Starting /dee2/code/volunteer_pipeline.sh ERR6133487 current disk space = 1544680566784 free memory = 1597840664 ERR6133487 SRAfilesize db9cfa3f9c09bf6e6bddca404e39c78c ERR6133487.sra ERR6133487.sra file validated ERR6133487 is single end ERR6133487 is conventional basespace ERR6133487 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133487_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 35.3875 37.0 33.0 37.0 33.0 37.0 2 36.31 37.0 37.0 37.0 33.0 37.0 3 35.72675 37.0 37.0 37.0 33.0 37.0 4 35.1725 37.0 37.0 37.0 33.0 37.0 5 35.093 37.0 37.0 37.0 33.0 37.0 6 35.4095 37.0 37.0 37.0 33.0 37.0 7 37.107 37.0 37.0 40.0 33.0 40.0 8 37.12 37.0 37.0 40.0 33.0 40.0 9 37.25825 37.0 37.0 40.0 33.0 40.0 10-11 37.2335 37.0 37.0 40.0 33.0 40.0 12-13 37.049875 37.0 37.0 40.0 33.0 40.0 14-15 37.003125 37.0 37.0 40.0 33.0 40.0 16-17 36.8565 37.0 37.0 40.0 33.0 40.0 18-19 36.63875 37.0 37.0 40.0 33.0 40.0 20-21 36.3485 37.0 37.0 40.0 33.0 40.0 22-23 36.374375 37.0 37.0 40.0 33.0 40.0 24-25 36.259375 37.0 37.0 40.0 33.0 40.0 26-27 36.610875 37.0 37.0 40.0 33.0 40.0 28-29 36.61225 37.0 37.0 40.0 33.0 40.0 30-31 36.448 37.0 37.0 40.0 33.0 40.0 32-33 36.323 37.0 37.0 40.0 33.0 40.0 34-35 36.356125000000006 37.0 37.0 40.0 33.0 40.0 36-37 36.2445 37.0 37.0 40.0 33.0 40.0 38-39 36.110125 37.0 37.0 40.0 33.0 40.0 40-41 35.86275 37.0 33.0 40.0 33.0 40.0 42-43 35.807874999999996 37.0 33.0 40.0 33.0 40.0 44-45 35.840125 37.0 33.0 40.0 33.0 40.0 46-47 35.777 37.0 33.0 37.0 33.0 40.0 48-49 35.689750000000004 37.0 33.0 37.0 33.0 40.0 50-51 35.595124999999996 37.0 33.0 37.0 33.0 40.0 52-53 35.26625 37.0 33.0 37.0 33.0 40.0 54-55 35.19775 37.0 33.0 37.0 33.0 40.0 56-57 34.922625 37.0 33.0 37.0 33.0 38.5 58-59 33.79774999999999 37.0 33.0 37.0 27.0 37.0 60-61 34.322625 37.0 33.0 37.0 27.0 37.0 62-63 34.298500000000004 37.0 33.0 37.0 27.0 37.0 64-65 34.239625000000004 37.0 33.0 37.0 27.0 37.0 66-67 34.33675 37.0 33.0 37.0 30.0 37.0 68-69 33.580124999999995 35.0 33.0 37.0 27.0 37.0 70-71 33.7065516549649 35.0 33.0 37.0 27.0 37.0 72-73 34.04142842393084 37.0 33.0 37.0 27.0 37.0 74-75 34.00820334880537 37.0 33.0 37.0 27.0 37.0 76-77 33.87108406997088 37.0 33.0 37.0 27.0 37.0 78-79 33.77352677366873 37.0 33.0 37.0 27.0 37.0 80-81 33.70325718390354 37.0 33.0 37.0 27.0 37.0 82-83 33.42819340016709 35.0 33.0 37.0 27.0 37.0 84-85 33.31415390371876 35.0 33.0 37.0 27.0 37.0 86-87 33.46675567423231 33.0 33.0 37.0 27.0 37.0 88-89 33.44285714285714 35.0 33.0 37.0 27.0 37.0 90-91 33.265821094793054 33.0 33.0 37.0 27.0 37.0 92-93 33.15567423230975 33.0 33.0 37.0 27.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 7.0 21 11.0 22 20.0 23 25.0 24 24.0 25 32.0 26 35.0 27 41.0 28 70.0 29 70.0 30 95.0 31 132.0 32 146.0 33 206.0 34 310.0 35 496.0 36 886.0 37 884.0 38 495.0 39 15.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 83.7 3.8 4.575 7.925 2 65.9 20.599999999999998 7.675 5.825 3 35.325 36.65 14.924999999999999 13.100000000000001 4 31.4 28.375 18.275 21.95 5 27.800000000000004 28.050000000000004 25.95 18.2 6 20.349999999999998 36.7 25.825 17.125 7 37.375 28.975 18.45 15.2 8 29.049999999999997 30.525000000000002 24.3 16.125 9 24.775 29.549999999999997 27.675 18.0 10-11 25.025 27.6 28.475 18.9 12-13 26.1625 26.85 27.3125 19.675 14-15 21.65 30.55 29.8375 17.962500000000002 16-17 24.925 31.4875 23.799999999999997 19.787499999999998 18-19 23.4375 27.962500000000002 28.3625 20.2375 20-21 26.881720430107524 27.081770442610654 27.38184546136534 18.65466366591648 22-23 29.9 22.4625 27.5625 20.075000000000003 24-25 25.5 25.424999999999997 28.962500000000002 20.1125 26-27 26.85 24.837500000000002 28.575 19.7375 28-29 25.0375 28.549999999999997 27.800000000000004 18.6125 30-31 27.925 25.912499999999998 26.900000000000002 19.2625 32-33 23.9375 26.125 28.8375 21.099999999999998 34-35 23.7875 29.675 27.1 19.4375 36-37 26.128266033254157 24.90311288911114 26.153269158644832 22.815351918989872 38-39 29.019754938734682 25.381345336334082 27.969492373093274 17.62940735183796 40-41 26.490811351418923 25.053131641455185 27.565945743217902 20.890111263907986 42-43 25.240655081885237 30.691336417052135 25.66570821352669 18.40230028753594 44-45 22.525000000000002 27.3125 30.375000000000004 19.787499999999998 46-47 25.95 24.1125 27.200000000000003 22.7375 48-49 24.25 25.4375 29.575000000000003 20.7375 50-51 23.775 27.0625 27.9375 21.224999999999998 52-53 25.69209570336966 27.03244394337968 26.431166228234996 20.844294125015658 54-55 25.0 29.45 27.525 18.025 56-57 26.525 27.224999999999998 27.900000000000002 18.35 58-59 22.475 26.375 29.6625 21.4875 60-61 26.674999999999997 27.6125 27.025 18.6875 62-63 21.825 29.6875 30.362499999999997 18.125 64-65 23.0625 30.875000000000004 28.6625 17.4 66-67 24.975 29.2 26.875 18.95 68-69 22.275 27.6 27.474999999999998 22.650000000000002 70-71 23.673009514271406 27.766649974962444 26.664997496244368 21.89534301452178 72-73 26.059001512859304 26.65153807362582 28.49218356026223 18.797276853252647 74-75 24.083969465648856 27.709923664122137 29.69465648854962 18.51145038167939 76-77 22.498717290918417 27.090815802975886 27.886095433555667 22.524371472550026 78-79 25.287504845587282 26.29538700090451 28.87970021966662 19.537407933841582 80-81 23.031727379553466 32.26269748008879 26.596161378770073 18.109413761587675 82-83 23.377308707124012 27.849604221635882 28.54881266490765 20.224274406332455 84-85 22.095035272194863 25.116464794356446 31.305736723013446 21.482763210435245 86-87 20.947930574098798 27.970627503337788 30.13351134846462 20.947930574098798 88-89 20.0 31.161548731642192 29.11882510013351 19.7196261682243 90-91 25.260347129506005 28.210947930574097 27.102803738317753 19.425901201602137 92-93 22.870493991989317 29.83978638184246 28.09078771695594 19.198931909212284 >>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 4.0 18 6.0 19 3.0 20 1.5 21 2.5 22 3.5 23 5.0 24 5.0 25 5.0 26 12.0 27 15.5 28 22.0 29 31.5 30 29.5 31 34.0 32 56.0 33 73.5 34 81.0 35 100.0 36 119.5 37 143.5 38 164.5 39 178.0 40 193.0 41 195.0 42 216.5 43 236.5 44 207.5 45 184.0 46 200.5 47 201.0 48 180.5 49 171.0 50 177.5 51 184.5 52 156.0 53 123.5 54 135.0 55 109.5 56 56.0 57 46.0 58 46.0 59 37.5 60 30.0 61 25.0 62 22.5 63 21.5 64 16.0 65 18.5 66 17.0 67 14.0 68 13.5 69 10.0 70 10.5 71 12.0 72 7.5 73 3.0 74 1.5 75 0.5 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 0.025 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 0.025 40-41 0.0125 42-43 0.0125 44-45 0.0 46-47 0.0 48-49 0.0 50-51 0.0 52-53 0.21250000000000002 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 12.0 71 12.0 72 20.0 73 19.0 74 14.0 75 20.0 76 10.0 77 13.0 78 21.0 79 18.0 80 23.0 81 18.0 82 20.0 83 12.0 84 23.0 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 3745.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 72.25 #Duplication Level Percentage of deduplicated Percentage of total 1 91.3840830449827 66.025 2 4.221453287197232 6.1 3 1.5224913494809689 3.3000000000000003 4 0.6920415224913495 2.0 5 0.4498269896193772 1.625 6 0.4498269896193772 1.95 7 0.17301038062283738 0.8750000000000001 8 0.17301038062283738 1.0 9 0.06920415224913494 0.44999999999999996 >10 0.726643598615917 9.575 >50 0.10380622837370243 4.45 >100 0.03460207612456747 2.65 >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 106 2.65 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 63 1.575 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 61 1.525 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 54 1.35 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 39 0.975 No Hit GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 31 0.775 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 26 0.65 No Hit GGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAA 25 0.625 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 24 0.6 No Hit GGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAA 23 0.575 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 20 0.5 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 19 0.475 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 19 0.475 No Hit CAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCT 18 0.44999999999999996 No Hit CAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGATAT 17 0.42500000000000004 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 17 0.42500000000000004 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 15 0.375 No Hit GGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTC 15 0.375 No Hit GGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTT 12 0.3 No Hit GAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTG 12 0.3 No Hit GTAACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCA 11 0.27499999999999997 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 10 0.25 No Hit GGATACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATG 10 0.25 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 10 0.25 No Hit GGAAAAGAAAGCAAAAGCGATTCCCGTAGTAGCGGCGAGCGAAATGGGAG 10 0.25 No Hit GAAGTATGGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGA 9 0.22499999999999998 No Hit GGAGTATCCTTGATATATAAATATATAGATAAATAGATTTAAATGGAAAA 9 0.22499999999999998 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 8 0.2 No Hit GGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCG 8 0.2 No Hit GCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGA 8 0.2 No Hit GGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAAATACTCCT 8 0.2 No Hit CAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTG 8 0.2 No Hit GGAAGGGCGTAGCAAGCGACGAAATGCTTCGGGGAGTTGAAAATAAGCAT 7 0.17500000000000002 No Hit GCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCT 7 0.17500000000000002 No Hit GGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGATTAATAG 7 0.17500000000000002 No Hit GGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACTA 7 0.17500000000000002 No Hit GTATTTAGCCTTGCAAGGTGGTCCTTGCTGATTCACACGGGATTCCACGT 7 0.17500000000000002 No Hit GCAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATC 6 0.15 No Hit GGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGT 6 0.15 No Hit GGAGGGTGAGAGCCCCGTCCGGCCCGGACCCTGTCGCCCCACGAGGCGCC 6 0.15 No Hit GGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTG 6 0.15 No Hit GTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGCA 6 0.15 No Hit GGAGGAAGGGCGTAGCAAGCGACGAAATGCTTCGGGGAGTTGAAAATAAG 6 0.15 No Hit GGCCTGTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCG 6 0.15 No Hit GCAGCTTGCAAATGGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAA 6 0.15 No Hit GAAGCCTGTGTACAAGCTCGTAACGAAGGGCGCGATCTTGCTCGTGAAGG 6 0.15 No Hit GGATATCGTGTGTGTACATTTGAATGTACCGACATGGGCTCGAGGAGCAT 6 0.15 No Hit GTACAAGCTCGTAACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAAT 6 0.15 No Hit AACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGC 6 0.15 No Hit GGGGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCT 6 0.15 No Hit GACCACAGCGCATTCCCAATTAGCATCTAAGCTCTCGTTGACATTTCCTT 5 0.125 No Hit GAGGAAGGGCGTAGCAAGCGACGAAATGCTTCGGGGAGTTGAAAATAAGC 5 0.125 No Hit GGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACGA 5 0.125 No Hit GTATGGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGATTA 5 0.125 No Hit GGGAGGGTGAGAGCCCCGTCCGGCCCGGACCCTGTCGCCCCACGAGGCGC 5 0.125 No Hit GATACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGC 5 0.125 No Hit GGGGTTGTGGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTG 5 0.125 No Hit GGGGGTGCCATACGCAAAAAGGAAGCGACTCATAGAATGGCAGAGGCAAA 5 0.125 No Hit GGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACT 5 0.125 No Hit GGGTTGTGGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGA 5 0.125 No Hit GGGTCGATGCCCGAGCGGTTAATGGGGACGGACTGTAAATTCGTTGACAA 5 0.125 No Hit GGGGAAGTACACCAGCGACGGCGAGGCCGCCGCCGCCAAGGAAGGCATGT 5 0.125 No Hit CAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTC 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 0.037500000000000006 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 0.05 0.0 0.0 0.0 0.0 32-33 0.05 0.0 0.0 0.0 0.0 34-35 0.05 0.0 0.0 0.0 0.0 36-37 0.05 0.0 0.0 0.0 0.0 38-39 0.05 0.0 0.0 0.0 0.0 40-41 0.05 0.0 0.0 0.0 0.0 42-43 0.05 0.0 0.0 0.0 0.0 44-45 0.0625 0.0 0.0 0.0 0.0 46-47 0.075 0.0 0.0 0.0 0.0 48-49 0.075 0.0 0.0 0.0 0.0 50-51 0.075 0.0 0.0 0.0 0.0 52-53 0.075 0.0 0.0 0.0 0.0 54-55 0.075 0.0 0.0 0.0 0.0 56-57 0.075 0.0 0.0 0.0 0.0 58-59 0.075 0.0 0.0 0.0 0.0 60-61 0.075 0.0 0.0 0.0 0.0 62-63 0.075 0.0 0.0 0.0 0.0 64-65 0.075 0.0 0.0 0.0 0.0 66-67 0.075 0.0 0.0 0.0 0.0 68-69 0.075 0.0 0.0 0.0 0.0 70-71 0.075 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 0.1125 0.0 0.0 0.0 0.0 78-79 0.125 0.0 0.0 0.0 0.0 80-81 0.1375 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Rejected 46884 READS because READLEN < 1 Read 46884 spots for ERR6133487.sra Written 46884 spots for ERR6133487.sra Rejected 46884 READS because READLEN < 1 Read 46884 spots for ERR6133487.sra Written 46884 spots for ERR6133487.sra Rejected 46884 READS because READLEN < 1 Read 46884 spots for ERR6133487.sra Written 46884 spots for ERR6133487.sra Rejected 46884 READS because READLEN < 1 Read 46884 spots for ERR6133487.sra Written 46884 spots for ERR6133487.sra Rejected 46884 READS because READLEN < 1 Read 46884 spots for ERR6133487.sra Written 46884 spots for ERR6133487.sra Rejected 46884 READS because READLEN < 1 Read 46884 spots for ERR6133487.sra Written 46884 spots for ERR6133487.sra Rejected 46884 READS because READLEN < 1 Read 46884 spots for ERR6133487.sra Written 46884 spots for ERR6133487.sra Rejected 46884 READS because READLEN < 1 Read 46884 spots for ERR6133487.sra Written 46884 spots for ERR6133487.sra Rejected 46884 READS because READLEN < 1 Read 46884 spots for ERR6133487.sra Written 46884 spots for ERR6133487.sra Rejected 46884 READS because READLEN < 1 Read 46884 spots for ERR6133487.sra Written 46884 spots for ERR6133487.sra Rejected 46884 READS because READLEN < 1 Read 46884 spots for ERR6133487.sra Written 46884 spots for ERR6133487.sra Rejected 46884 READS because READLEN < 1 Read 46884 spots for ERR6133487.sra Written 46884 spots for ERR6133487.sra Rejected 46884 READS because READLEN < 1 Read 46884 spots for ERR6133487.sra Written 46884 spots for ERR6133487.sra Rejected 46884 READS because READLEN < 1 Read 46884 spots for ERR6133487.sra Written 46884 spots for ERR6133487.sra Rejected 46884 READS because READLEN < 1 Read 46884 spots for ERR6133487.sra Written 46884 spots for ERR6133487.sra Rejected 46884 READS because READLEN < 1 Read 46884 spots for ERR6133487.sra Written 46884 spots for ERR6133487.sra Rejected 46884 READS because READLEN < 1 Read 46884 spots for ERR6133487.sra Written 46884 spots for ERR6133487.sra Rejected 46891 READS because READLEN < 1 Read 46891 spots for ERR6133487.sra Written 46891 spots for ERR6133487.sra Rejected 46884 READS because READLEN < 1 Read 46884 spots for ERR6133487.sra Written 46884 spots for ERR6133487.sra Rejected 46884 READS because READLEN < 1 Read 46884 spots for ERR6133487.sra Written 46884 spots for ERR6133487.sra SRR ids: ['ERR6133487.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd__9i_2ggb ERR6133487.sra spots: 937687 blocks: [[1, 46884], [46885, 93768], [93769, 140652], [140653, 187536], [187537, 234420], [234421, 281304], [281305, 328188], [328189, 375072], [375073, 421956], [421957, 468840], [468841, 515724], [515725, 562608], [562609, 609492], [609493, 656376], [656377, 703260], [703261, 750144], [750145, 797028], [797029, 843912], [843913, 890796], [890797, 937687]] ERR6133487 file size 204921 ERR6133487 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 ERR6133487 ERR6133487_1.fastq Input file: ERR6133487_1.fastq trimmed: ERR6133487-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 07:07:16 2024 >> started Sat Dec 7 07:07:16 2024 >> done (0.652s) 937687 reads processed; of these: 195 ( 0.02%) short reads filtered out after trimming by size control 34 ( 0.00%) empty reads filtered out after trimming by size control 937458 (99.98%) reads available; of these: 16668 ( 1.78%) trimmed reads available after processing 920790 (98.22%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 31 0.00% 19 54 0.01% 20 36 0.00% 21 19 0.00% 22 15 0.00% 23 16 0.00% 24 5 0.00% 25 10 0.00% 26 8 0.00% 27 32 0.00% 28 252 0.03% 29 48 0.01% 30 17 0.00% 31 18 0.00% 32 57 0.01% 33 55 0.01% 34 23 0.00% 35 81 0.01% 36 359 0.04% 37 9 0.00% 38 14 0.00% 39 60 0.01% 40 51 0.01% 41 15 0.00% 42 8 0.00% 43 19 0.00% 44 17 0.00% 45 4 0.00% 46 12 0.00% 47 4 0.00% 48 7 0.00% 49 4 0.00% 50 7 0.00% 51 25 0.00% 52 13 0.00% 53 5 0.00% 54 8 0.00% 55 4 0.00% 56 4 0.00% 57 6 0.00% 58 8 0.00% 59 3 0.00% 60 10 0.00% 61 6 0.00% 62 3 0.00% 63 1 0.00% 64 1 0.00% 65 1 0.00% 66 1 0.00% 67 6 0.00% 68 9 0.00% 69 34 0.00% 70 4036 0.43% 71 3510 0.37% 72 3960 0.42% 73 3487 0.37% 74 3691 0.39% 75 3614 0.39% 76 3091 0.33% 77 3266 0.35% 78 3840 0.41% 79 4476 0.48% 80 3734 0.40% 81 4252 0.45% 82 5110 0.55% 83 5227 0.56% 84 3887 0.41% 85 35 0.00% 86 59 0.01% 87 98 0.01% 88 168 0.02% 89 335 0.04% 90 747 0.08% 91 2156 0.23% 92 10620 1.13% 93 862544 92.01% 937458 reads passed initial QC criterion=sequence-density sequence-density=0.73 sequence-density-rank=1 fanout-score=1.96 fanout-score-rank=24 prefix-density=0.73 prefix-fanout=2.0 sequence=CAAGGCTAAATAC criterion=fanout-score sequence-density=0.01 sequence-density-rank=43 fanout-score=47.59 fanout-score-rank=1 prefix-density=0.52 prefix-fanout=1.0 sequence=GTAGCTACCGAGATCAATGCAGTTAATTATGTCTCTCCTAGAAGTTGGTTATCGACTTCTCATTTTGTTCTAGGATTCTTCTTTTTTGTGGGCCATTTGTGGCATGCAGGAAGAGCCCGAGCTGCTGCAGCAGGTTTTGAAAAGGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACTAAGATTTTCTTATTTATACCTGTTCTACTTCTACTGTTTTTTTCTGCTCTGGCTCGGTTATTTCATTTAGCCGAGCCATTCATTCCTTT Started job on | Dec 07 07:07:27 Started mapping on | Dec 07 07:07:27 Finished on | Dec 07 07:07:30 Mapping speed, Million of reads per hour | 1124.95 Number of input reads | 937458 Average input read length | 91 UNIQUE READS: Uniquely mapped reads number | 558612 Uniquely mapped reads % | 59.59% Average mapped length | 91.26 Number of splices: Total | 16505 Number of splices: Annotated (sjdb) | 13038 Number of splices: GT/AG | 15644 Number of splices: GC/AG | 357 Number of splices: AT/AC | 6 Number of splices: Non-canonical | 498 Mismatch rate per base, % | 0.54% Deletion rate per base | 0.05% Deletion average length | 1.82 Insertion rate per base | 0.02% Insertion average length | 1.82 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 344116 % of reads mapped to multiple loci | 36.71% Number of reads mapped to too many loci | 11129 % of reads mapped to too many loci | 1.19% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 2.44% % of reads unmapped: other | 0.08% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 34730 34730 34730 N_multimapping 344116 344116 344116 N_noFeature 38169 46707 528863 N_ambiguous 23923 2717 80 UnstrandedReadsAssigned:496520 PositiveStrandReadsAssigned:509188 NegativeStrandReadsAssigned:29669 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133487 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: ERR6133487-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 937,458 reads, 731,300 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 836 rounds 52973 ERR6133487.ke.tsv 35125 ERR6133487.se.tsv 88098 total ==> ERR6133487.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 23.0407 PNS24243 293 194 0 0 KQK14069 1603 1504 25 30.9095 KQK14071 474 375 0 0 ==> ERR6133487.se.tsv <== BRADI_1g14170v3 25 BRADI_1g53295v3 6 BRADI_1g59795v3 7 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 5 BRADI_1g74790v3 4 BRADI_1g09890v3 0 BRADI_1g77505v3 5 BRADI_1g48960v3 0 ERR6133487 completed mapping pipeline successfully