Starting /dee2/code/volunteer_pipeline.sh ERR6133393 current disk space = 1547462328320 free memory = 1597141372 ERR6133393 SRAfilesize 10fa1c96e390c3609837631f48a25e10 ERR6133393.sra ERR6133393.sra file validated ERR6133393 is single end ERR6133393 is conventional basespace ERR6133393 read1 length is 70-93 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR6133393_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 36.91775 37.0 37.0 37.0 37.0 37.0 2 36.80925 37.0 37.0 37.0 37.0 37.0 3 36.592 37.0 37.0 37.0 37.0 37.0 4 36.044 37.0 37.0 37.0 33.0 37.0 5 36.03625 37.0 37.0 37.0 33.0 37.0 6 36.264 37.0 37.0 37.0 33.0 37.0 7 38.12225 40.0 37.0 40.0 37.0 40.0 8 38.09375 40.0 37.0 40.0 37.0 40.0 9 38.12725 40.0 37.0 40.0 37.0 40.0 10-11 38.1285 40.0 37.0 40.0 37.0 40.0 12-13 38.19525 40.0 37.0 40.0 37.0 40.0 14-15 38.091499999999996 40.0 37.0 40.0 37.0 40.0 16-17 38.03975 40.0 37.0 40.0 35.0 40.0 18-19 37.982 40.0 37.0 40.0 33.0 40.0 20-21 37.838499999999996 40.0 37.0 40.0 33.0 40.0 22-23 37.787375 40.0 37.0 40.0 33.0 40.0 24-25 37.61 40.0 37.0 40.0 33.0 40.0 26-27 37.4555 38.5 37.0 40.0 33.0 40.0 28-29 37.236625000000004 37.0 37.0 40.0 33.0 40.0 30-31 37.153499999999994 37.0 37.0 40.0 33.0 40.0 32-33 36.996125 37.0 37.0 40.0 33.0 40.0 34-35 36.824124999999995 37.0 37.0 40.0 33.0 40.0 36-37 36.847750000000005 37.0 37.0 40.0 33.0 40.0 38-39 36.979 37.0 37.0 40.0 33.0 40.0 40-41 37.177625 37.0 37.0 40.0 33.0 40.0 42-43 37.12025 37.0 37.0 40.0 33.0 40.0 44-45 37.01825 37.0 37.0 40.0 33.0 40.0 46-47 36.79575 37.0 37.0 40.0 33.0 40.0 48-49 36.670874999999995 37.0 37.0 40.0 33.0 40.0 50-51 36.54975 37.0 37.0 38.5 33.0 40.0 52-53 36.37375 37.0 37.0 37.0 33.0 40.0 54-55 36.158125 37.0 37.0 37.0 33.0 40.0 56-57 36.00375 37.0 37.0 37.0 33.0 40.0 58-59 35.848375000000004 37.0 37.0 37.0 33.0 38.5 60-61 35.7495 37.0 37.0 37.0 33.0 37.0 62-63 35.432 37.0 33.0 37.0 33.0 37.0 64-65 35.231875 37.0 33.0 37.0 33.0 37.0 66-67 35.231 37.0 33.0 37.0 33.0 37.0 68-69 34.283249999999995 35.0 33.0 37.0 30.0 37.0 70-71 34.44852114614615 37.0 33.0 37.0 33.0 37.0 72-73 34.83491882683226 37.0 33.0 37.0 33.0 37.0 74-75 34.87972749912386 37.0 33.0 37.0 33.0 37.0 76-77 34.914989985677835 37.0 33.0 37.0 33.0 37.0 78-79 35.057846073399524 37.0 33.0 37.0 33.0 37.0 80-81 34.720561676175485 37.0 33.0 37.0 33.0 37.0 82-83 34.34124344238177 37.0 33.0 37.0 30.0 37.0 84-85 34.48482587527493 37.0 33.0 37.0 33.0 37.0 86-87 34.503109613889606 37.0 33.0 37.0 33.0 37.0 88-89 34.429515418502206 37.0 33.0 37.0 33.0 37.0 90-91 34.01204975382223 37.0 33.0 37.0 30.0 37.0 92-93 33.88222337393107 37.0 33.0 37.0 27.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 12.0 21 7.0 22 7.0 23 8.0 24 11.0 25 17.0 26 19.0 27 33.0 28 34.0 29 37.0 30 57.0 31 51.0 32 112.0 33 114.0 34 169.0 35 377.0 36 912.0 37 1047.0 38 945.0 39 31.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 83.85000000000001 3.7249999999999996 3.9 8.525 2 62.275000000000006 22.900000000000002 9.525 5.3 3 34.725 36.95 16.0 12.325 4 34.5 26.950000000000003 18.575 19.975 5 21.55 33.900000000000006 26.375 18.175 6 20.9 38.4 25.525 15.174999999999999 7 35.35 29.75 19.55 15.35 8 30.75 29.5 25.0 14.75 9 26.724999999999998 27.025 28.125 18.125 10-11 25.112499999999997 28.249999999999996 27.474999999999998 19.162499999999998 12-13 28.1875 24.65 28.875 18.2875 14-15 21.8125 26.4625 32.15 19.575 16-17 23.8625 32.4125 25.937500000000004 17.7875 18-19 23.2625 27.2625 25.662499999999998 23.8125 20-21 24.887500000000003 26.887499999999996 28.1375 20.0875 22-23 26.075 23.7375 28.3625 21.825 24-25 25.7375 25.025 28.825 20.4125 26-27 25.624999999999996 24.625 30.2125 19.537499999999998 28-29 25.3125 26.275 28.675 19.7375 30-31 26.55 25.112499999999997 27.437499999999996 20.9 32-33 23.3625 27.6625 29.325000000000003 19.650000000000002 34-35 25.0375 23.2125 29.349999999999998 22.400000000000002 36-37 23.4875 24.425 30.337500000000002 21.75 38-39 25.3125 25.6 29.762499999999996 19.325 40-41 26.0375 24.7875 27.775 21.4 42-43 22.925 28.249999999999996 29.037499999999998 19.787499999999998 44-45 22.4625 26.474999999999998 29.25 21.8125 46-47 23.9125 24.05 28.499999999999996 23.5375 48-49 24.675 26.424999999999997 29.049999999999997 19.85 50-51 24.625 25.137500000000003 29.799999999999997 20.4375 52-53 24.5625 27.474999999999998 27.3125 20.65 54-55 22.8125 28.6875 28.4375 20.0625 56-57 24.6875 25.837500000000002 29.912499999999998 19.5625 58-59 22.8 24.825 29.95 22.425 60-61 24.85 25.374999999999996 28.3375 21.4375 62-63 21.925 27.3 31.2375 19.537499999999998 64-65 24.0625 26.025 30.049999999999997 19.8625 66-67 24.95 26.974999999999998 27.725 20.349999999999998 68-69 23.375 27.1125 28.787499999999998 20.724999999999998 70-71 23.43671835917959 25.137568784392194 30.277638819409702 21.14807403701851 72-73 25.740461847389557 25.200803212851408 28.752510040160644 20.306224899598394 74-75 23.012869038607118 26.356295735553875 30.254857431238964 20.37597779460005 76-77 21.7474004565052 26.388536647222928 31.181841237636316 20.68222165863556 78-79 23.876797759959274 25.44228076874125 29.998727249586356 20.68219422171312 80-81 23.597951344430218 28.1562099871959 29.372599231754158 18.87323943661972 82-83 23.967048526193846 25.17698545501352 31.291028446389497 19.56493757240314 84-85 25.054973483378607 23.528650886043202 31.005044625533568 20.411331005044627 86-87 21.741383778180875 26.97590049235553 32.3918113500907 18.890904379372895 88-89 21.300855143819643 29.256284011401917 30.875874578906455 18.56698626587199 90-91 24.488209380668565 27.507126198497016 28.725058305260433 19.279606115573984 92-93 22.402176729722726 29.39880798134232 29.074889867841406 19.124125421093545 >>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 3.5 18 4.0 19 1.0 20 1.5 21 1.5 22 2.0 23 4.5 24 6.0 25 7.5 26 9.0 27 14.5 28 21.5 29 23.5 30 31.0 31 45.0 32 53.5 33 69.0 34 93.5 35 106.5 36 116.0 37 135.0 38 164.5 39 191.0 40 189.5 41 175.5 42 184.0 43 195.5 44 195.5 45 202.5 46 256.0 47 248.0 48 176.5 49 158.5 50 165.0 51 157.5 52 124.5 53 121.0 54 105.0 55 69.5 56 59.5 57 55.0 58 57.0 59 48.5 60 45.5 61 47.5 62 33.0 63 24.5 64 25.0 65 21.5 66 16.0 67 15.0 68 12.0 69 6.0 70 3.5 71 3.0 72 2.0 73 1.0 74 1.0 75 0.5 76 0.0 77 0.0 78 0.5 79 0.5 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 0.0 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 0.0 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 4.0 71 8.0 72 8.0 73 12.0 74 10.0 75 11.0 76 8.0 77 4.0 78 13.0 79 12.0 80 10.0 81 11.0 82 9.0 83 8.0 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 3859.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 80.75 #Duplication Level Percentage of deduplicated Percentage of total 1 91.60990712074305 73.97500000000001 2 5.015479876160991 8.1 3 1.455108359133127 3.5249999999999995 4 0.5572755417956656 1.7999999999999998 5 0.30959752321981426 1.25 6 0.2786377708978328 1.35 7 0.09287925696594426 0.525 8 0.12383900928792571 0.8 9 0.061919504643962855 0.44999999999999996 >10 0.46439628482972134 6.875000000000001 >50 0.030959752321981428 1.35 >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 54 1.35 No Hit GGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGT 44 1.0999999999999999 No Hit GAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGC 28 0.7000000000000001 No Hit GGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGC 25 0.625 No Hit TACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCGACGAAATGCTT 23 0.575 No Hit GGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAA 19 0.475 No Hit GGGGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTG 18 0.44999999999999996 No Hit GGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTG 17 0.42500000000000004 No Hit GGATGATTCTGTATTACAATTTGGTGGAGGAACTTTAGGACATCCTTGGG 17 0.42500000000000004 No Hit GGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTT 15 0.375 No Hit GGTGGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGC 12 0.3 No Hit GGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAA 12 0.3 No Hit GTATTTAGCCTTGCAAGGTGGTCCTTGCTGATTCACACGGGATTCCACGT 12 0.3 No Hit GGTTTTGAAAAGGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAA 12 0.3 No Hit GGAGGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAA 11 0.27499999999999997 No Hit GTACAAGCTCGTAACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAAT 10 0.25 No Hit GGGAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACT 9 0.22499999999999998 No Hit GGGAGAGCAATACAAGCGTTGTGCTGCTAGGCGAAGCGGTTGAGTGCCGC 9 0.22499999999999998 No Hit GGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTC 8 0.2 No Hit GGAGTATCCTTGATATATAAATATATAGATAAATAGATTTAAATGGAAAA 8 0.2 No Hit GGGCATTCGTATTTCATAGTCAGAGGTGAAATTCTTGGATTTATGAAAGA 8 0.2 No Hit GATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAG 8 0.2 No Hit GAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTG 7 0.17500000000000002 No Hit GGGAAATTAACAGTTGGAAAGGGCGATCGGTCTTGATCCCTCTGTGTTTC 7 0.17500000000000002 No Hit GAATCGATCGTGATTTAGAACCTGTTCTTTACATGAACCCTCTTAACTAA 7 0.17500000000000002 No Hit GCAGCTTGCAAATGGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAA 6 0.15 No Hit GAAGTATGGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGA 6 0.15 No Hit GTAACGAAGGGCGCGATCTTGCTCGTGAAGGTAATGAAATTATCCGAGCA 6 0.15 No Hit GCTCGTGAAGGTAATGAAATTATCCGAGCAGCTTGCAAATGGAGTCCTGA 6 0.15 No Hit GGAGTGACGACGGCAGCTGCCTTTACACCTTTTAAGCATGCCACTTTAAT 6 0.15 No Hit GGAGTTGAAAATAAGCATAGATCCGGAGATTCCCAAATAGGTCAACCTTT 6 0.15 No Hit GGGCCGGGTATCTCTCTGCATGTACGTATGCCTGTAATGTACGTAGCTAC 6 0.15 No Hit GGGGAAGTACACCAGCGACGGCGAGGCCGCCGCCGCCAAGGAAGGCATGT 6 0.15 No Hit GGGGCATTCGTATTTCATAGTCAGAGGTGAAATTCTTGGATTTATGAAAG 6 0.15 No Hit GGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCG 5 0.125 No Hit GGAGAACGGCGGCTGCGGCTGCAGCACCTGCAAGTGCGGCACCAGCTGCG 5 0.125 No Hit GGATTCAATTTCAACCAATCTGTAGTTGATAGTCAAGGTCGCGTTATTAA 5 0.125 No Hit GGAGAACGAGTCTTGCACTATGCTGTTGCCCGTCTACCAGTTGACTACGA 5 0.125 No Hit GGGGAAGAAGAATGCTGGCAAAATTAATTTGCTTTTTTTGGGGAGAATGG 5 0.125 No Hit GGAACAAACGAGGATAAGATAAAATTTCTTTAAATTTATTTTGCCCAAGT 5 0.125 No Hit TAGTTTCCACCGCCTGTCCAGGGTTGAGCCCTGGGATTTGACGGCGGACT 5 0.125 No Hit GGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTTG 5 0.125 No Hit GGGCACTGTAGCCAGTGTGTCAGTCGTTGTTAAATTACAGGTTGAGATCA 5 0.125 No Hit GGAAAAGAAAGCAAAAGCGATTCCCGTAGTAGCGGCGAGCGAAATGGGAG 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 0.0 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 0.025 0.0 0.0 0.0 0.0 70-71 0.025 0.0 0.0 0.0 0.0 72-73 0.025 0.0 0.0 0.0 0.0 74-75 0.025 0.0 0.0 0.0 0.0 76-77 0.025 0.0 0.0 0.0 0.0 78-79 0.025 0.0 0.0 0.0 0.0 80-81 0.037500000000000006 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Rejected 328916 READS because READLEN < 1 Read 328916 spots for ERR6133393.sra Written 328916 spots for ERR6133393.sra Rejected 328916 READS because READLEN < 1 Read 328916 spots for ERR6133393.sra Written 328916 spots for ERR6133393.sra Rejected 328916 READS because READLEN < 1 Read 328916 spots for ERR6133393.sra Written 328916 spots for ERR6133393.sra Rejected 328916 READS because READLEN < 1 Read 328916 spots for ERR6133393.sra Written 328916 spots for ERR6133393.sra Rejected 328916 READS because READLEN < 1 Read 328916 spots for ERR6133393.sra Written 328916 spots for ERR6133393.sra Rejected 328916 READS because READLEN < 1 Read 328916 spots for ERR6133393.sra Written 328916 spots for ERR6133393.sra Rejected 328916 READS because READLEN < 1 Read 328916 spots for ERR6133393.sra Written 328916 spots for ERR6133393.sra Rejected 328916 READS because READLEN < 1 Read 328916 spots for ERR6133393.sra Written 328916 spots for ERR6133393.sra Rejected 328916 READS because READLEN < 1 Read 328916 spots for ERR6133393.sra Written 328916 spots for ERR6133393.sra Rejected 328916 READS because READLEN < 1 Read 328916 spots for ERR6133393.sra Written 328916 spots for ERR6133393.sra Rejected 328916 READS because READLEN < 1 Read 328916 spots for ERR6133393.sra Written 328916 spots for ERR6133393.sra Rejected 328916 READS because READLEN < 1 Read 328916 spots for ERR6133393.sra Written 328916 spots for ERR6133393.sra Rejected 328916 READS because READLEN < 1 Read 328916 spots for ERR6133393.sra Written 328916 spots for ERR6133393.sra Rejected 328916 READS because READLEN < 1 Read 328916 spots for ERR6133393.sra Written 328916 spots for ERR6133393.sra Rejected 328916 READS because READLEN < 1 Read 328916 spots for ERR6133393.sra Written 328916 spots for ERR6133393.sra Rejected 328916 READS because READLEN < 1 Read 328916 spots for ERR6133393.sra Written 328916 spots for ERR6133393.sra Rejected 328924 READS because READLEN < 1 Read 328924 spots for ERR6133393.sra Written 328924 spots for ERR6133393.sra Rejected 328916 READS because READLEN < 1 Read 328916 spots for ERR6133393.sra Written 328916 spots for ERR6133393.sra Rejected 328916 READS because READLEN < 1 Read 328916 spots for ERR6133393.sra Written 328916 spots for ERR6133393.sra Rejected 328916 READS because READLEN < 1 Read 328916 spots for ERR6133393.sra Written 328916 spots for ERR6133393.sra SRR ids: ['ERR6133393.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_9xkjh1sc ERR6133393.sra spots: 6578328 blocks: [[1, 328916], [328917, 657832], [657833, 986748], [986749, 1315664], [1315665, 1644580], [1644581, 1973496], [1973497, 2302412], [2302413, 2631328], [2631329, 2960244], [2960245, 3289160], [3289161, 3618076], [3618077, 3946992], [3946993, 4275908], [4275909, 4604824], [4604825, 4933740], [4933741, 5262656], [5262657, 5591572], [5591573, 5920488], [5920489, 6249404], [6249405, 6578328]] ERR6133393 file size 1454824 ERR6133393 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 ERR6133393 ERR6133393_1.fastq Input file: ERR6133393_1.fastq trimmed: ERR6133393-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 03:00:29 2024 >> started Sat Dec 7 03:00:36 2024 >> done (7.141s) 6578328 reads processed; of these: 296 ( 0.00%) short reads filtered out after trimming by size control 10 ( 0.00%) empty reads filtered out after trimming by size control 6578022 (100.00%) reads available; of these: 252491 ( 3.84%) trimmed reads available after processing 6325531 (96.16%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 16 0.00% 19 43 0.00% 20 18 0.00% 21 21 0.00% 22 15 0.00% 23 18 0.00% 24 19 0.00% 25 13 0.00% 26 8 0.00% 27 15 0.00% 28 12 0.00% 29 87 0.00% 30 10 0.00% 31 10 0.00% 32 33 0.00% 33 10 0.00% 34 6 0.00% 35 9 0.00% 36 8 0.00% 37 10 0.00% 38 29 0.00% 39 67 0.00% 40 130 0.00% 41 32 0.00% 42 27 0.00% 43 35 0.00% 44 35 0.00% 45 71 0.00% 46 111 0.00% 47 188 0.00% 48 332 0.01% 49 2073 0.03% 50 578 0.01% 51 582 0.01% 52 609 0.01% 53 699 0.01% 54 824 0.01% 55 909 0.01% 56 960 0.01% 57 1168 0.02% 58 1250 0.02% 59 1368 0.02% 60 2019 0.03% 61 1606 0.02% 62 1608 0.02% 63 2683 0.04% 64 1922 0.03% 65 2114 0.03% 66 2457 0.04% 67 2629 0.04% 68 3519 0.05% 69 1482 0.02% 70 16973 0.26% 71 17078 0.26% 72 20126 0.31% 73 17058 0.26% 74 18599 0.28% 75 19826 0.30% 76 17181 0.26% 77 17981 0.27% 78 21163 0.32% 79 23111 0.35% 80 22012 0.33% 81 21775 0.33% 82 26299 0.40% 83 32290 0.49% 84 26047 0.40% 85 10262 0.16% 86 11555 0.18% 87 13756 0.21% 88 17186 0.26% 89 16737 0.25% 90 22809 0.35% 91 26139 0.40% 92 28511 0.43% 93 6079051 92.41% 6578022 reads passed initial QC criterion=sequence-density sequence-density=0.38 sequence-density-rank=1 fanout-score=3.49 fanout-score-rank=27 prefix-density=0.45 prefix-fanout=3.0 sequence=GTGTTGTGTTGT criterion=fanout-score sequence-density=0.04 sequence-density-rank=17 fanout-score=83.97 fanout-score-rank=1 prefix-density=0.19 prefix-fanout=18.6 sequence=TTTTTTTTTTAAGAATCCTCCATTTTTGTTCTTCCACCCATGCAATAGAGAGCAAATGGGAAAAGAGGGGTTACTTTTTTTCATTTTTCCCTTAAAAGATAGGCTTTGAAATCGGAGTCATGGAATAATGGTGAATTCAAATGTTTAGTTCTTTAGTATAAGAAGTATAAGAA Started job on | Dec 07 03:00:48 Started mapping on | Dec 07 03:00:49 Finished on | Dec 07 03:00:59 Mapping speed, Million of reads per hour | 2368.09 Number of input reads | 6578022 Average input read length | 92 UNIQUE READS: Uniquely mapped reads number | 4849836 Uniquely mapped reads % | 73.73% Average mapped length | 91.68 Number of splices: Total | 202812 Number of splices: Annotated (sjdb) | 167642 Number of splices: GT/AG | 195976 Number of splices: GC/AG | 4766 Number of splices: AT/AC | 59 Number of splices: Non-canonical | 2011 Mismatch rate per base, % | 0.33% Deletion rate per base | 0.02% Deletion average length | 1.45 Insertion rate per base | 0.00% Insertion average length | 1.35 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 1551092 % of reads mapped to multiple loci | 23.58% Number of reads mapped to too many loci | 55215 % of reads mapped to too many loci | 0.84% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.74% % of reads unmapped: other | 0.11% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 177094 177094 177094 N_multimapping 1551092 1551092 1551092 N_noFeature 260511 307668 4622857 N_ambiguous 198614 18851 760 UnstrandedReadsAssigned:4390711 PositiveStrandReadsAssigned:4523317 NegativeStrandReadsAssigned:226219 Dataset is classified positive stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR6133393 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: ERR6133393-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 6,578,022 reads, 5,562,795 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,047 rounds 52973 ERR6133393.ke.tsv 35125 ERR6133393.se.tsv 88098 total ==> ERR6133393.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 112 20.1481 PNS24243 293 194 0 0 KQK14069 1603 1504 663 108.802 KQK14071 474 375 0 0 ==> ERR6133393.se.tsv <== BRADI_1g14170v3 664 BRADI_1g53295v3 50 BRADI_1g59795v3 46 BRADI_1g07683v3 1 BRADI_1g00485v3 0 BRADI_1g20270v3 59 BRADI_1g74790v3 36 BRADI_1g09890v3 1 BRADI_1g77505v3 106 BRADI_1g48960v3 0 ERR6133393 completed mapping pipeline successfully