Starting /dee2/code/volunteer_pipeline.sh SRR7473336 current disk space = 1543202246656 free memory = 1599267480 SRR7473336 SRAfilesize 31fd753fa4ec733e8154bc282849be5e SRR7473336.sra SRR7473336.sra file validated SRR7473336 is paired end SRR7473336 is conventional basespace SRR7473336 read1 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR7473336_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 51 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 33.50975 34.0 34.0 34.0 33.0 34.0 2 33.5485 34.0 34.0 34.0 33.0 34.0 3 33.5695 34.0 34.0 34.0 33.0 34.0 4 33.4155 34.0 34.0 34.0 33.0 34.0 5 33.567 34.0 34.0 34.0 33.0 34.0 6 37.21175 38.0 38.0 38.0 36.0 38.0 7 37.50025 38.0 38.0 38.0 37.0 38.0 8 37.5765 38.0 38.0 38.0 38.0 38.0 9 37.55225 38.0 38.0 38.0 38.0 38.0 10-14 37.5649 38.0 38.0 38.0 38.0 38.0 15-19 37.62035 38.0 38.0 38.0 38.0 38.0 20-24 37.6118 38.0 38.0 38.0 38.0 38.0 25-29 37.52660000000001 38.0 38.0 38.0 38.0 38.0 30-34 37.447500000000005 38.0 38.0 38.0 37.8 38.0 35-39 37.348949999999995 38.0 38.0 38.0 37.4 38.0 40-44 37.28545 38.0 38.0 38.0 37.6 38.0 45-49 37.2999 38.0 38.0 38.0 37.2 38.0 50-54 37.337 38.0 38.0 38.0 37.6 38.0 55-59 37.07475 38.0 38.0 38.0 36.4 38.0 60-64 37.04925 38.0 38.0 38.0 36.2 38.0 65-69 36.7759 38.0 38.0 38.0 35.2 38.0 70-74 36.9287 38.0 38.0 38.0 36.8 38.0 75-79 36.42375 38.0 38.0 38.0 36.4 38.0 80-84 36.34585 38.0 38.0 38.0 36.0 38.0 85-89 36.226549999999996 38.0 38.0 38.0 35.4 38.0 90-94 36.143299999999996 38.0 38.0 38.0 34.6 38.0 95-99 36.1194 38.0 38.0 38.0 35.0 38.0 100-104 35.984500000000004 38.0 38.0 38.0 34.4 38.0 105-109 35.927299999999995 38.0 38.0 38.0 34.2 38.0 110-114 35.7387 38.0 38.0 38.0 33.8 38.0 115-119 35.604499999999994 38.0 38.0 38.0 33.0 38.0 120-124 35.400850000000005 38.0 38.0 38.0 32.8 38.0 125-129 35.0111 38.0 36.0 38.0 30.4 38.0 130-134 34.63555 38.0 35.8 38.0 27.8 38.0 135-139 34.08965 38.0 34.6 38.0 23.4 38.0 140-144 34.0899 38.0 34.4 38.0 25.4 38.0 145-149 33.66 38.0 33.8 38.0 21.8 38.0 150-151 29.049375 35.0 17.5 38.0 2.0 38.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 6 1.0 7 2.0 8 1.0 9 0.0 10 1.0 11 2.0 12 4.0 13 8.0 14 10.0 15 14.0 16 13.0 17 4.0 18 19.0 19 42.0 20 2.0 21 6.0 22 5.0 23 7.0 24 3.0 25 11.0 26 12.0 27 6.0 28 15.0 29 22.0 30 22.0 31 44.0 32 50.0 33 61.0 34 120.0 35 189.0 36 534.0 37 2770.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 39.75 10.424999999999999 8.4 41.425 2 23.23080770192548 12.328082020505127 30.50762690672668 33.93348337084271 3 21.825 13.950000000000001 24.775 39.45 4 26.900000000000002 20.925 20.5 31.674999999999997 5 30.3 24.9 22.15 22.650000000000002 6 22.0 25.650000000000002 27.800000000000004 24.55 7 14.975 19.35 43.4 22.275 8 20.05 18.425 29.875 31.65 9 19.075 18.475 30.65 31.8 10-14 21.465 21.995 24.64 31.900000000000002 15-19 22.525000000000002 21.525 25.82 30.130000000000003 20-24 22.75 23.29 25.75 28.21 25-29 20.96 23.14 25.785000000000004 30.115 30-34 21.89 21.875 25.22 31.014999999999997 35-39 21.14 22.689999999999998 26.595000000000002 29.575000000000003 40-44 22.095000000000002 22.075 26.174999999999997 29.654999999999998 45-49 22.715 21.4 26.779999999999998 29.104999999999997 50-54 22.45 22.3 25.555 29.695 55-59 21.145 21.22 27.425 30.209999999999997 60-64 21.34 19.835 28.849999999999998 29.975 65-69 20.575 22.86 26.240000000000002 30.325000000000003 70-74 21.029999999999998 25.014999999999997 25.224999999999998 28.73 75-79 21.39 25.215 22.96 30.435000000000002 80-84 21.165 24.47 25.974999999999998 28.389999999999997 85-89 21.54 24.14 23.685000000000002 30.635 90-94 21.97 21.94 24.895 31.195 95-99 21.78 23.23 25.314999999999998 29.675 100-104 22.465 24.89 24.34 28.305000000000003 105-109 21.884999999999998 23.71 23.225 31.180000000000003 110-114 22.5 24.945 23.41 29.145 115-119 21.855 24.15 24.285 29.709999999999997 120-124 21.245 25.105 23.794999999999998 29.854999999999997 125-129 22.955000000000002 22.56 26.545 27.939999999999998 130-134 21.943040192201813 25.236498323239402 24.01021072125732 28.810250763301465 135-139 22.117164440442245 24.163289809395167 24.54850167592176 29.171044074240832 140-144 23.75 24.685000000000002 22.264999999999997 29.299999999999997 145-149 22.64 23.51 23.98 29.87 150-151 20.8125 24.8125 23.95 30.425 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 0.0 1 0.0 2 0.0 3 0.0 4 0.0 5 0.5 6 1.0 7 0.5 8 0.0 9 0.0 10 0.0 11 0.5 12 0.5 13 0.5 14 0.5 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 0.0 24 0.5 25 1.0 26 1.5 27 1.5 28 1.0 29 1.5 30 3.5 31 5.5 32 5.5 33 10.0 34 12.0 35 13.5 36 23.5 37 32.5 38 43.0 39 47.5 40 47.5 41 53.0 42 68.0 43 74.5 44 84.0 45 87.5 46 85.5 47 100.0 48 105.5 49 108.5 50 147.5 51 195.0 52 256.0 53 362.0 54 403.0 55 368.0 56 275.5 57 218.5 58 194.5 59 141.0 60 111.5 61 93.5 62 78.0 63 48.0 64 21.5 65 12.5 66 10.0 67 6.5 68 7.5 69 6.5 70 4.5 71 5.0 72 4.5 73 3.0 74 1.5 75 0.5 76 1.0 77 1.5 78 0.5 79 0.0 80 0.0 81 0.0 82 0.0 83 0.0 84 0.0 85 0.0 86 0.0 87 0.0 88 0.0 89 0.0 90 0.0 91 0.0 92 0.0 93 0.0 94 0.0 95 0.0 96 0.0 97 0.0 98 0.0 99 0.0 100 0.0 >>END_MODULE >>Per base N content pass #Base N-Count 1 0.0 2 0.025 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 0.105 135-139 0.055 140-144 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 warn #Total Deduplicated Percentage 57.99999999999999 #Duplication Level Percentage of deduplicated Percentage of total 1 78.96551724137932 45.800000000000004 2 9.224137931034484 10.7 3 4.051724137931034 7.049999999999999 4 1.896551724137931 4.3999999999999995 5 1.206896551724138 3.5000000000000004 6 1.206896551724138 4.2 7 0.7327586206896551 2.9749999999999996 8 0.43103448275862066 2.0 9 0.3448275862068966 1.7999999999999998 >10 1.896551724137931 16.125 >50 0.04310344827586207 1.4500000000000002 >100 0.0 0.0 >500 0.0 0.0 >1k 0.0 0.0 >5k 0.0 0.0 >10k+ 0.0 0.0 >>END_MODULE >>Overrepresented sequences fail #Sequence Count Percentage Possible Source GATCGGAAGAGCACACGTCTGAACTCCAGTCACGCTCCAATCTCGTATGC 58 1.4500000000000002 TruSeq Adapter, Index 9 (97% over 37bp) GTCGGTTCGGTCCTCCAGTTAGTGTTACCCAACCTTCAACCTGCCCATGG 50 1.25 No Hit ATCGGAAGAGCACACGTCTGAACTCCAGTCACGCTCCAATCTCGTATGCC 38 0.95 TruSeq Adapter, Index 9 (97% over 36bp) GGCCAACATAGCCTTCTCCGTCCCCCCTTCGCAGTAACACCAAGTACAGG 26 0.65 No Hit CCCCACTGCTGCCTCCCGTAGGAGTCTGGACCGTGTCTCAGTTCCAGTGT 23 0.575 No Hit CCCACTGCTGCCTCCCGTAGGAGTCTGGACCGTGTCTCAGTTCCAGTGTG 20 0.5 No Hit CGGGGATTTCACATCTGACTTAACAAACCGCCTGCGTGCGCTTTACGCCC 19 0.475 No Hit CGGTATTCCTCCAGATCTCTACGCATTTCACCGCTACACCTGGAATTCTA 18 0.44999999999999996 No Hit CGGGAACGTATTCACCGTGGCATTCTGATCCACGATTACTAGCGATTCCG 17 0.42500000000000004 No Hit GTTGATTTCTTTTCCTCGGGGTACTTAGATGTTTCAGTTCCCCCGGTTCG 17 0.42500000000000004 No Hit CTCCGTCCCCCCTTCGCAGTAACACCAAGTACAGGAATATTAACCTGTTT 17 0.42500000000000004 No Hit CCCCTTCGCAGTAACACCAAGTACAGGAATATTAACCTGTTTCCCATCGA 16 0.4 No Hit CCACGCTTTCGCACCTGAGCGTCAGTCTTCGTCCAGGGGGCCGCCTTCGC 16 0.4 No Hit GTTCGGTCCTCCAGTTAGTGTTACCCAACCTTCAACCTGCCCATGGCTAG 16 0.4 No Hit CCCACGCTTTCGCACCTGAGCGTCAGTCTTCGTCCAGGGGGCCGCCTTCG 15 0.375 No Hit CCCGGTTCGCCTCATTAACCTATGGATTCAGTTAATGATAGTGTGTCGAA 13 0.325 No Hit CCGGGAACGTATTCACCGTGGCATTCTGATCCACGATTACTAGCGATTCC 13 0.325 No Hit GGCCTTTCACCCCCAGCCACAAGTCATCCGCTAATTTTTCAACATTAGTC 13 0.325 No Hit CCCATATTCAGACAGGATACCACGTGTCCCGCCCTACTCATCGAGCTCAC 13 0.325 No Hit CAGTAATTCCGATTAACGCTTGCACCCTCCGTATTACCGCGGCTGCTGGC 13 0.325 No Hit ATTAACGCTTGCACCCTCCGTATTACCGCGGCTGCTGGCACGGAGTTAGC 12 0.3 No Hit CCGATTAACGCTTGCACCCTCCGTATTACCGCGGCTGCTGGCACGGAGTT 12 0.3 No Hit GGGGATTTCACATCTGACTTAACAAACCGCCTGCGTGCGCTTTACGCCCA 12 0.3 No Hit GGTCAGTCAGGAGTATTTAGCCTTGGAGGATGGTCCCCCCATATTCAGAC 12 0.3 No Hit GCCAGCTGGTATCTTCGACTGATTTCAGCTCCACGAGCAAGTCGCTTCAC 12 0.3 No Hit CACCGCTACACCTGGAATTCTACCCCCCTCTACGAGACTCAAGCTTGCCA 12 0.3 No Hit CCCCCCTTCGCAGTAACACCAAGTACAGGAATATTAACCTGTTTCCCATC 12 0.3 No Hit GTCCGCTTGCTCTCGCGAGGTCGCTTCTCTTTGTATGCGCCATTGTAGCA 12 0.3 No Hit GTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTC 11 0.27499999999999997 No Hit CTTCGCCACCGGTATTCCTCCAGATCTCTACGCATTTCACCGCTACACCT 11 0.27499999999999997 No Hit GGTGCTTCTTCTGCGGGTAACGTCAATGAGCAAAGGTATTAACTTTACTC 11 0.27499999999999997 No Hit CCCCCCTCTACGAGACTCAAGCTTGCCAGTATCAGATGCAGTTCCCAGGT 11 0.27499999999999997 No Hit GTCAGTCAGGAGTATTTAGCCTTGGAGGATGGTCCCCCCATATTCAGACA 11 0.27499999999999997 No Hit CGATTAACGCTTGCACCCTCCGTATTACCGCGGCTGCTGGCACGGAGTTA 11 0.27499999999999997 No Hit CCGGTATTCCTCCAGATCTCTACGCATTTCACCGCTACACCTGGAATTCT 10 0.25 No Hit CTTGGTCTTCCGGCGAGCGGGCTTTTCACCCGCTTTATCGTTACTTATGT 10 0.25 No Hit GGGAGAACCAGCTATCTCCCGGTTTGATTGGCCTTTCACCCCCAGCCACA 10 0.25 No Hit ATTCCGATTAACGCTTGCACCCTCCGTATTACCGCGGCTGCTGGCACGGA 10 0.25 No Hit GATTTCTTTTCCTCGGGGTACTTAGATGTTTCAGTTCCCCCGGTTCGCCT 10 0.25 No Hit CTCCGTATTACCGCGGCTGCTGGCACGGAGTTAGCCGGTGCTTCTTCTGC 10 0.25 No Hit CACCGGTATTCCTCCAGATCTCTACGCATTTCACCGCTACACCTGGAATT 10 0.25 No Hit GATTAACGCTTGCACCCTCCGTATTACCGCGGCTGCTGGCACGGAGTTAG 10 0.25 No Hit AGTAATTCCGATTAACGCTTGCACCCTCCGTATTACCGCGGCTGCTGGCA 10 0.25 No Hit GGCATTTGTTGCTTCAGCACCGTAGTGCCTCGTCATCACGCCTCAGCCTT 10 0.25 No Hit CTTCGCAGTAACACCAAGTACAGGAATATTAACCTGTTTCCCATCGACTA 10 0.25 No Hit GTGCTTCTTCTGCGGGTAACGTCAATGAGCAAAGGTATTAACTTTACTCC 9 0.22499999999999998 No Hit CCCCCTTCGCAGTAACACCAAGTACAGGAATATTAACCTGTTTCCCATCG 9 0.22499999999999998 No Hit GTACGATTTGATGTTACCTGATGCTTAGAGGCTTTTCCTGGAAGCAGGGC 9 0.22499999999999998 No Hit CTCTACGAGACTCAAGCTTGCCAGTATCAGATGCAGTTCCCAGGTTGAGC 9 0.22499999999999998 No Hit GCCAACATAGCCTTCTCCGTCCCCCCTTCGCAGTAACACCAAGTACAGGA 9 0.22499999999999998 No Hit GCGCCATTGTAGCACGTGTGTAGCCCTGGTCGTAAGGGCCATGATGACTT 9 0.22499999999999998 No Hit CACTGCTGCCTCCCGTAGGAGTCTGGACCGTGTCTCAGTTCCAGTGTGGC 9 0.22499999999999998 No Hit GTCCCCCCTTCGCAGTAACACCAAGTACAGGAATATTAACCTGTTTCCCA 9 0.22499999999999998 No Hit GTTCACTATCGGTCAGTCAGGAGTATTTAGCCTTGGAGGATGGTCCCCCC 8 0.2 No Hit ACGAGACTCAAGCTTGCCAGTATCAGATGCAGTTCCCAGGTTGAGCCCGG 8 0.2 No Hit CTCCAATCCGGACTACGACGCACTTTATGAGGTCCGCTTGCTCTCGCGAG 8 0.2 No Hit CCCCGGTTCGCCTCATTAACCTATGGATTCAGTTAATGATAGTGTGTCGA 8 0.2 No Hit CGCTTGCACCCTCCGTATTACCGCGGCTGCTGGCACGGAGTTAGCCGGTG 8 0.2 No Hit TGGAATTCTACCCCCCTCTACGAGACTCAAGCTTGCCAGTATCAGATGCA 8 0.2 No Hit CTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCG 8 0.2 No Hit GTCAGGAGTATTTAGCCTTGGAGGATGGTCCCCCCATATTCAGACAGGAT 8 0.2 No Hit GCCCGGCCAACATAGCCTTCTCCGTCCCCCCTTCGCAGTAACACCAAGTA 8 0.2 No Hit GCCTTCGCCACCGGTATTCCTCCAGATCTCTACGCATTTCACCGCTACAC 8 0.2 No Hit CCACTGCTGCCTCCCGTAGGAGTCTGGACCGTGTCTCAGTTCCAGTGTGG 7 0.17500000000000002 No Hit GTTTGATTGGCCTTTCACCCCCAGCCACAAGTCATCCGCTAATTTTTCAA 7 0.17500000000000002 No Hit CCTCCATCAGGCAGTTTCCCAGACATTACTCACCCGTCCGCCACTCGTCA 7 0.17500000000000002 No Hit CCCTTCGCAGTAACACCAAGTACAGGAATATTAACCTGTTTCCCATCGAC 7 0.17500000000000002 No Hit CACGGTTTCAGGTTCTTTTTCACTCCCCTCGCCGGGGTTCTTTTCGCCTT 7 0.17500000000000002 No Hit GCGACGTTATGCGGTATTAGCTACCGTTTCCAGTAGTTATCCCCCTCCAT 7 0.17500000000000002 No Hit GCCTTTCACCCCCAGCCACAAGTCATCCGCTAATTTTTCAACATTAGTCG 7 0.17500000000000002 No Hit CCTCACGGTACTGGTTCACTATCGGTCAGTCAGGAGTATTTAGCCTTGGA 7 0.17500000000000002 No Hit GCTTGCACCCTCCGTATTACCGCGGCTGCTGGCACGGAGTTAGCCGGTGC 7 0.17500000000000002 No Hit CCTTGGTCTTCCGGCGAGCGGGCTTTTCACCCGCTTTATCGTTACTTATG 7 0.17500000000000002 No Hit CACGCTTTCGCACCTGAGCGTCAGTCTTCGTCCAGGGGGCCGCCTTCGCC 7 0.17500000000000002 No Hit GTACAAGGCCCGGGAACGTATTCACCGTGGCATTCTGATCCACGATTACT 7 0.17500000000000002 No Hit GCCGGTGCTTCTTCTGCGGGTAACGTCAATGAGCAAAGGTATTAACTTTA 7 0.17500000000000002 No Hit CCGGGGATTTCACATCTGACTTAACAAACCGCCTGCGTGCGCTTTACGCC 7 0.17500000000000002 No Hit ACCGGTATTCCTCCAGATCTCTACGCATTTCACCGCTACACCTGGAATTC 7 0.17500000000000002 No Hit CCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTAGGT 7 0.17500000000000002 No Hit CGGCCAACATAGCCTTCTCCGTCCCCCCTTCGCAGTAACACCAAGTACAG 7 0.17500000000000002 No Hit GCTCCCCACGCTTTCGCACCTGAGCGTCAGTCTTCGTCCAGGGGGCCGCC 6 0.15 No Hit CGCCTTTCCCTCACGGTACTGGTTCACTATCGGTCAGTCAGGAGTATTTA 6 0.15 No Hit CCTCCGTCCCCCCTTCGCAGTAACACCAAGTACAGGAATATTAACCTGTT 6 0.15 No Hit CTGGAATTCTACCCCCCTCTACGAGACTCAAGCTTGCCAGTATCAGATGC 6 0.15 No Hit CCGAACACCAGTGATGCGTCCACTCCGGTCCTCTCGTACTAGGAGCAGCC 6 0.15 No Hit GTGTGTACAAGGCCCGGGAACGTATTCACCGTGGCATTCTGATCCACGAT 6 0.15 No Hit GCCGTGTGTCTCCCGTGATAACATTCTCCGGTATTCGCAGTTTGCATCGG 6 0.15 No Hit CCGGTTCGCCTCATTAACCTATGGATTCAGTTAATGATAGTGTGTCGAAA 6 0.15 No Hit AGGCGGTCGACTTAACGCGTTAGCTCCGGAAGCCACGCCTCAAGGGCACA 6 0.15 No Hit GCCTTCTCCGTCCCCCCTTCGCAGTAACACCAAGTACAGGAATATTAACC 6 0.15 No Hit CTGGGCTGCTCCCCGTTCGCTCGCCGCTACTGGGGGAATCTCGGTTGATT 6 0.15 No Hit GGAGTATTTAGCCTTGGAGGATGGTCCCCCCATATTCAGACAGGATACCA 6 0.15 No Hit ATTTCTTTTCCTCGGGGTACTTAGATGTTTCAGTTCCCCCGGTTCGCCTC 6 0.15 No Hit GGTGTGTACAAGGCCCGGGAACGTATTCACCGTGGCATTCTGATCCACGA 6 0.15 No Hit CTTTGGTCTTGCGACGTTATGCGGTATTAGCTACCGTTTCCAGTAGTTAT 6 0.15 No Hit CTTTCTTTAAATGATGGCTGCTTCTAAGCCAACATCCTGGCTGTCTGGGC 6 0.15 No Hit CCCCACGCTTTCGCACCTGAGCGTCAGTCTTCGTCCAGGGGGCCGCCTTC 6 0.15 No Hit GCTGCTGGCACGGAGTTAGCCGGTGCTTCTTCTGCGGGTAACGTCAATGA 6 0.15 No Hit CAGATCTCTACGCATTTCACCGCTACACCTGGAATTCTACCCCCCTCTAC 6 0.15 No Hit CTTTCCCTCACGGTACTGGTTCACTATCGGTCAGTCAGGAGTATTTAGCC 6 0.15 No Hit CCGGGTTTCGGGTCTATACCCTGCAACTTAACGCCCAGTTAAGACTCGGT 6 0.15 No Hit CTCACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGCTTACACA 6 0.15 No Hit CACGTGTGTAGCCCTGGTCGTAAGGGCCATGATGACTTGACGTCATCCCC 6 0.15 No Hit GTCAGTCTTCGTCCAGGGGGCCGCCTTCGCCACCGGTATTCCTCCAGATC 6 0.15 No Hit GTCCAGGGGGCCGCCTTCGCCACCGGTATTCCTCCAGATCTCTACGCATT 6 0.15 No Hit CGAACACCAGTGATGCGTCCACTCCGGTCCTCTCGTACTAGGAGCAGCCC 6 0.15 No Hit CCGTATTACCGCGGCTGCTGGCACGGAGTTAGCCGGTGCTTCTTCTGCGG 6 0.15 No Hit GTGCTCTACCCCCGGAGATGAATTCACGAGGCGCTACCTAAATAGCTTTC 6 0.15 No Hit GCCACCGGTATTCCTCCAGATCTCTACGCATTTCACCGCTACACCTGGAA 5 0.125 No Hit TGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTAGGTGAGC 5 0.125 No Hit CGGTCCTCCAGTTAGTGTTACCCAACCTTCAACCTGCCCATGGCTAGATC 5 0.125 No Hit GCCGCCTTCGCCACCGGTATTCCTCCAGATCTCTACGCATTTCACCGCTA 5 0.125 No Hit ACGATTACTAGCGATTCCGACTTCATGGAGTCGAGTTGCAGACTCCAATC 5 0.125 No Hit GTGCGCTTTACGCCCAGTAATTCCGATTAACGCTTGCACCCTCCGTATTA 5 0.125 No Hit GGGGAATCTCGGTTGATTTCTTTTCCTCGGGGTACTTAGATGTTTCAGTT 5 0.125 No Hit GCTGCATCAGGCTTGCGCCCATTGTGCAATATTCCCCACTGCTGCCTCCC 5 0.125 No Hit CGGTGCTTCTTCTGCGGGTAACGTCAATGAGCAAAGGTATTAACTTTACT 5 0.125 No Hit CCTGTGTCGGTTTGGGGTACGATTTGATGTTACCTGATGCTTAGAGGCTT 5 0.125 No Hit AGAACCAGCTATCTCCCGGTTTGATTGGCCTTTCACCCCCAGCCACAAGT 5 0.125 No Hit GTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGCTTACACACCCGGC 5 0.125 No Hit GCTCTACCCCCGGAGATGAATTCACGAGGCGCTACCTAAATAGCTTTCGG 5 0.125 No Hit CTCTACCCCCGGAGATGAATTCACGAGGCGCTACCTAAATAGCTTTCGGG 5 0.125 No Hit GCACGGAGTTAGCCGGTGCTTCTTCTGCGGGTAACGTCAATGAGCAAAGG 5 0.125 No Hit GGGATTTCACATCTGACTTAACAAACCGCCTGCGTGCGCTTTACGCCCAG 5 0.125 No Hit GGAACGTATTCACCGTGGCATTCTGATCCACGATTACTAGCGATTCCGAC 5 0.125 No Hit CGCGGCTGCTGGCACGGAGTTAGCCGGTGCTTCTTCTGCGGGTAACGTCA 5 0.125 No Hit TGAGCGTCAGTCTTCGTCCAGGGGGCCGCCTTCGCCACCGGTATTCCTCC 5 0.125 No Hit GCTTCTTCTGCGGGTAACGTCAATGAGCAAAGGTATTAACTTTACTCCCT 5 0.125 No Hit CACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGCTTACACACC 5 0.125 No Hit CGGTTCGCCTCATTAACCTATGGATTCAGTTAATGATAGTGTGTCGAAAC 5 0.125 No Hit CCCCAGTCAAACTACCCACCAGACACTGTCCGCAACCCGGATTACGGGTC 5 0.125 No Hit GTAATTCCGATTAACGCTTGCACCCTCCGTATTACCGCGGCTGCTGGCAC 5 0.125 No Hit GTTGCATCGAATTAAACCACATGCTCCACCGCTTGTGCGGGCCCCCGTCA 5 0.125 No Hit GCGTTAGCTCCGGAAGCCACGCCTCAAGGGCACAACCTCCAAGTCGACAT 5 0.125 No Hit CAGCTGGTATCTTCGACTGATTTCAGCTCCATCCGCGAGGGACCTCACCT 5 0.125 No Hit CCTTGCCGAAACAGTGCTCTACCCCCGGAGATGAATTCACGAGGCGCTAC 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 0.025 0.0 0.0 0.0 0.0 2 0.025 0.0 0.0 0.0 0.0 3 0.025 0.0 0.0 0.0 0.0 4 0.025 0.0 0.0 0.0 0.0 5 0.025 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 0.037500000000000006 0.0 0.0 0.0 0.0 48-49 0.05 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 0.05 0.0 0.0 0.0 0.0 56-57 0.05 0.0 0.0 0.0 0.0 58-59 0.0625 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 0.1125 0.0 0.0 0.0 0.0 66-67 0.125 0.0 0.0 0.0 0.0 68-69 0.125 0.0 0.0 0.0 0.0 70-71 0.125 0.0 0.0 0.0 0.0 72-73 0.16249999999999998 0.0 0.0 0.0 0.0 74-75 0.2 0.0 0.0 0.0 0.0 76-77 0.275 0.0 0.0 0.0 0.0 78-79 0.35 0.0 0.0 0.0 0.0 80-81 0.3875 0.0 0.0 0.0 0.0 82-83 0.425 0.0 0.0 0.0 0.0 84-85 0.6000000000000001 0.0 0.0 0.0 0.0 86-87 0.85 0.0 0.0 0.0 0.0 88-89 1.0875 0.0 0.0 0.0 0.0 90-91 1.3624999999999998 0.0 0.0 0.0 0.0 92-93 1.7 0.0 0.0 0.0 0.0 94-95 2.1 0.0 0.0 0.0 0.0 96-97 2.6 0.0 0.0 0.0 0.0 98-99 3.1 0.0 0.0 0.0 0.0 100-101 3.6375 0.0 0.0 0.0 0.0 102-103 4.175 0.0 0.0 0.0 0.0 104-105 4.5375 0.0 0.0 0.0 0.0 106-107 4.949999999999999 0.0 0.0 0.0 0.0 108-109 5.4 0.0 0.0 0.0 0.0 110-111 6.075 0.0 0.0 0.0 0.0 112-113 6.8875 0.0 0.0 0.0 0.0 114-115 7.4625 0.0 0.0 0.0 0.0 116-117 7.925000000000001 0.0 0.0 0.0 0.0 118-119 8.7625 0.0 0.0 0.0 0.0 120-121 9.375 0.0 0.0 0.0 0.0 122-123 10.1375 0.0 0.0 0.0 0.0 124-125 10.8 0.0 0.0 0.0 0.0 126-127 11.575 0.0 0.0 0.0 0.0 128-129 12.3875 0.0 0.0 0.0 0.0 130-131 13.25 0.0 0.0 0.0 0.0 132-133 14.075 0.0 0.0 0.0 0.0 134-135 15.3125 0.0 0.0 0.0 0.0 136-137 16.35 0.0 0.0 0.0 0.0 138-139 17.137500000000003 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position GAGCACA 40 0.005621335 54.375 9 AAGAGCA 45 0.008957279 48.333332 7 GATCGGA 45 0.008957279 48.333332 1 GAAGAGC 45 0.008957279 48.333332 6 TCGGAAG 45 0.008957279 48.333332 3 CGGAAGA 45 0.008957279 48.333332 4 AGAGCAC 45 0.008957279 48.333332 8 ATCGGAA 45 0.008957279 48.333332 2 AAAAAAA 355 1.0570602E-4 6.1267605 65-69 >>END_MODULE SRR7473336 read2 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR7473336_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 51 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 32.9475 34.0 33.0 34.0 32.0 34.0 2 33.056 34.0 33.0 34.0 33.0 34.0 3 32.862 34.0 33.0 34.0 33.0 34.0 4 32.646 34.0 33.0 34.0 32.0 34.0 5 32.918 34.0 33.0 34.0 32.0 34.0 6 36.288 38.0 38.0 38.0 34.0 38.0 7 36.72275 38.0 38.0 38.0 36.0 38.0 8 36.5965 38.0 38.0 38.0 36.0 38.0 9 36.67 38.0 38.0 38.0 36.0 38.0 10-14 36.699749999999995 38.0 38.0 38.0 36.4 38.0 15-19 36.6913 38.0 38.0 38.0 36.6 38.0 20-24 36.6669 38.0 38.0 38.0 36.2 38.0 25-29 36.79835 38.0 38.0 38.0 37.0 38.0 30-34 36.8015 38.0 38.0 38.0 37.2 38.0 35-39 36.7646 38.0 38.0 38.0 37.0 38.0 40-44 36.812400000000004 38.0 38.0 38.0 37.0 38.0 45-49 36.61 38.0 38.0 38.0 36.2 38.0 50-54 36.7431 38.0 38.0 38.0 36.8 38.0 55-59 36.842 38.0 38.0 38.0 37.0 38.0 60-64 36.961650000000006 38.0 38.0 38.0 37.2 38.0 65-69 36.63634999999999 38.0 38.0 38.0 36.4 38.0 70-74 36.08200000000001 38.0 38.0 38.0 36.0 38.0 75-79 36.063300000000005 38.0 38.0 38.0 35.8 38.0 80-84 36.0047 38.0 38.0 38.0 35.2 38.0 85-89 35.908100000000005 38.0 38.0 38.0 35.0 38.0 90-94 35.7368 38.0 38.0 38.0 34.4 38.0 95-99 35.70935 38.0 38.0 38.0 34.0 38.0 100-104 35.62205 38.0 38.0 38.0 34.0 38.0 105-109 35.503 38.0 38.0 38.0 33.2 38.0 110-114 35.001099999999994 38.0 37.6 38.0 30.2 38.0 115-119 35.0186 38.0 38.0 38.0 31.2 38.0 120-124 34.44454999999999 38.0 36.2 38.0 26.0 38.0 125-129 34.402 38.0 35.8 38.0 27.4 38.0 130-134 34.14335 38.0 35.8 38.0 24.8 38.0 135-139 33.9438 38.0 36.0 38.0 22.8 38.0 140-144 33.242 38.0 34.4 38.0 16.4 38.0 145-149 32.3352 38.0 33.0 38.0 8.0 38.0 150-151 27.279375 34.0 17.5 38.0 2.0 38.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 2 23.0 3 6.0 4 5.0 5 2.0 6 3.0 7 1.0 8 1.0 9 1.0 10 14.0 11 25.0 12 5.0 13 3.0 14 4.0 15 8.0 16 5.0 17 50.0 18 3.0 19 7.0 20 5.0 21 6.0 22 6.0 23 23.0 24 8.0 25 11.0 26 15.0 27 16.0 28 25.0 29 24.0 30 37.0 31 34.0 32 57.0 33 72.0 34 112.0 35 216.0 36 506.0 37 2661.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 46.1 17.275 10.674999999999999 25.95 2 34.150000000000006 20.549999999999997 22.125 23.175 3 27.952952952952952 22.3973973973974 26.75175175175175 22.8978978978979 4 31.740870435217612 30.340170085042523 17.958979489744873 19.959979989995 5 34.61730865432716 31.840920460230116 14.732366183091546 18.809404702351177 6 27.55 35.625 16.525000000000002 20.3 7 23.225 20.0 33.0 23.775 8 30.8 22.525000000000002 18.725 27.950000000000003 9 28.799999999999997 23.7 21.325 26.174999999999997 10-14 30.98 25.490000000000002 19.375 24.154999999999998 15-19 31.115 25.09 21.295 22.5 20-24 32.76 25.715 19.845 21.68 25-29 29.035 27.485 21.48 22.0 30-34 31.805 27.375 20.21 20.61 35-39 30.915 24.32 22.02 22.745 40-44 33.11 24.959999999999997 21.6 20.330000000000002 45-49 31.22 25.905 21.61 21.265 50-54 29.265 26.369999999999997 22.634999999999998 21.73 55-59 29.34 26.32 23.91 20.43 60-64 29.160000000000004 26.85 21.92 22.07 65-69 30.875000000000004 27.045 21.625 20.455000000000002 70-74 30.65 27.860000000000003 21.83 19.66 75-79 28.705000000000002 27.255000000000003 22.59 21.45 80-84 30.055 26.640000000000004 22.415 20.89 85-89 30.255 26.669999999999998 21.490000000000002 21.584999999999997 90-94 30.56 26.105 22.155 21.18 95-99 29.154999999999998 28.535 21.834999999999997 20.474999999999998 100-104 30.735 27.22 21.349999999999998 20.695 105-109 29.38 27.93 20.5 22.189999999999998 110-114 30.858886498924516 28.007603421539695 20.719323695663046 20.414186383872742 115-119 30.62224889955982 28.85654261704682 20.63325330132053 19.88795518207283 120-124 29.965000000000003 27.975 21.0 21.060000000000002 125-129 30.095 27.229999999999997 22.375 20.3 130-134 29.830000000000002 27.405 21.279999999999998 21.485000000000003 135-139 31.05 27.025 20.285 21.64 140-144 30.995 26.575 21.04 21.39 145-149 31.240000000000002 27.76 20.544999999999998 20.455000000000002 150-151 31.35 29.212500000000002 20.2875 19.15 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 0.0 1 0.0 2 0.0 3 0.0 4 0.0 5 0.0 6 0.0 7 0.0 8 0.0 9 0.0 10 0.0 11 0.0 12 0.5 13 0.5 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 0.0 24 0.0 25 1.0 26 1.5 27 1.0 28 0.5 29 0.0 30 1.5 31 3.5 32 5.5 33 7.5 34 10.5 35 15.5 36 21.0 37 30.5 38 40.5 39 48.5 40 48.5 41 45.0 42 46.5 43 53.5 44 58.0 45 62.5 46 75.5 47 88.5 48 112.5 49 161.0 50 198.5 51 212.5 52 273.5 53 383.5 54 416.5 55 378.5 56 309.5 57 208.5 58 142.5 59 122.0 60 97.0 61 74.0 62 75.5 63 53.5 64 24.0 65 16.5 66 13.0 67 8.0 68 9.0 69 10.0 70 7.5 71 6.0 72 4.0 73 2.0 74 1.0 75 2.5 76 4.0 77 3.0 78 1.0 79 0.5 80 0.5 81 0.0 82 0.0 83 0.0 84 0.0 85 0.5 86 0.5 87 0.0 88 0.0 89 0.0 90 0.0 91 0.0 92 0.0 93 0.0 94 0.0 95 0.0 96 0.0 97 0.0 98 0.0 99 0.0 100 0.0 >>END_MODULE >>Per base N content pass #Base N-Count 1 0.0 2 0.0 3 0.1 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 0.045 115-119 0.04 120-124 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 warn #Total Deduplicated Percentage 61.475 #Duplication Level Percentage of deduplicated Percentage of total 1 79.25986173241155 48.725 2 9.963399755998372 12.25 3 3.7006913379422532 6.825 4 2.521350142334282 6.2 5 1.5046766978446524 4.625 6 0.6506710044733631 2.4 7 0.4473363155754371 1.925 8 0.5286701911346076 2.6 9 0.2846685644570964 1.575 >10 1.0980073200488003 11.475 >50 0.040666937779585195 1.4000000000000001 >100 0.0 0.0 >500 0.0 0.0 >1k 0.0 0.0 >5k 0.0 0.0 >10k+ 0.0 0.0 >>END_MODULE >>Overrepresented sequences fail #Sequence Count Percentage Possible Source GATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCG 56 1.4000000000000001 Illumina Single End PCR Primer 1 (100% over 50bp) GCCTGATGCAGCCATGCCGCGTGTATGAAGAAGGCCTTCGGGTTGTAAAG 49 1.225 No Hit GCGACTTATATTCTGTAGCAAGGTTAACCGAATAGGGGAGCCGAAGGGAA 35 0.8750000000000001 No Hit GGTGGATGCCCTGGCAGTCAGAGGCGATGAAGGACGTGCTAATCTGCGAT 34 0.8500000000000001 No Hit GGTGAGTCGACCCCTAAGGCGAGGCCGAAAGGCGTAGTCGATGGGAAACA 31 0.775 No Hit CTCAGATTGAACGCTGGCGGCAGGCCTAACACATGCAAGTCGAACGGTAA 25 0.625 No Hit GGGAAACCGAGTCTTAACTGGGCGTTAAGTTGCAGGGTATAGACCCGAAA 23 0.575 No Hit GTTTGATCATGGCTCAGATTGAACGCTGGCGGCAGGCCTAACACATGCAA 21 0.525 No Hit CCTACGGGAGGCAGCAGTGGGGAATATTGCACAATGGGCGCAAGCCTGAT 21 0.525 No Hit CGGGAACTCAAAGGAGACTGCCAGTGATAAACTGGAGGAAGGTGGGGATG 19 0.475 No Hit GCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAG 17 0.42500000000000004 No Hit ATTGAACGCTGGCGGCAGGCCTAACACATGCAAGTCGAACGGTAACAGGA 13 0.325 No Hit CAAGCCTGATGCAGCCATGCCGCGTGTATGAAGAAGGCCTTCGGGTTGTA 13 0.325 No Hit GTCAGATGTGAAATCCCCGGGCTCAACCTGGGAACTGCATCTGATACTGG 13 0.325 No Hit GGTTAACCGAATAGGGGAGCCGAAGGGAAACCGAGTCTTAACTGGGCGTT 11 0.27499999999999997 No Hit GGGAACTCAAAGGAGACTGCCAGTGATAAACTGGAGGAAGGTGGGGATGA 11 0.27499999999999997 No Hit AAGCCTGATGCAGCCATGCCGCGTGTATGAAGAAGGCCTTCGGGTTGTAA 11 0.27499999999999997 No Hit GCTGGTTCTCCCCGAAAGCTATTTAGGTAGCGCCTCGTGAATTCATCTCC 11 0.27499999999999997 No Hit GCACAATGGGCGCAAGCCTGATGCAGCCATGCCGCGTGTATGAAGAAGGC 11 0.27499999999999997 No Hit CAGCAGTGGGGAATATTGCACAATGGGCGCAAGCCTGATGCAGCCATGCC 10 0.25 No Hit TGAACGCTGGCGGCAGGCCTAACACATGCAAGTCGAACGGTAACAGGAAG 10 0.25 No Hit AAACCATGCACCGAAGCTGCGGCAGCGACGCTTATGCGTTGTTGGGTAGG 10 0.25 No Hit GCCTAACACATGCAAGTCGAACGGTAACAGGAAGAAGCTTGCTTCTTTGC 10 0.25 No Hit CTCCTACGGGAGGCAGCAGTGGGGAATATTGCACAATGGGCGCAAGCCTG 10 0.25 No Hit ACGGGAGGCAGCAGTGGGGAATATTGCACAATGGGCGCAAGCCTGATGCA 10 0.25 No Hit GGCTCAGATTGAACGCTGGCGGCAGGCCTAACACATGCAAGTCGAACGGT 10 0.25 No Hit CGTTAATCGGGGCAGGGTGAGTCGACCCCTAAGGCGAGGCCGAAAGGCGT 10 0.25 No Hit CTTATATTCTGTAGCAAGGTTAACCGAATAGGGGAGCCGAAGGGAAACCG 10 0.25 No Hit GTAACATCAAATCGTACCCCAAACCGACACAGGTGGTCAGGTAGAGAATA 9 0.22499999999999998 No Hit GGAATATTGCACAATGGGCGCAAGCCTGATGCAGCCATGCCGCGTGTATG 9 0.22499999999999998 No Hit CGTTAATCGGAATTACTGGGCGTAAAGCGCACGCAGGCGGTTTGTTAAGT 9 0.22499999999999998 No Hit CGTACACGGTGGATGCCCTGGCAGTCAGAGGCGATGAAGGACGTGCTAAT 9 0.22499999999999998 No Hit GGAGGGTGCAAGCGTTAATCGGAATTACTGGGCGTAAAGCGCACGCAGGC 9 0.22499999999999998 No Hit GTTAAGTCAGATGTGAAATCCCCGGGCTCAACCTGGGAACTGCATCTGAT 9 0.22499999999999998 No Hit CCGGGAACTCAAAGGAGACTGCCAGTGATAAACTGGAGGAAGGTGGGGAT 9 0.22499999999999998 No Hit GACTCCTACGGGAGGCAGCAGTGGGGAATATTGCACAATGGGCGCAAGCC 8 0.2 No Hit CATGGCTCAGATTGAACGCTGGCGGCAGGCCTAACACATGCAAGTCGAAC 8 0.2 No Hit GATGCAGCCATGCCGCGTGTATGAAGAAGGCCTTCGGGTTGTAAAGTACT 8 0.2 No Hit GTCGACCCCTAAGGCGAGGCCGAAAGGCGTAGTCGATGGGAAACAGGTTA 8 0.2 No Hit GGGGAATATTGCACAATGGGCGCAAGCCTGATGCAGCCATGCCGCGTGTA 8 0.2 No Hit GGGAGGCAGCAGTGGGGAATATTGCACAATGGGCGCAAGCCTGATGCAGC 8 0.2 No Hit GTGAGTCGACCCCTAAGGCGAGGCCGAAAGGCGTAGTCGATGGGAAACAG 8 0.2 No Hit GCAAGCCTGATGCAGCCATGCCGCGTGTATGAAGAAGGCCTTCGGGTTGT 8 0.2 No Hit GGAACTCAAAGGAGACTGCCAGTGATAAACTGGAGGAAGGTGGGGATGAC 8 0.2 No Hit GCCGGGAACTCAAAGGAGACTGCCAGTGATAAACTGGAGGAAGGTGGGGA 8 0.2 No Hit AGCGCACGCAGGCGGTTTGTTAAGTCAGATGTGAAATCCCCGGGCTCAAC 8 0.2 No Hit GTTAATCGGAATTACTGGGCGTAAAGCGCACGCAGGCGGTTTGTTAAGTC 8 0.2 No Hit GTGGATGCCCTGGCAGTCAGAGGCGATGAAGGACGTGCTAATCTGCGATA 8 0.2 No Hit ATCTGATACTGGCAAGCTTGAGTCTCGTAGAGGGGGGTAGAATTCCAGGT 7 0.17500000000000002 No Hit GTCCAACGTTAATCGGGGCAGGGTGAGTCGACCCCTAAGGCGAGGCCGAA 7 0.17500000000000002 No Hit TGTACGTACAAGCAGTGGGAGCACGCTTAGGCGTGTGACTGCGTACCTTT 7 0.17500000000000002 No Hit CATGCACCGAAGCTGCGGCAGCGACGCTTATGCGTTGTTGGGTAGGGGAG 7 0.17500000000000002 No Hit CCTGATGCAGCCATGCCGCGTGTATGAAGAAGGCCTTCGGGTTGTAAAGT 7 0.17500000000000002 No Hit GTTTAAGCGTGTAGGCTGGTTTTCCAGGCAAATCCGGAAAATCAAGGCTG 7 0.17500000000000002 No Hit TCCTACGGGAGGCAGCAGTGGGGAATATTGCACAATGGGCGCAAGCCTGA 7 0.17500000000000002 No Hit CGGCGAGCGAACGGGGAGCAGCCCAGAGCCTGAATCAGTGTGTGTGTTAG 7 0.17500000000000002 No Hit GGATGCCCTGGCAGTCAGAGGCGATGAAGGACGTGCTAATCTGCGATAAG 7 0.17500000000000002 No Hit ATTGCACAATGGGCGCAAGCCTGATGCAGCCATGCCGCGTGTATGAAGAA 7 0.17500000000000002 No Hit GTACTTTCAGCGGGGAGGAAGGGAGTAAAGTTAATACCTTTGCTCATTGA 7 0.17500000000000002 No Hit CGTGTATGAAGAAGGCCTTCGGGTTGTAAAGTACTTTCAGCGGGGAGGAA 6 0.15 No Hit GTAAAGTTAATACCTTTGCTCATTGACGTTACCCGCAGAAGAAGCACCGG 6 0.15 No Hit GCACAAGCGGTGGAGCATGTGGTTTAATTCGATGCAACGCGAAGAACCTT 6 0.15 No Hit CAAGGCTGAGGCGTGATGACGAGGCACTACGGTGCTGAAGCAACAAATGC 6 0.15 No Hit GCCATGCCGCGTGTATGAAGAAGGCCTTCGGGTTGTAAAGTACTTTCAGC 6 0.15 No Hit CAGCCATGCCGCGTGTATGAAGAAGGCCTTCGGGTTGTAAAGTACTTTCA 6 0.15 No Hit GCGTGTATGAAGAAGGCCTTCGGGTTGTAAAGTACTTTCAGCGGGGAGGA 6 0.15 No Hit AGCATGTGGTTTAATTCGATGCAACGCGAAGAACCTTACCTGGTCTTGAC 6 0.15 No Hit CCTGGCAGTCAGAGGCGATGAAGGACGTGCTAATCTGCGATAAGCGTCGG 6 0.15 No Hit GCAGCCATGCCGCGTGTATGAAGAAGGCCTTCGGGTTGTAAAGTACTTTC 6 0.15 No Hit GCTGGCGGCAGGCCTAACACATGCAAGTCGAACGGTAACAGGAAGAAGCT 6 0.15 No Hit TCAGATTGAACGCTGGCGGCAGGCCTAACACATGCAAGTCGAACGGTAAC 6 0.15 No Hit GGAGGCAGCAGTGGGGAATATTGCACAATGGGCGCAAGCCTGATGCAGCC 6 0.15 No Hit AGAATACCAAGGCGCTTGAGAGAACTCGGGTGAAGGAACTAGGCAAAATG 6 0.15 No Hit CGTGTAGGCTGGTTTTCCAGGCAAATCCGGAAAATCAAGGCTGAGGCGTG 6 0.15 No Hit GTAGCGGCGAGCGAACGGGGAGCAGCCCAGAGCCTGAATCAGTGTGTGTG 6 0.15 No Hit GGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAAT 5 0.125 No Hit GCACCGGCTAACTCCGTGCCAGCAGCCGCGGTAATACGGAGGGTGCAAGC 5 0.125 No Hit CAGATGTGAAATCCCCGGGCTCAACCTGGGAACTGCATCTGATACTGGCA 5 0.125 No Hit GGCAGTCAGAGGCGATGAAGGACGTGCTAATCTGCGATAAGCGTCGGTAA 5 0.125 No Hit CTAACACATGCAAGTCGAACGGTAACAGGAAACAGCTTGCTGTTTCGCTG 5 0.125 No Hit GTGGGGAATATTGCACAATGGGCGCAAGCCTGATGCAGCCATGCCGCGTG 5 0.125 No Hit CGGAATTACTGGGCGTAAAGCGCACGCAGGCGGTTTGTTAAGTCAGATGT 5 0.125 No Hit GGGGGACCTTCGGGCCTCTTGCCATCGGATGTGCCCAGATGGGATTAGCT 5 0.125 No Hit CCCGGTTTAAGCGTGTAGGCTGGTTTTCCAGGCAAATCCGGAAAATCAAG 5 0.125 No Hit CAGACTCCTACGGGAGGCAGCAGTGGGGAATATTGCACAATGGGCGCAAG 5 0.125 No Hit TGCAAGCGTTAATCGGAATTACTGGGCGTAAAGCGCACGCAGGCGGTTTG 5 0.125 No Hit GCAGCCGCGGTAATACGGAGGGTGCAAGCGTTAATCGGAATTACTGGGCG 5 0.125 No Hit TCGGGCCTCTTGCCATCGGATGTGCCCAGATGGGATTAGCTAGTAGGTGG 5 0.125 No Hit CAGGAAGAAGCTTGCTTCTTTGCTGACGAGTGGCGGACGGGTGAGTAATG 5 0.125 No Hit GTTAACCGAATAGGGGAGCCGAAGGGAAACCGAGTCTTAACTGGGCGTTA 5 0.125 No Hit CCAGACTCCTACGGGAGGCAGCAGTGGGGAATATTGCACAATGGGCGCAA 5 0.125 No Hit ACGGAGGGTGCAAGCGTTAATCGGAATTACTGGGCGTAAAGCGCACGCAG 5 0.125 No Hit GGAAACCGAGTCTTAACTGGGCGTTAAGTTGCAGGGTATAGACCCGAAAC 5 0.125 No Hit GTGCTAATCTGCGATAAGCGTCGGTAAGGTGATATGAACCGTTATAACCG 5 0.125 No Hit CCCAGAGCCTGAATCAGTGTGTGTGTTAGTGGAAGCGTCTGGAAAGGCGC 5 0.125 No Hit GGCCAGGCTGTCTCCACCCGAGACTCAGTGAAATTGAACTCGCTGTGAAG 5 0.125 No Hit CGCAGAAGAAGCACCGGCTAACTCCGTGCCAGCAGCCGCGGTAATACGGA 5 0.125 No Hit AGAAGGCCTTCGGGTTGTAAAGTACTTTCAGCGGGGAGGAAGGGAGTAAA 5 0.125 No Hit GGGAGTAAAGTTAATACCTTTGCTCATTGACGTTACCCGCAGAAGAAGCA 5 0.125 No Hit GCCTAACACATGCAAGTCGAACGGTAACAGGAAACAGCTTGCTGTTTCGC 5 0.125 No Hit GGGAGACACACGGCGGGTGCTAACGTCCGTCGTGAAGAGGGAAACAACCC 5 0.125 No Hit CGGGAGGCAGCAGTGGGGAATATTGCACAATGGGCGCAAGCCTGATGCAG 5 0.125 No Hit CCGCAACGAGCGCAACCCTTATCCTTTGTTGCCAGCGGTCCGGCCGGGAA 5 0.125 No Hit GTGCTGTGAGGCATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGT 5 0.125 No Hit ATCTGCGATAAGCGTCGGTAAGGTGATATGAACCGTTATAACCGGCGATT 5 0.125 No Hit GGGAAACCCAGTGTGTTTCGACACACTATCATTAACTGAATCCATAGGTT 5 0.125 No Hit GCGCAAGCCTGATGCAGCCATGCCGCGTGTATGAAGAAGGCCTTCGGGTT 5 0.125 No Hit AGTAAAGTTAATACCTTTGCTCATTGACGTTACCCGCAGAAGAAGCACCG 5 0.125 No Hit CGCGTGTATGAAGAAGGCCTTCGGGTTGTAAAGTACTTTCAGCGGGGAGG 5 0.125 No Hit GCACGCTTAGGCGTGTGACTGCGTACCTTTTGTATAATGGGTCAGCGACT 5 0.125 No Hit GTTAATACCTTTGCTCATTGACGTTACCCGCAGAAGAAGCACCGGCTAAC 5 0.125 No Hit ACTGCATCTGATACTGGCAAGCTTGAGTCTCGTAGAGGGGGGTAGAATTC 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 0.025 0.0 0.0 0.0 0.0 2 0.025 0.0 0.0 0.0 0.0 3 0.025 0.0 0.0 0.0 0.0 4 0.025 0.0 0.0 0.0 0.0 5 0.025 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 0.037500000000000006 0.0 0.0 0.0 0.0 48-49 0.05 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 0.05 0.0 0.0 0.0 0.0 56-57 0.05 0.0 0.0 0.0 0.0 58-59 0.0625 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 0.1125 0.0 0.0 0.0 0.0 66-67 0.125 0.0 0.0 0.0 0.0 68-69 0.125 0.0 0.0 0.0 0.0 70-71 0.125 0.0 0.0 0.0 0.0 72-73 0.16249999999999998 0.0 0.0 0.0 0.0 74-75 0.2 0.0 0.0 0.0 0.0 76-77 0.275 0.0 0.0 0.0 0.0 78-79 0.35 0.0 0.0 0.0 0.0 80-81 0.3875 0.0 0.0 0.0 0.0 82-83 0.425 0.0 0.0 0.0 0.0 84-85 0.6125 0.0 0.0 0.0 0.0 86-87 0.8625 0.0 0.0 0.0 0.0 88-89 1.0375 0.0 0.0 0.0 0.0 90-91 1.2875 0.0 0.0 0.0 0.0 92-93 1.6 0.0 0.0 0.0 0.0 94-95 1.9875 0.0 0.0 0.0 0.0 96-97 2.425 0.0 0.0 0.0 0.0 98-99 2.9124999999999996 0.0 0.0 0.0 0.0 100-101 3.45 0.0 0.0 0.0 0.0 102-103 3.9749999999999996 0.0 0.0 0.0 0.0 104-105 4.35 0.0 0.0 0.0 0.0 106-107 4.75 0.0 0.0 0.0 0.0 108-109 5.1125 0.0 0.0 0.0 0.0 110-111 5.8 0.0 0.0 0.0 0.0 112-113 6.5875 0.0 0.0 0.0 0.0 114-115 7.1625 0.0 0.0 0.0 0.0 116-117 7.6125 0.0 0.0 0.0 0.0 118-119 8.4125 0.0 0.0 0.0 0.0 120-121 8.95 0.0 0.0 0.0 0.0 122-123 9.7 0.0 0.0 0.0 0.0 124-125 10.412500000000001 0.0 0.0 0.0 0.0 126-127 11.1375 0.0 0.0 0.0 0.0 128-129 11.9375 0.0 0.0 0.0 0.0 130-131 12.7625 0.0 0.0 0.0 0.0 132-133 13.55 0.0 0.0 0.0 0.0 134-135 14.7875 0.0 0.0 0.0 0.0 136-137 15.8375 0.0 0.0 0.0 0.0 138-139 16.6375 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position GAACGCT 10 0.006830828 145.0 9 GATTGAA 10 0.006830828 145.0 5 TCAGATT 10 0.006830828 145.0 2 CTCAGAT 10 0.006830828 145.0 1 CAGATTG 10 0.006830828 145.0 3 ATTGAAC 10 0.006830828 145.0 6 TTGAACG 10 0.006830828 145.0 7 TGAACGC 10 0.006830828 145.0 8 AGATTGA 10 0.006830828 145.0 4 GAGCGTC 40 0.005621335 54.375 9 AAGAGCG 45 0.008957279 48.333332 7 GAAGAGC 45 0.008957279 48.333332 6 TCGGAAG 45 0.008957279 48.333332 3 AGAGCGT 45 0.008957279 48.333332 8 GTGTGTG 20 0.00593511 29.0 45-49 AAAAAAA 220 1.1580596E-7 9.886364 60-64 >>END_MODULE Read 795139 spots for SRR7473336.sra Written 795139 spots for SRR7473336.sra Read 795139 spots for SRR7473336.sra Written 795139 spots for SRR7473336.sra Read 795139 spots for SRR7473336.sra Written 795139 spots for SRR7473336.sra Read 795139 spots for SRR7473336.sra Written 795139 spots for SRR7473336.sra Read 795139 spots for SRR7473336.sra Written 795139 spots for SRR7473336.sra Read 795139 spots for SRR7473336.sra Written 795139 spots for SRR7473336.sra Read 795139 spots for SRR7473336.sra Written 795139 spots for SRR7473336.sra Read 795139 spots for SRR7473336.sra Written 795139 spots for SRR7473336.sra Read 795139 spots for SRR7473336.sra Written 795139 spots for SRR7473336.sra Read 795139 spots for SRR7473336.sra Written 795139 spots for SRR7473336.sra Read 795139 spots for SRR7473336.sra Written 795139 spots for SRR7473336.sra Read 795139 spots for SRR7473336.sra Written 795139 spots for SRR7473336.sra Read 795139 spots for SRR7473336.sra Written 795139 spots for SRR7473336.sra Read 795139 spots for SRR7473336.sra Written 795139 spots for SRR7473336.sra Read 795139 spots for SRR7473336.sra Written 795139 spots for SRR7473336.sra Read 795139 spots for SRR7473336.sra Written 795139 spots for SRR7473336.sra Read 795139 spots for SRR7473336.sra Written 795139 spots for SRR7473336.sra Read 795154 spots for SRR7473336.sra Written 795154 spots for SRR7473336.sra Read 795139 spots for SRR7473336.sra Written 795139 spots for SRR7473336.sra Read 795139 spots for SRR7473336.sra Written 795139 spots for SRR7473336.sra SRR ids: ['SRR7473336.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_hc_ms32n SRR7473336.sra spots: 15902795 blocks: [[1, 795139], [795140, 1590278], [1590279, 2385417], [2385418, 3180556], [3180557, 3975695], [3975696, 4770834], [4770835, 5565973], [5565974, 6361112], [6361113, 7156251], [7156252, 7951390], [7951391, 8746529], [8746530, 9541668], [9541669, 10336807], [10336808, 11131946], [11131947, 11927085], [11927086, 12722224], [12722225, 13517363], [13517364, 14312502], [14312503, 15107641], [15107642, 15902795]] SRR7473336 file size 5367235 SRR7473336 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 SRR7473336 SRR7473336_1.fastq SRR7473336_2.fastq Input file: SRR7473336_1.fastq Paired file: SRR7473336_2.fastq trimmed: SRR7473336-trimmed-pair1.fastq, SRR7473336-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 Sat Dec 7 13:57:45 2024 >> started Sat Dec 7 13:58:03 2024 >> done (18.556s) 15902795 read pairs processed; of these: 44316 ( 0.28%) short read pairs filtered out after trimming by size control 283717 ( 1.78%) empty read pairs filtered out after trimming by size control 15574762 (97.94%) read pairs available; of these: 8349891 (53.61%) trimmed read pairs available after processing 7224871 (46.39%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 18 10 0.00% 19 18 0.00% 20 7 0.00% 21 12 0.00% 22 8 0.00% 23 16 0.00% 24 239 0.00% 25 24 0.00% 26 19 0.00% 27 24 0.00% 28 26 0.00% 29 28 0.00% 30 51 0.00% 31 63 0.00% 32 43 0.00% 33 60 0.00% 34 51 0.00% 35 59 0.00% 36 58 0.00% 37 78 0.00% 38 107 0.00% 39 119 0.00% 40 133 0.00% 41 160 0.00% 42 133 0.00% 43 145 0.00% 44 174 0.00% 45 391 0.00% 46 256 0.00% 47 292 0.00% 48 338 0.00% 49 337 0.00% 50 416 0.00% 51 461 0.00% 52 519 0.00% 53 518 0.00% 54 562 0.00% 55 580 0.00% 56 604 0.00% 57 670 0.00% 58 1058 0.01% 59 892 0.01% 60 1280 0.01% 61 1338 0.01% 62 1245 0.01% 63 1445 0.01% 64 1725 0.01% 65 2248 0.01% 66 3370 0.02% 67 7066 0.05% 68 16819 0.11% 69 57717 0.37% 70 56542 0.36% 71 23861 0.15% 72 12598 0.08% 73 9539 0.06% 74 7938 0.05% 75 6664 0.04% 76 6089 0.04% 77 6323 0.04% 78 6588 0.04% 79 7465 0.05% 80 7807 0.05% 81 8236 0.05% 82 9455 0.06% 83 11421 0.07% 84 15664 0.10% 85 15945 0.10% 86 17426 0.11% 87 18681 0.12% 88 22384 0.14% 89 22454 0.14% 90 23411 0.15% 91 24814 0.16% 92 23685 0.15% 93 30355 0.19% 94 31166 0.20% 95 35889 0.23% 96 35040 0.22% 97 35110 0.23% 98 34061 0.22% 99 35728 0.23% 100 41075 0.26% 101 36252 0.23% 102 38254 0.25% 103 39736 0.26% 104 42924 0.28% 105 52495 0.34% 106 46623 0.30% 107 44483 0.29% 108 49471 0.32% 109 64524 0.41% 110 67063 0.43% 111 52494 0.34% 112 53343 0.34% 113 69230 0.44% 114 57773 0.37% 115 65932 0.42% 116 67396 0.43% 117 59987 0.39% 118 63417 0.41% 119 63306 0.41% 120 68932 0.44% 121 62629 0.40% 122 68636 0.44% 123 73730 0.47% 124 73545 0.47% 125 71627 0.46% 126 69309 0.45% 127 72831 0.47% 128 72308 0.46% 129 73892 0.47% 130 80046 0.51% 131 77943 0.50% 132 81040 0.52% 133 85843 0.55% 134 93107 0.60% 135 95869 0.62% 136 93216 0.60% 137 106078 0.68% 138 105828 0.68% 139 107590 0.69% 140 104264 0.67% 141 119389 0.77% 142 115851 0.74% 143 121317 0.78% 144 131834 0.85% 145 146027 0.94% 146 164355 1.06% 147 198612 1.28% 148 283774 1.82% 149 536632 3.45% 150 3011708 19.34% 151 7224871 46.39% 15574762 reads passed initial QC criterion=sequence-density sequence-density=1.45 sequence-density-rank=1 fanout-score=1.68 fanout-score-rank=43 prefix-density=2.44 prefix-fanout=1.0 sequence=TAATTTTTCAACATTAGTCGGTTCGGTCCTCCAGTTAGTGTTACCCAACCTTCAACCTGCCCATGGCTAGATCACCGGGTTTCGGGTCTATACCCTGCAACTTAACGCCCAGTTAAGACTCGGTTTCCCTTCGGCTCCCCTATTCGGTTAACCTTGCTACAGAATATAAGTCGCTGACCCATTATACAAAAGGTACGCAGTCACACGCCTAAGCGTGCTCCCACTGCTTGTACGTACACGGTTTCAGGTTCTTTTTCACTCCCCTCGCCGGGGTTCTTTTCGCCTTTCCCTCACGGTACTGGTTCACTATCGGTCAGTCAGGAGTATTTAGCCTTGGAGGATGGTCCCCCCATATTCAGACAGGATACCACGTGTCCCGCCCTACTCATCGAGCTCACAGCATGTGCATTTTTGTGTACGGGGCTGTCACCCTGTATCGCGCGCCTTTCCAGACGCTTCCACTAACACACACACTGATTCAGGCTCTGGGCTGCTCCCCGTTCGCTCGCCG criterion=fanout-score sequence-density=0.01 sequence-density-rank=47 fanout-score=104.15 fanout-score-rank=1 prefix-density=0.52 prefix-fanout=1.0 sequence=AAGGTTAAGCCTCACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGCTTACACACCCGGCCTATCAACGTCGTCGTCTTCAACGTTCCTTCAGGACTCTCAAGGAGTCAGGGAGAACTCATCTCGGGGCAAGTTTCGTGCTTAGATGCTTTCAGCACTTATCTCTTCCGCATTTAGCTACCGGGCAGTGCCATTGGCATGACAACCCGAACACCAGTGATGCGTCCACTCCGGTCCTCTCGTACTAGGAGCAGCCCCCCTCAGTTCTCCAGCGCCCACGGCAGATAGGGACCGAACTGTCTCACGACGTTCTAAACCCAGCTCGCGTACCACTTTAAATGGCGAACAGCCATACCCTTGGGACCTACTTCAGCCCCAGGATGTGATGAGCCGACATCGAGGTGCCAAACACCGCCGTCGATATGAACTCTTGGGCGGTATCAGCCTGTTATCCCCGGAGTACCTTTTATCCGTTGAGCGATGGCCCTTCCATTCAGAACCACCGG criterion=sequence-density sequence-density=6.84 sequence-density-rank=1 fanout-score=2.02 fanout-score-rank=39 prefix-density=6.94 prefix-fanout=2.0 sequence=GCTGACGAGTGGCGGACGGGTGAGTAATGTCTGGGAAACTGCCTGATGGAGGGGGATAACTACTGGAAACGGTAGCTAATACCGCATAACGTCGCAAGACCAAAGAGGGGGACCTTCGGGCCTCTTGCCATCGGATGTGCCCAGATGGGATTAGCTAGTAGGTGGGGTAACGGCTCACCTAGGCGACGATCCCTAGCTGGTCTGAGAGGATGACCAGCCACACTGGAACTGAGACACGGTCCAGACTCCTACGGGAGGCAGCAGTGGGGAATATTGCACAATGGGCGCAAGCCTGATGCAGCCATGCCGCGTGTATGAAGAAGGCCTTCGGGTTGTAAAGTACTTTCAGCGGGGAGGAAGGGAGTAAAGTTAATACCTTTGCTCATTGACGTTACCCGCAGAAGAAGCACCGGCTAACTCCGTGCCAGCAGCCGCGGTAATACGGAGGGTGCAAGCGTTAATCGGAATTACTGGGCGTAAAGCGCACGCAGGCGGTTTGTTAAGTCAGATG criterion=fanout-score sequence-density=0.04 sequence-density-rank=38 fanout-score=150.08 fanout-score-rank=1 prefix-density=6.21 prefix-fanout=1.0 sequence=GCCGCGGTAATTCCAGCTCCAATAGCGTATATTTAAGTTGTTGCAGTTAAAAAGCTCGTAGTTGGACTTTGGGCCGGGTCGGCCGGTCCGCCTCACGGCGAGCACCGACCTACTCGACCCTTCAGCCGGCGATGCGCTCCTAGCCTTAATTGGCCGGGTCGTGCCTCCGGCATCGTTACTTTGAAGAAATTAGAGTGCTCAAAGCAAGCCATCGCTCTGGATACATTAGCATGGGATAACATCATAGGATTCCGGTCCTATTGTGTTGGCCTTCGGGATCGGAGTAATGATTAATAGGGACAGTCGGGGGCATTCGTATTTCATAGTCAGAGGTGAAATTCTTGGATTTATGAAAGACGAACAACTGCGAAAGCATTTGCCAAGGATGTTTTCATTAATCAAGAACGAAAGTTGGGGGCTCGAAGACGATCAGATACCGTCCTAGTCTCAACCATAAACGATGCCGACCAGGGATCGGCGGATGTTGCTTATAGGACTCCGCCGGCACCTT 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 TAATTTTTCAACATTAGTCGGTTCGGTCCTCCAGTTAGTGTTACCCAACCTTCAACCTGCCCATGGCTAGATCACCGGGTTTCGGGTCTATACCCTGCAACTTAACGCCCAGTTAAGACTCGGTTTCCCTTCGGCTCCCCTATTCGGTTAACCTTGCTACAGAATATAAGTCGCTGACCCATTATACAAAAGGTACGCAGTCACACGCCTAAGCGTGCTCCCACTGCTTGTACGTACACGGTTTCAGGTTCTTTTTCACTCCCCTCGCCGGGGTTCTTTTCGCCTTTCCCTCACGGTACTGGTTCACTATCGGTCAGTCAGGAGTATTTAGCCTTGGAGGATGGTCCCCCCATATTCAGACAGGATACCACGTGTCCCGCCCTACTCATCGAGCTCACAGCATGTGCATTTTTGTGTACGGGGCTGTCACCCTGTATCGCGCGCCTTTCCAGACGCTTCCACTAACACACACACTGATTCAGGCTCTGGGCTGCTCCCCGTTCGCTCGCCG -y GCTGACGAGTGGCGGACGGGTGAGTAATGTCTGGGAAACTGCCTGATGGAGGGGGATAACTACTGGAAACGGTAGCTAATACCGCATAACGTCGCAAGACCAAAGAGGGGGACCTTCGGGCCTCTTGCCATCGGATGTGCCCAGATGGGATTAGCTAGTAGGTGGGGTAACGGCTCACCTAGGCGACGATCCCTAGCTGGTCTGAGAGGATGACCAGCCACACTGGAACTGAGACACGGTCCAGACTCCTACGGGAGGCAGCAGTGGGGAATATTGCACAATGGGCGCAAGCCTGATGCAGCCATGCCGCGTGTATGAAGAAGGCCTTCGGGTTGTAAAGTACTTTCAGCGGGGAGGAAGGGAGTAAAGTTAATACCTTTGCTCATTGACGTTACCCGCAGAAGAAGCACCGGCTAACTCCGTGCCAGCAGCCGCGGTAATACGGAGGGTGCAAGCGTTAATCGGAATTACTGGGCGTAAAGCGCACGCAGGCGGTTTGTTAAGTCAGATG -o SRR7473336 SRR7473336_1.fastq SRR7473336_2.fastq Input file: SRR7473336_1.fastq Paired file: SRR7473336_2.fastq trimmed: SRR7473336-trimmed-pair1.fastq, SRR7473336-trimmed-pair2.fastq Parameters used: -- 3' end adapter sequence (-x): TAATTTTTCAACATTAGTCGGTTCGGTCCTCCAGTTAGTGTTACCCAACCTTCAACCTGCCCAT -- paired 3' end adapter sequence (-y): GCTGACGAGTGGCGGACGGGTGAGTAATGTCTGGGAAACTGCCTGATGGAGGGGGATAACTACT -- 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 Sat Dec 7 13:59:30 2024 >> started Sat Dec 7 13:59:43 2024 >> done (12.566s) 9344857 read pairs processed; of these: 166 ( 0.00%) short read pairs filtered out after trimming by size control 2183 ( 0.02%) empty read pairs filtered out after trimming by size control 9342508 (99.97%) read pairs available; of these: 2438 ( 0.03%) trimmed read pairs available after processing 9340070 (99.97%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 18 7 0.00% 19 16 0.00% 20 5 0.00% 21 10 0.00% 22 8 0.00% 23 10 0.00% 24 157 0.00% 25 22 0.00% 26 16 0.00% 27 18 0.00% 28 15 0.00% 29 15 0.00% 30 36 0.00% 31 39 0.00% 32 32 0.00% 33 44 0.00% 34 27 0.00% 35 46 0.00% 36 34 0.00% 37 44 0.00% 38 70 0.00% 39 72 0.00% 40 85 0.00% 41 106 0.00% 42 80 0.00% 43 100 0.00% 44 99 0.00% 45 244 0.00% 46 154 0.00% 47 176 0.00% 48 198 0.00% 49 226 0.00% 50 255 0.00% 51 302 0.00% 52 315 0.00% 53 309 0.00% 54 330 0.00% 55 337 0.00% 56 342 0.00% 57 396 0.00% 58 660 0.01% 59 533 0.01% 60 787 0.01% 61 809 0.01% 62 725 0.01% 63 868 0.01% 64 1018 0.01% 65 1363 0.01% 66 2036 0.02% 67 4251 0.05% 68 10008 0.11% 69 34658 0.37% 70 33730 0.36% 71 14452 0.15% 72 7613 0.08% 73 5710 0.06% 74 4729 0.05% 75 3981 0.04% 76 3682 0.04% 77 3814 0.04% 78 3889 0.04% 79 4471 0.05% 80 4600 0.05% 81 5019 0.05% 82 5714 0.06% 83 6839 0.07% 84 9293 0.10% 85 9581 0.10% 86 10465 0.11% 87 11167 0.12% 88 13526 0.14% 89 13371 0.14% 90 14136 0.15% 91 14902 0.16% 92 14171 0.15% 93 18230 0.20% 94 18633 0.20% 95 21524 0.23% 96 20931 0.22% 97 21014 0.22% 98 20415 0.22% 99 21583 0.23% 100 24765 0.27% 101 21799 0.23% 102 23025 0.25% 103 23687 0.25% 104 25875 0.28% 105 31711 0.34% 106 27935 0.30% 107 26771 0.29% 108 29586 0.32% 109 38837 0.42% 110 40213 0.43% 111 31516 0.34% 112 31933 0.34% 113 41342 0.44% 114 34594 0.37% 115 39469 0.42% 116 40419 0.43% 117 36051 0.39% 118 38066 0.41% 119 38107 0.41% 120 41454 0.44% 121 37683 0.40% 122 41015 0.44% 123 44029 0.47% 124 43934 0.47% 125 43063 0.46% 126 41606 0.45% 127 43712 0.47% 128 43256 0.46% 129 44182 0.47% 130 48071 0.51% 131 46687 0.50% 132 48506 0.52% 133 51496 0.55% 134 55837 0.60% 135 57617 0.62% 136 55622 0.60% 137 63768 0.68% 138 63225 0.68% 139 64885 0.69% 140 62598 0.67% 141 71803 0.77% 142 69338 0.74% 143 72809 0.78% 144 78917 0.84% 145 87551 0.94% 146 98265 1.05% 147 119011 1.27% 148 169785 1.82% 149 322708 3.45% 150 1805682 19.33% 151 4334994 46.40% criterion=sequence-density sequence-density=1.48 sequence-density-rank=1 fanout-score=1.68 fanout-score-rank=43 prefix-density=2.49 prefix-fanout=1.0 sequence=TAATTTTTCAACATTAGTCGGTTCGGTCCTCCAGTTAGTGTTACCCAACCTTCAACCTGCCCATGGCTAGATCACCGGGTTTCGGGTCTATACCCTGCAACTTAACGCCCAGTTAAGACTCGGTTTCCCTTCGGCTCCCCTATTCGGTTAACCTTGCTACAGAATATAAGTCGCTGACCCATTATACAAAAGGTACGCAGTCACACGCCTAAGCGTGCTCCCACTGCTTGTACGTACACGGTTTCAGGTTCTTTTTCACTCCCCTCGCCGGGGTTCTTTTCGCCTTTCCCTCACGGTACTGGTTCACTATCGGTCAGTCAGGAGTATTTAGCCTTGGAGGATGGTCCCCCCATATTCAGACAGGATACCACGTGTCCCGCCCTACTCATCGAGCTCACAGCATGTGCATTTTTGTGTACGGGGCTGTCACCCTGTATCGCGCGCCTTTCCAGACGCTTCCACTAACACACACACTGATTCAGGCTCTGGGCTGCTCCCCGTTCGCTCGCCG criterion=fanout-score sequence-density=0.16 sequence-density-rank=29 fanout-score=66.19 fanout-score-rank=1 prefix-density=7.92 prefix-fanout=1.3 sequence=CCCGAAGGCACCAATCCATCTCTGGAAAGTTCTGTGGATGTCAA criterion=sequence-density sequence-density=6.77 sequence-density-rank=1 fanout-score=2.01 fanout-score-rank=38 prefix-density=6.88 prefix-fanout=2.0 sequence=GCTGACGAGTGGCGGACGGGTGAGTAATGTCTGGGAAACTGCCTGATGGAGGGGGATAACTACTGGAAACGGTAGCTAATACCGCATAACGTCGCAAGACCAAAGAGGGGGACCTTCGGGCCTCTTGCCATCGGATGTGCCCAGATGGGATTAGCTAGTAGGTGGGGTAACGGCTCACCTAGGCGACGATCCCTAGCTGGTCTGAGAGGATGACCAGCCACACTGGAACTGAGACACGGTCCAGACTCCTACGGGAGGCAGCAGTGGGGAATATTGCACAATGGGCGCAAGCCTGATGCAGCCATGCCGCGTGTATGAAGAAGGCCTTCGGGTTGTAAAGTACTTTCAGCGGGGAGGAAGGGAGTAAAGTTAATACCTTTGCTCATTGACGTTACCCGCAGAAGAAGCACCGGCTAACTCCGTGCCAGCAGCCGCGGTAATACGGAGGGTGCAAGCGTTAATCGGAATTACTGGGCGTAAAGCGCACGCAGGCGGTTTGTTAAGTCAGATG criterion=fanout-score sequence-density=0.04 sequence-density-rank=37 fanout-score=142.15 fanout-score-rank=1 prefix-density=6.07 prefix-fanout=1.0 sequence=GCCGCGGTAATTCCAGCTCCAATAGCGTATATTTAAGTTGTTGCAGTTAAAAAGCTCGTAGTTGGACTTTGGGCCGGGTCGGCCGGTCCGCCTCACGGCGAGCACCGACCTACTCGACCCTTCAGCCGGCGATGCGCTCCTAGCCTTAATTGGCCGGGTCGTGCCTCCGGCATCGTTACTTTGAAGAAATTAGAGTGCTCAAAGCAAGCCATCGCTCTGGATACATTAGCATGGGATAACATCATAGGATTCCGGTCCTATTGTGTTGGCCTTCGGGATCGGAGTAATGATTAATAGGGACAGTCGGGGGCATTCGTATTTCATAGTCAGAGGTGAAATTCTTGGATTTATGAAAGACGAACAACTGCGAAAGCATTTGCCAAGGATGTTTTCATTAATCAAGAACGAAAGTTGGGGGCTCGAAGACGATCAGATACCGTCCTAGTCTCAACCATAAACGATGCCGACCAGGGATCGGCGGATGTTGCTTATAGGACTCCGCCGGCACCTT SRR7473336 testing PE reads STAR mapping to Ensembl genome Started job on | Dec 07 14:01:40 Started mapping on | Dec 07 14:01:40 Finished on | Dec 07 14:29:55 Mapping speed, Million of reads per hour | 33.07 Number of input reads | 15572413 Average input read length | 284 UNIQUE READS: Uniquely mapped reads number | 3244002 Uniquely mapped reads % | 20.83% Average mapped length | 289.50 Number of splices: Total | 2328096 Number of splices: Annotated (sjdb) | 2186135 Number of splices: GT/AG | 2297052 Number of splices: GC/AG | 26246 Number of splices: AT/AC | 1086 Number of splices: Non-canonical | 3712 Mismatch rate per base, % | 0.13% Deletion rate per base | 0.01% Deletion average length | 1.50 Insertion rate per base | 0.01% Insertion average length | 1.17 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 174612 % of reads mapped to multiple loci | 1.12% Number of reads mapped to too many loci | 42465 % of reads mapped to too many loci | 0.27% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 71.75% % of reads unmapped: other | 6.02% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 12159787 12159787 12159787 N_multimapping 174612 174612 174612 N_noFeature 187690 3129722 220202 N_ambiguous 91738 1818 10823 UnstrandedReadsAssigned:2964574 PositiveStrandReadsAssigned:112462 NegativeStrandReadsAssigned:3012977 Dataset is classified negative stranded MeadianReadLen=151 20thPercentileLength=138 echo kmer=133 SRR7473336 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: SRR7473336-trimmed-pair1.fastq SRR7473336-trimmed-pair2.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 15,572,413 reads, 3,246,589 reads pseudoaligned [quant] estimated average fragment length: 223.417 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,039 rounds 52973 SRR7473336.ke.tsv 35125 SRR7473336.se.tsv 88098 total ==> SRR7473336.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 713.852 0.000511329 0.000286645 PNS24247 1044 821.583 0 0 PNS24249 1928 1705.58 0 0 PNS24246 1044 821.583 0 0 PNS24248 1044 821.583 0 0 PNS24244 1471 1248.58 43.9995 14.1021 PNS24243 293 109.128 0 0 KQK14069 1603 1380.58 48 13.9133 KQK14071 474 262.232 0 0 ==> SRR7473336.se.tsv <== BRADI_1g14170v3 48 BRADI_1g53295v3 11 BRADI_1g59795v3 47 BRADI_1g07683v3 0 BRADI_1g00485v3 3 BRADI_1g20270v3 257 BRADI_1g74790v3 17 BRADI_1g09890v3 0 BRADI_1g77505v3 64 BRADI_1g48960v3 0 SRR7473336 completed mapping pipeline successfully