Starting /dee2/code/volunteer_pipeline.sh ERR6133314 current disk space = 1548096090112 free memory = 1596741120 ERR6133314 SRAfilesize 2e85a0d59d548e9a03dd0da8e9f3e015 ERR6133314.sra ERR6133314.sra file validated ERR6133314 is single end ERR6133314 is conventional basespace ERR6133314 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133314_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 35.05175 37.0 33.0 37.0 33.0 37.0 2 36.3745 37.0 37.0 37.0 37.0 37.0 3 35.945 37.0 37.0 37.0 33.0 37.0 4 35.43125 37.0 37.0 37.0 33.0 37.0 5 35.3425 37.0 37.0 37.0 33.0 37.0 6 35.76475 37.0 37.0 37.0 33.0 37.0 7 37.46675 40.0 37.0 40.0 33.0 40.0 8 37.49625 40.0 37.0 40.0 33.0 40.0 9 37.616 40.0 37.0 40.0 33.0 40.0 10-11 37.513 40.0 37.0 40.0 33.0 40.0 12-13 37.437 37.0 37.0 40.0 33.0 40.0 14-15 37.459 38.5 37.0 40.0 33.0 40.0 16-17 37.351124999999996 37.0 37.0 40.0 33.0 40.0 18-19 37.261875 37.0 37.0 40.0 33.0 40.0 20-21 37.022125 37.0 37.0 40.0 33.0 40.0 22-23 36.96125 37.0 37.0 40.0 33.0 40.0 24-25 37.074250000000006 37.0 37.0 40.0 33.0 40.0 26-27 37.0085 37.0 37.0 40.0 33.0 40.0 28-29 36.89725 37.0 37.0 40.0 33.0 40.0 30-31 36.878375 37.0 37.0 40.0 33.0 40.0 32-33 36.793499999999995 37.0 37.0 40.0 33.0 40.0 34-35 36.638625000000005 37.0 37.0 40.0 33.0 40.0 36-37 36.56325 37.0 37.0 40.0 33.0 40.0 38-39 36.276875000000004 37.0 37.0 40.0 33.0 40.0 40-41 36.134125 37.0 37.0 40.0 33.0 40.0 42-43 35.870374999999996 37.0 35.0 40.0 33.0 40.0 44-45 35.425 37.0 33.0 40.0 27.0 40.0 46-47 35.129 37.0 33.0 38.5 27.0 40.0 48-49 35.059625 37.0 33.0 37.0 27.0 40.0 50-51 34.946875 37.0 33.0 37.0 27.0 40.0 52-53 34.666875000000005 37.0 33.0 37.0 27.0 40.0 54-55 34.584125 37.0 33.0 37.0 27.0 40.0 56-57 34.197625 37.0 33.0 37.0 27.0 40.0 58-59 31.988750000000003 33.0 30.0 37.0 22.0 37.0 60-61 33.536249999999995 37.0 33.0 37.0 27.0 37.0 62-63 33.70975 37.0 33.0 37.0 27.0 37.0 64-65 33.728624999999994 37.0 33.0 37.0 27.0 37.0 66-67 33.492999999999995 37.0 33.0 37.0 27.0 37.0 68-69 32.885125 35.0 33.0 37.0 27.0 37.0 70-71 32.96136919778002 35.0 33.0 37.0 27.0 37.0 72-73 33.235814255373676 37.0 33.0 37.0 27.0 37.0 74-75 33.20659667380538 37.0 33.0 37.0 27.0 37.0 76-77 33.28737748323862 37.0 33.0 37.0 27.0 37.0 78-79 33.249137919307884 37.0 33.0 37.0 27.0 37.0 80-81 33.220892672890585 37.0 33.0 37.0 27.0 37.0 82-83 33.04948888289601 33.0 33.0 37.0 27.0 37.0 84-85 32.81412859302329 33.0 33.0 37.0 27.0 37.0 86-87 32.63198403648803 33.0 33.0 37.0 27.0 37.0 88-89 32.74501140250855 33.0 33.0 37.0 27.0 37.0 90-91 32.6247149372862 33.0 33.0 37.0 27.0 37.0 92-93 32.57155074116306 33.0 33.0 37.0 27.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 17.0 21 18.0 22 30.0 23 36.0 24 38.0 25 35.0 26 46.0 27 55.0 28 61.0 29 90.0 30 107.0 31 136.0 32 152.0 33 182.0 34 252.0 35 442.0 36 776.0 37 856.0 38 642.0 39 29.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 83.85000000000001 3.6249999999999996 3.55 8.975 2 64.325 20.200000000000003 10.225 5.25 3 31.175000000000004 40.475 17.125 11.225 4 32.975 25.6 21.349999999999998 20.075000000000003 5 21.9 31.374999999999996 30.075000000000003 16.650000000000002 6 19.25 36.35 26.474999999999998 17.925 7 34.175 28.299999999999997 21.725 15.8 8 26.424999999999997 29.549999999999997 27.0 17.025000000000002 9 25.45 26.075 31.05 17.424999999999997 10-11 23.599999999999998 27.737499999999997 30.55 18.1125 12-13 23.2125 26.6125 30.162499999999998 20.0125 14-15 19.35 28.8375 31.5125 20.3 16-17 22.412499999999998 31.7375 25.25 20.599999999999998 18-19 23.5625 26.150000000000002 30.112499999999997 20.175 20-21 24.0780097512189 24.953119139892486 28.89111138892362 22.077759719964995 22-23 26.9625 23.5875 28.262500000000003 21.1875 24-25 25.6 25.2875 28.512500000000003 20.599999999999998 26-27 23.625 25.15 32.5125 18.712500000000002 28-29 24.625 27.6625 28.6375 19.075 30-31 24.587500000000002 26.0 28.8625 20.549999999999997 32-33 23.3 25.2375 31.337500000000002 20.125 34-35 23.4125 28.325 27.437499999999996 20.825 36-37 24.49056132016502 26.740842605325664 27.3284160520065 21.440180022502815 38-39 25.950475237618807 24.399699849924964 30.927963981990995 18.721860930465233 40-41 23.95 25.5625 28.8875 21.6 42-43 23.615451931491435 28.478559819977495 29.391173896737094 18.514814351793973 44-45 21.552694086760845 27.303412926615827 31.703962995374425 19.439929991248906 46-47 22.690336292036505 26.990873859232405 29.378672334041756 20.940117514689334 48-49 23.549999999999997 26.2625 31.175000000000004 19.0125 50-51 22.330582645661416 26.93173293323331 30.932733183295824 19.80495123780945 52-53 23.576523589037667 27.86885245901639 27.881366537354523 20.673257414591415 54-55 23.1875 28.237499999999997 30.725 17.849999999999998 56-57 24.5 28.075 28.537499999999998 18.8875 58-59 23.400000000000002 27.075 29.125 20.4 60-61 24.887500000000003 26.1625 30.337500000000002 18.6125 62-63 21.075 30.612499999999997 31.05 17.2625 64-65 21.8625 31.1 28.799999999999997 18.2375 66-67 23.8375 28.749999999999996 28.849999999999998 18.5625 68-69 21.6 28.549999999999997 28.549999999999997 21.3 70-71 23.794575590155702 28.503264691109997 29.0557508789553 18.646408839779006 72-73 24.291187739463602 25.734355044699875 29.70625798212005 20.268199233716473 74-75 23.813219505885396 27.357392316647267 29.34937265554262 19.480015521924717 76-77 22.389821615949632 28.58079748163694 27.688877229800628 21.3405036726128 78-79 21.852541921746074 27.495342028213997 30.023955283470855 20.62816076656907 80-81 21.65942422596415 30.730581205866375 29.712112982074963 17.897881586094513 82-83 21.647908850910103 26.788939836042797 30.276504098930108 21.286647214116993 84-85 21.50461320085167 25.223562810503903 32.10787792760823 21.163946061036196 86-87 21.29418472063854 27.65108323831243 29.290193842645383 21.76453819840365 88-89 20.367730900798175 30.30216647662486 30.515963511972632 18.814139110604334 90-91 24.258836944127708 28.591790193842648 28.435005701254273 18.714367160775367 92-93 20.78107183580388 32.81071835803877 28.6345496009122 17.773660205245154 >>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 0.5 17 5.5 18 5.5 19 0.5 20 1.5 21 2.0 22 1.5 23 5.5 24 9.0 25 10.0 26 15.0 27 21.0 28 29.0 29 37.5 30 47.0 31 61.0 32 68.0 33 85.0 34 99.5 35 112.0 36 148.0 37 208.5 38 245.0 39 231.5 40 224.0 41 208.5 42 227.0 43 262.5 44 240.0 45 205.0 46 174.5 47 146.5 48 129.5 49 140.0 50 137.0 51 120.5 52 115.0 53 114.0 54 115.0 55 90.0 56 61.0 57 51.5 58 42.5 59 28.0 60 19.0 61 21.5 62 18.5 63 9.0 64 10.0 65 10.5 66 8.5 67 6.5 68 6.0 69 7.0 70 7.5 71 7.0 72 8.5 73 9.5 74 8.0 75 5.5 76 3.0 77 1.5 78 0.5 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 0.0125 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 0.0125 38-39 0.05 40-41 0.0 42-43 0.0125 44-45 0.0125 46-47 0.0125 48-49 0.0 50-51 0.025 52-53 0.11249999999999999 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 36.0 71 32.0 72 34.0 73 23.0 74 19.0 75 31.0 76 26.0 77 23.0 78 38.0 79 36.0 80 40.0 81 41.0 82 45.0 83 39.0 84 29.0 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 3508.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 75.7 #Duplication Level Percentage of deduplicated Percentage of total 1 91.34742404227212 69.15 2 4.458388375165125 6.75 3 1.4200792602377807 3.225 4 0.7926023778071334 2.4 5 0.33025099075297226 1.25 6 0.3632760898282695 1.6500000000000001 7 0.26420079260237783 1.4000000000000001 8 0.06605019815059446 0.4 9 0.06605019815059446 0.44999999999999996 >10 0.8256274768824308 10.7 >50 0.06605019815059446 2.625 >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 53 1.325 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 52 1.3 No Hit GGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGC 39 0.975 No Hit GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 34 0.8500000000000001 No Hit GGGTTGTTTGGGAATGCAGCCCAAATCGGGCGGTAGACTCCGTCCAAGGC 28 0.7000000000000001 No Hit GGGCATTCGTATTTCATAGTCAGAGGTGAAATTCTTGGATTTATGAAAGA 24 0.6 No Hit GGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTC 23 0.575 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 22 0.5499999999999999 No Hit GGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTT 19 0.475 No Hit CAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCT 18 0.44999999999999996 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 17 0.42500000000000004 No Hit CAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTC 17 0.42500000000000004 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 16 0.4 No Hit GTATGGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGATTA 16 0.4 No Hit GGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAAATACTCCT 16 0.4 No Hit GGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAA 15 0.375 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 14 0.35000000000000003 No Hit CACGAACGTAATGCTCACAACTTCCCTCTAGATCTAGCTGCTCTTGAAGT 13 0.325 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 13 0.325 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 11 0.27499999999999997 No Hit GTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAA 11 0.27499999999999997 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 11 0.27499999999999997 No Hit GGGTGAGAGCCCCGTCCGGCCCGGACCCTGTCGCCCCACGAGGCGCCGTC 11 0.27499999999999997 No Hit GGGAATGCAGCCCAAATCGGGCGGTAGACTCCGTCCAAGGCTAAATACAG 10 0.25 No Hit GGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACGA 10 0.25 No Hit GGAGTATCCTTGATATATAAATATATAGATAAATAGATTTAAATGGAAAA 10 0.25 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 10 0.25 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 9 0.22499999999999998 No Hit GGAGGGTGAGAGCCCCGTCCGGCCCGGACCCTGTCGCCCCACGAGGCGCC 9 0.22499999999999998 No Hit GGGCCGGGTATCTCTCTGCATGTACGTATGCCTGTAATGTACGTAGCTAC 8 0.2 No Hit GGGGCATTCGTATTTCATAGTCAGAGGTGAAATTCTTGGATTTATGAAAG 8 0.2 No Hit GGGCACGTGGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAA 7 0.17500000000000002 No Hit GGCCTGTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCG 7 0.17500000000000002 No Hit GTACAAGCTCGTAACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAAT 7 0.17500000000000002 No Hit GTTGTTTGGGAATGCAGCCCAAATCGGGCGGTAGACTCCGTCCAAGGCTA 7 0.17500000000000002 No Hit TCAGTGTCGGCCCAGCAGAGTGCTTTCGCCGTTGGTGTTCTTTCCGATCT 7 0.17500000000000002 No Hit GGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTTG 7 0.17500000000000002 No Hit GTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAG 7 0.17500000000000002 No Hit GAACGTAATGCTCACAACTTCCCTCTAGATCTAGCTGCTCTTGAAGTTCC 7 0.17500000000000002 No Hit GGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTTGAAATCGGA 6 0.15 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 6 0.15 No Hit GGTCTTGATCCCTCTGTGTTTCCCGTGTAACGGCTACTGATCCAGTGGTT 6 0.15 No Hit GGTCAACCTTTTAAACTGCCTGCTGAATCCATGAGCAGGCAAGAGACAAC 6 0.15 No Hit GATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAAT 6 0.15 No Hit GAAGCCTGTGTACAAGCTCGTAACGAAGGGCGCGATCTTGCTCGTGAAGG 6 0.15 No Hit GAAGTAATGCACGAACGTAATGCTCACAACTTCCCTCTAGATCTAGCTGC 6 0.15 No Hit GGGCCTGTTATCTCTATCAATATGATTCTAATTCGTCAGATATTATTTAT 6 0.15 No Hit GGGGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCT 6 0.15 No Hit CAGGCGTCAGCCCCCATACATGGTCTTACGACTTTGCGGAGACCTGTGTT 6 0.15 No Hit GGTTGTTTGGGAATGCAGCCCAAATCGGGCGGTAGACTCCGTCCAAGGCT 6 0.15 No Hit GGGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTT 5 0.125 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 5 0.125 No Hit GGAGAAGGGTCACATATATGCTGCAGGATTCGGTTGAGCACGTTGTAGTA 5 0.125 No Hit GGGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACG 5 0.125 No Hit GAAGTATGGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGA 5 0.125 No Hit GGGAGGGTGAGAGCCCCGTCCGGCCCGGACCCTGTCGCCCCACGAGGCGC 5 0.125 No Hit GGACATTATGGCAAAAAAAAGTTTGATTCAGAGGGAAAAGAAGCGGCAGA 5 0.125 No Hit GGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACT 5 0.125 No Hit GTGGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAAATACTC 5 0.125 No Hit GGAAGTAATGCACGAACGTAATGCTCACAACTTCCCTCTAGATCTAGCTG 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 0.0125 0.0 0.0 0.0 0.0 18-19 0.075 0.0 0.0 0.0 0.0 20-21 0.0875 0.0 0.0 0.0 0.0 22-23 0.125 0.0 0.0 0.0 0.0 24-25 0.16249999999999998 0.0 0.0 0.0 0.0 26-27 0.175 0.0 0.0 0.0 0.0 28-29 0.175 0.0 0.0 0.0 0.0 30-31 0.175 0.0 0.0 0.0 0.0 32-33 0.175 0.0 0.0 0.0 0.0 34-35 0.175 0.0 0.0 0.0 0.0 36-37 0.2 0.0 0.0 0.0 0.0 38-39 0.2 0.0 0.0 0.0 0.0 40-41 0.2375 0.0 0.0 0.0 0.0 42-43 0.275 0.0 0.0 0.0 0.0 44-45 0.275 0.0 0.0 0.0 0.0 46-47 0.3 0.0 0.0 0.0 0.0 48-49 0.3 0.0 0.0 0.0 0.0 50-51 0.3 0.0 0.0 0.0 0.0 52-53 0.3 0.0 0.0 0.0 0.0 54-55 0.3 0.0 0.0 0.0 0.0 56-57 0.3125 0.0 0.0 0.0 0.0 58-59 0.325 0.0 0.0 0.0 0.0 60-61 0.36250000000000004 0.0 0.0 0.0 0.0 62-63 0.4 0.0 0.0 0.0 0.0 64-65 0.4 0.0 0.0 0.0 0.0 66-67 0.4125 0.0 0.0 0.0 0.0 68-69 0.425 0.0 0.0 0.0 0.0 70-71 0.4375 0.0 0.0 0.0 0.0 72-73 0.45 0.0 0.0 0.0 0.0 74-75 0.4625 0.0 0.0 0.0 0.0 76-77 0.475 0.0 0.0 0.0 0.0 78-79 0.475 0.0 0.0 0.0 0.0 80-81 0.4875 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Rejected 149925 READS because READLEN < 1 Read 149925 spots for ERR6133314.sra Written 149925 spots for ERR6133314.sra Rejected 149925 READS because READLEN < 1 Read 149925 spots for ERR6133314.sra Written 149925 spots for ERR6133314.sra Rejected 149925 READS because READLEN < 1 Read 149925 spots for ERR6133314.sra Written 149925 spots for ERR6133314.sra Rejected 149925 READS because READLEN < 1 Read 149925 spots for ERR6133314.sra Written 149925 spots for ERR6133314.sra Rejected 149925 READS because READLEN < 1 Read 149925 spots for ERR6133314.sra Written 149925 spots for ERR6133314.sra Rejected 149925 READS because READLEN < 1 Read 149925 spots for ERR6133314.sra Written 149925 spots for ERR6133314.sra Rejected 149925 READS because READLEN < 1 Read 149925 spots for ERR6133314.sra Written 149925 spots for ERR6133314.sra Rejected 149925 READS because READLEN < 1 Read 149925 spots for ERR6133314.sra Written 149925 spots for ERR6133314.sra Rejected 149925 READS because READLEN < 1 Read 149925 spots for ERR6133314.sra Written 149925 spots for ERR6133314.sra Rejected 149925 READS because READLEN < 1 Read 149925 spots for ERR6133314.sra Written 149925 spots for ERR6133314.sra Rejected 149925 READS because READLEN < 1 Read 149925 spots for ERR6133314.sra Written 149925 spots for ERR6133314.sra Rejected 149925 READS because READLEN < 1 Read 149925 spots for ERR6133314.sra Written 149925 spots for ERR6133314.sra Rejected 149925 READS because READLEN < 1 Read 149925 spots for ERR6133314.sra Written 149925 spots for ERR6133314.sra Rejected 149925 READS because READLEN < 1 Read 149925 spots for ERR6133314.sra Written 149925 spots for ERR6133314.sra Rejected 149925 READS because READLEN < 1 Read 149925 spots for ERR6133314.sra Written 149925 spots for ERR6133314.sra Rejected 149925 READS because READLEN < 1 Read 149925 spots for ERR6133314.sra Written 149925 spots for ERR6133314.sra Rejected 149925 READS because READLEN < 1 Read 149925 spots for ERR6133314.sra Written 149925 spots for ERR6133314.sra Rejected 149943 READS because READLEN < 1 Read 149943 spots for ERR6133314.sra Written 149943 spots for ERR6133314.sra Rejected 149925 READS because READLEN < 1 Read 149925 spots for ERR6133314.sra Written 149925 spots for ERR6133314.sra Rejected 149925 READS because READLEN < 1 Read 149925 spots for ERR6133314.sra Written 149925 spots for ERR6133314.sra SRR ids: ['ERR6133314.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_wwdfbepl ERR6133314.sra spots: 2998518 blocks: [[1, 149925], [149926, 299850], [299851, 449775], [449776, 599700], [599701, 749625], [749626, 899550], [899551, 1049475], [1049476, 1199400], [1199401, 1349325], [1349326, 1499250], [1499251, 1649175], [1649176, 1799100], [1799101, 1949025], [1949026, 2098950], [2098951, 2248875], [2248876, 2398800], [2398801, 2548725], [2548726, 2698650], [2698651, 2848575], [2848576, 2998518]] ERR6133314 file size 654625 ERR6133314 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 ERR6133314 ERR6133314_1.fastq Input file: ERR6133314_1.fastq trimmed: ERR6133314-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 00:26:47 2024 >> started Sat Dec 7 00:26:50 2024 >> done (2.390s) 2998518 reads processed; of these: 797 ( 0.03%) short reads filtered out after trimming by size control 68 ( 0.00%) empty reads filtered out after trimming by size control 2997653 (99.97%) reads available; of these: 54935 ( 1.83%) trimmed reads available after processing 2942718 (98.17%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 101 0.00% 19 355 0.01% 20 156 0.01% 21 245 0.01% 22 308 0.01% 23 92 0.00% 24 78 0.00% 25 54 0.00% 26 60 0.00% 27 96 0.00% 28 195 0.01% 29 182 0.01% 30 179 0.01% 31 275 0.01% 32 262 0.01% 33 104 0.00% 34 157 0.01% 35 1153 0.04% 36 593 0.02% 37 143 0.00% 38 246 0.01% 39 996 0.03% 40 651 0.02% 41 410 0.01% 42 34 0.00% 43 54 0.00% 44 59 0.00% 45 30 0.00% 46 30 0.00% 47 26 0.00% 48 39 0.00% 49 43 0.00% 50 43 0.00% 51 249 0.01% 52 60 0.00% 53 23 0.00% 54 28 0.00% 55 29 0.00% 56 40 0.00% 57 60 0.00% 58 95 0.00% 59 37 0.00% 60 127 0.00% 61 59 0.00% 62 2 0.00% 63 4 0.00% 64 5 0.00% 65 3 0.00% 66 10 0.00% 67 27 0.00% 68 58 0.00% 69 313 0.01% 70 23055 0.77% 71 21633 0.72% 72 26240 0.88% 73 20610 0.69% 74 21058 0.70% 75 23219 0.77% 76 19118 0.64% 77 18819 0.63% 78 21929 0.73% 79 24337 0.81% 80 21787 0.73% 81 26923 0.90% 82 29560 0.99% 83 27440 0.92% 84 27931 0.93% 85 126 0.00% 86 254 0.01% 87 407 0.01% 88 734 0.02% 89 1274 0.04% 90 2645 0.09% 91 8386 0.28% 92 28635 0.96% 93 2592855 86.50% 2997653 reads passed initial QC criterion=sequence-density sequence-density=0.99 sequence-density-rank=1 fanout-score=5.45 fanout-score-rank=17 prefix-density=3.01 prefix-fanout=1.8 sequence=AGGCTAAATACTCCTGGGTGACCGATAGCG criterion=fanout-score sequence-density=0.01 sequence-density-rank=32 fanout-score=243.61 fanout-score-rank=1 prefix-density=0.28 prefix-fanout=8.0 sequence=GAAGAAGAAAAGTTTTCTCAACATGGGGAGGAAGTCCCTCCGAAATTTGATTTGTTATTGTATTGTAAGGGGCTTTTTTAGTATTTATCTAAAGGAAGGAACAAACGAGGATAAGATAAAATTGCTTTAAATTTATTTTGCCCAAGTGGGATATATGGCATACTATTCTTTCCATTTTCATCTTTTTTTCTATTCCACTCCATCTAGATATAAGAAAGAACCCAATGCAATGAAATTCCACTAATATACAATACAAAAAAGAAGAATAGATACAGGGTCTCAAACCTTGCTATAGAGTTTTTGCTTTAAAGA Started job on | Dec 07 00:27:11 Started mapping on | Dec 07 00:27:11 Finished on | Dec 07 00:27:18 Mapping speed, Million of reads per hour | 1541.65 Number of input reads | 2997653 Average input read length | 90 UNIQUE READS: Uniquely mapped reads number | 1788480 Uniquely mapped reads % | 59.66% Average mapped length | 90.16 Number of splices: Total | 49499 Number of splices: Annotated (sjdb) | 39011 Number of splices: GT/AG | 46090 Number of splices: GC/AG | 1369 Number of splices: AT/AC | 50 Number of splices: Non-canonical | 1990 Mismatch rate per base, % | 0.60% Deletion rate per base | 0.07% Deletion average length | 1.82 Insertion rate per base | 0.04% Insertion average length | 1.77 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 993588 % of reads mapped to multiple loci | 33.15% Number of reads mapped to too many loci | 142794 % of reads mapped to too many loci | 4.76% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 2.13% % of reads unmapped: other | 0.30% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 215585 215585 215585 N_multimapping 993588 993588 993588 N_noFeature 163373 181164 1705924 N_ambiguous 75089 10015 603 UnstrandedReadsAssigned:1550018 PositiveStrandReadsAssigned:1597301 NegativeStrandReadsAssigned:81953 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133314 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: ERR6133314-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 2,997,653 reads, 2,248,555 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 978 rounds 52973 ERR6133314.ke.tsv 35125 ERR6133314.se.tsv 88098 total ==> ERR6133314.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 20 8.94633 PNS24243 293 194 0 0 KQK14069 1603 1504 2 0.816115 KQK14071 474 375 0 0 ==> ERR6133314.se.tsv <== BRADI_1g14170v3 2 BRADI_1g53295v3 120 BRADI_1g59795v3 11 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 25 BRADI_1g74790v3 12 BRADI_1g09890v3 0 BRADI_1g77505v3 46 BRADI_1g48960v3 0 ERR6133314 completed mapping pipeline successfully