Starting /dee2/code/volunteer_pipeline.sh ERR6133536 current disk space = 1544521830400 free memory = 1601244608 ERR6133536 SRAfilesize b3a3dd2017eb9c0c3ba686132e511b5b ERR6133536.sra ERR6133536.sra file validated ERR6133536 is single end ERR6133536 is conventional basespace ERR6133536 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133536_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 33.8435 37.0 33.0 37.0 27.0 37.0 2 35.9295 37.0 37.0 37.0 33.0 37.0 3 35.307 37.0 33.0 37.0 33.0 37.0 4 35.4725 37.0 37.0 37.0 33.0 37.0 5 35.44425 37.0 37.0 37.0 33.0 37.0 6 35.7205 37.0 37.0 37.0 33.0 37.0 7 37.6275 40.0 37.0 40.0 33.0 40.0 8 37.62025 40.0 37.0 40.0 33.0 40.0 9 37.732 40.0 37.0 40.0 33.0 40.0 10-11 37.662625 40.0 37.0 40.0 33.0 40.0 12-13 37.55375 40.0 37.0 40.0 33.0 40.0 14-15 37.584 40.0 37.0 40.0 33.0 40.0 16-17 37.435375 38.5 37.0 40.0 33.0 40.0 18-19 37.35575 38.5 37.0 40.0 33.0 40.0 20-21 37.266125 37.0 37.0 40.0 33.0 40.0 22-23 37.166250000000005 37.0 37.0 40.0 33.0 40.0 24-25 37.256875 37.0 37.0 40.0 33.0 40.0 26-27 37.36825 37.0 37.0 40.0 33.0 40.0 28-29 37.237375 37.0 37.0 40.0 33.0 40.0 30-31 37.137875 37.0 37.0 40.0 33.0 40.0 32-33 37.00775 37.0 37.0 40.0 33.0 40.0 34-35 36.871750000000006 37.0 37.0 40.0 33.0 40.0 36-37 36.684625 37.0 37.0 40.0 33.0 40.0 38-39 36.616125 37.0 37.0 40.0 33.0 40.0 40-41 36.391375 37.0 37.0 40.0 33.0 40.0 42-43 36.293 37.0 37.0 40.0 33.0 40.0 44-45 35.999624999999995 37.0 35.0 40.0 33.0 40.0 46-47 35.729749999999996 37.0 35.0 38.5 33.0 40.0 48-49 35.748625000000004 37.0 37.0 37.0 33.0 40.0 50-51 35.568875 37.0 33.0 37.0 33.0 40.0 52-53 35.30575 37.0 33.0 37.0 33.0 40.0 54-55 35.266875 37.0 33.0 37.0 33.0 40.0 56-57 35.062375 37.0 33.0 37.0 33.0 40.0 58-59 34.354875 37.0 33.0 37.0 27.0 37.0 60-61 34.624875 37.0 33.0 37.0 27.0 37.0 62-63 34.557500000000005 37.0 33.0 37.0 27.0 37.0 64-65 34.626 37.0 33.0 37.0 30.0 37.0 66-67 34.6005 37.0 33.0 37.0 33.0 37.0 68-69 33.8075 35.0 33.0 37.0 30.0 37.0 70-71 33.85828440940941 35.0 33.0 37.0 27.0 37.0 72-73 34.16144555219543 37.0 33.0 37.0 27.0 37.0 74-75 34.18028110902352 37.0 33.0 37.0 27.0 37.0 76-77 34.12972173316009 37.0 33.0 37.0 27.0 37.0 78-79 34.13325157066485 37.0 33.0 37.0 27.0 37.0 80-81 34.115346207269866 37.0 33.0 37.0 27.0 37.0 82-83 34.05120446052376 37.0 33.0 37.0 27.0 37.0 84-85 34.071812980033826 37.0 33.0 37.0 27.0 37.0 86-87 33.9052229299363 37.0 33.0 37.0 27.0 37.0 88-89 33.984458598726114 37.0 33.0 37.0 27.0 37.0 90-91 33.770828025477705 37.0 33.0 37.0 27.0 37.0 92-93 33.716178343949046 37.0 33.0 37.0 27.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 13.0 21 13.0 22 15.0 23 23.0 24 25.0 25 32.0 26 45.0 27 43.0 28 57.0 29 70.0 30 63.0 31 104.0 32 127.0 33 137.0 34 215.0 35 413.0 36 854.0 37 990.0 38 751.0 39 10.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 83.525 3.5999999999999996 5.575 7.3 2 65.05 20.25 9.525 5.175 3 32.4 37.05 15.875 14.674999999999999 4 30.65 28.225 18.375 22.75 5 25.825 27.6 28.625 17.95 6 16.775000000000002 41.325 25.275 16.625 7 37.2 29.025000000000002 18.55 15.225 8 27.3 29.575000000000003 22.95 20.175 9 23.3 32.0 25.1 19.6 10-11 21.875 29.25 29.275000000000002 19.6 12-13 24.9 26.924999999999997 25.087500000000002 23.0875 14-15 22.537499999999998 34.3125 26.325 16.825000000000003 16-17 25.374999999999996 30.049999999999997 23.724999999999998 20.849999999999998 18-19 23.625 27.650000000000002 29.1125 19.6125 20-21 25.8125 25.2625 29.1125 19.8125 22-23 29.4375 22.3125 27.450000000000003 20.8 24-25 24.875 25.525 28.375 21.224999999999998 26-27 26.275 24.6125 30.325000000000003 18.787499999999998 28-29 24.425 27.962500000000002 28.225 19.3875 30-31 30.0875 25.25 25.924999999999997 18.7375 32-33 25.887500000000003 26.1125 26.950000000000003 21.05 34-35 23.02590414215993 30.872231260167688 24.802903266174447 21.298961331497935 36-37 25.678209776222026 25.95324415551944 25.490686335791974 22.877859732466558 38-39 29.125 22.7 30.4 17.775 40-41 25.581686264698522 24.993745308981737 28.5839379534651 20.84063047285464 42-43 27.68248403655941 29.77338174533617 23.888819331413547 18.65531488669087 44-45 24.568426319739807 25.65674255691769 30.297723292469353 19.477107830873155 46-47 25.687500000000004 23.1375 27.35 23.825 48-49 24.21552694086761 24.090511313914238 30.12876609576197 21.565195649456182 50-51 21.462500000000002 28.8875 28.287499999999998 21.3625 52-53 25.04378283712785 25.856892669502123 24.630973229922443 24.468351263447584 54-55 24.337500000000002 27.0875 29.562500000000004 19.0125 56-57 28.799999999999997 26.85 25.224999999999998 19.125 58-59 23.275000000000002 24.325 32.087500000000006 20.3125 60-61 28.775000000000002 25.137500000000003 28.787499999999998 17.299999999999997 62-63 19.412499999999998 29.3375 32.7125 18.5375 64-65 20.424999999999997 33.137499999999996 27.975 18.462500000000002 66-67 24.0125 31.424999999999997 26.5875 17.974999999999998 68-69 21.337500000000002 25.9625 27.8375 24.8625 70-71 24.024512256128062 27.66383191595798 26.338169084542272 21.973486743371687 72-73 27.06192028077212 24.07871647029331 28.34043619954876 20.51892704938581 74-75 24.22414876240734 29.564015579846714 27.855258198266114 18.356577459479833 76-77 20.690089409394282 25.374637954917517 26.785039667548165 27.15023296814003 78-79 25.784894716933554 26.11272222922708 29.290127348379773 18.812255705459588 80-81 22.145022738756946 32.882769075290554 28.625568468923703 16.3466397170288 82-83 23.381887270424322 24.23052564914503 28.89170360987967 23.495883470550982 84-85 22.8117048346056 22.862595419847327 33.346055979643765 20.979643765903308 86-87 21.554140127388536 28.114649681528665 28.267515923566876 22.063694267515924 88-89 19.146496815286625 30.547770700636946 29.8343949044586 20.471337579617835 90-91 27.477707006369428 26.254777070063696 28.3312101910828 17.936305732484076 92-93 20.089171974522294 30.11464968152866 29.17197452229299 20.62420382165605 >>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 13.0 18 14.5 19 2.0 20 1.5 21 4.5 22 6.5 23 5.5 24 3.5 25 5.0 26 13.0 27 17.5 28 22.5 29 28.5 30 28.0 31 36.0 32 46.0 33 54.0 34 65.5 35 72.5 36 95.0 37 145.5 38 204.5 39 190.0 40 169.0 41 185.5 42 206.0 43 232.5 44 199.5 45 155.0 46 163.0 47 165.5 48 140.0 49 136.5 50 181.0 51 205.5 52 166.0 53 171.5 54 227.0 55 165.5 56 65.0 57 51.0 58 43.5 59 32.0 60 29.0 61 29.0 62 24.5 63 20.5 64 17.0 65 16.5 66 13.0 67 10.5 68 12.5 69 7.0 70 2.5 71 2.0 72 2.5 73 2.5 74 1.5 75 1.0 76 1.0 77 0.5 78 0.0 79 0.0 80 0.5 81 0.5 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 0.11249999999999999 36-37 0.0125 38-39 0.0 40-41 0.075 42-43 0.1625 44-45 0.075 46-47 0.0 48-49 0.0125 50-51 0.0 52-53 0.075 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 4.0 71 6.0 72 2.0 73 7.0 74 3.0 75 6.0 76 3.0 77 2.0 78 3.0 79 4.0 80 4.0 81 5.0 82 7.0 83 9.0 84 10.0 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 3925.0 >>END_MODULE >>Sequence Duplication Levels warn #Total Deduplicated Percentage 66.60000000000001 #Duplication Level Percentage of deduplicated Percentage of total 1 91.5915915915916 61.0 2 4.2042042042042045 5.6000000000000005 3 1.0510510510510511 2.1 4 0.8258258258258258 2.1999999999999997 5 0.487987987987988 1.625 6 0.18768768768768768 0.75 7 0.3003003003003003 1.4000000000000001 8 0.2627627627627628 1.4000000000000001 9 0.11261261261261261 0.675 >10 0.8258258258258258 12.0 >50 0.11261261261261261 6.4750000000000005 >100 0.03753753753753754 4.775 >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 191 4.775 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 96 2.4 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 90 2.25 No Hit GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 73 1.825 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 48 1.2 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 45 1.125 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 43 1.075 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 38 0.95 No Hit GTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAA 30 0.75 No Hit GGCCTGTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCG 27 0.675 No Hit GGAGTATCCTTGATATATAAATATATAGATAAATAGATTTAAATGGAAAA 24 0.6 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 21 0.525 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 20 0.5 No Hit CAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTC 18 0.44999999999999996 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 17 0.42500000000000004 No Hit GGGAGTATTATGAAAGGAGATTAATCATAGATTATCAAAAACCCTAGAAA 17 0.42500000000000004 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 16 0.4 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 16 0.4 No Hit CAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCT 16 0.4 No Hit GTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCT 15 0.375 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 14 0.35000000000000003 No Hit GGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAA 13 0.325 No Hit GGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACT 11 0.27499999999999997 No Hit CAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTG 11 0.27499999999999997 No Hit GGTGGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGC 10 0.25 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 10 0.25 No Hit GAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAAT 9 0.22499999999999998 No Hit GTACAAGCTCGTAACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAAT 9 0.22499999999999998 No Hit TCAAAAGAGGAAAGGCTTGCGGTGGATACCTAGGCACCCAGAGACGAGGA 9 0.22499999999999998 No Hit GAAGGAACAAACGAGGATAAGATAAAATTTCTTTAAATTTATTTTGCCCA 8 0.2 No Hit GGTGGGGCAATGGGCATTCCGTTGAGTTTGTATGGTGGGTGCTGTTTTGC 8 0.2 No Hit GGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGT 8 0.2 No Hit GTACTATGGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTT 8 0.2 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 8 0.2 No Hit GTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAG 8 0.2 No Hit GGTTTTGAAAAGGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAA 8 0.2 No Hit GGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCTAAATGGATTC 7 0.17500000000000002 No Hit GGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTC 7 0.17500000000000002 No Hit GCAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATC 7 0.17500000000000002 No Hit CAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGATAT 7 0.17500000000000002 No Hit GGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAA 7 0.17500000000000002 No Hit GGGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACG 7 0.17500000000000002 No Hit GGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTT 7 0.17500000000000002 No Hit GGAGTCCCATATATATATGTATAAGATGCCAGCCCGGTTTCGTCAACCAT 7 0.17500000000000002 No Hit GGTATTAGTACTATGGCGTTCAACCTAAATGGATTCAATTTCAACCAATC 6 0.15 No Hit GGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACGAGCCGT 6 0.15 No Hit GTATGGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGATTA 6 0.15 No Hit GGAAGAGCCCGAGCTGCTGCAGCAGGTTTTGAAAAGGGAATCGATCGTGA 6 0.15 No Hit TCTGTTGGAGTCCCATATATATATGTATAAGATGCCAGCCCGGTTTCGTC 6 0.15 No Hit GAAAAAAAAGACTTCGATTCATTTTCTATTTATTTCGTTAGTTTTTCTTA 5 0.125 No Hit GGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCG 5 0.125 No Hit GGAAAGGCTTGCGGTGGATACCTAGGCACCCAGAGACGAGGAAGGGCGTA 5 0.125 No Hit GGGTCGAAATATGGCTTTCAAATTAAGTTCCGAATTAGTAGATGCTGCCA 5 0.125 No Hit GGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTA 5 0.125 No Hit GATACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGC 5 0.125 No Hit GGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCTAAA 5 0.125 No Hit AGTCAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAA 5 0.125 No Hit GGGCCATTCACAGACACACACAACTACACAAGAGCTCTCAGCTGCTGCCC 5 0.125 No Hit GGAATAAGAATAAATCGCAACTCCTTTCCACTACACATAAAAATTGATTT 5 0.125 No Hit GGGTCGATGCCCGAGCGGTTAATGGGGACGGACTGTAAATTCGTTGACAA 5 0.125 No Hit GGGCCATTTGTGGCATGCAGGAAGAGCCCGAGCTGCTGCAGCAGGTTTTG 5 0.125 No Hit GCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGT 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 0.025 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 0.025 0.0 0.0 0.0 0.0 54-55 0.025 0.0 0.0 0.0 0.0 56-57 0.025 0.0 0.0 0.0 0.0 58-59 0.025 0.0 0.0 0.0 0.0 60-61 0.025 0.0 0.0 0.0 0.0 62-63 0.025 0.0 0.0 0.0 0.0 64-65 0.025 0.0 0.0 0.0 0.0 66-67 0.025 0.0 0.0 0.0 0.0 68-69 0.025 0.0 0.0 0.0 0.0 70-71 0.025 0.0 0.0 0.0 0.0 72-73 0.025 0.0 0.0 0.0 0.0 74-75 0.025 0.0 0.0 0.0 0.0 76-77 0.025 0.0 0.0 0.0 0.0 78-79 0.025 0.0 0.0 0.0 0.0 80-81 0.025 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Rejected 262977 READS because READLEN < 1 Read 262977 spots for ERR6133536.sra Written 262977 spots for ERR6133536.sra Rejected 262977 READS because READLEN < 1 Read 262977 spots for ERR6133536.sra Written 262977 spots for ERR6133536.sra Rejected 262977 READS because READLEN < 1 Read 262977 spots for ERR6133536.sra Written 262977 spots for ERR6133536.sra Rejected 262977 READS because READLEN < 1 Read 262977 spots for ERR6133536.sra Written 262977 spots for ERR6133536.sra Rejected 262977 READS because READLEN < 1 Read 262977 spots for ERR6133536.sra Written 262977 spots for ERR6133536.sra Rejected 262977 READS because READLEN < 1 Read 262977 spots for ERR6133536.sra Written 262977 spots for ERR6133536.sra Rejected 262977 READS because READLEN < 1 Read 262977 spots for ERR6133536.sra Written 262977 spots for ERR6133536.sra Rejected 262977 READS because READLEN < 1 Read 262977 spots for ERR6133536.sra Written 262977 spots for ERR6133536.sra Rejected 262977 READS because READLEN < 1 Read 262977 spots for ERR6133536.sra Written 262977 spots for ERR6133536.sra Rejected 262977 READS because READLEN < 1 Read 262977 spots for ERR6133536.sra Written 262977 spots for ERR6133536.sra Rejected 262977 READS because READLEN < 1 Read 262977 spots for ERR6133536.sra Written 262977 spots for ERR6133536.sra Rejected 262977 READS because READLEN < 1 Read 262977 spots for ERR6133536.sra Written 262977 spots for ERR6133536.sra Rejected 262977 READS because READLEN < 1 Read 262977 spots for ERR6133536.sra Written 262977 spots for ERR6133536.sra Rejected 262987 READS because READLEN < 1 Read 262987 spots for ERR6133536.sra Written 262987 spots for ERR6133536.sra Rejected 262977 READS because READLEN < 1 Read 262977 spots for ERR6133536.sra Written 262977 spots for ERR6133536.sra Rejected 262977 READS because READLEN < 1 Read 262977 spots for ERR6133536.sra Written 262977 spots for ERR6133536.sra Rejected 262977 READS because READLEN < 1 Read 262977 spots for ERR6133536.sra Written 262977 spots for ERR6133536.sra Rejected 262977 READS because READLEN < 1 Read 262977 spots for ERR6133536.sra Written 262977 spots for ERR6133536.sra Rejected 262977 READS because READLEN < 1 Read 262977 spots for ERR6133536.sra Written 262977 spots for ERR6133536.sra Rejected 262977 READS because READLEN < 1 Read 262977 spots for ERR6133536.sra Written 262977 spots for ERR6133536.sra SRR ids: ['ERR6133536.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_yhfop7nj ERR6133536.sra spots: 5259550 blocks: [[1, 262977], [262978, 525954], [525955, 788931], [788932, 1051908], [1051909, 1314885], [1314886, 1577862], [1577863, 1840839], [1840840, 2103816], [2103817, 2366793], [2366794, 2629770], [2629771, 2892747], [2892748, 3155724], [3155725, 3418701], [3418702, 3681678], [3681679, 3944655], [3944656, 4207632], [4207633, 4470609], [4470610, 4733586], [4733587, 4996563], [4996564, 5259550]] ERR6133536 file size 1166184 ERR6133536 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 ERR6133536 ERR6133536_1.fastq Input file: ERR6133536_1.fastq trimmed: ERR6133536-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 08:10:10 2024 >> started Sat Dec 7 08:10:13 2024 >> done (2.818s) 5259550 reads processed; of these: 56 ( 0.00%) short reads filtered out after trimming by size control 13 ( 0.00%) empty reads filtered out after trimming by size control 5259481 (100.00%) reads available; of these: 92480 ( 1.76%) trimmed reads available after processing 5167001 (98.24%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 5 0.00% 19 7 0.00% 20 5 0.00% 21 4 0.00% 22 5 0.00% 23 1 0.00% 24 3 0.00% 25 1 0.00% 26 7 0.00% 27 1 0.00% 28 8 0.00% 29 34 0.00% 30 9 0.00% 31 6 0.00% 32 9 0.00% 33 10 0.00% 34 16 0.00% 35 65 0.00% 36 667 0.01% 37 12 0.00% 38 14 0.00% 39 20 0.00% 40 14 0.00% 41 12 0.00% 42 5 0.00% 43 6 0.00% 44 8 0.00% 45 4 0.00% 46 6 0.00% 47 5 0.00% 48 9 0.00% 49 6 0.00% 50 8 0.00% 51 11 0.00% 52 8 0.00% 53 4 0.00% 54 8 0.00% 55 8 0.00% 56 4 0.00% 57 4 0.00% 58 7 0.00% 59 9 0.00% 60 9 0.00% 61 4 0.00% 62 4 0.00% 63 2 0.00% 64 3 0.00% 65 2 0.00% 66 13 0.00% 67 14 0.00% 68 19 0.00% 69 64 0.00% 70 5590 0.11% 71 5078 0.10% 72 5543 0.11% 73 4922 0.09% 74 5299 0.10% 75 5309 0.10% 76 4702 0.09% 77 4887 0.09% 78 6078 0.12% 79 6893 0.13% 80 6359 0.12% 81 7013 0.13% 82 7691 0.15% 83 8653 0.16% 84 6615 0.13% 85 171 0.00% 86 400 0.01% 87 789 0.02% 88 1300 0.02% 89 2453 0.05% 90 5340 0.10% 91 15534 0.30% 92 63840 1.21% 93 5077833 96.55% 5259481 reads passed initial QC criterion=sequence-density sequence-density=0.32 sequence-density-rank=1 fanout-score=2.39 fanout-score-rank=26 prefix-density=0.36 prefix-fanout=2.1 sequence=TGTACATTTGAA criterion=fanout-score sequence-density=0.01 sequence-density-rank=39 fanout-score=27.61 fanout-score-rank=1 prefix-density=0.04 prefix-fanout=4.3 sequence=GAGAGGAGGGGTTAGATAGTTTCGATCTGCAAGGGGGTGGGGCAATGGGCATTCCGTTGAGTTTGTATGGTGGGTGCTGTTTTGCAGAAGCTGTATGCTTATGAGCAGCTATGGTACTTATCGAGGACAGTAGCGTACTTGAGGTGTTGTATTTTTATTTATTT Started job on | Dec 07 08:10:26 Started mapping on | Dec 07 08:10:26 Finished on | Dec 07 08:10:37 Mapping speed, Million of reads per hour | 1721.28 Number of input reads | 5259481 Average input read length | 92 UNIQUE READS: Uniquely mapped reads number | 2779329 Uniquely mapped reads % | 52.84% Average mapped length | 92.21 Number of splices: Total | 136901 Number of splices: Annotated (sjdb) | 109523 Number of splices: GT/AG | 130194 Number of splices: GC/AG | 2927 Number of splices: AT/AC | 197 Number of splices: Non-canonical | 3583 Mismatch rate per base, % | 0.51% Deletion rate per base | 0.06% Deletion average length | 1.81 Insertion rate per base | 0.03% Insertion average length | 1.86 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 2384543 % of reads mapped to multiple loci | 45.34% Number of reads mapped to too many loci | 20148 % of reads mapped to too many loci | 0.38% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.41% % of reads unmapped: other | 0.03% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 95609 95609 95609 N_multimapping 2384543 2384543 2384543 N_noFeature 209755 236570 2660301 N_ambiguous 105521 13179 591 UnstrandedReadsAssigned:2464053 PositiveStrandReadsAssigned:2529580 NegativeStrandReadsAssigned:118437 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133536 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: ERR6133536-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 5,259,481 reads, 4,131,403 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 988 rounds 52973 ERR6133536.ke.tsv 35125 ERR6133536.se.tsv 88098 total ==> ERR6133536.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 99 22.6031 PNS24243 293 194 0 0 KQK14069 1603 1504 106 22.0772 KQK14071 474 375 0 0 ==> ERR6133536.se.tsv <== BRADI_1g14170v3 106 BRADI_1g53295v3 29 BRADI_1g59795v3 13 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 17 BRADI_1g74790v3 27 BRADI_1g09890v3 0 BRADI_1g77505v3 54 BRADI_1g48960v3 0 ERR6133536 completed mapping pipeline successfully