Starting /dee2/code/volunteer_pipeline.sh ERR6133498 current disk space = 1544562724864 free memory = 1437631172 ERR6133498 SRAfilesize 37ad99377e1a54c6595407066f93126c ERR6133498.sra ERR6133498.sra file validated ERR6133498 is single end ERR6133498 is conventional basespace ERR6133498 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133498_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 35.6045 37.0 33.0 37.0 33.0 37.0 2 36.5585 37.0 37.0 37.0 37.0 37.0 3 35.861 37.0 37.0 37.0 33.0 37.0 4 35.20575 37.0 37.0 37.0 33.0 37.0 5 35.13 37.0 37.0 37.0 33.0 37.0 6 35.475 37.0 37.0 37.0 33.0 37.0 7 37.2425 37.0 37.0 40.0 33.0 40.0 8 37.324 37.0 37.0 40.0 33.0 40.0 9 37.4305 37.0 37.0 40.0 33.0 40.0 10-11 37.41875 37.0 37.0 40.0 33.0 40.0 12-13 37.383750000000006 37.0 37.0 40.0 33.0 40.0 14-15 37.265625 37.0 37.0 40.0 33.0 40.0 16-17 37.13425 37.0 37.0 40.0 33.0 40.0 18-19 37.029875000000004 37.0 37.0 40.0 33.0 40.0 20-21 36.793375 37.0 37.0 40.0 33.0 40.0 22-23 36.812 37.0 37.0 40.0 33.0 40.0 24-25 36.578 37.0 37.0 40.0 33.0 40.0 26-27 36.952124999999995 37.0 37.0 40.0 33.0 40.0 28-29 36.961124999999996 37.0 37.0 40.0 33.0 40.0 30-31 36.758125 37.0 37.0 40.0 33.0 40.0 32-33 36.67275 37.0 37.0 40.0 33.0 40.0 34-35 36.58725 37.0 37.0 40.0 33.0 40.0 36-37 36.546875 37.0 37.0 40.0 33.0 40.0 38-39 36.323 37.0 37.0 40.0 33.0 40.0 40-41 36.141999999999996 37.0 37.0 40.0 33.0 40.0 42-43 36.0995 37.0 37.0 40.0 33.0 40.0 44-45 36.177875 37.0 37.0 40.0 33.0 40.0 46-47 35.983625 37.0 37.0 37.0 33.0 40.0 48-49 35.91925 37.0 37.0 37.0 33.0 40.0 50-51 35.7795 37.0 35.0 37.0 33.0 40.0 52-53 35.564750000000004 37.0 33.0 37.0 33.0 40.0 54-55 35.484750000000005 37.0 33.0 37.0 33.0 40.0 56-57 35.297625 37.0 33.0 37.0 33.0 38.5 58-59 34.35925 37.0 33.0 37.0 30.0 37.0 60-61 34.76675 37.0 33.0 37.0 33.0 37.0 62-63 34.730625 37.0 33.0 37.0 33.0 37.0 64-65 34.641375 37.0 33.0 37.0 33.0 37.0 66-67 34.65175 37.0 33.0 37.0 33.0 37.0 68-69 33.9135 35.0 33.0 37.0 30.0 37.0 70-71 34.06227512562814 35.0 33.0 37.0 30.0 37.0 72-73 34.356311719160196 37.0 33.0 37.0 33.0 37.0 74-75 34.401475093244656 37.0 33.0 37.0 33.0 37.0 76-77 34.25752369977424 37.0 33.0 37.0 30.0 37.0 78-79 34.22442822247445 37.0 33.0 37.0 27.0 37.0 80-81 34.17820033293524 37.0 33.0 37.0 27.0 37.0 82-83 34.0987811242131 37.0 33.0 37.0 27.0 37.0 84-85 33.91149711178274 37.0 33.0 37.0 27.0 37.0 86-87 33.825006608511764 37.0 33.0 37.0 27.0 37.0 88-89 33.84655035685964 37.0 33.0 37.0 27.0 37.0 90-91 33.57626222574676 37.0 33.0 37.0 27.0 37.0 92-93 33.39109172614327 33.0 33.0 37.0 27.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 12.0 21 12.0 22 14.0 23 16.0 24 21.0 25 22.0 26 34.0 27 37.0 28 38.0 29 60.0 30 87.0 31 105.0 32 118.0 33 179.0 34 264.0 35 465.0 36 962.0 37 1008.0 38 525.0 39 21.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 90.05 2.625 2.275 5.050000000000001 2 73.575 15.25 6.875000000000001 4.3 3 37.5 37.5 14.2 10.8 4 35.425000000000004 26.700000000000003 18.275 19.6 5 25.900000000000002 31.95 24.975 17.175 6 19.7 36.65 26.25 17.4 7 36.05 29.575000000000003 18.825 15.55 8 30.425 30.55 24.375 14.649999999999999 9 25.75 28.4 28.525 17.325 10-11 25.5125 27.762500000000003 27.9375 18.787499999999998 12-13 27.5625 25.724999999999998 27.575 19.1375 14-15 22.75 30.7125 29.2 17.3375 16-17 24.0 31.3 25.8125 18.8875 18-19 24.7 26.674999999999997 27.375 21.25 20-21 25.872202075778418 26.072277103913965 28.2856071026635 19.769913717644116 22-23 26.7125 24.5 26.375 22.412499999999998 24-25 24.8125 24.6875 28.8375 21.6625 26-27 24.325 26.1125 32.0125 17.549999999999997 28-29 24.875 27.3 28.1875 19.6375 30-31 27.650000000000002 26.4125 25.637500000000003 20.3 32-33 25.25 27.237499999999997 27.525 19.9875 34-35 25.7375 26.3625 27.5875 20.3125 36-37 25.84073009126141 24.090511313914238 27.753469183647955 22.315289411176398 38-39 25.779391511205706 25.566545636659573 30.712407662451486 17.941655189683235 40-41 26.64247278187962 26.404705293455137 26.016768864973095 20.936053059692153 42-43 24.752970606629145 28.755472170106316 26.904315196998123 19.587242026266416 44-45 23.6125 26.1 29.049999999999997 21.2375 46-47 23.7625 23.9125 28.025 24.3 48-49 25.025 25.137500000000003 31.05 18.787499999999998 50-51 24.75 26.85 29.299999999999997 19.1 52-53 23.82025284766554 28.00100137689323 27.825760420578295 20.352985354862938 54-55 23.4375 28.9125 29.312500000000004 18.337500000000002 56-57 26.224999999999998 24.7875 27.962500000000002 21.025 58-59 23.3625 24.1625 29.575000000000003 22.900000000000002 60-61 24.5 24.95 30.1375 20.4125 62-63 22.05 29.425 30.75 17.775 64-65 23.2125 28.1625 28.3375 20.2875 66-67 24.099999999999998 27.6 29.037499999999998 19.2625 68-69 22.9375 27.787499999999998 28.175 21.099999999999998 70-71 25.062656641604008 24.774436090225564 28.057644110275685 22.105263157894736 72-73 26.410094637223974 24.593059936908517 28.340694006309146 20.65615141955836 74-75 23.807706982067913 28.220780872440542 28.716774767900294 19.25473737759125 76-77 22.663761056274836 26.650429432124085 29.060376874759648 21.62543263684143 78-79 23.00953362535429 24.60706003607318 31.460963669157433 20.9224426694151 80-81 22.701931803448723 28.84740049267471 30.597692207960588 17.852975495915985 82-83 22.83176593521421 25.69226750261233 29.806687565308255 21.669278996865206 84-85 24.5778364116095 23.49604221635884 30.831134564643797 21.094986807387865 86-87 23.143008194554586 26.790906687813905 32.157018239492466 17.909066878139043 88-89 20.750726936293947 29.962992334126355 29.090668781390434 20.195611948189267 90-91 27.33280465239228 25.019825535289453 28.9056304520222 18.741739360296062 92-93 21.623050489029872 30.306634945810202 29.249273063706056 18.821041501453873 >>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 5.5 18 6.0 19 0.5 20 1.0 21 5.0 22 5.0 23 5.5 24 8.0 25 6.0 26 8.0 27 12.0 28 23.0 29 33.5 30 39.5 31 48.5 32 61.5 33 78.0 34 78.5 35 83.5 36 107.5 37 131.5 38 167.5 39 174.5 40 179.5 41 205.5 42 202.5 43 195.5 44 186.0 45 191.0 46 215.5 47 196.5 48 163.5 49 167.5 50 151.0 51 145.0 52 160.0 53 175.5 54 153.0 55 93.0 56 68.5 57 63.0 58 48.0 59 35.5 60 35.0 61 32.0 62 35.0 63 31.0 64 23.0 65 19.0 66 15.0 67 15.0 68 14.5 69 12.0 70 7.5 71 4.0 72 4.5 73 4.0 74 2.0 75 0.5 76 0.5 77 1.0 78 1.0 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 0.0375 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 0.1625 40-41 0.11249999999999999 42-43 0.0625 44-45 0.0 46-47 0.0 48-49 0.0 50-51 0.0 52-53 0.13749999999999998 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 11.0 72 13.0 73 18.0 74 13.0 75 18.0 76 13.0 77 10.0 78 6.0 79 16.0 80 11.0 81 14.0 82 18.0 83 22.0 84 14.0 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 3783.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 74.45 #Duplication Level Percentage of deduplicated Percentage of total 1 90.93351242444594 67.7 2 5.204835460040296 7.75 3 1.3767629281396911 3.075 4 0.7051712558764271 2.1 5 0.33579583613163194 1.25 6 0.20147750167897915 0.8999999999999999 7 0.10073875083948958 0.525 8 0.1343183344526528 0.8 9 0.0671591672263264 0.44999999999999996 >10 0.9066487575554063 13.450000000000001 >50 0.0335795836131632 2.0 >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 GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 80 2.0 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 47 1.175 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 38 0.95 No Hit GGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGC 38 0.95 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 37 0.9249999999999999 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 34 0.8500000000000001 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 32 0.8 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 28 0.7000000000000001 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 24 0.6 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 22 0.5499999999999999 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 20 0.5 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 18 0.44999999999999996 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 16 0.4 No Hit GGCCTGTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCG 15 0.375 No Hit GGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAA 15 0.375 No Hit GGGAGTATTATGAAAGGAGATTAATCATAGATTATCAAAAACCCTAGAAA 15 0.375 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 14 0.35000000000000003 No Hit GTATGGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGATTA 14 0.35000000000000003 No Hit GGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACT 14 0.35000000000000003 No Hit GTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAA 12 0.3 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 12 0.3 No Hit GGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCG 11 0.27499999999999997 No Hit GGAGTCCCATATATATATGTATAAGATGCCAGCCCGGTTTCGTCAACCAT 11 0.27499999999999997 No Hit GGTTTTGAAAAGGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAA 11 0.27499999999999997 No Hit GGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTT 10 0.25 No Hit GGATATCGTGTGTGTACATTTGAATGTACCGACATGGGCTCGAGGAGCAT 10 0.25 No Hit GGAGTATCCTTGATATATAAATATATAGATAAATAGATTTAAATGGAAAA 10 0.25 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 10 0.25 No Hit GGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTC 9 0.22499999999999998 No Hit GGTGGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGC 9 0.22499999999999998 No Hit GGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTTGAAATCGGA 8 0.2 No Hit CAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAACGAAGGG 8 0.2 No Hit GGAAATGGTGAAGATGATACGAATATGCCGGCCGGGTGCTGATATTGTGA 8 0.2 No Hit GGGCCATTTGTGGCATGCAGGAAGAGCCCGAGCTGCTGCAGCAGGTTTTG 8 0.2 No Hit GGAACAAACGAGGATAAGATAAAATTTCTTTAAATTTATTTTGCCCAAGT 7 0.17500000000000002 No Hit CAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTC 7 0.17500000000000002 No Hit GGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTTG 7 0.17500000000000002 No Hit GGGCACGTGGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAA 6 0.15 No Hit GGGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTT 6 0.15 No Hit GGGAGGGGCTTGGCTACAATTCCGAATACGCTATTACATGTTTGCGCTAG 6 0.15 No Hit GGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAA 6 0.15 No Hit GGAGATGACCCTACAGATCGATCCATTGATGTGGATGCGATGCCATGGAG 6 0.15 No Hit GGGCACTGTAGCCAGTGTGTCAGTCGTTGTTAAATTACAGGTTGAGATCA 6 0.15 No Hit GGCTTTAGAAGCCTGTGTACAAGCTCGTAACGAAGGGCGCGATCTTGCTC 5 0.125 No Hit GGAGCACAACAAGGTAATTTGCCCGTCCCAGAAGGTTGCACTGACCGGAA 5 0.125 No Hit GCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCT 5 0.125 No Hit GGGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACG 5 0.125 No Hit GAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTA 5 0.125 No Hit GAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAAT 5 0.125 No Hit GGAATAAGAATAAATCGCAACTCCTTTCCACTACACATAAAAATTGATTT 5 0.125 No Hit GGGCAAGGAGAAGTACAAGTGCGGATCCAACGTCTTCTGGAAATGGTGAA 5 0.125 No Hit GGGACGCATGCAACGACCATCTACATATAGCTACTCGATCTACCGCTACC 5 0.125 No Hit GGAGAAGTACAAGTGCGGATCCAACGTCTTCTGGAAATGGTGAAGATGAT 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 0.0125 0.0 0.0 0.0 0.0 20-21 0.05 0.0 0.0 0.0 0.0 22-23 0.05 0.0 0.0 0.0 0.0 24-25 0.05 0.0 0.0 0.0 0.0 26-27 0.05 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 0.075 0.0 0.0 0.0 0.0 34-35 0.1 0.0 0.0 0.0 0.0 36-37 0.1 0.0 0.0 0.0 0.0 38-39 0.1 0.0 0.0 0.0 0.0 40-41 0.1 0.0 0.0 0.0 0.0 42-43 0.1 0.0 0.0 0.0 0.0 44-45 0.1 0.0 0.0 0.0 0.0 46-47 0.1 0.0 0.0 0.0 0.0 48-49 0.1 0.0 0.0 0.0 0.0 50-51 0.1 0.0 0.0 0.0 0.0 52-53 0.1 0.0 0.0 0.0 0.0 54-55 0.1 0.0 0.0 0.0 0.0 56-57 0.1 0.0 0.0 0.0 0.0 58-59 0.1 0.0 0.0 0.0 0.0 60-61 0.1 0.0 0.0 0.0 0.0 62-63 0.1 0.0 0.0 0.0 0.0 64-65 0.1 0.0 0.0 0.0 0.0 66-67 0.1 0.0 0.0 0.0 0.0 68-69 0.1 0.0 0.0 0.0 0.0 70-71 0.1 0.0 0.0 0.0 0.0 72-73 0.1 0.0 0.0 0.0 0.0 74-75 0.1 0.0 0.0 0.0 0.0 76-77 0.1 0.0 0.0 0.0 0.0 78-79 0.1 0.0 0.0 0.0 0.0 80-81 0.1 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Rejected 240308 READS because READLEN < 1 Read 240308 spots for ERR6133498.sra Written 240308 spots for ERR6133498.sra Rejected 240308 READS because READLEN < 1 Read 240308 spots for ERR6133498.sra Written 240308 spots for ERR6133498.sra Rejected 240308 READS because READLEN < 1 Read 240308 spots for ERR6133498.sra Written 240308 spots for ERR6133498.sra Rejected 240308 READS because READLEN < 1 Read 240308 spots for ERR6133498.sra Written 240308 spots for ERR6133498.sra Rejected 240308 READS because READLEN < 1 Read 240308 spots for ERR6133498.sra Written 240308 spots for ERR6133498.sra Rejected 240308 READS because READLEN < 1 Read 240308 spots for ERR6133498.sra Written 240308 spots for ERR6133498.sra Rejected 240308 READS because READLEN < 1 Read 240308 spots for ERR6133498.sra Written 240308 spots for ERR6133498.sra Rejected 240313 READS because READLEN < 1 Read 240313 spots for ERR6133498.sra Written 240313 spots for ERR6133498.sra Rejected 240308 READS because READLEN < 1 Read 240308 spots for ERR6133498.sra Written 240308 spots for ERR6133498.sra Rejected 240308 READS because READLEN < 1 Read 240308 spots for ERR6133498.sra Written 240308 spots for ERR6133498.sra Rejected 240308 READS because READLEN < 1 Read 240308 spots for ERR6133498.sra Written 240308 spots for ERR6133498.sra Rejected 240308 READS because READLEN < 1 Read 240308 spots for ERR6133498.sra Written 240308 spots for ERR6133498.sra Rejected 240308 READS because READLEN < 1 Read 240308 spots for ERR6133498.sra Written 240308 spots for ERR6133498.sra Rejected 240308 READS because READLEN < 1 Read 240308 spots for ERR6133498.sra Written 240308 spots for ERR6133498.sra Rejected 240308 READS because READLEN < 1 Read 240308 spots for ERR6133498.sra Written 240308 spots for ERR6133498.sra Rejected 240308 READS because READLEN < 1 Read 240308 spots for ERR6133498.sra Written 240308 spots for ERR6133498.sra Rejected 240308 READS because READLEN < 1 Read 240308 spots for ERR6133498.sra Written 240308 spots for ERR6133498.sra Rejected 240308 READS because READLEN < 1 Read 240308 spots for ERR6133498.sra Written 240308 spots for ERR6133498.sra Rejected 240308 READS because READLEN < 1 Read 240308 spots for ERR6133498.sra Written 240308 spots for ERR6133498.sra Rejected 240308 READS because READLEN < 1 Read 240308 spots for ERR6133498.sra Written 240308 spots for ERR6133498.sra SRR ids: ['ERR6133498.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_8bn9wlxj ERR6133498.sra spots: 4806165 blocks: [[1, 240308], [240309, 480616], [480617, 720924], [720925, 961232], [961233, 1201540], [1201541, 1441848], [1441849, 1682156], [1682157, 1922464], [1922465, 2162772], [2162773, 2403080], [2403081, 2643388], [2643389, 2883696], [2883697, 3124004], [3124005, 3364312], [3364313, 3604620], [3604621, 3844928], [3844929, 4085236], [4085237, 4325544], [4325545, 4565852], [4565853, 4806165]] ERR6133498 file size 1058597 ERR6133498 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 ERR6133498 ERR6133498_1.fastq Input file: ERR6133498_1.fastq trimmed: ERR6133498-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 07:22:54 2024 >> started Sat Dec 7 07:22:57 2024 >> done (2.766s) 4806165 reads processed; of these: 416 ( 0.01%) short reads filtered out after trimming by size control 37 ( 0.00%) empty reads filtered out after trimming by size control 4805712 (99.99%) reads available; of these: 72818 ( 1.52%) trimmed reads available after processing 4732894 (98.48%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 107 0.00% 19 195 0.00% 20 56 0.00% 21 49 0.00% 22 86 0.00% 23 31 0.00% 24 17 0.00% 25 21 0.00% 26 28 0.00% 27 28 0.00% 28 58 0.00% 29 249 0.01% 30 34 0.00% 31 45 0.00% 32 75 0.00% 33 37 0.00% 34 34 0.00% 35 242 0.01% 36 476 0.01% 37 48 0.00% 38 101 0.00% 39 212 0.00% 40 218 0.00% 41 77 0.00% 42 20 0.00% 43 19 0.00% 44 27 0.00% 45 21 0.00% 46 18 0.00% 47 19 0.00% 48 12 0.00% 49 19 0.00% 50 20 0.00% 51 102 0.00% 52 29 0.00% 53 12 0.00% 54 9 0.00% 55 7 0.00% 56 7 0.00% 57 19 0.00% 58 33 0.00% 59 10 0.00% 60 34 0.00% 61 18 0.00% 62 7 0.00% 63 1 0.00% 64 6 0.00% 65 10 0.00% 66 20 0.00% 67 32 0.00% 68 42 0.00% 69 141 0.00% 70 23442 0.49% 71 18603 0.39% 72 20644 0.43% 73 18037 0.38% 74 18900 0.39% 75 18592 0.39% 76 15629 0.33% 77 16367 0.34% 78 19245 0.40% 79 23086 0.48% 80 19390 0.40% 81 21697 0.45% 82 24309 0.51% 83 25829 0.54% 84 19246 0.40% 85 133 0.00% 86 240 0.00% 87 402 0.01% 88 693 0.01% 89 1462 0.03% 90 3171 0.07% 91 9989 0.21% 92 49399 1.03% 93 4433969 92.26% 4805712 reads passed initial QC criterion=sequence-density sequence-density=0.33 sequence-density-rank=1 fanout-score=6.26 fanout-score-rank=19 prefix-density=1.12 prefix-fanout=1.8 sequence=GTACATTTGAATGTACCGACATGGGCTCGAGGAGCATATGTACATTTGAACCCTGACTACACATATACACACATATACATGTAATATTATACAATCTGTCGAGTATGTGTTGGTTCATACTTA criterion=fanout-score sequence-density=0.01 sequence-density-rank=42 fanout-score=94.75 fanout-score-rank=1 prefix-density=0.09 prefix-fanout=5.9 sequence=GAGGAAGAGACTTATAATATTGTGGCTGCTCATGGTTATTTTGGCCGATTAATCTTCCAATATGCTAGTTTCAACAACTCTCGTTCTTTACACTTCTTCTTGGCTGCTTGGCCTGTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAACGTAATGCTCACAACTTCCCTCTAGATCTAGCTGCTCTTGAAGTTCCCGCTATTAATGGATAAGGTTTTTCCGCTAACATA Started job on | Dec 07 07:23:14 Started mapping on | Dec 07 07:23:14 Finished on | Dec 07 07:23:21 Mapping speed, Million of reads per hour | 2471.51 Number of input reads | 4805712 Average input read length | 91 UNIQUE READS: Uniquely mapped reads number | 3182635 Uniquely mapped reads % | 66.23% Average mapped length | 91.45 Number of splices: Total | 124727 Number of splices: Annotated (sjdb) | 102456 Number of splices: GT/AG | 120629 Number of splices: GC/AG | 2702 Number of splices: AT/AC | 85 Number of splices: Non-canonical | 1311 Mismatch rate per base, % | 0.41% Deletion rate per base | 0.03% Deletion average length | 1.79 Insertion rate per base | 0.02% Insertion average length | 2.01 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 1523009 % of reads mapped to multiple loci | 31.69% Number of reads mapped to too many loci | 37515 % of reads mapped to too many loci | 0.78% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.25% % of reads unmapped: other | 0.05% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 100068 100068 100068 N_multimapping 1523009 1523009 1523009 N_noFeature 221011 252608 3046132 N_ambiguous 117657 12831 596 UnstrandedReadsAssigned:2843967 PositiveStrandReadsAssigned:2917196 NegativeStrandReadsAssigned:135907 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133498 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: ERR6133498-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 4,805,712 reads, 3,995,694 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,034 rounds 52973 ERR6133498.ke.tsv 35125 ERR6133498.se.tsv 88098 total ==> ERR6133498.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 82 19.9729 PNS24243 293 194 0 0 KQK14069 1603 1504 198.157 44.0295 KQK14071 474 375 0 0 ==> ERR6133498.se.tsv <== BRADI_1g14170v3 211 BRADI_1g53295v3 20 BRADI_1g59795v3 30 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 27 BRADI_1g74790v3 26 BRADI_1g09890v3 0 BRADI_1g77505v3 60 BRADI_1g48960v3 0 ERR6133498 completed mapping pipeline successfully