Starting /dee2/code/volunteer_pipeline.sh ERR6133572 current disk space = 1544418283520 free memory = 1597103760 ERR6133572 SRAfilesize ed661828fe6d5b990a25ca5bea91fe13 ERR6133572.sra ERR6133572.sra file validated ERR6133572 is single end ERR6133572 is conventional basespace ERR6133572 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133572_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 35.5705 37.0 33.0 37.0 33.0 37.0 2 36.4965 37.0 37.0 37.0 37.0 37.0 3 36.1195 37.0 37.0 37.0 33.0 37.0 4 35.526 37.0 37.0 37.0 33.0 37.0 5 35.3375 37.0 37.0 37.0 33.0 37.0 6 35.7705 37.0 37.0 37.0 33.0 37.0 7 37.58725 40.0 37.0 40.0 33.0 40.0 8 37.6995 40.0 37.0 40.0 33.0 40.0 9 37.7045 40.0 37.0 40.0 33.0 40.0 10-11 37.574 40.0 37.0 40.0 33.0 40.0 12-13 37.610125 38.5 37.0 40.0 33.0 40.0 14-15 37.546 38.5 37.0 40.0 33.0 40.0 16-17 37.44925 37.0 37.0 40.0 33.0 40.0 18-19 37.386250000000004 37.0 37.0 40.0 33.0 40.0 20-21 37.363625 37.0 37.0 40.0 33.0 40.0 22-23 37.2795 37.0 37.0 40.0 33.0 40.0 24-25 37.439375 37.0 37.0 40.0 33.0 40.0 26-27 37.33325 37.0 37.0 40.0 33.0 40.0 28-29 37.286249999999995 37.0 37.0 40.0 33.0 40.0 30-31 37.200375 37.0 37.0 40.0 33.0 40.0 32-33 37.04 37.0 37.0 40.0 33.0 40.0 34-35 36.95675 37.0 37.0 40.0 33.0 40.0 36-37 36.7595 37.0 37.0 40.0 33.0 40.0 38-39 36.551249999999996 37.0 37.0 40.0 33.0 40.0 40-41 36.405874999999995 37.0 37.0 40.0 33.0 40.0 42-43 36.27375000000001 37.0 37.0 40.0 33.0 40.0 44-45 36.02 37.0 37.0 40.0 33.0 40.0 46-47 35.61825 37.0 33.0 38.5 33.0 40.0 48-49 35.688875 37.0 33.0 37.0 33.0 40.0 50-51 35.64725 37.0 33.0 37.0 33.0 40.0 52-53 35.21625 37.0 33.0 37.0 30.0 40.0 54-55 35.185249999999996 37.0 33.0 37.0 33.0 40.0 56-57 35.010374999999996 37.0 33.0 37.0 33.0 38.5 58-59 33.823875 37.0 33.0 37.0 27.0 37.0 60-61 34.44725 37.0 33.0 37.0 27.0 37.0 62-63 34.4165 37.0 33.0 37.0 27.0 37.0 64-65 34.3445 37.0 33.0 37.0 27.0 37.0 66-67 34.364125 37.0 33.0 37.0 27.0 37.0 68-69 33.648125 35.0 33.0 37.0 27.0 37.0 70-71 33.8457422130118 35.0 33.0 37.0 27.0 37.0 72-73 34.129907982637235 37.0 33.0 37.0 27.0 37.0 74-75 33.85365296349373 37.0 33.0 37.0 27.0 37.0 76-77 33.95436174422285 37.0 33.0 37.0 27.0 37.0 78-79 34.056723586625814 37.0 33.0 37.0 27.0 37.0 80-81 33.99403883202538 37.0 33.0 37.0 27.0 37.0 82-83 33.94675900625323 37.0 33.0 37.0 27.0 37.0 84-85 33.92911420951692 37.0 33.0 37.0 27.0 37.0 86-87 33.73230441724321 37.0 33.0 37.0 27.0 37.0 88-89 33.887972325705164 37.0 33.0 37.0 27.0 37.0 90-91 33.60031931878659 37.0 33.0 37.0 27.0 37.0 92-93 33.38225119744545 37.0 33.0 37.0 27.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 11.0 21 11.0 22 12.0 23 13.0 24 24.0 25 35.0 26 28.0 27 55.0 28 55.0 29 64.0 30 74.0 31 130.0 32 127.0 33 159.0 34 242.0 35 405.0 36 840.0 37 1007.0 38 689.0 39 19.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 84.575 3.5999999999999996 3.8 8.025 2 66.225 19.375 9.475 4.925 3 34.525 37.5 15.225 12.75 4 32.275 27.450000000000003 20.150000000000002 20.125 5 24.95 29.275000000000002 26.974999999999998 18.8 6 19.425 36.675000000000004 26.625 17.275 7 34.25 29.599999999999998 20.65 15.5 8 30.85 29.45 23.799999999999997 15.9 9 25.874999999999996 26.55 28.549999999999997 19.025 10-11 24.85 27.487499999999997 28.6625 19.0 12-13 26.387500000000003 26.0 27.6625 19.950000000000003 14-15 21.6 29.6625 29.225 19.5125 16-17 23.775 31.0625 24.875 20.2875 18-19 23.95 26.55 27.8375 21.6625 20-21 25.174999999999997 25.5 27.9125 21.4125 22-23 27.4125 23.775 26.337500000000002 22.475 24-25 25.115639454931866 25.728216027003377 29.128641080135015 20.02750343792974 26-27 25.25 25.55 30.675 18.525 28-29 24.4375 26.474999999999998 29.175 19.9125 30-31 26.400000000000002 25.55 27.5625 20.4875 32-33 24.8125 26.325 28.812500000000004 20.05 34-35 24.725 26.924999999999997 27.3625 20.9875 36-37 24.4125 25.687500000000004 28.037499999999998 21.8625 38-39 26.122857500312772 25.572375828850248 30.20142624796697 18.103340422870012 40-41 26.183320811419986 25.29426496368645 26.884547958928124 21.63786626596544 42-43 24.721770663999 28.435663373765163 27.46029761160435 19.382268350631488 44-45 23.575 26.525 29.212500000000002 20.6875 46-47 23.5375 25.2125 29.325000000000003 21.925 48-49 23.962500000000002 25.825 30.312499999999996 19.900000000000002 50-51 23.2125 26.474999999999998 30.0375 20.275000000000002 52-53 23.696741854636592 27.593984962406015 28.383458646616543 20.325814536340854 54-55 23.7375 27.575 29.1375 19.55 56-57 25.937500000000004 26.487500000000004 28.4 19.175 58-59 23.599999999999998 25.275 29.4125 21.712500000000002 60-61 25.2 25.687500000000004 30.012499999999996 19.1 62-63 22.1875 28.499999999999996 30.9625 18.35 64-65 23.575 28.549999999999997 28.525 19.35 66-67 23.665458182272783 28.128516064508062 29.85373171646456 18.352294036754593 68-69 22.2125 26.950000000000003 29.012500000000003 21.825 70-71 24.6460343315374 26.713444430522493 28.680616464102243 19.959904773837863 72-73 25.552329251357154 25.754323948996337 28.26663300088373 20.426713798762783 74-75 24.4908350305499 26.578411405295316 28.920570264765782 20.010183299389002 76-77 23.857216230097585 26.091422701592194 28.158705701078585 21.89265536723164 78-79 23.4746639089969 25.15511892450879 31.308169596690792 20.062047569803514 80-81 23.68352450469239 29.02763295099062 28.29770594369134 18.99113660062565 82-83 22.394532790116966 26.770929162833486 29.754238401892497 21.080299645157048 84-85 24.18049104180491 23.848706038487062 31.917717319177175 20.053085600530856 86-87 22.538584353379456 26.92921766897286 30.907397551889304 19.62480042575838 88-89 20.80894092602448 28.432676955827567 30.854177754124535 19.904204364023418 90-91 25.06652474720596 26.516764236295902 29.45715806279936 18.959552953698775 92-93 21.899946780202235 29.749866950505588 28.83182543906333 19.518360830228847 >>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 2.5 18 3.5 19 1.5 20 1.5 21 2.5 22 3.0 23 5.0 24 7.0 25 7.5 26 9.0 27 12.0 28 20.5 29 29.0 30 32.0 31 39.5 32 55.5 33 70.0 34 77.5 35 86.5 36 117.5 37 154.0 38 179.0 39 180.5 40 209.0 41 228.0 42 226.5 43 242.5 44 207.5 45 192.0 46 205.5 47 193.5 48 185.5 49 177.0 50 147.5 51 133.5 52 136.0 53 134.0 54 126.5 55 92.0 56 59.0 57 51.5 58 52.0 59 40.0 60 25.0 61 28.0 62 24.5 63 21.0 64 26.5 65 21.5 66 12.0 67 13.0 68 13.5 69 13.0 70 13.0 71 9.0 72 5.5 73 3.5 74 5.5 75 3.5 76 0.5 77 0.0 78 0.0 79 0.5 80 0.5 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 0.08750000000000001 40-41 0.17500000000000002 42-43 0.0375 44-45 0.0 46-47 0.0 48-49 0.0 50-51 0.0 52-53 0.25 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 0.013032712107389547 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 19.0 71 14.0 72 13.0 73 17.0 74 18.0 75 19.0 76 12.0 77 12.0 78 16.0 79 16.0 80 15.0 81 14.0 82 21.0 83 17.0 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 3758.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 81.125 #Duplication Level Percentage of deduplicated Percentage of total 1 92.91217257318952 75.375 2 3.790446841294299 6.15 3 1.1710323574730355 2.85 4 0.4930662557781202 1.6 5 0.46224961479198773 1.875 6 0.30816640986132515 1.5 7 0.15408320493066258 0.8750000000000001 8 0.09244992295839753 0.6 9 0.09244992295839753 0.675 >10 0.5238828967642527 8.5 >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 GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 41 1.0250000000000001 No Hit GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 36 0.8999999999999999 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 35 0.8750000000000001 No Hit GGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGC 33 0.8250000000000001 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 22 0.5499999999999999 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 22 0.5499999999999999 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 19 0.475 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 19 0.475 No Hit GGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAA 16 0.4 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 15 0.375 No Hit GTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAA 14 0.35000000000000003 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 13 0.325 No Hit GGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTT 13 0.325 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 11 0.27499999999999997 No Hit GTATTTAGCCTTGCAAGGTGGTCCTTGCTGATTCACACGGGATTCCACGT 11 0.27499999999999997 No Hit CAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCT 10 0.25 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 10 0.25 No Hit GGCCTGTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCG 9 0.22499999999999998 No Hit GGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACT 9 0.22499999999999998 No Hit GGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTTG 9 0.22499999999999998 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 8 0.2 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 8 0.2 No Hit GGGCCATTTGTGGCATGCAGGAAGAGCCCGAGCTGCTGCAGCAGGTTTTG 8 0.2 No Hit GGAATAAGAATAAATCGCAACTCCTTTCCACTACACATAAAAATTGATTT 7 0.17500000000000002 No Hit GGTGGATACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAA 7 0.17500000000000002 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 7 0.17500000000000002 No Hit GGGCCGGGTATCTCTCTGCATGTACGTATGCCTGTAATGTACGTAGCTAC 7 0.17500000000000002 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 7 0.17500000000000002 No Hit CAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGATAT 6 0.15 No Hit GGTCAACCTTTTAAACTGCCTGCTGAATCCATGAGCAGGCAAGAGACAAC 6 0.15 No Hit GAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTG 6 0.15 No Hit GGGGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCT 6 0.15 No Hit GGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGT 6 0.15 No Hit GGGTTGTTTGGGAATGCAGCCCAAATCGGGCGGTAGACTCCGTCCAAGGC 6 0.15 No Hit GGATACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATG 6 0.15 No Hit GGAGCAGCCTAAACCGTGAAAACGGGGTTGTGGGAGAGCAATACAAGCGT 6 0.15 No Hit TCAGTGTCGGCCCAGCAGAGTGCTTTCGCCGTTGGTGTTCTTTCCGATCT 6 0.15 No Hit CAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTG 6 0.15 No Hit GGGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTT 5 0.125 No Hit GGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTC 5 0.125 No Hit GGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAA 5 0.125 No Hit AGTATGGCATCGGTTACATACTTCAGTGCCGTAGCGCCTGGTATGAGCCT 5 0.125 No Hit GGAAGAGCCCGAGCTGCTGCAGCAGGTTTTGAAAAGGGAATCGATCGTGA 5 0.125 No Hit CGAGGAAGGGCGTAGCAAGCGACGAAATGCTTCGGGGAGTTGAAAATAAG 5 0.125 No Hit GTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCT 5 0.125 No Hit GGGTTGTGGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGA 5 0.125 No Hit GGAGTATCCTTGATATATAAATATATAGATAAATAGATTTAAATGGAAAA 5 0.125 No Hit CAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTC 5 0.125 No Hit GGAAGGGCGTAGCAAGCGACGAAATGCTTCGGGGAGTTGAAAATAAGCAT 5 0.125 No Hit GTATGGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGATTA 5 0.125 No Hit GGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAAATACTCCT 5 0.125 No Hit GGGAGGGTGAGAGCCCCGTCCGGCCCGGACCCTGTCGCCCCACGAGGCGC 5 0.125 No Hit GGCATATGCCAGCTCTGACCGAAATCTTTGGGGATGATTCTGTATTACAA 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 0.05 0.0 0.0 0.0 0.0 30-31 0.075 0.0 0.0 0.0 0.0 32-33 0.1 0.0 0.0 0.0 0.0 34-35 0.1 0.0 0.0 0.0 0.0 36-37 0.1125 0.0 0.0 0.0 0.0 38-39 0.125 0.0 0.0 0.0 0.0 40-41 0.16249999999999998 0.0 0.0 0.0 0.0 42-43 0.175 0.0 0.0 0.0 0.0 44-45 0.175 0.0 0.0 0.0 0.0 46-47 0.175 0.0 0.0 0.0 0.0 48-49 0.175 0.0 0.0 0.0 0.0 50-51 0.175 0.0 0.0 0.0 0.0 52-53 0.175 0.0 0.0 0.0 0.0 54-55 0.175 0.0 0.0 0.0 0.0 56-57 0.175 0.0 0.0 0.0 0.0 58-59 0.1875 0.0 0.0 0.0 0.0 60-61 0.2 0.0 0.0 0.0 0.0 62-63 0.2 0.0 0.0 0.0 0.0 64-65 0.2 0.0 0.0 0.0 0.0 66-67 0.2 0.0 0.0 0.0 0.0 68-69 0.2 0.0 0.0 0.0 0.0 70-71 0.2 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 0.21250000000000002 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Rejected 201415 READS because READLEN < 1 Read 201415 spots for ERR6133572.sra Written 201415 spots for ERR6133572.sra Rejected 201415 READS because READLEN < 1 Read 201415 spots for ERR6133572.sra Written 201415 spots for ERR6133572.sra Rejected 201415 READS because READLEN < 1 Read 201415 spots for ERR6133572.sra Written 201415 spots for ERR6133572.sra Rejected 201415 READS because READLEN < 1 Read 201415 spots for ERR6133572.sra Written 201415 spots for ERR6133572.sra Rejected 201415 READS because READLEN < 1 Read 201415 spots for ERR6133572.sra Written 201415 spots for ERR6133572.sra Rejected 201415 READS because READLEN < 1 Read 201415 spots for ERR6133572.sra Written 201415 spots for ERR6133572.sra Rejected 201415 READS because READLEN < 1 Read 201415 spots for ERR6133572.sra Written 201415 spots for ERR6133572.sra Rejected 201415 READS because READLEN < 1 Read 201415 spots for ERR6133572.sra Written 201415 spots for ERR6133572.sra Rejected 201415 READS because READLEN < 1 Read 201415 spots for ERR6133572.sra Written 201415 spots for ERR6133572.sra Rejected 201415 READS because READLEN < 1 Read 201415 spots for ERR6133572.sra Written 201415 spots for ERR6133572.sra Rejected 201415 READS because READLEN < 1 Read 201415 spots for ERR6133572.sra Written 201415 spots for ERR6133572.sra Rejected 201415 READS because READLEN < 1 Read 201415 spots for ERR6133572.sra Written 201415 spots for ERR6133572.sra Rejected 201415 READS because READLEN < 1 Read 201415 spots for ERR6133572.sra Written 201415 spots for ERR6133572.sra Rejected 201415 READS because READLEN < 1 Read 201415 spots for ERR6133572.sra Written 201415 spots for ERR6133572.sra Rejected 201415 READS because READLEN < 1 Read 201415 spots for ERR6133572.sra Written 201415 spots for ERR6133572.sra Rejected 201415 READS because READLEN < 1 Read 201415 spots for ERR6133572.sra Written 201415 spots for ERR6133572.sra Rejected 201415 READS because READLEN < 1 Read 201415 spots for ERR6133572.sra Written 201415 spots for ERR6133572.sra Rejected 201420 READS because READLEN < 1 Read 201420 spots for ERR6133572.sra Written 201420 spots for ERR6133572.sra Rejected 201415 READS because READLEN < 1 Read 201415 spots for ERR6133572.sra Written 201415 spots for ERR6133572.sra Rejected 201415 READS because READLEN < 1 Read 201415 spots for ERR6133572.sra Written 201415 spots for ERR6133572.sra SRR ids: ['ERR6133572.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_c71b3_80 ERR6133572.sra spots: 4028305 blocks: [[1, 201415], [201416, 402830], [402831, 604245], [604246, 805660], [805661, 1007075], [1007076, 1208490], [1208491, 1409905], [1409906, 1611320], [1611321, 1812735], [1812736, 2014150], [2014151, 2215565], [2215566, 2416980], [2416981, 2618395], [2618396, 2819810], [2819811, 3021225], [3021226, 3222640], [3222641, 3424055], [3424056, 3625470], [3625471, 3826885], [3826886, 4028305]] ERR6133572 file size 886687 ERR6133572 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 ERR6133572 ERR6133572_1.fastq Input file: ERR6133572_1.fastq trimmed: ERR6133572-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 08:53:28 2024 >> started Sat Dec 7 08:53:30 2024 >> done (2.329s) 4028305 reads processed; of these: 638 ( 0.02%) short reads filtered out after trimming by size control 83 ( 0.00%) empty reads filtered out after trimming by size control 4027584 (99.98%) reads available; of these: 83171 ( 2.07%) trimmed reads available after processing 3944413 (97.93%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 150 0.00% 19 338 0.01% 20 136 0.00% 21 122 0.00% 22 169 0.00% 23 45 0.00% 24 51 0.00% 25 48 0.00% 26 39 0.00% 27 58 0.00% 28 121 0.00% 29 108 0.00% 30 76 0.00% 31 154 0.00% 32 187 0.00% 33 80 0.00% 34 95 0.00% 35 785 0.02% 36 878 0.02% 37 126 0.00% 38 215 0.01% 39 600 0.01% 40 549 0.01% 41 218 0.01% 42 42 0.00% 43 34 0.00% 44 64 0.00% 45 36 0.00% 46 26 0.00% 47 28 0.00% 48 31 0.00% 49 37 0.00% 50 41 0.00% 51 189 0.00% 52 54 0.00% 53 21 0.00% 54 23 0.00% 55 19 0.00% 56 21 0.00% 57 37 0.00% 58 53 0.00% 59 16 0.00% 60 57 0.00% 61 48 0.00% 62 4 0.00% 63 4 0.00% 64 6 0.00% 65 6 0.00% 66 13 0.00% 67 28 0.00% 68 67 0.00% 69 213 0.01% 70 19122 0.47% 71 17010 0.42% 72 18641 0.46% 73 16795 0.42% 74 17432 0.43% 75 16812 0.42% 76 14708 0.37% 77 14360 0.36% 78 16186 0.40% 79 17558 0.44% 80 15651 0.39% 81 17374 0.43% 82 19834 0.49% 83 18664 0.46% 84 17949 0.45% 85 161 0.00% 86 289 0.01% 87 444 0.01% 88 816 0.02% 89 1715 0.04% 90 3548 0.09% 91 10451 0.26% 92 56431 1.40% 93 3689067 91.60% 4027584 reads passed initial QC criterion=sequence-density sequence-density=0.80 sequence-density-rank=1 fanout-score=1.94 fanout-score-rank=34 prefix-density=0.80 prefix-fanout=1.9 sequence=CAAGGCTAAATAC criterion=fanout-score sequence-density=0.01 sequence-density-rank=31 fanout-score=259.56 fanout-score-rank=1 prefix-density=0.58 prefix-fanout=5.8 sequence=GAAGAAGAAAAGTTTTCTCAACATGGGGAGGAAGTCCCTCCGAAATTTGATTTGTTATTGTATTGTAAGGGGCTTTTTTAGTATTTATCTAAAGGAAGGAACAAACGAGGATAAGATAAAATTTCTTTAAATTTATTTTGCCCAAGTGGGATATATGGCATACTATTCTTTCCATTTTCATCTTTTTTTCTATTCCACTCCATCTAGATATAAGAAAGAACCCAATGCAATGAAATTCCACTAATATACAATACAAAAAAGAAGAATAGATACAGGGTCTCAAACCTTGCTATAGAGTTTTTGCTT Started job on | Dec 07 08:53:42 Started mapping on | Dec 07 08:53:42 Finished on | Dec 07 08:53:48 Mapping speed, Million of reads per hour | 2416.55 Number of input reads | 4027584 Average input read length | 91 UNIQUE READS: Uniquely mapped reads number | 2727915 Uniquely mapped reads % | 67.73% Average mapped length | 91.32 Number of splices: Total | 108590 Number of splices: Annotated (sjdb) | 87336 Number of splices: GT/AG | 102801 Number of splices: GC/AG | 2764 Number of splices: AT/AC | 81 Number of splices: Non-canonical | 2944 Mismatch rate per base, % | 0.51% Deletion rate per base | 0.05% Deletion average length | 1.84 Insertion rate per base | 0.03% Insertion average length | 1.81 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 1159501 % of reads mapped to multiple loci | 28.79% Number of reads mapped to too many loci | 63898 % of reads mapped to too many loci | 1.59% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.80% % of reads unmapped: other | 0.10% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 140168 140168 140168 N_multimapping 1159501 1159501 1159501 N_noFeature 203883 229126 2603114 N_ambiguous 111487 11775 527 UnstrandedReadsAssigned:2412545 PositiveStrandReadsAssigned:2487014 NegativeStrandReadsAssigned:124274 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133572 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: ERR6133572-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 4,027,584 reads, 3,203,373 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,108 rounds 52973 ERR6133572.ke.tsv 35125 ERR6133572.se.tsv 88098 total ==> ERR6133572.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 83 25.622 PNS24243 293 194 0 0 KQK14069 1603 1504 36 10.1378 KQK14071 474 375 0 0 ==> ERR6133572.se.tsv <== BRADI_1g14170v3 36 BRADI_1g53295v3 66 BRADI_1g59795v3 52 BRADI_1g07683v3 0 BRADI_1g00485v3 1 BRADI_1g20270v3 31 BRADI_1g74790v3 10 BRADI_1g09890v3 0 BRADI_1g77505v3 52 BRADI_1g48960v3 0 ERR6133572 completed mapping pipeline successfully