Starting /dee2/code/volunteer_pipeline.sh ERR6133321 current disk space = 1548298633216 free memory = 1415680944 ERR6133321 SRAfilesize f93d3572ae881cd85f7eebc2e3f84eb5 ERR6133321.sra ERR6133321.sra file validated ERR6133321 is single end ERR6133321 is conventional basespace ERR6133321 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133321_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 43 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 34.99525 37.0 33.0 37.0 33.0 37.0 2 36.233 37.0 37.0 37.0 33.0 37.0 3 35.805 37.0 37.0 37.0 33.0 37.0 4 35.33425 37.0 37.0 37.0 33.0 37.0 5 35.321 37.0 37.0 37.0 33.0 37.0 6 35.686 37.0 37.0 37.0 33.0 37.0 7 37.3405 40.0 37.0 40.0 33.0 40.0 8 37.3455 37.0 37.0 40.0 33.0 40.0 9 37.442 37.0 37.0 40.0 33.0 40.0 10-11 37.345875 37.0 37.0 40.0 33.0 40.0 12-13 37.316 37.0 37.0 40.0 33.0 40.0 14-15 37.274375000000006 37.0 37.0 40.0 33.0 40.0 16-17 37.267625 37.0 37.0 40.0 33.0 40.0 18-19 37.180375 37.0 37.0 40.0 33.0 40.0 20-21 36.841750000000005 37.0 37.0 40.0 33.0 40.0 22-23 36.8555 37.0 37.0 40.0 33.0 40.0 24-25 36.913375 37.0 37.0 40.0 33.0 40.0 26-27 36.86825 37.0 37.0 40.0 33.0 40.0 28-29 36.668375 37.0 37.0 40.0 33.0 40.0 30-31 36.799 37.0 37.0 40.0 33.0 40.0 32-33 36.61525 37.0 37.0 40.0 33.0 40.0 34-35 36.546875 37.0 37.0 40.0 33.0 40.0 36-37 36.264125 37.0 37.0 40.0 33.0 40.0 38-39 35.997375000000005 37.0 37.0 40.0 33.0 40.0 40-41 35.9105 37.0 37.0 40.0 33.0 40.0 42-43 35.557375 37.0 33.0 40.0 27.0 40.0 44-45 35.2775 37.0 33.0 40.0 27.0 40.0 46-47 35.047625 37.0 33.0 37.0 27.0 40.0 48-49 34.88775 37.0 33.0 37.0 27.0 40.0 50-51 34.72725 37.0 33.0 37.0 27.0 40.0 52-53 34.578125 37.0 33.0 37.0 27.0 40.0 54-55 34.464375000000004 37.0 33.0 37.0 27.0 40.0 56-57 34.219375 37.0 33.0 37.0 27.0 40.0 58-59 31.752750000000002 33.0 30.0 37.0 22.0 37.0 60-61 33.36475 37.0 33.0 37.0 27.0 37.0 62-63 33.601875 37.0 33.0 37.0 27.0 37.0 64-65 33.493125 37.0 33.0 37.0 27.0 37.0 66-67 33.188625 37.0 33.0 37.0 27.0 37.0 68-69 32.625875 35.0 33.0 37.0 24.5 37.0 70-71 32.588268216712805 33.0 33.0 37.0 27.0 37.0 72-73 32.932958302197136 33.0 33.0 37.0 27.0 37.0 74-75 32.93097568610334 37.0 33.0 37.0 27.0 37.0 76-77 32.97107354468267 37.0 33.0 37.0 27.0 37.0 78-79 32.97288892911039 33.0 33.0 37.0 27.0 37.0 80-81 32.959002039156715 35.0 33.0 37.0 27.0 37.0 82-83 32.73047469768471 33.0 33.0 37.0 27.0 37.0 84-85 32.57533968782833 33.0 33.0 37.0 27.0 37.0 86-87 32.44137931034483 33.0 33.0 37.0 27.0 37.0 88-89 32.53462068965517 33.0 33.0 37.0 24.5 37.0 90-91 32.15779310344828 33.0 33.0 37.0 22.0 37.0 92-93 32.172137931034484 33.0 33.0 37.0 22.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 20.0 21 29.0 22 19.0 23 38.0 24 47.0 25 35.0 26 58.0 27 64.0 28 74.0 29 75.0 30 118.0 31 129.0 32 171.0 33 215.0 34 276.0 35 466.0 36 706.0 37 889.0 38 553.0 39 18.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 85.0 3.175 3.325 8.5 2 66.875 19.75 8.774999999999999 4.6 3 31.874999999999996 40.150000000000006 16.7 11.275 4 30.9 27.075 21.775 20.25 5 22.3 32.550000000000004 28.999999999999996 16.150000000000002 6 19.35 37.25 26.700000000000003 16.7 7 33.875 30.099999999999998 20.9 15.125 8 29.175 30.0 25.624999999999996 15.2 9 24.3 28.199999999999996 29.95 17.549999999999997 10-11 25.124999999999996 27.0 29.575000000000003 18.3 12-13 24.85 28.262500000000003 29.2875 17.599999999999998 14-15 19.6125 29.012500000000003 32.25 19.125 16-17 21.212500000000002 32.175 25.85 20.7625 18-19 22.3 26.650000000000002 30.15 20.9 20-21 23.5125 24.825 29.975 21.6875 22-23 26.087500000000002 23.225 29.462500000000002 21.224999999999998 24-25 23.400000000000002 26.55 29.6625 20.3875 26-27 23.325000000000003 25.124999999999996 31.7125 19.8375 28-29 23.8875 27.35 29.725 19.037499999999998 30-31 24.7875 26.1625 29.175 19.875 32-33 23.2875 25.75 30.525000000000002 20.4375 34-35 23.3375 27.975 28.925 19.7625 36-37 24.89055659787367 26.7667292057536 28.355222013758596 19.987492182614133 38-39 25.87911400325366 25.165811537980225 30.421724439994996 18.533350018771117 40-41 24.775 25.45 28.625 21.15 42-43 22.989368355222016 28.392745465916196 29.743589743589745 18.874296435272043 44-45 21.91797949487372 26.731682920730183 32.0830207551888 19.2673168292073 46-47 22.50562640660165 26.669167291822955 29.444861215303824 21.380345086271568 48-49 23.4375 26.150000000000002 31.587500000000002 18.825 50-51 22.913277437116754 26.85521211362783 29.983731698160433 20.247778751094984 52-53 23.18278493681972 28.650068810208936 27.886901038408606 20.280245214562743 54-55 22.112499999999997 28.0875 31.75 18.05 56-57 25.087500000000002 26.05 29.025000000000002 19.8375 58-59 23.150000000000002 27.1375 29.599999999999998 20.1125 60-61 24.099999999999998 26.2125 30.412499999999998 19.275000000000002 62-63 21.8625 28.225 31.7 18.212500000000002 64-65 23.375 28.825 30.4875 17.3125 66-67 22.3375 29.45 28.749999999999996 19.4625 68-69 20.8 27.8125 30.2625 21.125 70-71 22.70161796061708 28.35820895522388 29.12329110748777 19.816881976671265 72-73 24.10680228862047 25.82326764144946 30.03178639542276 20.03814367450731 74-75 23.225557129975524 26.201210872085532 30.45214478938555 20.121087208553394 76-77 23.121010811514914 26.208154226911557 29.568841995571187 21.101992966002346 78-79 22.638028725787322 26.841481091052838 30.451969956516013 20.068520226643827 80-81 21.276879925203687 29.744891144650726 30.025377320689195 18.952851609456392 82-83 22.481672549551995 26.350800977464022 31.292424653814827 19.875101819169156 84-85 21.807925151348375 25.481563015960372 33.24160704457898 19.468904788112273 86-87 21.310344827586206 26.02758620689655 32.63448275862069 20.02758620689655 88-89 20.055172413793105 28.799999999999997 31.57241379310345 19.57241379310345 90-91 24.013793103448275 28.827586206896548 28.965517241379313 18.193103448275863 92-93 20.73103448275862 32.289655172413795 28.841379310344827 18.13793103448276 >>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 5.0 18 5.5 19 0.5 20 2.5 21 3.5 22 3.0 23 7.0 24 8.0 25 8.5 26 13.5 27 17.0 28 23.5 29 30.5 30 36.5 31 57.0 32 79.0 33 115.0 34 128.0 35 133.5 36 156.5 37 189.0 38 227.5 39 232.0 40 223.5 41 201.5 42 214.5 43 244.0 44 220.5 45 199.5 46 192.0 47 163.0 48 142.5 49 144.5 50 134.0 51 116.5 52 115.5 53 112.5 54 100.5 55 83.5 56 64.5 57 54.5 58 44.0 59 28.0 60 17.5 61 13.5 62 12.5 63 14.0 64 17.5 65 12.0 66 11.0 67 10.5 68 4.5 69 4.5 70 6.5 71 8.0 72 6.5 73 4.5 74 3.0 75 2.0 76 2.5 77 3.0 78 1.5 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 0.0 26-27 0.0 28-29 0.0 30-31 0.0 32-33 0.0 34-35 0.0 36-37 0.0625 38-39 0.11249999999999999 40-41 0.0 42-43 0.0625 44-45 0.025 46-47 0.025 48-49 0.0 50-51 0.11249999999999999 52-53 0.08750000000000001 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 27.0 71 25.0 72 31.0 73 26.0 74 19.0 75 20.0 76 27.0 77 17.0 78 27.0 79 25.0 80 25.0 81 32.0 82 32.0 83 24.0 84 18.0 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 3625.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 79.4 #Duplication Level Percentage of deduplicated Percentage of total 1 92.12846347607054 73.15 2 4.408060453400504 7.000000000000001 3 1.2594458438287155 3.0 4 0.535264483627204 1.7000000000000002 5 0.535264483627204 2.125 6 0.09445843828715365 0.44999999999999996 7 0.2204030226700252 1.225 8 0.06297229219143577 0.4 9 0.031486146095717885 0.22499999999999998 >10 0.7241813602015114 10.725 >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 50 1.25 No Hit GGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGC 42 1.05 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 37 0.9249999999999999 No Hit GGGTTGTTTGGGAATGCAGCCCAAATCGGGCGGTAGACTCCGTCCAAGGC 24 0.6 No Hit GGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAA 22 0.5499999999999999 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 18 0.44999999999999996 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 17 0.42500000000000004 No Hit GGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAAATACTCCT 17 0.42500000000000004 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 16 0.4 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 16 0.4 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 16 0.4 No Hit GGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTT 16 0.4 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 15 0.375 No Hit GGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTTG 15 0.375 No Hit CAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTC 14 0.35000000000000003 No Hit GGGCATTCGTATTTCATAGTCAGAGGTGAAATTCTTGGATTTATGAAAGA 14 0.35000000000000003 No Hit GGGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTT 13 0.325 No Hit GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 13 0.325 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 12 0.3 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 11 0.27499999999999997 No Hit CACGAACGTAATGCTCACAACTTCCCTCTAGATCTAGCTGCTCTTGAAGT 11 0.27499999999999997 No Hit GAAGTAATGCACGAACGTAATGCTCACAACTTCCCTCTAGATCTAGCTGC 10 0.25 No Hit GGAGTATCCTTGATATATAAATATATAGATAAATAGATTTAAATGGAAAA 10 0.25 No Hit GGAAGAGCCCGAGCTGCTGCAGCAGGTTTTGAAAAGGGAATCGATCGTGA 9 0.22499999999999998 No Hit GGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTC 8 0.2 No Hit GGTTGTTTGGGAATGCAGCCCAAATCGGGCGGTAGACTCCGTCCAAGGCT 8 0.2 No Hit GGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACGA 7 0.17500000000000002 No Hit GGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTA 7 0.17500000000000002 No Hit GAAGTATGGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGA 7 0.17500000000000002 No Hit CAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCT 7 0.17500000000000002 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 7 0.17500000000000002 No Hit GTATTTAGCCTTGCAAGGTGGTCCTTGCTGATTCACACGGGATTCCACGT 7 0.17500000000000002 No Hit GGTTTTGAAAAGGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAA 7 0.17500000000000002 No Hit GGGTTATTGTAAAATAACACATGTCATTTGGATACTTCTCTTCAACTCCG 6 0.15 No Hit GTACTATGGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTT 6 0.15 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 6 0.15 No Hit GGAGGGTGAGAGCCCCGTCCGGCCCGGACCCTGTCGCCCCACGAGGCGCC 5 0.125 No Hit GGGAATGCAGCCCAAATCGGGCGGTAGACTCCGTCCAAGGCTAAATACAG 5 0.125 No Hit GGACATTTCTTCGAAAAAATTCGAATAGTGAGACGCATTAAAACGCAATT 5 0.125 No Hit GTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAA 5 0.125 No Hit GCAGCTTGCAAATGGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAA 5 0.125 No Hit AGTATGGCATCGGTTACATACTTCAGTGCCGTAGCGCCTGGTATGAGCCT 5 0.125 No Hit GAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTG 5 0.125 No Hit GTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCT 5 0.125 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTTA 5 0.125 No Hit GGAGTGGGGGTGCCATACGCAAAAAGGAAGCGACTCATAGAATGGCAGAG 5 0.125 No Hit GGAGTGACGACGGCAGCTGCCTTTACACCTTTTAAGCATGCCACTTTAAT 5 0.125 No Hit GGATACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATG 5 0.125 No Hit GTATGGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGATTA 5 0.125 No Hit GATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAAT 5 0.125 No Hit GGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGATTAATAG 5 0.125 No Hit GGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACT 5 0.125 No Hit GGGTAGGTTGTGGTATTTCATTGCTACAAACATGGGTTATTGTAAAATAA 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 0.025 0.0 28-29 0.025 0.0 0.0 0.025 0.0 30-31 0.025 0.0 0.0 0.025 0.0 32-33 0.025 0.0 0.0 0.025 0.0 34-35 0.025 0.0 0.0 0.025 0.0 36-37 0.0625 0.0 0.0 0.025 0.0 38-39 0.0875 0.0 0.0 0.025 0.0 40-41 0.1125 0.0 0.0 0.025 0.0 42-43 0.125 0.0 0.0 0.025 0.0 44-45 0.125 0.0 0.0 0.025 0.0 46-47 0.125 0.0 0.0 0.025 0.0 48-49 0.125 0.0 0.0 0.025 0.0 50-51 0.125 0.0 0.0 0.025 0.0 52-53 0.125 0.0 0.0 0.025 0.0 54-55 0.125 0.0 0.0 0.025 0.0 56-57 0.125 0.0 0.0 0.025 0.0 58-59 0.15 0.0 0.0 0.025 0.0 60-61 0.15 0.0 0.0 0.025 0.0 62-63 0.15 0.0 0.0 0.025 0.0 64-65 0.15 0.0 0.0 0.025 0.0 66-67 0.15 0.0 0.0 0.025 0.0 68-69 0.15 0.0 0.0 0.025 0.0 70-71 0.16249999999999998 0.0 0.0 0.025 0.0 72-73 0.25 0.0 0.0 0.025 0.0 74-75 0.25 0.0 0.0 0.025 0.0 76-77 0.2625 0.0 0.0 0.025 0.0 78-79 0.3125 0.0 0.0 0.025 0.0 80-81 0.3625 0.0 0.0 0.025 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Rejected 225326 READS because READLEN < 1 Read 225326 spots for ERR6133321.sra Written 225326 spots for ERR6133321.sra Rejected 225326 READS because READLEN < 1 Read 225326 spots for ERR6133321.sra Written 225326 spots for ERR6133321.sra Rejected 225326 READS because READLEN < 1 Read 225326 spots for ERR6133321.sra Written 225326 spots for ERR6133321.sra Rejected 225326 READS because READLEN < 1 Read 225326 spots for ERR6133321.sra Written 225326 spots for ERR6133321.sra Rejected 225326 READS because READLEN < 1 Read 225326 spots for ERR6133321.sra Written 225326 spots for ERR6133321.sra Rejected 225326 READS because READLEN < 1 Read 225326 spots for ERR6133321.sra Written 225326 spots for ERR6133321.sra Rejected 225326 READS because READLEN < 1 Read 225326 spots for ERR6133321.sra Written 225326 spots for ERR6133321.sra Rejected 225326 READS because READLEN < 1 Read 225326 spots for ERR6133321.sra Written 225326 spots for ERR6133321.sra Rejected 225326 READS because READLEN < 1 Read 225326 spots for ERR6133321.sra Written 225326 spots for ERR6133321.sra Rejected 225326 READS because READLEN < 1 Read 225326 spots for ERR6133321.sra Written 225326 spots for ERR6133321.sra Rejected 225326 READS because READLEN < 1 Read 225326 spots for ERR6133321.sra Written 225326 spots for ERR6133321.sra Rejected 225326 READS because READLEN < 1 Read 225326 spots for ERR6133321.sra Written 225326 spots for ERR6133321.sra Rejected 225326 READS because READLEN < 1 Read 225326 spots for ERR6133321.sra Written 225326 spots for ERR6133321.sra Rejected 225326 READS because READLEN < 1 Read 225326 spots for ERR6133321.sra Written 225326 spots for ERR6133321.sra Rejected 225326 READS because READLEN < 1 Read 225326 spots for ERR6133321.sra Written 225326 spots for ERR6133321.sra Rejected 225326 READS because READLEN < 1 Read 225326 spots for ERR6133321.sra Written 225326 spots for ERR6133321.sra Rejected 225326 READS because READLEN < 1 Read 225326 spots for ERR6133321.sra Written 225326 spots for ERR6133321.sra Rejected 225326 READS because READLEN < 1 Read 225326 spots for ERR6133321.sra Written 225326 spots for ERR6133321.sra Rejected 225326 READS because READLEN < 1 Read 225326 spots for ERR6133321.sra Written 225326 spots for ERR6133321.sra Rejected 225330 READS because READLEN < 1 Read 225330 spots for ERR6133321.sra Written 225330 spots for ERR6133321.sra SRR ids: ['ERR6133321.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_myf03ro2 ERR6133321.sra spots: 4506524 blocks: [[1, 225326], [225327, 450652], [450653, 675978], [675979, 901304], [901305, 1126630], [1126631, 1351956], [1351957, 1577282], [1577283, 1802608], [1802609, 2027934], [2027935, 2253260], [2253261, 2478586], [2478587, 2703912], [2703913, 2929238], [2929239, 3154564], [3154565, 3379890], [3379891, 3605216], [3605217, 3830542], [3830543, 4055868], [4055869, 4281194], [4281195, 4506524]] ERR6133321 file size 987284 ERR6133321 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 ERR6133321 ERR6133321_1.fastq Input file: ERR6133321_1.fastq trimmed: ERR6133321-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 00:36:32 2024 >> started Sat Dec 7 00:36:34 2024 >> done (2.214s) 4506524 reads processed; of these: 501 ( 0.01%) short reads filtered out after trimming by size control 45 ( 0.00%) empty reads filtered out after trimming by size control 4505978 (99.99%) reads available; of these: 82440 ( 1.83%) trimmed reads available after processing 4423538 (98.17%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 72 0.00% 19 341 0.01% 20 104 0.00% 21 96 0.00% 22 161 0.00% 23 37 0.00% 24 55 0.00% 25 36 0.00% 26 34 0.00% 27 59 0.00% 28 96 0.00% 29 79 0.00% 30 68 0.00% 31 137 0.00% 32 186 0.00% 33 53 0.00% 34 73 0.00% 35 352 0.01% 36 1002 0.02% 37 100 0.00% 38 204 0.00% 39 701 0.02% 40 573 0.01% 41 189 0.00% 42 42 0.00% 43 53 0.00% 44 78 0.00% 45 43 0.00% 46 30 0.00% 47 27 0.00% 48 35 0.00% 49 27 0.00% 50 48 0.00% 51 189 0.00% 52 51 0.00% 53 21 0.00% 54 33 0.00% 55 25 0.00% 56 33 0.00% 57 83 0.00% 58 102 0.00% 59 28 0.00% 60 145 0.00% 61 61 0.00% 62 1 0.00% 63 7 0.00% 64 12 0.00% 65 14 0.00% 66 15 0.00% 67 29 0.00% 68 90 0.00% 69 370 0.01% 70 30697 0.68% 71 27012 0.60% 72 32786 0.73% 73 26382 0.59% 74 27838 0.62% 75 28614 0.64% 76 24484 0.54% 77 24861 0.55% 78 28601 0.63% 79 30857 0.68% 80 29111 0.65% 81 36439 0.81% 82 38717 0.86% 83 34588 0.77% 84 34944 0.78% 85 236 0.01% 86 413 0.01% 87 575 0.01% 88 1276 0.03% 89 2288 0.05% 90 4510 0.10% 91 13607 0.30% 92 47681 1.06% 93 3972961 88.17% 4505978 reads passed initial QC criterion=sequence-density sequence-density=1.03 sequence-density-rank=1 fanout-score=4.97 fanout-score-rank=17 prefix-density=2.71 prefix-fanout=1.9 sequence=AGGCTAAATACTCCTGGGTGACCGATAGCG criterion=fanout-score sequence-density=0.01 sequence-density-rank=29 fanout-score=153.95 fanout-score-rank=1 prefix-density=0.31 prefix-fanout=6.9 sequence=GAAGAAGAAAAGTTTTCTCAACATGGGGAGGAAGTCCCTCCGAAATTTGATTTGTTATTGTATTGTAAGGGGCTTTTTTAGTATTTATCTAAAGGAAGGAACAAACGAGGATAAGATAAAATTTCTTTAAATTTATTTTGCCCAAGTGGGATATATGGCATACTATTCTTTCCATTTTCATCTTTTTTTCTATTCCACTCCATCTAGATATAAGAAAGAACCCAATGCAATGAAATTCCACTAATATACAATACAAAAAAGAAGAATAGATACAGGGTCTCAAACCTTGCTATAGAGTTTTTGCTTTAAAGA Started job on | Dec 07 00:36:52 Started mapping on | Dec 07 00:36:55 Finished on | Dec 07 00:37:03 Mapping speed, Million of reads per hour | 2027.69 Number of input reads | 4505978 Average input read length | 91 UNIQUE READS: Uniquely mapped reads number | 2873660 Uniquely mapped reads % | 63.77% Average mapped length | 90.66 Number of splices: Total | 80700 Number of splices: Annotated (sjdb) | 63984 Number of splices: GT/AG | 75152 Number of splices: GC/AG | 2496 Number of splices: AT/AC | 52 Number of splices: Non-canonical | 3000 Mismatch rate per base, % | 0.54% Deletion rate per base | 0.06% Deletion average length | 1.77 Insertion rate per base | 0.03% Insertion average length | 1.69 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 1345281 % of reads mapped to multiple loci | 29.86% Number of reads mapped to too many loci | 180637 % of reads mapped to too many loci | 4.01% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 2.10% % of reads unmapped: other | 0.26% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 287037 287037 287037 N_multimapping 1345281 1345281 1345281 N_noFeature 282063 311002 2740675 N_ambiguous 121919 17236 1147 UnstrandedReadsAssigned:2469678 PositiveStrandReadsAssigned:2545422 NegativeStrandReadsAssigned:131838 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133321 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: ERR6133321-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 4,505,978 reads, 3,367,390 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,073 rounds 52973 ERR6133321.ke.tsv 35125 ERR6133321.se.tsv 88098 total ==> ERR6133321.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 71 21.2162 PNS24243 293 194 0 0 KQK14069 1603 1504 49 13.3571 KQK14071 474 375 0 0 ==> ERR6133321.se.tsv <== BRADI_1g14170v3 49 BRADI_1g53295v3 47 BRADI_1g59795v3 40 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 42 BRADI_1g74790v3 13 BRADI_1g09890v3 0 BRADI_1g77505v3 80 BRADI_1g48960v3 0 ERR6133321 completed mapping pipeline successfully