Starting /dee2/code/volunteer_pipeline.sh ERR6133335 current disk space = 1548161556480 free memory = 1604001036 ERR6133335 SRAfilesize aa891716cce671aedb0663f024288b27 ERR6133335.sra ERR6133335.sra file validated ERR6133335 is single end ERR6133335 is conventional basespace ERR6133335 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133335_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 35.99825 37.0 37.0 37.0 33.0 37.0 2 36.56125 37.0 37.0 37.0 37.0 37.0 3 36.6335 37.0 37.0 37.0 37.0 37.0 4 36.47075 37.0 37.0 37.0 37.0 37.0 5 36.47325 37.0 37.0 37.0 37.0 37.0 6 36.563 37.0 37.0 37.0 37.0 37.0 7 38.86975 40.0 37.0 40.0 37.0 40.0 8 38.9115 40.0 37.0 40.0 37.0 40.0 9 38.952 40.0 37.0 40.0 37.0 40.0 10-11 38.917249999999996 40.0 37.0 40.0 37.0 40.0 12-13 38.912625 40.0 37.0 40.0 37.0 40.0 14-15 38.871375 40.0 37.0 40.0 37.0 40.0 16-17 38.864625000000004 40.0 37.0 40.0 37.0 40.0 18-19 38.835875 40.0 37.0 40.0 37.0 40.0 20-21 38.765125 40.0 37.0 40.0 37.0 40.0 22-23 38.6905 40.0 37.0 40.0 37.0 40.0 24-25 38.54275 40.0 37.0 40.0 37.0 40.0 26-27 38.582125000000005 40.0 37.0 40.0 37.0 40.0 28-29 38.645250000000004 40.0 37.0 40.0 37.0 40.0 30-31 38.59675 40.0 37.0 40.0 37.0 40.0 32-33 38.471500000000006 40.0 37.0 40.0 37.0 40.0 34-35 38.38125 40.0 37.0 40.0 37.0 40.0 36-37 38.29575 40.0 37.0 40.0 37.0 40.0 38-39 38.24275 40.0 37.0 40.0 37.0 40.0 40-41 38.07825 40.0 37.0 40.0 37.0 40.0 42-43 37.95925 40.0 37.0 40.0 37.0 40.0 44-45 37.788125 38.5 37.0 40.0 37.0 40.0 46-47 37.697 37.0 37.0 40.0 37.0 40.0 48-49 37.440375 37.0 37.0 40.0 33.0 40.0 50-51 37.323875 37.0 37.0 40.0 33.0 40.0 52-53 37.1695 37.0 37.0 40.0 33.0 40.0 54-55 36.9725 37.0 37.0 38.5 33.0 40.0 56-57 36.781625 37.0 37.0 37.0 33.0 40.0 58-59 36.4795 37.0 37.0 37.0 33.0 40.0 60-61 36.436375 37.0 37.0 37.0 33.0 40.0 62-63 36.3225 37.0 37.0 37.0 33.0 37.0 64-65 36.133375 37.0 37.0 37.0 33.0 37.0 66-67 35.895624999999995 37.0 37.0 37.0 33.0 37.0 68-69 35.053 35.0 35.0 37.0 33.0 37.0 70-71 35.31104217926186 37.0 35.0 37.0 33.0 37.0 72-73 35.762170575616686 37.0 37.0 37.0 33.0 37.0 74-75 35.72101362742845 37.0 37.0 37.0 33.0 37.0 76-77 35.70233202465747 37.0 37.0 37.0 33.0 37.0 78-79 35.69117418025979 37.0 37.0 37.0 33.0 37.0 80-81 35.63366651248593 37.0 37.0 37.0 33.0 37.0 82-83 35.403170751847355 37.0 35.0 37.0 33.0 37.0 84-85 35.479204272056336 37.0 35.0 37.0 33.0 37.0 86-87 35.50053050397878 37.0 33.0 37.0 33.0 37.0 88-89 35.52705570291777 37.0 33.0 37.0 33.0 37.0 90-91 35.44787798408488 37.0 33.0 37.0 33.0 37.0 92-93 35.39084880636605 37.0 33.0 37.0 33.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 1.0 21 0.0 22 4.0 23 3.0 24 9.0 25 10.0 26 10.0 27 16.0 28 21.0 29 20.0 30 22.0 31 41.0 32 51.0 33 58.0 34 99.0 35 160.0 36 590.0 37 1199.0 38 1623.0 39 63.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 61.224999999999994 12.275 12.174999999999999 14.325 2 38.375 30.075000000000003 18.075 13.475000000000001 3 27.35 33.25 20.775 18.625 4 28.875 25.924999999999997 21.525 23.674999999999997 5 22.275 27.525 28.925 21.275 6 19.675 34.65 27.85 17.825 7 34.175 27.250000000000004 22.575 16.0 8 28.225 29.049999999999997 25.874999999999996 16.85 9 23.5 25.95 29.65 20.9 10-11 24.3125 29.025000000000002 27.537499999999998 19.125 12-13 23.5875 27.8875 28.549999999999997 19.975 14-15 23.6625 27.3625 29.8375 19.1375 16-17 24.775 30.4375 25.6125 19.175 18-19 23.225 26.724999999999998 28.487499999999997 21.5625 20-21 26.325 26.775 27.675 19.225 22-23 28.575 23.599999999999998 27.9375 19.8875 24-25 26.3 27.6125 26.525 19.5625 26-27 26.687499999999996 25.387500000000003 29.475 18.45 28-29 25.637500000000003 26.4625 26.525 21.375 30-31 24.962500000000002 25.674999999999997 28.7375 20.625 32-33 24.2625 27.5875 28.275 19.875 34-35 23.8625 28.212500000000002 26.55 21.375 36-37 24.224999999999998 27.85 25.224999999999998 22.7 38-39 25.9407425928241 25.19064883110389 27.86598324790599 21.002625328166022 40-41 25.4 26.35 26.924999999999997 21.325 42-43 25.75 29.262500000000003 26.887499999999996 18.099999999999998 44-45 22.525000000000002 29.037499999999998 28.299999999999997 20.1375 46-47 25.8125 25.662499999999998 28.7 19.825 48-49 25.174999999999997 24.1125 30.15 20.5625 50-51 22.900000000000002 27.787499999999998 28.8625 20.45 52-53 27.8875 25.825 27.5875 18.7 54-55 27.224999999999998 27.800000000000004 27.05 17.925 56-57 24.8125 27.8625 28.575 18.75 58-59 23.625 27.2625 29.812499999999996 19.3 60-61 24.55 29.049999999999997 26.8 19.6 62-63 22.537499999999998 30.0875 29.1875 18.1875 64-65 23.22120795298237 29.58609478554458 28.323121170438913 18.869576091034137 66-67 23.377922240280036 30.22877859732467 27.715964495561945 18.677334666833353 68-69 22.8875 29.049999999999997 26.924999999999997 21.1375 70-71 23.57509708129776 29.061756231992987 27.68382813478642 19.679318551922837 72-73 25.894098319221538 27.979274611398964 28.59850878301529 17.52811828636421 74-75 23.882877148313174 27.192870782940805 29.675366008911517 19.2488860598345 76-77 21.219887237314197 28.011276268580215 29.497693490517683 21.271143003587902 78-79 26.691583967006054 26.11161232117541 27.696868153112515 19.49993555870602 80-81 24.678195293199845 29.89208165388116 27.187621895722273 18.242101157196725 82-83 21.827942909519447 29.23923006416132 29.055912007332722 19.876915018986512 84-85 21.932495036399736 25.29450694904037 32.150893448047654 20.622104566512245 86-87 20.981432360742705 29.535809018567637 26.604774535809018 22.877984084880637 88-89 19.111405835543767 33.42175066312997 28.26259946949602 19.20424403183024 90-91 21.750663129973475 29.588859416445622 28.580901856763923 20.079575596816976 92-93 22.572944297082227 32.98408488063661 25.954907161803714 18.48806366047745 >>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 1.0 19 2.5 20 2.5 21 3.0 22 4.5 23 4.5 24 6.0 25 10.0 26 10.5 27 10.0 28 21.5 29 33.5 30 32.5 31 38.0 32 47.0 33 58.5 34 75.0 35 92.0 36 117.5 37 151.5 38 187.5 39 199.0 40 240.5 41 253.5 42 243.5 43 268.0 44 230.5 45 198.0 46 197.0 47 192.0 48 165.0 49 149.0 50 205.5 51 228.0 52 154.5 53 103.0 54 99.0 55 67.5 56 45.5 57 48.0 58 39.5 59 28.5 60 30.5 61 24.0 62 10.0 63 14.0 64 15.0 65 10.5 66 12.0 67 9.0 68 5.5 69 3.5 70 1.5 71 2.0 72 1.0 73 0.0 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 0.0125 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 0.0375 66-67 0.0125 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 0.01323451561672843 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 17.0 71 18.0 72 17.0 73 14.0 74 13.0 75 13.0 76 12.0 77 12.0 78 9.0 79 24.0 80 11.0 81 11.0 82 21.0 83 22.0 84 16.0 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 3770.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 73.0 #Duplication Level Percentage of deduplicated Percentage of total 1 90.47945205479452 66.05 2 4.691780821917808 6.8500000000000005 3 1.678082191780822 3.675 4 0.6506849315068494 1.9 5 0.6164383561643836 2.25 6 0.3767123287671233 1.6500000000000001 7 0.273972602739726 1.4000000000000001 8 0.136986301369863 0.8 9 0.17123287671232876 1.125 >10 0.8561643835616438 10.0 >50 0.03424657534246575 1.575 >100 0.03424657534246575 2.725 >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 109 2.725 No Hit TCAAAAGAGGAAAGGCTTGCGGTGGATACCTAGGCACCCAGAGACGAGGA 63 1.575 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 34 0.8500000000000001 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 28 0.7000000000000001 No Hit CAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCT 25 0.625 No Hit CAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTG 25 0.625 No Hit GGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGC 24 0.6 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 23 0.575 No Hit GTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGGT 20 0.5 No Hit AACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGA 17 0.42500000000000004 No Hit GGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAA 16 0.4 No Hit GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 15 0.375 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 14 0.35000000000000003 No Hit AGTCAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAA 13 0.325 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 13 0.325 No Hit GGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTC 12 0.3 No Hit GAGGAAGGGCGTAGCAAGCGACGAAATGCTTCGGGGAGTTGAAAATAAGC 12 0.3 No Hit GGGGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCT 12 0.3 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 12 0.3 No Hit TCTCATGGAGAGTTCGATCCTGGCTCAGGATGAACGCTGGCGGCATGCTT 12 0.3 No Hit CAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGATAT 11 0.27499999999999997 No Hit GATACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGC 11 0.27499999999999997 No Hit CGAGGAAGGGCGTAGCAAGCGACGAAATGCTTCGGGGAGTTGAAAATAAG 11 0.27499999999999997 No Hit GCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGGTATG 10 0.25 No Hit GTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGCA 10 0.25 No Hit GAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGCAGCTTG 10 0.25 No Hit GGAAAAGAAAGCAAAAGCGATTCCCGTAGTAGCGGCGAGCGAAATGGGAG 10 0.25 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 9 0.22499999999999998 No Hit GTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAA 9 0.22499999999999998 No Hit GTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAA 9 0.22499999999999998 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 9 0.22499999999999998 No Hit GTCAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAAT 9 0.22499999999999998 No Hit AACGTAATGCTCACAACTTCCCTCTAGATCTAGCTGCTCTTGAAGTTCCC 8 0.2 No Hit GAAGCCTGTGTACAAGCTCGTAACGAAGGGCGCGATCTTGCTCGTGAAGG 8 0.2 No Hit GTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGGTATGGA 8 0.2 No Hit AAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCC 8 0.2 No Hit ATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAACGTAATGC 7 0.17500000000000002 No Hit ATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGT 7 0.17500000000000002 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 7 0.17500000000000002 No Hit GGTCTTGATCCCTCTGTGTTTCCCGTGTAACGGCTACTGATCCAGTGGTT 7 0.17500000000000002 No Hit GTAACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCA 7 0.17500000000000002 No Hit GTACTATGGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTT 7 0.17500000000000002 No Hit GGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTT 7 0.17500000000000002 No Hit TCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCT 7 0.17500000000000002 No Hit GGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTG 6 0.15 No Hit GCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCT 6 0.15 No Hit GGATACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATG 6 0.15 No Hit GTAGCAAGCGACGAAATGCTTCGGGGAGTTGAAAATAAGCATAGATCCGG 6 0.15 No Hit GGGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTT 6 0.15 No Hit GCTCGTAACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCG 6 0.15 No Hit CGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGGTATGG 6 0.15 No Hit GATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAG 6 0.15 No Hit AGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTG 6 0.15 No Hit CAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTC 6 0.15 No Hit GTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTA 6 0.15 No Hit GGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCTAAATGGATTC 5 0.125 No Hit TAGTCAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTA 5 0.125 No Hit CGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGGTAT 5 0.125 No Hit GCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTCGAGTTCGCGCCGGT 5 0.125 No Hit CACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTTCGGGGAGT 5 0.125 No Hit GTATGGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGATTA 5 0.125 No Hit GCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAACGA 5 0.125 No Hit GCAAATGGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATC 5 0.125 No Hit GGATATCGTGTGTGTACATTTGAATGTACCGACATGGGCTCGAGGAGCAT 5 0.125 No Hit GCAGCTTGTGAAGTATGGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGA 5 0.125 No Hit ATATTGGGTAGGTTGTGGTATTTCATTGCTACAAACATGGGTTATTGTAA 5 0.125 No Hit GGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTTCGGGGA 5 0.125 No Hit GATCCGGAGATTCCCAAATAGGTCAACCTTTTAAACTGCCTGCTGAATCC 5 0.125 No Hit GTCAAAAGAGGAAAGGCTTGCGGTGGATACCTAGGCACCCAGAGACGAGG 5 0.125 No Hit TATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAG 5 0.125 No Hit CGGGGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACC 5 0.125 No Hit AAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTT 5 0.125 No Hit CTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGATATCATC 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 0.125 0.0 0.0 0.0 0.0 36-37 0.125 0.0 0.0 0.0 0.0 38-39 0.125 0.0 0.0 0.0 0.0 40-41 0.15 0.0 0.0 0.0 0.0 42-43 0.15 0.0 0.0 0.0 0.0 44-45 0.15 0.0 0.0 0.0 0.0 46-47 0.15 0.0 0.0 0.0 0.0 48-49 0.15 0.0 0.0 0.0 0.0 50-51 0.15 0.0 0.0 0.0 0.0 52-53 0.15 0.0 0.0 0.0 0.0 54-55 0.15 0.0 0.0 0.0 0.0 56-57 0.15 0.0 0.0 0.0 0.0 58-59 0.15 0.0 0.0 0.0 0.0 60-61 0.15 0.0 0.0 0.0 0.0 62-63 0.15 0.0 0.0 0.0 0.0 64-65 0.15 0.0 0.0 0.0 0.0 66-67 0.15 0.0 0.0 0.0 0.0 68-69 0.15 0.0 0.0 0.0 0.0 70-71 0.15 0.0 0.0 0.0 0.0 72-73 0.15 0.0 0.0 0.0 0.0 74-75 0.15 0.0 0.0 0.0 0.0 76-77 0.15 0.0 0.0 0.0 0.0 78-79 0.15 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 AAGAGGA 15 8.956223E-4 86.399994 5 TCAAAAG 15 8.956223E-4 86.399994 1 AAAGAGG 15 8.956223E-4 86.399994 4 GGAAAGG 15 8.956223E-4 86.399994 9 CAAAAGA 15 8.956223E-4 86.399994 2 AGAGGAA 20 0.0028058405 64.799995 6 AGGAAAG 20 0.0028058405 64.799995 8 AAAAGAG 20 0.0028058405 64.799995 3 GAGGAAA 25 0.00679027 51.84 7 GGCACCC 45 2.2092254E-5 47.999996 7 CTAGGCA 45 2.2092254E-5 47.999996 4 AGGCACC 45 2.2092254E-5 47.999996 6 GCACCCA 45 2.2092254E-5 47.999996 8 TACCTAG 45 2.2092254E-5 47.999996 1 ACCTAGG 45 2.2092254E-5 47.999996 2 CCTAGGC 45 2.2092254E-5 47.999996 3 TAGGCAC 45 2.2092254E-5 47.999996 5 CACCCAG 50 4.1190964E-5 43.2 9 GGAGATT 45 0.0011365232 24.935064 78-79 GATTCCC 45 0.0011365232 24.935064 80-81 >>END_MODULE Rejected 44042 READS because READLEN < 1 Read 44042 spots for ERR6133335.sra Written 44042 spots for ERR6133335.sra Rejected 44042 READS because READLEN < 1 Read 44042 spots for ERR6133335.sra Written 44042 spots for ERR6133335.sra Rejected 44042 READS because READLEN < 1 Read 44042 spots for ERR6133335.sra Written 44042 spots for ERR6133335.sra Rejected 44042 READS because READLEN < 1 Read 44042 spots for ERR6133335.sra Written 44042 spots for ERR6133335.sra Rejected 44042 READS because READLEN < 1 Read 44042 spots for ERR6133335.sra Written 44042 spots for ERR6133335.sra Rejected 44042 READS because READLEN < 1 Read 44042 spots for ERR6133335.sra Written 44042 spots for ERR6133335.sra Rejected 44047 READS because READLEN < 1 Rejected 44042 READS because READLEN < 1 Read 44047 spots for ERR6133335.sra Read 44042 spots for ERR6133335.sra Written 44047 spots for ERR6133335.sra Rejected 44042 READS because READLEN < 1 Written 44042 spots for ERR6133335.sra Read 44042 spots for ERR6133335.sra Written 44042 spots for ERR6133335.sra Rejected 44042 READS because READLEN < 1 Read 44042 spots for ERR6133335.sra Written 44042 spots for ERR6133335.sra Rejected 44042 READS because READLEN < 1 Read 44042 spots for ERR6133335.sra Written 44042 spots for ERR6133335.sra Rejected 44042 READS because READLEN < 1 Read 44042 spots for ERR6133335.sra Written 44042 spots for ERR6133335.sra Rejected 44042 READS because READLEN < 1 Read 44042 spots for ERR6133335.sra Written 44042 spots for ERR6133335.sra Rejected 44042 READS because READLEN < 1 Read 44042 spots for ERR6133335.sra Written 44042 spots for ERR6133335.sra Rejected 44042 READS because READLEN < 1 Read 44042 spots for ERR6133335.sra Written 44042 spots for ERR6133335.sra Rejected 44042 READS because READLEN < 1 Read 44042 spots for ERR6133335.sra Written 44042 spots for ERR6133335.sra Rejected 44042 READS because READLEN < 1 Read 44042 spots for ERR6133335.sra Written 44042 spots for ERR6133335.sra Rejected 44042 READS because READLEN < 1 Read 44042 spots for ERR6133335.sra Written 44042 spots for ERR6133335.sra Rejected 44042 READS because READLEN < 1 Read 44042 spots for ERR6133335.sra Written 44042 spots for ERR6133335.sra Rejected 44042 READS because READLEN < 1 Read 44042 spots for ERR6133335.sra Written 44042 spots for ERR6133335.sra SRR ids: ['ERR6133335.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_h072o607 ERR6133335.sra spots: 880845 blocks: [[1, 44042], [44043, 88084], [88085, 132126], [132127, 176168], [176169, 220210], [220211, 264252], [264253, 308294], [308295, 352336], [352337, 396378], [396379, 440420], [440421, 484462], [484463, 528504], [528505, 572546], [572547, 616588], [616589, 660630], [660631, 704672], [704673, 748714], [748715, 792756], [792757, 836798], [836799, 880845]] ERR6133335 file size 192717 ERR6133335 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 ERR6133335 ERR6133335_1.fastq Input file: ERR6133335_1.fastq trimmed: ERR6133335-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 00:53:28 2024 >> started Sat Dec 7 00:53:29 2024 >> done (0.587s) 880845 reads processed; of these: 33 ( 0.00%) short reads filtered out after trimming by size control 0 ( 0.00%) empty reads filtered out after trimming by size control 880812 (100.00%) reads available; of these: 6588 ( 0.75%) trimmed reads available after processing 874224 (99.25%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 19 3 0.00% 20 1 0.00% 21 3 0.00% 22 0 0.00% 23 3 0.00% 24 1 0.00% 25 5 0.00% 26 2 0.00% 27 1 0.00% 28 10 0.00% 29 250 0.03% 30 0 0.00% 31 0 0.00% 32 10 0.00% 33 1316 0.15% 34 6 0.00% 35 22 0.00% 36 5 0.00% 37 2 0.00% 38 6 0.00% 39 4 0.00% 40 4 0.00% 41 5 0.00% 42 2 0.00% 43 7 0.00% 44 2 0.00% 45 6 0.00% 46 4 0.00% 47 2 0.00% 48 1 0.00% 49 1 0.00% 50 1 0.00% 51 7 0.00% 52 2 0.00% 53 1 0.00% 54 5 0.00% 55 1 0.00% 56 0 0.00% 57 3 0.00% 58 1 0.00% 59 1 0.00% 60 7 0.00% 61 6 0.00% 62 3 0.00% 63 3 0.00% 64 4 0.00% 65 2 0.00% 66 8 0.00% 67 3 0.00% 68 11 0.00% 69 25 0.00% 70 3045 0.35% 71 2859 0.32% 72 2774 0.31% 73 2943 0.33% 74 2946 0.33% 75 2872 0.33% 76 2754 0.31% 77 2965 0.34% 78 3160 0.36% 79 3384 0.38% 80 3249 0.37% 81 3807 0.43% 82 4037 0.46% 83 3860 0.44% 84 3978 0.45% 85 32 0.00% 86 66 0.01% 87 71 0.01% 88 123 0.01% 89 189 0.02% 90 367 0.04% 91 788 0.09% 92 2728 0.31% 93 826037 93.78% 880812 reads passed initial QC criterion=sequence-density sequence-density=1.16 sequence-density-rank=1 fanout-score=2.03 fanout-score-rank=23 prefix-density=1.18 prefix-fanout=2.0 sequence=CAAGGCTAAATAC criterion=fanout-score sequence-density=0.01 sequence-density-rank=36 fanout-score=50.33 fanout-score-rank=1 prefix-density=0.59 prefix-fanout=1.0 sequence=GTAGCTACCGAGATCAATGCAGTTAATTATGTCTCTCCTAGAAGTTGGTTATCGACTTCTCATTTTGTTCTAGGATTCTTCTTTTTTGTGGGCCATTTGTGGCATGCAGGAAGAGCCCGAGCTGCTGCAGCAGGTTTTGAAAAGGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACTAAGATTTTCTTATTTATACCTGTTCTACTTCTACTGTTTTTTTCTGCTCTGGCTCGGTTATTTCATTTAGCCGAGCCATTCATTCCTTTTTCTGAATGAAAGATAAGGGGACAGAA Started job on | Dec 07 00:53:39 Started mapping on | Dec 07 00:53:39 Finished on | Dec 07 00:53:42 Mapping speed, Million of reads per hour | 1056.97 Number of input reads | 880812 Average input read length | 92 UNIQUE READS: Uniquely mapped reads number | 467807 Uniquely mapped reads % | 53.11% Average mapped length | 91.17 Number of splices: Total | 13394 Number of splices: Annotated (sjdb) | 9935 Number of splices: GT/AG | 12201 Number of splices: GC/AG | 282 Number of splices: AT/AC | 19 Number of splices: Non-canonical | 892 Mismatch rate per base, % | 0.39% Deletion rate per base | 0.04% Deletion average length | 1.59 Insertion rate per base | 0.02% Insertion average length | 1.79 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 375808 % of reads mapped to multiple loci | 42.67% Number of reads mapped to too many loci | 15873 % of reads mapped to too many loci | 1.80% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 2.31% % of reads unmapped: other | 0.11% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 37197 37197 37197 N_multimapping 375808 375808 375808 N_noFeature 32403 37075 447868 N_ambiguous 17346 2094 54 UnstrandedReadsAssigned:418058 PositiveStrandReadsAssigned:428638 NegativeStrandReadsAssigned:19885 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133335 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: ERR6133335-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 880,812 reads, 651,469 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 862 rounds 52973 ERR6133335.ke.tsv 35125 ERR6133335.se.tsv 88098 total ==> ERR6133335.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 837 0 0 PNS24247 1044 945 0 0 PNS24249 1928 1829 4.00219 4.48582 PNS24246 1044 945 0 0 PNS24248 1044 945 0 0 PNS24244 1471 1372 4.99781 7.46765 PNS24243 293 194 0 0 KQK14069 1603 1504 5 6.81523 KQK14071 474 375 0 0 ==> ERR6133335.se.tsv <== BRADI_1g14170v3 5 BRADI_1g53295v3 3 BRADI_1g59795v3 6 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 5 BRADI_1g74790v3 2 BRADI_1g09890v3 0 BRADI_1g77505v3 2 BRADI_1g48960v3 0 ERR6133335 completed mapping pipeline successfully