Starting /dee2/code/volunteer_pipeline.sh ERR6133475 current disk space = 1544917286912 free memory = 1597163868 ERR6133475 SRAfilesize 68421069e27878f99f8e2fc1c6d68fdf ERR6133475.sra ERR6133475.sra file validated ERR6133475 is single end ERR6133475 is conventional basespace ERR6133475 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133475_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 35.4645 37.0 33.0 37.0 33.0 37.0 2 36.439 37.0 37.0 37.0 37.0 37.0 3 35.74775 37.0 37.0 37.0 33.0 37.0 4 35.259 37.0 37.0 37.0 33.0 37.0 5 35.245 37.0 37.0 37.0 33.0 37.0 6 35.555 37.0 37.0 37.0 33.0 37.0 7 37.219 37.0 37.0 40.0 33.0 40.0 8 37.3255 37.0 37.0 40.0 33.0 40.0 9 37.3875 37.0 37.0 40.0 33.0 40.0 10-11 37.38825 37.0 37.0 40.0 33.0 40.0 12-13 37.335375 37.0 37.0 40.0 33.0 40.0 14-15 37.283874999999995 37.0 37.0 40.0 33.0 40.0 16-17 37.084625 37.0 37.0 40.0 33.0 40.0 18-19 36.951499999999996 37.0 37.0 40.0 33.0 40.0 20-21 36.701625 37.0 37.0 40.0 33.0 40.0 22-23 36.689375 37.0 37.0 40.0 33.0 40.0 24-25 36.5475 37.0 37.0 40.0 33.0 40.0 26-27 36.794125 37.0 37.0 40.0 33.0 40.0 28-29 36.830124999999995 37.0 37.0 40.0 33.0 40.0 30-31 36.741875 37.0 37.0 40.0 33.0 40.0 32-33 36.668625 37.0 37.0 40.0 33.0 40.0 34-35 36.598875 37.0 37.0 40.0 33.0 40.0 36-37 36.391 37.0 37.0 40.0 33.0 40.0 38-39 36.38425 37.0 37.0 40.0 33.0 40.0 40-41 36.150625000000005 37.0 37.0 40.0 33.0 40.0 42-43 36.07925 37.0 37.0 40.0 33.0 40.0 44-45 36.1115 37.0 37.0 40.0 33.0 40.0 46-47 36.0025 37.0 37.0 38.5 33.0 40.0 48-49 36.012249999999995 37.0 37.0 37.0 33.0 40.0 50-51 35.839125 37.0 35.0 37.0 33.0 40.0 52-53 35.56625 37.0 33.0 37.0 33.0 40.0 54-55 35.526375 37.0 33.0 37.0 33.0 40.0 56-57 35.309 37.0 33.0 37.0 33.0 38.5 58-59 34.317750000000004 37.0 33.0 37.0 30.0 37.0 60-61 34.763625000000005 37.0 33.0 37.0 33.0 37.0 62-63 34.604124999999996 37.0 33.0 37.0 30.0 37.0 64-65 34.61925 37.0 33.0 37.0 33.0 37.0 66-67 34.590625 37.0 33.0 37.0 33.0 37.0 68-69 33.738625 35.0 33.0 37.0 27.0 37.0 70-71 33.934921184738954 35.0 33.0 37.0 27.0 37.0 72-73 34.26881980743651 37.0 33.0 37.0 30.0 37.0 74-75 34.21042113385657 37.0 33.0 37.0 27.0 37.0 76-77 34.14223861932263 37.0 33.0 37.0 27.0 37.0 78-79 34.139977333176105 37.0 33.0 37.0 27.0 37.0 80-81 34.06389372170901 37.0 33.0 37.0 27.0 37.0 82-83 33.833582499283516 37.0 33.0 37.0 27.0 37.0 84-85 33.634187388920424 37.0 33.0 37.0 27.0 37.0 86-87 33.5318981359937 37.0 33.0 37.0 27.0 37.0 88-89 33.72893147807824 37.0 33.0 37.0 27.0 37.0 90-91 33.406143344709896 37.0 33.0 37.0 27.0 37.0 92-93 33.36571278550801 35.0 33.0 37.0 27.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 10.0 21 10.0 22 14.0 23 22.0 24 24.0 25 20.0 26 24.0 27 44.0 28 59.0 29 55.0 30 89.0 31 101.0 32 135.0 33 164.0 34 283.0 35 510.0 36 964.0 37 911.0 38 547.0 39 14.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 87.97500000000001 3.175 2.9499999999999997 5.8999999999999995 2 71.85000000000001 15.55 8.225 4.375 3 36.95 38.425 14.475 10.15 4 33.900000000000006 29.9 17.65 18.55 5 25.025 32.800000000000004 24.725 17.45 6 20.075000000000003 38.875 25.575 15.475 7 35.575 28.475 19.675 16.275000000000002 8 28.999999999999996 28.000000000000004 24.425 18.575 9 26.275 29.675 26.575 17.474999999999998 10-11 25.412499999999998 27.875 27.6125 19.1 12-13 27.8375 26.05 27.500000000000004 18.6125 14-15 22.5125 29.875 28.8875 18.725 16-17 24.825 30.4875 25.124999999999996 19.5625 18-19 24.1625 26.1625 28.762500000000003 20.9125 20-21 25.7375 25.7125 28.012500000000003 20.5375 22-23 26.6 23.8125 28.1 21.4875 24-25 25.5375 24.712500000000002 29.062500000000004 20.6875 26-27 24.6125 26.637499999999996 28.999999999999996 19.75 28-29 23.974999999999998 27.1125 28.762500000000003 20.150000000000002 30-31 27.725 25.074999999999996 27.150000000000002 20.05 32-33 24.4875 26.9125 27.275 21.325 34-35 25.9625 26.237500000000004 27.825 19.975 36-37 25.0625 24.762500000000003 27.925 22.25 38-39 26.46727568514579 24.515079464397445 30.15892879489426 18.858716055562507 40-41 26.435631177280122 25.172025522332042 28.41236081571375 19.97998248467409 42-43 24.756189047261813 29.532383095773945 26.70667666916729 19.004751187796952 44-45 24.75 25.025 29.45 20.775 46-47 25.162499999999998 24.087500000000002 27.437499999999996 23.3125 48-49 24.5625 24.675 30.587500000000002 20.175 50-51 24.4875 26.5375 28.475 20.5 52-53 24.571285517586684 27.775691575916884 26.824383527350104 20.828639379146328 54-55 23.775 27.275 28.6625 20.2875 56-57 25.2875 26.2125 28.6375 19.8625 58-59 23.3125 25.5375 30.075000000000003 21.075 60-61 26.087500000000002 24.212500000000002 29.3375 20.3625 62-63 22.4625 27.737499999999997 30.25 19.55 64-65 23.0 28.037499999999998 28.8375 20.125 66-67 25.1875 28.037499999999998 28.425 18.35 68-69 24.725 25.724999999999998 28.8375 20.7125 70-71 25.0501002004008 26.164829659318638 27.191883767535067 21.59318637274549 72-73 26.290606900025182 25.220347519516494 28.708133971291865 19.780911609166456 74-75 23.548795944233206 28.11153358681876 28.55513307984791 19.784537389100127 76-77 22.551890997071183 25.964599516108493 29.211766203998472 22.271743282821852 78-79 23.84182237010494 25.275147171743022 30.88047094957768 20.002559508574354 80-81 23.776945914547568 28.13992513230928 29.598554279075774 18.48457467406738 82-83 24.044213263979195 25.578673602080627 29.245773732119634 21.131339401820544 84-85 23.97430855944423 24.433084283654477 30.94769956744003 20.644907589461265 86-87 22.64373851404568 27.014964557626676 30.047256497768444 20.2940404305592 88-89 21.97427146232607 28.301391441323183 30.637962719873986 19.086374376476765 90-91 25.781044893672878 26.699921239170386 29.062746127592543 18.45628773956419 92-93 22.315568390653713 28.577054344972435 29.60094512995537 19.506432134418482 >>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 6.5 18 8.0 19 1.5 20 1.5 21 6.0 22 7.0 23 7.0 24 7.0 25 3.5 26 3.0 27 9.0 28 22.0 29 28.0 30 33.5 31 38.0 32 45.0 33 64.5 34 80.0 35 103.5 36 136.5 37 149.0 38 157.5 39 157.0 40 171.5 41 198.5 42 203.5 43 211.0 44 189.0 45 179.0 46 213.0 47 201.5 48 155.5 49 159.0 50 156.0 51 144.0 52 156.5 53 159.0 54 161.0 55 115.0 56 58.0 57 49.5 58 52.5 59 46.0 60 40.0 61 43.0 62 35.0 63 24.0 64 22.0 65 24.0 66 20.0 67 15.0 68 14.5 69 13.0 70 9.0 71 6.0 72 5.5 73 4.0 74 4.0 75 3.0 76 1.0 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 0.0 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 0.11249999999999999 40-41 0.08750000000000001 42-43 0.025 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 16.0 71 9.0 72 8.0 73 18.0 74 8.0 75 8.0 76 13.0 77 6.0 78 14.0 79 16.0 80 21.0 81 12.0 82 12.0 83 19.0 84 11.0 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 3809.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 83.39999999999999 #Duplication Level Percentage of deduplicated Percentage of total 1 94.24460431654677 78.60000000000001 2 3.1774580335731413 5.3 3 1.079136690647482 2.7 4 0.6294964028776978 2.1 5 0.08992805755395684 0.375 6 0.20983213429256595 1.05 7 0.029976019184652276 0.17500000000000002 8 0.0 0.0 9 0.05995203836930455 0.44999999999999996 >10 0.4196642685851319 5.75 >50 0.05995203836930455 3.5000000000000004 >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 83 2.075 No Hit GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 57 1.425 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 31 0.775 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 30 0.75 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 22 0.5499999999999999 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 17 0.42500000000000004 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 16 0.4 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 15 0.375 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 14 0.35000000000000003 No Hit GGAGTATCCTTGATATATAAATATATAGATAAATAGATTTAAATGGAAAA 14 0.35000000000000003 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 14 0.35000000000000003 No Hit GGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAA 13 0.325 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 12 0.3 No Hit GGGAGTATTATGAAAGGAGATTAATCATAGATTATCAAAAACCCTAGAAA 11 0.27499999999999997 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 11 0.27499999999999997 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 10 0.25 No Hit GGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTC 9 0.22499999999999998 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 9 0.22499999999999998 No Hit GGGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTT 7 0.17500000000000002 No Hit GGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAA 6 0.15 No Hit GAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAAT 6 0.15 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 6 0.15 No Hit GGGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCG 6 0.15 No Hit GTATGGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGATTA 6 0.15 No Hit GTATTTAGCCTTGCAAGGTGGTCCTTGCTGATTCACACGGGATTCCACGT 6 0.15 No Hit GGGGAAGTACACCAGCGACGGCGAGGCCGCCGCCGCCAAGGAAGGCATGT 6 0.15 No Hit GGTGGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGC 5 0.125 No Hit GGGAATTGCTATTCTTTCTACTTCTCGAGGGATAATGACAGATCGAGAGG 5 0.125 No Hit GGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTT 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 0.0125 0.0 52-53 0.0 0.0 0.0 0.025 0.0 54-55 0.0 0.0 0.0 0.025 0.0 56-57 0.0 0.0 0.0 0.025 0.0 58-59 0.0 0.0 0.0 0.025 0.0 60-61 0.0 0.0 0.0 0.025 0.0 62-63 0.0 0.0 0.0 0.025 0.0 64-65 0.0 0.0 0.0 0.025 0.0 66-67 0.0 0.0 0.0 0.025 0.0 68-69 0.0 0.0 0.0 0.025 0.0 70-71 0.0 0.0 0.0 0.025 0.0 72-73 0.0125 0.0 0.0 0.025 0.0 74-75 0.025 0.0 0.0 0.025 0.0 76-77 0.025 0.0 0.0 0.025 0.0 78-79 0.025 0.0 0.0 0.025 0.0 80-81 0.025 0.0 0.0 0.025 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Rejected 168182 READS because READLEN < 1 Read 168182 spots for ERR6133475.sra Written 168182 spots for ERR6133475.sra Rejected 168182 READS because READLEN < 1 Read 168182 spots for ERR6133475.sra Written 168182 spots for ERR6133475.sra Rejected 168182 READS because READLEN < 1 Read 168182 spots for ERR6133475.sra Written 168182 spots for ERR6133475.sra Rejected 168182 READS because READLEN < 1 Read 168182 spots for ERR6133475.sra Written 168182 spots for ERR6133475.sra Rejected 168182 READS because READLEN < 1 Read 168182 spots for ERR6133475.sra Written 168182 spots for ERR6133475.sra Rejected 168182 READS because READLEN < 1 Read 168182 spots for ERR6133475.sra Written 168182 spots for ERR6133475.sra Rejected 168182 READS because READLEN < 1 Read 168182 spots for ERR6133475.sra Written 168182 spots for ERR6133475.sra Rejected 168182 READS because READLEN < 1 Read 168182 spots for ERR6133475.sra Written 168182 spots for ERR6133475.sra Rejected 168182 READS because READLEN < 1 Read 168182 spots for ERR6133475.sra Written 168182 spots for ERR6133475.sra Rejected 168182 READS because READLEN < 1 Read 168182 spots for ERR6133475.sra Written 168182 spots for ERR6133475.sra Rejected 168182 READS because READLEN < 1 Read 168182 spots for ERR6133475.sra Written 168182 spots for ERR6133475.sra Rejected 168182 READS because READLEN < 1 Read 168182 spots for ERR6133475.sra Written 168182 spots for ERR6133475.sra Rejected 168188 READS because READLEN < 1 Read 168188 spots for ERR6133475.sra Written 168188 spots for ERR6133475.sra Rejected 168182 READS because READLEN < 1 Read 168182 spots for ERR6133475.sra Written 168182 spots for ERR6133475.sra Rejected 168182 READS because READLEN < 1 Read 168182 spots for ERR6133475.sra Written 168182 spots for ERR6133475.sra Rejected 168182 READS because READLEN < 1 Read 168182 spots for ERR6133475.sra Written 168182 spots for ERR6133475.sra Rejected 168182 READS because READLEN < 1 Read 168182 spots for ERR6133475.sra Written 168182 spots for ERR6133475.sra Rejected 168182 READS because READLEN < 1 Read 168182 spots for ERR6133475.sra Written 168182 spots for ERR6133475.sra Rejected 168182 READS because READLEN < 1 Read 168182 spots for ERR6133475.sra Written 168182 spots for ERR6133475.sra Rejected 168182 READS because READLEN < 1 Read 168182 spots for ERR6133475.sra Written 168182 spots for ERR6133475.sra SRR ids: ['ERR6133475.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_x3fqphju ERR6133475.sra spots: 3363646 blocks: [[1, 168182], [168183, 336364], [336365, 504546], [504547, 672728], [672729, 840910], [840911, 1009092], [1009093, 1177274], [1177275, 1345456], [1345457, 1513638], [1513639, 1681820], [1681821, 1850002], [1850003, 2018184], [2018185, 2186366], [2186367, 2354548], [2354549, 2522730], [2522731, 2690912], [2690913, 2859094], [2859095, 3027276], [3027277, 3195458], [3195459, 3363646]] ERR6133475 file size 740952 ERR6133475 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 ERR6133475 ERR6133475_1.fastq Input file: ERR6133475_1.fastq trimmed: ERR6133475-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 06:51:16 2024 >> started Sat Dec 7 06:51:18 2024 >> done (1.756s) 3363646 reads processed; of these: 301 ( 0.01%) short reads filtered out after trimming by size control 31 ( 0.00%) empty reads filtered out after trimming by size control 3363314 (99.99%) reads available; of these: 57808 ( 1.72%) trimmed reads available after processing 3305506 (98.28%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 30 0.00% 19 75 0.00% 20 25 0.00% 21 25 0.00% 22 27 0.00% 23 13 0.00% 24 12 0.00% 25 8 0.00% 26 20 0.00% 27 17 0.00% 28 43 0.00% 29 43 0.00% 30 22 0.00% 31 32 0.00% 32 28 0.00% 33 19 0.00% 34 16 0.00% 35 108 0.00% 36 736 0.02% 37 16 0.00% 38 41 0.00% 39 108 0.00% 40 53 0.00% 41 47 0.00% 42 28 0.00% 43 20 0.00% 44 39 0.00% 45 16 0.00% 46 26 0.00% 47 17 0.00% 48 10 0.00% 49 14 0.00% 50 22 0.00% 51 63 0.00% 52 21 0.00% 53 12 0.00% 54 10 0.00% 55 8 0.00% 56 25 0.00% 57 24 0.00% 58 23 0.00% 59 7 0.00% 60 12 0.00% 61 8 0.00% 62 1 0.00% 63 5 0.00% 64 10 0.00% 65 4 0.00% 66 9 0.00% 67 17 0.00% 68 24 0.00% 69 111 0.00% 70 12092 0.36% 71 11578 0.34% 72 12585 0.37% 73 11685 0.35% 74 12010 0.36% 75 12405 0.37% 76 10725 0.32% 77 11517 0.34% 78 12363 0.37% 79 13607 0.40% 80 12431 0.37% 81 13101 0.39% 82 14632 0.44% 83 15961 0.47% 84 12587 0.37% 85 129 0.00% 86 226 0.01% 87 354 0.01% 88 657 0.02% 89 1203 0.04% 90 2604 0.08% 91 8300 0.25% 92 39090 1.16% 93 3119322 92.75% 3363314 reads passed initial QC criterion=sequence-density sequence-density=0.36 sequence-density-rank=1 fanout-score=6.91 fanout-score-rank=28 prefix-density=0.56 prefix-fanout=4.4 sequence=ATGCATGCATGC criterion=fanout-score sequence-density=0.02 sequence-density-rank=30 fanout-score=313.91 fanout-score-rank=1 prefix-density=0.57 prefix-fanout=9.2 sequence=GAAGAAGAAAAGTTTTCTCAACATGGGGAGGAAGTCCCTCCGAAATTTGATTTGTTATTGTATTGTAAGGGGCTTTTTTAGTATTTATCTAAAGGAAGGAACAAACGAGGATAAGATAAAATTTCTTTAAATTTATTTTGCCCAAGTGGGATATATGGCATACTATTCTTTCCATTTTCATCTTTTTTTCTATTCCACTCCATCTAGATATAAGAAAGAACCCAATGCAATGAAATTCCACTAATATACAATACAAAAAAGAAGAATAGATACAGGGTCTCAAACCTTGCTATAGAGTTTTTGCTTTAAAG Started job on | Dec 07 06:51:37 Started mapping on | Dec 07 06:51:37 Finished on | Dec 07 06:51:43 Mapping speed, Million of reads per hour | 2017.99 Number of input reads | 3363314 Average input read length | 92 UNIQUE READS: Uniquely mapped reads number | 2491191 Uniquely mapped reads % | 74.07% Average mapped length | 91.70 Number of splices: Total | 136683 Number of splices: Annotated (sjdb) | 117884 Number of splices: GT/AG | 132226 Number of splices: GC/AG | 3140 Number of splices: AT/AC | 53 Number of splices: Non-canonical | 1264 Mismatch rate per base, % | 0.42% Deletion rate per base | 0.03% Deletion average length | 1.72 Insertion rate per base | 0.02% Insertion average length | 1.81 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 774767 % of reads mapped to multiple loci | 23.04% Number of reads mapped to too many loci | 26435 % of reads mapped to too many loci | 0.79% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 2.05% % of reads unmapped: other | 0.06% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 97356 97356 97356 N_multimapping 774767 774767 774767 N_noFeature 142747 166079 2380674 N_ambiguous 98383 11201 316 UnstrandedReadsAssigned:2250061 PositiveStrandReadsAssigned:2313911 NegativeStrandReadsAssigned:110201 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133475 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: ERR6133475-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 3,363,314 reads, 2,840,011 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,028 rounds 52973 ERR6133475.ke.tsv 35125 ERR6133475.se.tsv 88098 total ==> ERR6133475.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 70 24.4774 PNS24243 293 194 0 0 KQK14069 1603 1504 18 5.74178 KQK14071 474 375 0 0 ==> ERR6133475.se.tsv <== BRADI_1g14170v3 18 BRADI_1g53295v3 35 BRADI_1g59795v3 10 BRADI_1g07683v3 0 BRADI_1g00485v3 1 BRADI_1g20270v3 35 BRADI_1g74790v3 32 BRADI_1g09890v3 0 BRADI_1g77505v3 69 BRADI_1g48960v3 0 ERR6133475 completed mapping pipeline successfully