Starting /dee2/code/volunteer_pipeline.sh ERR6133307 current disk space = 1548431024128 free memory = 1603165568 ERR6133307 SRAfilesize b727e2bd2354dd4a4480b090a786f1fd ERR6133307.sra ERR6133307.sra file validated ERR6133307 is single end ERR6133307 is conventional basespace ERR6133307 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133307_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 35.07225 37.0 33.0 37.0 33.0 37.0 2 36.35025 37.0 37.0 37.0 33.0 37.0 3 35.9225 37.0 37.0 37.0 33.0 37.0 4 35.5035 37.0 37.0 37.0 33.0 37.0 5 35.44375 37.0 37.0 37.0 33.0 37.0 6 35.674 37.0 37.0 37.0 33.0 37.0 7 37.50875 40.0 37.0 40.0 33.0 40.0 8 37.53325 40.0 37.0 40.0 33.0 40.0 9 37.6085 40.0 37.0 40.0 33.0 40.0 10-11 37.55475 40.0 37.0 40.0 33.0 40.0 12-13 37.48375 40.0 37.0 40.0 33.0 40.0 14-15 37.481624999999994 38.5 37.0 40.0 33.0 40.0 16-17 37.369749999999996 38.5 37.0 40.0 33.0 40.0 18-19 37.211749999999995 37.0 37.0 40.0 33.0 40.0 20-21 37.064750000000004 37.0 37.0 40.0 33.0 40.0 22-23 37.00875 37.0 37.0 40.0 33.0 40.0 24-25 37.073375 37.0 37.0 40.0 33.0 40.0 26-27 36.960875 37.0 37.0 40.0 33.0 40.0 28-29 36.876875 37.0 37.0 40.0 33.0 40.0 30-31 36.931 37.0 37.0 40.0 33.0 40.0 32-33 36.726124999999996 37.0 37.0 40.0 33.0 40.0 34-35 36.58725 37.0 37.0 40.0 33.0 40.0 36-37 36.463375 37.0 37.0 40.0 33.0 40.0 38-39 36.219 37.0 37.0 40.0 33.0 40.0 40-41 35.944 37.0 35.0 40.0 33.0 40.0 42-43 35.808 37.0 33.0 40.0 33.0 40.0 44-45 35.4615 37.0 33.0 40.0 30.0 40.0 46-47 35.169375 37.0 33.0 37.0 27.0 40.0 48-49 35.0835 37.0 33.0 37.0 27.0 40.0 50-51 34.8815 37.0 33.0 37.0 27.0 40.0 52-53 34.657125 37.0 33.0 37.0 27.0 40.0 54-55 34.528 37.0 33.0 37.0 27.0 40.0 56-57 34.286874999999995 37.0 33.0 37.0 27.0 38.5 58-59 31.974375000000002 33.0 30.0 37.0 24.5 37.0 60-61 33.465625 37.0 33.0 37.0 27.0 37.0 62-63 33.627875 37.0 33.0 37.0 27.0 37.0 64-65 33.505375 37.0 33.0 37.0 27.0 37.0 66-67 33.32725 37.0 33.0 37.0 27.0 37.0 68-69 32.85975 35.0 33.0 37.0 27.0 37.0 70-71 32.83020614035088 33.0 33.0 37.0 27.0 37.0 72-73 33.1472584878115 37.0 33.0 37.0 27.0 37.0 74-75 33.262438584884706 37.0 33.0 37.0 27.0 37.0 76-77 33.19611832748032 37.0 33.0 37.0 27.0 37.0 78-79 33.12586462125676 37.0 33.0 37.0 27.0 37.0 80-81 33.01141406147402 37.0 33.0 37.0 27.0 37.0 82-83 32.78141305834717 33.0 33.0 37.0 27.0 37.0 84-85 32.62036288737846 33.0 33.0 37.0 27.0 37.0 86-87 32.54419092578023 33.0 33.0 37.0 27.0 37.0 88-89 32.73800157356412 33.0 33.0 37.0 27.0 37.0 90-91 32.609624967217414 33.0 33.0 37.0 27.0 37.0 92-93 32.497508523472334 33.0 33.0 37.0 24.5 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 20.0 21 15.0 22 20.0 23 33.0 24 35.0 25 39.0 26 46.0 27 64.0 28 72.0 29 93.0 30 95.0 31 155.0 32 171.0 33 184.0 34 258.0 35 501.0 36 715.0 37 936.0 38 533.0 39 15.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 84.6 3.5999999999999996 4.375 7.425 2 63.05 21.075 10.25 5.625 3 31.374999999999996 37.9 17.525 13.200000000000001 4 32.800000000000004 26.224999999999998 19.8 21.175 5 22.7 31.4 29.049999999999997 16.85 6 18.775 38.275 25.575 17.375 7 35.325 28.000000000000004 21.575 15.1 8 29.375 28.299999999999997 25.5 16.825000000000003 9 24.025 26.35 29.075 20.549999999999997 10-11 24.125 27.537499999999998 28.5625 19.775000000000002 12-13 26.575 24.5375 28.299999999999997 20.5875 14-15 20.525 28.075 31.175000000000004 20.225 16-17 24.4375 31.337500000000002 25.3125 18.912499999999998 18-19 23.25 27.0625 27.712500000000002 21.975 20-21 25.15 26.387500000000003 27.8625 20.599999999999998 22-23 26.424999999999997 24.7 27.875 21.0 24-25 24.9875 25.224999999999998 28.925 20.8625 26-27 25.374999999999996 26.35 30.4375 17.837500000000002 28-29 24.825 27.775 27.575 19.825 30-31 26.237500000000004 26.1 27.0125 20.65 32-33 23.9125 28.000000000000004 28.025 20.0625 34-35 25.112499999999997 26.637499999999996 27.5875 20.6625 36-37 24.66558319789974 24.803100387548444 28.27853481685211 22.252781597699713 38-39 24.493623405851466 25.30632658164541 32.18304576144036 18.017004251062765 40-41 26.25 26.237500000000004 26.4625 21.05 42-43 24.05300662582823 29.15364420552569 26.865858232279034 19.927490936367047 44-45 23.383768913342504 24.946855070651495 30.073777666624984 21.595598349381017 46-47 24.284106539952482 24.484181568088033 28.148055520820307 23.083656371139178 48-49 23.775 25.624999999999996 30.2375 20.3625 50-51 24.346629986244842 27.12267100162561 28.298111791921972 20.23258722020758 52-53 24.790389187836315 27.193092228757354 27.243148542109875 20.773370041296456 54-55 23.7375 28.787499999999998 29.225 18.25 56-57 25.674999999999997 27.0625 27.825 19.4375 58-59 23.425 25.95 29.462500000000002 21.1625 60-61 24.45 25.4625 29.95 20.1375 62-63 21.075 29.9375 31.5125 17.474999999999998 64-65 22.825 27.0875 30.062499999999996 20.025000000000002 66-67 24.1375 26.8 28.962500000000002 20.1 68-69 22.5875 28.037499999999998 28.1125 21.2625 70-71 25.093867334167708 24.918648310387987 28.6107634543179 21.376720901126408 72-73 26.004787703162403 25.941791608920244 28.34824240897064 19.705178278946704 74-75 22.522179974651458 27.9467680608365 30.11406844106464 19.4169835234474 76-77 21.903303992856234 27.426967725475187 28.72815410128843 21.94157418038015 78-79 23.91332222079754 25.61866906013591 29.542249006282855 20.92575971278369 80-81 23.85924207269915 28.61562258313998 29.273008507347253 18.252126836813613 82-83 23.723100855587244 25.836142079336273 30.15296862846772 20.287788436608764 84-85 22.722513089005236 23.416230366492147 32.552356020942405 21.308900523560208 86-87 22.13480199318122 26.068712300026224 31.799108313663783 19.997377393128772 88-89 20.666142145292422 30.31733543141883 30.26488329399423 18.75163912929452 90-91 25.740886441122473 27.052189876737476 28.54707579333858 18.65984788880147 92-93 22.147915027537373 29.832153160241283 29.976396538158927 18.04353527406242 >>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 19.0 18 21.0 19 2.5 20 0.0 21 4.0 22 6.5 23 8.0 24 9.5 25 8.0 26 10.0 27 12.0 28 21.5 29 31.0 30 34.5 31 41.5 32 56.0 33 69.0 34 81.0 35 108.0 36 133.0 37 166.5 38 179.5 39 170.0 40 181.0 41 196.0 42 206.5 43 210.5 44 187.5 45 156.5 46 198.0 47 202.5 48 153.5 49 174.5 50 185.0 51 156.5 52 139.0 53 151.5 54 128.5 55 76.0 56 52.5 57 43.0 58 41.0 59 34.0 60 26.5 61 30.5 62 35.5 63 28.5 64 24.5 65 22.0 66 19.0 67 16.5 68 11.0 69 8.0 70 7.5 71 7.0 72 7.5 73 5.5 74 3.0 75 2.0 76 1.0 77 2.5 78 2.5 79 0.5 80 1.0 81 1.0 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 0.0 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 0.0125 38-39 0.025 40-41 0.0 42-43 0.0125 44-45 0.0375 46-47 0.0375 48-49 0.0 50-51 0.0375 52-53 0.11249999999999999 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 10.0 71 14.0 72 15.0 73 7.0 74 18.0 75 11.0 76 11.0 77 10.0 78 9.0 79 11.0 80 10.0 81 9.0 82 16.0 83 22.0 84 14.0 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 3813.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 75.425 #Duplication Level Percentage of deduplicated Percentage of total 1 91.21644017235666 68.8 2 5.038117335101093 7.6 3 1.160092807424594 2.625 4 0.6629101756711966 2.0 5 0.23201856148491878 0.8750000000000001 6 0.39774610540271793 1.7999999999999998 7 0.16572754391779915 0.8750000000000001 8 0.09943652635067948 0.6 9 0.16572754391779915 1.125 >10 0.8286377195889957 12.25 >50 0.033145508783559825 1.4500000000000002 >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 GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 58 1.4500000000000002 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 40 1.0 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 35 0.8750000000000001 No Hit GGAGTATCCTTGATATATAAATATATAGATAAATAGATTTAAATGGAAAA 34 0.8500000000000001 No Hit GGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGC 30 0.75 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 26 0.65 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 26 0.65 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 25 0.625 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 25 0.625 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 24 0.6 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 22 0.5499999999999999 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 21 0.525 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 17 0.42500000000000004 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 16 0.4 No Hit GTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCT 16 0.4 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 16 0.4 No Hit GGGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACG 14 0.35000000000000003 No Hit GGCATATGCCAGCTCTGACCGAAATCTTTGGGGATGATTCTGTATTACAA 14 0.35000000000000003 No Hit GTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAA 12 0.3 No Hit GAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTG 12 0.3 No Hit CAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTC 12 0.3 No Hit GGGAGTATTATGAAAGGAGATTAATCATAGATTATCAAAAACCCTAGAAA 11 0.27499999999999997 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 11 0.27499999999999997 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 11 0.27499999999999997 No Hit GGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCG 10 0.25 No Hit GTATGGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGATTA 10 0.25 No Hit GTAACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCA 9 0.22499999999999998 No Hit GGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACGA 9 0.22499999999999998 No Hit GGTGGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGC 9 0.22499999999999998 No Hit GGAGTCCCATATATATATGTATAAGATGCCAGCCCGGTTTCGTCAACCAT 9 0.22499999999999998 No Hit GGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACT 9 0.22499999999999998 No Hit GGCCTGTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCG 8 0.2 No Hit GTATTTAGCCTTGCAAGGTGGTCCTTGCTGATTCACACGGGATTCCACGT 8 0.2 No Hit GTACAAGCTCGTAACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAAT 8 0.2 No Hit GGGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTT 7 0.17500000000000002 No Hit GAAGGAACAAACGAGGATAAGATAAAATTTCTTTAAATTTATTTTGCCCA 7 0.17500000000000002 No Hit GGAATAAGAATAAATCGCAACTCCTTTCCACTACACATAAAAATTGATTT 7 0.17500000000000002 No Hit GGGGAAGTACACCAGCGACGGCGAGGCCGCCGCCGCCAAGGAAGGCATGT 7 0.17500000000000002 No Hit GGTTTTGAAAAGGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAA 7 0.17500000000000002 No Hit GGGCATTCGTATTTCATAGTCAGAGGTGAAATTCTTGGATTTATGAAAGA 6 0.15 No Hit TAGTTTCCACCGCCTGTCCAGGGTTGAGCCCTGGGATTTGACGGCGGACT 6 0.15 No Hit GGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGT 6 0.15 No Hit GGAGTGGGGGTGCCATACGCAAAAAGGAAGCGACTCATAGAATGGCAGAG 6 0.15 No Hit GGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAA 6 0.15 No Hit GGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAA 6 0.15 No Hit CAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCT 6 0.15 No Hit GATACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGC 6 0.15 No Hit GGGGTACTCTTTCTACACCTATATTAGTATTAGTACCGAAATGCTTTAAA 6 0.15 No Hit GGCCGATTAATCTTCCAATATGCTAGTTTCAACAACTCTCGTTCTTTACA 6 0.15 No Hit GGAAATTAACAGTTGGAAAGGGCGATCGGTCTTGATCCCTCTGTGTTTCC 6 0.15 No Hit AATCTCCGGATCTATGCTTATTTTCAACTCCCCGAAGCATTTCGTCGCTT 6 0.15 No Hit GGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTC 5 0.125 No Hit CAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAACGAAGGG 5 0.125 No Hit GGATTTTATGCCTGTCATACCTCTATTCTTTTTTCTATTAGCCTTTGTTT 5 0.125 No Hit GGGAGGGGCTTGGCTACAATTCCGAATACGCTATTACATGTTTGCGCTAG 5 0.125 No Hit GAAGCCTGTGTACAAGCTCGTAACGAAGGGCGCGATCTTGCTCGTGAAGG 5 0.125 No Hit GGATATCGTGTGTGTACATTTGAATGTACCGACATGGGCTCGAGGAGCAT 5 0.125 No Hit GGGTACTCTTTCTACACCTATATTAGTATTAGTACCGAAATGCTTTAAAC 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 0.0125 0.0 0.0 0.0 0.0 12-13 0.025 0.0 0.0 0.0 0.0 14-15 0.025 0.0 0.0 0.0 0.0 16-17 0.025 0.0 0.0 0.0 0.0 18-19 0.05 0.0 0.0 0.0 0.0 20-21 0.05 0.0 0.0 0.0 0.0 22-23 0.05 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 0.07500000000000001 0.0 0.0 0.0 0.0 38-39 0.1 0.0 0.0 0.0 0.0 40-41 0.1 0.0 0.0 0.0 0.0 42-43 0.1 0.0 0.0 0.0 0.0 44-45 0.1 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 0.1 0.0 0.0 0.0 0.0 62-63 0.125 0.0 0.0 0.0 0.0 64-65 0.125 0.0 0.0 0.0 0.0 66-67 0.125 0.0 0.0 0.0 0.0 68-69 0.125 0.0 0.0 0.0 0.0 70-71 0.125 0.0 0.0 0.0 0.0 72-73 0.1375 0.0 0.0 0.0 0.0 74-75 0.15 0.0 0.0 0.0 0.0 76-77 0.16249999999999998 0.0 0.0 0.0 0.0 78-79 0.175 0.0 0.0 0.0 0.0 80-81 0.1875 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Rejected 116710 READS because READLEN < 1 Read 116710 spots for ERR6133307.sra Written 116710 spots for ERR6133307.sra Rejected 116710 READS because READLEN < 1 Read 116710 spots for ERR6133307.sra Written 116710 spots for ERR6133307.sra Rejected 116710 READS because READLEN < 1 Read 116710 spots for ERR6133307.sra Written 116710 spots for ERR6133307.sra Rejected 116710 READS because READLEN < 1 Read 116710 spots for ERR6133307.sra Written 116710 spots for ERR6133307.sra Rejected 116710 READS because READLEN < 1 Read 116710 spots for ERR6133307.sra Written 116710 spots for ERR6133307.sra Rejected 116710 READS because READLEN < 1 Read 116710 spots for ERR6133307.sra Written 116710 spots for ERR6133307.sra Rejected 116710 READS because READLEN < 1 Read 116710 spots for ERR6133307.sra Written 116710 spots for ERR6133307.sra Rejected 116710 READS because READLEN < 1 Read 116710 spots for ERR6133307.sra Written 116710 spots for ERR6133307.sra Rejected 116711 READS because READLEN < 1 Read 116711 spots for ERR6133307.sra Written 116711 spots for ERR6133307.sra Rejected 116710 READS because READLEN < 1 Read 116710 spots for ERR6133307.sra Written 116710 spots for ERR6133307.sra Rejected 116710 READS because READLEN < 1 Read 116710 spots for ERR6133307.sra Written 116710 spots for ERR6133307.sra Rejected 116710 READS because READLEN < 1 Read 116710 spots for ERR6133307.sra Written 116710 spots for ERR6133307.sra Rejected 116710 READS because READLEN < 1 Read 116710 spots for ERR6133307.sra Written 116710 spots for ERR6133307.sra Rejected 116710 READS because READLEN < 1 Read 116710 spots for ERR6133307.sra Written 116710 spots for ERR6133307.sra Rejected 116710 READS because READLEN < 1 Read 116710 spots for ERR6133307.sra Written 116710 spots for ERR6133307.sra Rejected 116710 READS because READLEN < 1 Read 116710 spots for ERR6133307.sra Written 116710 spots for ERR6133307.sra Rejected 116710 READS because READLEN < 1 Read 116710 spots for ERR6133307.sra Written 116710 spots for ERR6133307.sra Rejected 116710 READS because READLEN < 1 Read 116710 spots for ERR6133307.sra Written 116710 spots for ERR6133307.sra Rejected 116710 READS because READLEN < 1 Read 116710 spots for ERR6133307.sra Written 116710 spots for ERR6133307.sra Rejected 116710 READS because READLEN < 1 Read 116710 spots for ERR6133307.sra Written 116710 spots for ERR6133307.sra SRR ids: ['ERR6133307.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_rsew5fmg ERR6133307.sra spots: 2334201 blocks: [[1, 116710], [116711, 233420], [233421, 350130], [350131, 466840], [466841, 583550], [583551, 700260], [700261, 816970], [816971, 933680], [933681, 1050390], [1050391, 1167100], [1167101, 1283810], [1283811, 1400520], [1400521, 1517230], [1517231, 1633940], [1633941, 1750650], [1750651, 1867360], [1867361, 1984070], [1984071, 2100780], [2100781, 2217490], [2217491, 2334201]] ERR6133307 file size 514284 ERR6133307 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 ERR6133307 ERR6133307_1.fastq Input file: ERR6133307_1.fastq trimmed: ERR6133307-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 00:19:50 2024 >> started Sat Dec 7 00:19:51 2024 >> done (1.185s) 2334201 reads processed; of these: 183 ( 0.01%) short reads filtered out after trimming by size control 23 ( 0.00%) empty reads filtered out after trimming by size control 2333995 (99.99%) reads available; of these: 40987 ( 1.76%) trimmed reads available after processing 2293008 (98.24%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 24 0.00% 19 46 0.00% 20 21 0.00% 21 39 0.00% 22 45 0.00% 23 10 0.00% 24 12 0.00% 25 13 0.00% 26 6 0.00% 27 11 0.00% 28 37 0.00% 29 35 0.00% 30 23 0.00% 31 58 0.00% 32 18 0.00% 33 20 0.00% 34 18 0.00% 35 112 0.00% 36 329 0.01% 37 24 0.00% 38 27 0.00% 39 146 0.01% 40 52 0.00% 41 63 0.00% 42 6 0.00% 43 8 0.00% 44 9 0.00% 45 7 0.00% 46 4 0.00% 47 5 0.00% 48 9 0.00% 49 4 0.00% 50 5 0.00% 51 28 0.00% 52 10 0.00% 53 3 0.00% 54 5 0.00% 55 11 0.00% 56 6 0.00% 57 17 0.00% 58 15 0.00% 59 7 0.00% 60 11 0.00% 61 10 0.00% 62 3 0.00% 63 3 0.00% 64 3 0.00% 65 4 0.00% 66 6 0.00% 67 9 0.00% 68 15 0.00% 69 87 0.00% 70 7187 0.31% 71 6234 0.27% 72 7547 0.32% 73 6151 0.26% 74 6609 0.28% 75 6994 0.30% 76 5768 0.25% 77 5791 0.25% 78 7126 0.31% 79 8132 0.35% 80 6963 0.30% 81 7434 0.32% 82 8578 0.37% 83 8990 0.39% 84 7062 0.30% 85 138 0.01% 86 218 0.01% 87 358 0.02% 88 649 0.03% 89 1247 0.05% 90 2447 0.10% 91 7102 0.30% 92 26045 1.12% 93 2187726 93.73% 2333995 reads passed initial QC criterion=sequence-density sequence-density=0.87 sequence-density-rank=1 fanout-score=2.31 fanout-score-rank=30 prefix-density=0.98 prefix-fanout=2.1 sequence=TGTACATTTGAACCCTGACTACACATATACACACATATACATGTAATATTATACAATCTGTCGAGTATGTGTTGGTTCATACTTA criterion=fanout-score sequence-density=0.05 sequence-density-rank=17 fanout-score=51.12 fanout-score-rank=1 prefix-density=0.34 prefix-fanout=7.0 sequence=AAAAAAAGATTTTGAATCTGCCTTTTCCTTTTTTCCTTAGAAAAATAACTCAATCAAAATCCAATTATTTACTCTACAAGAACGAAATGCTTGTTATGCCTAATATACTTAGTTTAACCTGTATCTGTTTTAATTGTGTTCTTTATCCGACTAGTTTTTTCTTTGCTAAACTACCCGAAGCTTATGCTATTTTCAACCCAATCGTGGATTTTATGCCTGTCATACCTCTATTCTTTTTTCTATTAGCCTTTGTTTGGCAAGCTGCTGTAAGTTTTCGATGAAATCTTTACTACTCCGTCTGCCAAATTGAATGGTCTATTCATTCCAAAACC Started job on | Dec 07 00:20:06 Started mapping on | Dec 07 00:20:06 Finished on | Dec 07 00:20:10 Mapping speed, Million of reads per hour | 2100.60 Number of input reads | 2333995 Average input read length | 92 UNIQUE READS: Uniquely mapped reads number | 1496621 Uniquely mapped reads % | 64.12% Average mapped length | 91.81 Number of splices: Total | 65784 Number of splices: Annotated (sjdb) | 53865 Number of splices: GT/AG | 63422 Number of splices: GC/AG | 1276 Number of splices: AT/AC | 34 Number of splices: Non-canonical | 1052 Mismatch rate per base, % | 0.28% Deletion rate per base | 0.03% Deletion average length | 1.47 Insertion rate per base | 0.00% Insertion average length | 1.36 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 777226 % of reads mapped to multiple loci | 33.30% Number of reads mapped to too many loci | 32177 % of reads mapped to too many loci | 1.38% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.09% % of reads unmapped: other | 0.11% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 60148 60148 60148 N_multimapping 777226 777226 777226 N_noFeature 111473 125651 1433331 N_ambiguous 56175 6984 282 UnstrandedReadsAssigned:1328973 PositiveStrandReadsAssigned:1363986 NegativeStrandReadsAssigned:63008 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133307 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: ERR6133307-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 2,333,995 reads, 1,938,444 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 976 rounds 52973 ERR6133307.ke.tsv 35125 ERR6133307.se.tsv 88098 total ==> ERR6133307.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 31 15.3479 PNS24243 293 194 0 0 KQK14069 1603 1504 1 0.451642 KQK14071 474 375 0 0 ==> ERR6133307.se.tsv <== BRADI_1g14170v3 1 BRADI_1g53295v3 12 BRADI_1g59795v3 7 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 17 BRADI_1g74790v3 18 BRADI_1g09890v3 0 BRADI_1g77505v3 40 BRADI_1g48960v3 0 ERR6133307 completed mapping pipeline successfully