Starting /dee2/code/volunteer_pipeline.sh ERR6133395 current disk space = 1547471085568 free memory = 1600096648 ERR6133395 SRAfilesize dfd0a9425c967ac19913e27bb4491f84 ERR6133395.sra ERR6133395.sra file validated ERR6133395 is single end ERR6133395 is conventional basespace ERR6133395 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133395_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 fail #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 28.12525 33.0 27.0 33.0 15.0 37.0 2 32.99425 33.0 33.0 37.0 27.0 37.0 3 33.67275 37.0 33.0 37.0 27.0 37.0 4 34.11775 37.0 33.0 37.0 27.0 37.0 5 34.26675 37.0 33.0 37.0 27.0 37.0 6 34.78975 37.0 33.0 37.0 33.0 37.0 7 35.565 37.0 33.0 40.0 33.0 40.0 8 35.571 37.0 33.0 40.0 33.0 40.0 9 35.64225 37.0 33.0 40.0 33.0 40.0 10-11 35.609625 37.0 33.0 40.0 33.0 40.0 12-13 35.4785 37.0 33.0 40.0 30.0 40.0 14-15 35.37075 37.0 33.0 40.0 27.0 40.0 16-17 35.10075 37.0 33.0 40.0 27.0 40.0 18-19 34.97825 37.0 33.0 37.0 27.0 40.0 20-21 34.267250000000004 37.0 33.0 37.0 27.0 40.0 22-23 33.859125000000006 37.0 33.0 37.0 24.5 40.0 24-25 33.61450000000001 37.0 33.0 37.0 22.0 40.0 26-27 33.373999999999995 37.0 33.0 37.0 22.0 40.0 28-29 32.996125 37.0 33.0 37.0 22.0 40.0 30-31 32.73475 37.0 33.0 37.0 22.0 40.0 32-33 32.503625 37.0 33.0 37.0 22.0 40.0 34-35 31.841875 33.0 30.0 37.0 22.0 40.0 36-37 31.4495 33.0 27.0 37.0 18.5 40.0 38-39 31.4295 33.0 27.0 37.0 22.0 40.0 40-41 31.449 33.0 27.0 37.0 22.0 40.0 42-43 31.258375 33.0 27.0 37.0 22.0 40.0 44-45 31.19175 33.0 27.0 37.0 18.5 40.0 46-47 30.408125 33.0 27.0 37.0 15.0 37.0 48-49 30.172 33.0 27.0 37.0 15.0 37.0 50-51 29.90175 33.0 27.0 37.0 15.0 37.0 52-53 29.691125 33.0 27.0 37.0 15.0 37.0 54-55 29.394750000000002 33.0 27.0 37.0 15.0 37.0 56-57 28.6275 33.0 27.0 35.0 15.0 37.0 58-59 28.4735 33.0 27.0 35.0 15.0 37.0 60-61 27.866999999999997 33.0 22.0 33.0 15.0 37.0 62-63 27.663874999999997 33.0 22.0 33.0 15.0 37.0 64-65 26.99125 33.0 22.0 33.0 10.5 37.0 66-67 26.831249999999997 33.0 22.0 33.0 10.5 37.0 68-69 26.32525 27.0 22.0 33.0 10.5 35.0 70-71 27.9851558649736 33.0 27.0 33.0 15.0 37.0 72-73 28.354028806484333 33.0 27.0 33.0 15.0 37.0 74-75 28.23163979654546 33.0 27.0 33.0 15.0 37.0 76-77 28.002390587250204 33.0 27.0 33.0 15.0 37.0 78-79 27.45624622787684 33.0 27.0 33.0 10.5 37.0 80-81 26.886052754435106 33.0 24.5 33.0 6.0 37.0 82-83 26.051952318658408 33.0 22.0 33.0 2.0 37.0 84-85 25.33123692166314 33.0 22.0 33.0 2.0 37.0 86-87 24.36617806731813 33.0 15.0 33.0 2.0 35.0 88-89 23.431324647122693 30.0 10.5 33.0 2.0 33.0 90-91 22.11984256243214 27.0 2.0 33.0 2.0 33.0 92-93 20.94245385450597 27.0 2.0 33.0 2.0 33.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 99.0 21 102.0 22 119.0 23 149.0 24 171.0 25 195.0 26 234.0 27 236.0 28 279.0 29 240.0 30 270.0 31 294.0 32 277.0 33 260.0 34 324.0 35 297.0 36 255.0 37 169.0 38 29.0 39 1.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 66.475 10.174999999999999 7.9750000000000005 15.375 2 48.75 23.974999999999998 16.675 10.6 3 30.75 35.699999999999996 18.725 14.825 4 27.875 28.475 22.45 21.2 5 23.75 27.474999999999998 27.875 20.9 6 18.099999999999998 34.075 29.275000000000002 18.55 7 31.1 28.075 22.625 18.2 8 25.75 27.725 27.200000000000003 19.325 9 22.25 29.849999999999998 28.275 19.625 10-11 22.425 27.625 28.712500000000002 21.2375 12-13 23.6375 27.325 28.8375 20.200000000000003 14-15 21.6 29.2375 29.312500000000004 19.85 16-17 24.625 28.0875 26.0375 21.25 18-19 23.65 25.6125 29.45 21.2875 20-21 24.775 25.624999999999996 29.612500000000004 19.9875 22-23 26.5375 23.9875 28.537499999999998 20.9375 24-25 23.275000000000002 24.725 29.2 22.8 26-27 23.9 25.7625 29.362500000000004 20.974999999999998 28-29 23.6125 27.1 29.3875 19.900000000000002 30-31 27.05 25.3125 27.1125 20.525 32-33 24.9 25.0125 29.7375 20.349999999999998 34-35 23.225 29.349999999999998 27.487499999999997 19.9375 36-37 23.425 26.637499999999996 27.6875 22.25 38-39 26.424999999999997 24.55 29.15 19.875 40-41 25.0625 25.2 29.562500000000004 20.175 42-43 24.2625 29.7375 26.325 19.675 44-45 23.225 26.487500000000004 29.65 20.6375 46-47 25.112499999999997 26.1125 27.437499999999996 21.337500000000002 48-49 23.825 25.7 29.45 21.025 50-51 21.9375 28.6875 29.0875 20.2875 52-53 23.05 27.975 27.6625 21.3125 54-55 22.662499999999998 28.1625 29.462500000000002 19.7125 56-57 24.575 28.1125 27.575 19.7375 58-59 22.6875 27.5625 29.462500000000002 20.2875 60-61 24.875 27.187499999999996 28.075 19.8625 62-63 21.912499999999998 28.237499999999997 30.162499999999998 19.6875 64-65 22.525000000000002 30.225 27.575 19.675 66-67 24.462500000000002 28.262500000000003 28.275 19.0 68-69 21.512500000000003 27.450000000000003 28.875 22.162499999999998 70-71 24.169487275918264 27.215745267644476 26.776983828506957 21.8377836279303 72-73 25.586408013186258 26.588056295169267 28.730822873082285 19.09471281856219 74-75 24.354385067757605 28.368703656353873 28.57325492201483 18.70365635387369 76-77 21.946811257423185 25.781048282984763 28.814872192099152 23.4572682674929 78-79 23.588473073412437 26.965706089451036 30.19950449863085 19.24631633850567 80-81 22.39061676331049 30.81180811808118 28.584607274644174 18.212967843964154 82-83 22.373333333333335 26.76 27.333333333333332 23.533333333333335 84-85 22.004327833378415 25.750608601568842 30.889910738436573 21.355152826616177 86-87 21.72909880564604 29.017372421281216 28.311617806731814 20.941910966340934 88-89 21.308360477741587 29.58740499457112 29.03094462540717 20.07328990228013 90-91 23.31704668838219 29.12595005428882 27.59229098805646 19.964712269272532 92-93 20.05971769815418 31.745385450597176 28.148751357220412 20.04614549402823 >>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 0.5 17 4.5 18 4.5 19 1.0 20 2.0 21 3.0 22 4.0 23 5.5 24 8.5 25 12.0 26 15.5 27 21.0 28 29.5 29 37.0 30 40.5 31 49.5 32 58.0 33 75.0 34 99.0 35 106.5 36 119.0 37 174.0 38 201.5 39 180.5 40 206.0 41 232.5 42 228.0 43 228.5 44 211.0 45 186.5 46 174.5 47 154.0 48 143.0 49 154.5 50 147.5 51 139.0 52 139.0 53 134.0 54 155.0 55 135.0 56 79.0 57 62.5 58 48.0 59 31.5 60 29.0 61 29.5 62 23.0 63 15.0 64 9.5 65 13.0 66 14.5 67 9.0 68 7.0 69 5.5 70 5.5 71 5.0 72 2.5 73 1.5 74 1.5 75 0.0 76 0.0 77 0.0 78 0.0 79 0.0 80 0.0 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 0.0 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 0.0 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 0.0 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 23.0 71 23.0 72 21.0 73 11.0 74 22.0 75 20.0 76 14.0 77 20.0 78 23.0 79 15.0 80 28.0 81 18.0 82 24.0 83 28.0 84 26.0 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 3684.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 80.77499999999999 #Duplication Level Percentage of deduplicated Percentage of total 1 92.78861033735686 74.95 2 3.8997214484679668 6.3 3 1.392757660167131 3.375 4 0.3714020427112349 1.2 5 0.24760136180748993 1.0 6 0.18570102135561745 0.8999999999999999 7 0.18570102135561745 1.05 8 0.2785515320334262 1.7999999999999998 9 0.09285051067780872 0.675 >10 0.5261528938409161 6.550000000000001 >50 0.03095017022593624 2.1999999999999997 >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 GGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGC 88 2.1999999999999997 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 23 0.575 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 20 0.5 No Hit GGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAA 19 0.475 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 18 0.44999999999999996 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 17 0.42500000000000004 No Hit CAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGATAT 16 0.4 No Hit CAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCT 16 0.4 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 16 0.4 No Hit TCAAAAGAGGAAAGGCTTGCGGTGGATACCTAGGCACCCAGAGACGAGGA 16 0.4 No Hit CAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTC 15 0.375 No Hit GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 14 0.35000000000000003 No Hit GTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAG 14 0.35000000000000003 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 13 0.325 No Hit GGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCTAAATGGATTC 12 0.3 No Hit GGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTC 11 0.27499999999999997 No Hit GGGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCG 11 0.27499999999999997 No Hit CAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTG 11 0.27499999999999997 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 9 0.22499999999999998 No Hit GGCCTGTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCG 9 0.22499999999999998 No Hit TCTCATGGAGAGTTCGATCCTGGCTCAGGATGAACGCTGGCGGCATGCTT 9 0.22499999999999998 No Hit CAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTT 8 0.2 No Hit GCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCT 8 0.2 No Hit GCAGCTTGCAAATGGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAA 8 0.2 No Hit GGGAGTATTATGAAAGGAGATTAATCATAGATTATCAAAAACCCTAGAAA 8 0.2 No Hit AGTCAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAA 8 0.2 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 8 0.2 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 8 0.2 No Hit GTATGGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGATTA 8 0.2 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 8 0.2 No Hit GGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCTAAA 7 0.17500000000000002 No Hit GTATTAGTACTATGGCGTTCAACCTAAATGGATTCAATTTCAACCAATCT 7 0.17500000000000002 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 7 0.17500000000000002 No Hit GGGCACGTGGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAA 7 0.17500000000000002 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 7 0.17500000000000002 No Hit GTACAAGCTCGTAACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAAT 7 0.17500000000000002 No Hit GGTGGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGC 6 0.15 No Hit GGAGTATCCTTGATATATAAATATATAGATAAATAGATTTAAATGGAAAA 6 0.15 No Hit GGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGT 6 0.15 No Hit GTACTATGGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTT 6 0.15 No Hit GGGTTGTTTGGGAATGCAGCCCAAATCGGGCGGTAGACTCCGTCCAAGGC 6 0.15 No Hit GGACTGGGTATCCATGCCAGGTGTTATACCAGTAGCTTCAGGTGGTATTC 6 0.15 No Hit GTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAA 5 0.125 No Hit GAAGCCTGTGTACAAGCTCGTAACGAAGGGCGCGATCTTGCTCGTGAAGG 5 0.125 No Hit TATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAG 5 0.125 No Hit GTCAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAAT 5 0.125 No Hit GTATTTAGCCTTGCAAGGTGGTCCTTGCTGATTCACACGGGATTCCACGT 5 0.125 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 5 0.125 No Hit GTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTA 5 0.125 No Hit AAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCC 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 0.05 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 0.05 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 0.075 0.0 0.0 0.0 0.0 54-55 0.075 0.0 0.0 0.0 0.0 56-57 0.075 0.0 0.0 0.0 0.0 58-59 0.075 0.0 0.0 0.0 0.0 60-61 0.075 0.0 0.0 0.0 0.0 62-63 0.075 0.0 0.0 0.0 0.0 64-65 0.075 0.0 0.0 0.0 0.0 66-67 0.075 0.0 0.0 0.0 0.0 68-69 0.075 0.0 0.0 0.0 0.0 70-71 0.075 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 0.1 0.0 0.0 0.0 0.0 80-81 0.1 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position AAAAAAA 55 0.0027859297 21.35741 86-87 >>END_MODULE Rejected 18885 READS because READLEN < 1 Read 18885 spots for ERR6133395.sra Written 18885 spots for ERR6133395.sra Rejected 18885 READS because READLEN < 1 Read 18885 spots for ERR6133395.sra Written 18885 spots for ERR6133395.sra Rejected 18885 READS because READLEN < 1 Read 18885 spots for ERR6133395.sra Written 18885 spots for ERR6133395.sra Rejected 18885 READS because READLEN < 1 Read 18885 spots for ERR6133395.sra Written 18885 spots for ERR6133395.sra Rejected 18885 READS because READLEN < 1 Read 18885 spots for ERR6133395.sra Written 18885 spots for ERR6133395.sra Rejected 18885 READS because READLEN < 1 Read 18885 spots for ERR6133395.sra Written 18885 spots for ERR6133395.sra Rejected 18885 READS because READLEN < 1 Read 18885 spots for ERR6133395.sra Written 18885 spots for ERR6133395.sra Rejected 18885 READS because READLEN < 1 Read 18885 spots for ERR6133395.sra Written 18885 spots for ERR6133395.sra Rejected 18885 READS because READLEN < 1 Read 18885 spots for ERR6133395.sra Written 18885 spots for ERR6133395.sra Rejected 18885 READS because READLEN < 1 Read 18885 spots for ERR6133395.sra Written 18885 spots for ERR6133395.sra Rejected 18885 READS because READLEN < 1 Read 18885 spots for ERR6133395.sra Written 18885 spots for ERR6133395.sra Rejected 18885 READS because READLEN < 1 Read 18885 spots for ERR6133395.sra Written 18885 spots for ERR6133395.sra Rejected 18885 READS because READLEN < 1 Read 18885 spots for ERR6133395.sra Written 18885 spots for ERR6133395.sra Rejected 18885 READS because READLEN < 1 Read 18885 spots for ERR6133395.sra Written 18885 spots for ERR6133395.sra Rejected 18885 READS because READLEN < 1 Read 18885 spots for ERR6133395.sra Written 18885 spots for ERR6133395.sra Rejected 18885 READS because READLEN < 1 Read 18885 spots for ERR6133395.sra Written 18885 spots for ERR6133395.sra Rejected 18885 READS because READLEN < 1 Read 18885 spots for ERR6133395.sra Written 18885 spots for ERR6133395.sra Rejected 18885 READS because READLEN < 1 Read 18885 spots for ERR6133395.sra Written 18885 spots for ERR6133395.sra Rejected 18885 READS because READLEN < 1 Read 18885 spots for ERR6133395.sra Written 18885 spots for ERR6133395.sra Rejected 18885 READS because READLEN < 1 Read 18885 spots for ERR6133395.sra Written 18885 spots for ERR6133395.sra SRR ids: ['ERR6133395.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_1ke15eyi ERR6133395.sra spots: 377700 blocks: [[1, 18885], [18886, 37770], [37771, 56655], [56656, 75540], [75541, 94425], [94426, 113310], [113311, 132195], [132196, 151080], [151081, 169965], [169966, 188850], [188851, 207735], [207736, 226620], [226621, 245505], [245506, 264390], [264391, 283275], [283276, 302160], [302161, 321045], [321046, 339930], [339931, 358815], [358816, 377700]] ERR6133395 file size 82198 ERR6133395 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 ERR6133395 ERR6133395_1.fastq Input file: ERR6133395_1.fastq trimmed: ERR6133395-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 03:02:41 2024 >> started Sat Dec 7 03:02:42 2024 >> done (0.454s) 377700 reads processed; of these: 16 ( 0.00%) short reads filtered out after trimming by size control 1 ( 0.00%) empty reads filtered out after trimming by size control 377683 (100.00%) reads available; of these: 96736 (25.61%) trimmed reads available after processing 280947 (74.39%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 3 0.00% 19 5 0.00% 20 2 0.00% 21 0 0.00% 22 1 0.00% 23 2 0.00% 24 0 0.00% 25 2 0.00% 26 3 0.00% 27 4 0.00% 28 29 0.01% 29 77 0.02% 30 1 0.00% 31 3 0.00% 32 3 0.00% 33 3 0.00% 34 3 0.00% 35 0 0.00% 36 0 0.00% 37 0 0.00% 38 4 0.00% 39 13 0.00% 40 5 0.00% 41 5 0.00% 42 4 0.00% 43 6 0.00% 44 11 0.00% 45 11 0.00% 46 8 0.00% 47 16 0.00% 48 25 0.01% 49 38 0.01% 50 52 0.01% 51 67 0.02% 52 78 0.02% 53 125 0.03% 54 172 0.05% 55 221 0.06% 56 292 0.08% 57 408 0.11% 58 288 0.08% 59 408 0.11% 60 426 0.11% 61 493 0.13% 62 544 0.14% 63 595 0.16% 64 650 0.17% 65 680 0.18% 66 650 0.17% 67 730 0.19% 68 659 0.17% 69 648 0.17% 70 2700 0.71% 71 2824 0.75% 72 3277 0.87% 73 3302 0.87% 74 3463 0.92% 75 3816 1.01% 76 3696 0.98% 77 4053 1.07% 78 4402 1.17% 79 4785 1.27% 80 4800 1.27% 81 5304 1.40% 82 5753 1.52% 83 6049 1.60% 84 6234 1.65% 85 4714 1.25% 86 5105 1.35% 87 5707 1.51% 88 6409 1.70% 89 6986 1.85% 90 7710 2.04% 91 8209 2.17% 92 6795 1.80% 93 253117 67.02% 377683 reads passed initial QC criterion=sequence-density sequence-density=1.26 sequence-density-rank=1 fanout-score=2.00 fanout-score-rank=14 prefix-density=1.28 prefix-fanout=2.0 sequence=CAAGGCTAAATAC criterion=fanout-score sequence-density=0.14 sequence-density-rank=16 fanout-score=9.43 fanout-score-rank=1 prefix-density=1.36 prefix-fanout=1.0 sequence=CTTCCGATCTCCC Started job on | Dec 07 03:02:52 Started mapping on | Dec 07 03:02:53 Finished on | Dec 07 03:02:58 Mapping speed, Million of reads per hour | 271.93 Number of input reads | 377683 Average input read length | 89 UNIQUE READS: Uniquely mapped reads number | 195275 Uniquely mapped reads % | 51.70% Average mapped length | 88.31 Number of splices: Total | 7728 Number of splices: Annotated (sjdb) | 6251 Number of splices: GT/AG | 7325 Number of splices: GC/AG | 135 Number of splices: AT/AC | 11 Number of splices: Non-canonical | 257 Mismatch rate per base, % | 0.80% Deletion rate per base | 0.04% Deletion average length | 1.67 Insertion rate per base | 0.02% Insertion average length | 1.99 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 157219 % of reads mapped to multiple loci | 41.63% Number of reads mapped to too many loci | 5430 % of reads mapped to too many loci | 1.44% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 4.95% % of reads unmapped: other | 0.29% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 25189 25189 25189 N_multimapping 157219 157219 157219 N_noFeature 13255 15325 186976 N_ambiguous 7144 926 41 UnstrandedReadsAssigned:174876 PositiveStrandReadsAssigned:179024 NegativeStrandReadsAssigned:8258 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=85 echo kmer=81 ERR6133395 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: ERR6133395-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 377,683 reads, 284,690 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 802 rounds 52973 ERR6133395.ke.tsv 35125 ERR6133395.se.tsv 88098 total ==> ERR6133395.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 2 6.87057 PNS24243 293 194 0 0 KQK14069 1603 1504 1 3.13378 KQK14071 474 375 0 0 ==> ERR6133395.se.tsv <== BRADI_1g14170v3 1 BRADI_1g53295v3 2 BRADI_1g59795v3 0 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 1 BRADI_1g74790v3 1 BRADI_1g09890v3 0 BRADI_1g77505v3 3 BRADI_1g48960v3 0 ERR6133395 completed mapping pipeline successfully