Starting /dee2/code/volunteer_pipeline.sh ERR6133433 current disk space = 1546077093888 free memory = 1464099712 ERR6133433 SRAfilesize 5d7338e095e7f8125df3f27cb437ace1 ERR6133433.sra ERR6133433.sra file validated ERR6133433 is single end ERR6133433 is conventional basespace ERR6133433 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133433_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 46 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 35.32175 37.0 33.0 37.0 33.0 37.0 2 36.4445 37.0 37.0 37.0 37.0 37.0 3 35.6835 37.0 37.0 37.0 33.0 37.0 4 35.52825 37.0 37.0 37.0 33.0 37.0 5 35.3775 37.0 37.0 37.0 33.0 37.0 6 35.65875 37.0 37.0 37.0 33.0 37.0 7 37.32075 37.0 37.0 40.0 33.0 40.0 8 37.3315 37.0 37.0 40.0 33.0 40.0 9 37.414 37.0 37.0 40.0 33.0 40.0 10-11 37.319374999999994 37.0 37.0 40.0 33.0 40.0 12-13 37.22025 37.0 37.0 40.0 33.0 40.0 14-15 37.17975 37.0 37.0 40.0 33.0 40.0 16-17 37.149125 37.0 37.0 40.0 33.0 40.0 18-19 37.295500000000004 37.0 37.0 40.0 33.0 40.0 20-21 37.454125 37.0 37.0 40.0 33.0 40.0 22-23 37.35525 37.0 37.0 40.0 33.0 40.0 24-25 37.385374999999996 37.0 37.0 40.0 33.0 40.0 26-27 37.082499999999996 37.0 37.0 40.0 33.0 40.0 28-29 37.25475 37.0 37.0 40.0 33.0 40.0 30-31 37.244749999999996 37.0 37.0 40.0 33.0 40.0 32-33 37.180625 37.0 37.0 40.0 33.0 40.0 34-35 36.960375 37.0 37.0 40.0 33.0 40.0 36-37 36.861374999999995 37.0 37.0 40.0 33.0 40.0 38-39 36.749750000000006 37.0 37.0 40.0 33.0 40.0 40-41 36.685500000000005 37.0 37.0 40.0 33.0 40.0 42-43 36.52375 37.0 37.0 40.0 33.0 40.0 44-45 36.269999999999996 37.0 37.0 40.0 33.0 40.0 46-47 36.328500000000005 37.0 37.0 37.0 33.0 40.0 48-49 36.10875 37.0 37.0 37.0 33.0 40.0 50-51 35.9135 37.0 37.0 37.0 33.0 40.0 52-53 35.766125 37.0 33.0 37.0 33.0 40.0 54-55 35.59375 37.0 33.0 37.0 33.0 38.5 56-57 35.465625 37.0 33.0 37.0 33.0 37.0 58-59 35.079499999999996 37.0 33.0 37.0 33.0 37.0 60-61 34.9585 37.0 33.0 37.0 33.0 37.0 62-63 34.987875 37.0 33.0 37.0 33.0 37.0 64-65 34.547125 37.0 33.0 37.0 33.0 37.0 66-67 34.421 37.0 33.0 37.0 33.0 37.0 68-69 33.186625 35.0 33.0 35.0 30.0 37.0 70-71 33.54733548024012 33.0 33.0 37.0 27.0 37.0 72-73 34.25820778730997 37.0 33.0 37.0 33.0 37.0 74-75 34.594217044454126 37.0 33.0 37.0 33.0 37.0 76-77 34.43704616330028 37.0 33.0 37.0 33.0 37.0 78-79 34.35248702522641 37.0 33.0 37.0 33.0 37.0 80-81 34.275402893569044 37.0 33.0 37.0 33.0 37.0 82-83 34.023998005214665 37.0 33.0 37.0 30.0 37.0 84-85 34.0240933896834 37.0 33.0 37.0 27.0 37.0 86-87 34.04479695431472 37.0 33.0 37.0 30.0 37.0 88-89 33.990101522842636 37.0 33.0 37.0 27.0 37.0 90-91 33.8503807106599 37.0 33.0 37.0 27.0 37.0 92-93 33.616370558375635 35.0 33.0 37.0 27.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 3.0 21 10.0 22 7.0 23 9.0 24 17.0 25 18.0 26 15.0 27 43.0 28 39.0 29 56.0 30 73.0 31 83.0 32 128.0 33 178.0 34 253.0 35 506.0 36 1039.0 37 1095.0 38 425.0 39 3.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 89.9 2.325 2.3 5.475 2 75.77577577577578 14.48948948948949 6.106106106106106 3.6286286286286287 3 37.45 38.574999999999996 12.825000000000001 11.15 4 34.275 28.749999999999996 17.05 19.925 5 24.975 31.424999999999997 23.575 20.025000000000002 6 20.7 36.55 26.474999999999998 16.275000000000002 7 38.0 30.325000000000003 17.474999999999998 14.2 8 32.15 30.25 21.55 16.05 9 27.775 27.150000000000002 27.700000000000003 17.375 10-11 27.05 27.762500000000003 27.224999999999998 17.962500000000002 12-13 30.5375 24.7875 27.0625 17.6125 14-15 23.5875 28.537499999999998 28.025 19.85 16-17 25.0375 31.7875 24.962500000000002 18.212500000000002 18-19 24.0375 27.287499999999998 25.924999999999997 22.75 20-21 24.962500000000002 27.5125 26.974999999999998 20.549999999999997 22-23 26.825 23.825 27.075 22.275 24-25 26.275 24.637500000000003 27.700000000000003 21.3875 26-27 25.6 25.4875 30.012499999999996 18.9 28-29 25.7875 27.1375 26.900000000000002 20.175 30-31 26.900000000000002 24.575 27.2625 21.2625 32-33 24.425 27.575 27.650000000000002 20.349999999999998 34-35 24.887500000000003 25.674999999999997 28.15 21.2875 36-37 24.7875 23.974999999999998 29.525000000000002 21.712500000000002 38-39 26.025 26.125 28.849999999999998 19.0 40-41 26.974999999999998 24.825 26.625 21.575 42-43 25.0625 26.8 27.5625 20.575 44-45 23.3125 25.162499999999998 29.362500000000004 22.162499999999998 46-47 24.6125 23.8625 28.6125 22.912499999999998 48-49 24.637500000000003 25.162499999999998 30.012499999999996 20.1875 50-51 25.85 25.474999999999998 28.262500000000003 20.4125 52-53 26.174999999999997 26.137500000000003 27.6125 20.075000000000003 54-55 24.0125 26.9625 28.825 20.200000000000003 56-57 25.2375 24.349999999999998 29.875 20.5375 58-59 24.125 23.849999999999998 29.075 22.95 60-61 24.462500000000002 23.65 30.1375 21.75 62-63 22.75 27.237499999999997 31.1 18.912499999999998 64-65 24.375 25.6125 30.2 19.8125 66-67 24.175 25.387500000000003 30.049999999999997 20.3875 68-69 22.725 26.75 29.475 21.05 70-71 24.756189047261813 24.406101525381345 29.48237059264816 21.355338834708675 72-73 25.839178356713425 25.0751503006012 28.243987975951907 20.841683366733466 74-75 22.693611145977155 26.534454625329484 30.136814359231835 20.63511986946153 76-77 23.861062169645102 26.843694940850742 28.94538132393657 20.349861565567583 78-79 24.57423993944746 24.902232874984232 30.452882553298856 20.070644632269456 80-81 23.720460002527485 27.00619234171616 30.45621129786427 18.817136357892075 82-83 24.23705204508041 26.65569203494998 29.20096239078131 19.9062935291883 84-85 24.051275542581546 23.708592460972206 32.22490163726361 20.015230359182638 86-87 23.15989847715736 24.378172588832488 33.24873096446701 19.213197969543145 88-89 21.63705583756345 27.411167512690355 31.48477157360406 19.467005076142133 90-91 25.26649746192893 24.961928934010153 30.98984771573604 18.781725888324875 92-93 23.692893401015226 27.157360406091367 30.317258883248734 18.83248730964467 >>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 5.0 18 6.5 19 2.5 20 2.0 21 2.0 22 0.5 23 5.5 24 7.5 25 3.5 26 6.5 27 10.5 28 16.0 29 21.5 30 22.0 31 25.0 32 36.0 33 55.5 34 65.0 35 75.0 36 94.0 37 125.5 38 158.5 39 156.0 40 172.5 41 202.0 42 214.0 43 223.5 44 210.0 45 195.5 46 224.5 47 230.5 48 194.5 49 182.5 50 168.5 51 151.0 52 142.0 53 140.0 54 125.0 55 84.0 56 62.5 57 64.0 58 67.0 59 58.0 60 45.0 61 43.0 62 42.5 63 42.5 64 37.0 65 25.0 66 15.5 67 16.5 68 17.5 69 12.0 70 6.0 71 3.0 72 3.5 73 2.0 74 0.5 75 0.5 76 0.5 77 0.5 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 0.1 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 0.03806140573458513 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 2.0 71 3.0 72 6.0 73 4.0 74 3.0 75 7.0 76 4.0 77 6.0 78 3.0 79 3.0 80 5.0 81 4.0 82 3.0 83 5.0 84 2.0 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 3940.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 85.125 #Duplication Level Percentage of deduplicated Percentage of total 1 93.68575624082231 79.75 2 4.023494860499266 6.8500000000000005 3 0.998531571218796 2.55 4 0.2643171806167401 0.8999999999999999 5 0.1762114537444934 0.75 6 0.11747430249632893 0.6 7 0.11747430249632893 0.7000000000000001 8 0.14684287812041116 1.0 9 0.02936857562408223 0.22499999999999998 >10 0.4405286343612335 6.675000000000001 >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 GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 45 1.125 No Hit GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 32 0.8 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 21 0.525 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 20 0.5 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 16 0.4 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 16 0.4 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 16 0.4 No Hit GGGAGTATTATGAAAGGAGATTAATCATAGATTATCAAAAACCCTAGAAA 15 0.375 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 15 0.375 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 15 0.375 No Hit GGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGC 14 0.35000000000000003 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 11 0.27499999999999997 No Hit GGTTTTGAAAAGGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAA 11 0.27499999999999997 No Hit GGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAA 10 0.25 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 10 0.25 No Hit GGAGTATCCTTGATATATAAATATATAGATAAATAGATTTAAATGGAAAA 9 0.22499999999999998 No Hit GGAAGAGCCCGAGCTGCTGCAGCAGGTTTTGAAAAGGGAATCGATCGTGA 8 0.2 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 8 0.2 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 8 0.2 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 8 0.2 No Hit GGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACT 8 0.2 No Hit GGATCGGTTGAAGCGTGCGGCGTCTCTGTCTATGTATTACTGTTTTATGC 7 0.17500000000000002 No Hit GGGGATGGAGCGACAGAAGTATGGAAATAGGATAAGGTAGCGGCGAGACG 7 0.17500000000000002 No Hit GGGAAATTAACAGTTGGAAAGGGCGATCGGTCTTGATCCCTCTGTGTTTC 7 0.17500000000000002 No Hit GGGTGTGAGCTGGAGAGACGATCGGGTCTCTCAGCCGGCGTCTTCATCAG 7 0.17500000000000002 No Hit GGAGAGAGTGAGCATATATATTTATACGACGAATAAAAGGCTGCCACGTG 6 0.15 No Hit GGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACTA 6 0.15 No Hit GGGCCGGGTATCTCTCTGCATGTACGTATGCCTGTAATGTACGTAGCTAC 6 0.15 No Hit GGAAATTAACAGTTGGAAAGGGCGATCGGTCTTGATCCCTCTGTGTTTCC 6 0.15 No Hit ATCGTTGCCAACCAATGGAAGTGATATCGATGAAACGGCATTGCCCTGTG 5 0.125 No Hit CTGAGCCGTGCTCTCTTCTGTGTACATCTTCATGTCATTTTAGCGATTCT 5 0.125 No Hit GGAACAAACGAGGATAAGATAAAATTTCTTTAAATTTATTTTGCCCAAGT 5 0.125 No Hit GGGCTTCATGAAGTAGATCTTGCGATTATGCATGTGTAGCTCGTACGTGC 5 0.125 No Hit GGGGAAGTACACCAGCGACGGCGAGGCCGCCGCCGCCAAGGAAGGCATGT 5 0.125 No Hit GGGACGCATGCAACGACCATCTACATATAGCTACTCGATCTACCGCTACC 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 0.025 0.0 0.0 0.0 0.0 10-11 0.025 0.0 0.0 0.0 0.0 12-13 0.025 0.0 0.0 0.0 0.0 14-15 0.025 0.0 0.0 0.0 0.0 16-17 0.025 0.0 0.0 0.0 0.0 18-19 0.025 0.0 0.0 0.0 0.0 20-21 0.025 0.0 0.0 0.0 0.0 22-23 0.025 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 0.0 0.0 28-29 0.025 0.0 0.0 0.0 0.0 30-31 0.025 0.0 0.0 0.0 0.0 32-33 0.025 0.0 0.0 0.0 0.0 34-35 0.025 0.0 0.0 0.0 0.0 36-37 0.025 0.0 0.0 0.0 0.0 38-39 0.025 0.0 0.0 0.0 0.0 40-41 0.025 0.0 0.0 0.0 0.0 42-43 0.025 0.0 0.0 0.0 0.0 44-45 0.025 0.0 0.0 0.0 0.0 46-47 0.025 0.0 0.0 0.0 0.0 48-49 0.025 0.0 0.0 0.0 0.0 50-51 0.025 0.0 0.0 0.0 0.0 52-53 0.025 0.0 0.0 0.0 0.0 54-55 0.025 0.0 0.0 0.0 0.0 56-57 0.025 0.0 0.0 0.0 0.0 58-59 0.025 0.0 0.0 0.0 0.0 60-61 0.025 0.0 0.0 0.0 0.0 62-63 0.025 0.0 0.0 0.0 0.0 64-65 0.025 0.0 0.0 0.0 0.0 66-67 0.025 0.0 0.0 0.0 0.0 68-69 0.05 0.0 0.0 0.0 0.0 70-71 0.05 0.0 0.0 0.0 0.0 72-73 0.05 0.0 0.0 0.0 0.0 74-75 0.05 0.0 0.0 0.0 0.0 76-77 0.05 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 warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position GTGGAGG 20 7.824886E-4 43.5 24-25 >>END_MODULE Rejected 253311 READS because READLEN < 1 Read 253311 spots for ERR6133433.sra Written 253311 spots for ERR6133433.sra Rejected 253311 READS because READLEN < 1 Read 253311 spots for ERR6133433.sra Written 253311 spots for ERR6133433.sra Rejected 253311 READS because READLEN < 1 Read 253311 spots for ERR6133433.sra Written 253311 spots for ERR6133433.sra Rejected 253311 READS because READLEN < 1 Read 253311 spots for ERR6133433.sra Written 253311 spots for ERR6133433.sra Rejected 253311 READS because READLEN < 1 Read 253311 spots for ERR6133433.sra Written 253311 spots for ERR6133433.sra Rejected 253311 READS because READLEN < 1 Read 253311 spots for ERR6133433.sra Written 253311 spots for ERR6133433.sra Rejected 253311 READS because READLEN < 1 Read 253311 spots for ERR6133433.sra Written 253311 spots for ERR6133433.sra Rejected 253311 READS because READLEN < 1 Read 253311 spots for ERR6133433.sra Written 253311 spots for ERR6133433.sra Rejected 253311 READS because READLEN < 1 Read 253311 spots for ERR6133433.sra Written 253311 spots for ERR6133433.sra Rejected 253311 READS because READLEN < 1 Read 253311 spots for ERR6133433.sra Written 253311 spots for ERR6133433.sra Rejected 253311 READS because READLEN < 1 Read 253311 spots for ERR6133433.sra Written 253311 spots for ERR6133433.sra Rejected 253311 READS because READLEN < 1 Read 253311 spots for ERR6133433.sra Written 253311 spots for ERR6133433.sra Rejected 253311 READS because READLEN < 1 Read 253311 spots for ERR6133433.sra Written 253311 spots for ERR6133433.sra Rejected 253311 READS because READLEN < 1 Read 253311 spots for ERR6133433.sra Written 253311 spots for ERR6133433.sra Rejected 253311 READS because READLEN < 1 Read 253311 spots for ERR6133433.sra Written 253311 spots for ERR6133433.sra Rejected 253311 READS because READLEN < 1 Read 253311 spots for ERR6133433.sra Written 253311 spots for ERR6133433.sra Rejected 253311 READS because READLEN < 1 Read 253311 spots for ERR6133433.sra Written 253311 spots for ERR6133433.sra Rejected 253311 READS because READLEN < 1 Read 253311 spots for ERR6133433.sra Written 253311 spots for ERR6133433.sra Rejected 253311 READS because READLEN < 1 Read 253311 spots for ERR6133433.sra Written 253311 spots for ERR6133433.sra Rejected 253330 READS because READLEN < 1 Read 253330 spots for ERR6133433.sra Written 253330 spots for ERR6133433.sra SRR ids: ['ERR6133433.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd__jvz7g3x ERR6133433.sra spots: 5066239 blocks: [[1, 253311], [253312, 506622], [506623, 759933], [759934, 1013244], [1013245, 1266555], [1266556, 1519866], [1519867, 1773177], [1773178, 2026488], [2026489, 2279799], [2279800, 2533110], [2533111, 2786421], [2786422, 3039732], [3039733, 3293043], [3293044, 3546354], [3546355, 3799665], [3799666, 4052976], [4052977, 4306287], [4306288, 4559598], [4559599, 4812909], [4812910, 5066239]] ERR6133433 file size 1123439 ERR6133433 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 ERR6133433 ERR6133433_1.fastq Input file: ERR6133433_1.fastq trimmed: ERR6133433-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 05:31:57 2024 >> started Sat Dec 7 05:31:59 2024 >> done (2.837s) 5066239 reads processed; of these: 1444 ( 0.03%) short reads filtered out after trimming by size control 27 ( 0.00%) empty reads filtered out after trimming by size control 5064768 (99.97%) reads available; of these: 65818 ( 1.30%) trimmed reads available after processing 4998950 (98.70%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 20 0.00% 19 32 0.00% 20 15 0.00% 21 13 0.00% 22 20 0.00% 23 13 0.00% 24 8 0.00% 25 8 0.00% 26 8 0.00% 27 5 0.00% 28 7 0.00% 29 41 0.00% 30 7 0.00% 31 10 0.00% 32 10 0.00% 33 12 0.00% 34 3 0.00% 35 7 0.00% 36 10 0.00% 37 10 0.00% 38 9 0.00% 39 29 0.00% 40 30 0.00% 41 11 0.00% 42 14 0.00% 43 18 0.00% 44 22 0.00% 45 17 0.00% 46 16 0.00% 47 18 0.00% 48 14 0.00% 49 19 0.00% 50 28 0.00% 51 33 0.00% 52 25 0.00% 53 23 0.00% 54 23 0.00% 55 17 0.00% 56 19 0.00% 57 19 0.00% 58 17 0.00% 59 18 0.00% 60 15 0.00% 61 15 0.00% 62 3 0.00% 63 2 0.00% 64 6 0.00% 65 4 0.00% 66 7 0.00% 67 9 0.00% 68 17 0.00% 69 56 0.00% 70 4951 0.10% 71 4930 0.10% 72 5151 0.10% 73 4705 0.09% 74 5024 0.10% 75 4944 0.10% 76 4500 0.09% 77 4703 0.09% 78 5187 0.10% 79 5693 0.11% 80 5121 0.10% 81 5294 0.10% 82 6011 0.12% 83 6503 0.13% 84 5256 0.10% 85 126 0.00% 86 255 0.01% 87 399 0.01% 88 761 0.02% 89 1513 0.03% 90 3729 0.07% 91 10918 0.22% 92 46204 0.91% 93 4922058 97.18% 5064768 reads passed initial QC criterion=sequence-density sequence-density=0.82 sequence-density-rank=1 fanout-score=3.99 fanout-score-rank=30 prefix-density=1.05 prefix-fanout=3.1 sequence=ATGCATGCATGC criterion=fanout-score sequence-density=0.01 sequence-density-rank=29 fanout-score=106.37 fanout-score-rank=1 prefix-density=0.17 prefix-fanout=9.2 sequence=TGAAGAAGAATTGGAAGAAGAAAAGTTTTCTCAACATGGGGAGGAAGTCCCTCCGAAATTTGATTTGTTATTGTATTGTAAGGGGCTTTTTTAGTATTTATCTAAAGGAAGGAACAAACGAGGATAAGATAAAATTTCTTTAAATTTATTTTGCCCAAGTGGGATATATGGCATACTATTCTTTCCATTTTCATCTTTTTTTCTATTCCACTCCATCTAGATATAAGAAAGAACCCAATGCAATGAAATTCCACTAATATACAATACAAAAAAGAAGA Started job on | Dec 07 05:32:20 Started mapping on | Dec 07 05:32:21 Finished on | Dec 07 05:32:28 Mapping speed, Million of reads per hour | 2604.74 Number of input reads | 5064768 Average input read length | 92 UNIQUE READS: Uniquely mapped reads number | 4065158 Uniquely mapped reads % | 80.26% Average mapped length | 92.41 Number of splices: Total | 234811 Number of splices: Annotated (sjdb) | 195329 Number of splices: GT/AG | 225788 Number of splices: GC/AG | 4906 Number of splices: AT/AC | 78 Number of splices: Non-canonical | 4039 Mismatch rate per base, % | 0.44% Deletion rate per base | 0.04% Deletion average length | 1.78 Insertion rate per base | 0.03% Insertion average length | 1.75 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 913016 % of reads mapped to multiple loci | 18.03% Number of reads mapped to too many loci | 15660 % of reads mapped to too many loci | 0.31% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.37% % of reads unmapped: other | 0.03% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 86594 86594 86594 N_multimapping 913016 913016 913016 N_noFeature 208237 242657 3886290 N_ambiguous 159104 14774 340 UnstrandedReadsAssigned:3697817 PositiveStrandReadsAssigned:3807727 NegativeStrandReadsAssigned:178528 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133433 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: ERR6133433-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 5,064,768 reads, 4,460,128 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,067 rounds 52973 ERR6133433.ke.tsv 35125 ERR6133433.se.tsv 88098 total ==> ERR6133433.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 145 31.1976 PNS24243 293 194 0 0 KQK14069 1603 1504 187 36.703 KQK14071 474 375 0 0 ==> ERR6133433.se.tsv <== BRADI_1g14170v3 187 BRADI_1g53295v3 70 BRADI_1g59795v3 46 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 80 BRADI_1g74790v3 49 BRADI_1g09890v3 1 BRADI_1g77505v3 142 BRADI_1g48960v3 0 ERR6133433 completed mapping pipeline successfully