Starting /dee2/code/volunteer_pipeline.sh ERR6133428 current disk space = 1545967202304 free memory = 1604593536 ERR6133428 SRAfilesize cd68f4745567160ccde143c729d20667 ERR6133428.sra ERR6133428.sra file validated ERR6133428 is single end ERR6133428 is conventional basespace ERR6133428 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133428_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 35.41175 37.0 33.0 37.0 33.0 37.0 2 36.34725 37.0 37.0 37.0 33.0 37.0 3 35.95775 37.0 37.0 37.0 33.0 37.0 4 35.57 37.0 37.0 37.0 33.0 37.0 5 35.4155 37.0 37.0 37.0 33.0 37.0 6 35.65975 37.0 37.0 37.0 33.0 37.0 7 37.6085 40.0 37.0 40.0 33.0 40.0 8 37.65275 40.0 37.0 40.0 33.0 40.0 9 37.75775 40.0 37.0 40.0 33.0 40.0 10-11 37.704125000000005 40.0 37.0 40.0 33.0 40.0 12-13 37.543499999999995 40.0 37.0 40.0 33.0 40.0 14-15 37.530874999999995 40.0 37.0 40.0 33.0 40.0 16-17 37.381375 38.5 37.0 40.0 33.0 40.0 18-19 37.344125 38.5 37.0 40.0 33.0 40.0 20-21 37.24875 37.0 37.0 40.0 33.0 40.0 22-23 37.291125 37.0 37.0 40.0 33.0 40.0 24-25 37.3255 38.5 37.0 40.0 33.0 40.0 26-27 37.283 40.0 37.0 40.0 33.0 40.0 28-29 37.3285 37.0 37.0 40.0 33.0 40.0 30-31 37.1485 37.0 37.0 40.0 33.0 40.0 32-33 36.966499999999996 37.0 37.0 40.0 33.0 40.0 34-35 36.98350000000001 37.0 37.0 40.0 33.0 40.0 36-37 36.825125 37.0 37.0 40.0 33.0 40.0 38-39 36.577125 37.0 37.0 40.0 33.0 40.0 40-41 36.292625 37.0 37.0 40.0 33.0 40.0 42-43 36.198375 37.0 37.0 40.0 33.0 40.0 44-45 35.888875 37.0 35.0 40.0 33.0 40.0 46-47 35.47975 37.0 33.0 37.0 30.0 40.0 48-49 35.426 37.0 33.0 37.0 27.0 40.0 50-51 35.478375 37.0 33.0 37.0 33.0 40.0 52-53 35.047625 37.0 33.0 37.0 27.0 40.0 54-55 35.012125 37.0 33.0 37.0 30.0 40.0 56-57 34.678875000000005 37.0 33.0 37.0 27.0 40.0 58-59 33.462 35.0 33.0 37.0 27.0 37.0 60-61 34.15275 37.0 33.0 37.0 27.0 37.0 62-63 34.276624999999996 37.0 33.0 37.0 27.0 37.0 64-65 34.15175 37.0 33.0 37.0 27.0 37.0 66-67 34.182500000000005 37.0 33.0 37.0 27.0 37.0 68-69 33.483875 35.0 33.0 37.0 27.0 37.0 70-71 33.57594889779559 35.0 33.0 37.0 27.0 37.0 72-73 33.90545970209345 37.0 33.0 37.0 27.0 37.0 74-75 33.61734563373689 37.0 33.0 37.0 27.0 37.0 76-77 33.80335032045018 37.0 33.0 37.0 27.0 37.0 78-79 33.873713543089394 37.0 33.0 37.0 27.0 37.0 80-81 33.69295578319502 37.0 33.0 37.0 27.0 37.0 82-83 33.64418100566016 37.0 33.0 37.0 27.0 37.0 84-85 33.58120206894571 37.0 33.0 37.0 27.0 37.0 86-87 33.45474993384494 37.0 33.0 37.0 27.0 37.0 88-89 33.621460703889916 37.0 33.0 37.0 27.0 37.0 90-91 33.364514421804714 37.0 33.0 37.0 27.0 37.0 92-93 33.17769251124636 35.0 33.0 37.0 27.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 6.0 21 18.0 22 20.0 23 14.0 24 33.0 25 39.0 26 44.0 27 51.0 28 58.0 29 62.0 30 95.0 31 106.0 32 142.0 33 173.0 34 218.0 35 413.0 36 822.0 37 979.0 38 688.0 39 19.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 82.125 4.324999999999999 4.625 8.924999999999999 2 61.5 21.5 10.35 6.65 3 31.65 39.125 16.1 13.125 4 32.800000000000004 27.575 19.575 20.05 5 26.05 27.625 28.125 18.2 6 19.85 36.625 26.025 17.5 7 33.074999999999996 29.65 21.2 16.075 8 27.750000000000004 29.875 23.95 18.425 9 23.125 28.849999999999998 28.525 19.5 10-11 23.1 28.299999999999997 28.975 19.625 12-13 25.025 28.1625 26.950000000000003 19.8625 14-15 21.175 30.2625 29.062500000000004 19.5 16-17 25.324999999999996 29.512500000000003 24.55 20.6125 18-19 23.6125 26.7125 27.987499999999997 21.6875 20-21 25.387500000000003 26.325 28.8875 19.400000000000002 22-23 28.349999999999998 22.475 28.287499999999998 20.8875 24-25 25.078134766845857 26.553319164895612 27.82847855981998 20.540067508438558 26-27 25.087500000000002 25.525 30.875000000000004 18.512500000000003 28-29 24.85 27.737499999999997 27.9125 19.5 30-31 26.637499999999996 26.375 27.325 19.662499999999998 32-33 24.025 27.075 27.875 21.025 34-35 23.825 28.4125 27.487499999999997 20.275000000000002 36-37 25.5375 24.9125 27.1 22.45 38-39 26.62077596996245 24.6558197747184 30.48811013767209 18.235294117647058 40-41 25.237975951903806 26.002004008016034 27.029058116232463 21.730961923847694 42-43 25.259472302113295 28.973365011879455 26.059772414655498 19.70739027135176 44-45 23.2375 26.737499999999997 30.062499999999996 19.9625 46-47 24.7375 24.775 27.3625 23.125 48-49 24.65 25.6125 28.875 20.8625 50-51 22.2125 27.275 28.812500000000004 21.7 52-53 25.087675350701407 26.903807615230463 26.415330661322646 21.59318637274549 54-55 23.6375 27.2625 30.025000000000002 19.075 56-57 26.5875 25.4375 28.4125 19.5625 58-59 23.2375 25.775 29.849999999999998 21.1375 60-61 26.0375 25.900000000000002 28.3125 19.75 62-63 20.849999999999998 29.912499999999998 31.75 17.4875 64-65 21.9625 30.049999999999997 28.525 19.4625 66-67 24.478059757469683 29.11613951743968 27.55344418052256 18.85235654456807 68-69 21.2 27.650000000000002 28.749999999999996 22.400000000000002 70-71 24.44944944944945 26.826826826826828 26.851851851851855 21.871871871871875 72-73 26.46467186321348 25.634900678903694 28.551672114659294 19.348755343223537 74-75 23.17905918057663 28.452200303490137 29.04653515427415 19.32220536165908 76-77 22.43622448979592 26.198979591836736 28.26530612244898 23.09948979591837 78-79 24.09933093154915 26.582604220277922 30.1080802882141 19.209984559958826 80-81 22.388253638253637 31.834719334719335 28.040540540540544 17.736486486486484 82-83 23.045698572737987 26.52874165248134 29.684431059316484 20.74112871546419 84-85 23.234323432343235 25.570957095709574 30.627062706270625 20.567656765676567 86-87 21.28870071447473 27.67928023286584 29.319925906324425 21.71209314633501 88-89 19.92590632442445 30.127017729558087 30.471024080444565 19.476051865572902 90-91 25.310928817147392 27.705742259857104 27.348504895474996 19.63482402752051 92-93 22.21487165916909 30.45779306694893 28.340830907647526 18.986504366234453 >>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 1.0 17 10.5 18 9.5 19 0.0 20 0.5 21 3.5 22 7.5 23 8.0 24 6.5 25 6.0 26 13.0 27 22.0 28 32.5 29 38.5 30 32.0 31 37.5 32 57.5 33 68.5 34 76.5 35 98.5 36 114.0 37 148.0 38 182.0 39 177.0 40 190.0 41 215.0 42 227.5 43 232.5 44 195.0 45 174.5 46 199.0 47 184.5 48 174.0 49 185.5 50 175.0 51 163.5 52 130.0 53 115.0 54 139.0 55 110.5 56 61.0 57 48.0 58 41.5 59 33.5 60 30.0 61 26.0 62 20.5 63 21.5 64 23.5 65 21.5 66 15.0 67 11.5 68 13.5 69 13.5 70 12.0 71 9.0 72 7.0 73 3.5 74 1.5 75 1.5 76 1.5 77 1.0 78 1.0 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 0.0 22-23 0.0 24-25 0.0125 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 0.125 40-41 0.2 42-43 0.0375 44-45 0.0 46-47 0.0 48-49 0.0 50-51 0.0 52-53 0.2 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 0.0125 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 0.0 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 8.0 71 10.0 72 10.0 73 11.0 74 14.0 75 20.0 76 14.0 77 16.0 78 22.0 79 19.0 80 16.0 81 13.0 82 17.0 83 14.0 84 17.0 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 3779.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 73.97500000000001 #Duplication Level Percentage of deduplicated Percentage of total 1 91.55119972963838 67.72500000000001 2 4.2244001351808045 6.25 3 1.5883744508279822 3.5249999999999995 4 0.5069280162216966 1.5 5 0.37174721189591076 1.375 6 0.33795201081446435 1.5 7 0.23656640757012504 1.225 8 0.23656640757012504 1.4000000000000001 9 0.03379520108144643 0.22499999999999998 >10 0.8448800270361609 11.95 >50 0.06759040216289286 3.325 >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 81 2.025 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 52 1.3 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 47 1.175 No Hit GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 35 0.8750000000000001 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 33 0.8250000000000001 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 30 0.75 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 30 0.75 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 28 0.7000000000000001 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 23 0.575 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 22 0.5499999999999999 No Hit GGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAA 20 0.5 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 20 0.5 No Hit GGAGTATCCTTGATATATAAATATATAGATAAATAGATTTAAATGGAAAA 19 0.475 No Hit GGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTC 16 0.4 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 16 0.4 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 15 0.375 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 14 0.35000000000000003 No Hit CAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCT 13 0.325 No Hit GGAGTCCCATATATATATGTATAAGATGCCAGCCCGGTTTCGTCAACCAT 12 0.3 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 12 0.3 No Hit GAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTG 11 0.27499999999999997 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 11 0.27499999999999997 No Hit CAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTC 11 0.27499999999999997 No Hit GGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAA 10 0.25 No Hit GGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTT 10 0.25 No Hit GAAGCCTGTGTACAAGCTCGTAACGAAGGGCGCGATCTTGCTCGTGAAGG 10 0.25 No Hit GGGAGTATTATGAAAGGAGATTAATCATAGATTATCAAAAACCCTAGAAA 10 0.25 No Hit GCAGCTTGCAAATGGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAA 9 0.22499999999999998 No Hit GGATACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATG 8 0.2 No Hit GGTGGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGC 8 0.2 No Hit GGGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACG 8 0.2 No Hit GGAAGAGCCCGAGCTGCTGCAGCAGGTTTTGAAAAGGGAATCGATCGTGA 8 0.2 No Hit GGCATATGCCAGCTCTGACCGAAATCTTTGGGGATGATTCTGTATTACAA 8 0.2 No Hit GGGGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCT 8 0.2 No Hit TCAAAAGAGGAAAGGCTTGCGGTGGATACCTAGGCACCCAGAGACGAGGA 8 0.2 No Hit GTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGCA 7 0.17500000000000002 No Hit GGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACGAGCCGT 7 0.17500000000000002 No Hit GTATGGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGATTA 7 0.17500000000000002 No Hit GTACAAGCTCGTAACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAAT 7 0.17500000000000002 No Hit CACGAACGTAATGCTCACAACTTCCCTCTAGATCTAGCTGCTCTTGAAGT 7 0.17500000000000002 No Hit GTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAG 7 0.17500000000000002 No Hit CAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTG 7 0.17500000000000002 No Hit GAAGGAACAAACGAGGATAAGATAAAATTTCTTTAAATTTATTTTGCCCA 6 0.15 No Hit GGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCG 6 0.15 No Hit CAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGATAT 6 0.15 No Hit GGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACGA 6 0.15 No Hit GGCCTGTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCG 6 0.15 No Hit GCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAACGA 6 0.15 No Hit GGATATCGTGTGTGTACATTTGAATGTACCGACATGGGCTCGAGGAGCAT 6 0.15 No Hit CAGCTTGTGAAGTATGGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGAT 6 0.15 No Hit AAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCC 6 0.15 No Hit CTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAACGAAGGGCGC 6 0.15 No Hit GGGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGT 5 0.125 No Hit GGCTTTAGAAGCCTGTGTACAAGCTCGTAACGAAGGGCGCGATCTTGCTC 5 0.125 No Hit GGGCTGCGAGGAATCCGGCAAGGCATAAACAACCAAGGACAGCTCCGTAT 5 0.125 No Hit GGGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCG 5 0.125 No Hit GTAACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCA 5 0.125 No Hit GTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAA 5 0.125 No Hit GGGAGGGGCTTGGCTACAATTCCGAATACGCTATTACATGTTTGCGCTAG 5 0.125 No Hit GAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAAT 5 0.125 No Hit GTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCT 5 0.125 No Hit GGGACGCATGCAACGACCATCTACATATAGCTACTCGATCTACCGCTACC 5 0.125 No Hit GGAAAAGAAAGCAAAAGCGATTCCCGTAGTAGCGGCGAGCGAAATGGGAG 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 0.025 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 0.0625 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 414872 READS because READLEN < 1 Read 414872 spots for ERR6133428.sra Written 414872 spots for ERR6133428.sra Rejected 414872 READS because READLEN < 1 Read 414872 spots for ERR6133428.sra Written 414872 spots for ERR6133428.sra Rejected 414872 READS because READLEN < 1 Read 414872 spots for ERR6133428.sra Written 414872 spots for ERR6133428.sra Rejected 414872 READS because READLEN < 1 Read 414872 spots for ERR6133428.sra Written 414872 spots for ERR6133428.sra Rejected 414872 READS because READLEN < 1 Read 414872 spots for ERR6133428.sra Written 414872 spots for ERR6133428.sra Rejected 414872 READS because READLEN < 1 Read 414872 spots for ERR6133428.sra Written 414872 spots for ERR6133428.sra Rejected 414872 READS because READLEN < 1 Read 414872 spots for ERR6133428.sra Written 414872 spots for ERR6133428.sra Rejected 414872 READS because READLEN < 1 Read 414872 spots for ERR6133428.sra Written 414872 spots for ERR6133428.sra Rejected 414872 READS because READLEN < 1 Read 414872 spots for ERR6133428.sra Written 414872 spots for ERR6133428.sra Rejected 414873 READS because READLEN < 1 Read 414873 spots for ERR6133428.sra Written 414873 spots for ERR6133428.sra Rejected 414872 READS because READLEN < 1 Read 414872 spots for ERR6133428.sra Written 414872 spots for ERR6133428.sra Rejected 414872 READS because READLEN < 1 Read 414872 spots for ERR6133428.sra Written 414872 spots for ERR6133428.sra Rejected 414872 READS because READLEN < 1 Read 414872 spots for ERR6133428.sra Written 414872 spots for ERR6133428.sra Rejected 414872 READS because READLEN < 1 Read 414872 spots for ERR6133428.sra Written 414872 spots for ERR6133428.sra Rejected 414872 READS because READLEN < 1 Read 414872 spots for ERR6133428.sra Written 414872 spots for ERR6133428.sra Rejected 414872 READS because READLEN < 1 Read 414872 spots for ERR6133428.sra Written 414872 spots for ERR6133428.sra Rejected 414872 READS because READLEN < 1 Read 414872 spots for ERR6133428.sra Written 414872 spots for ERR6133428.sra Rejected 414872 READS because READLEN < 1 Read 414872 spots for ERR6133428.sra Written 414872 spots for ERR6133428.sra Rejected 414872 READS because READLEN < 1 Read 414872 spots for ERR6133428.sra Written 414872 spots for ERR6133428.sra Rejected 414872 READS because READLEN < 1 Read 414872 spots for ERR6133428.sra Written 414872 spots for ERR6133428.sra SRR ids: ['ERR6133428.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_hiqf_heb ERR6133428.sra spots: 8297441 blocks: [[1, 414872], [414873, 829744], [829745, 1244616], [1244617, 1659488], [1659489, 2074360], [2074361, 2489232], [2489233, 2904104], [2904105, 3318976], [3318977, 3733848], [3733849, 4148720], [4148721, 4563592], [4563593, 4978464], [4978465, 5393336], [5393337, 5808208], [5808209, 6223080], [6223081, 6637952], [6637953, 7052824], [7052825, 7467696], [7467697, 7882568], [7882569, 8297441]] ERR6133428 file size 1830921 ERR6133428 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 ERR6133428 ERR6133428_1.fastq Input file: ERR6133428_1.fastq trimmed: ERR6133428-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 05:43:58 2024 >> started Sat Dec 7 05:44:02 2024 >> done (3.920s) 8297441 reads processed; of these: 319 ( 0.00%) short reads filtered out after trimming by size control 68 ( 0.00%) empty reads filtered out after trimming by size control 8297054 (100.00%) reads available; of these: 174969 ( 2.11%) trimmed reads available after processing 8122085 (97.89%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 74 0.00% 19 119 0.00% 20 45 0.00% 21 37 0.00% 22 45 0.00% 23 14 0.00% 24 23 0.00% 25 20 0.00% 26 16 0.00% 27 34 0.00% 28 59 0.00% 29 30 0.00% 30 30 0.00% 31 38 0.00% 32 54 0.00% 33 43 0.00% 34 62 0.00% 35 336 0.00% 36 1567 0.02% 37 57 0.00% 38 87 0.00% 39 193 0.00% 40 207 0.00% 41 79 0.00% 42 29 0.00% 43 52 0.00% 44 54 0.00% 45 45 0.00% 46 30 0.00% 47 29 0.00% 48 26 0.00% 49 26 0.00% 50 27 0.00% 51 162 0.00% 52 31 0.00% 53 17 0.00% 54 23 0.00% 55 20 0.00% 56 18 0.00% 57 31 0.00% 58 44 0.00% 59 24 0.00% 60 36 0.00% 61 40 0.00% 62 7 0.00% 63 8 0.00% 64 9 0.00% 65 13 0.00% 66 26 0.00% 67 46 0.00% 68 87 0.00% 69 351 0.00% 70 32511 0.39% 71 28295 0.34% 72 31789 0.38% 73 28087 0.34% 74 29057 0.35% 75 30172 0.36% 76 24726 0.30% 77 25448 0.31% 78 31443 0.38% 79 36779 0.44% 80 29876 0.36% 81 32301 0.39% 82 36822 0.44% 83 38717 0.47% 84 31959 0.39% 85 324 0.00% 86 609 0.01% 87 1066 0.01% 88 1909 0.02% 89 3584 0.04% 90 7988 0.10% 91 23604 0.28% 92 125941 1.52% 93 7659467 92.32% 8297054 reads passed initial QC criterion=sequence-density sequence-density=0.87 sequence-density-rank=1 fanout-score=2.23 fanout-score-rank=29 prefix-density=0.95 prefix-fanout=2.0 sequence=TGTACATTTGAACCCTGACTACACATATACACACATATACATGTAATATTATACAATCTGTCGAGTATGTGTTGGTTCATACTTA criterion=fanout-score sequence-density=0.01 sequence-density-rank=32 fanout-score=30.53 fanout-score-rank=1 prefix-density=0.06 prefix-fanout=4.1 sequence=GGAATATATGACCCATGCTCCTTTAGGCTCTTTAAATTCCGTGGGTGGCGTAGCTACCGAGATCAATGCAGTTAATTATGTCTCTCCTAGAAGTTGGTTATCGACTTCTCATTTTGTTCTAGGATTCTTCTTTTTTGTGGGCCATTTGTGGCATGCAGGAAGAGCCCGAGCTGCTGCAGCAGGTTTTGAAAAGGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACTAAGATTTTCTTATTTATACCTGTTCTACTTCTACTGTTTTTTTCTGCTCTGGCTCGGTTATTTCATTTAGCCGAGCCATTCATTCCTTTTTCTGAATGAAAGATAAGGGGACAGAATAA Started job on | Dec 07 05:54:21 Started mapping on | Dec 07 05:54:21 Finished on | Dec 07 06:02:09 Mapping speed, Million of reads per hour | 63.82 Number of input reads | 8297054 Average input read length | 92 UNIQUE READS: Uniquely mapped reads number | 4797923 Uniquely mapped reads % | 57.83% Average mapped length | 91.49 Number of splices: Total | 195227 Number of splices: Annotated (sjdb) | 159624 Number of splices: GT/AG | 186895 Number of splices: GC/AG | 3608 Number of splices: AT/AC | 269 Number of splices: Non-canonical | 4455 Mismatch rate per base, % | 0.42% Deletion rate per base | 0.04% Deletion average length | 1.76 Insertion rate per base | 0.02% Insertion average length | 1.86 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 3245157 % of reads mapped to multiple loci | 39.11% Number of reads mapped to too many loci | 110913 % of reads mapped to too many loci | 1.34% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.63% % of reads unmapped: other | 0.09% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 253974 253974 253974 N_multimapping 3245157 3245157 3245157 N_noFeature 385274 432432 4596370 N_ambiguous 182632 27970 1101 UnstrandedReadsAssigned:4230017 PositiveStrandReadsAssigned:4337521 NegativeStrandReadsAssigned:200452 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133428 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: ERR6133428-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 8,297,054 reads, 6,548,664 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,070 rounds 52973 ERR6133428.ke.tsv 35125 ERR6133428.se.tsv 88098 total ==> ERR6133428.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 65 9.59654 PNS24243 293 194 0 0 KQK14069 1603 1504 76 10.2358 KQK14071 474 375 0 0 ==> ERR6133428.se.tsv <== BRADI_1g14170v3 76 BRADI_1g53295v3 32 BRADI_1g59795v3 30 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 70 BRADI_1g74790v3 44 BRADI_1g09890v3 0 BRADI_1g77505v3 110 BRADI_1g48960v3 0 ERR6133428 completed mapping pipeline successfully