932], [2038933, 2208843], [2208844, 2378754], [2378755, 2548665], [2548666, 2718576], [2718577, 2888487], [2888488, 3058398], [3058399, 3228309], [3228310, 3398223]] ERR6133495 file size 746707 ERR6133495 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 ERR6133495 ERR6133495_1.fastq Input file: ERR6133495_1.fastq trimmed: ERR6133495-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 07:19:56 2024 >> started Sat Dec 7 07:19:58 2024 >> done (1.743s) 3398223 reads processed; of these: 204 ( 0.01%) short reads filtered out after trimming by size control 33 ( 0.00%) empty reads filtered out after trimming by size control 3397986 (99.99%) reads available; of these: 55116 ( 1.62%) trimmed reads available after processing 3342870 (98.38%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 56 0.00% 19 67 0.00% 20 47 0.00% 21 33 0.00% 22 32 0.00% 23 16 0.00% 24 9 0.00% 25 12 0.00% 26 21 0.00% 27 21 0.00% 28 47 0.00% 29 113 0.00% 30 17 0.00% 31 31 0.00% 32 25 0.00% 33 24 0.00% 34 36 0.00% 35 312 0.01% 36 377 0.01% 37 22 0.00% 38 53 0.00% 39 125 0.00% 40 125 0.00% 41 58 0.00% 42 9 0.00% 43 26 0.00% 44 26 0.00% 45 14 0.00% 46 26 0.00% 47 12 0.00% 48 14 0.00% 49 13 0.00% 50 20 0.00% 51 63 0.00% 52 15 0.00% 53 16 0.00% 54 5 0.00% 55 13 0.00% 56 9 0.00% 57 12 0.00% 58 20 0.00% 59 9 0.00% 60 19 0.00% 61 18 0.00% 62 3 0.00% 63 4 0.00% 64 5 0.00% 65 4 0.00% 66 14 0.00% 67 20 0.00% 68 41 0.00% 69 150 0.00% 70 17671 0.52% 71 15150 0.45% 72 16929 0.50% 73 14783 0.44% 74 15733 0.46% 75 15556 0.46% 76 13425 0.40% 77 14073 0.41% 78 16992 0.50% 79 19245 0.57% 80 16229 0.48% 81 18463 0.54% 82 20407 0.60% 83 22146 0.65% 84 16163 0.48% 85 112 0.00% 86 188 0.01% 87 305 0.01% 88 535 0.02% 89 1050 0.03% 90 2490 0.07% 91 7333 0.22% 92 37047 1.09% 93 3093682 91.04% 3397986 reads passed initial QC criterion=sequence-density sequence-density=0.64 sequence-density-rank=1 fanout-score=2.01 fanout-score-rank=31 prefix-density=0.65 prefix-fanout=2.0 sequence=CAAGGCTAAATAC criterion=fanout-score sequence-density=0.05 sequence-density-rank=18 fanout-score=35.16 fanout-score-rank=1 prefix-density=0.15 prefix-fanout=12.8 sequence=TTTTTTTTTTAAGAATCCTCCATTTTTGTTCTTCCACCCATGCAATAGAGAGCAAATGGGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTTGAAATCGGAGTCATGGAATAATGGTGAATTCAAATGTTTAGTTCTTTAGTATAAGAAGTATAAGAA Started job on | Dec 07 07:20:09 Started mapping on | Dec 07 07:20:09 Finished on | Dec 07 07:20:14 Mapping speed, Million of reads per hour | 2446.55 Number of input reads | 3397986 Average input read length | 91 UNIQUE READS: Uniquely mapped reads number | 2189525 Uniquely mapped reads % | 64.44% Average mapped length | 91.15 Number of splices: Total | 109176 Number of splices: Annotated (sjdb) | 92073 Number of splices: GT/AG | 105155 Number of splices: GC/AG | 1845 Number of splices: AT/AC | 82 Number of splices: Non-canonical | 2094 Mismatch rate per base, % | 0.43% Deletion rate per base | 0.04% Deletion average length | 1.93 Insertion rate per base | 0.02% Insertion average length | 1.94 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 1134706 % of reads mapped to multiple loci | 33.39% Number of reads mapped to too many loci | 25276 % of reads mapped to too many loci | 0.74% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.38% % of reads unmapped: other | 0.05% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 73755 73755 73755 N_multimapping 1134706 1134706 1134706 N_noFeature 153660 174069 2098018 N_ambiguous 80861 9717 431 UnstrandedReadsAssigned:1955004 PositiveStrandReadsAssigned:2005739 NegativeStrandReadsAssigned:91076 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133495 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: ERR6133495-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 3,397,986 reads, 2,713,997 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 984 rounds 52973 ERR6133495.ke.tsv 35125 ERR6133495.se.tsv 88098 total ==> ERR6133495.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 53 19.1372 PNS24243 293 194 0 0 KQK14069 1603 1504 34 11.1992 KQK14071 474 375 0 0 ==> ERR6133495.se.tsv <== BRADI_1g14170v3 34 BRADI_1g53295v3 3 BRADI_1g59795v3 31 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 26 BRADI_1g74790v3 20 BRADI_1g09890v3 0 BRADI_1g77505v3 58 BRADI_1g48960v3 0 ERR6133495 completed mapping pipeline successfully