Starting /dee2/code/volunteer_pipeline.sh ERR6133363 current disk space = 1548199227392 free memory = 1595150056 ERR6133363 SRAfilesize 66cd1f4356672ff64396b3e91880bc41 ERR6133363.sra ERR6133363.sra file validated ERR6133363 is single end ERR6133363 is conventional basespace ERR6133363 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133363_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 36.4975 37.0 37.0 37.0 37.0 37.0 2 36.72675 37.0 37.0 37.0 37.0 37.0 3 36.71675 37.0 37.0 37.0 37.0 37.0 4 36.4265 37.0 37.0 37.0 37.0 37.0 5 36.42925 37.0 37.0 37.0 37.0 37.0 6 36.54575 37.0 37.0 37.0 37.0 37.0 7 38.7225 40.0 37.0 40.0 37.0 40.0 8 38.76075 40.0 37.0 40.0 37.0 40.0 9 38.77775 40.0 37.0 40.0 37.0 40.0 10-11 38.74 40.0 37.0 40.0 37.0 40.0 12-13 38.765125 40.0 37.0 40.0 37.0 40.0 14-15 38.77425 40.0 37.0 40.0 37.0 40.0 16-17 38.689625 40.0 37.0 40.0 37.0 40.0 18-19 38.629625 40.0 37.0 40.0 37.0 40.0 20-21 38.56725 40.0 37.0 40.0 37.0 40.0 22-23 38.51775 40.0 37.0 40.0 37.0 40.0 24-25 38.41075 40.0 37.0 40.0 37.0 40.0 26-27 38.424875 40.0 37.0 40.0 37.0 40.0 28-29 38.450874999999996 40.0 37.0 40.0 37.0 40.0 30-31 38.392875000000004 40.0 37.0 40.0 37.0 40.0 32-33 38.22 40.0 37.0 40.0 37.0 40.0 34-35 38.159 40.0 37.0 40.0 37.0 40.0 36-37 38.07225 40.0 37.0 40.0 37.0 40.0 38-39 38.1055 40.0 37.0 40.0 37.0 40.0 40-41 37.97775 40.0 37.0 40.0 37.0 40.0 42-43 37.89975 37.0 37.0 40.0 37.0 40.0 44-45 37.75375 37.0 37.0 40.0 37.0 40.0 46-47 37.54925 37.0 37.0 40.0 33.0 40.0 48-49 37.4045 37.0 37.0 40.0 33.0 40.0 50-51 37.25075 37.0 37.0 40.0 33.0 40.0 52-53 37.113 37.0 37.0 40.0 33.0 40.0 54-55 36.946375 37.0 37.0 37.0 33.0 40.0 56-57 36.798874999999995 37.0 37.0 37.0 33.0 40.0 58-59 36.614125 37.0 37.0 37.0 33.0 40.0 60-61 36.485749999999996 37.0 37.0 37.0 33.0 40.0 62-63 36.29625 37.0 37.0 37.0 33.0 37.0 64-65 36.206875 37.0 37.0 37.0 33.0 37.0 66-67 36.116 37.0 37.0 37.0 33.0 37.0 68-69 35.287499999999994 37.0 35.0 37.0 33.0 37.0 70-71 35.4242141959799 37.0 35.0 37.0 33.0 37.0 72-73 35.874297294216944 37.0 37.0 37.0 33.0 37.0 74-75 35.80268785963773 37.0 37.0 37.0 33.0 37.0 76-77 35.73914236236191 37.0 37.0 37.0 33.0 37.0 78-79 35.727643729198924 37.0 37.0 37.0 33.0 37.0 80-81 35.737607328230375 37.0 37.0 37.0 33.0 37.0 82-83 35.64591722990906 37.0 37.0 37.0 33.0 37.0 84-85 35.6343246921609 37.0 37.0 37.0 33.0 37.0 86-87 35.575097168239864 37.0 37.0 37.0 33.0 37.0 88-89 35.62284841754581 37.0 37.0 37.0 33.0 37.0 90-91 35.54497501388118 37.0 37.0 37.0 33.0 37.0 92-93 35.386035535813434 37.0 33.0 37.0 33.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 21 4.0 22 4.0 23 6.0 24 3.0 25 6.0 26 18.0 27 9.0 28 16.0 29 15.0 30 19.0 31 24.0 32 59.0 33 66.0 34 88.0 35 158.0 36 801.0 37 1121.0 38 1503.0 39 80.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 70.15 7.475 7.35 15.024999999999999 2 51.225 26.625 13.600000000000001 8.55 3 31.35 37.574999999999996 18.0 13.075000000000001 4 32.75 27.125 19.400000000000002 20.724999999999998 5 26.55 27.650000000000002 26.674999999999997 19.125 6 20.75 33.475 26.400000000000002 19.375 7 33.675 27.1 23.175 16.05 8 28.65 28.625 24.875 17.849999999999998 9 26.5 27.250000000000004 28.325 17.925 10-11 24.65 28.5625 27.800000000000004 18.987499999999997 12-13 25.5 26.787499999999998 29.225 18.4875 14-15 21.55 28.1 30.925000000000004 19.425 16-17 23.75 30.4375 24.962500000000002 20.849999999999998 18-19 23.95 25.1875 29.625 21.2375 20-21 26.7625 24.962500000000002 27.55 20.724999999999998 22-23 28.6875 24.099999999999998 27.05 20.1625 24-25 24.087500000000002 26.187500000000004 28.549999999999997 21.175 26-27 25.474999999999998 24.55 29.849999999999998 20.125 28-29 24.4125 27.0125 28.249999999999996 20.325 30-31 24.712500000000002 27.1 28.212500000000002 19.975 32-33 23.724999999999998 25.0625 30.925000000000004 20.2875 34-35 23.9375 28.575 27.187499999999996 20.3 36-37 23.2375 26.900000000000002 26.875 22.9875 38-39 26.137500000000003 25.2625 28.325 20.275000000000002 40-41 25.2875 25.55 27.487499999999997 21.675 42-43 24.7875 28.3875 27.787499999999998 19.037499999999998 44-45 22.3875 28.237499999999997 28.9875 20.3875 46-47 24.75 25.5375 28.175 21.5375 48-49 23.3625 25.9625 29.7 20.974999999999998 50-51 22.475 27.125 30.025000000000002 20.375 52-53 24.6125 27.825 27.6625 19.900000000000002 54-55 24.3125 28.225 27.487499999999997 19.975 56-57 23.9125 27.3875 28.6125 20.0875 58-59 24.575 27.175 27.762500000000003 20.4875 60-61 26.075 27.487499999999997 27.437499999999996 19.0 62-63 22.825 28.487499999999997 29.575000000000003 19.112499999999997 64-65 23.7125 29.9875 27.8625 18.4375 66-67 23.2125 29.125 27.5875 20.075000000000003 68-69 21.825 28.375 28.575 21.224999999999998 70-71 24.285714285714285 28.333333333333332 27.24310776942356 20.13784461152882 72-73 24.851171627612413 29.246358454718173 27.561747941735277 18.340721975934134 74-75 24.666495638789122 27.25756798358132 28.937916880451514 19.138019497178043 76-77 24.350986500519213 27.28452751817238 28.27102803738318 20.093457943925234 78-79 25.223566543924253 26.407154129405576 28.09047869542346 20.278800631246714 80-81 22.54967328977197 30.030670756100815 27.256967595679427 20.16268835844779 82-83 21.368449633450993 29.0931306000543 28.60439858810752 20.934021178387184 84-85 22.24675683135523 26.276566381451836 29.96135799061551 21.515318796577425 86-87 22.098833981121597 28.55358134369795 28.359244863964467 20.98833981121599 88-89 21.654636313159354 29.539144919489175 28.470294280955027 20.335924486396447 90-91 22.112715158245418 29.872293170460857 27.207107162687393 20.80788450860633 92-93 21.599111604664074 31.482509716823987 27.429205996668514 19.48917268184342 >>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 0.0 18 0.0 19 1.5 20 2.5 21 2.0 22 3.0 23 4.0 24 5.0 25 7.0 26 12.5 27 18.5 28 26.5 29 33.5 30 33.5 31 38.5 32 53.0 33 73.0 34 97.0 35 108.0 36 109.0 37 145.5 38 173.5 39 192.0 40 237.5 41 225.5 42 231.0 43 271.5 44 230.5 45 199.0 46 198.5 47 179.0 48 163.0 49 151.0 50 164.0 51 154.0 52 118.0 53 112.0 54 124.0 55 111.5 56 87.0 57 83.0 58 64.0 59 37.0 60 23.5 61 23.0 62 18.5 63 11.5 64 15.5 65 12.5 66 10.5 67 12.5 68 21.0 69 23.0 70 11.0 71 7.0 72 3.5 73 0.0 74 0.0 75 0.0 76 0.0 77 0.0 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 0.0 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 0.0 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 0.0 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 20.0 71 21.0 72 23.0 73 27.0 74 22.0 75 22.0 76 26.0 77 26.0 78 22.0 79 26.0 80 31.0 81 38.0 82 26.0 83 26.0 84 42.0 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 3602.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 76.05 #Duplication Level Percentage of deduplicated Percentage of total 1 91.19000657462196 69.35 2 4.076265614727153 6.2 3 1.7094017094017095 3.9 4 0.7232084155161078 2.1999999999999997 5 0.7560815253122946 2.875 6 0.19723865877712032 0.8999999999999999 7 0.19723865877712032 1.05 8 0.13149243918474687 0.8 9 0.23011176857330704 1.575 >10 0.7889546351084813 11.15 >50 0.0 0.0 >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 GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 49 1.225 No Hit GGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGC 40 1.0 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 35 0.8750000000000001 No Hit CAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCT 32 0.8 No Hit GGGCACGTGGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAA 24 0.6 No Hit CAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGATAT 24 0.6 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 21 0.525 No Hit GGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAA 20 0.5 No Hit GGGTGAGAGCCCCGTCCGGCCCGGACCCTGTCGCCCCACGAGGCGCCGTC 20 0.5 No Hit GGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTT 16 0.4 No Hit GGAAAAGAAAGCAAAAGCGATTCCCGTAGTAGCGGCGAGCGAAATGGGAG 15 0.375 No Hit GGGTTGTTTGGGAATGCAGCCCAAATCGGGCGGTAGACTCCGTCCAAGGC 14 0.35000000000000003 No Hit GGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAAATACTCCT 14 0.35000000000000003 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 14 0.35000000000000003 No Hit GGAAGGGCGTAGCAAGCGACGAAATGCTTCGGGGAGTTGAAAATAAGCAT 12 0.3 No Hit CAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTC 12 0.3 No Hit GGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAA 11 0.27499999999999997 No Hit GTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAA 11 0.27499999999999997 No Hit GGGGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCT 11 0.27499999999999997 No Hit CAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTG 11 0.27499999999999997 No Hit GAGGAAGGGCGTAGCAAGCGACGAAATGCTTCGGGGAGTTGAAAATAAGC 10 0.25 No Hit GGGAATGCAGCCCAAATCGGGCGGTAGACTCCGTCCAAGGCTAAATACAG 10 0.25 No Hit GTTGTTTGGGAATGCAGCCCAAATCGGGCGGTAGACTCCGTCCAAGGCTA 10 0.25 No Hit GGGGCACGTGGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTA 10 0.25 No Hit GTAACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCA 9 0.22499999999999998 No Hit GCAGCTTGCAAATGGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAA 9 0.22499999999999998 No Hit GGAGTACGGTAGGGGCAGAGGGAATTTCCGGTGGAGCGGTGAAATGCATT 9 0.22499999999999998 No Hit GAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTG 9 0.22499999999999998 No Hit CGAGGAAGGGCGTAGCAAGCGACGAAATGCTTCGGGGAGTTGAAAATAAG 9 0.22499999999999998 No Hit AACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGA 9 0.22499999999999998 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 9 0.22499999999999998 No Hit GGAGTTTGGCTGGGGCGGCACATCTGTTAAAAGATAACGCAGGTGTCCTA 8 0.2 No Hit GGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTC 8 0.2 No Hit AGTCAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAA 8 0.2 No Hit GTCAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAAT 8 0.2 No Hit GGAGGGTGAGAGCCCCGTCCGGCCCGGACCCTGTCGCCCCACGAGGCGCC 7 0.17500000000000002 No Hit GCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCT 7 0.17500000000000002 No Hit GGGAGGGTGAGAGCCCCGTCCGGCCCGGACCCTGTCGCCCCACGAGGCGC 7 0.17500000000000002 No Hit GGGCGGAAGACATTGTCAGGTGGGGAGTTTGGCTGGGGCGGCACATCTGT 7 0.17500000000000002 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 7 0.17500000000000002 No Hit GTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAG 7 0.17500000000000002 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 6 0.15 No Hit GTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGCA 6 0.15 No Hit GTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGGT 6 0.15 No Hit CAAATCGGGCGGTAGACTCCGTCCAAGGCTAAATACAGGCGAGAGACCGATAGCGAACAAGTACCGCGAGGG 6 0.15 No Hit GGACCCTGTCGCCCCACGAGGCGCCGTCAACGAGTCGGGTTGTTTGGGAA 6 0.15 No Hit GATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAG 6 0.15 No Hit GAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTTTAAACT 5 0.125 No Hit GCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGGTATG 5 0.125 No Hit GGGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTT 5 0.125 No Hit GCAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATC 5 0.125 No Hit GGGGCAGAGGGAATTTCCGGTGGAGCGGTGAAATGCATTGAGATCGGAAA 5 0.125 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 5 0.125 No Hit GTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAA 5 0.125 No Hit GGGAATTTCCGGTGGAGCGGTGAAATGCATTGAGATCGGAAAGAACACCA 5 0.125 No Hit CAACGAGTCGGGTTGTTTGGGAATGCAGCCCAAATCGGGCGGTAGACTCC 5 0.125 No Hit GGGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTT 5 0.125 No Hit GATAGTCAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGC 5 0.125 No Hit GCAGCTTGTGAAGTATGGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGA 5 0.125 No Hit GGGGTTGTGGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTG 5 0.125 No Hit GGCTAAAGTCCAGTAGCCGAAAGCATCACTAGCTTACGCTCTGACCCGAG 5 0.125 No Hit TCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGATATCAT 5 0.125 No Hit GTACAAGCTCGTAACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAAT 5 0.125 No Hit GGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACT 5 0.125 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 5 0.125 No Hit GGGACGCATGCAACGACCATCTACATATAGCTACTCGATCTACCGCTACC 5 0.125 No Hit AGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTG 5 0.125 No Hit GAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAAATACTCCTG 5 0.125 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 5 0.125 No Hit GAGTCGGGTTGTTTGGGAATGCAGCCCAAATCGGGCGGTAGACTCCGTCC 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 0.025 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 0.037500000000000006 0.0 0.0 0.0 0.0 72-73 0.05 0.0 0.0 0.0 0.0 74-75 0.05 0.0 0.0 0.0 0.0 76-77 0.05 0.0 0.0 0.0 0.0 78-79 0.05 0.0 0.0 0.0 0.0 80-81 0.05 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position GGAGCAG 15 9.0078975E-4 86.275 1 AAAAAAA 20 6.312702E-4 45.407894 86-87 >>END_MODULE Rejected 263972 READS because READLEN < 1 Read 263972 spots for ERR6133363.sra Written 263972 spots for ERR6133363.sra Rejected 263972 READS because READLEN < 1 Read 263972 spots for ERR6133363.sra Written 263972 spots for ERR6133363.sra Rejected 263972 READS because READLEN < 1 Read 263972 spots for ERR6133363.sra Written 263972 spots for ERR6133363.sra Rejected 263972 READS because READLEN < 1 Read 263972 spots for ERR6133363.sra Written 263972 spots for ERR6133363.sra Rejected 263972 READS because READLEN < 1 Read 263972 spots for ERR6133363.sra Written 263972 spots for ERR6133363.sra Rejected 263972 READS because READLEN < 1 Read 263972 spots for ERR6133363.sra Written 263972 spots for ERR6133363.sra Rejected 263972 READS because READLEN < 1 Read 263972 spots for ERR6133363.sra Written 263972 spots for ERR6133363.sra Rejected 263972 READS because READLEN < 1 Read 263972 spots for ERR6133363.sra Written 263972 spots for ERR6133363.sra Rejected 263972 READS because READLEN < 1 Read 263972 spots for ERR6133363.sra Written 263972 spots for ERR6133363.sra Rejected 263972 READS because READLEN < 1 Read 263972 spots for ERR6133363.sra Written 263972 spots for ERR6133363.sra Rejected 263972 READS because READLEN < 1 Read 263972 spots for ERR6133363.sra Written 263972 spots for ERR6133363.sra Rejected 263972 READS because READLEN < 1 Read 263972 spots for ERR6133363.sra Written 263972 spots for ERR6133363.sra Rejected 263972 READS because READLEN < 1 Read 263972 spots for ERR6133363.sra Written 263972 spots for ERR6133363.sra Rejected 263972 READS because READLEN < 1 Read 263972 spots for ERR6133363.sra Written 263972 spots for ERR6133363.sra Rejected 263972 READS because READLEN < 1 Read 263972 spots for ERR6133363.sra Written 263972 spots for ERR6133363.sra Rejected 263972 READS because READLEN < 1 Read 263972 spots for ERR6133363.sra Written 263972 spots for ERR6133363.sra Rejected 263972 READS because READLEN < 1 Read 263972 spots for ERR6133363.sra Written 263972 spots for ERR6133363.sra Rejected 263972 READS because READLEN < 1 Read 263972 spots for ERR6133363.sra Written 263972 spots for ERR6133363.sra Rejected 263972 READS because READLEN < 1 Read 263972 spots for ERR6133363.sra Written 263972 spots for ERR6133363.sra Rejected 263972 READS because READLEN < 1 Read 263972 spots for ERR6133363.sra Written 263972 spots for ERR6133363.sra SRR ids: ['ERR6133363.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_mz3chs5b ERR6133363.sra spots: 5279440 blocks: [[1, 263972], [263973, 527944], [527945, 791916], [791917, 1055888], [1055889, 1319860], [1319861, 1583832], [1583833, 1847804], [1847805, 2111776], [2111777, 2375748], [2375749, 2639720], [2639721, 2903692], [2903693, 3167664], [3167665, 3431636], [3431637, 3695608], [3695609, 3959580], [3959581, 4223552], [4223553, 4487524], [4487525, 4751496], [4751497, 5015468], [5015469, 5279440]] ERR6133363 file size 1157761 ERR6133363 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 ERR6133363 ERR6133363_1.fastq Input file: ERR6133363_1.fastq trimmed: ERR6133363-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 01:27:11 2024 >> started Sat Dec 7 01:27:14 2024 >> done (2.692s) 5279440 reads processed; of these: 505 ( 0.01%) short reads filtered out after trimming by size control 16 ( 0.00%) empty reads filtered out after trimming by size control 5278919 (99.99%) reads available; of these: 32012 ( 0.61%) trimmed reads available after processing 5246907 (99.39%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 46 0.00% 19 121 0.00% 20 61 0.00% 21 41 0.00% 22 61 0.00% 23 42 0.00% 24 36 0.00% 25 31 0.00% 26 43 0.00% 27 37 0.00% 28 56 0.00% 29 113 0.00% 30 44 0.00% 31 42 0.00% 32 148 0.00% 33 745 0.01% 34 40 0.00% 35 98 0.00% 36 30 0.00% 37 54 0.00% 38 108 0.00% 39 211 0.00% 40 373 0.01% 41 68 0.00% 42 34 0.00% 43 61 0.00% 44 80 0.00% 45 52 0.00% 46 21 0.00% 47 24 0.00% 48 33 0.00% 49 29 0.00% 50 51 0.00% 51 285 0.01% 52 61 0.00% 53 27 0.00% 54 29 0.00% 55 17 0.00% 56 31 0.00% 57 77 0.00% 58 40 0.00% 59 22 0.00% 60 56 0.00% 61 56 0.00% 62 23 0.00% 63 17 0.00% 64 18 0.00% 65 26 0.00% 66 49 0.00% 67 72 0.00% 68 111 0.00% 69 233 0.00% 70 33286 0.63% 71 31415 0.60% 72 34029 0.64% 73 32094 0.61% 74 30446 0.58% 75 29322 0.56% 76 28374 0.54% 77 30514 0.58% 78 31129 0.59% 79 31961 0.61% 80 32005 0.61% 81 41306 0.78% 82 42990 0.81% 83 36806 0.70% 84 45190 0.86% 85 198 0.00% 86 281 0.01% 87 436 0.01% 88 643 0.01% 89 1033 0.02% 90 1961 0.04% 91 4518 0.09% 92 15007 0.28% 93 4739691 89.79% 5278919 reads passed initial QC criterion=sequence-density sequence-density=4.13 sequence-density-rank=1 fanout-score=2.03 fanout-score-rank=29 prefix-density=4.17 prefix-fanout=2.0 sequence=CAAGGCTAAATAC criterion=fanout-score sequence-density=0.02 sequence-density-rank=24 fanout-score=59.98 fanout-score-rank=1 prefix-density=0.14 prefix-fanout=7.0 sequence=TTCCTTTTTTCCTTAGAAAAATAACTCAATCAAAATCCAATTATTTACTCTACAAGAACGAAATGCTTGTTATGCCTAATATACTTAGTTTAACCTGTATCTGTTTTAATTGTGTTCTTTATCCGACTAGTTTTTTCTTTGCTAAACTACCCGAAGCTTATGCTATTTTCAACCCAATCGTGGATGTTATGCCTGTCATACCTCTATTCTTTTTTCTATTAGCCTTTGTTTGGCAAGCTGCTGTAAGTTTTCGATGAAATCTTTACTACTCCGTCTGCCAAATTGAATGGTCTATTCATTCCAAAACC Potential 3prime adapter identified. Now checking if in reference sequence Warning: gzbuffer added in zlib v1.2.3.5. Unable to change buffer size from default of 8192. 1 reads; of these: 1 (100.00%) were unpaired; of these: 0 (0.00%) aligned 0 times 0 (0.00%) aligned exactly 1 time 1 (100.00%) aligned >1 times 100.00% overall alignment rate Potential adapter found in reference sequence. Continuing without clipping. Started job on | Dec 07 01:27:27 Started mapping on | Dec 07 01:27:28 Finished on | Dec 07 01:27:36 Mapping speed, Million of reads per hour | 2375.51 Number of input reads | 5278919 Average input read length | 91 UNIQUE READS: Uniquely mapped reads number | 2921111 Uniquely mapped reads % | 55.34% Average mapped length | 90.63 Number of splices: Total | 94656 Number of splices: Annotated (sjdb) | 76737 Number of splices: GT/AG | 88775 Number of splices: GC/AG | 1857 Number of splices: AT/AC | 82 Number of splices: Non-canonical | 3942 Mismatch rate per base, % | 0.41% Deletion rate per base | 0.05% Deletion average length | 1.69 Insertion rate per base | 0.02% Insertion average length | 1.78 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 1953490 % of reads mapped to multiple loci | 37.01% Number of reads mapped to too many loci | 268125 % of reads mapped to too many loci | 5.08% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 2.29% % of reads unmapped: other | 0.29% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 404318 404318 404318 N_multimapping 1953490 1953490 1953490 N_noFeature 255675 284757 2791729 N_ambiguous 117187 16858 474 UnstrandedReadsAssigned:2548249 PositiveStrandReadsAssigned:2619496 NegativeStrandReadsAssigned:128908 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133363 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: ERR6133363-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 5,278,919 reads, 3,669,103 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,065 rounds 52973 ERR6133363.ke.tsv 35125 ERR6133363.se.tsv 88098 total ==> ERR6133363.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 88 23.4514 PNS24243 293 194 0 0 KQK14069 1603 1504 41 9.96729 KQK14071 474 375 0 0 ==> ERR6133363.se.tsv <== BRADI_1g14170v3 41 BRADI_1g53295v3 43 BRADI_1g59795v3 25 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 29 BRADI_1g74790v3 25 BRADI_1g09890v3 0 BRADI_1g77505v3 74 BRADI_1g48960v3 0 ERR6133363 completed mapping pipeline successfully