Starting /dee2/code/volunteer_pipeline.sh ERR6133418 current disk space = 1547267178496 free memory = 1601551300 ERR6133418 SRAfilesize 35eb41747b4ddc9cd3c00d8a915c2ab2 ERR6133418.sra ERR6133418.sra file validated ERR6133418 is single end ERR6133418 is conventional basespace ERR6133418 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133418_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 fail #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 29.6265 33.0 27.0 33.0 15.0 37.0 2 33.622 33.0 33.0 37.0 27.0 37.0 3 34.0045 37.0 33.0 37.0 27.0 37.0 4 34.04625 37.0 33.0 37.0 27.0 37.0 5 34.1015 37.0 33.0 37.0 27.0 37.0 6 34.21625 37.0 33.0 37.0 27.0 37.0 7 35.4365 37.0 33.0 40.0 27.0 40.0 8 35.4125 37.0 33.0 40.0 27.0 40.0 9 35.6795 37.0 33.0 40.0 33.0 40.0 10-11 35.429125 37.0 33.0 40.0 33.0 40.0 12-13 35.413125 37.0 33.0 40.0 30.0 40.0 14-15 35.29075 37.0 33.0 37.0 27.0 40.0 16-17 35.00475 37.0 33.0 37.0 27.0 40.0 18-19 34.817375 37.0 33.0 37.0 27.0 40.0 20-21 34.148624999999996 37.0 33.0 37.0 27.0 40.0 22-23 33.9195 37.0 33.0 37.0 24.5 40.0 24-25 33.66225 37.0 33.0 37.0 24.5 40.0 26-27 33.392624999999995 37.0 33.0 37.0 22.0 40.0 28-29 32.931875000000005 37.0 33.0 37.0 22.0 40.0 30-31 32.922 37.0 33.0 37.0 22.0 40.0 32-33 32.510374999999996 35.0 33.0 37.0 22.0 40.0 34-35 31.641375 33.0 27.0 37.0 18.5 40.0 36-37 31.2625 33.0 27.0 37.0 15.0 40.0 38-39 31.69675 33.0 27.0 37.0 22.0 40.0 40-41 31.41375 33.0 27.0 37.0 22.0 40.0 42-43 31.146 33.0 27.0 37.0 18.5 40.0 44-45 30.931 33.0 27.0 37.0 18.5 38.5 46-47 30.344375 33.0 27.0 37.0 15.0 37.0 48-49 30.0895 33.0 27.0 37.0 15.0 37.0 50-51 29.815375 33.0 27.0 37.0 15.0 37.0 52-53 29.655375 33.0 27.0 37.0 15.0 37.0 54-55 29.68925 33.0 27.0 37.0 15.0 37.0 56-57 28.78075 33.0 27.0 37.0 15.0 37.0 58-59 28.60325 33.0 27.0 33.0 15.0 37.0 60-61 28.374 33.0 27.0 33.0 15.0 37.0 62-63 28.10475 33.0 27.0 33.0 15.0 37.0 64-65 27.43125 33.0 22.0 33.0 10.5 37.0 66-67 26.864874999999998 33.0 22.0 33.0 6.0 37.0 68-69 26.391 27.0 22.0 33.0 10.5 35.0 70-71 28.222858003010536 33.0 27.0 33.0 15.0 37.0 72-73 28.668153188653328 33.0 27.0 33.0 15.0 37.0 74-75 28.520297100256087 33.0 27.0 33.0 15.0 37.0 76-77 28.34507408306138 33.0 27.0 33.0 15.0 37.0 78-79 27.740232009809162 33.0 27.0 33.0 15.0 37.0 80-81 26.90067944263318 33.0 24.5 33.0 6.0 37.0 82-83 26.193623403747267 33.0 22.0 33.0 4.0 37.0 84-85 25.45372490886048 33.0 22.0 33.0 2.0 37.0 86-87 24.6310425921087 33.0 15.0 33.0 2.0 37.0 88-89 23.79723020642801 30.0 15.0 33.0 2.0 37.0 90-91 22.77279853671283 27.0 4.0 33.0 2.0 37.0 92-93 21.176509014894172 27.0 2.0 33.0 2.0 35.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 96.0 21 105.0 22 130.0 23 140.0 24 166.0 25 200.0 26 237.0 27 236.0 28 222.0 29 253.0 30 268.0 31 284.0 32 316.0 33 278.0 34 279.0 35 317.0 36 274.0 37 166.0 38 33.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 66.9 9.175 9.075 14.85 2 49.625 24.425 14.875 11.075 3 33.625 33.6 18.5 14.274999999999999 4 23.674999999999997 32.125 21.95 22.25 5 27.150000000000002 24.8 27.825 20.225 6 17.925 38.550000000000004 26.6 16.925 7 36.825 26.0 20.45 16.725 8 22.975 26.325 25.624999999999996 25.074999999999996 9 20.325 33.975 27.150000000000002 18.55 10-11 21.3875 29.012500000000003 30.9375 18.6625 12-13 21.6 29.6875 27.5875 21.125 14-15 19.075 32.6125 29.7875 18.525 16-17 25.025 27.8875 24.45 22.6375 18-19 24.75 23.8625 32.337500000000006 19.05 20-21 26.05 23.599999999999998 31.5125 18.8375 22-23 29.525000000000002 20.9875 30.062499999999996 19.425 24-25 22.9375 23.5625 30.099999999999998 23.400000000000002 26-27 26.1 23.075000000000003 28.675 22.15 28-29 22.900000000000002 28.050000000000004 30.2375 18.8125 30-31 31.4625 25.0125 25.637500000000003 17.8875 32-33 26.487500000000004 23.2375 27.925 22.35 34-35 21.224999999999998 34.2875 25.587500000000002 18.9 36-37 25.6125 24.349999999999998 25.775 24.2625 38-39 31.85 23.200000000000003 25.7625 19.1875 40-41 23.95 23.1625 33.2125 19.675 42-43 27.224999999999998 29.475 25.637500000000003 17.6625 44-45 24.637500000000003 25.0625 30.6875 19.6125 46-47 27.0625 24.3625 25.687500000000004 22.8875 48-49 26.3625 23.5125 27.5625 22.5625 50-51 20.8875 29.262500000000003 26.275 23.575 52-53 22.237499999999997 25.75 24.6875 27.325 54-55 21.05 25.387500000000003 31.025000000000002 22.537499999999998 56-57 26.325 29.775000000000002 26.1625 17.7375 58-59 21.875 29.462500000000002 28.925 19.7375 60-61 29.675 26.4625 25.662499999999998 18.2 62-63 20.325 26.85 31.25 21.575 64-65 20.0125 35.5375 26.325 18.125 66-67 25.937500000000004 30.25 25.5125 18.3 68-69 20.6875 25.624999999999996 29.7125 23.974999999999998 70-71 22.68970698722765 28.512396694214875 25.131480090157776 23.6664162283997 72-73 26.08859803674805 25.74880442990184 30.732443996979615 17.4301535363705 74-75 26.29648368327852 29.079180369339742 27.826966860612195 16.797369086769542 76-77 22.39052953156823 24.529022403258654 25.534623217922608 27.54582484725051 78-79 27.42265405267195 27.01355152135004 27.38430069036052 18.179493735617488 80-81 21.20627572016461 36.44547325102881 25.900205761316876 16.44804526748971 82-83 24.02328589909444 25.666235446313067 25.420439844760672 24.890038809831825 84-85 20.070376645379902 27.74664407663235 31.12211651244624 21.06086276554151 86-87 20.34230467729292 30.03658217925268 25.93415207734518 23.686961066109223 88-89 20.45989025346224 26.103997909589754 31.016461980663706 22.419649856284295 90-91 26.24771361379671 30.297883459628956 23.856806898353803 19.597596028220536 92-93 19.453880324013586 28.67781552129605 30.023517115233865 21.84478703945649 >>END_MODULE >>Per sequence GC content fail #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 1.5 17 4.0 18 3.5 19 2.0 20 3.5 21 5.5 22 6.5 23 6.0 24 6.0 25 6.0 26 10.0 27 18.5 28 24.5 29 26.5 30 24.0 31 32.5 32 50.0 33 62.0 34 59.0 35 74.0 36 103.5 37 165.5 38 218.5 39 202.0 40 217.5 41 239.0 42 230.0 43 228.5 44 196.0 45 166.5 46 148.0 47 124.5 48 119.5 49 130.0 50 137.5 51 132.5 52 132.5 53 141.5 54 241.5 55 240.0 56 107.5 57 66.5 58 60.5 59 43.0 60 26.0 61 22.5 62 18.5 63 11.5 64 9.5 65 8.0 66 5.5 67 4.5 68 9.0 69 11.5 70 7.5 71 5.0 72 2.5 73 0.0 74 2.0 75 2.5 76 0.5 77 0.0 78 0.0 79 0.0 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 14.0 71 10.0 72 6.0 73 11.0 74 12.0 75 15.0 76 8.0 77 9.0 78 8.0 79 13.0 80 12.0 81 11.0 82 12.0 83 13.0 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 3827.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 70.85000000000001 #Duplication Level Percentage of deduplicated Percentage of total 1 91.84897671136203 65.075 2 4.199011997177135 5.949999999999999 3 1.058574453069866 2.25 4 0.7057163020465773 2.0 5 0.529287226534933 1.875 6 0.2822865208186309 1.2 7 0.2822865208186309 1.4000000000000001 8 0.07057163020465773 0.4 9 0.1058574453069866 0.675 >10 0.8821453775582216 11.924999999999999 >50 0.0 0.0 >100 0.035285815102328866 7.249999999999999 >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 290 7.249999999999999 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 38 0.95 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 37 0.9249999999999999 No Hit CAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTG 33 0.8250000000000001 No Hit CAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGATAT 31 0.775 No Hit GGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAA 30 0.75 No Hit TCTCATGGAGAGTTCGATCCTGGCTCAGGATGAACGCTGGCGGCATGCTT 29 0.7250000000000001 No Hit CAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCT 27 0.675 No Hit CAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTC 26 0.65 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 22 0.5499999999999999 No Hit TCAAAAGAGGAAAGGCTTGCGGTGGATACCTAGGCACCCAGAGACGAGGA 22 0.5499999999999999 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 20 0.5 No Hit CAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTT 14 0.35000000000000003 No Hit GGATTTGTTAAATCAAATCCTTGGTTTAATAACGAACGGTGTTAACTTAC 14 0.35000000000000003 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 13 0.325 No Hit GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 12 0.3 No Hit GTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAG 12 0.3 No Hit GGAAAAGAAAGCAAAAGCGATTCCCGTAGTAGCGGCGAGCGAAATGGGAG 12 0.3 No Hit GGGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCG 11 0.27499999999999997 No Hit GCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCT 11 0.27499999999999997 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 11 0.27499999999999997 No Hit GTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCT 11 0.27499999999999997 No Hit AACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGA 11 0.27499999999999997 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 10 0.25 No Hit CTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGT 10 0.25 No Hit GGGTGAGAGCCCCGTCCGGCCCGGACCCTGTCGCCCCACGAGGCGCCGTC 10 0.25 No Hit GGGTTGTTTGGGAATGCAGCCCAAATCGGGCGGTAGACTCCGTCCAAGGC 9 0.22499999999999998 No Hit GGGTTGTGGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGA 9 0.22499999999999998 No Hit GGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGCA 9 0.22499999999999998 No Hit GTCAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAAT 8 0.2 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 8 0.2 No Hit GGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCTAAATGGATTC 7 0.17500000000000002 No Hit GGTATTAGTACTATGGCGTTCAACCTAAATGGATTCAATTTCAACCAATC 7 0.17500000000000002 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 7 0.17500000000000002 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 7 0.17500000000000002 No Hit GTAACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCA 7 0.17500000000000002 No Hit GTACTATGGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTT 7 0.17500000000000002 No Hit GATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAAT 7 0.17500000000000002 No Hit AGTCAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAA 7 0.17500000000000002 No Hit ATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAACGTAATGC 6 0.15 No Hit ATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGG 6 0.15 No Hit GTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAA 6 0.15 No Hit TGGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGA 6 0.15 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 6 0.15 No Hit GGAGTATCCTTGATATATAAATATATAGATAAATAGATTTAAATGGAAAA 6 0.15 No Hit CACGAACGTAATGCTCACAACTTCCCTCTAGATCTAGCTGCTCTTGAAGT 6 0.15 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 6 0.15 No Hit GGGCACGTGGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAA 5 0.125 No Hit GGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAAC 5 0.125 No Hit GGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCG 5 0.125 No Hit GGTGGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGC 5 0.125 No Hit GAAGCCTGTGTACAAGCTCGTAACGAAGGGCGCGATCTTGCTCGTGAAGG 5 0.125 No Hit GGGGTTGTGGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTG 5 0.125 No Hit GGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCTAAA 5 0.125 No Hit GAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTG 5 0.125 No Hit GTATTAGTACTATGGCGTTCAACCTAAATGGATTCAATTTCAACCAATCT 5 0.125 No Hit GTACAAGCTCGTAACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAAT 5 0.125 No Hit CAACAACTCTCGTTCTTTACACTTCTTCTTGGCTGCTTGGCCTGTAGTAG 5 0.125 No Hit GCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGATA 5 0.125 No Hit GGGGTACTCTTTCTACACCTATATTAGTATTAGTACCGAAATGCTTTAAA 5 0.125 No Hit ATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATT 5 0.125 No Hit GGGGCACGTGGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTA 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 0.0 0.0 0.0 0.0 0.0 66-67 0.0 0.0 0.0 0.0 0.0 68-69 0.0 0.0 0.0 0.0 0.0 70-71 0.0 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 0.037500000000000006 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 fail #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position GGAGAGC 45 3.6379788E-11 77.23333 2 GCAATAC 45 3.6379788E-11 77.23333 7 CAATACA 45 3.6379788E-11 77.23333 8 GAGCAAT 45 3.6379788E-11 77.23333 5 AGCAATA 45 3.6379788E-11 77.23333 6 GGGAGAG 50 9.094947E-11 69.51 1 AGAGCAA 50 9.094947E-11 69.51 4 GAGAGCA 50 9.094947E-11 69.51 3 AATACAA 50 9.094947E-11 69.51 9 CACTAGC 35 1.2191595E-7 43.99367 86-87 GAAGCGG 40 7.4760464E-9 43.44375 32-33 GCGAAGC 40 7.4760464E-9 43.44375 30-31 GGCGAAG 40 7.4760464E-9 43.44375 30-31 AAGCGGT 40 7.4760464E-9 43.44375 34-35 TAGGCGA 40 7.4760464E-9 43.44375 28-29 GTTGAGT 45 2.1163942E-8 38.616665 38-39 GGTTGAG 45 2.1163942E-8 38.616665 38-39 GCTAGGC 45 2.1163942E-8 38.616665 26-27 GAGTGCC 45 2.1163942E-8 38.616665 42-43 GCGGTTG 45 2.1163942E-8 38.616665 36-37 >>END_MODULE Rejected 72212 READS because READLEN < 1 Read 72212 spots for ERR6133418.sra Written 72212 spots for ERR6133418.sra Rejected 72212 READS because READLEN < 1 Read 72212 spots for ERR6133418.sra Written 72212 spots for ERR6133418.sra Rejected 72212 READS because READLEN < 1 Read 72212 spots for ERR6133418.sra Written 72212 spots for ERR6133418.sra Rejected 72212 READS because READLEN < 1 Read 72212 spots for ERR6133418.sra Written 72212 spots for ERR6133418.sra Rejected 72212 READS because READLEN < 1 Read 72212 spots for ERR6133418.sra Written 72212 spots for ERR6133418.sra Rejected 72212 READS because READLEN < 1 Read 72212 spots for ERR6133418.sra Written 72212 spots for ERR6133418.sra Rejected 72212 READS because READLEN < 1 Read 72212 spots for ERR6133418.sra Written 72212 spots for ERR6133418.sra Rejected 72212 READS because READLEN < 1 Read 72212 spots for ERR6133418.sra Written 72212 spots for ERR6133418.sra Rejected 72212 READS because READLEN < 1 Read 72212 spots for ERR6133418.sra Written 72212 spots for ERR6133418.sra Rejected 72212 READS because READLEN < 1 Read 72212 spots for ERR6133418.sra Written 72212 spots for ERR6133418.sra Rejected 72212 READS because READLEN < 1 Read 72212 spots for ERR6133418.sra Written 72212 spots for ERR6133418.sra Rejected 72212 READS because READLEN < 1 Read 72212 spots for ERR6133418.sra Written 72212 spots for ERR6133418.sra Rejected 72212 READS because READLEN < 1 Read 72212 spots for ERR6133418.sra Written 72212 spots for ERR6133418.sra Rejected 72212 READS because READLEN < 1 Read 72212 spots for ERR6133418.sra Written 72212 spots for ERR6133418.sra Rejected 72212 READS because READLEN < 1 Read 72212 spots for ERR6133418.sra Written 72212 spots for ERR6133418.sra Rejected 72212 READS because READLEN < 1 Read 72212 spots for ERR6133418.sra Written 72212 spots for ERR6133418.sra Rejected 72221 READS because READLEN < 1 Read 72221 spots for ERR6133418.sra Written 72221 spots for ERR6133418.sra Rejected 72212 READS because READLEN < 1 Read 72212 spots for ERR6133418.sra Written 72212 spots for ERR6133418.sra Rejected 72212 READS because READLEN < 1 Read 72212 spots for ERR6133418.sra Written 72212 spots for ERR6133418.sra Rejected 72212 READS because READLEN < 1 Read 72212 spots for ERR6133418.sra Written 72212 spots for ERR6133418.sra SRR ids: ['ERR6133418.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_szb9gk77 ERR6133418.sra spots: 1444249 blocks: [[1, 72212], [72213, 144424], [144425, 216636], [216637, 288848], [288849, 361060], [361061, 433272], [433273, 505484], [505485, 577696], [577697, 649908], [649909, 722120], [722121, 794332], [794333, 866544], [866545, 938756], [938757, 1010968], [1010969, 1083180], [1083181, 1155392], [1155393, 1227604], [1227605, 1299816], [1299817, 1372028], [1372029, 1444249]] ERR6133418 file size 317458 ERR6133418 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 ERR6133418 ERR6133418_1.fastq Input file: ERR6133418_1.fastq trimmed: ERR6133418-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 04:22:46 2024 >> started Sat Dec 7 04:22:47 2024 >> done (0.968s) 1444249 reads processed; of these: 27 ( 0.00%) short reads filtered out after trimming by size control 4 ( 0.00%) empty reads filtered out after trimming by size control 1444218 (100.00%) reads available; of these: 385885 (26.72%) trimmed reads available after processing 1058333 (73.28%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 5 0.00% 19 11 0.00% 20 1 0.00% 21 1 0.00% 22 6 0.00% 23 3 0.00% 24 0 0.00% 25 4 0.00% 26 3 0.00% 27 4 0.00% 28 22 0.00% 29 4 0.00% 30 4 0.00% 31 6 0.00% 32 14 0.00% 33 10 0.00% 34 3 0.00% 35 2 0.00% 36 1 0.00% 37 3 0.00% 38 7 0.00% 39 32 0.00% 40 14 0.00% 41 10 0.00% 42 6 0.00% 43 24 0.00% 44 17 0.00% 45 17 0.00% 46 38 0.00% 47 42 0.00% 48 76 0.01% 49 96 0.01% 50 146 0.01% 51 195 0.01% 52 290 0.02% 53 378 0.03% 54 562 0.04% 55 750 0.05% 56 1062 0.07% 57 1593 0.11% 58 1123 0.08% 59 1391 0.10% 60 1708 0.12% 61 1982 0.14% 62 2234 0.15% 63 2377 0.16% 64 2599 0.18% 65 2736 0.19% 66 2749 0.19% 67 2859 0.20% 68 2688 0.19% 69 2396 0.17% 70 7002 0.48% 71 7337 0.51% 72 8886 0.62% 73 9324 0.65% 74 10126 0.70% 75 10976 0.76% 76 12010 0.83% 77 13393 0.93% 78 13806 0.96% 79 14828 1.03% 80 15446 1.07% 81 17534 1.21% 82 18762 1.30% 83 19879 1.38% 84 22531 1.56% 85 19718 1.37% 86 20009 1.39% 87 22398 1.55% 88 27132 1.88% 89 28506 1.97% 90 30481 2.11% 91 32867 2.28% 92 27822 1.93% 93 1001141 69.32% 1444218 reads passed initial QC criterion=sequence-density sequence-density=1.64 sequence-density-rank=1 fanout-score=2.11 fanout-score-rank=27 prefix-density=1.69 prefix-fanout=2.0 sequence=CAAGGCTAAATAC criterion=fanout-score sequence-density=0.12 sequence-density-rank=20 fanout-score=82.80 fanout-score-rank=1 prefix-density=9.93 prefix-fanout=1.0 sequence=GATGGCTAAAGGCCAGTAGCCGA Started job on | Dec 07 04:23:04 Started mapping on | Dec 07 04:23:04 Finished on | Dec 07 04:23:10 Mapping speed, Million of reads per hour | 866.53 Number of input reads | 1444218 Average input read length | 89 UNIQUE READS: Uniquely mapped reads number | 586544 Uniquely mapped reads % | 40.61% Average mapped length | 88.86 Number of splices: Total | 23468 Number of splices: Annotated (sjdb) | 18374 Number of splices: GT/AG | 22359 Number of splices: GC/AG | 453 Number of splices: AT/AC | 27 Number of splices: Non-canonical | 629 Mismatch rate per base, % | 0.89% Deletion rate per base | 0.04% Deletion average length | 1.80 Insertion rate per base | 0.02% Insertion average length | 1.68 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 758105 % of reads mapped to multiple loci | 52.49% Number of reads mapped to too many loci | 31215 % of reads mapped to too many loci | 2.16% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 4.34% % of reads unmapped: other | 0.40% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 99569 99569 99569 N_multimapping 758105 758105 758105 N_noFeature 49419 56832 559470 N_ambiguous 23773 4094 141 UnstrandedReadsAssigned:513352 PositiveStrandReadsAssigned:525618 NegativeStrandReadsAssigned:26933 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=86 echo kmer=81 ERR6133418 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: ERR6133418-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 1,444,218 reads, 953,300 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,072 rounds 52973 ERR6133418.ke.tsv 35125 ERR6133418.se.tsv 88098 total ==> ERR6133418.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 17 16.8054 PNS24243 293 194 0 0 KQK14069 1603 1504 14 12.6251 KQK14071 474 375 0 0 ==> ERR6133418.se.tsv <== BRADI_1g14170v3 14 BRADI_1g53295v3 5 BRADI_1g59795v3 7 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 8 BRADI_1g74790v3 6 BRADI_1g09890v3 0 BRADI_1g77505v3 9 BRADI_1g48960v3 0 ERR6133418 completed mapping pipeline successfully