Starting /dee2/code/volunteer_pipeline.sh SRR6031174 current disk space = 1523687645184 free memory = 1569638680 SRR6031174 SRAfilesize 6cca0b52418a27a4a07735a0b3c17507 SRR6031174.sra SRR6031174.sra file validated SRR6031174 is paired end SRR6031174 is conventional basespace SRR6031174 read1 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR6031174_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 48 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 24.98275 25.0 18.0 33.0 18.0 33.0 2 29.212 30.0 27.0 33.0 25.0 33.0 3 29.89875 31.0 29.0 33.0 25.0 33.0 4 29.939 31.0 29.0 33.0 27.0 33.0 5 32.356 33.0 32.0 33.0 32.0 33.0 6 36.81375 38.0 37.0 38.0 35.0 38.0 7 37.39925 38.0 38.0 38.0 37.0 38.0 8 37.6565 38.0 38.0 38.0 38.0 38.0 9 37.69575 38.0 38.0 38.0 38.0 38.0 10-14 37.6486 38.0 38.0 38.0 38.0 38.0 15-19 37.677 38.0 38.0 38.0 38.0 38.0 20-24 37.72305 38.0 38.0 38.0 38.0 38.0 25-29 37.70915 38.0 38.0 38.0 38.0 38.0 30-34 37.705200000000005 38.0 38.0 38.0 38.0 38.0 35-39 37.69795 38.0 38.0 38.0 38.0 38.0 40-44 37.67725 38.0 38.0 38.0 38.0 38.0 45-49 37.583 38.0 38.0 38.0 37.8 38.0 50-54 37.5637 38.0 38.0 38.0 38.0 38.0 55-59 37.511199999999995 38.0 38.0 38.0 37.2 38.0 60-64 37.43650000000001 38.0 38.0 38.0 37.0 38.0 65-69 37.42195 38.0 38.0 38.0 37.0 38.0 70-74 37.362 38.0 38.0 38.0 36.8 38.0 75-79 37.3119 38.0 38.0 38.0 36.8 38.0 80-84 37.251599999999996 38.0 38.0 38.0 36.2 38.0 85-89 37.21895000000001 38.0 38.0 38.0 36.0 38.0 90-94 37.15415 38.0 38.0 38.0 36.2 38.0 95-99 37.0276 38.0 38.0 38.0 35.8 38.0 100-104 36.9163 38.0 38.0 38.0 35.0 38.0 105-109 36.782250000000005 38.0 38.0 38.0 35.0 38.0 110-114 36.70485 38.0 38.0 38.0 34.6 38.0 115-119 36.45625 38.0 38.0 38.0 34.0 38.0 120-124 36.2842 38.0 37.8 38.0 33.6 38.0 125-129 36.01405000000001 38.0 36.8 38.0 33.0 38.0 130-134 35.77605 38.0 36.0 38.0 32.2 38.0 135-139 35.6149 38.0 36.0 38.0 31.4 38.0 140-144 35.43975 38.0 35.8 38.0 31.2 38.0 145-149 35.0071 38.0 35.2 38.0 29.8 38.0 150-151 31.34075 36.5 31.0 38.0 15.0 38.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 16 1.0 17 0.0 18 0.0 19 2.0 20 2.0 21 4.0 22 4.0 23 5.0 24 5.0 25 4.0 26 6.0 27 10.0 28 13.0 29 14.0 30 16.0 31 25.0 32 48.0 33 66.0 34 134.0 35 257.0 36 861.0 37 2523.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 44.98348996697993 12.446024892049785 8.25501651003302 34.31546863093726 2 22.7 14.424999999999999 32.2 30.675 3 19.025 20.4 26.35 34.225 4 24.4 25.25 22.825 27.525 5 23.95 28.525 22.95 24.575 6 23.625 32.1 23.225 21.05 7 16.7 23.549999999999997 38.6 21.15 8 21.6 23.549999999999997 27.900000000000002 26.950000000000003 9 18.6 22.325 31.324999999999996 27.750000000000004 10-14 21.709999999999997 26.979999999999997 25.679999999999996 25.629999999999995 15-19 22.305 25.295 26.895000000000003 25.505 20-24 22.314999999999998 25.865 26.745 25.074999999999996 25-29 21.795 26.669999999999998 25.5 26.035000000000004 30-34 22.115000000000002 25.915 26.76 25.21 35-39 21.945 25.86 25.91 26.284999999999997 40-44 21.740000000000002 25.740000000000002 27.139999999999997 25.380000000000003 45-49 21.95 25.580000000000002 26.1 26.369999999999997 50-54 21.965 25.91 25.97 26.155 55-59 22.220000000000002 25.724999999999998 25.81 26.245 60-64 21.825 25.535000000000004 26.584999999999997 26.055 65-69 21.709999999999997 25.314999999999998 26.63 26.345000000000002 70-74 21.86 25.485000000000003 26.22 26.435 75-79 22.53 26.22 25.66 25.590000000000003 80-84 21.740000000000002 26.090000000000003 26.39 25.779999999999998 85-89 22.195 25.264999999999997 26.395000000000003 26.145000000000003 90-94 21.89 25.8 26.645000000000003 25.665 95-99 21.47 25.995 26.384999999999998 26.150000000000002 100-104 21.81 26.165 26.029999999999998 25.995 105-109 22.23 25.865 26.35 25.555 110-114 22.21 26.155 26.465 25.169999999999998 115-119 22.685 25.45 26.36 25.505 120-124 22.975 25.805 25.945 25.275 125-129 23.200000000000003 25.95 24.68 26.169999999999998 130-134 22.48 25.28 26.0 26.240000000000002 135-139 22.509999999999998 26.119999999999997 25.255 26.115 140-144 22.465 25.235000000000003 25.924999999999997 26.375 145-149 22.48 25.2 26.055 26.265 150-151 22.95 25.337500000000002 26.174999999999997 25.5375 >>END_MODULE >>Per sequence GC content pass #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 0.5 9 0.5 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 1.5 27 2.0 28 4.5 29 7.0 30 5.5 31 8.5 32 18.0 33 25.0 34 31.0 35 34.5 36 48.5 37 66.0 38 77.0 39 93.0 40 118.0 41 143.0 42 160.5 43 182.5 44 198.5 45 199.0 46 198.5 47 215.0 48 226.5 49 222.5 50 201.5 51 195.5 52 190.5 53 155.0 54 132.0 55 125.5 56 101.0 57 88.0 58 89.5 59 79.5 60 66.0 61 44.0 62 30.0 63 32.0 64 31.5 65 27.0 66 23.5 67 18.0 68 19.5 69 16.5 70 11.0 71 9.0 72 8.5 73 7.0 74 3.0 75 1.0 76 2.0 77 1.0 78 0.0 79 0.0 80 1.0 81 1.0 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 1.575 2 0.0 3 0.0 4 0.0 5 0.0 6 0.0 7 0.0 8 0.0 9 0.0 10-14 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 0.0 >>END_MODULE >>Sequence Length Distribution pass #Length Count 151 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 92.35 #Duplication Level Percentage of deduplicated Percentage of total 1 95.42501353546291 88.125 2 2.7612344342176502 5.1 3 0.8933405522468869 2.475 4 0.48727666486193827 1.7999999999999998 5 0.16242555495397942 0.75 6 0.1353546291283162 0.75 7 0.05414185165132648 0.35000000000000003 8 0.05414185165132648 0.4 9 0.0 0.0 >10 0.02707092582566324 0.25 >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 GTACAAAGGGCAGGGACGTAGTCAACGCGAGCTGATGACTCGCGCTTACT 10 0.25 No Hit GGTGTGTACAAAGGGCAGGGACGTAGTCAACGCGAGCTGATGACTCGCGC 8 0.2 No Hit CCGCAGGCTCCACGCCTGGTGGTGCCCTTCCGTCAATTCCTTTAAGTTTC 8 0.2 No Hit GCGGTGTGTACAAAGGGCAGGGACGTAGTCAACGCGAGCTGATGACTCGC 7 0.17500000000000002 No Hit GTGCCCTTCCGTCAATTCCTTTAAGTTTCAGCCTTGCGACCATACTCCCC 7 0.17500000000000002 No Hit CAGCCTTGCGACCATACTCCCCCCGGAACCCAAAGACTTTGATTTCTCAT 6 0.15 No Hit GTTACGACTTCTCCTTCCTCTAAATGATAAGGTTCAATGGACTTCTCGCG 6 0.15 No Hit GTCCAACTACGAGCTTTTTAACTGCAACAACTTAAATATACGCTATTGGA 6 0.15 No Hit GGTAAAACTAACCTGTCTCACGACGGTCTAAACCCAGCTCACGTTCCCTA 6 0.15 No Hit GCCGCAGGCTCCACGCCTGGTGGTGCCCTTCCGTCAATTCCTTTAAGTTT 6 0.15 No Hit GTGTGTACAAAGGGCAGGGACGTAGTCAACGCGAGCTGATGACTCGCGCT 5 0.125 No Hit CTTGTTACGACTTCTCCTTCCTCTAAATGATAAGGTTCAATGGACTTCTC 5 0.125 No Hit CCGGAACCCAAAGACTTTGATTTCTCATAAGGTGCCGGCGGAGTCCTATA 5 0.125 No Hit ACGACTTCTCCTTCCTCTAAATGATAAGGTTCAATGGACTTCTCGCGACG 5 0.125 No Hit CCGACATCGAAGGATCAAAAAGCAACGTCGCTATGAACGCTTGGCTGCCA 5 0.125 No Hit GTCAATTCCTTTAAGTTTCAGCCTTGCGACCATACTCCCCCCGGAACCCA 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 0.0 0.0 0.0 0.0 0.0 64-65 0.0 0.0 0.0 0.0 0.0 66-67 0.0 0.0 0.0 0.0 0.0 68-69 0.0 0.0 0.0 0.0 0.0 70-71 0.0 0.0 0.0 0.0 0.0 72-73 0.0 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 0.025 0.0 0.0 0.0 0.0 82-83 0.025 0.0 0.0 0.0 0.0 84-85 0.025 0.0 0.0 0.0 0.0 86-87 0.025 0.0 0.0 0.0 0.0 88-89 0.037500000000000006 0.0 0.0 0.0 0.0 90-91 0.05 0.0 0.0 0.0 0.0 92-93 0.05 0.0 0.0 0.0 0.0 94-95 0.05 0.0 0.0 0.0 0.0 96-97 0.075 0.0 0.0 0.0 0.0 98-99 0.075 0.0 0.0 0.0 0.0 100-101 0.1 0.0 0.0 0.0 0.0 102-103 0.1 0.0 0.0 0.0 0.0 104-105 0.16249999999999998 0.0 0.0 0.0 0.0 106-107 0.175 0.0 0.0 0.0 0.0 108-109 0.175 0.0 0.0 0.0 0.0 110-111 0.25 0.0 0.0 0.0 0.0 112-113 0.25 0.0 0.0 0.0 0.0 114-115 0.2625 0.0 0.0 0.0 0.0 116-117 0.275 0.0 0.0 0.0 0.0 118-119 0.275 0.0 0.0 0.0 0.0 120-121 0.275 0.0 0.0 0.0 0.0 122-123 0.325 0.0 0.0 0.0 0.0 124-125 0.3625 0.0 0.0 0.0 0.0 126-127 0.375 0.0 0.0 0.0 0.0 128-129 0.375 0.0 0.0 0.0 0.0 130-131 0.375 0.0 0.0 0.0 0.0 132-133 0.4125 0.0 0.0 0.0 0.0 134-135 0.4625 0.0 0.0 0.0 0.0 136-137 0.5 0.0 0.0 0.0 0.0 138-139 0.5 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position TAGCAGT 10 0.006830828 145.0 5 >>END_MODULE SRR6031174 read2 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR6031174_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 48 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 31.76975 33.0 33.0 34.0 32.0 34.0 2 32.1175 34.0 33.0 34.0 32.0 34.0 3 32.27275 34.0 33.0 34.0 32.0 34.0 4 32.1215 34.0 33.0 34.0 32.0 34.0 5 32.252 34.0 33.0 34.0 32.0 34.0 6 36.3525 38.0 38.0 38.0 36.0 38.0 7 36.417 38.0 38.0 38.0 37.0 38.0 8 36.32975 38.0 38.0 38.0 36.0 38.0 9 36.4315 38.0 38.0 38.0 37.0 38.0 10-14 36.388099999999994 38.0 38.0 38.0 36.8 38.0 15-19 36.176249999999996 38.0 38.0 38.0 36.4 38.0 20-24 36.135450000000006 38.0 38.0 38.0 36.4 38.0 25-29 36.26875 38.0 38.0 38.0 36.2 38.0 30-34 36.560950000000005 38.0 38.0 38.0 37.0 38.0 35-39 36.66525 38.0 38.0 38.0 37.0 38.0 40-44 36.71925 38.0 38.0 38.0 37.0 38.0 45-49 36.706 38.0 38.0 38.0 37.0 38.0 50-54 36.6238 38.0 38.0 38.0 37.0 38.0 55-59 36.410250000000005 38.0 38.0 38.0 36.2 38.0 60-64 36.4504 38.0 38.0 38.0 36.0 38.0 65-69 36.317899999999995 38.0 38.0 38.0 35.8 38.0 70-74 36.080200000000005 38.0 38.0 38.0 35.4 38.0 75-79 36.19545 38.0 38.0 38.0 35.0 38.0 80-84 36.31575 38.0 38.0 38.0 35.2 38.0 85-89 36.30135 38.0 38.0 38.0 35.2 38.0 90-94 36.0693 38.0 38.0 38.0 34.4 38.0 95-99 36.106100000000005 38.0 38.0 38.0 34.4 38.0 100-104 35.977349999999994 38.0 38.0 38.0 34.0 38.0 105-109 35.7028 38.0 38.0 38.0 33.8 38.0 110-114 35.3355 38.0 38.0 38.0 32.4 38.0 115-119 35.152049999999996 38.0 38.0 38.0 31.2 38.0 120-124 35.2572 38.0 38.0 38.0 31.2 38.0 125-129 35.39835 38.0 37.8 38.0 31.4 38.0 130-134 35.2621 38.0 37.4 38.0 31.2 38.0 135-139 35.02915 38.0 36.0 38.0 31.0 38.0 140-144 34.7128 38.0 36.0 38.0 29.4 38.0 145-149 34.276300000000006 38.0 35.8 38.0 27.0 38.0 150-151 30.517000000000003 35.5 29.5 38.0 13.0 38.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 2 73.0 3 0.0 4 0.0 5 1.0 6 0.0 7 0.0 8 2.0 9 1.0 10 2.0 11 5.0 12 0.0 13 4.0 14 3.0 15 6.0 16 4.0 17 5.0 18 7.0 19 7.0 20 8.0 21 6.0 22 12.0 23 10.0 24 16.0 25 18.0 26 17.0 27 18.0 28 29.0 29 29.0 30 26.0 31 35.0 32 33.0 33 61.0 34 93.0 35 159.0 36 451.0 37 2859.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 43.11783107403545 22.419186652763294 10.2711157455683 24.191866527632953 2 28.939237899073124 26.49330587023687 25.308959835221422 19.258496395468587 3 22.99768220448107 28.19984548029874 26.9894411537471 21.813031161473088 4 27.075252133436774 31.885182311869663 20.196534781484353 20.843030773209207 5 28.505273990223824 31.87548237715462 20.324157447903268 19.29508618471829 6 25.430701979943432 34.04474157881203 20.41655952687066 20.107996914373874 7 22.81241981011034 21.195791634590712 33.38465486271491 22.60713369258404 8 24.85237483953787 24.030808729139924 24.23620025673941 26.8806161745828 9 25.326170376055256 23.279611153747762 27.654131491430036 23.740086978766946 10-14 25.47198850810589 27.175251385183664 24.18941104042684 23.163349066283605 15-19 25.90526370163748 25.817449248411588 25.218244744046697 23.05904230590423 20-24 26.077296682856254 26.3046398677276 25.074919913196236 22.543143536219905 25-29 25.99105352460281 26.037328397346908 25.523163144634687 22.448454933415597 30-34 26.079869600651996 26.5281173594132 24.679095354523227 22.712917685411576 35-39 26.554647444032693 26.387126250063453 24.194121529011625 22.864104776892226 40-44 26.767702367073852 25.769172284454356 24.93283998175275 22.530285366719045 45-49 25.925364843710547 25.77892238549715 25.435540069686414 22.860172701105892 50-54 25.594483597829942 26.20798053034528 25.477868478426203 22.71966739339857 55-59 26.004909481436023 26.091848215198937 25.207118748082237 22.696123555282806 60-64 26.05106252866534 25.49559190745554 25.526168271925805 22.92717729195332 65-69 26.266129443566072 25.745907074004183 24.929871984495332 23.05809149793441 70-74 26.431763316040886 25.979762699676407 24.259078535107093 23.329395449175614 75-79 26.10226576852419 25.607266789140642 25.19902020820576 23.091447234129415 80-84 25.822260395089174 26.226443692214417 25.145253372404387 22.806042540292022 85-89 26.48749495764421 25.28741427995159 24.868898749495763 23.35619201290843 90-94 26.277298633176983 25.823372169264136 25.107177081757197 22.792152115801684 95-99 26.4636055968076 25.049249886346413 25.25635197252109 23.230792544324895 100-104 25.841840621666922 26.0500787241607 25.587891716186707 22.520188937985676 105-109 25.67768383294901 25.641813989239047 26.056879323597233 22.623622854214705 110-114 26.06993871349848 25.57552660040171 26.090539218210846 22.263995467888964 115-119 26.06048095778718 26.462999277531218 25.234802353184023 22.241717411497575 120-124 26.034774580704724 25.824485818331027 25.219264502231116 22.921475098733136 125-129 26.644002435559166 25.959001420742844 25.13700020296326 22.25999594073473 130-134 25.874936964195662 25.804336863338378 25.29500756429652 23.02571860816944 135-139 25.9675468655513 25.846603507357386 25.655109856883694 22.53073977020762 140-144 26.06292089657252 26.374510001005124 24.871846416725298 22.690722685697054 145-149 25.84089428041506 26.983808712216153 24.141560980500277 23.033736026868514 150-151 26.039026862645713 26.317790167257982 24.885960466294982 22.757222503801316 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 32.0 1 16.0 2 1.0 3 1.0 4 0.5 5 1.5 6 1.5 7 0.5 8 0.0 9 0.5 10 2.5 11 3.5 12 1.5 13 2.0 14 4.0 15 3.5 16 3.5 17 3.5 18 3.0 19 3.0 20 2.0 21 1.5 22 2.0 23 3.5 24 4.0 25 2.0 26 2.5 27 4.0 28 4.5 29 7.0 30 8.5 31 8.0 32 13.0 33 17.5 34 20.0 35 35.5 36 57.0 37 70.0 38 80.0 39 108.5 40 125.0 41 125.0 42 148.0 43 184.5 44 195.0 45 189.5 46 198.0 47 204.5 48 194.5 49 182.5 50 173.5 51 166.0 52 151.5 53 142.0 54 129.5 55 107.5 56 86.5 57 73.5 58 77.0 59 77.0 60 63.0 61 45.5 62 46.5 63 45.5 64 42.0 65 43.5 66 47.5 67 54.5 68 49.0 69 35.0 70 24.0 71 16.0 72 12.5 73 8.5 74 4.5 75 2.0 76 1.0 77 3.0 78 4.0 79 1.5 80 0.0 81 0.0 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 4.1000000000000005 2 2.9000000000000004 3 2.9250000000000003 4 3.325 5 2.825 6 2.775 7 2.5749999999999997 8 2.625 9 2.275 10-14 2.54 15-19 3.205 20-24 3.2300000000000004 25-29 2.7550000000000003 30-34 1.8399999999999999 35-39 1.505 40-44 1.355 45-49 0.985 50-54 1.385 55-59 2.23 60-64 1.8849999999999998 65-69 1.965 70-74 2.6550000000000002 75-79 2.02 80-84 1.035 85-89 0.84 90-94 0.865 95-99 1.015 100-104 1.555 105-109 2.4250000000000003 110-114 2.915 115-119 3.11 120-124 2.5149999999999997 125-129 1.46 130-134 0.8500000000000001 135-139 0.7799999999999999 140-144 0.51 145-149 0.255 150-151 1.35 >>END_MODULE >>Sequence Length Distribution pass #Length Count 151 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 90.725 #Duplication Level Percentage of deduplicated Percentage of total 1 95.17773491319923 86.35000000000001 2 3.031138054560485 5.5 3 0.9093414163681455 2.475 4 0.2480022044640397 0.8999999999999999 5 0.2480022044640397 1.125 6 0.13777900248002206 0.75 7 0.027555800496004413 0.17500000000000002 8 0.08266740148801323 0.6 9 0.027555800496004413 0.22499999999999998 >10 0.11022320198401765 1.9 >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 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN 34 0.8500000000000001 No Hit CCTGCCAGTAGTCATATGCTTGTCTCAAAGATTAAGCCATGCATGTGCAA 17 0.42500000000000004 No Hit GGAGTCTGACATGCGTGCGAGTCGACGGGTTCTGAAACCTGGGATGCGCA 15 0.375 No Hit GTCTGACATGCGTGCGAGTCGACGGGTTCTGAAACCTGGGATGCGCAAGG 10 0.25 No Hit GGCGGGACTACCCGCTGAGTTTAAGCATATAAATAAGCGGAGGAGAAGAA 9 0.22499999999999998 No Hit CGGGACTACCCGCTGAGTTTAAGCATATAAATAAGCGGAGGAGAAGAAAC 8 0.2 No Hit CTTACCAGGTCCAGACATAGCAAGGATTGACAGACTGAGAGCTCTTTCTT 8 0.2 No Hit GCCAGTAGTCATATGCTTGTCTCAAAGATTAAGCCATGCATGTGCAAGTA 8 0.2 No Hit AAGGAGTCTGACATGCGTGCGAGTCGACGGGTTCTGAAACCTGGGATGCG 7 0.17500000000000002 No Hit AGACATAGCAAGGATTGACAGACTGAGAGCTCTTTCTTGATTCTATGGGT 6 0.15 No Hit AACTTACCAGGTCCAGACATAGCAAGGATTGACAGACTGAGAGCTCTTTC 6 0.15 No Hit GCGGGACTACCCGCTGAGTTTAAGCATATAAATAAGCGGAGGAGAAGAAA 6 0.15 No Hit GGACTACCCGCTGAGTTTAAGCATATAAATAAGCGGAGGAGAAGAAACTT 6 0.15 No Hit CAGGTCCAGACATAGCAAGGATTGACAGACTGAGAGCTCTTTCTTGATTC 6 0.15 No Hit GGCCGTTCTTAGTTGGTGGAGCGATTTGTCTGGTTAATTCCGTTAACGAA 5 0.125 No Hit CTGACATGCGTGCGAGTCGACGGGTTCTGAAACCTGGGATGCGCAAGGAA 5 0.125 No Hit GTGAAATACCACTACTTTTAACGTTATTTTACTTATTCCGTGGGTCGGAA 5 0.125 No Hit CCACAGCCAAGGGAACGGGCTTGGCGGAATCAGCGGGGAAAGAAGACCCT 5 0.125 No Hit CTGCCAGTAGTCATATGCTTGTCTCAAAGATTAAGCCATGCATGTGCAAG 5 0.125 No Hit GACAGGTTAGTTTTACCCTACTGATGACCGTGCCGCGATAGTAATTCAAC 5 0.125 No Hit GCCAGAGGAAACTCTGGTGGAGGCTCGAAGCGATACTGACGTGCAAATCG 5 0.125 No Hit GGGACTACCCGCTGAGTTTAAGCATATAAATAAGCGGAGGAGAAGAAACT 5 0.125 No Hit AGGAGTCTGACATGCGTGCGAGTCGACGGGTTCTGAAACCTGGGATGCGC 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 0.0 0.0 0.0 0.0 0.0 64-65 0.0 0.0 0.0 0.0 0.0 66-67 0.0 0.0 0.0 0.0 0.0 68-69 0.0 0.0 0.0 0.0 0.0 70-71 0.0 0.0 0.0 0.0 0.0 72-73 0.0 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 0.025 0.0 0.0 0.0 0.0 82-83 0.025 0.0 0.0 0.0 0.0 84-85 0.025 0.0 0.0 0.0 0.0 86-87 0.025 0.0 0.0 0.0 0.0 88-89 0.037500000000000006 0.0 0.0 0.0 0.0 90-91 0.05 0.0 0.0 0.0 0.0 92-93 0.05 0.0 0.0 0.0 0.0 94-95 0.05 0.0 0.0 0.0 0.0 96-97 0.075 0.0 0.0 0.0 0.0 98-99 0.075 0.0 0.0 0.0 0.0 100-101 0.1 0.0 0.0 0.0 0.0 102-103 0.1 0.0 0.0 0.0 0.0 104-105 0.16249999999999998 0.0 0.0 0.0 0.0 106-107 0.175 0.0 0.0 0.0 0.0 108-109 0.175 0.0 0.0 0.0 0.0 110-111 0.25 0.0 0.0 0.0 0.0 112-113 0.25 0.0 0.0 0.0 0.0 114-115 0.2625 0.0 0.0 0.0 0.0 116-117 0.275 0.0 0.0 0.0 0.0 118-119 0.275 0.0 0.0 0.0 0.0 120-121 0.275 0.0 0.0 0.0 0.0 122-123 0.325 0.0 0.0 0.0 0.0 124-125 0.3625 0.0 0.0 0.0 0.0 126-127 0.375 0.0 0.0 0.0 0.0 128-129 0.375 0.0 0.0 0.0 0.0 130-131 0.375 0.0 0.0 0.0 0.0 132-133 0.4125 0.0 0.0 0.0 0.0 134-135 0.4625 0.0 0.0 0.0 0.0 136-137 0.5 0.0 0.0 0.0 0.0 138-139 0.5 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Read 923170 spots for SRR6031174.sra Written 923170 spots for SRR6031174.sra Read 923170 spots for SRR6031174.sra Written 923170 spots for SRR6031174.sra Read 923170 spots for SRR6031174.sra Written 923170 spots for SRR6031174.sra Read 923170 spots for SRR6031174.sra Written 923170 spots for SRR6031174.sra Read 923170 spots for SRR6031174.sra Written 923170 spots for SRR6031174.sra Read 923170 spots for SRR6031174.sra Written 923170 spots for SRR6031174.sra Read 923170 spots for SRR6031174.sra Written 923170 spots for SRR6031174.sra Read 923170 spots for SRR6031174.sra Written 923170 spots for SRR6031174.sra Read 923170 spots for SRR6031174.sra Written 923170 spots for SRR6031174.sra Read 923170 spots for SRR6031174.sra Written 923170 spots for SRR6031174.sra Read 923170 spots for SRR6031174.sra Written 923170 spots for SRR6031174.sra Read 923170 spots for SRR6031174.sra Written 923170 spots for SRR6031174.sra Read 923180 spots for SRR6031174.sra Written 923180 spots for SRR6031174.sra Read 923170 spots for SRR6031174.sra Written 923170 spots for SRR6031174.sra Read 923170 spots for SRR6031174.sra Written 923170 spots for SRR6031174.sra Read 923170 spots for SRR6031174.sra Written 923170 spots for SRR6031174.sra Read 923170 spots for SRR6031174.sra Written 923170 spots for SRR6031174.sra Read 923170 spots for SRR6031174.sra Written 923170 spots for SRR6031174.sra Read 923170 spots for SRR6031174.sra Written 923170 spots for SRR6031174.sra Read 923170 spots for SRR6031174.sra Written 923170 spots for SRR6031174.sra SRR ids: ['SRR6031174.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_y7x46xi8 SRR6031174.sra spots: 18463410 blocks: [[1, 923170], [923171, 1846340], [1846341, 2769510], [2769511, 3692680], [3692681, 4615850], [4615851, 5539020], [5539021, 6462190], [6462191, 7385360], [7385361, 8308530], [8308531, 9231700], [9231701, 10154870], [10154871, 11078040], [11078041, 12001210], [12001211, 12924380], [12924381, 13847550], [13847551, 14770720], [14770721, 15693890], [15693891, 16617060], [16617061, 17540230], [17540231, 18463410]] SRR6031174 file size 6234943 SRR6031174 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 SRR6031174 SRR6031174_1.fastq SRR6031174_2.fastq Input file: SRR6031174_1.fastq Paired file: SRR6031174_2.fastq trimmed: SRR6031174-trimmed-pair1.fastq, SRR6031174-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 00:37:23 2024 >> started Tue Dec 10 00:37:43 2024 >> done (20.173s) 18463410 read pairs processed; of these: 17395 ( 0.09%) short read pairs filtered out after trimming by size control 26270 ( 0.14%) empty read pairs filtered out after trimming by size control 18419745 (99.76%) read pairs available; of these: 5978393 (32.46%) trimmed read pairs available after processing 12441352 (67.54%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 18 6 0.00% 19 2 0.00% 20 4 0.00% 21 10 0.00% 22 5 0.00% 23 6 0.00% 24 4 0.00% 25 7 0.00% 26 9 0.00% 27 6 0.00% 28 2 0.00% 29 7 0.00% 30 6 0.00% 31 6 0.00% 32 7 0.00% 33 7 0.00% 34 6 0.00% 35 6 0.00% 36 8 0.00% 37 9 0.00% 38 9 0.00% 39 13 0.00% 40 12 0.00% 41 8 0.00% 42 6 0.00% 43 9 0.00% 44 10 0.00% 45 11 0.00% 46 12 0.00% 47 18 0.00% 48 18 0.00% 49 16 0.00% 50 21 0.00% 51 24 0.00% 52 22 0.00% 53 31 0.00% 54 27 0.00% 55 35 0.00% 56 38 0.00% 57 51 0.00% 58 46 0.00% 59 52 0.00% 60 50 0.00% 61 60 0.00% 62 73 0.00% 63 89 0.00% 64 76 0.00% 65 87 0.00% 66 101 0.00% 67 115 0.00% 68 140 0.00% 69 161 0.00% 70 155 0.00% 71 190 0.00% 72 193 0.00% 73 207 0.00% 74 239 0.00% 75 257 0.00% 76 267 0.00% 77 296 0.00% 78 356 0.00% 79 391 0.00% 80 441 0.00% 81 505 0.00% 82 632 0.00% 83 727 0.00% 84 1394 0.01% 85 1897 0.01% 86 1829 0.01% 87 2052 0.01% 88 2328 0.01% 89 1924 0.01% 90 2011 0.01% 91 1966 0.01% 92 2109 0.01% 93 2146 0.01% 94 2222 0.01% 95 2318 0.01% 96 2497 0.01% 97 2521 0.01% 98 2606 0.01% 99 2864 0.02% 100 2926 0.02% 101 3162 0.02% 102 3323 0.02% 103 3410 0.02% 104 3620 0.02% 105 4945 0.03% 106 4508 0.02% 107 4018 0.02% 108 4664 0.03% 109 4561 0.02% 110 4724 0.03% 111 5242 0.03% 112 5636 0.03% 113 5654 0.03% 114 6185 0.03% 115 6590 0.04% 116 6793 0.04% 117 7021 0.04% 118 7560 0.04% 119 7578 0.04% 120 8266 0.04% 121 8264 0.04% 122 9059 0.05% 123 9669 0.05% 124 10169 0.06% 125 10833 0.06% 126 11257 0.06% 127 11887 0.06% 128 12453 0.07% 129 13811 0.07% 130 14793 0.08% 131 15985 0.09% 132 16720 0.09% 133 18019 0.10% 134 19880 0.11% 135 21390 0.12% 136 22988 0.12% 137 25397 0.14% 138 27755 0.15% 139 30082 0.16% 140 34376 0.19% 141 38022 0.21% 142 44194 0.24% 143 51683 0.28% 144 63717 0.35% 145 79079 0.43% 146 105784 0.57% 147 154245 0.84% 148 261632 1.42% 149 629888 3.42% 150 4053872 22.01% 151 12441352 67.54% 18419745 reads passed initial QC criterion=sequence-density sequence-density=1.83 sequence-density-rank=1 fanout-score=2.49 fanout-score-rank=28 prefix-density=1.90 prefix-fanout=2.4 sequence=CCCAGCTCACGTTCCCTATTGGTGGGTGAACAATCCAACACTTGGTGAATTCTGCTTCACAATGATAGGAAGAGCCGACATCGAAGGATCAAAAAGCAACGTCGCTATGAACGCTTGGCTGCCACAAGCCAGTTATCCCTGTGGTAACTTTTCTGACACCTCTAGCTTCAAACTCCGAAGATCTAAAGGATCGATAGGCCACGCTTTCACGGTTCGTATTCGTACTGGAAATCAGAATCAAACGAGCTTTTACCCTTTTGTTCCACACGAGATTTCTGTTCTCGTTGAGCTCATCTTAGGACACCTGCGTTATCTTTTAACAGATGTGCCGCCCCAGCCAAACTCCCCACCTGACAATGTCTTCCGCCCGGATCGGCCCGGTCAGACCGGGCCTTGGAGCCAAAAGGAGGGGACTTGCCCCGCTTCCGACCCACGGAATAAGTAAAATAACGTTAAAAGTAGTGGTATTTCACTTGCGCCCGTAAAGGCTCCCACTTATCCTACACCTCTC criterion=fanout-score sequence-density=0.05 sequence-density-rank=18 fanout-score=90.49 fanout-score-rank=1 prefix-density=0.24 prefix-fanout=19.7 sequence=ATCTTCTTCTTGTCGTCCGC criterion=sequence-density sequence-density=0.29 sequence-density-rank=1 fanout-score=2.53 fanout-score-rank=35 prefix-density=0.73 prefix-fanout=1.0 sequence=GAGAAACGGCTGCCACATCCAAG criterion=fanout-score sequence-density=0.03 sequence-density-rank=34 fanout-score=176.74 fanout-score-rank=1 prefix-density=0.37 prefix-fanout=13.2 sequence=CCGCCGCCGCCCCTCGTCCTCTGTGTTCCTTCTCCGAGTTTCAGCCATGGGTAAGGAGAAGACTCACATCAACATCGTGGTCATTGGCCATGTCGACTCTGGCAAGTCGACCACCACTGGCCACCTGATCTACAAGCTTGGAGGTATTGACAAGCGTGTGATCGAGAGGTTCGAGAAGGAGGCTGC SRR6031174 testing PE reads STAR mapping to Ensembl genome Started job on | Dec 10 00:38:33 Started mapping on | Dec 10 00:38:33 Finished on | Dec 10 00:40:30 Mapping speed, Million of reads per hour | 566.76 Number of input reads | 18419745 Average input read length | 299 UNIQUE READS: Uniquely mapped reads number | 12880299 Uniquely mapped reads % | 69.93% Average mapped length | 299.22 Number of splices: Total | 14600275 Number of splices: Annotated (sjdb) | 13893657 Number of splices: GT/AG | 14411318 Number of splices: GC/AG | 168983 Number of splices: AT/AC | 10698 Number of splices: Non-canonical | 9276 Mismatch rate per base, % | 0.10% Deletion rate per base | 0.00% Deletion average length | 1.40 Insertion rate per base | 0.00% Insertion average length | 1.12 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 149536 % of reads mapped to multiple loci | 0.81% Number of reads mapped to too many loci | 453401 % of reads mapped to too many loci | 2.46% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 3.85% % of reads unmapped: other | 22.95% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 5399468 5399468 5399468 N_multimapping 149536 149536 149536 N_noFeature 569129 12520900 678555 N_ambiguous 314805 2899 65286 UnstrandedReadsAssigned:11996365 PositiveStrandReadsAssigned:356500 NegativeStrandReadsAssigned:12136458 Dataset is classified negative stranded MeadianReadLen=151 20thPercentileLength=151 echo kmer=147 SRR6031174 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: SRR6031174-trimmed-pair1.fastq SRR6031174-trimmed-pair2.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 18,419,745 reads, 12,412,646 reads pseudoaligned [quant] estimated average fragment length: 456.394 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,172 rounds 52973 SRR6031174.ke.tsv 35125 SRR6031174.se.tsv 88098 total ==> SRR6031174.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 482.142 0 0 PNS24247 1044 588.606 74.5125 14.8016 PNS24249 1928 1472.61 28.3072 2.24757 PNS24246 1044 588.606 74.5125 14.8016 PNS24248 1044 588.606 74.5125 14.8016 PNS24244 1471 1015.61 61.1552 7.04064 PNS24243 293 62.5799 0 0 KQK14069 1603 1147.61 2081.03 212.026 KQK14071 474 126.523 2.58626 2.39004 ==> SRR6031174.se.tsv <== BRADI_1g14170v3 2101 BRADI_1g53295v3 52 BRADI_1g59795v3 381 BRADI_1g07683v3 0 BRADI_1g00485v3 52 BRADI_1g20270v3 545 BRADI_1g74790v3 113 BRADI_1g09890v3 0 BRADI_1g77505v3 139 BRADI_1g48960v3 0 SRR6031174 completed mapping pipeline successfully