Starting /dee2/code/volunteer_pipeline.sh ERR6133560 current disk space = 1544497713152 free memory = 1597016328 ERR6133560 SRAfilesize b93d5889e2d9c06661880e3ceffdfadc ERR6133560.sra ERR6133560.sra file validated ERR6133560 is single end ERR6133560 is conventional basespace ERR6133560 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133560_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 35.4735 37.0 33.0 37.0 33.0 37.0 2 36.5685 37.0 37.0 37.0 37.0 37.0 3 36.0605 37.0 37.0 37.0 33.0 37.0 4 35.41475 37.0 37.0 37.0 33.0 37.0 5 35.396 37.0 37.0 37.0 33.0 37.0 6 35.7385 37.0 37.0 37.0 33.0 37.0 7 37.665 40.0 37.0 40.0 33.0 40.0 8 37.7355 40.0 37.0 40.0 33.0 40.0 9 37.828 40.0 37.0 40.0 33.0 40.0 10-11 37.73725 40.0 37.0 40.0 33.0 40.0 12-13 37.66175 37.0 37.0 40.0 33.0 40.0 14-15 37.6135 38.5 37.0 40.0 33.0 40.0 16-17 37.548 37.0 37.0 40.0 33.0 40.0 18-19 37.482124999999996 37.0 37.0 40.0 33.0 40.0 20-21 37.27225 37.0 37.0 40.0 33.0 40.0 22-23 37.325874999999996 37.0 37.0 40.0 33.0 40.0 24-25 37.463 37.0 37.0 40.0 33.0 40.0 26-27 37.361999999999995 37.0 37.0 40.0 33.0 40.0 28-29 37.248999999999995 37.0 37.0 40.0 33.0 40.0 30-31 37.161249999999995 37.0 37.0 40.0 33.0 40.0 32-33 37.019999999999996 37.0 37.0 40.0 33.0 40.0 34-35 36.898875 37.0 37.0 40.0 33.0 40.0 36-37 36.743 37.0 37.0 40.0 33.0 40.0 38-39 36.48675 37.0 37.0 40.0 33.0 40.0 40-41 36.38225 37.0 37.0 40.0 33.0 40.0 42-43 36.32275 37.0 37.0 40.0 33.0 40.0 44-45 36.010625 37.0 35.0 40.0 33.0 40.0 46-47 35.72625 37.0 33.0 37.0 33.0 40.0 48-49 35.687 37.0 33.0 37.0 33.0 40.0 50-51 35.4435 37.0 33.0 37.0 33.0 40.0 52-53 35.147625000000005 37.0 33.0 37.0 33.0 40.0 54-55 35.177 37.0 33.0 37.0 33.0 40.0 56-57 34.8655 37.0 33.0 37.0 30.0 37.0 58-59 33.605625 37.0 33.0 37.0 27.0 37.0 60-61 34.308375 37.0 33.0 37.0 27.0 37.0 62-63 34.471125 37.0 33.0 37.0 27.0 37.0 64-65 34.394125 37.0 33.0 37.0 27.0 37.0 66-67 34.566375 37.0 33.0 37.0 33.0 37.0 68-69 33.78874999999999 35.0 33.0 37.0 30.0 37.0 70-71 33.83204769654482 35.0 33.0 37.0 27.0 37.0 72-73 34.23046444256368 37.0 33.0 37.0 27.0 37.0 74-75 34.00654940828083 37.0 33.0 37.0 27.0 37.0 76-77 34.15323022870996 37.0 33.0 37.0 27.0 37.0 78-79 34.128902714975325 37.0 33.0 37.0 27.0 37.0 80-81 34.08710882348199 37.0 33.0 37.0 27.0 37.0 82-83 33.92442553177257 37.0 33.0 37.0 27.0 37.0 84-85 33.83887727993461 37.0 33.0 37.0 27.0 37.0 86-87 33.72100712105798 37.0 33.0 37.0 27.0 37.0 88-89 33.91365717192269 37.0 33.0 37.0 27.0 37.0 90-91 33.5971515768057 37.0 33.0 37.0 27.0 37.0 92-93 33.473041709053916 37.0 33.0 37.0 27.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 11.0 21 9.0 22 15.0 23 14.0 24 30.0 25 32.0 26 36.0 27 37.0 28 48.0 29 55.0 30 69.0 31 97.0 32 143.0 33 165.0 34 270.0 35 426.0 36 923.0 37 964.0 38 641.0 39 15.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 87.64999999999999 2.1999999999999997 3.375 6.775 2 71.45 16.950000000000003 6.825 4.775 3 35.199999999999996 39.025 13.725000000000001 12.049999999999999 4 33.275 28.15 18.3 20.275000000000002 5 26.275 30.65 24.875 18.2 6 20.849999999999998 38.800000000000004 24.5 15.85 7 35.099999999999994 28.499999999999996 18.9 17.5 8 30.825000000000003 29.099999999999998 22.875 17.2 9 25.7 29.425 25.924999999999997 18.95 10-11 25.124999999999996 26.987499999999997 28.875 19.0125 12-13 27.700000000000003 26.474999999999998 26.437500000000004 19.3875 14-15 23.075000000000003 31.025000000000002 26.937499999999996 18.9625 16-17 24.712500000000002 30.95 24.349999999999998 19.9875 18-19 24.4375 26.1 27.250000000000004 22.2125 20-21 25.271976991371766 26.384894335375762 27.822933600100036 20.520195073152433 22-23 27.625 22.45 28.475 21.45 24-25 26.835063148680753 24.73427535325747 26.910091284231584 21.520570213830187 26-27 26.25 24.6625 30.075000000000003 19.0125 28-29 26.14133833646029 26.504065040650403 26.01626016260163 21.338336460287678 30-31 27.437499999999996 25.2 26.900000000000002 20.4625 32-33 25.2625 26.75 25.9875 22.0 34-35 25.837500000000002 26.724999999999998 26.6125 20.825 36-37 24.65 24.975 28.0875 22.287499999999998 38-39 27.831957989497376 24.006001500375092 29.632408102025504 18.529632408102024 40-41 26.782586940205157 25.281461095821868 26.65749311983988 21.278458844133098 42-43 25.93148287071768 28.532133033258315 24.99374843710928 20.54263565891473 44-45 24.55 25.224999999999998 29.799999999999997 20.424999999999997 46-47 25.825 24.15 27.8375 22.1875 48-49 25.650000000000002 25.137500000000003 28.237499999999997 20.974999999999998 50-51 24.1125 27.2625 27.675 20.95 52-53 25.369952345121643 26.749435665914223 25.896664158515176 21.98394783044896 54-55 24.0375 27.05 28.262500000000003 20.65 56-57 26.787499999999998 26.05 26.974999999999998 20.1875 58-59 24.1625 24.762500000000003 29.975 21.099999999999998 60-61 25.7 25.15 28.7375 20.4125 62-63 22.912499999999998 27.05 30.3875 19.650000000000002 64-65 23.3875 28.325 27.8625 20.424999999999997 66-67 25.224999999999998 27.800000000000004 27.8125 19.162499999999998 68-69 23.175 26.200000000000003 28.249999999999996 22.375 70-71 24.430823117338004 26.057042782086565 28.42131598699024 21.09081811358519 72-73 26.01983180620058 24.03665118614284 28.367013932471448 21.576503075185137 74-75 23.94419306184012 28.330819507290094 27.89089994972348 19.834087481146305 76-77 22.71468144044321 26.466884915638378 27.562326869806093 23.256106774112315 78-79 24.608980827447024 26.311806256306763 27.913723511604438 21.165489404641775 80-81 23.71316554951309 28.670798027064627 29.062855697483243 18.553180725939043 82-83 23.9158001521684 25.475526249048947 28.620339842759318 21.98833375602333 84-85 23.69758576874206 23.69758576874206 30.749682337992372 21.855146124523507 86-87 22.151576805696845 27.238046795523907 30.31536113936928 20.295015259409972 88-89 22.3677517802645 27.339776195320447 30.02288911495422 20.269582909460834 90-91 25.33062054933876 26.57680569684639 28.484231943031535 19.608341810783315 92-93 22.863682604272633 27.75940996948118 29.361648016276703 20.01525940996948 >>END_MODULE >>Per sequence GC content fail #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 1.0 17 15.0 18 17.5 19 4.0 20 1.5 21 2.5 22 3.0 23 6.0 24 6.5 25 5.0 26 7.0 27 10.0 28 17.0 29 21.0 30 21.0 31 28.5 32 38.0 33 46.0 34 60.5 35 79.5 36 104.0 37 140.0 38 174.0 39 155.5 40 171.5 41 197.0 42 189.0 43 203.5 44 191.0 45 179.0 46 203.0 47 187.5 48 145.5 49 151.0 50 165.0 51 150.5 52 129.5 53 148.0 54 159.5 55 115.0 56 77.0 57 75.5 58 71.5 59 57.0 60 48.0 61 42.0 62 42.0 63 37.0 64 34.5 65 44.5 66 39.5 67 26.5 68 16.5 69 16.0 70 14.5 71 11.0 72 8.0 73 3.5 74 2.5 75 3.0 76 1.5 77 0.5 78 0.5 79 0.0 80 0.5 81 0.5 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 0.0375 22-23 0.0 24-25 0.0375 26-27 0.0 28-29 0.0625 30-31 0.0 32-33 0.0 34-35 0.0 36-37 0.0 38-39 0.025 40-41 0.075 42-43 0.025 44-45 0.0 46-47 0.0 48-49 0.0 50-51 0.0 52-53 0.325 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 6.0 71 9.0 72 3.0 73 3.0 74 2.0 75 4.0 76 4.0 77 3.0 78 4.0 79 6.0 80 5.0 81 7.0 82 2.0 83 4.0 84 6.0 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 3932.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 81.375 #Duplication Level Percentage of deduplicated Percentage of total 1 93.97849462365592 76.47500000000001 2 3.164362519201229 5.1499999999999995 3 1.0752688172043012 2.625 4 0.706605222734255 2.3 5 0.18433179723502305 0.75 6 0.18433179723502305 0.8999999999999999 7 0.09216589861751152 0.525 8 0.06144393241167435 0.4 9 0.06144393241167435 0.44999999999999996 >10 0.4608294930875576 8.625 >50 0.030721966205837174 1.7999999999999998 >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 72 1.7999999999999998 No Hit GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 38 0.95 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 35 0.8750000000000001 No Hit GGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGG 32 0.8 No Hit GGAGTATCCTTGATATATAAATATATAGATAAATAGATTTAAATGGAAAA 29 0.7250000000000001 No Hit GGCGTTCAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTC 27 0.675 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 26 0.65 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 24 0.6 No Hit GGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCTTGG 23 0.575 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 23 0.575 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 19 0.475 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 18 0.44999999999999996 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 15 0.375 No Hit GGGCTGATATCATCAACCGTGCTAATCTTGGTATGGAAGTAATGCACGAA 14 0.35000000000000003 No Hit GGCCTGTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCG 12 0.3 No Hit GGAAGAGACTTATAATATTGTGGCTGCTCATGGTTATTTTGGCCGATTAA 10 0.25 No Hit GGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCG 9 0.22499999999999998 No Hit GTAGTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAA 9 0.22499999999999998 No Hit GGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACAAGCTCGTAA 8 0.2 No Hit GGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGT 8 0.2 No Hit CAAGGTCGCGTTATTAATACTTGGGCTGATATCATCAACCGTGCTAATCT 7 0.17500000000000002 No Hit GGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACT 7 0.17500000000000002 No Hit GGGCCATTTGTGGCATGCAGGAAGAGCCCGAGCTGCTGCAGCAGGTTTTG 7 0.17500000000000002 No Hit GCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAATACTTGGGCT 6 0.15 No Hit GGGAAACAACGAGGTCATCATCGACATGATATATTGCTGCTATTTTCCAC 6 0.15 No Hit CAACCTAAATGGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTC 6 0.15 No Hit GGTGGGGCAATGGGCATTCCGTTGAGTTTGTATGGTGGGTGCTGTTTTGC 6 0.15 No Hit GGAGCAGCCTAAACCGTGAAAACGGGGTTGTGGGAGAGCAATACAAGCGT 6 0.15 No Hit GGAAAAGAAAGCAAAAGCGATTCCCGTAGTAGCGGCGAGCGAAATGGGAG 6 0.15 No Hit GGGCGTCTGGTACGCGCAGCTCGAGTCTAACTAGAAAAAGGATCGGTCGA 5 0.125 No Hit GGATTTGAAGAAAAAAAAGACTTCGATTCATTTTCTATTTATTTCGTTAG 5 0.125 No Hit GTAGGAATCTGGTTCACTGCTTTAGGTATTAGTACTATGGCGTTCAACCT 5 0.125 No Hit GGCAAACTCCCTGGCACAGCTGGGGAAGTACACCAGCGACGGCGAGGCCG 5 0.125 No Hit GAAGGAACAAACGAGGATAAGATAAAATTTCTTTAAATTTATTTTGCCCA 5 0.125 No Hit GTGGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCT 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 0.0125 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 0.0125 0.0 50-51 0.025 0.0 0.0 0.025 0.0 52-53 0.025 0.0 0.0 0.025 0.0 54-55 0.025 0.0 0.0 0.025 0.0 56-57 0.025 0.0 0.0 0.025 0.0 58-59 0.025 0.0 0.0 0.025 0.0 60-61 0.025 0.0 0.0 0.025 0.0 62-63 0.025 0.0 0.0 0.025 0.0 64-65 0.025 0.0 0.0 0.025 0.0 66-67 0.025 0.0 0.0 0.025 0.0 68-69 0.025 0.0 0.0 0.025 0.0 70-71 0.025 0.0 0.0 0.025 0.0 72-73 0.05 0.0 0.0 0.025 0.0 74-75 0.05 0.0 0.0 0.025 0.0 76-77 0.05 0.0 0.0 0.025 0.0 78-79 0.05 0.0 0.0 0.025 0.0 80-81 0.05 0.0 0.0 0.025 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Rejected 139979 READS because READLEN < 1 Read 139979 spots for ERR6133560.sra Written 139979 spots for ERR6133560.sra Rejected 139979 READS because READLEN < 1 Read 139979 spots for ERR6133560.sra Written 139979 spots for ERR6133560.sra Rejected 139979 READS because READLEN < 1 Read 139979 spots for ERR6133560.sra Written 139979 spots for ERR6133560.sra Rejected 139979 READS because READLEN < 1 Read 139979 spots for ERR6133560.sra Written 139979 spots for ERR6133560.sra Rejected 139979 READS because READLEN < 1 Read 139979 spots for ERR6133560.sra Written 139979 spots for ERR6133560.sra Rejected 139979 READS because READLEN < 1 Read 139979 spots for ERR6133560.sra Written 139979 spots for ERR6133560.sra Rejected 139979 READS because READLEN < 1 Read 139979 spots for ERR6133560.sra Written 139979 spots for ERR6133560.sra Rejected 139979 READS because READLEN < 1 Read 139979 spots for ERR6133560.sra Written 139979 spots for ERR6133560.sra Rejected 139979 READS because READLEN < 1 Read 139979 spots for ERR6133560.sra Written 139979 spots for ERR6133560.sra Rejected 139979 READS because READLEN < 1 Read 139979 spots for ERR6133560.sra Written 139979 spots for ERR6133560.sra Rejected 139979 READS because READLEN < 1 Read 139979 spots for ERR6133560.sra Written 139979 spots for ERR6133560.sra Rejected 139979 READS because READLEN < 1 Read 139979 spots for ERR6133560.sra Written 139979 spots for ERR6133560.sra Rejected 139979 READS because READLEN < 1 Read 139979 spots for ERR6133560.sra Written 139979 spots for ERR6133560.sra Rejected 139979 READS because READLEN < 1 Read 139979 spots for ERR6133560.sra Written 139979 spots for ERR6133560.sra Rejected 139979 READS because READLEN < 1 Read 139979 spots for ERR6133560.sra Written 139979 spots for ERR6133560.sra Rejected 139979 READS because READLEN < 1 Read 139979 spots for ERR6133560.sra Written 139979 spots for ERR6133560.sra Rejected 139979 READS because READLEN < 1 Read 139979 spots for ERR6133560.sra Written 139979 spots for ERR6133560.sra Rejected 139990 READS because READLEN < 1 Read 139990 spots for ERR6133560.sra Written 139990 spots for ERR6133560.sra Rejected 139979 READS because READLEN < 1 Read 139979 spots for ERR6133560.sra Written 139979 spots for ERR6133560.sra Rejected 139979 READS because READLEN < 1 Read 139979 spots for ERR6133560.sra Written 139979 spots for ERR6133560.sra SRR ids: ['ERR6133560.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_z_g3y_su ERR6133560.sra spots: 2799591 blocks: [[1, 139979], [139980, 279958], [279959, 419937], [419938, 559916], [559917, 699895], [699896, 839874], [839875, 979853], [979854, 1119832], [1119833, 1259811], [1259812, 1399790], [1399791, 1539769], [1539770, 1679748], [1679749, 1819727], [1819728, 1959706], [1959707, 2099685], [2099686, 2239664], [2239665, 2379643], [2379644, 2519622], [2519623, 2659601], [2659602, 2799591]] ERR6133560 file size 619551 ERR6133560 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 ERR6133560 ERR6133560_1.fastq Input file: ERR6133560_1.fastq trimmed: ERR6133560-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 08:40:51 2024 >> started Sat Dec 7 08:40:53 2024 >> done (2.163s) 2799591 reads processed; of these: 122 ( 0.00%) short reads filtered out after trimming by size control 23 ( 0.00%) empty reads filtered out after trimming by size control 2799446 (99.99%) reads available; of these: 54889 ( 1.96%) trimmed reads available after processing 2744557 (98.04%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 25 0.00% 19 31 0.00% 20 22 0.00% 21 23 0.00% 22 29 0.00% 23 6 0.00% 24 3 0.00% 25 4 0.00% 26 4 0.00% 27 18 0.00% 28 29 0.00% 29 31 0.00% 30 18 0.00% 31 14 0.00% 32 12 0.00% 33 10 0.00% 34 20 0.00% 35 90 0.00% 36 317 0.01% 37 21 0.00% 38 18 0.00% 39 99 0.00% 40 55 0.00% 41 23 0.00% 42 6 0.00% 43 8 0.00% 44 11 0.00% 45 9 0.00% 46 6 0.00% 47 4 0.00% 48 5 0.00% 49 3 0.00% 50 4 0.00% 51 12 0.00% 52 4 0.00% 53 7 0.00% 54 5 0.00% 55 8 0.00% 56 4 0.00% 57 3 0.00% 58 5 0.00% 59 1 0.00% 60 6 0.00% 61 9 0.00% 62 2 0.00% 63 0 0.00% 64 4 0.00% 65 6 0.00% 66 4 0.00% 67 7 0.00% 68 12 0.00% 69 35 0.00% 70 3541 0.13% 71 3321 0.12% 72 3492 0.12% 73 3205 0.11% 74 3428 0.12% 75 3315 0.12% 76 3211 0.11% 77 3169 0.11% 78 3428 0.12% 79 3742 0.13% 80 3464 0.12% 81 3655 0.13% 82 3986 0.14% 83 4101 0.15% 84 3796 0.14% 85 120 0.00% 86 234 0.01% 87 394 0.01% 88 695 0.02% 89 1221 0.04% 90 2577 0.09% 91 7171 0.26% 92 40558 1.45% 93 2692510 96.18% 2799446 reads passed initial QC criterion=sequence-density sequence-density=0.27 sequence-density-rank=1 fanout-score=6.65 fanout-score-rank=19 prefix-density=0.64 prefix-fanout=2.8 sequence=GCCGCCGCCGCCAAGGAAGGCATGTTCGTCAAGAACTACAGCTACTGATCCTAATCGCATCAAGCTTCAACGCCTGTGAGTGAAAGCCAGTGATGAGAGTGCTGCTGCTAGCTAGCGCCGGCATTGATGAGCTTGAGAGGGCACTGTAGCCAGTGTGTCAGTCGTTGTTAAATTACAGGTTGAGTTCATCAGCGTACTCCGATGGGAGATGGACATCAGAAAGTATACTGTGTTTTACCACCCTAATTAAGTAAACAACTTTTGGAATGGTGATCATCTTACTGCTTTAAATAAATCTGTTTC criterion=fanout-score sequence-density=0.14 sequence-density-rank=10 fanout-score=43.96 fanout-score-rank=1 prefix-density=0.69 prefix-fanout=8.8 sequence=GAAGAAGAAGAAACGCATGGTGCCCTGCTTCCGTCTGTCGGCTGCTTGCTTGGCAACGGCAGAGCAGAGCTTGGTGCAGTAAAACTACTGGTTATACTCTCTGTATGTAAAGTTAAAATTTTCACACACAGCTATGTGCTAAAGGA Started job on | Dec 07 08:41:06 Started mapping on | Dec 07 08:41:06 Finished on | Dec 07 08:41:11 Mapping speed, Million of reads per hour | 2015.60 Number of input reads | 2799446 Average input read length | 92 UNIQUE READS: Uniquely mapped reads number | 1997433 Uniquely mapped reads % | 71.35% Average mapped length | 92.23 Number of splices: Total | 121151 Number of splices: Annotated (sjdb) | 102671 Number of splices: GT/AG | 114217 Number of splices: GC/AG | 4385 Number of splices: AT/AC | 46 Number of splices: Non-canonical | 2503 Mismatch rate per base, % | 0.47% Deletion rate per base | 0.05% Deletion average length | 1.95 Insertion rate per base | 0.02% Insertion average length | 1.75 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 733909 % of reads mapped to multiple loci | 26.22% Number of reads mapped to too many loci | 15473 % of reads mapped to too many loci | 0.55% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.84% % of reads unmapped: other | 0.04% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 68104 68104 68104 N_multimapping 733909 733909 733909 N_noFeature 112562 133180 1901715 N_ambiguous 82790 7763 212 UnstrandedReadsAssigned:1802081 PositiveStrandReadsAssigned:1856490 NegativeStrandReadsAssigned:95506 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133560 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: ERR6133560-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 2,799,446 reads, 2,365,823 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 993 rounds 52973 ERR6133560.ke.tsv 35125 ERR6133560.se.tsv 88098 total ==> ERR6133560.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 28.3376 PNS24243 293 194 0 0 KQK14069 1603 1504 70 25.8505 KQK14071 474 375 0 0 ==> ERR6133560.se.tsv <== BRADI_1g14170v3 70 BRADI_1g53295v3 72 BRADI_1g59795v3 12 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 64 BRADI_1g74790v3 29 BRADI_1g09890v3 0 BRADI_1g77505v3 28 BRADI_1g48960v3 0 ERR6133560 completed mapping pipeline successfully