Starting /dee2/code/volunteer_pipeline.sh ERR6133571 current disk space = 1544439767040 free memory = 1599418404 ERR6133571 SRAfilesize e6e69acacc9c6bb7ba5ed26330fd49d4 ERR6133571.sra ERR6133571.sra file validated ERR6133571 is single end ERR6133571 is conventional basespace ERR6133571 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133571_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 35.48875 37.0 33.0 37.0 33.0 37.0 2 36.52025 37.0 37.0 37.0 37.0 37.0 3 36.04675 37.0 37.0 37.0 33.0 37.0 4 35.40375 37.0 37.0 37.0 33.0 37.0 5 35.22025 37.0 37.0 37.0 33.0 37.0 6 35.7075 37.0 37.0 37.0 33.0 37.0 7 37.562 40.0 37.0 40.0 33.0 40.0 8 37.59075 40.0 37.0 40.0 33.0 40.0 9 37.6635 40.0 37.0 40.0 33.0 40.0 10-11 37.638875 40.0 37.0 40.0 33.0 40.0 12-13 37.547 38.5 37.0 40.0 33.0 40.0 14-15 37.515125 37.0 37.0 40.0 33.0 40.0 16-17 37.441625 38.5 37.0 40.0 33.0 40.0 18-19 37.386375 37.0 37.0 40.0 33.0 40.0 20-21 37.300625 37.0 37.0 40.0 33.0 40.0 22-23 37.252624999999995 37.0 37.0 40.0 33.0 40.0 24-25 37.407875000000004 38.5 37.0 40.0 33.0 40.0 26-27 37.292875 37.0 37.0 40.0 33.0 40.0 28-29 37.26075 37.0 37.0 40.0 33.0 40.0 30-31 37.10375 37.0 37.0 40.0 33.0 40.0 32-33 37.046125 37.0 37.0 40.0 33.0 40.0 34-35 36.90075 37.0 37.0 40.0 33.0 40.0 36-37 36.69975 37.0 37.0 40.0 33.0 40.0 38-39 36.5005 37.0 37.0 40.0 33.0 40.0 40-41 36.295 37.0 37.0 40.0 33.0 40.0 42-43 36.2385 37.0 37.0 40.0 33.0 40.0 44-45 36.086749999999995 37.0 37.0 40.0 33.0 40.0 46-47 35.745625000000004 37.0 33.0 38.5 33.0 40.0 48-49 35.676249999999996 37.0 33.0 37.0 33.0 40.0 50-51 35.528375 37.0 33.0 37.0 33.0 40.0 52-53 35.186875 37.0 33.0 37.0 33.0 40.0 54-55 35.108125 37.0 33.0 37.0 30.0 40.0 56-57 34.846875 37.0 33.0 37.0 27.0 38.5 58-59 33.81375 37.0 33.0 37.0 27.0 37.0 60-61 34.266375 37.0 33.0 37.0 27.0 37.0 62-63 34.347375 37.0 33.0 37.0 27.0 37.0 64-65 34.311 37.0 33.0 37.0 27.0 37.0 66-67 34.35424999999999 37.0 33.0 37.0 27.0 37.0 68-69 33.685375 35.0 33.0 37.0 27.0 37.0 70-71 33.797006569021875 35.0 33.0 37.0 27.0 37.0 72-73 34.11545495624195 37.0 33.0 37.0 27.0 37.0 74-75 33.89214108125438 37.0 33.0 37.0 27.0 37.0 76-77 34.00928029873183 37.0 33.0 37.0 27.0 37.0 78-79 34.07582393429348 37.0 33.0 37.0 27.0 37.0 80-81 33.93274843902806 37.0 33.0 37.0 27.0 37.0 82-83 33.80873741822713 37.0 33.0 37.0 27.0 37.0 84-85 33.80447614140603 37.0 33.0 37.0 27.0 37.0 86-87 33.597699594046006 37.0 33.0 37.0 27.0 37.0 88-89 33.75466847090663 37.0 33.0 37.0 27.0 37.0 90-91 33.35412719891745 37.0 33.0 37.0 27.0 37.0 92-93 33.44086603518268 37.0 33.0 37.0 27.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 15.0 21 16.0 22 15.0 23 25.0 24 18.0 25 28.0 26 42.0 27 43.0 28 49.0 29 53.0 30 74.0 31 118.0 32 132.0 33 167.0 34 234.0 35 419.0 36 889.0 37 920.0 38 720.0 39 23.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 86.875 2.675 2.9250000000000003 7.5249999999999995 2 68.4 18.775 7.775 5.050000000000001 3 35.05 38.625 14.85 11.475 4 32.85 29.049999999999997 18.775 19.325 5 25.474999999999998 31.025000000000002 25.25 18.25 6 20.349999999999998 37.625 24.5 17.525 7 37.025000000000006 27.85 19.225 15.9 8 29.525000000000002 30.175 23.674999999999997 16.625 9 24.7 28.375 29.95 16.975 10-11 24.9 28.175 27.675 19.25 12-13 26.687499999999996 25.900000000000002 27.55 19.8625 14-15 22.075 30.225 28.249999999999996 19.45 16-17 23.95 31.0375 24.55 20.4625 18-19 24.1375 26.724999999999998 27.825 21.3125 20-21 25.55319414926866 25.353169146143266 28.391048881110137 20.702587823477934 22-23 26.625 24.025 27.1125 22.237499999999997 24-25 25.381345336334082 24.468617154288573 29.232308077019255 20.91772943235809 26-27 24.4 26.1125 30.012499999999996 19.475 28-29 25.543885971492873 27.769442360590148 26.894223555888974 19.79244811202801 30-31 26.387500000000003 25.387500000000003 27.725 20.5 32-33 25.45 26.25 27.325 20.974999999999998 34-35 24.9375 27.037499999999998 27.6875 20.3375 36-37 25.275 24.6 27.35 22.775000000000002 38-39 25.250375563345017 25.31296945418127 30.85878818227341 18.5778668002003 40-41 26.321723878727138 26.246554748183414 27.524429967426713 19.90729140566274 42-43 25.78789394697349 28.31415707853927 26.475737868934466 19.422211105552776 44-45 23.6625 26.8125 29.025000000000002 20.5 46-47 23.8125 25.0125 28.012500000000003 23.1625 48-49 24.375 25.0375 30.887500000000003 19.7 50-51 23.5375 26.924999999999997 28.875 20.6625 52-53 23.72244488977956 27.83066132264529 26.978957915831664 21.46793587174349 54-55 24.125 28.3375 28.549999999999997 18.987499999999997 56-57 26.4625 27.474999999999998 27.8625 18.2 58-59 23.425 25.4 29.299999999999997 21.875 60-61 25.912499999999998 25.587500000000002 28.975 19.525000000000002 62-63 22.275 29.099999999999998 29.9375 18.6875 64-65 22.3 28.749999999999996 29.075 19.875 66-67 24.0625 29.275000000000002 27.737499999999997 18.925 68-69 22.95 26.974999999999998 28.1625 21.912499999999998 70-71 25.222514729848317 26.338222389369438 27.17813714428983 21.261125736492414 72-73 25.425234831175423 26.428027418126426 29.220614369129223 18.926123381568928 74-75 24.683463358485742 27.382018160890137 28.456324338150658 19.478194142473463 76-77 23.330319080222193 25.46182663738535 28.61387417646299 22.593980105929468 78-79 22.812051649928264 26.56841006912743 30.716055823659843 19.903482457284465 80-81 22.710477698601213 29.480073898126154 29.189759831089994 18.619688572182632 82-83 23.66065464261857 25.303941215764862 29.539078156312627 21.49632598530394 84-85 23.15689981096408 24.237105049959492 31.096408317580345 21.509586821496086 86-87 22.59810554803789 27.374830852503386 29.729364005412716 20.29769959404601 88-89 22.09742895805142 28.795669824086605 29.68876860622463 19.418132611637347 90-91 25.060893098782138 27.618403247631935 29.133964817320702 18.186738836265224 92-93 22.50338294993234 30.243572395128552 28.917456021650878 18.33558863328823 >>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 6.0 18 6.0 19 0.5 20 0.5 21 3.5 22 3.0 23 1.0 24 4.5 25 6.5 26 10.5 27 16.5 28 23.0 29 28.0 30 33.5 31 37.5 32 51.0 33 66.5 34 74.5 35 99.0 36 107.5 37 137.0 38 190.0 39 185.0 40 189.5 41 220.0 42 221.5 43 217.5 44 223.0 45 205.0 46 195.5 47 184.5 48 167.5 49 172.5 50 160.5 51 152.0 52 134.5 53 139.0 54 140.0 55 91.5 56 57.0 57 48.5 58 47.5 59 45.0 60 38.5 61 35.0 62 37.0 63 27.0 64 21.5 65 22.5 66 16.0 67 13.5 68 16.0 69 15.5 70 8.5 71 5.0 72 5.5 73 4.0 74 2.0 75 2.0 76 1.0 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 0.0125 22-23 0.0 24-25 0.025 26-27 0.0 28-29 0.025 30-31 0.0 32-33 0.0 34-35 0.0 36-37 0.0 38-39 0.15 40-41 0.22499999999999998 42-43 0.05 44-45 0.0 46-47 0.0 48-49 0.0 50-51 0.0 52-53 0.2 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 23.0 71 30.0 72 16.0 73 12.0 74 19.0 75 19.0 76 21.0 77 18.0 78 17.0 79 27.0 80 18.0 81 26.0 82 23.0 83 20.0 84 16.0 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 3695.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 80.975 #Duplication Level Percentage of deduplicated Percentage of total 1 92.4976844705156 74.9 2 4.538437789441185 7.35 3 1.1423278789749922 2.775 4 0.6483482556344551 2.1 5 0.18524235875270145 0.75 6 0.15436863229391787 0.75 7 0.15436863229391787 0.8750000000000001 8 0.06174745291756715 0.4 9 0.1234949058351343 0.8999999999999999 >10 0.46310589688175363 7.75 >50 0.030873726458783574 1.4500000000000002 >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 GGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGC 58 1.4500000000000002 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 36 0.8999999999999999 No Hit GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 35 0.8750000000000001 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 29 0.7250000000000001 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 27 0.675 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 27 0.675 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 25 0.625 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 21 0.525 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 18 0.44999999999999996 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 17 0.42500000000000004 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 15 0.375 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 14 0.35000000000000003 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 13 0.325 No Hit GGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAA 13 0.325 No Hit GTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAA 10 0.25 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 10 0.25 No Hit GGAGTATCCTTGATATATAAATATATAGATAAATAGATTTAAATGGAAAA 9 0.22499999999999998 No Hit CAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTC 9 0.22499999999999998 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 9 0.22499999999999998 No Hit GGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTT 9 0.22499999999999998 No Hit GGGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTT 8 0.2 No Hit GGTGGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGC 8 0.2 No Hit GGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGT 7 0.17500000000000002 No Hit GGGTTGTTTGGGAATGCAGCCCAAATCGGGCGGTAGACTCCGTCCAAGGC 7 0.17500000000000002 No Hit GTATGGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGATTA 7 0.17500000000000002 No Hit GGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGATTAATAG 7 0.17500000000000002 No Hit GGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTTG 7 0.17500000000000002 No Hit GGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTC 6 0.15 No Hit GGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGCA 6 0.15 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 6 0.15 No Hit GGACTGGGTATCCATGCCAGGTGTTATACCAGTAGCTTCAGGTGGTATTC 6 0.15 No Hit GGAATCCCGTGTGAATCAGCAAGGACCACCTTGCAAGGCTAAATACTCCT 6 0.15 No Hit TAATTAAGAATCAAGTCATCTCATTCTCATCTATGCAATTGCAAACACAA 5 0.125 No Hit CAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCTGATAT 5 0.125 No Hit GCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCT 5 0.125 No Hit GAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTG 5 0.125 No Hit GGGGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCT 5 0.125 No Hit GAGGAAGGGCGTAGCAAGCGACGAAATGCTTCGGGGAGTTGAAAATAAGC 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 0.025 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 0.0625 0.0 0.0 0.0 0.0 40-41 0.075 0.0 0.0 0.0 0.0 42-43 0.075 0.0 0.0 0.0 0.0 44-45 0.075 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 0.075 0.0 0.0 0.0 0.0 74-75 0.075 0.0 0.0 0.0 0.0 76-77 0.075 0.0 0.0 0.0 0.0 78-79 0.075 0.0 0.0 0.0 0.0 80-81 0.075 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Rejected 167500 READS because READLEN < 1 Read 167500 spots for ERR6133571.sra Written 167500 spots for ERR6133571.sra Rejected 167500 READS because READLEN < 1 Read 167500 spots for ERR6133571.sra Written 167500 spots for ERR6133571.sra Rejected 167500 READS because READLEN < 1 Read 167500 spots for ERR6133571.sra Written 167500 spots for ERR6133571.sra Rejected 167500 READS because READLEN < 1 Read 167500 spots for ERR6133571.sra Written 167500 spots for ERR6133571.sra Rejected 167500 READS because READLEN < 1 Read 167500 spots for ERR6133571.sra Written 167500 spots for ERR6133571.sra Rejected 167500 READS because READLEN < 1 Read 167500 spots for ERR6133571.sra Written 167500 spots for ERR6133571.sra Rejected 167500 READS because READLEN < 1 Read 167500 spots for ERR6133571.sra Written 167500 spots for ERR6133571.sra Rejected 167500 READS because READLEN < 1 Read 167500 spots for ERR6133571.sra Written 167500 spots for ERR6133571.sra Rejected 167500 READS because READLEN < 1 Read 167500 spots for ERR6133571.sra Written 167500 spots for ERR6133571.sra Rejected 167500 READS because READLEN < 1 Read 167500 spots for ERR6133571.sra Written 167500 spots for ERR6133571.sra Rejected 167500 READS because READLEN < 1 Read 167500 spots for ERR6133571.sra Written 167500 spots for ERR6133571.sra Rejected 167500 READS because READLEN < 1 Read 167500 spots for ERR6133571.sra Written 167500 spots for ERR6133571.sra Rejected 167500 READS because READLEN < 1 Read 167500 spots for ERR6133571.sra Written 167500 spots for ERR6133571.sra Rejected 167500 READS because READLEN < 1 Read 167500 spots for ERR6133571.sra Written 167500 spots for ERR6133571.sra Rejected 167500 READS because READLEN < 1 Read 167500 spots for ERR6133571.sra Written 167500 spots for ERR6133571.sra Rejected 167500 READS because READLEN < 1 Read 167500 spots for ERR6133571.sra Written 167500 spots for ERR6133571.sra Rejected 167500 READS because READLEN < 1 Read 167500 spots for ERR6133571.sra Written 167500 spots for ERR6133571.sra Rejected 167500 READS because READLEN < 1 Read 167500 spots for ERR6133571.sra Written 167500 spots for ERR6133571.sra Rejected 167500 READS because READLEN < 1 Read 167500 spots for ERR6133571.sra Written 167500 spots for ERR6133571.sra Rejected 167508 READS because READLEN < 1 Read 167508 spots for ERR6133571.sra Written 167508 spots for ERR6133571.sra SRR ids: ['ERR6133571.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd__8fx6gmb ERR6133571.sra spots: 3350008 blocks: [[1, 167500], [167501, 335000], [335001, 502500], [502501, 670000], [670001, 837500], [837501, 1005000], [1005001, 1172500], [1172501, 1340000], [1340001, 1507500], [1507501, 1675000], [1675001, 1842500], [1842501, 2010000], [2010001, 2177500], [2177501, 2345000], [2345001, 2512500], [2512501, 2680000], [2680001, 2847500], [2847501, 3015000], [3015001, 3182500], [3182501, 3350008]] ERR6133571 file size 734798 ERR6133571 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 ERR6133571 ERR6133571_1.fastq Input file: ERR6133571_1.fastq trimmed: ERR6133571-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 08:52:33 2024 >> started Sat Dec 7 08:52:35 2024 >> done (1.649s) 3350008 reads processed; of these: 311 ( 0.01%) short reads filtered out after trimming by size control 35 ( 0.00%) empty reads filtered out after trimming by size control 3349662 (99.99%) reads available; of these: 67403 ( 2.01%) trimmed reads available after processing 3282259 (97.99%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 72 0.00% 19 130 0.00% 20 53 0.00% 21 36 0.00% 22 56 0.00% 23 26 0.00% 24 17 0.00% 25 16 0.00% 26 22 0.00% 27 21 0.00% 28 52 0.00% 29 48 0.00% 30 33 0.00% 31 48 0.00% 32 70 0.00% 33 39 0.00% 34 50 0.00% 35 355 0.01% 36 528 0.02% 37 62 0.00% 38 101 0.00% 39 231 0.01% 40 268 0.01% 41 79 0.00% 42 29 0.00% 43 38 0.00% 44 38 0.00% 45 22 0.00% 46 19 0.00% 47 21 0.00% 48 18 0.00% 49 25 0.00% 50 26 0.00% 51 84 0.00% 52 31 0.00% 53 20 0.00% 54 11 0.00% 55 14 0.00% 56 11 0.00% 57 22 0.00% 58 26 0.00% 59 15 0.00% 60 39 0.00% 61 23 0.00% 62 1 0.00% 63 2 0.00% 64 3 0.00% 65 10 0.00% 66 13 0.00% 67 20 0.00% 68 63 0.00% 69 196 0.01% 70 21386 0.64% 71 19334 0.58% 72 21383 0.64% 73 18797 0.56% 74 19395 0.58% 75 18793 0.56% 76 16440 0.49% 77 16028 0.48% 78 18209 0.54% 79 19815 0.59% 80 17142 0.51% 81 18032 0.54% 82 20056 0.60% 83 21041 0.63% 84 18195 0.54% 85 101 0.00% 86 261 0.01% 87 332 0.01% 88 712 0.02% 89 1309 0.04% 90 2914 0.09% 91 8534 0.25% 92 47037 1.40% 93 3001163 89.60% 3349662 reads passed initial QC criterion=sequence-density sequence-density=0.29 sequence-density-rank=1 fanout-score=5.09 fanout-score-rank=26 prefix-density=0.78 prefix-fanout=1.9 sequence=AGGCTAAATACTCCTGGGTGACCGATAGCG criterion=fanout-score sequence-density=0.06 sequence-density-rank=21 fanout-score=53.43 fanout-score-rank=1 prefix-density=0.19 prefix-fanout=15.3 sequence=TTTTTTTTTTAAGAATCCTCCATTTTTGTTCTTCCACCCATGCAATAGAGAGCAAATGGGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTTGAAATCGGAGTCATGGAATAATGGTGAATTCAAATGTTTAGTTCTTTAGTATAAGAAGTATAAGAA Started job on | Dec 07 08:52:47 Started mapping on | Dec 07 08:52:48 Finished on | Dec 07 08:52:54 Mapping speed, Million of reads per hour | 2009.80 Number of input reads | 3349662 Average input read length | 91 UNIQUE READS: Uniquely mapped reads number | 2294498 Uniquely mapped reads % | 68.50% Average mapped length | 90.94 Number of splices: Total | 105861 Number of splices: Annotated (sjdb) | 88097 Number of splices: GT/AG | 100714 Number of splices: GC/AG | 2685 Number of splices: AT/AC | 41 Number of splices: Non-canonical | 2421 Mismatch rate per base, % | 0.51% Deletion rate per base | 0.05% Deletion average length | 1.88 Insertion rate per base | 0.02% Insertion average length | 1.91 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 937488 % of reads mapped to multiple loci | 27.99% Number of reads mapped to too many loci | 46986 % of reads mapped to too many loci | 1.40% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 2.02% % of reads unmapped: other | 0.09% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 117676 117676 117676 N_multimapping 937488 937488 937488 N_noFeature 155778 178771 2183255 N_ambiguous 99231 10922 438 UnstrandedReadsAssigned:2039489 PositiveStrandReadsAssigned:2104805 NegativeStrandReadsAssigned:110805 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133571 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: ERR6133571-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 3,349,662 reads, 2,750,987 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 985 rounds 52973 ERR6133571.ke.tsv 35125 ERR6133571.se.tsv 88098 total ==> ERR6133571.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 79 28.8342 PNS24243 293 194 0 0 KQK14069 1603 1504 147 48.9445 KQK14071 474 375 0 0 ==> ERR6133571.se.tsv <== BRADI_1g14170v3 148 BRADI_1g53295v3 70 BRADI_1g59795v3 13 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 23 BRADI_1g74790v3 17 BRADI_1g09890v3 0 BRADI_1g77505v3 19 BRADI_1g48960v3 0 ERR6133571 completed mapping pipeline successfully