Starting /dee2/code/volunteer_pipeline.sh ERR6133470 current disk space = 1545035870208 free memory = 1597728704 ERR6133470 SRAfilesize 943d49c7a2db40cffc1572f55a74bc69 ERR6133470.sra ERR6133470.sra file validated ERR6133470 is single end ERR6133470 is conventional basespace ERR6133470 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133470_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 47 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 34.80725 37.0 33.0 37.0 33.0 37.0 2 36.2085 37.0 37.0 37.0 33.0 37.0 3 35.226 37.0 33.0 37.0 33.0 37.0 4 34.689 37.0 33.0 37.0 27.0 37.0 5 34.58175 37.0 33.0 37.0 27.0 37.0 6 34.87275 37.0 33.0 37.0 33.0 37.0 7 36.51775 37.0 37.0 40.0 33.0 40.0 8 36.67075 37.0 37.0 40.0 33.0 40.0 9 36.86775 37.0 37.0 40.0 33.0 40.0 10-11 36.829625 37.0 37.0 40.0 33.0 40.0 12-13 36.647375 37.0 37.0 40.0 33.0 40.0 14-15 36.596000000000004 37.0 37.0 40.0 33.0 40.0 16-17 36.449749999999995 37.0 37.0 40.0 33.0 40.0 18-19 36.22575 37.0 35.0 40.0 33.0 40.0 20-21 35.960750000000004 37.0 33.0 40.0 33.0 40.0 22-23 35.664125 37.0 33.0 40.0 33.0 40.0 24-25 35.89875 37.0 35.0 40.0 33.0 40.0 26-27 36.17525 37.0 37.0 40.0 33.0 40.0 28-29 36.032624999999996 37.0 35.0 40.0 33.0 40.0 30-31 36.1045 37.0 35.0 40.0 33.0 40.0 32-33 35.838875 37.0 33.0 40.0 33.0 40.0 34-35 35.706625 37.0 33.0 40.0 33.0 40.0 36-37 35.75725 37.0 33.0 40.0 33.0 40.0 38-39 35.694500000000005 37.0 33.0 40.0 33.0 40.0 40-41 35.510875 37.0 33.0 40.0 27.0 40.0 42-43 35.441500000000005 37.0 33.0 40.0 30.0 40.0 44-45 35.03175 37.0 33.0 37.0 30.0 40.0 46-47 35.093125 37.0 33.0 37.0 30.0 40.0 48-49 35.182125 37.0 33.0 37.0 30.0 40.0 50-51 35.024625 37.0 33.0 37.0 27.0 40.0 52-53 34.8515 37.0 33.0 37.0 30.0 40.0 54-55 34.8705 37.0 33.0 37.0 33.0 38.5 56-57 34.760125 37.0 33.0 37.0 30.0 37.0 58-59 34.09925 37.0 33.0 37.0 27.0 37.0 60-61 34.405249999999995 37.0 33.0 37.0 27.0 37.0 62-63 34.391875 37.0 33.0 37.0 27.0 37.0 64-65 34.094375 37.0 33.0 37.0 27.0 37.0 66-67 33.931625 37.0 33.0 37.0 27.0 37.0 68-69 33.009875 35.0 33.0 37.0 27.0 37.0 70-71 33.29035106382979 35.0 33.0 37.0 27.0 37.0 72-73 33.672843996223264 37.0 33.0 37.0 27.0 37.0 74-75 33.74184313621196 37.0 33.0 37.0 27.0 37.0 76-77 33.896355928594204 37.0 33.0 37.0 27.0 37.0 78-79 33.76409771747283 37.0 33.0 37.0 27.0 37.0 80-81 33.67469997344151 37.0 33.0 37.0 27.0 37.0 82-83 33.5717868184473 37.0 33.0 37.0 27.0 37.0 84-85 33.35012597712774 35.0 33.0 37.0 27.0 37.0 86-87 33.25669757856775 33.0 33.0 37.0 27.0 37.0 88-89 33.345054095826896 37.0 33.0 37.0 27.0 37.0 90-91 33.01069036579083 33.0 33.0 37.0 27.0 37.0 92-93 33.11025244719217 33.0 33.0 37.0 27.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 9.0 21 20.0 22 24.0 23 22.0 24 31.0 25 34.0 26 44.0 27 59.0 28 68.0 29 94.0 30 113.0 31 162.0 32 164.0 33 236.0 34 283.0 35 512.0 36 918.0 37 805.0 38 394.0 39 8.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 86.35000000000001 2.5250000000000004 3.925 7.199999999999999 2 71.925 16.975 6.0 5.1 3 41.025 36.15 11.725 11.1 4 30.0 34.9 16.475 18.625 5 31.374999999999996 27.125 25.025 16.475 6 17.474999999999998 44.9 22.3 15.325 7 42.375 26.35 17.0 14.274999999999999 8 26.924999999999997 26.974999999999998 21.025 25.074999999999996 9 21.85 36.55 25.074999999999996 16.525000000000002 10-11 22.4625 29.825000000000003 30.075000000000003 17.6375 12-13 23.125 30.65 23.2875 22.9375 14-15 19.775000000000002 38.337500000000006 25.2125 16.675 16-17 26.575 27.6125 22.075 23.7375 18-19 25.890736342042754 24.278034754344294 30.778847355919492 19.05238154769346 20-21 27.55127563781891 22.923961980990494 31.21560780390195 18.309154577288645 22-23 30.012499999999996 20.849999999999998 29.099999999999998 20.0375 24-25 22.875 23.0375 29.425 24.6625 26-27 28.037499999999998 22.45 27.6125 21.9 28-29 22.5125 29.462500000000002 29.5 18.525 30-31 34.4875 22.725 24.175 18.6125 32-33 28.199999999999996 23.625 24.7 23.474999999999998 34-35 22.537499999999998 35.4 23.575 18.4875 36-37 27.11588948618577 22.640330041255158 24.290536317039628 25.95324415551944 38-39 34.804350543817975 21.990248781097637 26.515814476809602 16.68958619827478 40-41 24.25 23.1625 33.85 18.7375 42-43 28.913397668880812 30.96879308183983 22.72214563228475 17.39566361699461 44-45 27.069267316829208 24.01850462615654 30.49512378094524 18.41710427606902 46-47 28.037499999999998 22.75 23.35 25.8625 48-49 27.85 21.712500000000002 27.150000000000002 23.2875 50-51 21.7375 28.9875 25.2875 23.9875 52-53 23.09619238476954 24.423847695390783 23.171342685370742 29.308617234468937 54-55 21.390173771721464 24.928116014501814 30.391298912364046 23.29041130141268 56-57 28.599999999999998 29.012500000000003 24.349999999999998 18.0375 58-59 21.7375 28.1125 30.725 19.425 60-61 33.0 22.175 26.525 18.3 62-63 20.0 25.275 32.425 22.3 64-65 21.175 36.9375 25.1875 16.7 66-67 27.3875 31.05 24.637500000000003 16.925 68-69 20.365045630703836 23.31541442680335 29.55369421177647 26.765845730716343 70-71 23.42714196372733 28.342714196372732 24.62789243277048 23.602251407129458 72-73 28.576811958296695 22.936816982791104 30.260017585730438 18.22635347318176 74-75 27.06520368268382 30.05423130281246 24.58065329801993 18.299911716483795 76-77 21.17840434947528 22.619800227588822 25.51523580730813 30.68655961562777 78-79 26.57697677370225 29.01383424292423 25.916994542454624 18.4921944409189 80-81 21.689206430211787 36.820617504465424 24.878795611125287 16.6113804541975 82-83 25.865162778774675 23.468341450910025 25.40374263009485 25.262753140220457 84-85 21.46718146718147 25.64993564993565 33.024453024453024 19.858429858429858 86-87 19.82225656877898 30.64142194744977 25.695517774343124 23.84080370942813 88-89 19.371458011334365 26.841834106130865 30.821741370427613 22.96496651210716 90-91 28.696548171045855 28.490468830499744 25.811437403400312 17.001545595054097 92-93 20.14425553838228 26.442555383822775 30.486862442040184 22.926326635754766 >>END_MODULE >>Per sequence GC content fail #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 5.0 18 6.0 19 1.0 20 1.5 21 2.0 22 1.0 23 2.5 24 5.5 25 6.0 26 6.5 27 9.5 28 14.0 29 17.0 30 21.0 31 31.5 32 41.0 33 58.5 34 66.5 35 67.5 36 92.0 37 126.5 38 159.0 39 148.0 40 148.0 41 177.0 42 195.5 43 210.5 44 189.5 45 168.5 46 171.5 47 162.5 48 138.5 49 130.5 50 130.5 51 145.0 52 151.0 53 165.0 54 330.0 55 296.5 56 96.5 57 68.0 58 61.5 59 45.5 60 36.5 61 36.0 62 33.0 63 27.5 64 20.0 65 19.5 66 15.0 67 12.5 68 12.5 69 10.5 70 11.0 71 9.0 72 5.5 73 3.0 74 2.5 75 0.5 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 0.0125 20-21 0.05 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 0.0125 40-41 0.0 42-43 0.2625 44-45 0.025 46-47 0.0 48-49 0.0 50-51 0.0 52-53 0.2 54-55 0.0125 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 0.0125 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 5.0 71 10.0 72 9.0 73 9.0 74 5.0 75 4.0 76 7.0 77 7.0 78 9.0 79 14.0 80 4.0 81 9.0 82 14.0 83 6.0 84 6.0 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 3882.0 >>END_MODULE >>Sequence Duplication Levels warn #Total Deduplicated Percentage 68.22500000000001 #Duplication Level Percentage of deduplicated Percentage of total 1 92.37816049835105 63.025 2 3.847563209967021 5.25 3 1.0993037742762917 2.25 4 0.5496518871381458 1.5 5 0.4397215097105167 1.5 6 0.3297911322828875 1.35 7 0.18321729571271528 0.8750000000000001 8 0.07328691828508611 0.4 9 0.07328691828508611 0.44999999999999996 >10 0.9893733968486624 12.8 >50 0.0 0.0 >100 0.03664345914254306 10.6 >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 424 10.6 No Hit GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 46 1.15 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 44 1.0999999999999999 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 42 1.05 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 33 0.8250000000000001 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 30 0.75 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 29 0.7250000000000001 No Hit CAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTC 26 0.65 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 23 0.575 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 20 0.5 No Hit GGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAA 17 0.42500000000000004 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 17 0.42500000000000004 No Hit GGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTT 15 0.375 No Hit GGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGCA 15 0.375 No Hit GGGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCG 13 0.325 No Hit GTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAA 12 0.3 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 12 0.3 No Hit CAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCT 12 0.3 No Hit GGAAAAGAAAGCAAAAGCGATTCCCGTAGTAGCGGCGAGCGAAATGGGAG 12 0.3 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 11 0.27499999999999997 No Hit GGGTTGTTTGGGAATGCAGCCCAAATCGGGCGGTAGACTCCGTCCAAGGC 11 0.27499999999999997 No Hit GGCCTGTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCG 11 0.27499999999999997 No Hit GTATTTAGCCTTGCAAGGTGGTCCTTGCTGATTCACACGGGATTCCACGT 11 0.27499999999999997 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 10 0.25 No Hit GGGGTTGTGGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTG 10 0.25 No Hit GGGAGTATTATGAAAGGAGATTAATCATAGATTATCAAAAACCCTAGAAA 10 0.25 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 10 0.25 No Hit GGAGTATCCTTGATATATAAATATATAGATAAATAGATTTAAATGGAAAA 10 0.25 No Hit CAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGATAT 9 0.22499999999999998 No Hit GGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACGA 9 0.22499999999999998 No Hit GAGGAAGGGCGTAGCAAGCGACGAAATGCTTCGGGGAGTTGAAAATAAGC 8 0.2 No Hit GGGTTGTGGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGA 8 0.2 No Hit GGGCACGTGGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAA 7 0.17500000000000002 No Hit GGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGT 7 0.17500000000000002 No Hit GGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAAATACTCCT 7 0.17500000000000002 No Hit GGAAGAGCCCGAGCTGCTGCAGCAGGTTTTGAAAAGGGAATCGATCGTGA 7 0.17500000000000002 No Hit GGAGCAGCCTAAACCGTGAAAACGGGGTTGTGGGAGAGCAATACAAGCGT 7 0.17500000000000002 No Hit GGGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTT 6 0.15 No Hit GGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCTAAA 6 0.15 No Hit GGAATAAGAATAAATCGCAACTCCTTTCCACTACACATAAAAATTGATTT 6 0.15 No Hit GGGGAAGTACACCAGCGACGGCGAGGCCGCCGCCGCCAAGGAAGGCATGT 6 0.15 No Hit GGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTTG 6 0.15 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 6 0.15 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 6 0.15 No Hit GTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAG 6 0.15 No Hit TCAAAAGAGGAAAGGCTTGCGGTGGATACCTAGGCACCCAGAGACGAGGA 6 0.15 No Hit GGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTC 5 0.125 No Hit GGTATTAGTACTATGGCGTTCAACCTAAATGGATTCAATTTCAACCAATC 5 0.125 No Hit GGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCG 5 0.125 No Hit GGATACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATG 5 0.125 No Hit GGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACGAGCCGT 5 0.125 No Hit GGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAA 5 0.125 No Hit GGGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACG 5 0.125 No Hit TAACGCTTGCATCCTCTGTCTTACCGCGGCTGCTGGCACAGAGTTAGCCG 5 0.125 No Hit GGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACT 5 0.125 No Hit GCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCA 5 0.125 No Hit CACGAACGTAATGCTCACAACTTCCCTCTAGATCTAGCTGCTCTTGAAGT 5 0.125 No Hit CAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTG 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 0.0 0.0 0.0 0.0 0.0 36-37 0.0 0.0 0.0 0.0 0.0 38-39 0.0 0.0 0.0 0.0 0.0 40-41 0.0 0.0 0.0 0.0 0.0 42-43 0.0 0.0 0.0 0.0 0.0 44-45 0.0 0.0 0.0 0.0 0.0 46-47 0.0 0.0 0.0 0.0 0.0 48-49 0.0 0.0 0.0 0.0 0.0 50-51 0.0 0.0 0.0 0.0 0.0 52-53 0.0 0.0 0.0 0.0 0.0 54-55 0.0 0.0 0.0 0.0 0.0 56-57 0.0 0.0 0.0 0.0 0.0 58-59 0.0 0.0 0.0 0.0 0.0 60-61 0.0 0.0 0.0 0.0 0.0 62-63 0.0 0.0 0.0 0.0 0.0 64-65 0.0 0.0 0.0 0.0 0.0 66-67 0.0 0.0 0.0 0.0 0.0 68-69 0.0 0.0 0.0 0.0 0.0 70-71 0.0 0.0 0.0 0.0 0.0 72-73 0.0 0.0 0.0 0.0 0.0 74-75 0.0 0.0 0.0 0.0 0.0 76-77 0.0 0.0 0.0 0.0 0.0 78-79 0.0 0.0 0.0 0.0 0.0 80-81 0.0 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content fail #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position GCAATAC 55 1.8189894E-12 70.63977 7 CAATACA 55 1.8189894E-12 70.63977 8 AATACAA 55 1.8189894E-12 70.63977 9 GGAGAGC 60 5.456968E-12 64.75312 2 GGGAGAG 60 5.456968E-12 64.75312 1 AGAGCAA 60 5.456968E-12 64.75312 4 AGCAATA 60 5.456968E-12 64.75312 6 GAGCAAT 65 1.2732926E-11 59.772118 5 GAGAGCA 65 1.2732926E-11 59.772118 3 CATCACT 45 2.9831426E-10 44.85065 82-83 ATCACTA 45 2.9831426E-10 44.85065 84-85 AGCATCA 45 2.9831426E-10 44.85065 80-81 CACTAGC 45 2.9831426E-10 44.85065 86-87 ACTAGCT 45 2.9831426E-10 44.85065 86-87 GCATCAC 45 2.9831426E-10 44.85065 82-83 AAGCATC 45 2.9831426E-10 44.85065 80-81 TCACTAG 50 8.421921E-10 40.365585 84-85 AAAGCAT 50 8.9858077E-10 40.10516 78-79 CCGAAAG 50 9.586074E-10 39.848076 76-77 GCCGAAA 50 1.022272E-9 39.594265 74-75 >>END_MODULE Rejected 231708 READS because READLEN < 1 Read 231708 spots for ERR6133470.sra Written 231708 spots for ERR6133470.sra Rejected 231708 READS because READLEN < 1 Read 231708 spots for ERR6133470.sra Written 231708 spots for ERR6133470.sra Rejected 231708 READS because READLEN < 1 Read 231708 spots for ERR6133470.sra Written 231708 spots for ERR6133470.sra Rejected 231708 READS because READLEN < 1 Read 231708 spots for ERR6133470.sra Written 231708 spots for ERR6133470.sra Rejected 231708 READS because READLEN < 1 Read 231708 spots for ERR6133470.sra Written 231708 spots for ERR6133470.sra Rejected 231708 READS because READLEN < 1 Read 231708 spots for ERR6133470.sra Written 231708 spots for ERR6133470.sra Rejected 231708 READS because READLEN < 1 Read 231708 spots for ERR6133470.sra Written 231708 spots for ERR6133470.sra Rejected 231708 READS because READLEN < 1 Read 231708 spots for ERR6133470.sra Written 231708 spots for ERR6133470.sra Rejected 231708 READS because READLEN < 1 Read 231708 spots for ERR6133470.sra Written 231708 spots for ERR6133470.sra Rejected 231708 READS because READLEN < 1 Read 231708 spots for ERR6133470.sra Written 231708 spots for ERR6133470.sra Rejected 231708 READS because READLEN < 1 Read 231708 spots for ERR6133470.sra Written 231708 spots for ERR6133470.sra Rejected 231710 READS because READLEN < 1 Read 231710 spots for ERR6133470.sra Written 231710 spots for ERR6133470.sra Rejected 231708 READS because READLEN < 1 Read 231708 spots for ERR6133470.sra Written 231708 spots for ERR6133470.sra Rejected 231708 READS because READLEN < 1 Read 231708 spots for ERR6133470.sra Written 231708 spots for ERR6133470.sra Rejected 231708 READS because READLEN < 1 Read 231708 spots for ERR6133470.sra Written 231708 spots for ERR6133470.sra Rejected 231708 READS because READLEN < 1 Read 231708 spots for ERR6133470.sra Written 231708 spots for ERR6133470.sra Rejected 231708 READS because READLEN < 1 Read 231708 spots for ERR6133470.sra Written 231708 spots for ERR6133470.sra Rejected 231708 READS because READLEN < 1 Read 231708 spots for ERR6133470.sra Written 231708 spots for ERR6133470.sra Rejected 231708 READS because READLEN < 1 Read 231708 spots for ERR6133470.sra Written 231708 spots for ERR6133470.sra Rejected 231708 READS because READLEN < 1 Read 231708 spots for ERR6133470.sra Written 231708 spots for ERR6133470.sra SRR ids: ['ERR6133470.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_h1tgno2y ERR6133470.sra spots: 4634162 blocks: [[1, 231708], [231709, 463416], [463417, 695124], [695125, 926832], [926833, 1158540], [1158541, 1390248], [1390249, 1621956], [1621957, 1853664], [1853665, 2085372], [2085373, 2317080], [2317081, 2548788], [2548789, 2780496], [2780497, 3012204], [3012205, 3243912], [3243913, 3475620], [3475621, 3707328], [3707329, 3939036], [3939037, 4170744], [4170745, 4402452], [4402453, 4634162]] ERR6133470 file size 1025075 ERR6133470 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 ERR6133470 ERR6133470_1.fastq Input file: ERR6133470_1.fastq trimmed: ERR6133470-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 06:45:44 2024 >> started Sat Dec 7 06:45:46 2024 >> done (2.213s) 4634162 reads processed; of these: 143 ( 0.00%) short reads filtered out after trimming by size control 10 ( 0.00%) empty reads filtered out after trimming by size control 4634009 (100.00%) reads available; of these: 64353 ( 1.39%) trimmed reads available after processing 4569656 (98.61%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 6 0.00% 19 29 0.00% 20 14 0.00% 21 13 0.00% 22 18 0.00% 23 4 0.00% 24 9 0.00% 25 5 0.00% 26 11 0.00% 27 2 0.00% 28 12 0.00% 29 8 0.00% 30 11 0.00% 31 12 0.00% 32 10 0.00% 33 13 0.00% 34 9 0.00% 35 104 0.00% 36 497 0.01% 37 11 0.00% 38 11 0.00% 39 63 0.00% 40 52 0.00% 41 29 0.00% 42 7 0.00% 43 17 0.00% 44 12 0.00% 45 8 0.00% 46 13 0.00% 47 4 0.00% 48 4 0.00% 49 5 0.00% 50 8 0.00% 51 31 0.00% 52 4 0.00% 53 6 0.00% 54 6 0.00% 55 6 0.00% 56 8 0.00% 57 9 0.00% 58 11 0.00% 59 4 0.00% 60 9 0.00% 61 7 0.00% 62 0 0.00% 63 4 0.00% 64 6 0.00% 65 4 0.00% 66 6 0.00% 67 17 0.00% 68 39 0.00% 69 104 0.00% 70 9348 0.20% 71 8435 0.18% 72 9444 0.20% 73 8496 0.18% 74 8994 0.19% 75 8828 0.19% 76 7709 0.17% 77 8221 0.18% 78 9682 0.21% 79 10724 0.23% 80 10394 0.22% 81 12704 0.27% 82 14336 0.31% 83 13174 0.28% 84 12459 0.27% 85 141 0.00% 86 305 0.01% 87 420 0.01% 88 815 0.02% 89 1684 0.04% 90 3636 0.08% 91 11522 0.25% 92 42766 0.92% 93 4418460 95.35% 4634009 reads passed initial QC criterion=sequence-density sequence-density=0.94 sequence-density-rank=1 fanout-score=2.01 fanout-score-rank=31 prefix-density=0.94 prefix-fanout=2.0 sequence=CAAGGCTAAATAC criterion=fanout-score sequence-density=0.01 sequence-density-rank=31 fanout-score=21.39 fanout-score-rank=1 prefix-density=0.09 prefix-fanout=2.2 sequence=AATAGAATGAAGAAGAATTGGAAGAAGAAAAGTTTTCTCAACATGGGGAGGAAGTCCCTCCGAAATTTGATTTGTTATTGTATTGTAAGGGGCTTTTTTAGTATTTATCTAAAGGAAGGAACAAACGAGGATAAGATAAAATTTCTTTAAATTTATTTTGCCCAAGTGGGATATATGGCATACTATTCTTTCCATTTTCATCTTTTTTTCTATTCCACTCCATCTAGATATAAGAAAGAACCCAATGCAATGAAATTCCACTAATATACAATACAAAAAAGAAGAATAGATACAGGGTCTCAAACCTTGCTATAGAGTTTTTGCTT Started job on | Dec 07 06:45:58 Started mapping on | Dec 07 06:45:58 Finished on | Dec 07 06:46:04 Mapping speed, Million of reads per hour | 2780.41 Number of input reads | 4634009 Average input read length | 92 UNIQUE READS: Uniquely mapped reads number | 2566772 Uniquely mapped reads % | 55.39% Average mapped length | 91.92 Number of splices: Total | 153495 Number of splices: Annotated (sjdb) | 128374 Number of splices: GT/AG | 147192 Number of splices: GC/AG | 3084 Number of splices: AT/AC | 109 Number of splices: Non-canonical | 3110 Mismatch rate per base, % | 0.48% Deletion rate per base | 0.04% Deletion average length | 1.80 Insertion rate per base | 0.02% Insertion average length | 1.84 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 1947731 % of reads mapped to multiple loci | 42.03% Number of reads mapped to too many loci | 58207 % of reads mapped to too many loci | 1.26% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.23% % of reads unmapped: other | 0.10% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 119506 119506 119506 N_multimapping 1947731 1947731 1947731 N_noFeature 198432 223889 2451006 N_ambiguous 103197 12861 329 UnstrandedReadsAssigned:2265143 PositiveStrandReadsAssigned:2330022 NegativeStrandReadsAssigned:115437 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133470 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: ERR6133470-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 4,634,009 reads, 3,270,157 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,051 rounds 52973 ERR6133470.ke.tsv 35125 ERR6133470.se.tsv 88098 total ==> ERR6133470.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 96 27.76 PNS24243 293 194 0 0 KQK14069 1603 1504 10 2.63788 KQK14071 474 375 0 0 ==> ERR6133470.se.tsv <== BRADI_1g14170v3 10 BRADI_1g53295v3 27 BRADI_1g59795v3 31 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 22 BRADI_1g74790v3 28 BRADI_1g09890v3 0 BRADI_1g77505v3 70 BRADI_1g48960v3 0 ERR6133470 completed mapping pipeline successfully