Starting /dee2/code/volunteer_pipeline.sh SRR6127928 current disk space = 1526216515584 free memory = 1599168208 SRR6127928 SRAfilesize cfac05b8f7bc088db608c17c1e794532 SRR6127928.sra SRR6127928.sra file validated SRR6127928 is paired end SRR6127928 is conventional basespace SRR6127928 read1 length is 100 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR6127928_1.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 100 %GC 52 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 32.33375 33.0 33.0 33.0 33.0 33.0 2 32.512 33.0 33.0 33.0 33.0 33.0 3 32.696 33.0 33.0 33.0 33.0 33.0 4 36.728 37.0 37.0 37.0 37.0 37.0 5 36.68575 37.0 37.0 37.0 37.0 37.0 6 36.63275 37.0 37.0 37.0 37.0 37.0 7 36.556 37.0 37.0 37.0 37.0 37.0 8 36.63425 37.0 37.0 37.0 37.0 37.0 9 36.6475 37.0 37.0 37.0 37.0 37.0 10-11 36.5655 37.0 37.0 37.0 37.0 37.0 12-13 36.5655 37.0 37.0 37.0 37.0 37.0 14-15 38.802625 40.0 40.0 40.0 37.0 40.0 16-17 38.835375 40.0 40.0 40.0 37.0 40.0 18-19 38.78375 40.0 40.0 40.0 37.0 40.0 20-21 38.74625 40.0 38.5 40.0 37.0 40.0 22-23 38.61375 40.0 37.0 40.0 37.0 40.0 24-25 38.508125 40.0 37.0 40.0 37.0 40.0 26-27 38.456125 40.0 37.0 40.0 37.0 40.0 28-29 38.392875000000004 40.0 37.0 40.0 37.0 40.0 30-31 38.298625 40.0 37.0 40.0 37.0 40.0 32-33 38.237375 40.0 37.0 40.0 37.0 40.0 34-35 38.126625000000004 40.0 37.0 40.0 37.0 40.0 36-37 37.97925 40.0 37.0 40.0 35.0 40.0 38-39 37.766375 40.0 37.0 40.0 35.0 40.0 40-41 37.5375 40.0 37.0 40.0 33.0 40.0 42-43 37.255625 40.0 37.0 40.0 33.0 40.0 44-45 37.137625 40.0 37.0 40.0 33.0 40.0 46-47 36.81575 40.0 37.0 40.0 33.0 40.0 48-49 36.739625000000004 40.0 37.0 40.0 33.0 40.0 50-51 36.508375 37.0 37.0 40.0 33.0 40.0 52-53 36.184124999999995 37.0 37.0 40.0 33.0 40.0 54-55 35.604 37.0 37.0 40.0 30.0 40.0 56-57 35.514125 37.0 37.0 40.0 33.0 40.0 58-59 35.2575 37.0 37.0 40.0 30.0 40.0 60-61 34.975625 37.0 35.0 37.0 27.0 40.0 62-63 34.767624999999995 37.0 33.0 37.0 27.0 40.0 64-65 34.52475 37.0 33.0 37.0 27.0 40.0 66-67 34.127375 37.0 33.0 37.0 27.0 40.0 68-69 33.83225 37.0 33.0 37.0 27.0 37.0 70-71 33.57625 37.0 33.0 37.0 27.0 37.0 72-73 33.276125 37.0 33.0 37.0 27.0 37.0 74-75 32.870375 37.0 33.0 37.0 24.5 37.0 76-77 29.98375 33.0 30.0 35.0 22.0 37.0 78-79 31.855000000000004 35.0 33.0 37.0 22.0 37.0 80-81 32.067750000000004 37.0 33.0 37.0 22.0 37.0 82-83 32.18625 37.0 33.0 37.0 22.0 37.0 84-85 32.060375 37.0 33.0 37.0 22.0 37.0 86-87 31.993625 37.0 33.0 37.0 22.0 37.0 88-89 31.714750000000002 37.0 33.0 37.0 22.0 37.0 90-91 31.836375 37.0 33.0 37.0 22.0 37.0 92-93 31.55425 37.0 33.0 37.0 15.0 37.0 94-95 31.3245 37.0 33.0 37.0 15.0 37.0 96-97 31.098750000000003 37.0 33.0 37.0 4.0 37.0 98-99 30.59275 37.0 33.0 37.0 2.0 37.0 100 27.08225 33.0 22.0 33.0 2.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 7 1.0 8 3.0 9 5.0 10 5.0 11 9.0 12 6.0 13 6.0 14 10.0 15 15.0 16 13.0 17 18.0 18 14.0 19 13.0 20 17.0 21 14.0 22 17.0 23 17.0 24 26.0 25 21.0 26 44.0 27 36.0 28 44.0 29 67.0 30 79.0 31 96.0 32 106.0 33 114.0 34 168.0 35 304.0 36 606.0 37 1475.0 38 631.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 30.62103929024081 11.356147021546262 5.982256020278834 52.040557667934095 2 20.974999999999998 15.125 40.075 23.825 3 19.575 20.200000000000003 24.75 35.475 4 25.1 29.049999999999997 20.875 24.975 5 25.7 29.549999999999997 22.325 22.425 6 22.225 30.475 24.425 22.875 7 18.025 17.974999999999998 40.8 23.200000000000003 8 18.875 16.825000000000003 30.125 34.175 9 20.724999999999998 18.425 31.674999999999997 29.175 10-11 23.799999999999997 26.6625 21.65 27.8875 12-13 23.525 19.45 27.237499999999997 29.7875 14-15 22.7625 22.625 26.825 27.787499999999998 16-17 24.587500000000002 22.662499999999998 24.8 27.950000000000003 18-19 23.150000000000002 22.6375 25.7 28.512500000000003 20-21 25.0375 22.162499999999998 25.687500000000004 27.1125 22-23 24.625 22.975 25.5 26.900000000000002 24-25 24.05 22.7375 25.874999999999996 27.3375 26-27 21.975 22.112499999999997 27.175 28.7375 28-29 23.799999999999997 22.625 24.9125 28.6625 30-31 23.75 22.4625 25.4875 28.299999999999997 32-33 24.8625 22.9375 24.425 27.775 34-35 23.425 23.4375 24.525 28.6125 36-37 23.8875 22.775000000000002 25.8 27.537499999999998 38-39 23.575 22.1375 24.762500000000003 29.525000000000002 40-41 24.0375 22.4875 25.75 27.725 42-43 24.4375 23.2625 25.337500000000002 26.9625 44-45 24.2625 22.8375 24.5625 28.3375 46-47 23.425 22.8875 25.137500000000003 28.549999999999997 48-49 23.6875 21.987499999999997 25.624999999999996 28.7 50-51 22.7375 22.5625 25.937500000000004 28.762500000000003 52-53 23.625 22.2625 25.9875 28.125 54-55 23.474999999999998 23.225 25.0375 28.262500000000003 56-57 22.0 22.7125 25.650000000000002 29.6375 58-59 23.8375 22.45 25.75 27.962500000000002 60-61 23.0125 22.400000000000002 26.9625 27.625 62-63 24.075 21.224999999999998 26.575 28.125 64-65 23.7125 21.5375 25.7875 28.962500000000002 66-67 22.55 23.575 24.8 29.075 68-69 24.5625 22.675 24.775 27.987499999999997 70-71 24.962500000000002 22.475 25.074999999999996 27.487499999999997 72-73 24.3875 21.8125 25.637500000000003 28.1625 74-75 23.6625 22.3375 25.7 28.299999999999997 76-77 24.675 22.55 24.05 28.725 78-79 24.3 22.037499999999998 24.5625 29.099999999999998 80-81 23.3375 22.7375 25.75 28.175 82-83 24.55 21.8 25.0375 28.6125 84-85 24.1125 22.0875 23.1125 30.6875 86-87 23.549999999999997 22.45 25.224999999999998 28.775000000000002 88-89 23.7875 21.987499999999997 25.7875 28.4375 90-91 23.599999999999998 22.412499999999998 24.462500000000002 29.525000000000002 92-93 24.725 22.825 24.575 27.875 94-95 24.4375 22.7625 24.3625 28.4375 96-97 23.3 22.7 25.05 28.95 98-99 23.4125 22.775000000000002 25.112499999999997 28.7 100 24.325 21.525 23.35 30.8 >>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 0.0 18 0.0 19 0.0 20 0.0 21 0.5 22 0.5 23 0.0 24 0.0 25 1.5 26 1.5 27 0.0 28 0.0 29 1.0 30 2.5 31 6.0 32 8.0 33 12.5 34 15.0 35 16.0 36 33.0 37 44.5 38 43.5 39 50.5 40 48.0 41 56.5 42 76.5 43 92.5 44 106.5 45 113.5 46 121.0 47 128.5 48 136.5 49 144.0 50 171.0 51 200.5 52 198.5 53 211.5 54 230.5 55 239.0 56 255.5 57 228.0 58 197.5 59 170.0 60 127.0 61 97.5 62 70.0 63 60.0 64 55.0 65 40.0 66 34.0 67 28.0 68 20.0 69 14.5 70 9.0 71 12.5 72 14.5 73 10.5 74 8.5 75 7.5 76 8.0 77 7.5 78 4.0 79 3.5 80 2.5 81 0.0 82 2.0 83 2.0 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 1.375 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 94-95 0.0 96-97 0.0 98-99 0.0 100 0.0 >>END_MODULE >>Sequence Length Distribution pass #Length Count 100 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 79.14999999999999 #Duplication Level Percentage of deduplicated Percentage of total 1 85.69172457359444 67.825 2 8.149084017687933 12.9 3 3.474415666456096 8.25 4 1.4529374605180037 4.6 5 0.7264687302590018 2.875 6 0.09475679090334807 0.44999999999999996 7 0.09475679090334807 0.525 8 0.06317119393556538 0.4 9 0.06317119393556538 0.44999999999999996 >10 0.18951358180669614 1.725 >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 CTCAGAGCCAATCCTTTTCCCGAAGTTACGGATCCGTTTTGCCGACTTCC 13 0.325 No Hit GTCAATTCCTTTGAGTTTCATTCTTGCGAACGTACTCCCCAGGCGGGATA 13 0.325 No Hit CACGCTTTCACGGTTCGTATTCGTACTGGAAATCAGAATCAAACGAGCTT 13 0.325 No Hit CCTAGATGTCCAGTCAACTGCTGCGCCTCAACGCATTTCGGGGAGAACCA 10 0.25 No Hit CTCATCTTGGGGTGGGCTTACTACTTATATGCTTTCAGCAGTTATCCTCT 10 0.25 No Hit CTAAGAAGCTAGCTGCGGAGGGATGGCTCCGCATAGCTAGTTAGCAGGCT 10 0.25 No Hit CTTTTATCTAATAAATGCGCCCCTCCCAGAAGTCGGGGTTTGTTGCACGT 9 0.22499999999999998 No Hit CCGACATCGAAGGATCAAAAAGCAACGTCGCTATGAACGCTTGGCTGCCA 9 0.22499999999999998 No Hit GTCGGTTCGGACCTCTGCTTAGTTTCATCCAAGCTTCATCCTGGTCATGG 8 0.2 No Hit GTTTCTTCTCCGAGAAAAGAAGTTGACGACCCGTAGGCCTTCCACCTCCA 8 0.2 No Hit ATCGCTTCGAGCCTCCACCAGAGTTTCCTCTGGCTTCGCCCCGCTCAGGC 7 0.17500000000000002 No Hit CTTTCGGCTAACCTAGCCTCCTCCGTCCCTCCGTACCAACAAGGGGTAGT 7 0.17500000000000002 No Hit CTCGTACTAGGTTGAATTACTATCGCGGCACGGTCATCAGTAGGGTAAAA 7 0.17500000000000002 No Hit CCCACAACCCCGTTTTCACGGTTTAGGCTGCTCCCATTTCGCTCGCCGCT 6 0.15 No Hit GCCAGCTCCTATAGTGTGACGGGCGGTGTGTACAAGGCCCGGGAACGGAT 6 0.15 No Hit CTTCGCTATCGGTCACCCAGGAGTATTTAGCCTTGCAAGGTGGTCCTTGC 6 0.15 No Hit CGGGAACGGATTCACCGCCGTATGGCTGACCGGCGATTACTAGCGATTCC 5 0.125 No Hit CTCCCTTCTGCCTTTGCACTCGAGGACCAATGTCCGTCTGGCCCGAGGAA 5 0.125 No Hit CCCACTGCTGCCTCCCGTAGGAGTCTGGGCCGTGTCTCAGTCCCAGTGTG 5 0.125 No Hit CTCCACGCGGCATTGCTCCGTCAGGCTTTCGCCCATTGCGGAAAATTCCC 5 0.125 No Hit TAGATGTCCAGTCAACTGCTGCGCCTCAACGCATTTCGGGGAGAACCAGC 5 0.125 No Hit CTCTAAGAAGCTAGCTGCGGAGGGATGGCTCCGCATAGCTAGTTAGCAGG 5 0.125 No Hit CCACTGCTGCCTCCCGTAGGAGTCTGGGCCGTGTCTCAGTCCCAGTGTGG 5 0.125 No Hit ATCGACTACGCCTTTCGGCCTGATCTTAGGCCCTGACTCACCCTCCGTGG 5 0.125 No Hit CTCGCCTGTATTTAGCCTTGGACGGAGTCTACCGCCCGATTTGGGCTGCA 5 0.125 No Hit ACCTAAGCTGCGCAGGAAAGGCCCAAAGCCAATCCCAGGGAACAGTAAAG 5 0.125 No Hit ATGAAGACTCGCTTTCGCTACGGCTCCGGTGGGTTCCGTTCCCTTAACCA 5 0.125 No Hit CCCCCATCCGCTTCCCTCCCGGCAATTTCAAGCACTCTTTGACTCTCTTT 5 0.125 No Hit GTCAATTCCTTTAAGTTTCAGCCTTGCGACCATACTCCCCCCGGAACCCA 5 0.125 No Hit CGCAGGCTCCACGCCTGGTGGTGCCCTTCCGTCAATTCCTTTAAGTTTCA 5 0.125 No Hit GTGGTTTCGCTGGATAGTAGACAGGGACAGTGGGAATCTCGTTAATCCAT 5 0.125 No Hit GTTGAATACATCAGTGTAGCGCGCGTGCGGCCCAGAACATCTAAGGGCAT 5 0.125 No Hit GTAACTTTTATCCGTTGAGCGACGGCCCTTCCACTCGGCACCGTCGGATC 5 0.125 No Hit CGCGGCTGCTGGCACCAGACTTGCCCTCCAATGGATCCTCGTTAAGGGAT 5 0.125 No Hit GGCAATTTCAAGCACTCTTTGACTCTCTTTTCAAAGTCCTTTTCATCTTT 5 0.125 No Hit CTTGCGACCATACTCCCCCCGGAACCCAAAGACTTTGATTTCTCATAAGG 5 0.125 No Hit ATCACGATGAAATTTCCCAAGATTACCCGGGCCTGTCGGCCAAGGCTATA 5 0.125 No Hit GTCCAGTCAACTGCTGCGCCTCAACGCATTTCGGGGAGAACCAGCTAGCT 5 0.125 No Hit CTTTTCCTCTGGCTACTAAGATGTTTCAGTTCGCCAGGTTGTCTCTTGCC 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 0.0 0.0 0.0 0.0 0.0 54-55 0.0 0.0 0.0 0.0 0.0 56-57 0.0 0.0 0.0 0.0 0.0 58-59 0.0 0.0 0.0 0.0 0.0 60-61 0.0 0.0 0.0 0.0 0.0 62-63 0.0125 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 0.037500000000000006 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 0.0625 0.0 0.0 0.0 0.0 78-79 0.075 0.0 0.0 0.0 0.0 80-81 0.15000000000000002 0.0 0.0 0.0 0.0 82-83 0.21250000000000002 0.0 0.0 0.0 0.0 84-85 0.2875 0.0 0.0 0.0 0.0 86-87 0.425 0.0 0.0 0.0 0.0 88 0.475 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE SRR6127928 read2 length is 101 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR6127928_2.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 101 %GC 52 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 32.01225 33.0 33.0 33.0 33.0 33.0 2 32.0875 33.0 33.0 33.0 33.0 33.0 3 32.1365 33.0 33.0 33.0 33.0 33.0 4 35.68975 37.0 37.0 37.0 33.0 37.0 5 35.7185 37.0 37.0 37.0 33.0 37.0 6 35.58675 37.0 37.0 37.0 33.0 37.0 7 35.71825 37.0 37.0 37.0 33.0 37.0 8 35.79125 37.0 37.0 37.0 33.0 37.0 9 35.99375 37.0 37.0 37.0 33.0 37.0 10-11 36.091499999999996 37.0 37.0 37.0 37.0 37.0 12-13 36.105625 37.0 37.0 37.0 37.0 37.0 14-15 38.18575 40.0 37.0 40.0 37.0 40.0 16-17 38.141625000000005 40.0 37.0 40.0 35.0 40.0 18-19 38.1375 40.0 37.0 40.0 37.0 40.0 20-21 38.058625000000006 40.0 37.0 40.0 35.0 40.0 22-23 37.257125 40.0 37.0 40.0 33.0 40.0 24-25 37.81975 40.0 37.0 40.0 35.0 40.0 26-27 37.81925 40.0 37.0 40.0 33.0 40.0 28-29 37.818124999999995 40.0 37.0 40.0 33.0 40.0 30-31 37.6915 40.0 37.0 40.0 33.0 40.0 32-33 37.511125 40.0 37.0 40.0 33.0 40.0 34-35 37.504125 40.0 37.0 40.0 33.0 40.0 36-37 37.36175 40.0 37.0 40.0 33.0 40.0 38-39 37.2275 40.0 37.0 40.0 33.0 40.0 40-41 37.048 40.0 37.0 40.0 33.0 40.0 42-43 36.979124999999996 40.0 37.0 40.0 33.0 40.0 44-45 36.701375 40.0 37.0 40.0 33.0 40.0 46-47 36.399125 37.0 37.0 40.0 33.0 40.0 48-49 36.18675 37.0 37.0 40.0 33.0 40.0 50-51 34.378375 37.0 35.0 38.5 30.0 38.5 52-53 34.68275 37.0 33.0 38.5 27.0 40.0 54-55 35.394375 37.0 37.0 40.0 33.0 40.0 56-57 35.295500000000004 37.0 37.0 40.0 33.0 40.0 58-59 35.054500000000004 37.0 37.0 37.0 33.0 40.0 60-61 34.7435 37.0 33.0 37.0 27.0 40.0 62-63 34.633250000000004 37.0 33.0 37.0 27.0 40.0 64-65 34.409499999999994 37.0 33.0 37.0 27.0 40.0 66-67 34.291375 37.0 33.0 37.0 27.0 40.0 68-69 33.9245 37.0 33.0 37.0 27.0 37.0 70-71 33.733875 37.0 33.0 37.0 27.0 37.0 72-73 33.546499999999995 37.0 33.0 37.0 27.0 37.0 74-75 33.342124999999996 37.0 33.0 37.0 27.0 37.0 76-77 33.066375 37.0 33.0 37.0 27.0 37.0 78-79 32.745999999999995 37.0 33.0 37.0 24.5 37.0 80-81 32.57725 37.0 33.0 37.0 22.0 37.0 82-83 32.45125 37.0 33.0 37.0 22.0 37.0 84-85 32.564 37.0 33.0 37.0 24.5 37.0 86-87 32.637125 37.0 33.0 37.0 24.5 37.0 88-89 32.433375 37.0 33.0 37.0 22.0 37.0 90-91 32.3705 37.0 33.0 37.0 22.0 37.0 92-93 32.232875 37.0 33.0 37.0 22.0 37.0 94-95 32.031375 37.0 33.0 37.0 22.0 37.0 96-97 31.664250000000003 37.0 33.0 37.0 15.0 37.0 98-99 31.619625 37.0 33.0 37.0 15.0 37.0 100-101 29.837249999999997 35.0 30.0 37.0 2.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 2 15.0 3 7.0 4 7.0 5 2.0 6 5.0 7 10.0 8 5.0 9 13.0 10 14.0 11 11.0 12 9.0 13 9.0 14 6.0 15 3.0 16 11.0 17 8.0 18 13.0 19 15.0 20 21.0 21 10.0 22 18.0 23 14.0 24 16.0 25 16.0 26 24.0 27 32.0 28 33.0 29 51.0 30 41.0 31 89.0 32 96.0 33 160.0 34 194.0 35 280.0 36 636.0 37 1522.0 38 584.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 34.375 16.325 8.5 40.8 2 31.874999999999996 21.825 29.125 17.175 3 24.375 25.874999999999996 23.775 25.974999999999998 4 28.275 34.5 18.675 18.55 5 32.5 33.025 16.675 17.8 6 26.200000000000003 34.300000000000004 17.65 21.85 7 23.5 17.474999999999998 33.175 25.85 8 23.0 20.275000000000002 25.624999999999996 31.1 9 27.85 20.325 26.0 25.825 10-11 29.312500000000004 27.712500000000002 17.7 25.275 12-13 29.1125 21.275 22.275 27.3375 14-15 27.55 25.9625 22.3125 24.175 16-17 29.362500000000004 25.4875 21.475 23.674999999999997 18-19 28.000000000000004 25.1875 22.725 24.087500000000002 20-21 28.8375 24.9375 21.3875 24.837500000000002 22-23 27.825 25.837500000000002 22.3875 23.95 24-25 28.799999999999997 24.212500000000002 22.175 24.8125 26-27 27.737499999999997 25.387500000000003 22.7125 24.1625 28-29 27.85 25.637500000000003 22.1 24.4125 30-31 28.5625 24.6625 22.225 24.55 32-33 27.8625 26.087500000000002 22.0875 23.962500000000002 34-35 28.1875 26.437500000000004 21.425 23.95 36-37 28.799999999999997 25.912499999999998 21.099999999999998 24.1875 38-39 28.475 24.875 22.325 24.325 40-41 28.8625 24.925 22.6375 23.575 42-43 28.5625 25.775 21.65 24.0125 44-45 27.8125 25.324999999999996 22.275 24.587500000000002 46-47 28.025 27.0875 22.625 22.2625 48-49 28.499999999999996 24.6625 21.9 24.9375 50-51 28.725 25.324999999999996 22.912499999999998 23.0375 52-53 27.325 26.3 22.05 24.325 54-55 28.962500000000002 24.9875 21.7375 24.3125 56-57 28.487499999999997 25.387500000000003 22.5 23.625 58-59 27.962500000000002 24.8125 22.05 25.174999999999997 60-61 29.8875 24.325 22.2625 23.525 62-63 28.1 24.9125 22.6375 24.349999999999998 64-65 29.099999999999998 25.6125 22.025 23.2625 66-67 29.599999999999998 25.587500000000002 20.724999999999998 24.087500000000002 68-69 28.037499999999998 24.6 22.650000000000002 24.712500000000002 70-71 28.9875 24.8625 22.537499999999998 23.6125 72-73 28.0875 24.95 22.5 24.462500000000002 74-75 28.925 24.775 22.0 24.3 76-77 27.825 24.6 23.8625 23.7125 78-79 29.062500000000004 24.875 21.925 24.1375 80-81 28.725 25.087500000000002 22.35 23.8375 82-83 28.075 25.0375 22.775000000000002 24.1125 84-85 28.219554888722183 24.74368592148037 21.91797949487372 25.11877969492373 86-87 27.5625 25.4875 23.0625 23.8875 88-89 28.299999999999997 25.412499999999998 22.4375 23.849999999999998 90-91 28.8375 25.8625 21.95 23.35 92-93 28.249999999999996 24.8125 22.787499999999998 24.15 94-95 27.987499999999997 25.474999999999998 22.7125 23.825 96-97 29.462500000000002 25.5 22.1 22.9375 98-99 28.225 26.075 22.5625 23.1375 100-101 28.3375 26.625 21.9625 23.075000000000003 >>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 0.0 18 0.0 19 0.0 20 0.0 21 0.0 22 0.0 23 0.5 24 1.0 25 1.0 26 1.0 27 3.0 28 3.0 29 2.0 30 6.5 31 10.0 32 9.0 33 8.0 34 13.0 35 26.0 36 30.5 37 34.0 38 48.5 39 51.5 40 48.0 41 58.0 42 73.0 43 86.0 44 100.5 45 107.5 46 115.5 47 130.0 48 139.5 49 159.5 50 169.5 51 148.0 52 143.0 53 190.5 54 255.5 55 252.5 56 223.0 57 190.5 58 174.5 59 190.0 60 153.0 61 107.5 62 95.0 63 77.0 64 56.0 65 43.5 66 32.0 67 43.5 68 48.5 69 34.5 70 26.5 71 20.0 72 14.0 73 12.0 74 10.0 75 7.5 76 6.0 77 2.0 78 2.5 79 2.5 80 1.0 81 0.5 82 0.0 83 0.0 84 0.5 85 0.5 86 0.0 87 0.5 88 0.5 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 0.025 86-87 0.0 88-89 0.0 90-91 0.0 92-93 0.0 94-95 0.0 96-97 0.0 98-99 0.0 100-101 0.0 >>END_MODULE >>Sequence Length Distribution pass #Length Count 101 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 83.1 #Duplication Level Percentage of deduplicated Percentage of total 1 87.12394705174489 72.39999999999999 2 8.754512635379061 14.549999999999999 3 2.6173285198555956 6.525 4 0.8724428399518652 2.9000000000000004 5 0.3008423586040915 1.25 6 0.09025270758122744 0.44999999999999996 7 0.09025270758122744 0.525 8 0.030084235860409148 0.2 9 0.060168471720818295 0.44999999999999996 >10 0.060168471720818295 0.75 >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 GTCTGACATGCGTGCGAGTCGACGGGTTCTGAAACCTGGGATGCGCAAGG 18 0.44999999999999996 No Hit ACCAGGTCCAGACATAGCAAGGATTGACAGACTGAGAGCTCTTTCTTGAT 12 0.3 No Hit CTCTGTGCCAGCAGCCGCGGTAAGACAGAGGATGCAAGCGTTATCCGGAA 9 0.22499999999999998 No Hit CCTTACCAGGGCTTGACATGCCGCGAATCCTCTTGAAAGAGAGGGGTGCC 9 0.22499999999999998 No Hit CCTGCCAGTAGTCATATGCTTGTCTCAAAGATTAAGCCATGCATGTGCAA 8 0.2 No Hit CTGGAATCGGTTCAGCCGGAGGTAGGGTCCAGTGGCCGGAAGAGCACCGC 7 0.17500000000000002 No Hit CGGCTCTTCGCCACCTGGAGCTGTAGGTGGTTCCAAGGGTTGGGCTGTTC 7 0.17500000000000002 No Hit CGGACATTGGTCCTCGAGTGCAAAGGCAGAAGGGAGCTTGACTGCAAGAC 7 0.17500000000000002 No Hit AGTAGTCATATGCTTGTCTCAAAGATTAAGCCATGCATGTGCAAGTATGA 6 0.15 No Hit CTTACCAGGGCTTGACATGCCGCGAATCCTCTTGAAAGAGAGGGGTGCCC 6 0.15 No Hit CAGGTCCAGACATAGCAAGGATTGACAGACTGAGAGCTCTTTCTTGATTC 6 0.15 No Hit GGCTGATCTTCCCCAAGAGTCCACATCGACGGGAAGGTTTGGCACCTCGA 5 0.125 No Hit CTGGAAACGGTTGCTAATACCCCGTAGGCTGAGGAGCAAAAGGAGAAATC 5 0.125 No Hit CGGAAGCGGGGCAAGTCCCCTCCTTTTGGCTCCAAGGCCCGGTCTGACCG 5 0.125 No Hit GTCAAAGTGAAGAAATTCAACCAAGCGCGGGTAAACGGCGGGAGTAACTA 5 0.125 No Hit CGTGAAACCGTGCTGAGCTCCCAAGCAGTGGGAGGGGAAAGTGATCTCTG 5 0.125 No Hit GCGAAATTCCTTGTCGGGTAAGTTCCGACCCGCACGAAAGGCGTAACGAT 5 0.125 No Hit CAGGGCTTGACATGCCGCGAATCCTCTTGAAAGAGAGGGGTGCCCTCGGG 5 0.125 No Hit CTGAGGAATAAGCATCGGCTAACTCTGTGCCAGCAGCCGCGGTAAGACAG 5 0.125 No Hit GGAAGTTTGAGGCAATAACAGGTCTGTGATGCCCTTAGATGTTCTGGGCC 5 0.125 No Hit CGGGCCGATCCGGGCGGAAGACATTGTCAGGTGGGGAGTTTGGCTGGGGC 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 0.0 0.0 0.0 0.0 0.0 54-55 0.0 0.0 0.0 0.0 0.0 56-57 0.0 0.0 0.0 0.0 0.0 58-59 0.0 0.0 0.0 0.0 0.0 60-61 0.0 0.0 0.0 0.0 0.0 62-63 0.0125 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 0.037500000000000006 0.0 0.0 0.0 0.0 72-73 0.05 0.0 0.0 0.0 0.0 74-75 0.0625 0.0 0.0 0.0 0.0 76-77 0.0875 0.0 0.0 0.0 0.0 78-79 0.1 0.0 0.0 0.0 0.0 80-81 0.175 0.0 0.0 0.0 0.0 82-83 0.2375 0.0 0.0 0.0 0.0 84-85 0.3125 0.0 0.0 0.0 0.0 86-87 0.45 0.0 0.0 0.0 0.0 88-89 0.5 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Read 1360605 spots for SRR6127928.sra Written 1360605 spots for SRR6127928.sra Read 1360605 spots for SRR6127928.sra Written 1360605 spots for SRR6127928.sra Read 1360605 spots for SRR6127928.sra Written 1360605 spots for SRR6127928.sra Read 1360605 spots for SRR6127928.sra Written 1360605 spots for SRR6127928.sra Read 1360605 spots for SRR6127928.sra Written 1360605 spots for SRR6127928.sra Read 1360605 spots for SRR6127928.sra Written 1360605 spots for SRR6127928.sra Read 1360611 spots for SRR6127928.sra Written 1360611 spots for SRR6127928.sra Read 1360605 spots for SRR6127928.sra Written 1360605 spots for SRR6127928.sra Read 1360605 spots for SRR6127928.sra Written 1360605 spots for SRR6127928.sra Read 1360605 spots for SRR6127928.sra Written 1360605 spots for SRR6127928.sra Read 1360605 spots for SRR6127928.sra Written 1360605 spots for SRR6127928.sra Read 1360605 spots for SRR6127928.sra Written 1360605 spots for SRR6127928.sra Read 1360605 spots for SRR6127928.sra Written 1360605 spots for SRR6127928.sra Read 1360605 spots for SRR6127928.sra Written 1360605 spots for SRR6127928.sra Read 1360605 spots for SRR6127928.sra Written 1360605 spots for SRR6127928.sra Read 1360605 spots for SRR6127928.sra Written 1360605 spots for SRR6127928.sra Read 1360605 spots for SRR6127928.sra Written 1360605 spots for SRR6127928.sra Read 1360605 spots for SRR6127928.sra Written 1360605 spots for SRR6127928.sra Read 1360605 spots for SRR6127928.sra Written 1360605 spots for SRR6127928.sra Read 1360605 spots for SRR6127928.sra Written 1360605 spots for SRR6127928.sra SRR ids: ['SRR6127928.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_o_ghgwcy SRR6127928.sra spots: 27212106 blocks: [[1, 1360605], [1360606, 2721210], [2721211, 4081815], [4081816, 5442420], [5442421, 6803025], [6803026, 8163630], [8163631, 9524235], [9524236, 10884840], [10884841, 12245445], [12245446, 13606050], [13606051, 14966655], [14966656, 16327260], [16327261, 17687865], [17687866, 19048470], [19048471, 20409075], [20409076, 21769680], [21769681, 23130285], [23130286, 24490890], [24490891, 25851495], [25851496, 27212106]] SRR6127928 file size 6489008 SRR6127928 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 SRR6127928 SRR6127928_1.fastq SRR6127928_2.fastq Input file: SRR6127928_1.fastq Paired file: SRR6127928_2.fastq trimmed: SRR6127928-trimmed-pair1.fastq, SRR6127928-trimmed-pair2.fastq Parameters used: -- 3' end adapter sequence (-x): AGATCGGAAGAGCACACGTCTGAACTCCAGTCAC -- paired 3' end adapter sequence (-y): AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTA -- 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 -- number of concurrent threads (-t): 20 Tue Dec 10 04:44:04 2024 >> started Tue Dec 10 04:44:30 2024 >> done (25.883s) 27212106 read pairs processed; of these: 142066 ( 0.52%) short read pairs filtered out after trimming by size control 186849 ( 0.69%) empty read pairs filtered out after trimming by size control 26883191 (98.79%) read pairs available; of these: 4961414 (18.46%) trimmed read pairs available after processing 21921777 (81.54%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 18 9 0.00% 19 30 0.00% 20 34 0.00% 21 64 0.00% 22 117 0.00% 23 164 0.00% 24 255 0.00% 25 306 0.00% 26 381 0.00% 27 470 0.00% 28 599 0.00% 29 715 0.00% 30 848 0.00% 31 1017 0.00% 32 1183 0.00% 33 1277 0.00% 34 1543 0.01% 35 1825 0.01% 36 1962 0.01% 37 2325 0.01% 38 2403 0.01% 39 2754 0.01% 40 3052 0.01% 41 3399 0.01% 42 3775 0.01% 43 4164 0.02% 44 4682 0.02% 45 4929 0.02% 46 5674 0.02% 47 6108 0.02% 48 6390 0.02% 49 6824 0.03% 50 7370 0.03% 51 7807 0.03% 52 8262 0.03% 53 8936 0.03% 54 9707 0.04% 55 10546 0.04% 56 11126 0.04% 57 12413 0.05% 58 13567 0.05% 59 28734 0.11% 60 27956 0.10% 61 30413 0.11% 62 37797 0.14% 63 36863 0.14% 64 42272 0.16% 65 44915 0.17% 66 43368 0.16% 67 43913 0.16% 68 46858 0.17% 69 58364 0.22% 70 56209 0.21% 71 59018 0.22% 72 63046 0.23% 73 58561 0.22% 74 64215 0.24% 75 58418 0.22% 76 55924 0.21% 77 57020 0.21% 78 60888 0.23% 79 61401 0.23% 80 64812 0.24% 81 68772 0.26% 82 75788 0.28% 83 79560 0.30% 84 84279 0.31% 85 95560 0.36% 86 101056 0.38% 87 98080 0.36% 88 98629 0.37% 89 97949 0.36% 90 124618 0.46% 91 113700 0.42% 92 123974 0.46% 93 150158 0.56% 94 158285 0.59% 95 185963 0.69% 96 234235 0.87% 97 298662 1.11% 98 394462 1.47% 99 501619 1.87% 100 22537865 83.84% 26883191 reads passed initial QC criterion=sequence-density sequence-density=1.80 sequence-density-rank=1 fanout-score=2.03 fanout-score-rank=23 prefix-density=1.82 prefix-fanout=2.0 sequence=CTGTCTCACGACG criterion=fanout-score sequence-density=0.01 sequence-density-rank=34 fanout-score=54.79 fanout-score-rank=1 prefix-density=0.27 prefix-fanout=1.0 sequence=TTAAGGGTAAAACGCAAGCACCGGCTGTCGAGTTGTACGGCCGTTCAGCCACGAGTCACGGGGTCTAACGCCTACCAGTACTGATTGCCGAGCAAATCTGTGAATGGCGACTATGCGCCTAGTCAACCAGATGTGTGCTAGCCCGTCGAGACTGAAAAGCTATAACCCGCAGACCCGAGCGAAAGCGGCGGTCCTTACAAGTCCGCTCCTCGGGGAGCTTGATTGATAATTCTGTATAAGGTGATCGCAGGTTGTGCAATCATTGCTCAAAAGGGTGTACACCGCCCTTAGACGTCTTGGTATACGGACAACTGATGGACCCACGTTGCGAGTCCAGTAAATCAGGACGGGGATAATTGCGCGGTTTTGACTGCGGAAGGAAGCCAAGGCCCACCTAAAGTATGCTGCAAACATATGCAGATCCCCTGAGACAGAGTCGCTATCGTTATGTCTCCTTCCCGCGGTCAAGGCGAAACCGCAGCAAACTTCCTCAGACGCTGCCCTAACTGCG criterion=sequence-density sequence-density=2.42 sequence-density-rank=1 fanout-score=1.99 fanout-score-rank=25 prefix-density=2.40 prefix-fanout=2.0 sequence=GGTGGTGCATGGC criterion=fanout-score sequence-density=0.25 sequence-density-rank=21 fanout-score=7.04 fanout-score-rank=1 prefix-density=0.98 prefix-fanout=1.8 sequence=ACAAAAGGGTACCTGTACCCGAAACCGACACAGGTGGGTAGGTAGAGAATACCTAGGGGCGCGAGACAACTCTCTCTAAGGAACTCGGCAAAATAG Potential 3prime adapter identified. Now checking if in reference sequence /dee2/code/volunteer_pipeline.sh: line 905: -f: command not found /dee2/code/volunteer_pipeline.sh: line 906: -f: command not found Adapter seq not found in reference. Now shuffling file before clipping skewer v0.2.2 [April 4, 2016] COMMAND LINE: skewer -f sanger -l 18 -t 20 -x CTGTCTCACGACG -y GGTGGTGCATGGC -o SRR6127928 SRR6127928_1.fastq SRR6127928_2.fastq Input file: SRR6127928_1.fastq Paired file: SRR6127928_2.fastq trimmed: SRR6127928-trimmed-pair1.fastq, SRR6127928-trimmed-pair2.fastq Parameters used: -- 3' end adapter sequence (-x): CTGTCTCACGACG -- paired 3' end adapter sequence (-y): GGTGGTGCATGGC -- maximum error ratio allowed (-r): 0.100 -- maximum indel error ratio allowed (-d): 0.030 -- minimum read length allowed after trimming (-l): 18 -- file format (-f): Sanger/Illumina 1.8+ FASTQ -- number of concurrent threads (-t): 20 Tue Dec 10 04:46:00 2024 >> started Tue Dec 10 04:46:09 2024 >> done (8.893s) 8961064 read pairs processed; of these: 191 ( 0.00%) short read pairs filtered out after trimming by size control 713 ( 0.01%) empty read pairs filtered out after trimming by size control 8960160 (99.99%) read pairs available; of these: 573 ( 0.01%) trimmed read pairs available after processing 8959587 (99.99%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 18 1 0.00% 19 9 0.00% 20 11 0.00% 21 20 0.00% 22 37 0.00% 23 54 0.00% 24 82 0.00% 25 103 0.00% 26 137 0.00% 27 141 0.00% 28 195 0.00% 29 244 0.00% 30 300 0.00% 31 328 0.00% 32 398 0.00% 33 463 0.01% 34 487 0.01% 35 610 0.01% 36 639 0.01% 37 792 0.01% 38 794 0.01% 39 916 0.01% 40 1041 0.01% 41 1073 0.01% 42 1289 0.01% 43 1377 0.02% 44 1574 0.02% 45 1629 0.02% 46 1884 0.02% 47 2005 0.02% 48 2130 0.02% 49 2297 0.03% 50 2432 0.03% 51 2639 0.03% 52 2703 0.03% 53 3027 0.03% 54 3177 0.04% 55 3568 0.04% 56 3675 0.04% 57 4164 0.05% 58 4437 0.05% 59 9565 0.11% 60 9360 0.10% 61 10124 0.11% 62 12662 0.14% 63 12152 0.14% 64 14011 0.16% 65 14767 0.16% 66 14420 0.16% 67 14554 0.16% 68 15669 0.17% 69 19461 0.22% 70 18775 0.21% 71 19569 0.22% 72 20819 0.23% 73 19413 0.22% 74 21300 0.24% 75 19462 0.22% 76 18858 0.21% 77 19040 0.21% 78 20331 0.23% 79 20433 0.23% 80 21483 0.24% 81 22972 0.26% 82 25356 0.28% 83 26691 0.30% 84 27981 0.31% 85 31947 0.36% 86 33935 0.38% 87 32660 0.36% 88 32848 0.37% 89 32670 0.36% 90 41490 0.46% 91 37965 0.42% 92 41457 0.46% 93 49832 0.56% 94 52713 0.59% 95 62170 0.69% 96 77912 0.87% 97 99824 1.11% 98 131590 1.47% 99 167392 1.87% 100 7511645 83.83% criterion=sequence-density sequence-density=1.81 sequence-density-rank=1 fanout-score=2.03 fanout-score-rank=26 prefix-density=1.83 prefix-fanout=2.0 sequence=CTGTCTCACGACG criterion=fanout-score sequence-density=0.01 sequence-density-rank=35 fanout-score=12.13 fanout-score-rank=1 prefix-density=0.06 prefix-fanout=1.2 sequence=CGCGTGAGCAGCTCGAGCAATCCGCCGACAGCCGACGGGTTTGGGGCCGGGACCCCCGAGCCCAGTCCTCAGAGCCAATCCTTTTCCCGAAGTTACGGATCCGTTTTGCCGACTTCCCTTGCCTACATTGTTCCATTGGCCAGAGGCTGTTCACCTTGGAGACCTGATGCGGTTATGAGTACGACCGGGCGTGAACGGTACTCGGTCCTCCGGATTTTCATGGGCCGCCGGGGGCGCACCGGACACCGCGCGACGTGCGGTGCTCTTCCGGCCACTGGACCCTACCTCCGGCTGAACCGATTCCAGGGTTGGCAGGCCGTTAAGCAGAAAAGATAACTCTTCCCGAGGCCCCCGCCGGCGTCTCCGGACTTCCTAACGTCGCCGTCAACCGCCACATCCCGGCTCGGGAAATCTTAACCCGATTCCCTTTCGGGGGATACGCGTGATCGCGCTATCTGCCGGGGTTACCCCGTCCCTTAGGATCGGCTTACCCATGTGCAAGTGCCGTTCA criterion=sequence-density sequence-density=2.39 sequence-density-rank=1 fanout-score=2.00 fanout-score-rank=24 prefix-density=2.37 prefix-fanout=2.0 sequence=GGTGGTGCATGGC criterion=fanout-score sequence-density=0.01 sequence-density-rank=31 fanout-score=39.19 fanout-score-rank=1 prefix-density=0.31 prefix-fanout=1.1 sequence=CTTCAACAATAACGTCTCTTTCAGAAGGCATTGGTATCTTTTCCCCACTTCCAAGCATTTTTTCAACTAATCTTATGTTATTAACCATTTCCTTAAATTCTTCTGGGTCTGCTGACAAAGCATGATCAGGACCTTCCATATTTTTATCTAAGGTAAAGTGCTTCTCAATAACATCCGCTCCTAAGGCAACAGAAACTACTGGGGCGAGTATTCCCAATGTATGGTCAGAATATCCCACAGGGATATTGAATATACTTTTCAAGGTTTTAATAGCGTTTAAATTGACATCTTCATAAGGGGTTGGGTAAGATGAAATACAATGCAATAAAATAATATCCCTGCATCCATTATTTTCTAAAACTTTAACTGCTTCCCAAATTTCCCCAATATCAGACATTCCTGTAGATAAAATCACCGGCTTGCCTGTTTTTGCCACTTTTTCTAATAAGGGATAAA SRR6127928 testing PE reads STAR mapping to Ensembl genome Started job on | Dec 10 04:47:18 Started mapping on | Dec 10 04:47:18 Finished on | Dec 10 04:54:12 Mapping speed, Million of reads per hour | 233.76 Number of input reads | 26882287 Average input read length | 196 UNIQUE READS: Uniquely mapped reads number | 10922641 Uniquely mapped reads % | 40.63% Average mapped length | 197.07 Number of splices: Total | 5378591 Number of splices: Annotated (sjdb) | 5126410 Number of splices: GT/AG | 5300757 Number of splices: GC/AG | 63394 Number of splices: AT/AC | 2317 Number of splices: Non-canonical | 12123 Mismatch rate per base, % | 0.31% Deletion rate per base | 0.02% Deletion average length | 2.26 Insertion rate per base | 0.01% Insertion average length | 1.99 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 5922628 % of reads mapped to multiple loci | 22.03% Number of reads mapped to too many loci | 1045949 % of reads mapped to too many loci | 3.89% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 11.07% % of reads unmapped: other | 22.37% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 10051460 10051460 10051460 N_multimapping 5922628 5922628 5922628 N_noFeature 3198133 10710628 3255177 N_ambiguous 193937 954 39552 UnstrandedReadsAssigned:7530571 PositiveStrandReadsAssigned:211059 NegativeStrandReadsAssigned:7627912 Dataset is classified negative stranded MeadianReadLen=100 20thPercentileLength=100 echo kmer=95 SRR6127928 Starting Kallisto paired end mapping to ensembl reference transcriptome [quant] fragment length distribution will be estimated from the data [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 paired-end mode [quant] will process pair 1: SRR6127928-trimmed-pair1.fastq SRR6127928-trimmed-pair2.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 26,882,287 reads, 8,951,883 reads pseudoaligned [quant] estimated average fragment length: 190.049 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,093 rounds 52973 SRR6127928.ke.tsv 35125 SRR6127928.se.tsv 88098 total ==> SRR6127928.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 747.166 16.7245 2.16259 PNS24247 1044 854.951 12.3331 1.39371 PNS24249 1928 1738.95 25.7543 1.43087 PNS24246 1044 854.951 12.3331 1.39371 PNS24248 1044 854.951 12.3331 1.39371 PNS24244 1471 1281.95 25.5219 1.92345 PNS24243 293 115.451 0 0 KQK14069 1603 1413.95 85.2312 5.82376 KQK14071 474 286.998 5.0743 1.7082 ==> SRR6127928.se.tsv <== BRADI_1g14170v3 115 BRADI_1g53295v3 185 BRADI_1g59795v3 47 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 119 BRADI_1g74790v3 28 BRADI_1g09890v3 1 BRADI_1g77505v3 155 BRADI_1g48960v3 0 SRR6127928 completed mapping pipeline successfully