Starting /dee2/code/volunteer_pipeline.sh ERR6133502 current disk space = 1544405733376 free memory = 1598124456 ERR6133502 SRAfilesize 03cc8052cdff72828088ca6ab4e427ef ERR6133502.sra ERR6133502.sra file validated ERR6133502 is single end ERR6133502 is conventional basespace ERR6133502 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133502_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 35.557 37.0 33.0 37.0 33.0 37.0 2 36.4875 37.0 37.0 37.0 37.0 37.0 3 35.73575 37.0 37.0 37.0 33.0 37.0 4 35.27 37.0 37.0 37.0 33.0 37.0 5 35.11725 37.0 37.0 37.0 33.0 37.0 6 35.494 37.0 37.0 37.0 33.0 37.0 7 37.179 37.0 37.0 40.0 33.0 40.0 8 37.255 37.0 37.0 40.0 33.0 40.0 9 37.31375 37.0 37.0 40.0 33.0 40.0 10-11 37.254000000000005 37.0 37.0 40.0 33.0 40.0 12-13 37.205625 37.0 37.0 40.0 33.0 40.0 14-15 37.173874999999995 37.0 37.0 40.0 33.0 40.0 16-17 37.02375 37.0 37.0 40.0 33.0 40.0 18-19 36.927625 37.0 37.0 40.0 33.0 40.0 20-21 36.606125 37.0 37.0 40.0 33.0 40.0 22-23 36.515375 37.0 37.0 40.0 33.0 40.0 24-25 36.463 37.0 37.0 40.0 33.0 40.0 26-27 36.703125 37.0 37.0 40.0 33.0 40.0 28-29 36.699124999999995 37.0 37.0 40.0 33.0 40.0 30-31 36.549375 37.0 37.0 40.0 33.0 40.0 32-33 36.414500000000004 37.0 37.0 40.0 33.0 40.0 34-35 36.32025 37.0 37.0 40.0 33.0 40.0 36-37 36.192125000000004 37.0 37.0 40.0 33.0 40.0 38-39 36.157375 37.0 37.0 40.0 33.0 40.0 40-41 35.9255 37.0 37.0 40.0 33.0 40.0 42-43 35.899875 37.0 37.0 40.0 33.0 40.0 44-45 35.98525 37.0 37.0 38.5 33.0 40.0 46-47 35.82475 37.0 37.0 37.0 33.0 40.0 48-49 35.809124999999995 37.0 37.0 37.0 33.0 40.0 50-51 35.667249999999996 37.0 33.0 37.0 33.0 40.0 52-53 35.378625 37.0 33.0 37.0 33.0 40.0 54-55 35.261625 37.0 33.0 37.0 33.0 40.0 56-57 35.163 37.0 33.0 37.0 33.0 37.0 58-59 34.19275 37.0 33.0 37.0 27.0 37.0 60-61 34.6275 37.0 33.0 37.0 30.0 37.0 62-63 34.556625 37.0 33.0 37.0 30.0 37.0 64-65 34.544 37.0 33.0 37.0 33.0 37.0 66-67 34.4975 37.0 33.0 37.0 30.0 37.0 68-69 33.69075 35.0 33.0 37.0 27.0 37.0 70-71 33.80246226415095 35.0 33.0 37.0 27.0 37.0 72-73 34.12314680544496 37.0 33.0 37.0 27.0 37.0 74-75 34.042659716495855 37.0 33.0 37.0 27.0 37.0 76-77 33.98618275155866 37.0 33.0 37.0 27.0 37.0 78-79 33.89214894317905 37.0 33.0 37.0 27.0 37.0 80-81 33.78169971262621 37.0 33.0 37.0 27.0 37.0 82-83 33.71996680360902 37.0 33.0 37.0 27.0 37.0 84-85 33.50510860804886 37.0 33.0 37.0 27.0 37.0 86-87 33.343893232677274 37.0 33.0 37.0 27.0 37.0 88-89 33.54152062550553 37.0 33.0 37.0 27.0 37.0 90-91 33.280803451064976 37.0 33.0 37.0 27.0 37.0 92-93 33.27406308978161 37.0 33.0 37.0 27.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 12.0 21 16.0 22 12.0 23 21.0 24 25.0 25 29.0 26 35.0 27 45.0 28 50.0 29 61.0 30 93.0 31 119.0 32 166.0 33 181.0 34 277.0 35 467.0 36 935.0 37 909.0 38 526.0 39 21.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 88.875 2.7 2.85 5.575 2 74.55000000000001 14.899999999999999 6.6000000000000005 3.95 3 38.05 36.675000000000004 13.700000000000001 11.575000000000001 4 33.525 28.825 17.675 19.975 5 25.874999999999996 30.125 26.075 17.925 6 18.224999999999998 38.65 26.075 17.05 7 38.175 27.325 18.875 15.625 8 30.55 29.75 21.6 18.099999999999998 9 26.5 30.475 25.324999999999996 17.7 10-11 24.337500000000002 28.8875 27.775 19.0 12-13 27.3375 27.075 26.55 19.037499999999998 14-15 21.05 32.337500000000006 28.5875 18.025 16-17 24.7 31.087500000000002 25.25 18.9625 18-19 24.712500000000002 26.75 27.962500000000002 20.575 20-21 25.78144536134033 26.356589147286826 28.244561140285075 19.61740435108777 22-23 26.400000000000002 23.825 27.800000000000004 21.975 24-25 24.95 23.6625 29.125 22.2625 26-27 25.074999999999996 24.2875 30.075000000000003 20.5625 28-29 24.55 26.8375 28.125 20.4875 30-31 28.4375 25.5125 26.0625 19.9875 32-33 25.525 26.025 27.0625 21.3875 34-35 23.8375 28.625 27.3875 20.150000000000002 36-37 25.340667583447928 24.8906113264158 27.50343792974122 22.26528316039505 38-39 27.642785571142287 24.03557114228457 29.458917835671343 18.862725450901806 40-41 25.753973219872357 24.677762482793142 29.520710799649606 20.047553497684895 42-43 24.290181363352094 29.0931832395247 26.278924327704818 20.337711069418386 44-45 23.275000000000002 26.35 29.6875 20.6875 46-47 25.775 23.7875 27.437499999999996 23.0 48-49 24.637500000000003 24.375 30.4375 20.549999999999997 50-51 24.0 27.1625 28.462500000000002 20.375 52-53 24.483406386975577 26.950532247964937 26.88791484032561 21.678146524733876 54-55 23.790473809226153 26.60332541567696 29.703712964120516 19.90248781097637 56-57 26.128266033254157 26.253281660207527 28.378547318414803 19.239904988123516 58-59 22.35 26.7625 29.825000000000003 21.0625 60-61 26.275 25.162499999999998 29.262500000000003 19.3 62-63 20.9375 27.425 32.525 19.112499999999997 64-65 22.9875 28.8375 28.8875 19.287499999999998 66-67 24.5125 28.15 28.925 18.4125 68-69 22.5 26.325 29.062500000000004 22.112499999999997 70-71 23.887147335423197 25.178683385579937 28.23824451410658 22.695924764890282 72-73 27.046894803548792 24.38529784537389 28.922686945500637 19.64512040557668 74-75 23.740086978766946 28.140189306728065 28.191353287285754 19.92837042721924 76-77 22.840542285345382 24.945125887669466 29.283408650742416 22.930923176242736 78-79 24.160811865729897 25.396825396825395 29.378090033827736 21.064272703616965 80-81 22.949526813880126 30.257623554153522 27.957413249211356 18.835436382754995 82-83 24.02338559659846 25.697581716715383 28.594206749933566 21.684825936752592 84-85 23.329299448702436 23.45031598762942 31.00712652951459 22.213258034153558 86-87 21.852251280668643 28.188190887031546 29.468859530870855 20.490698301428957 88-89 20.679428417363173 29.414936640603933 29.64410892423834 20.261526017794555 90-91 25.020221083850096 27.68940415206255 28.33647883526557 18.953895928821783 92-93 20.504179023995686 29.468859530870855 29.805877595039092 20.221083850094367 >>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 8.5 18 8.0 19 1.0 20 1.5 21 2.5 22 4.0 23 8.5 24 10.0 25 8.0 26 10.5 27 13.0 28 21.5 29 31.5 30 31.5 31 35.0 32 47.5 33 72.5 34 85.5 35 96.0 36 125.0 37 148.5 38 160.5 39 158.0 40 183.5 41 208.0 42 222.0 43 244.0 44 210.0 45 167.5 46 192.0 47 198.5 48 158.5 49 150.0 50 150.5 51 138.5 52 128.0 53 135.0 54 169.0 55 137.0 56 66.5 57 50.0 58 51.5 59 46.5 60 43.5 61 40.0 62 31.5 63 29.0 64 26.0 65 22.5 66 19.0 67 18.5 68 19.0 69 12.0 70 7.0 71 9.0 72 8.0 73 9.0 74 5.5 75 1.5 76 2.0 77 0.5 78 0.5 79 0.5 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 0.025 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 0.2 40-41 0.11249999999999999 42-43 0.0625 44-45 0.0 46-47 0.0 48-49 0.0 50-51 0.0 52-53 0.1875 54-55 0.0125 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 17.0 72 26.0 73 14.0 74 18.0 75 19.0 76 17.0 77 13.0 78 16.0 79 23.0 80 16.0 81 19.0 82 28.0 83 21.0 84 19.0 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 3709.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 77.275 #Duplication Level Percentage of deduplicated Percentage of total 1 91.75024263992235 70.89999999999999 2 4.69103849886768 7.249999999999999 3 1.4881915237787124 3.45 4 0.6470397929472662 2.0 5 0.16175994823681655 0.625 6 0.19411193788417988 0.8999999999999999 7 0.16175994823681655 0.8750000000000001 8 0.16175994823681655 1.0 9 0.09705596894208994 0.675 >10 0.6146878032999029 9.3 >50 0.0 0.0 >100 0.03235198964736331 3.025 >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 121 3.025 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 39 0.975 No Hit GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 38 0.95 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 35 0.8750000000000001 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 26 0.65 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 24 0.6 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 22 0.5499999999999999 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 20 0.5 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 18 0.44999999999999996 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 18 0.44999999999999996 No Hit GGAGTATCCTTGATATATAAATATATAGATAAATAGATTTAAATGGAAAA 16 0.4 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 15 0.375 No Hit GGAAGAGCCCGAGCTGCTGCAGCAGGTTTTGAAAAGGGAATCGATCGTGA 15 0.375 No Hit GGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAA 15 0.375 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 14 0.35000000000000003 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 13 0.325 No Hit GGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACT 12 0.3 No Hit GTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAA 11 0.27499999999999997 No Hit GGCCTGTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCG 11 0.27499999999999997 No Hit GGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTC 10 0.25 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 9 0.22499999999999998 No Hit GGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTT 9 0.22499999999999998 No Hit GGAAAAGAAAGCAAAAGCGATTCCCGTAGTAGCGGCGAGCGAAATGGGAG 9 0.22499999999999998 No Hit GGGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACG 8 0.2 No Hit CAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCT 8 0.2 No Hit CAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTC 8 0.2 No Hit GGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTTGAAATCGGA 8 0.2 No Hit GGTTTTGAAAAGGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAA 8 0.2 No Hit GGGAGTATTATGAAAGGAGATTAATCATAGATTATCAAAAACCCTAGAAA 7 0.17500000000000002 No Hit GTATGGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGATTA 7 0.17500000000000002 No Hit GGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAAATACTCCT 7 0.17500000000000002 No Hit GGGCTTGGCTACAATTCCGAATACGCTATTACATGTTTGCGCTAGTTTTT 7 0.17500000000000002 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 7 0.17500000000000002 No Hit GGGATGGAGATGGCCGCGGAGAACGGCGGCTGCGGCTGCAGCACCTGCAA 6 0.15 No Hit GGTGGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGC 6 0.15 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 6 0.15 No Hit GGAGCACAACAAGGTAATTTGCCCGTCCCAGAAGGTTGCACTGACCGGAA 6 0.15 No Hit GGCATATGCCAGCTCTGACCGAAATCTTTGGGGATGATTCTGTATTACAA 6 0.15 No Hit CACGAACGTAATGCTCACAACTTCCCTCTAGATCTAGCTGCTCTTGAAGT 6 0.15 No Hit CAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGATAT 5 0.125 No Hit GGATTTGAAGAAAAAAAAGACTTCGATTCATTTTCTATTTATTTCGTTAG 5 0.125 No Hit GGGCACGTGGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAA 5 0.125 No Hit GGAGCAGCCTAAACCGTGAAAACGGGGTTGTGGGAGAGCAATACAAGCGT 5 0.125 No Hit GGGCCATTTGTGGCATGCAGGAAGAGCCCGAGCTGCTGCAGCAGGTTTTG 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 0.0125 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 0.025 0.0 0.0 0.0 0.0 36-37 0.025 0.0 0.0 0.0 0.0 38-39 0.025 0.0 0.0 0.0 0.0 40-41 0.025 0.0 0.0 0.0 0.0 42-43 0.025 0.0 0.0 0.0 0.0 44-45 0.025 0.0 0.0 0.0 0.0 46-47 0.025 0.0 0.0 0.0 0.0 48-49 0.025 0.0 0.0 0.0 0.0 50-51 0.025 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 0.0875 0.0 0.0 0.0 0.0 58-59 0.1 0.0 0.0 0.0 0.0 60-61 0.1125 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 0.2 0.0 0.0 0.0 0.0 74-75 0.2 0.0 0.0 0.0 0.0 76-77 0.2 0.0 0.0 0.0 0.0 78-79 0.2 0.0 0.0 0.0 0.0 80-81 0.2 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Rejected 143171 READS because READLEN < 1 Read 143171 spots for ERR6133502.sra Written 143171 spots for ERR6133502.sra Rejected 143171 READS because READLEN < 1 Read 143171 spots for ERR6133502.sra Written 143171 spots for ERR6133502.sra Rejected 143171 READS because READLEN < 1 Read 143171 spots for ERR6133502.sra Written 143171 spots for ERR6133502.sra Rejected 143171 READS because READLEN < 1 Read 143171 spots for ERR6133502.sra Written 143171 spots for ERR6133502.sra Rejected 143171 READS because READLEN < 1 Read 143171 spots for ERR6133502.sra Written 143171 spots for ERR6133502.sra Rejected 143171 READS because READLEN < 1 Read 143171 spots for ERR6133502.sra Written 143171 spots for ERR6133502.sra Rejected 143171 READS because READLEN < 1 Read 143171 spots for ERR6133502.sra Written 143171 spots for ERR6133502.sra Rejected 143181 READS because READLEN < 1 Read 143181 spots for ERR6133502.sra Written 143181 spots for ERR6133502.sra Rejected 143171 READS because READLEN < 1 Read 143171 spots for ERR6133502.sra Written 143171 spots for ERR6133502.sra Rejected 143171 READS because READLEN < 1 Read 143171 spots for ERR6133502.sra Written 143171 spots for ERR6133502.sra Rejected 143171 READS because READLEN < 1 Read 143171 spots for ERR6133502.sra Written 143171 spots for ERR6133502.sra Rejected 143171 READS because READLEN < 1 Read 143171 spots for ERR6133502.sra Written 143171 spots for ERR6133502.sra Rejected 143171 READS because READLEN < 1 Read 143171 spots for ERR6133502.sra Written 143171 spots for ERR6133502.sra Rejected 143171 READS because READLEN < 1 Read 143171 spots for ERR6133502.sra Written 143171 spots for ERR6133502.sra Rejected 143171 READS because READLEN < 1 Read 143171 spots for ERR6133502.sra Written 143171 spots for ERR6133502.sra Rejected 143171 READS because READLEN < 1 Read 143171 spots for ERR6133502.sra Written 143171 spots for ERR6133502.sra Rejected 143171 READS because READLEN < 1 Read 143171 spots for ERR6133502.sra Written 143171 spots for ERR6133502.sra Rejected 143171 READS because READLEN < 1 Read 143171 spots for ERR6133502.sra Written 143171 spots for ERR6133502.sra Rejected 143171 READS because READLEN < 1 Read 143171 spots for ERR6133502.sra Written 143171 spots for ERR6133502.sra Rejected 143171 READS because READLEN < 1 Read 143171 spots for ERR6133502.sra Written 143171 spots for ERR6133502.sra SRR ids: ['ERR6133502.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_0aeqofve ERR6133502.sra spots: 2863430 blocks: [[1, 143171], [143172, 286342], [286343, 429513], [429514, 572684], [572685, 715855], [715856, 859026], [859027, 1002197], [1002198, 1145368], [1145369, 1288539], [1288540, 1431710], [1431711, 1574881], [1574882, 1718052], [1718053, 1861223], [1861224, 2004394], [2004395, 2147565], [2147566, 2290736], [2290737, 2433907], [2433908, 2577078], [2577079, 2720249], [2720250, 2863430]] ERR6133502 file size 628362 ERR6133502 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 ERR6133502 ERR6133502_1.fastq Input file: ERR6133502_1.fastq trimmed: ERR6133502-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 07:26:25 2024 >> started Sat Dec 7 07:26:28 2024 >> done (3.134s) 2863430 reads processed; of these: 323 ( 0.01%) short reads filtered out after trimming by size control 68 ( 0.00%) empty reads filtered out after trimming by size control 2863039 (99.99%) reads available; of these: 49397 ( 1.73%) trimmed reads available after processing 2813642 (98.27%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 138 0.00% 19 179 0.01% 20 57 0.00% 21 42 0.00% 22 64 0.00% 23 24 0.00% 24 19 0.00% 25 13 0.00% 26 22 0.00% 27 35 0.00% 28 53 0.00% 29 27 0.00% 30 17 0.00% 31 36 0.00% 32 58 0.00% 33 25 0.00% 34 39 0.00% 35 203 0.01% 36 473 0.02% 37 48 0.00% 38 85 0.00% 39 217 0.01% 40 254 0.01% 41 63 0.00% 42 27 0.00% 43 23 0.00% 44 38 0.00% 45 29 0.00% 46 18 0.00% 47 16 0.00% 48 14 0.00% 49 16 0.00% 50 25 0.00% 51 136 0.00% 52 29 0.00% 53 13 0.00% 54 9 0.00% 55 10 0.00% 56 18 0.00% 57 14 0.00% 58 39 0.00% 59 11 0.00% 60 36 0.00% 61 29 0.00% 62 6 0.00% 63 1 0.00% 64 7 0.00% 65 8 0.00% 66 15 0.00% 67 21 0.00% 68 33 0.00% 69 131 0.00% 70 17692 0.62% 71 14504 0.51% 72 15208 0.53% 73 13556 0.47% 74 14137 0.49% 75 13856 0.48% 76 11963 0.42% 77 12807 0.45% 78 14569 0.51% 79 16865 0.59% 80 14682 0.51% 81 16226 0.57% 82 18543 0.65% 83 18453 0.64% 84 13800 0.48% 85 89 0.00% 86 171 0.01% 87 275 0.01% 88 555 0.02% 89 1023 0.04% 90 2160 0.08% 91 6577 0.23% 92 32166 1.12% 93 2590199 90.47% 2863039 reads passed initial QC criterion=sequence-density sequence-density=0.35 sequence-density-rank=1 fanout-score=2.13 fanout-score-rank=33 prefix-density=0.36 prefix-fanout=2.1 sequence=AGTATTATGAAA criterion=fanout-score sequence-density=0.02 sequence-density-rank=29 fanout-score=46.63 fanout-score-rank=1 prefix-density=0.32 prefix-fanout=3.2 sequence=ATCGATCGATCCGTGCATCGCCATGATGGTACCCATCGTCCATGGAATGTAGTGCGTGAGAGAGGTTTAAAATGCTGAGGGTGGGTGTAACATGTAAATTTGTACGCGTGCTGCGTGCACGCTTGTAATATTTATTATATTGTGCTCTTAGTGTGCATTGCATCTCTGATCACTC Started job on | Dec 07 07:26:41 Started mapping on | Dec 07 07:26:41 Finished on | Dec 07 07:26:46 Mapping speed, Million of reads per hour | 2061.39 Number of input reads | 2863039 Average input read length | 91 UNIQUE READS: Uniquely mapped reads number | 1969595 Uniquely mapped reads % | 68.79% Average mapped length | 91.12 Number of splices: Total | 85463 Number of splices: Annotated (sjdb) | 70890 Number of splices: GT/AG | 82014 Number of splices: GC/AG | 1810 Number of splices: AT/AC | 51 Number of splices: Non-canonical | 1588 Mismatch rate per base, % | 0.43% Deletion rate per base | 0.03% Deletion average length | 1.79 Insertion rate per base | 0.02% Insertion average length | 2.34 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 836163 % of reads mapped to multiple loci | 29.21% Number of reads mapped to too many loci | 20777 % of reads mapped to too many loci | 0.73% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.23% % of reads unmapped: other | 0.05% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 57281 57281 57281 N_multimapping 836163 836163 836163 N_noFeature 146882 175230 1876006 N_ambiguous 73550 8252 444 UnstrandedReadsAssigned:1749163 PositiveStrandReadsAssigned:1786113 NegativeStrandReadsAssigned:93145 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133502 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: ERR6133502-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 2,863,039 reads, 2,315,526 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 988 rounds 52973 ERR6133502.ke.tsv 35125 ERR6133502.se.tsv 88098 total ==> ERR6133502.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 68 29.0113 PNS24243 293 194 0 0 KQK14069 1603 1504 83 32.303 KQK14071 474 375 0 0 ==> ERR6133502.se.tsv <== BRADI_1g14170v3 83 BRADI_1g53295v3 5 BRADI_1g59795v3 22 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 11 BRADI_1g74790v3 38 BRADI_1g09890v3 0 BRADI_1g77505v3 43 BRADI_1g48960v3 0 ERR6133502 completed mapping pipeline successfully