Starting /dee2/code/volunteer_pipeline.sh SRR5578498 current disk space = 1521114083328 free memory = 1587150836 SRR5578498 SRAfilesize 4c26705ed585ae9712284f664d505c78 SRR5578498.sra SRR5578498.sra file validated SRR5578498 is paired end SRR5578498 is conventional basespace SRR5578498 read1 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5578498_1.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 151 %GC 43 >>END_MODULE >>Per base sequence quality fail #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 32.631 34.0 33.0 34.0 32.0 34.0 2 33.2315 34.0 34.0 34.0 31.0 34.0 3 33.412 34.0 34.0 34.0 33.0 34.0 4 33.42625 34.0 34.0 34.0 33.0 34.0 5 33.2975 34.0 34.0 34.0 33.0 34.0 6 36.9265 38.0 37.0 38.0 35.0 38.0 7 37.2005 38.0 38.0 38.0 36.0 38.0 8 37.44125 38.0 38.0 38.0 37.0 38.0 9 37.586 38.0 38.0 38.0 38.0 38.0 10-14 37.6044 38.0 38.0 38.0 38.0 38.0 15-19 37.6233 38.0 38.0 38.0 37.8 38.0 20-24 37.550349999999995 38.0 38.0 38.0 37.4 38.0 25-29 37.572250000000004 38.0 38.0 38.0 37.8 38.0 30-34 37.4797 38.0 38.0 38.0 37.8 38.0 35-39 37.394400000000005 38.0 38.0 38.0 37.4 38.0 40-44 35.887800000000006 38.0 36.2 38.0 30.0 38.0 45-49 37.23145 38.0 38.0 38.0 37.0 38.0 50-54 37.140249999999995 38.0 38.0 38.0 36.6 38.0 55-59 37.1676 38.0 38.0 38.0 37.0 38.0 60-64 37.06045 38.0 38.0 38.0 36.4 38.0 65-69 36.829049999999995 38.0 38.0 38.0 35.4 38.0 70-74 34.862300000000005 38.0 35.2 38.0 27.8 38.0 75-79 26.26 38.0 2.0 38.0 2.0 38.0 80-84 26.045300000000005 38.0 2.0 38.0 2.0 38.0 85-89 25.979400000000005 38.0 2.0 38.0 2.0 38.0 90-94 25.85575 38.0 2.0 38.0 2.0 38.0 95-99 25.66505 38.0 2.0 38.0 2.0 38.0 100-104 25.4822 38.0 2.0 38.0 2.0 38.0 105-109 25.31905 38.0 2.0 38.0 2.0 38.0 110-114 25.2641 38.0 2.0 38.0 2.0 38.0 115-119 25.206149999999997 38.0 2.0 38.0 2.0 38.0 120-124 25.034049999999997 38.0 2.0 38.0 2.0 38.0 125-129 24.8448 37.6 2.0 38.0 2.0 38.0 130-134 24.695300000000003 37.0 2.0 38.0 2.0 38.0 135-139 24.4917 36.4 2.0 38.0 2.0 38.0 140-144 24.224799999999995 36.0 2.0 38.0 2.0 38.0 145-149 23.7658 35.4 2.0 38.0 2.0 38.0 150-151 21.451125 31.0 2.0 37.0 2.0 38.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 7 1.0 8 7.0 9 2.0 10 0.0 11 1.0 12 1.0 13 6.0 14 9.0 15 11.0 16 32.0 17 47.0 18 419.0 19 721.0 20 36.0 21 17.0 22 6.0 23 8.0 24 8.0 25 12.0 26 13.0 27 14.0 28 12.0 29 16.0 30 20.0 31 28.0 32 28.0 33 51.0 34 66.0 35 104.0 36 323.0 37 1981.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 59.98970133882595 8.959835221421216 7.621009268795056 23.429454170957776 2 17.925 41.425 20.775 19.875 3 16.65416354088522 12.178044511127782 47.46186546636659 23.705926481620406 4 17.8 16.475 16.400000000000002 49.325 5 49.97486173956762 17.92357968828557 18.451483157365512 13.650075414781297 6 46.875 22.725 17.424999999999997 12.975 7 11.25 47.949999999999996 28.999999999999996 11.799999999999999 8 14.075 49.025 21.275 15.625 9 43.55 17.7 23.799999999999997 14.95 10-14 21.735 32.47 17.89 27.905 15-19 21.41 24.525 25.285000000000004 28.78 20-24 21.66 30.59 25.314999999999998 22.435 25-29 21.285 24.815 25.145 28.754999999999995 30-34 21.685 25.314999999999998 24.310000000000002 28.689999999999998 35-39 21.349999999999998 31.135 24.529999999999998 22.985 40-44 16.24 24.595 30.495 28.67 45-49 27.83 24.93 31.2 16.04 50-54 22.575 18.305 24.545 34.575 55-59 21.335 18.5 37.31 22.855 60-64 21.125 25.645 30.659999999999997 22.57 65-69 14.67 51.355 17.630000000000003 16.345000000000002 70-74 15.479999999999999 50.980000000000004 17.03 16.509999999999998 75-79 16.580000000000002 45.285 19.435 18.7 80-84 19.505 38.105 22.1 20.29 85-89 23.035 30.97 22.695 23.3 90-94 19.869999999999997 28.744999999999997 27.169999999999998 24.215 95-99 19.495 30.214999999999996 26.87 23.419999999999998 100-104 17.665 41.3 20.965 20.07 105-109 16.99 45.64 18.235 19.134999999999998 110-114 17.07 43.19 18.935 20.805 115-119 17.625 40.47 19.845 22.06 120-124 19.875962788836652 37.64629388816645 19.88596578973692 22.591777533259975 125-129 19.827888127282733 36.72887376794917 19.757842597688498 23.6853955070796 130-134 20.223256745257046 36.081493717775444 20.348400660759875 23.346848876207638 135-139 20.312343577935728 35.56912603864251 21.213334668134948 22.905195715286816 140-144 19.775000000000002 35.32 20.765 24.14 145-149 20.015 34.335 20.875 24.775 150-151 19.591376284783156 36.500376034093755 20.280772123339183 23.627475557783907 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 0.0 1 0.0 2 1.0 3 1.0 4 0.5 5 0.5 6 1.5 7 2.5 8 1.0 9 0.0 10 0.0 11 0.5 12 1.5 13 1.0 14 0.5 15 0.5 16 0.5 17 1.0 18 1.0 19 0.5 20 1.0 21 1.5 22 1.0 23 0.5 24 0.0 25 0.0 26 0.5 27 1.0 28 3.0 29 9.5 30 18.5 31 31.5 32 35.5 33 41.0 34 62.0 35 72.5 36 100.5 37 169.5 38 216.5 39 243.5 40 288.5 41 274.5 42 244.0 43 205.5 44 166.5 45 163.0 46 148.5 47 139.0 48 125.0 49 110.5 50 118.0 51 121.0 52 107.0 53 93.0 54 83.0 55 79.0 56 72.0 57 66.0 58 62.5 59 54.5 60 38.5 61 28.5 62 28.5 63 28.0 64 26.5 65 23.5 66 15.0 67 9.5 68 8.5 69 6.0 70 4.0 71 4.5 72 4.0 73 5.0 74 5.0 75 4.5 76 4.5 77 4.5 78 3.0 79 0.5 80 0.5 81 1.0 82 1.0 83 0.5 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 2.9000000000000004 2 0.0 3 0.025 4 0.0 5 0.5499999999999999 6 0.0 7 0.0 8 0.0 9 0.0 10-14 0.0 15-19 0.0 20-24 0.0 25-29 0.0 30-34 0.0 35-39 0.0 40-44 0.0 45-49 0.0 50-54 0.0 55-59 0.0 60-64 0.0 65-69 0.0 70-74 0.0 75-79 0.0 80-84 0.0 85-89 0.0 90-94 0.0 95-99 0.0 100-104 0.0 105-109 0.0 110-114 0.0 115-119 0.0 120-124 0.03 125-129 0.065 130-134 0.11499999999999999 135-139 0.11 140-144 0.0 145-149 0.0 150-151 0.27499999999999997 >>END_MODULE >>Sequence Length Distribution pass #Length Count 151 4000.0 >>END_MODULE >>Sequence Duplication Levels warn #Total Deduplicated Percentage 60.9 #Duplication Level Percentage of deduplicated Percentage of total 1 91.0919540229885 55.474999999999994 2 5.788177339901478 7.049999999999999 3 1.600985221674877 2.9250000000000003 4 0.5747126436781609 1.4000000000000001 5 0.28735632183908044 0.8750000000000001 6 0.16420361247947454 0.6 7 0.12315270935960591 0.525 8 0.041050903119868636 0.2 9 0.041050903119868636 0.22499999999999998 >10 0.24630541871921183 2.7 >50 0.0 0.0 >100 0.0 0.0 >500 0.0 0.0 >1k 0.041050903119868636 28.025 >5k 0.0 0.0 >10k+ 0.0 0.0 >>END_MODULE >>Overrepresented sequences fail #Sequence Count Percentage Possible Source GATCGGAAGAGCACACGTCTGAACTCCAGTCACGATCAGATCTCGTATGC 1121 28.025 TruSeq Adapter, Index 9 (100% over 50bp) NATCGGAAGAGCACACGTCTGAACTCCAGTCACGATCAGATCTCGTATGC 36 0.8999999999999999 TruSeq Adapter, Index 9 (98% over 50bp) GCCTTATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGA 22 0.5499999999999999 No Hit ATCGGAAGAGCACACGTCTGAACTCCAGTCACGATCAGATCTCGTATGCC 15 0.375 TruSeq Adapter, Index 9 (100% over 50bp) GGAAGCTATACTATATAGGTGGCTATCTATCCCTACCAAGGCTTATATTG 12 0.3 No Hit GATCGGAAGAGCACACGTCTGAACTCCAGTCACGATCAGATATCGTATGC 12 0.3 TruSeq Adapter, Index 9 (98% over 50bp) GCCTCACTTAGTTACAGTTTTATGGATAATTGGGATATTCTTTGGTATAG 11 0.27499999999999997 No Hit GATCNGAAGAGCACACGTCTGAACTCCAGTCACGATCAGATCTCGTATGC 9 0.22499999999999998 TruSeq Adapter, Index 9 (98% over 50bp) GGATAATTGGGATATTCTTTGGTATAGTTGGGATTTTAATATCATTAATA 8 0.2 No Hit GTCGAGTTGTACGGCCGTTCAGCCACGAGTCACGGGGTCTAACGCCTACC 7 0.17500000000000002 No Hit GATCGGAAGACACACGTCTGAACTCCAGTCACGATCAGATCTCGTATGCC 7 0.17500000000000002 TruSeq Adapter, Index 9 (100% over 40bp) CCCATTTTTAGTTATAATGATGCCTTATGTGATAGATGCCTCTTTAAAAT 7 0.17500000000000002 No Hit GGGAAGCTATACTATATAGGTGGCTATCTATCCCTACCAAGGCTTATATT 6 0.15 No Hit GTTGCTGTTCGCCCAGTGGGCTCCGCGCGTGAGCACTTCCCACTGATCCA 6 0.15 No Hit GCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGTAGGGATGAGCATAA 6 0.15 No Hit GGGATATTCTTTGGTATAGTTGGGATTTTAATATCATTAATAGCATGATG 6 0.15 No Hit GATCGGAAGAGCACACGTCTGAACTCCATCACGATCAGATCTCGTATGCC 5 0.125 Illumina Multiplexing PCR Primer 2.01 (96% over 28bp) CTTATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGT 5 0.125 No Hit GCCAGCTAACGGAACAAGCTTTGTGCCATTCGGACCTACCGTAAGCCTAT 5 0.125 No Hit CCTCACTTAGTTACAGTTTTATGGATAATTGGGATATTCTTTGGTATAGT 5 0.125 No Hit GGGTTATGAGTAGGGATGAGCATAAACCAACAACTCTCAAAGAAGATGGG 5 0.125 No Hit GTCATATCTAGTATTCAGAGTTTGCCTCGATTTGGTACCGCTCGCGCAGC 5 0.125 No Hit CCGGGGAACAGTCGCATGACGAGGCAGTTTCCAGAAACGTGTATCACATC 5 0.125 No Hit >>END_MODULE >>Adapter Content fail #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 0.0125 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 0.037500000000000006 0.0 0.0 0.0 0.0 62-63 0.05 0.0 0.0 0.0 0.0 64-65 0.0625 0.0 0.0 0.0 0.0 66-67 0.075 0.0 0.0 0.0 0.0 68-69 0.075 0.0 0.0 0.0 0.0 70-71 0.1 0.0 0.0 0.0 0.0 72-73 0.1 0.0 0.0 0.0 0.0 74-75 0.15 0.0 0.0 0.0 0.0 76-77 0.15 0.0 0.0 0.0 0.0 78-79 0.225 0.0 0.0 0.0 0.0 80-81 0.275 0.0 0.0 0.0 0.0 82-83 0.35 0.0 0.0 0.0 0.0 84-85 0.475 0.0 0.0 0.0 0.0 86-87 0.6875 0.0 0.0 0.0 0.0 88-89 0.9125 0.0 0.0 0.0 0.0 90-91 1.1375 0.0 0.0 0.0 0.0 92-93 1.5125000000000002 0.0 0.0 0.0 0.0 94-95 1.8375 0.0 0.0 0.0 0.0 96-97 2.1375 0.0 0.0 0.0 0.0 98-99 2.4000000000000004 0.0 0.0 0.0 0.0 100-101 2.825 0.0 0.0 0.0 0.0 102-103 3.3375 0.0 0.0 0.0 0.0 104-105 4.0625 0.0 0.0 0.0 0.0 106-107 4.574999999999999 0.0 0.0 0.0 0.0 108-109 5.074999999999999 0.0 0.0 0.0 0.0 110-111 5.5625 0.0 0.0 0.0 0.0 112-113 6.0125 0.0 0.0 0.0 0.0 114-115 6.8125 0.0 0.0 0.0 0.0 116-117 7.6125 0.0 0.0 0.0 0.0 118-119 8.3125 0.0 0.0 0.0 0.0 120-121 8.95 0.0 0.0 0.0 0.0 122-123 9.6125 0.0 0.0 0.0 0.0 124-125 10.15 0.0 0.0 0.0 0.0 126-127 10.7625 0.0 0.0 0.0 0.0 128-129 11.45 0.0 0.0 0.0 0.0 130-131 12.325 0.0 0.0 0.0 0.0 132-133 13.3 0.0 0.0 0.0 0.0 134-135 14.15 0.0 0.0 0.0 0.0 136-137 15.075 0.0 0.0 0.0 0.0 138-139 15.75 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content fail #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position GATCGGA 245 0.0 95.88428 1 GAGCACA 235 0.0 95.63006 9 TCGGAAG 245 0.0 94.685715 3 ATCGGAA 245 0.0 94.685715 2 AAGAGCA 240 0.0 93.637764 7 AGAGCAC 240 0.0 93.637764 8 GGAAGAG 240 0.0 93.637764 5 CGGAAGA 250 0.0 92.792 4 GAAGAGC 260 0.0 86.43485 6 TCTGCTT 170 0.0 28.14463 55-59 TGCTTGA 170 0.0 28.14463 55-59 GCTTGAA 170 0.0 28.14463 55-59 TGCCGTC 175 0.0 27.3405 45-49 TATGCCG 175 0.0 27.3405 45-49 ATGCCGT 175 0.0 27.3405 45-49 CTGCTTG 175 0.0 27.3405 55-59 GCCGTCT 175 0.0 27.3405 45-49 CGTCTTC 175 0.0 27.3405 50-54 CTTCTGC 175 0.0 27.3405 50-54 TCTCGTA 170 0.0 27.291763 40-44 >>END_MODULE SRR5578498 read2 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5578498_2.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 151 %GC 44 >>END_MODULE >>Per base sequence quality fail #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 32.76575 33.0 33.0 34.0 32.0 34.0 2 32.804 33.0 33.0 34.0 32.0 34.0 3 32.674 33.0 33.0 34.0 32.0 34.0 4 32.675 33.0 33.0 34.0 32.0 34.0 5 32.7595 34.0 33.0 34.0 33.0 34.0 6 36.7905 38.0 38.0 38.0 37.0 38.0 7 36.79075 38.0 38.0 38.0 36.0 38.0 8 36.8065 38.0 38.0 38.0 37.0 38.0 9 36.8855 38.0 38.0 38.0 36.0 38.0 10-14 36.807449999999996 38.0 38.0 38.0 36.6 38.0 15-19 36.6697 38.0 38.0 38.0 36.0 38.0 20-24 36.8095 38.0 38.0 38.0 36.6 38.0 25-29 36.72865 38.0 38.0 38.0 36.6 38.0 30-34 36.5221 38.0 38.0 38.0 35.6 38.0 35-39 36.3584 38.0 38.0 38.0 34.6 38.0 40-44 36.32975 38.0 38.0 38.0 34.6 38.0 45-49 35.7264 38.0 37.6 38.0 30.6 38.0 50-54 35.52275 38.0 37.2 38.0 30.0 38.0 55-59 36.0195 38.0 38.0 38.0 33.4 38.0 60-64 36.177749999999996 38.0 38.0 38.0 34.0 38.0 65-69 32.48705 38.0 26.2 38.0 21.0 38.0 70-74 25.997200000000003 38.0 2.0 38.0 2.0 38.0 75-79 25.862000000000002 38.0 2.0 38.0 2.0 38.0 80-84 25.708700000000004 38.0 2.0 38.0 2.0 38.0 85-89 25.60175 38.0 2.0 38.0 2.0 38.0 90-94 25.5033 38.0 2.0 38.0 2.0 38.0 95-99 25.3838 38.0 2.0 38.0 2.0 38.0 100-104 25.196649999999998 38.0 2.0 38.0 2.0 38.0 105-109 24.9983 38.0 2.0 38.0 2.0 38.0 110-114 24.8434 37.8 2.0 38.0 2.0 38.0 115-119 24.625600000000002 37.2 2.0 38.0 2.0 38.0 120-124 24.41045 36.0 2.0 38.0 2.0 38.0 125-129 24.04105 35.4 2.0 38.0 2.0 38.0 130-134 23.63115 35.0 2.0 38.0 2.0 38.0 135-139 22.88365 33.0 2.0 38.0 2.0 38.0 140-144 22.231199999999998 32.6 2.0 38.0 2.0 38.0 145-149 21.22685 31.0 2.0 38.0 2.0 38.0 150-151 17.508125 15.0 2.0 35.5 2.0 38.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 2 41.0 3 3.0 4 2.0 5 3.0 6 1.0 7 3.0 8 4.0 9 2.0 10 4.0 11 9.0 12 14.0 13 28.0 14 39.0 15 74.0 16 148.0 17 859.0 18 66.0 19 21.0 20 11.0 21 9.0 22 4.0 23 18.0 24 7.0 25 17.0 26 17.0 27 18.0 28 18.0 29 25.0 30 30.0 31 46.0 32 67.0 33 72.0 34 106.0 35 205.0 36 489.0 37 1520.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 56.25 13.525 10.0 20.225 2 20.40510127531883 48.337084271067766 16.754188547136785 14.50362590647662 3 16.85 17.224999999999998 49.175000000000004 16.75 4 18.934467233616807 21.03551775887944 14.807403701850925 45.222611305652826 5 50.700350175087536 21.83591795897949 13.38169084542271 14.082041020510255 6 47.225 24.099999999999998 14.924999999999999 13.750000000000002 7 15.75 45.025 24.45 14.774999999999999 8 17.375 47.349999999999994 16.475 18.8 9 48.85 16.900000000000002 18.45 15.8 10-14 30.404999999999998 24.8 21.68 23.115 15-19 30.185000000000002 18.17 29.630000000000003 22.015 20-24 36.775000000000006 30.2 16.99 16.035 25-29 30.919999999999998 36.345 16.805 15.93 30-34 30.875000000000004 23.91 29.53 15.684999999999999 35-39 18.04 23.21 30.064999999999998 28.685 40-44 42.585 17.794999999999998 23.815 15.805 45-49 24.240000000000002 17.54 23.585 34.635 50-54 23.544999999999998 23.415 31.195 21.845 55-59 17.055 36.125 31.180000000000003 15.64 60-64 16.575 49.045 18.845 15.534999999999998 65-69 16.650000000000002 49.285000000000004 18.185000000000002 15.879999999999999 70-74 19.03 43.785000000000004 19.255 17.93 75-79 20.580000000000002 40.465 20.44 18.515 80-84 22.46 36.86 21.46 19.220000000000002 85-89 24.560000000000002 34.22 22.02 19.2 90-94 24.98 33.434999999999995 21.775 19.81 95-99 22.84 34.8 22.405 19.955000000000002 100-104 22.75 35.845 21.565 19.84 105-109 22.045 38.295 20.355 19.305 110-114 21.265 37.56 20.7 20.474999999999998 115-119 22.42 36.74 20.57 20.27 120-124 22.884999999999998 36.230000000000004 21.125 19.759999999999998 125-129 23.615 35.89 20.265 20.23 130-134 24.01 34.544999999999995 21.165 20.28 135-139 24.935 34.885 20.185 19.994999999999997 140-144 24.4 35.015 20.474999999999998 20.11 145-149 25.295 34.0 20.445 20.26 150-151 24.095631493303294 35.311052697459004 20.941294279634498 19.652021529603203 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 0.0 1 0.0 2 0.0 3 0.0 4 0.5 5 0.5 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 0.5 19 1.0 20 0.5 21 0.0 22 1.0 23 1.5 24 0.5 25 0.5 26 0.5 27 1.5 28 2.5 29 4.5 30 11.5 31 22.0 32 35.0 33 44.5 34 59.0 35 96.0 36 130.0 37 163.5 38 202.0 39 223.0 40 272.5 41 246.0 42 179.5 43 169.0 44 161.5 45 165.5 46 151.0 47 135.5 48 124.0 49 119.0 50 120.5 51 102.0 52 111.5 53 129.0 54 123.0 55 114.5 56 87.5 57 65.0 58 62.0 59 61.5 60 50.5 61 40.5 62 33.5 63 31.5 64 26.0 65 13.0 66 12.0 67 15.0 68 11.5 69 10.0 70 8.5 71 7.0 72 7.5 73 7.0 74 6.0 75 5.5 76 3.5 77 3.0 78 3.5 79 1.0 80 0.5 81 0.5 82 0.0 83 0.5 84 0.5 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 0.025 3 0.0 4 0.05 5 0.05 6 0.0 7 0.0 8 0.0 9 0.0 10-14 0.0 15-19 0.0 20-24 0.0 25-29 0.0 30-34 0.0 35-39 0.0 40-44 0.0 45-49 0.0 50-54 0.0 55-59 0.0 60-64 0.0 65-69 0.0 70-74 0.0 75-79 0.0 80-84 0.0 85-89 0.0 90-94 0.0 95-99 0.0 100-104 0.0 105-109 0.0 110-114 0.0 115-119 0.0 120-124 0.0 125-129 0.0 130-134 0.0 135-139 0.0 140-144 0.0 145-149 0.0 150-151 0.13749999999999998 >>END_MODULE >>Sequence Length Distribution pass #Length Count 151 4000.0 >>END_MODULE >>Sequence Duplication Levels warn #Total Deduplicated Percentage 59.325 #Duplication Level Percentage of deduplicated Percentage of total 1 92.28824273072061 54.75 2 4.593341761483354 5.45 3 1.4749262536873156 2.625 4 0.37926675094816686 0.8999999999999999 5 0.21070375052675938 0.625 6 0.1685630004214075 0.6 7 0.08428150021070376 0.35000000000000003 8 0.12642225031605564 0.6 9 0.04214075010535188 0.22499999999999998 >10 0.5899705014749262 4.625 >50 0.0 0.0 >100 0.0 0.0 >500 0.0 0.0 >1k 0.04214075010535188 29.25 >5k 0.0 0.0 >10k+ 0.0 0.0 >>END_MODULE >>Overrepresented sequences fail #Sequence Count Percentage Possible Source GATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCG 1170 29.25 Illumina Single End PCR Primer 1 (100% over 50bp) CATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAAT 20 0.5 No Hit GGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTC 18 0.44999999999999996 No Hit GCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCC 15 0.375 No Hit GAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCC 15 0.375 No Hit GCTGCTCACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGATCGTGG 14 0.35000000000000003 No Hit CCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGT 14 0.35000000000000003 No Hit TAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGT 14 0.35000000000000003 No Hit AATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGA 12 0.3 No Hit ATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATA 12 0.3 No Hit GGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTT 11 0.27499999999999997 No Hit ATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAG 10 0.25 No Hit GGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTCAAAACAATCAC 10 0.25 No Hit ATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGT 10 0.25 Illumina Single End PCR Primer 1 (100% over 50bp) CCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGG 10 0.25 No Hit GATCGGAAGAGTGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCG 9 0.22499999999999998 Illumina Single End PCR Primer 1 (98% over 50bp) GCCACAGGCGTCATACTTCCCAAGAAGCGGCCATAGCCCAGATGCGAGGT 8 0.2 No Hit CTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTT 8 0.2 No Hit TAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGG 8 0.2 No Hit CTTCAATATAAGCCTTGGTAGGGATAGATAGCCACCTATATAGTATAGCT 7 0.17500000000000002 No Hit AAAGAATATCCCAATTATCCATAAAACTGTAACTAAGTGAGGCTCTCTCA 7 0.17500000000000002 No Hit GGACATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCC 6 0.15 No Hit GGCGGGACTACCCGCTGAGTTTAAGCATATAAATAAGCGGAGGAGAAGAA 6 0.15 No Hit TAGGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATG 6 0.15 No Hit GATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTAGCCG 6 0.15 Illumina Single End PCR Primer 1 (98% over 50bp) GCCCAAGCTGCTCACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGA 5 0.125 No Hit CAATAACGTCTCTTTCAGAAGGCATTGGTATCTTTTCCCCACTTCCAAGC 5 0.125 No Hit GTCTCGTACGGTTAAGAGCCTCCGCCCGTCTCTGGGACTATGGACGGGCA 5 0.125 No Hit GGTAGGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGA 5 0.125 No Hit CCTGAAACGGGCATCGTCGCTCTTCGTTGTTCGTCGACTTCTAGTGTGGA 5 0.125 No Hit >>END_MODULE >>Adapter Content fail #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 0.025 0.0 0.0 0.0 0.0 7 0.025 0.0 0.0 0.0 0.0 8 0.025 0.0 0.0 0.0 0.0 9 0.025 0.0 0.0 0.0 0.0 10-11 0.025 0.0 0.0 0.0 0.0 12-13 0.025 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 0.037500000000000006 0.0 0.0 0.0 0.0 50-51 0.05 0.0 0.0 0.0 0.0 52-53 0.05 0.0 0.0 0.0 0.0 54-55 0.0625 0.0 0.0 0.0 0.0 56-57 0.075 0.0 0.0 0.0 0.0 58-59 0.075 0.0 0.0 0.0 0.0 60-61 0.0875 0.0 0.0 0.0 0.0 62-63 0.1 0.0 0.0 0.0 0.0 64-65 0.1 0.0 0.0 0.0 0.0 66-67 0.1 0.0 0.0 0.0 0.0 68-69 0.1 0.0 0.0 0.0 0.0 70-71 0.125 0.0 0.0 0.0 0.0 72-73 0.125 0.0 0.0 0.0 0.0 74-75 0.175 0.0 0.0 0.0 0.0 76-77 0.175 0.0 0.0 0.0 0.0 78-79 0.25 0.0 0.0 0.0 0.0 80-81 0.3 0.0 0.0 0.0 0.0 82-83 0.4 0.0 0.0 0.0 0.0 84-85 0.5 0.0 0.0 0.0 0.0 86-87 0.7375 0.0 0.0 0.0 0.0 88-89 0.9375 0.0 0.0 0.0 0.0 90-91 1.15 0.0 0.0 0.0 0.0 92-93 1.5125000000000002 0.0 0.0 0.0 0.0 94-95 1.825 0.0 0.0 0.0 0.0 96-97 2.1125 0.0 0.0 0.0 0.0 98-99 2.3499999999999996 0.0 0.0 0.0 0.0 100-101 2.7375 0.0 0.0 0.0 0.0 102-103 3.1875 0.0 0.0 0.0 0.0 104-105 3.875 0.0 0.0 0.0 0.0 106-107 4.3125 0.0 0.0 0.0 0.0 108-109 4.775 0.0 0.0 0.0 0.0 110-111 5.2375 0.0 0.0 0.0 0.0 112-113 5.7125 0.0 0.0 0.0 0.0 114-115 6.5625 0.0 0.0 0.0 0.0 116-117 7.35 0.0 0.0 0.0 0.0 118-119 7.987500000000001 0.0 0.0 0.0 0.0 120-121 8.6125 0.0 0.0 0.0 0.0 122-123 9.3125 0.0 0.0 0.0 0.0 124-125 9.875 0.0 0.0 0.0 0.0 126-127 10.45 0.0 0.0 0.0 0.0 128-129 11.05 0.0 0.0 0.0 0.0 130-131 11.925 0.0 0.0 0.0 0.0 132-133 12.899999999999999 0.0 0.0 0.0 0.0 134-135 13.8125 0.0 0.0 0.0 0.0 136-137 14.787500000000001 0.0 0.0 0.0 0.0 138-139 15.524999999999999 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content fail #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position GAGCGTC 225 0.0 96.66667 9 AAGAGCG 235 0.0 95.6383 7 GATCGGA 245 0.0 94.69388 1 GAAGAGC 245 0.0 94.69388 6 TCGGAAG 245 0.0 94.69388 3 CGGAAGA 245 0.0 94.69388 4 ATCGGAA 245 0.0 94.69388 2 AGAGCGT 230 0.0 94.56522 8 GGAAGAG 275 0.0 84.36363 5 GTATCAT 155 0.0 27.129032 50-54 CCGTATC 155 0.0 27.129032 45-49 CATTAAA 155 0.0 27.129032 50-54 CGTATCA 155 0.0 27.129032 45-49 TATCATT 155 0.0 27.129032 50-54 GCCGTAT 155 0.0 27.129032 45-49 TCATTAA 155 0.0 27.129032 50-54 GTGGTCG 170 0.0 26.441175 40-44 TGGTCGC 165 0.0 26.363638 40-44 CGGTGGT 165 0.0 26.363638 35-39 GGTCGCC 165 0.0 26.363638 40-44 >>END_MODULE Read 1069349 spots for SRR5578498.sra Written 1069349 spots for SRR5578498.sra Read 1069349 spots for SRR5578498.sra Written 1069349 spots for SRR5578498.sra Read 1069349 spots for SRR5578498.sra Written 1069349 spots for SRR5578498.sra Read 1069349 spots for SRR5578498.sra Written 1069349 spots for SRR5578498.sra Read 1069349 spots for SRR5578498.sra Written 1069349 spots for SRR5578498.sra Read 1069349 spots for SRR5578498.sra Written 1069349 spots for SRR5578498.sra Read 1069349 spots for SRR5578498.sra Written 1069349 spots for SRR5578498.sra Read 1069349 spots for SRR5578498.sra Written 1069349 spots for SRR5578498.sra Read 1069356 spots for SRR5578498.sra Written 1069356 spots for SRR5578498.sra Read 1069349 spots for SRR5578498.sra Written 1069349 spots for SRR5578498.sra Read 1069349 spots for SRR5578498.sra Written 1069349 spots for SRR5578498.sra Read 1069349 spots for SRR5578498.sra Written 1069349 spots for SRR5578498.sra Read 1069349 spots for SRR5578498.sra Written 1069349 spots for SRR5578498.sra Read 1069349 spots for SRR5578498.sra Written 1069349 spots for SRR5578498.sra Read 1069349 spots for SRR5578498.sra Written 1069349 spots for SRR5578498.sra Read 1069349 spots for SRR5578498.sra Written 1069349 spots for SRR5578498.sra Read 1069349 spots for SRR5578498.sra Written 1069349 spots for SRR5578498.sra Read 1069349 spots for SRR5578498.sra Written 1069349 spots for SRR5578498.sra Read 1069349 spots for SRR5578498.sra Written 1069349 spots for SRR5578498.sra Read 1069349 spots for SRR5578498.sra Written 1069349 spots for SRR5578498.sra SRR ids: ['SRR5578498.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_8vdy91e9 SRR5578498.sra spots: 21386987 blocks: [[1, 1069349], [1069350, 2138698], [2138699, 3208047], [3208048, 4277396], [4277397, 5346745], [5346746, 6416094], [6416095, 7485443], [7485444, 8554792], [8554793, 9624141], [9624142, 10693490], [10693491, 11762839], [11762840, 12832188], [12832189, 13901537], [13901538, 14970886], [14970887, 16040235], [16040236, 17109584], [17109585, 18178933], [18178934, 19248282], [19248283, 20317631], [20317632, 21386987]] SRR5578498 file size 7225647 SRR5578498 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 SRR5578498 SRR5578498_1.fastq SRR5578498_2.fastq Input file: SRR5578498_1.fastq Paired file: SRR5578498_2.fastq trimmed: SRR5578498-trimmed-pair1.fastq, SRR5578498-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 Mon Dec 9 20:56:17 2024 >> started Mon Dec 9 20:56:46 2024 >> done (29.035s) 21386987 read pairs processed; of these: 58059 ( 0.27%) short read pairs filtered out after trimming by size control 6700464 (31.33%) empty read pairs filtered out after trimming by size control 14628464 (68.40%) read pairs available; of these: 8767773 (59.94%) trimmed read pairs available after processing 5860691 (40.06%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 18 12 0.00% 19 18 0.00% 20 10 0.00% 21 18 0.00% 22 21 0.00% 23 32 0.00% 24 30 0.00% 25 26 0.00% 26 38 0.00% 27 27 0.00% 28 28 0.00% 29 53 0.00% 30 33 0.00% 31 49 0.00% 32 40 0.00% 33 34 0.00% 34 46 0.00% 35 65 0.00% 36 79 0.00% 37 85 0.00% 38 63 0.00% 39 95 0.00% 40 119 0.00% 41 155 0.00% 42 163 0.00% 43 289 0.00% 44 623 0.00% 45 1186 0.01% 46 1672 0.01% 47 1575 0.01% 48 1468 0.01% 49 1587 0.01% 50 1460 0.01% 51 1484 0.01% 52 1668 0.01% 53 1705 0.01% 54 1845 0.01% 55 1946 0.01% 56 2018 0.01% 57 2037 0.01% 58 2078 0.01% 59 2068 0.01% 60 2345 0.02% 61 2456 0.02% 62 4271 0.03% 63 3916 0.03% 64 3209 0.02% 65 3892 0.03% 66 4985 0.03% 67 6531 0.04% 68 11046 0.08% 69 35961 0.25% 70 47750 0.33% 71 25784 0.18% 72 15285 0.10% 73 12065 0.08% 74 10729 0.07% 75 10557 0.07% 76 10711 0.07% 77 11413 0.08% 78 12230 0.08% 79 13558 0.09% 80 14392 0.10% 81 15940 0.11% 82 18134 0.12% 83 19712 0.13% 84 22335 0.15% 85 24038 0.16% 86 26040 0.18% 87 28762 0.20% 88 31029 0.21% 89 32995 0.23% 90 34725 0.24% 91 36747 0.25% 92 38909 0.27% 93 40829 0.28% 94 43662 0.30% 95 45538 0.31% 96 47492 0.32% 97 49958 0.34% 98 50527 0.35% 99 53226 0.36% 100 55733 0.38% 101 57379 0.39% 102 58680 0.40% 103 61227 0.42% 104 64209 0.44% 105 67051 0.46% 106 69371 0.47% 107 71321 0.49% 108 73273 0.50% 109 72287 0.49% 110 73694 0.50% 111 75019 0.51% 112 78466 0.54% 113 81643 0.56% 114 86669 0.59% 115 89906 0.61% 116 88175 0.60% 117 87708 0.60% 118 86264 0.59% 119 85691 0.59% 120 88194 0.60% 121 89147 0.61% 122 91489 0.63% 123 93490 0.64% 124 94789 0.65% 125 95694 0.65% 126 97788 0.67% 127 98504 0.67% 128 94880 0.65% 129 99289 0.68% 130 96928 0.66% 131 97537 0.67% 132 99636 0.68% 133 100436 0.69% 134 103691 0.71% 135 102259 0.70% 136 102295 0.70% 137 101969 0.70% 138 105416 0.72% 139 108031 0.74% 140 109851 0.75% 141 110160 0.75% 142 119781 0.82% 143 122171 0.84% 144 127859 0.87% 145 140084 0.96% 146 158936 1.09% 147 187727 1.28% 148 254451 1.74% 149 481323 3.29% 150 2558470 17.49% 151 5860691 40.06% 14628464 reads passed initial QC criterion=sequence-density sequence-density=0.49 sequence-density-rank=1 fanout-score=21.10 fanout-score-rank=2 prefix-density=5.21 prefix-fanout=2.0 sequence=TTCGTTTTTTTTCTTG criterion=fanout-score sequence-density=0.01 sequence-density-rank=38 fanout-score=51.24 fanout-score-rank=1 prefix-density=0.46 prefix-fanout=1.4 sequence=TTTTTTTTCCAGAATTCAAGACGTTAACAGTTCTTGGCGCAAATAGCGCTGAATCGCTTCTTTAAAGGCTGCAGCGTCGTCCTCAAATTTCGCACTGACCATAATGTGATCCCTTCCGGCGGTCGGTATAAAATCAGGCAGTTTTTGATCACGTTTATTGTAAGCCGTCAGCATCGGGATATCATCTGCTTCAAGCTCCTCAAGCAGCCGAAGCACTGTTTTTTCATGTCCCGCATAATCCTCATTTGAAGAATCAATTAAATGCAGAATTAAATCCGCTTCTTTTACTTCCTCAAGCGTTGAGCGGAATGCAGCAATCAATGTCGTCGGAAGATCCTGAATAAATCCTACTGTATCTGAAAGAAGAACACTGTAGCCGCTTGGCAGGACCATTTTTCTGGTCATCGGGTCCAGCGTGGCAAACAGGAGGTCTTCTTCATAGCTGTCAGCACTCGTCAGGCGGTTGAACCATGTTGATTTCCCTGCGTTTGTATAGCCGACAAGCGCAATT criterion=sequence-density sequence-density=0.80 sequence-density-rank=1 fanout-score=4.78 fanout-score-rank=9 prefix-density=3.79 prefix-fanout=1.0 sequence=CAAGAAAAAAAACGAA criterion=fanout-score sequence-density=0.01 sequence-density-rank=33 fanout-score=18.50 fanout-score-rank=1 prefix-density=0.07 prefix-fanout=2.3 sequence=CCTGGAGATTGTCTCGTACGGTTAAGAGCCTCCGCCCGTCTCTGGGACTATGGACGGGCACGCTCATATCAGGCTATATTTGGTCCGGGTTATTATCGTCGCGGTTACCGTAATACTTCAGATCAGTTAAGTAGGGCCATATGCCTCGGGAATAAGCTGACGGTGACAAGGTTTCCCCCTAATCGAGACGCTGCAATAACACAGGGGCATACAGTAACCAGGCAAGAGTTCAATCGCTTAGTTTCGTGGCGGGATTTGAGGAAAACTGCGACTGTTCTTTAACCAAACATCCGTGCGATTCGTGCCACTCGTAGACGGCATCTCACAGTCACTGAAGGCTATTAAAGAGTTAGCACCCACCATTGGATGAAGCCCAGGATAAGTGACCCCCCCGGACCTTGGAGTTTCATGCTAATCAAAGAAGAGCTAATCCGACGTAAAGTTGCGGCGTTGATTACGCAGGATTGCGACCA SRR5578498 testing PE reads STAR mapping to Ensembl genome Started job on | Dec 09 20:58:23 Started mapping on | Dec 09 20:58:23 Finished on | Dec 09 21:19:25 Mapping speed, Million of reads per hour | 41.73 Number of input reads | 14628464 Average input read length | 278 UNIQUE READS: Uniquely mapped reads number | 6904505 Uniquely mapped reads % | 47.20% Average mapped length | 274.87 Number of splices: Total | 3599536 Number of splices: Annotated (sjdb) | 3317408 Number of splices: GT/AG | 3546285 Number of splices: GC/AG | 45579 Number of splices: AT/AC | 1687 Number of splices: Non-canonical | 5985 Mismatch rate per base, % | 0.09% Deletion rate per base | 0.01% Deletion average length | 1.55 Insertion rate per base | 0.00% Insertion average length | 1.11 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 385390 % of reads mapped to multiple loci | 2.63% Number of reads mapped to too many loci | 128654 % of reads mapped to too many loci | 0.88% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 45.74% % of reads unmapped: other | 3.55% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 7344709 7344709 7344709 N_multimapping 385390 385390 385390 N_noFeature 361726 6661366 418409 N_ambiguous 209412 1954 25525 UnstrandedReadsAssigned:6333367 PositiveStrandReadsAssigned:241185 NegativeStrandReadsAssigned:6460571 Dataset is classified negative stranded MeadianReadLen=151 20thPercentileLength=126 echo kmer=121 SRR5578498 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: SRR5578498-trimmed-pair1.fastq SRR5578498-trimmed-pair2.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 14,628,464 reads, 6,581,974 reads pseudoaligned [quant] estimated average fragment length: 174.139 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,093 rounds 52973 SRR5578498.ke.tsv 35125 SRR5578498.se.tsv 88098 total ==> SRR5578498.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 763.003 0 0 PNS24247 1044 870.861 0 0 PNS24249 1928 1754.86 11.5199 1.25564 PNS24246 1044 870.861 0 0 PNS24248 1044 870.861 0 0 PNS24244 1471 1297.86 123.48 18.1982 PNS24243 293 133.426 0 0 KQK14069 1603 1429.86 186 24.8817 KQK14071 474 303.412 0 0 ==> SRR5578498.se.tsv <== BRADI_1g14170v3 184 BRADI_1g53295v3 47 BRADI_1g59795v3 106 BRADI_1g07683v3 0 BRADI_1g00485v3 7 BRADI_1g20270v3 318 BRADI_1g74790v3 35 BRADI_1g09890v3 1 BRADI_1g77505v3 129 BRADI_1g48960v3 0 SRR5578498 completed mapping pipeline successfully