Starting /dee2/code/volunteer_pipeline.sh ERR6133440 current disk space = 1546014601216 free memory = 1597206064 ERR6133440 SRAfilesize cfe27c318faa7f74bc0c692402c50ae8 ERR6133440.sra ERR6133440.sra file validated ERR6133440 is single end ERR6133440 is conventional basespace ERR6133440 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133440_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 35.1905 37.0 33.0 37.0 33.0 37.0 2 36.336 37.0 37.0 37.0 33.0 37.0 3 35.7575 37.0 37.0 37.0 33.0 37.0 4 35.429 37.0 37.0 37.0 33.0 37.0 5 35.28275 37.0 37.0 37.0 33.0 37.0 6 35.5505 37.0 37.0 37.0 33.0 37.0 7 37.136 37.0 37.0 40.0 33.0 40.0 8 37.21075 37.0 37.0 40.0 33.0 40.0 9 37.2635 37.0 37.0 40.0 33.0 40.0 10-11 37.173125 37.0 37.0 40.0 33.0 40.0 12-13 37.120625000000004 37.0 37.0 40.0 33.0 40.0 14-15 37.0305 37.0 37.0 40.0 33.0 40.0 16-17 36.940124999999995 37.0 37.0 40.0 33.0 40.0 18-19 37.1025 37.0 37.0 40.0 33.0 40.0 20-21 37.25575 37.0 37.0 40.0 33.0 40.0 22-23 36.997125 37.0 37.0 40.0 33.0 40.0 24-25 37.099374999999995 37.0 37.0 40.0 33.0 40.0 26-27 37.03375 37.0 37.0 40.0 33.0 40.0 28-29 37.20725 37.0 37.0 40.0 33.0 40.0 30-31 37.17125 37.0 37.0 40.0 33.0 40.0 32-33 37.02575 37.0 37.0 40.0 33.0 40.0 34-35 36.869249999999994 37.0 37.0 40.0 33.0 40.0 36-37 36.868375 37.0 37.0 40.0 33.0 40.0 38-39 36.644999999999996 37.0 37.0 40.0 33.0 40.0 40-41 36.626625000000004 37.0 37.0 40.0 33.0 40.0 42-43 36.498374999999996 37.0 37.0 40.0 33.0 40.0 44-45 36.311 37.0 37.0 40.0 33.0 40.0 46-47 36.17100000000001 37.0 37.0 38.5 33.0 40.0 48-49 35.992999999999995 37.0 35.0 37.0 33.0 40.0 50-51 35.766625000000005 37.0 35.0 37.0 33.0 40.0 52-53 35.67 37.0 33.0 37.0 33.0 40.0 54-55 35.39975 37.0 33.0 37.0 33.0 40.0 56-57 35.376875 37.0 33.0 37.0 33.0 38.5 58-59 34.827749999999995 37.0 33.0 37.0 30.0 37.0 60-61 34.635875 37.0 33.0 37.0 30.0 37.0 62-63 34.83475 37.0 33.0 37.0 33.0 37.0 64-65 34.413 37.0 33.0 37.0 30.0 37.0 66-67 34.407875000000004 37.0 33.0 37.0 30.0 37.0 68-69 33.070125000000004 35.0 33.0 35.0 30.0 37.0 70-71 33.25662976429288 33.0 33.0 37.0 27.0 37.0 72-73 33.973497583539235 37.0 33.0 37.0 27.0 37.0 74-75 34.28877861347442 37.0 33.0 37.0 30.0 37.0 76-77 34.157957151818316 37.0 33.0 37.0 27.0 37.0 78-79 34.1684213884635 37.0 33.0 37.0 30.0 37.0 80-81 34.19597301403569 37.0 33.0 37.0 33.0 37.0 82-83 33.97542693161843 37.0 33.0 37.0 27.0 37.0 84-85 33.984433259842 37.0 33.0 37.0 30.0 37.0 86-87 33.81416386663221 37.0 33.0 37.0 27.0 37.0 88-89 33.8942879296976 37.0 33.0 37.0 27.0 37.0 90-91 33.73933833031791 35.0 33.0 37.0 27.0 37.0 92-93 33.41496510726286 33.0 33.0 37.0 27.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 9.0 21 9.0 22 14.0 23 15.0 24 25.0 25 22.0 26 34.0 27 43.0 28 45.0 29 45.0 30 74.0 31 87.0 32 123.0 33 172.0 34 275.0 35 533.0 36 930.0 37 1055.0 38 481.0 39 9.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 89.8 2.5749999999999997 2.5250000000000004 5.1 2 72.090112640801 16.7459324155194 6.708385481852315 4.4555694618272845 3 37.675 36.85 13.575000000000001 11.899999999999999 4 35.15 27.825 17.875 19.15 5 25.224999999999998 31.924999999999997 23.849999999999998 19.0 6 21.3 36.225 26.325 16.150000000000002 7 37.225 27.800000000000004 20.200000000000003 14.774999999999999 8 32.275 29.7 23.35 14.674999999999999 9 28.875 25.55 28.050000000000004 17.525 10-11 27.6125 26.650000000000002 26.8 18.9375 12-13 29.349999999999998 25.3 28.725 16.625 14-15 22.8875 28.799999999999997 29.1125 19.2 16-17 24.887500000000003 30.612499999999997 26.5875 17.9125 18-19 23.9125 26.724999999999998 27.875 21.4875 20-21 25.900000000000002 25.7625 27.125 21.212500000000002 22-23 26.3 24.349999999999998 27.6125 21.7375 24-25 26.0375 24.3125 28.599999999999998 21.05 26-27 24.462500000000002 24.95 30.3 20.2875 28-29 25.5625 26.137500000000003 27.525 20.775 30-31 26.825 24.349999999999998 27.85 20.974999999999998 32-33 24.05 26.5125 28.462500000000002 20.974999999999998 34-35 25.587500000000002 24.5625 28.125 21.725 36-37 24.212500000000002 25.2375 28.9375 21.6125 38-39 24.637500000000003 26.05 30.162499999999998 19.15 40-41 26.2625 24.2625 28.262500000000003 21.212500000000002 42-43 23.8125 26.724999999999998 28.000000000000004 21.462500000000002 44-45 24.1625 24.7875 29.75 21.3 46-47 23.1 24.8125 29.675 22.412499999999998 48-49 24.1125 25.2 30.562499999999996 20.125 50-51 25.4 25.8625 29.5375 19.2 52-53 24.325 26.637499999999996 28.812500000000004 20.225 54-55 23.95 26.8625 29.462500000000002 19.725 56-57 24.2875 25.275 29.825000000000003 20.6125 58-59 24.5375 24.3625 29.275000000000002 21.825 60-61 23.8875 24.55 29.9375 21.625 62-63 23.375 27.150000000000002 30.5125 18.9625 64-65 24.0625 25.3 30.1875 20.45 66-67 24.85 25.2 30.112499999999997 19.8375 68-69 23.225 26.6 28.6875 21.4875 70-71 24.68703054581873 25.43815723585378 29.694541812719077 20.180270405608415 72-73 25.79834045763138 24.70455116922303 28.652250440030176 20.844857933115414 74-75 23.302196415046705 25.78894218631659 31.153749053269376 19.75511234536733 76-77 23.18325935320228 25.46607482561826 31.249207355738744 20.10145846544071 78-79 23.24751465715014 24.968136630130005 31.544736171297476 20.23961254142238 80-81 23.64311315924219 26.395289298515106 31.40040962621608 18.561187916026626 82-83 22.51477010017981 25.76419213973799 31.723606473156945 19.99743128692525 84-85 23.499806426635693 23.35785262614531 32.378371402761644 20.76396954445735 86-87 23.42982682863789 25.10984750581546 32.69578702507108 18.764538640475575 88-89 22.925820625484622 27.255104678211424 31.04161281985009 18.777461876453863 90-91 25.898164900491082 25.78185577668648 29.54251744636857 18.777461876453863 92-93 22.189196174722152 28.54742827604032 30.938226932023777 18.32514861721375 >>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 2.0 18 3.5 19 3.0 20 3.5 21 3.0 22 3.0 23 3.0 24 3.5 25 6.0 26 7.5 27 9.5 28 10.0 29 9.5 30 16.0 31 25.5 32 43.0 33 72.0 34 82.0 35 87.5 36 122.5 37 159.5 38 183.5 39 191.5 40 194.5 41 201.5 42 199.0 43 198.0 44 197.0 45 196.5 46 215.0 47 218.5 48 181.0 49 164.0 50 152.5 51 127.0 52 122.0 53 132.0 54 113.5 55 79.0 56 64.5 57 57.0 58 59.0 59 50.0 60 46.0 61 56.0 62 48.0 63 33.5 64 29.0 65 25.5 66 17.0 67 17.5 68 18.0 69 13.0 70 10.0 71 6.0 72 4.5 73 1.5 74 1.0 75 1.5 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 0.125 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 0.02580312217778351 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 8.0 72 6.0 73 9.0 74 8.0 75 7.0 76 15.0 77 7.0 78 10.0 79 8.0 80 8.0 81 3.0 82 12.0 83 5.0 84 13.0 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 3869.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 87.375 #Duplication Level Percentage of deduplicated Percentage of total 1 93.79113018597998 81.95 2 3.919885550786838 6.8500000000000005 3 1.144492131616595 3.0 4 0.34334763948497854 1.2 5 0.2575107296137339 1.125 6 0.057224606580829764 0.3 7 0.14306151645207438 0.8750000000000001 8 0.057224606580829764 0.4 9 0.028612303290414882 0.22499999999999998 >10 0.2575107296137339 4.075 >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 warn #Sequence Count Percentage Possible Source GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 31 0.775 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 25 0.625 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 22 0.5499999999999999 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 19 0.475 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 15 0.375 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 15 0.375 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 14 0.35000000000000003 No Hit GGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACT 12 0.3 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 10 0.25 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 9 0.22499999999999998 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 8 0.2 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 8 0.2 No Hit GGGAGTATTATGAAAGGAGATTAATCATAGATTATCAAAAACCCTAGAAA 7 0.17500000000000002 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 7 0.17500000000000002 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 7 0.17500000000000002 No Hit GGGTGTGAGCTGGAGAGACGATCGGGTCTCTCAGCCGGCGTCTTCATCAG 7 0.17500000000000002 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 7 0.17500000000000002 No Hit GGGAAATTAACAGTTGGAAAGGGCGATCGGTCTTGATCCCTCTGTGTTTC 6 0.15 No Hit GGGCCATTTGTGGCATGCAGGAAGAGCCCGAGCTGCTGCAGCAGGTTTTG 6 0.15 No Hit GGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCG 5 0.125 No Hit GTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAA 5 0.125 No Hit GGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAA 5 0.125 No Hit GGAAGAGCCCGAGCTGCTGCAGCAGGTTTTGAAAAGGGAATCGATCGTGA 5 0.125 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 5 0.125 No Hit GGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTG 5 0.125 No Hit GGGGAAGTACACCAGCGACGGCGAGGCCGCCGCCGCCAAGGAAGGCATGT 5 0.125 No Hit GGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTTG 5 0.125 No Hit GGTTTTGAAAAGGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAA 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 0.0125 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 0.05 0.0 0.0 0.0 0.0 66-67 0.05 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 GGGATGA 30 1.8720726E-4 57.391666 1 GGATGAT 25 0.0068883067 51.6525 2 ATGATTC 25 0.0068883067 51.6525 4 TGATTCT 25 0.0068883067 51.6525 5 ATTCTGT 25 0.0068883067 51.6525 7 GGTGGAG 20 8.2420016E-4 43.04375 24-25 AGTGGCT 25 0.0017909572 36.730667 80-81 TTTAGAA 25 0.0017909572 36.730667 86-87 TGGCTTT 25 0.0017909572 36.730667 82-83 CGAGTGG 25 0.0018511736 36.487415 78-79 TAATCGA 25 0.0019764178 36.010456 74-75 CAGCTAA 25 0.0022470297 35.09299 70-71 TCCTTGG 25 0.0024686118 34.435 44-45 GAGGAAC 25 0.0024686118 34.435 28-29 AGGACAT 25 0.0024686118 34.435 38-39 CATCCTT 25 0.0024686118 34.435 42-43 CAATTTG 25 0.0024686118 34.435 18-19 GTATTAC 25 0.0024686118 34.435 12-13 AACTTTA 25 0.0024686118 34.435 32-33 CTTGGGG 25 0.0024686118 34.435 46-47 >>END_MODULE Rejected 129468 READS because READLEN < 1 Read 129468 spots for ERR6133440.sra Written 129468 spots for ERR6133440.sra Rejected 129468 READS because READLEN < 1 Read 129468 spots for ERR6133440.sra Written 129468 spots for ERR6133440.sra Rejected 129468 READS because READLEN < 1 Read 129468 spots for ERR6133440.sra Written 129468 spots for ERR6133440.sra Rejected 129468 READS because READLEN < 1 Read 129468 spots for ERR6133440.sra Written 129468 spots for ERR6133440.sra Rejected 129468 READS because READLEN < 1 Read 129468 spots for ERR6133440.sra Written 129468 spots for ERR6133440.sra Rejected 129468 READS because READLEN < 1 Read 129468 spots for ERR6133440.sra Written 129468 spots for ERR6133440.sra Rejected 129468 READS because READLEN < 1 Read 129468 spots for ERR6133440.sra Written 129468 spots for ERR6133440.sra Rejected 129468 READS because READLEN < 1 Read 129468 spots for ERR6133440.sra Written 129468 spots for ERR6133440.sra Rejected 129468 READS because READLEN < 1 Read 129468 spots for ERR6133440.sra Written 129468 spots for ERR6133440.sra Rejected 129468 READS because READLEN < 1 Read 129468 spots for ERR6133440.sra Written 129468 spots for ERR6133440.sra Rejected 129468 READS because READLEN < 1 Read 129468 spots for ERR6133440.sra Written 129468 spots for ERR6133440.sra Rejected 129468 READS because READLEN < 1 Read 129468 spots for ERR6133440.sra Written 129468 spots for ERR6133440.sra Rejected 129468 READS because READLEN < 1 Read 129468 spots for ERR6133440.sra Written 129468 spots for ERR6133440.sra Rejected 129468 READS because READLEN < 1 Read 129468 spots for ERR6133440.sra Written 129468 spots for ERR6133440.sra Rejected 129468 READS because READLEN < 1 Read 129468 spots for ERR6133440.sra Written 129468 spots for ERR6133440.sra Rejected 129470 READS because READLEN < 1 Read 129470 spots for ERR6133440.sra Written 129470 spots for ERR6133440.sra Rejected 129468 READS because READLEN < 1 Read 129468 spots for ERR6133440.sra Written 129468 spots for ERR6133440.sra Rejected 129468 READS because READLEN < 1 Read 129468 spots for ERR6133440.sra Written 129468 spots for ERR6133440.sra Rejected 129468 READS because READLEN < 1 Read 129468 spots for ERR6133440.sra Written 129468 spots for ERR6133440.sra Rejected 129468 READS because READLEN < 1 Read 129468 spots for ERR6133440.sra Written 129468 spots for ERR6133440.sra SRR ids: ['ERR6133440.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_5u4hkhkw ERR6133440.sra spots: 2589362 blocks: [[1, 129468], [129469, 258936], [258937, 388404], [388405, 517872], [517873, 647340], [647341, 776808], [776809, 906276], [906277, 1035744], [1035745, 1165212], [1165213, 1294680], [1294681, 1424148], [1424149, 1553616], [1553617, 1683084], [1683085, 1812552], [1812553, 1942020], [1942021, 2071488], [2071489, 2200956], [2200957, 2330424], [2330425, 2459892], [2459893, 2589362]] ERR6133440 file size 571022 ERR6133440 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 ERR6133440 ERR6133440_1.fastq Input file: ERR6133440_1.fastq trimmed: ERR6133440-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 05:40:39 2024 >> started Sat Dec 7 05:40:40 2024 >> done (1.739s) 2589362 reads processed; of these: 1071 ( 0.04%) short reads filtered out after trimming by size control 40 ( 0.00%) empty reads filtered out after trimming by size control 2588251 (99.96%) reads available; of these: 34662 ( 1.34%) trimmed reads available after processing 2553589 (98.66%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 23 0.00% 19 26 0.00% 20 19 0.00% 21 15 0.00% 22 18 0.00% 23 9 0.00% 24 7 0.00% 25 5 0.00% 26 6 0.00% 27 6 0.00% 28 16 0.00% 29 88 0.00% 30 6 0.00% 31 12 0.00% 32 15 0.00% 33 8 0.00% 34 7 0.00% 35 5 0.00% 36 9 0.00% 37 9 0.00% 38 12 0.00% 39 20 0.00% 40 61 0.00% 41 17 0.00% 42 15 0.00% 43 59 0.00% 44 18 0.00% 45 15 0.00% 46 10 0.00% 47 12 0.00% 48 14 0.00% 49 15 0.00% 50 11 0.00% 51 33 0.00% 52 18 0.00% 53 12 0.00% 54 13 0.00% 55 19 0.00% 56 16 0.00% 57 10 0.00% 58 17 0.00% 59 17 0.00% 60 19 0.00% 61 12 0.00% 62 0 0.00% 63 4 0.00% 64 4 0.00% 65 6 0.00% 66 5 0.00% 67 7 0.00% 68 23 0.00% 69 82 0.00% 70 6894 0.27% 71 6864 0.27% 72 7458 0.29% 73 6630 0.26% 74 6902 0.27% 75 6827 0.26% 76 6245 0.24% 77 6524 0.25% 78 7161 0.28% 79 7801 0.30% 80 7014 0.27% 81 7152 0.28% 82 8184 0.32% 83 8813 0.34% 84 7379 0.29% 85 70 0.00% 86 137 0.01% 87 209 0.01% 88 391 0.02% 89 811 0.03% 90 1907 0.07% 91 5560 0.21% 92 23399 0.90% 93 2447014 94.54% 2588251 reads passed initial QC criterion=sequence-density sequence-density=0.65 sequence-density-rank=1 fanout-score=4.61 fanout-score-rank=30 prefix-density=0.86 prefix-fanout=3.5 sequence=ATGCATGCATGC criterion=fanout-score sequence-density=0.02 sequence-density-rank=28 fanout-score=340.18 fanout-score-rank=1 prefix-density=0.72 prefix-fanout=8.9 sequence=GAAGAAGAAAAGTTTTCTCAACATGGGGAGGAAGTCCCTCCGAAATTTGATTTGTTATTGTATTGTAAGGGGCTTTTTTAGTATTTATCTAAAGGAAGGAACAAACGAGGATAAGATAAAATTGCTTTAAATTTATTTTGCCCAAGTGGGATATATGGCATACTATTCTTTCCATTTTCATCTTTTTTTCTATTCCACTCCATCTAGATATAAGAAAGAACCCAATGCAATGAAATTCCACTAATATACAATACAAAAAAGAAGA Started job on | Dec 07 05:40:57 Started mapping on | Dec 07 05:40:57 Finished on | Dec 07 05:41:02 Mapping speed, Million of reads per hour | 1863.54 Number of input reads | 2588251 Average input read length | 92 UNIQUE READS: Uniquely mapped reads number | 2113148 Uniquely mapped reads % | 81.64% Average mapped length | 91.96 Number of splices: Total | 98900 Number of splices: Annotated (sjdb) | 81713 Number of splices: GT/AG | 94393 Number of splices: GC/AG | 2472 Number of splices: AT/AC | 25 Number of splices: Non-canonical | 2010 Mismatch rate per base, % | 0.39% Deletion rate per base | 0.04% Deletion average length | 1.81 Insertion rate per base | 0.02% Insertion average length | 2.01 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 426175 % of reads mapped to multiple loci | 16.47% Number of reads mapped to too many loci | 11878 % of reads mapped to too many loci | 0.46% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.40% % of reads unmapped: other | 0.03% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 48928 48928 48928 N_multimapping 426175 426175 426175 N_noFeature 112346 130408 2015657 N_ambiguous 86629 7245 195 UnstrandedReadsAssigned:1914173 PositiveStrandReadsAssigned:1975495 NegativeStrandReadsAssigned:97296 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133440 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: ERR6133440-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 2,588,251 reads, 2,267,642 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,026 rounds 52973 ERR6133440.ke.tsv 35125 ERR6133440.se.tsv 88098 total ==> ERR6133440.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 91 39.5513 PNS24243 293 194 0 0 KQK14069 1603 1504 85 33.7012 KQK14071 474 375 0 0 ==> ERR6133440.se.tsv <== BRADI_1g14170v3 85 BRADI_1g53295v3 55 BRADI_1g59795v3 8 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 31 BRADI_1g74790v3 28 BRADI_1g09890v3 0 BRADI_1g77505v3 80 BRADI_1g48960v3 0 ERR6133440 completed mapping pipeline successfully