Starting /dee2/code/volunteer_pipeline.sh ERR6133328 current disk space = 1548195008512 free memory = 1397007988 ERR6133328 SRAfilesize a2594b1eedfe8e6896c9f4876e40de81 ERR6133328.sra ERR6133328.sra file validated ERR6133328 is single end ERR6133328 is conventional basespace ERR6133328 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133328_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 43 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 36.39 37.0 37.0 37.0 37.0 37.0 2 36.60675 37.0 37.0 37.0 37.0 37.0 3 36.4475 37.0 37.0 37.0 37.0 37.0 4 36.397 37.0 37.0 37.0 37.0 37.0 5 36.49425 37.0 37.0 37.0 37.0 37.0 6 36.5225 37.0 37.0 37.0 37.0 37.0 7 38.647 40.0 37.0 40.0 37.0 40.0 8 38.79125 40.0 37.0 40.0 37.0 40.0 9 38.7695 40.0 37.0 40.0 37.0 40.0 10-11 38.7855 40.0 37.0 40.0 37.0 40.0 12-13 38.758750000000006 40.0 37.0 40.0 37.0 40.0 14-15 38.724625 40.0 37.0 40.0 37.0 40.0 16-17 38.746 40.0 37.0 40.0 37.0 40.0 18-19 38.8065 40.0 37.0 40.0 37.0 40.0 20-21 38.557625 40.0 37.0 40.0 37.0 40.0 22-23 38.641875 40.0 37.0 40.0 37.0 40.0 24-25 38.638125 40.0 37.0 40.0 37.0 40.0 26-27 38.588750000000005 40.0 37.0 40.0 37.0 40.0 28-29 38.53075 40.0 37.0 40.0 37.0 40.0 30-31 38.540375 40.0 37.0 40.0 37.0 40.0 32-33 38.493375 40.0 37.0 40.0 37.0 40.0 34-35 38.439625 40.0 37.0 40.0 37.0 40.0 36-37 38.288624999999996 40.0 37.0 40.0 37.0 40.0 38-39 38.020875000000004 40.0 37.0 40.0 37.0 40.0 40-41 37.97725 40.0 37.0 40.0 37.0 40.0 42-43 37.915125 37.0 37.0 40.0 37.0 40.0 44-45 37.679249999999996 37.0 37.0 40.0 33.0 40.0 46-47 37.5115 37.0 37.0 40.0 33.0 40.0 48-49 37.3835 37.0 37.0 40.0 33.0 40.0 50-51 37.126875 37.0 37.0 40.0 33.0 40.0 52-53 36.992625000000004 37.0 37.0 40.0 33.0 40.0 54-55 36.782125 37.0 37.0 37.0 33.0 40.0 56-57 36.582125000000005 37.0 37.0 37.0 33.0 40.0 58-59 36.2615 37.0 37.0 37.0 33.0 40.0 60-61 36.127125 37.0 37.0 37.0 33.0 38.5 62-63 35.69425 37.0 33.0 37.0 33.0 37.0 64-65 35.39475 37.0 33.0 37.0 33.0 37.0 66-67 35.232 37.0 33.0 37.0 33.0 37.0 68-69 33.805125000000004 35.0 33.0 37.0 30.0 37.0 70-71 33.65974167922633 33.0 33.0 37.0 33.0 37.0 72-73 34.12064277212619 33.0 33.0 37.0 33.0 37.0 74-75 34.011406915442485 33.0 33.0 37.0 33.0 37.0 76-77 33.799596758213454 33.0 33.0 37.0 33.0 37.0 78-79 33.38360914348365 33.0 33.0 37.0 27.0 37.0 80-81 33.04687315924865 33.0 33.0 37.0 27.0 37.0 82-83 33.119836644591615 33.0 33.0 37.0 27.0 37.0 84-85 32.56490044754585 33.0 33.0 35.0 27.0 37.0 86-87 32.34962203023758 33.0 33.0 33.0 27.0 37.0 88-89 32.271193304535636 33.0 33.0 33.0 27.0 37.0 90-91 31.55318574514039 33.0 30.0 33.0 27.0 37.0 92-93 30.573569114470843 33.0 27.0 33.0 22.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 1.0 21 1.0 22 0.0 23 2.0 24 7.0 25 7.0 26 8.0 27 10.0 28 15.0 29 20.0 30 34.0 31 45.0 32 61.0 33 92.0 34 194.0 35 578.0 36 1065.0 37 1563.0 38 279.0 39 18.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 61.925 10.424999999999999 9.5 18.15 2 45.074999999999996 26.55 17.0 11.375 3 29.375 37.175000000000004 18.35 15.1 4 29.049999999999997 27.425 22.05 21.475 5 23.9 27.500000000000004 28.449999999999996 20.150000000000002 6 18.15 36.05 28.525 17.275 7 33.6 26.5 22.875 17.025000000000002 8 26.700000000000003 27.975 26.55 18.775 9 23.375 28.025 29.099999999999998 19.5 10-11 23.35 28.475 29.037499999999998 19.1375 12-13 22.412499999999998 29.5875 30.612499999999997 17.3875 14-15 21.4 28.599999999999998 30.862499999999997 19.1375 16-17 23.1875 30.099999999999998 26.275 20.4375 18-19 22.825 24.9875 32.300000000000004 19.8875 20-21 24.837500000000002 26.0625 29.849999999999998 19.25 22-23 25.275 24.8125 29.425 20.4875 24-25 23.9 25.362499999999997 30.099999999999998 20.6375 26-27 23.5625 25.15 31.362499999999997 19.925 28-29 22.95 26.974999999999998 29.1875 20.8875 30-31 24.962500000000002 26.650000000000002 28.475 19.9125 32-33 24.0625 25.674999999999997 28.825 21.4375 34-35 22.6 29.1875 27.500000000000004 20.7125 36-37 23.4375 26.625 27.474999999999998 22.4625 38-39 25.587500000000002 24.75 28.299999999999997 21.3625 40-41 24.7375 26.650000000000002 28.8375 19.775000000000002 42-43 25.05 28.799999999999997 27.9375 18.212500000000002 44-45 22.3375 26.924999999999997 30.5 20.2375 46-47 25.2375 27.537499999999998 27.05 20.175 48-49 23.8875 25.387500000000003 30.162499999999998 20.5625 50-51 22.6375 28.249999999999996 29.212500000000002 19.900000000000002 52-53 24.1875 27.474999999999998 27.250000000000004 21.087500000000002 54-55 23.925 27.037499999999998 29.1875 19.85 56-57 24.875 27.675 28.925 18.525 58-59 23.2625 28.8625 28.512500000000003 19.3625 60-61 25.137500000000003 27.625 28.175 19.0625 62-63 21.6875 29.862499999999997 29.675 18.775 64-65 21.725 30.45 29.5375 18.2875 66-67 23.8625 28.537499999999998 28.1375 19.4625 68-69 21.2375 28.65 28.4125 21.7 70-71 22.290439794511965 29.40734243829094 28.354842751534896 19.947375015662196 72-73 24.99683744465528 26.641366223908918 29.76597090449083 18.59582542694497 74-75 23.800408371618172 28.152118427769267 29.326186830015317 18.72128637059724 76-77 21.781033153430997 26.355692624004114 28.43741968645592 23.42585453610897 78-79 25.31481241074906 27.69051019083474 28.586265091522783 18.408412306893418 80-81 22.69745473628969 31.23852007347153 28.050380477564946 18.01364471267384 82-83 22.33887043189369 28.06644518272425 27.56146179401993 22.033222591362126 84-85 21.148930445311446 25.69621956141531 32.70550248890085 20.44934750437239 86-87 20.963822894168466 30.170086393088553 27.36231101511879 21.50377969762419 88-89 19.80291576673866 30.54805615550756 29.036177105831534 20.61285097192225 90-91 21.490280777537794 30.494060475161987 28.59071274298056 19.424946004319654 92-93 19.694924406047516 32.18142548596112 28.347732181425485 19.775917926565874 >>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 0.5 18 1.5 19 3.0 20 3.0 21 1.5 22 1.5 23 5.5 24 7.0 25 7.5 26 12.5 27 20.0 28 26.0 29 29.5 30 37.5 31 54.0 32 69.5 33 72.5 34 81.5 35 105.0 36 139.0 37 206.0 38 237.0 39 190.0 40 217.5 41 255.0 42 245.0 43 256.5 44 213.0 45 176.5 46 168.0 47 157.0 48 147.5 49 136.0 50 151.0 51 165.5 52 146.0 53 129.5 54 147.0 55 122.5 56 74.5 57 62.5 58 45.5 59 25.0 60 16.5 61 12.0 62 6.5 63 2.5 64 2.5 65 2.0 66 2.5 67 2.0 68 2.0 69 2.0 70 1.0 71 1.0 72 1.0 73 0.5 74 0.0 75 0.0 76 0.0 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 0.0 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 19.0 71 18.0 72 21.0 73 18.0 74 12.0 75 12.0 76 18.0 77 23.0 78 15.0 79 23.0 80 20.0 81 26.0 82 25.0 83 21.0 84 25.0 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 3704.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 73.8 #Duplication Level Percentage of deduplicated Percentage of total 1 90.92140921409214 67.10000000000001 2 4.098915989159892 6.05 3 1.9986449864498645 4.425 4 0.7113821138211381 2.1 5 0.4403794037940379 1.625 6 0.4403794037940379 1.95 7 0.20325203252032523 1.05 8 0.33875338753387535 2.0 9 0.16937669376693767 1.125 >10 0.6436314363143631 10.475 >50 0.03387533875338753 2.1 >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 84 2.1 No Hit TCAAAAGAGGAAAGGCTTGCGGTGGATACCTAGGCACCCAGAGACGAGGA 47 1.175 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 42 1.05 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 37 0.9249999999999999 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 35 0.8750000000000001 No Hit CAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCT 28 0.7000000000000001 No Hit CAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTC 28 0.7000000000000001 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 25 0.625 No Hit CAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGATAT 24 0.6 No Hit GTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAG 21 0.525 No Hit CAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTG 21 0.525 No Hit GTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAA 16 0.4 No Hit GTACTATGGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTT 14 0.35000000000000003 No Hit GGGTTGTTTGGGAATGCAGCCCAAATCGGGCGGTAGACTCCGTCCAAGGC 14 0.35000000000000003 No Hit GGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAA 14 0.35000000000000003 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 12 0.3 No Hit AACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGA 11 0.27499999999999997 No Hit GGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTT 10 0.25 No Hit AGTCAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAA 10 0.25 No Hit GTATTAGTACTATGGCGTTCAACCTAAATGGATTCAATTTCAACCAATCT 10 0.25 No Hit GGGCACGTGGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAA 9 0.22499999999999998 No Hit GGAAAAGAGGGGTTACTTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTT 9 0.22499999999999998 No Hit GGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAAATACTCCT 9 0.22499999999999998 No Hit CGGGGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACC 9 0.22499999999999998 No Hit GGGTTGTGGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGA 9 0.22499999999999998 No Hit GCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGGTATG 8 0.2 No Hit CGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGGTAT 8 0.2 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 8 0.2 No Hit GATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAAT 8 0.2 No Hit GTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCT 8 0.2 No Hit GGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGCA 8 0.2 No Hit CACGAACGTAATGCTCACAACTTCCCTCTAGATCTAGCTGCTCTTGAAGT 8 0.2 No Hit GAACGTAATGCTCACAACTTCCCTCTAGATCTAGCTGCTCTTGAAGTTCC 8 0.2 No Hit GGGGCACGTGGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTA 8 0.2 No Hit GGAAAAGAAAGCAAAAGCGATTCCCGTAGTAGCGGCGAGCGAAATGGGAG 8 0.2 No Hit GGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCTAAATGGATTC 7 0.17500000000000002 No Hit GGCCTGTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCG 7 0.17500000000000002 No Hit GAAGTATGGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGA 7 0.17500000000000002 No Hit AACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCG 7 0.17500000000000002 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 7 0.17500000000000002 No Hit AAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTT 7 0.17500000000000002 No Hit GGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTC 6 0.15 No Hit GAGGAAGGGCGTAGCAAGCGACGAAATGCTTCGGGGAGTTGAAAATAAGC 6 0.15 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 6 0.15 No Hit TATGGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATA 6 0.15 No Hit GGATACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATG 6 0.15 No Hit GTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGGT 6 0.15 No Hit CTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGT 6 0.15 No Hit GCAGCTTGCAAATGGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAA 6 0.15 No Hit GGCTAAAGTCCAGTAGCCGAAAGCATCACTAGCTTACGCTCTGACCCGAG 6 0.15 No Hit CAAAAGAGGAAAGGCTTGCGGTGGATACCTAGGCACCCAGAGACGAGGAA 6 0.15 No Hit ATGGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAG 6 0.15 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 6 0.15 No Hit CTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGATATCATC 6 0.15 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 5 0.125 No Hit GCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCT 5 0.125 No Hit GGGAAAAGAGGGGTTACTTTTTTTTCATTTTTCCCTTAAAAGATAGGCTT 5 0.125 No Hit GGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTTCGGGGA 5 0.125 No Hit CGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAACGAAGGGCGCGATCT 5 0.125 No Hit GTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAA 5 0.125 No Hit GTGGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCC 5 0.125 No Hit GGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACT 5 0.125 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 5 0.125 No Hit GCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCA 5 0.125 No Hit CGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGGTATGG 5 0.125 No Hit GGGGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCT 5 0.125 No Hit GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 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 0.025 0.0 0.0 0.0 0.0 2 0.025 0.0 0.0 0.0 0.0 3 0.025 0.0 0.0 0.0 0.0 4 0.025 0.0 0.0 0.0 0.0 5 0.025 0.0 0.0 0.0 0.0 6 0.025 0.0 0.0 0.0 0.0 7 0.025 0.0 0.0 0.0 0.0 8 0.025 0.0 0.0 0.0 0.0 9 0.025 0.0 0.0 0.0 0.0 10-11 0.025 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 0.025 0.0 0.0 0.0 0.0 20-21 0.025 0.0 0.0 0.0 0.0 22-23 0.025 0.0 0.0 0.0 0.0 24-25 0.025 0.0 0.0 0.0 0.0 26-27 0.025 0.0 0.0 0.0 0.0 28-29 0.025 0.0 0.0 0.0 0.0 30-31 0.025 0.0 0.0 0.0 0.0 32-33 0.025 0.0 0.0 0.0 0.0 34-35 0.037500000000000006 0.0 0.0 0.0 0.0 36-37 0.05 0.0 0.0 0.0 0.0 38-39 0.075 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 0.075 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 0.075 0.0 0.0 0.0 0.0 74-75 0.075 0.0 0.0 0.0 0.0 76-77 0.075 0.0 0.0 0.0 0.0 78-79 0.075 0.0 0.0 0.0 0.0 80-81 0.075 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Rejected 82168 READS because READLEN < 1 Read 82168 spots for ERR6133328.sra Written 82168 spots for ERR6133328.sra Rejected 82168 READS because READLEN < 1 Read 82168 spots for ERR6133328.sra Written 82168 spots for ERR6133328.sra Rejected 82168 READS because READLEN < 1 Read 82168 spots for ERR6133328.sra Written 82168 spots for ERR6133328.sra Rejected 82168 READS because READLEN < 1 Read 82168 spots for ERR6133328.sra Written 82168 spots for ERR6133328.sra Rejected 82168 READS because READLEN < 1 Read 82168 spots for ERR6133328.sra Written 82168 spots for ERR6133328.sra Rejected 82168 READS because READLEN < 1 Read 82168 spots for ERR6133328.sra Written 82168 spots for ERR6133328.sra Rejected 82168 READS because READLEN < 1 Read 82168 spots for ERR6133328.sra Written 82168 spots for ERR6133328.sra Rejected 82168 READS because READLEN < 1 Read 82168 spots for ERR6133328.sra Written 82168 spots for ERR6133328.sra Rejected 82168 READS because READLEN < 1 Read 82168 spots for ERR6133328.sra Written 82168 spots for ERR6133328.sra Rejected 82168 READS because READLEN < 1 Read 82168 spots for ERR6133328.sra Written 82168 spots for ERR6133328.sra Rejected 82168 READS because READLEN < 1 Read 82168 spots for ERR6133328.sra Written 82168 spots for ERR6133328.sra Rejected 82174 READS because READLEN < 1 Read 82174 spots for ERR6133328.sra Written 82174 spots for ERR6133328.sra Rejected 82168 READS because READLEN < 1 Read 82168 spots for ERR6133328.sra Written 82168 spots for ERR6133328.sra Rejected 82168 READS because READLEN < 1 Read 82168 spots for ERR6133328.sra Written 82168 spots for ERR6133328.sra Rejected 82168 READS because READLEN < 1 Read 82168 spots for ERR6133328.sra Written 82168 spots for ERR6133328.sra Rejected 82168 READS because READLEN < 1 Read 82168 spots for ERR6133328.sra Written 82168 spots for ERR6133328.sra Rejected 82168 READS because READLEN < 1 Read 82168 spots for ERR6133328.sra Written 82168 spots for ERR6133328.sra Rejected 82168 READS because READLEN < 1 Read 82168 spots for ERR6133328.sra Written 82168 spots for ERR6133328.sra Rejected 82168 READS because READLEN < 1 Read 82168 spots for ERR6133328.sra Written 82168 spots for ERR6133328.sra Rejected 82168 READS because READLEN < 1 Read 82168 spots for ERR6133328.sra Written 82168 spots for ERR6133328.sra SRR ids: ['ERR6133328.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_qn38aeu4 ERR6133328.sra spots: 1643366 blocks: [[1, 82168], [82169, 164336], [164337, 246504], [246505, 328672], [328673, 410840], [410841, 493008], [493009, 575176], [575177, 657344], [657345, 739512], [739513, 821680], [821681, 903848], [903849, 986016], [986017, 1068184], [1068185, 1150352], [1150353, 1232520], [1232521, 1314688], [1314689, 1396856], [1396857, 1479024], [1479025, 1561192], [1561193, 1643366]] ERR6133328 file size 359507 ERR6133328 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 ERR6133328 ERR6133328_1.fastq Input file: ERR6133328_1.fastq trimmed: ERR6133328-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 00:46:52 2024 >> started Sat Dec 7 00:46:54 2024 >> done (1.207s) 1643366 reads processed; of these: 225 ( 0.01%) short reads filtered out after trimming by size control 6 ( 0.00%) empty reads filtered out after trimming by size control 1643135 (99.99%) reads available; of these: 22697 ( 1.38%) trimmed reads available after processing 1620438 (98.62%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 13 0.00% 19 25 0.00% 20 15 0.00% 21 11 0.00% 22 11 0.00% 23 15 0.00% 24 15 0.00% 25 11 0.00% 26 10 0.00% 27 14 0.00% 28 25 0.00% 29 13 0.00% 30 5 0.00% 31 9 0.00% 32 17 0.00% 33 17 0.00% 34 14 0.00% 35 28 0.00% 36 10 0.00% 37 14 0.00% 38 11 0.00% 39 26 0.00% 40 25 0.00% 41 18 0.00% 42 5 0.00% 43 9 0.00% 44 19 0.00% 45 3 0.00% 46 8 0.00% 47 3 0.00% 48 6 0.00% 49 2 0.00% 50 9 0.00% 51 24 0.00% 52 9 0.00% 53 6 0.00% 54 12 0.00% 55 10 0.00% 56 4 0.00% 57 13 0.00% 58 6 0.00% 59 10 0.00% 60 7 0.00% 61 7 0.00% 62 0 0.00% 63 0 0.00% 64 0 0.00% 65 1 0.00% 66 1 0.00% 67 3 0.00% 68 10 0.00% 69 42 0.00% 70 8731 0.53% 71 8343 0.51% 72 8603 0.52% 73 8358 0.51% 74 8066 0.49% 75 7739 0.47% 76 7654 0.47% 77 8821 0.54% 78 8598 0.52% 79 9189 0.56% 80 9119 0.55% 81 11600 0.71% 82 12189 0.74% 83 10732 0.65% 84 12119 0.74% 85 20 0.00% 86 45 0.00% 87 60 0.00% 88 133 0.01% 89 319 0.02% 90 735 0.04% 91 2629 0.16% 92 17131 1.04% 93 1481601 90.17% 1643135 reads passed initial QC criterion=sequence-density sequence-density=3.51 sequence-density-rank=1 fanout-score=2.01 fanout-score-rank=26 prefix-density=3.53 prefix-fanout=2.0 sequence=CAAGGCTAAATAC criterion=fanout-score sequence-density=0.01 sequence-density-rank=33 fanout-score=36.99 fanout-score-rank=1 prefix-density=0.07 prefix-fanout=5.4 sequence=AAAAGAAGGGGTGTTCCATCTCCGGACGACGATCCTGCCTGCGGAGGAAGACATGCCGGCGATCATGTCGAGCTTCAAGAAGTTCAACGACTCATTCATGGAGCAATACCAAGACTACTCCAGGCTGTGATGTGAAGAGGGAAACAACGACGTCATCATCGACATGATATATTGCTGCTATTTTCCACCAGCGATTAAAAGTTAAAAAATTTAGCTGTAAGCTGTAACTATCTTGAAGAAACTAAACTGGTTGCTGTGCTTGATATGTATAGGGAAAACATAATTTATGAGACAATCATACTGTGCAACTCTTGGCTCCATCGATTAATTAATACTCCTTGTTATTGCTTGC Potential 3prime adapter identified. Now checking if in reference sequence Warning: gzbuffer added in zlib v1.2.3.5. Unable to change buffer size from default of 8192. 1 reads; of these: 1 (100.00%) were unpaired; of these: 0 (0.00%) aligned 0 times 0 (0.00%) aligned exactly 1 time 1 (100.00%) aligned >1 times 100.00% overall alignment rate Potential adapter found in reference sequence. Continuing without clipping. Started job on | Dec 07 00:47:18 Started mapping on | Dec 07 00:47:18 Finished on | Dec 07 00:47:24 Mapping speed, Million of reads per hour | 985.88 Number of input reads | 1643135 Average input read length | 91 UNIQUE READS: Uniquely mapped reads number | 816059 Uniquely mapped reads % | 49.66% Average mapped length | 90.63 Number of splices: Total | 32225 Number of splices: Annotated (sjdb) | 25681 Number of splices: GT/AG | 30433 Number of splices: GC/AG | 672 Number of splices: AT/AC | 50 Number of splices: Non-canonical | 1070 Mismatch rate per base, % | 0.43% Deletion rate per base | 0.05% Deletion average length | 1.69 Insertion rate per base | 0.03% Insertion average length | 1.34 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 735763 % of reads mapped to multiple loci | 44.78% Number of reads mapped to too many loci | 45356 % of reads mapped to too many loci | 2.76% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 2.66% % of reads unmapped: other | 0.14% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 91313 91313 91313 N_multimapping 735763 735763 735763 N_noFeature 77463 85340 782844 N_ambiguous 29834 4506 136 UnstrandedReadsAssigned:708762 PositiveStrandReadsAssigned:726213 NegativeStrandReadsAssigned:33079 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133328 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: ERR6133328-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 1,643,135 reads, 1,158,068 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 883 rounds 52973 ERR6133328.ke.tsv 35125 ERR6133328.se.tsv 88098 total ==> ERR6133328.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 9.09738 PNS24243 293 194 0 0 KQK14069 1603 1504 11 8.29894 KQK14071 474 375 0 0 ==> ERR6133328.se.tsv <== BRADI_1g14170v3 11 BRADI_1g53295v3 11 BRADI_1g59795v3 19 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 6 BRADI_1g74790v3 3 BRADI_1g09890v3 0 BRADI_1g77505v3 25 BRADI_1g48960v3 0 ERR6133328 completed mapping pipeline successfully