Starting /dee2/code/volunteer_pipeline.sh SRR7473348 current disk space = 1543044304896 free memory = 1599791352 SRR7473348 SRAfilesize 5408e65e6cc70faaa0cac0aa2b51f203 SRR7473348.sra SRR7473348.sra file validated SRR7473348 is paired end SRR7473348 is conventional basespace SRR7473348 read1 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR7473348_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 50 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 33.564 34.0 34.0 34.0 33.0 34.0 2 33.586 34.0 34.0 34.0 33.0 34.0 3 33.62075 34.0 34.0 34.0 33.0 34.0 4 33.53025 34.0 34.0 34.0 33.0 34.0 5 33.6025 34.0 34.0 34.0 33.0 34.0 6 37.3775 38.0 38.0 38.0 37.0 38.0 7 37.59075 38.0 38.0 38.0 38.0 38.0 8 37.689 38.0 38.0 38.0 38.0 38.0 9 37.698 38.0 38.0 38.0 38.0 38.0 10-14 37.641200000000005 38.0 38.0 38.0 38.0 38.0 15-19 37.6793 38.0 38.0 38.0 38.0 38.0 20-24 37.7143 38.0 38.0 38.0 38.0 38.0 25-29 37.64295 38.0 38.0 38.0 38.0 38.0 30-34 37.557100000000005 38.0 38.0 38.0 38.0 38.0 35-39 37.48475 38.0 38.0 38.0 37.8 38.0 40-44 37.4589 38.0 38.0 38.0 38.0 38.0 45-49 37.45575 38.0 38.0 38.0 38.0 38.0 50-54 37.3934 38.0 38.0 38.0 37.6 38.0 55-59 37.21165 38.0 38.0 38.0 37.0 38.0 60-64 37.281 38.0 38.0 38.0 37.0 38.0 65-69 36.9623 38.0 38.0 38.0 36.0 38.0 70-74 37.2274 38.0 38.0 38.0 37.2 38.0 75-79 36.78874999999999 38.0 38.0 38.0 36.8 38.0 80-84 36.713550000000005 38.0 38.0 38.0 36.4 38.0 85-89 36.616550000000004 38.0 38.0 38.0 36.2 38.0 90-94 36.50175 38.0 38.0 38.0 35.6 38.0 95-99 36.467549999999996 38.0 38.0 38.0 35.2 38.0 100-104 36.35165 38.0 38.0 38.0 35.0 38.0 105-109 36.2966 38.0 38.0 38.0 34.8 38.0 110-114 36.1807 38.0 38.0 38.0 34.2 38.0 115-119 36.021 38.0 38.0 38.0 34.0 38.0 120-124 35.90875 38.0 38.0 38.0 33.8 38.0 125-129 35.5184 38.0 37.6 38.0 32.0 38.0 130-134 35.17185 38.0 36.6 38.0 30.4 38.0 135-139 34.5801 38.0 35.4 38.0 26.4 38.0 140-144 34.50895 38.0 35.6 38.0 27.8 38.0 145-149 34.056850000000004 38.0 34.6 38.0 25.8 38.0 150-151 29.590375 35.5 27.0 38.0 7.5 38.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 9 1.0 10 0.0 11 1.0 12 1.0 13 1.0 14 6.0 15 9.0 16 3.0 17 2.0 18 24.0 19 30.0 20 4.0 21 6.0 22 4.0 23 1.0 24 8.0 25 8.0 26 15.0 27 15.0 28 20.0 29 20.0 30 26.0 31 35.0 32 41.0 33 61.0 34 84.0 35 177.0 36 504.0 37 2893.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 37.175000000000004 10.95 9.65 42.225 2 23.674999999999997 14.725 30.75 30.85 3 21.725 17.325 25.775 35.175 4 26.025 23.474999999999998 21.2 29.299999999999997 5 28.475 28.075 21.5 21.95 6 21.45 29.425 26.700000000000003 22.425 7 16.225 21.975 40.825 20.974999999999998 8 18.475 21.85 29.475 30.2 9 18.5 20.3 32.25 28.95 10-14 21.48 23.669999999999998 24.855 29.995 15-19 21.865000000000002 23.87 26.040000000000003 28.225 20-24 22.335 24.93 25.22 27.515 25-29 21.245 24.32 25.77 28.665000000000003 30-34 21.915000000000003 23.93 25.074999999999996 29.080000000000002 35-39 21.990000000000002 24.25 26.77 26.99 40-44 22.63 23.815 25.41 28.144999999999996 45-49 23.244999999999997 23.200000000000003 25.900000000000002 27.655 50-54 22.775000000000002 24.385 24.73 28.110000000000003 55-59 21.645 23.189999999999998 26.63 28.535 60-64 21.65 23.064999999999998 27.05 28.235 65-69 21.22 24.755 25.515 28.51 70-74 21.68 25.905 24.87 27.544999999999998 75-79 21.705 26.185000000000002 23.724999999999998 28.384999999999998 80-84 22.065 24.995 25.380000000000003 27.560000000000002 85-89 22.16 24.52 24.365000000000002 28.955 90-94 22.785 23.73 24.474999999999998 29.01 95-99 22.58 24.535 25.064999999999998 27.82 100-104 22.745 25.525 24.16 27.57 105-109 22.305 24.815 23.755000000000003 29.125 110-114 23.28 24.605 24.235 27.88 115-119 22.52 24.955 24.46 28.065 120-124 22.24 25.595000000000002 23.325000000000003 28.84 125-129 23.405 24.279999999999998 24.845 27.47 130-134 23.09887359198999 26.04255319148936 24.155193992490613 26.703379224030037 135-139 22.15829497698619 25.24014408645187 24.504702821693016 28.096858114868922 140-144 23.674999999999997 24.93 23.255 28.139999999999997 145-149 23.799999999999997 24.995 23.935000000000002 27.27 150-151 23.1125 24.65 23.0625 29.175 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 1.0 1 0.5 2 0.0 3 0.0 4 0.0 5 0.0 6 0.0 7 0.0 8 0.0 9 0.0 10 0.0 11 0.0 12 0.0 13 0.0 14 0.0 15 0.0 16 0.0 17 0.0 18 0.0 19 0.0 20 0.0 21 0.0 22 2.0 23 2.5 24 1.0 25 2.0 26 2.0 27 4.0 28 7.0 29 7.5 30 11.5 31 16.0 32 19.0 33 27.0 34 35.5 35 42.0 36 52.5 37 62.0 38 70.5 39 72.5 40 75.0 41 87.5 42 102.0 43 110.0 44 122.5 45 123.0 46 106.0 47 112.0 48 130.5 49 150.0 50 147.0 51 145.0 52 184.0 53 247.5 54 272.5 55 256.5 56 210.0 57 170.5 58 146.0 59 110.5 60 95.5 61 85.0 62 77.5 63 52.0 64 34.0 65 34.0 66 29.5 67 24.5 68 24.0 69 23.5 70 16.5 71 15.5 72 15.5 73 8.5 74 5.0 75 5.0 76 3.0 77 1.5 78 1.5 79 1.0 80 0.5 81 1.0 82 0.5 83 0.0 84 0.0 85 0.0 86 0.0 87 0.0 88 0.0 89 0.0 90 0.0 91 0.0 92 0.0 93 0.0 94 0.0 95 0.0 96 0.0 97 0.0 98 0.0 99 0.0 100 0.0 >>END_MODULE >>Per base N content pass #Base N-Count 1 0.0 2 0.0 3 0.0 4 0.0 5 0.0 6 0.0 7 0.0 8 0.0 9 0.0 10-14 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 0.125 135-139 0.06 140-144 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 74.7 #Duplication Level Percentage of deduplicated Percentage of total 1 87.61713520749666 65.45 2 6.526104417670683 9.75 3 2.242302543507363 5.025 4 1.0040160642570282 3.0 5 0.9036144578313252 3.375 6 0.535475234270415 2.4 7 0.2677376171352075 1.4000000000000001 8 0.1004016064257028 0.6 9 0.16733601070950468 1.125 >10 0.6358768406961178 7.875 >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 fail #Sequence Count Percentage Possible Source GATCGGAAGAGCACACGTCTGAACTCCAGTCACATGTCAATCTCGTATGC 50 1.25 TruSeq Adapter, Index 15 (98% over 50bp) GTCGGTTCGGTCCTCCAGTTAGTGTTACCCAACCTTCAACCTGCCCATGG 35 0.8750000000000001 No Hit GGCCAACATAGCCTTCTCCGTCCCCCCTTCGCAGTAACACCAAGTACAGG 19 0.475 No Hit CTCCGTCCCCCCTTCGCAGTAACACCAAGTACAGGAATATTAACCTGTTT 19 0.475 No Hit CCCCACTGCTGCCTCCCGTAGGAGTCTGGACCGTGTCTCAGTTCCAGTGT 18 0.44999999999999996 No Hit CCCACTGCTGCCTCCCGTAGGAGTCTGGACCGTGTCTCAGTTCCAGTGTG 17 0.42500000000000004 No Hit CCCACGCTTTCGCACCTGAGCGTCAGTCTTCGTCCAGGGGGCCGCCTTCG 15 0.375 No Hit GTTGATTTCTTTTCCTCGGGGTACTTAGATGTTTCAGTTCCCCCGGTTCG 15 0.375 No Hit CAGTAATTCCGATTAACGCTTGCACCCTCCGTATTACCGCGGCTGCTGGC 14 0.35000000000000003 No Hit CCGGGAACGTATTCACCGTGGCATTCTGATCCACGATTACTAGCGATTCC 13 0.325 No Hit CGGGGATTTCACATCTGACTTAACAAACCGCCTGCGTGCGCTTTACGCCC 13 0.325 No Hit CCACGCTTTCGCACCTGAGCGTCAGTCTTCGTCCAGGGGGCCGCCTTCGC 12 0.3 No Hit ATCGGAAGAGCACACGTCTGAACTCCAGTCACATGTCAATCTCGTATGCC 11 0.27499999999999997 TruSeq Adapter, Index 15 (98% over 50bp) CCCCGGTTCGCCTCATTAACCTATGGATTCAGTTAATGATAGTGTGTCGA 11 0.27499999999999997 No Hit CTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCG 11 0.27499999999999997 No Hit CGGGAACGTATTCACCGTGGCATTCTGATCCACGATTACTAGCGATTCCG 11 0.27499999999999997 No Hit CTTCGCAGTAACACCAAGTACAGGAATATTAACCTGTTTCCCATCGACTA 11 0.27499999999999997 No Hit GTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTC 10 0.25 No Hit CGTCAATTCATTTGAGTTTTAACCTTGCGGCCGTACTCCCCAGGCGGTCG 10 0.25 No Hit CCACTGCTGCCTCCCGTAGGAGTCTGGACCGTGTCTCAGTTCCAGTGTGG 9 0.22499999999999998 No Hit CCCGGTTCGCCTCATTAACCTATGGATTCAGTTAATGATAGTGTGTCGAA 9 0.22499999999999998 No Hit CGGTATTCCTCCAGATCTCTACGCATTTCACCGCTACACCTGGAATTCTA 9 0.22499999999999998 No Hit GGGGATTTCACATCTGACTTAACAAACCGCCTGCGTGCGCTTTACGCCCA 9 0.22499999999999998 No Hit GTTCGGTCCTCCAGTTAGTGTTACCCAACCTTCAACCTGCCCATGGCTAG 9 0.22499999999999998 No Hit CCTCCATCAGGCAGTTTCCCAGACATTACTCACCCGTCCGCCACTCGTCA 8 0.2 No Hit GCCGGTGCTTCTTCTGCGGGTAACGTCAATGAGCAAAGGTATTAACTTTA 8 0.2 No Hit AGTAATTCCGATTAACGCTTGCACCCTCCGTATTACCGCGGCTGCTGGCA 8 0.2 No Hit CCGGTATTCCTCCAGATCTCTACGCATTTCACCGCTACACCTGGAATTCT 7 0.17500000000000002 No Hit CTCCATCAGGCAGTTTCCCAGACATTACTCACCCGTCCGCCACTCGTCAG 7 0.17500000000000002 No Hit CACCGGTATTCCTCCAGATCTCTACGCATTTCACCGCTACACCTGGAATT 7 0.17500000000000002 No Hit GGCCTTTCACCCCCAGCCACAAGTCATCCGCTAATTTTTCAACATTAGTC 7 0.17500000000000002 No Hit GTACAAGGCCCGGGAACGTATTCACCGTGGCATTCTGATCCACGATTACT 7 0.17500000000000002 No Hit GCCAACATAGCCTTCTCCGTCCCCCCTTCGCAGTAACACCAAGTACAGGA 7 0.17500000000000002 No Hit CCCATATTCAGACAGGATACCACGTGTCCCGCCCTACTCATCGAGCTCAC 7 0.17500000000000002 No Hit GTCCCCCCTTCGCAGTAACACCAAGTACAGGAATATTAACCTGTTTCCCA 7 0.17500000000000002 No Hit GCCTTTCACCCCCAGCCACAAGTCATCCGCTAATTTTTCAACATTAGTCG 6 0.15 No Hit GTACGATTTGATGTTACCTGATGCTTAGAGGCTTTTCCTGGAAGCAGGGC 6 0.15 No Hit CCTCACGGTACTGGTTCACTATCGGTCAGTCAGGAGTATTTAGCCTTGGA 6 0.15 No Hit CTCTACGAGACTCAAGCTTGCCAGTATCAGATGCAGTTCCCAGGTTGAGC 6 0.15 No Hit GCTTGCACCCTCCGTATTACCGCGGCTGCTGGCACGGAGTTAGCCGGTGC 6 0.15 No Hit CTTTGGTCTTGCGACGTTATGCGGTATTAGCTACCGTTTCCAGTAGTTAT 6 0.15 No Hit CCCCTTCGCAGTAACACCAAGTACAGGAATATTAACCTGTTTCCCATCGA 6 0.15 No Hit TGGAATTCTACCCCCCTCTACGAGACTCAAGCTTGCCAGTATCAGATGCA 6 0.15 No Hit GGTGCTTCTTCTGCGGGTAACGTCAATGAGCAAAGGTATTAACTTTACTC 6 0.15 No Hit ATCGGAAGAGCACACGTCTGAACTCCAGTCACATGTCAAACTCGTATGCC 6 0.15 TruSeq Adapter, Index 15 (97% over 38bp) GTCAGTCTTCGTCCAGGGGGCCGCCTTCGCCACCGGTATTCCTCCAGATC 6 0.15 No Hit CCCCCCTCTACGAGACTCAAGCTTGCCAGTATCAGATGCAGTTCCCAGGT 6 0.15 No Hit AACGCTTGCACCCTCCGTATTACCGCGGCTGCTGGCACGGAGTTAGCCGG 6 0.15 No Hit CTTTCACCCCCAGCCACAAGTCATCCGCTAATTTTTCAACATTAGTCGGT 6 0.15 No Hit CGATTAACGCTTGCACCCTCCGTATTACCGCGGCTGCTGGCACGGAGTTA 6 0.15 No Hit CCCAGTAATTCCGATTAACGCTTGCACCCTCCGTATTACCGCGGCTGCTG 6 0.15 No Hit GCCACCGGTATTCCTCCAGATCTCTACGCATTTCACCGCTACACCTGGAA 5 0.125 No Hit CTGGAATTCTACCCCCCTCTACGAGACTCAAGCTTGCCAGTATCAGATGC 5 0.125 No Hit GTGCTTCTTCTGCGGGTAACGTCAATGAGCAAAGGTATTAACTTTACTCC 5 0.125 No Hit GCCGCCTTCGCCACCGGTATTCCTCCAGATCTCTACGCATTTCACCGCTA 5 0.125 No Hit CTCCAATCCGGACTACGACGCACTTTATGAGGTCCGCTTGCTCTCGCGAG 5 0.125 No Hit GTGCGCTTTACGCCCAGTAATTCCGATTAACGCTTGCACCCTCCGTATTA 5 0.125 No Hit GCCTTCTCCGTCCCCCCTTCGCAGTAACACCAAGTACAGGAATATTAACC 5 0.125 No Hit CCATATTCAGACAGGATACCACGTGTCCCGCCCTACTCATCGAGCTCACA 5 0.125 No Hit GCTCTACCCCCGGAGATGAATTCACGAGGCGCTACCTAAATAGCTTTCGG 5 0.125 No Hit CCTTGGTCTTCCGGCGAGCGGGCTTTTCACCCGCTTTATCGTTACTTATG 5 0.125 No Hit CTCCGTATTACCGCGGCTGCTGGCACGGAGTTAGCCGGTGCTTCTTCTGC 5 0.125 No Hit CGCTTGCACCCTCCGTATTACCGCGGCTGCTGGCACGGAGTTAGCCGGTG 5 0.125 No Hit CGCTACACCTGGAATTCTACCCCCCTCTACGAGACTCAAGCTTGCCAGTA 5 0.125 No Hit CTTCGCCACCGGTATTCCTCCAGATCTCTACGCATTTCACCGCTACACCT 5 0.125 No Hit CTCCAGTTAGTGTTACCCAACCTTCAACCTGCCCATGGCTAGATCACCGG 5 0.125 No Hit GCTTCTTCTGCGGGTAACGTCAATGAGCAAAGGTATTAACTTTACTCCCT 5 0.125 No Hit CTTTCCCTCACGGTACTGGTTCACTATCGGTCAGTCAGGAGTATTTAGCC 5 0.125 No Hit GCGGTATTAGCTACCGTTTCCAGTAGTTATCCCCCTCCATCAGGCAGTTT 5 0.125 No Hit GATTAACGCTTGCACCCTCCGTATTACCGCGGCTGCTGGCACGGAGTTAG 5 0.125 No Hit CACCGCTACACCTGGAATTCTACCCCCCTCTACGAGACTCAAGCTTGCCA 5 0.125 No Hit GTCAGTCAGGAGTATTTAGCCTTGGAGGATGGTCCCCCCATATTCAGACA 5 0.125 No Hit GGAGTTAGCCGGTGCTTCTTCTGCGGGTAACGTCAATGAGCAAAGGTATT 5 0.125 No Hit GCCTCATTAACCTATGGATTCAGTTAATGATAGTGTGTCGAAACACACTG 5 0.125 No Hit CCGTATTACCGCGGCTGCTGGCACGGAGTTAGCCGGTGCTTCTTCTGCGG 5 0.125 No Hit CGGCCAACATAGCCTTCTCCGTCCCCCCTTCGCAGTAACACCAAGTACAG 5 0.125 No Hit CCCCCCTTCGCAGTAACACCAAGTACAGGAATATTAACCTGTTTCCCATC 5 0.125 No Hit GCCTTCGCCACCGGTATTCCTCCAGATCTCTACGCATTTCACCGCTACAC 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 0.05 0.0 0.0 0.0 0.0 2 0.05 0.0 0.0 0.0 0.0 3 0.05 0.0 0.0 0.0 0.0 4 0.05 0.0 0.0 0.0 0.0 5 0.05 0.0 0.0 0.0 0.0 6 0.05 0.0 0.0 0.0 0.0 7 0.05 0.0 0.0 0.0 0.0 8 0.05 0.0 0.0 0.0 0.0 9 0.05 0.0 0.0 0.0 0.0 10-11 0.05 0.0 0.0 0.0 0.0 12-13 0.05 0.0 0.0 0.0 0.0 14-15 0.05 0.0 0.0 0.0 0.0 16-17 0.05 0.0 0.0 0.0 0.0 18-19 0.05 0.0 0.0 0.0 0.0 20-21 0.05 0.0 0.0 0.0 0.0 22-23 0.05 0.0 0.0 0.0 0.0 24-25 0.05 0.0 0.0 0.0 0.0 26-27 0.05 0.0 0.0 0.0 0.0 28-29 0.05 0.0 0.0 0.0 0.0 30-31 0.0625 0.0 0.0 0.0 0.0 32-33 0.075 0.0 0.0 0.0 0.0 34-35 0.075 0.0 0.0 0.0 0.0 36-37 0.075 0.0 0.0 0.0 0.0 38-39 0.075 0.0 0.0 0.0 0.0 40-41 0.075 0.0 0.0 0.0 0.0 42-43 0.075 0.0 0.0 0.0 0.0 44-45 0.075 0.0 0.0 0.0 0.0 46-47 0.075 0.0 0.0 0.0 0.0 48-49 0.075 0.0 0.0 0.0 0.0 50-51 0.075 0.0 0.0 0.0 0.0 52-53 0.075 0.0 0.0 0.0 0.0 54-55 0.075 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 0.1 0.0 0.0 0.0 0.0 62-63 0.125 0.0 0.0 0.0 0.0 64-65 0.15 0.0 0.0 0.0 0.0 66-67 0.16249999999999998 0.0 0.0 0.0 0.0 68-69 0.2 0.0 0.0 0.0 0.0 70-71 0.21250000000000002 0.0 0.0 0.0 0.0 72-73 0.25 0.0 0.0 0.0 0.0 74-75 0.275 0.0 0.0 0.0 0.0 76-77 0.35 0.0 0.0 0.0 0.0 78-79 0.4125 0.0 0.0 0.0 0.0 80-81 0.44999999999999996 0.0 0.0 0.0 0.0 82-83 0.525 0.0 0.0 0.0 0.0 84-85 0.6375 0.0 0.0 0.0 0.0 86-87 0.8125 0.0 0.0 0.0 0.0 88-89 1.0125000000000002 0.0 0.0 0.0 0.0 90-91 1.3125 0.0 0.0 0.0 0.0 92-93 1.6625 0.0 0.0 0.0 0.0 94-95 1.9875 0.0 0.0 0.0 0.0 96-97 2.3625 0.0 0.0 0.0 0.0 98-99 2.6500000000000004 0.0 0.0 0.0 0.0 100-101 2.9625 0.0 0.0 0.0 0.0 102-103 3.4000000000000004 0.0 0.0 0.0 0.0 104-105 3.8125 0.0 0.0 0.0 0.0 106-107 4.425 0.0 0.0 0.0 0.0 108-109 4.9375 0.0 0.0 0.0 0.0 110-111 5.625 0.0 0.0 0.0 0.0 112-113 6.2875 0.0 0.0 0.0 0.0 114-115 6.9 0.0 0.0 0.0 0.0 116-117 7.475 0.0 0.0 0.0 0.0 118-119 8.075 0.0 0.0 0.0 0.0 120-121 8.7875 0.0 0.0 0.0 0.0 122-123 9.65 0.0 0.0 0.0 0.0 124-125 10.625 0.0 0.0 0.0 0.0 126-127 11.475000000000001 0.0 0.0 0.0 0.0 128-129 12.1625 0.0 0.0 0.0 0.0 130-131 12.8125 0.0 0.0 0.0 0.0 132-133 13.4125 0.0 0.0 0.0 0.0 134-135 14.412500000000001 0.0 0.0 0.0 0.0 136-137 15.6625 0.0 0.0 0.0 0.0 138-139 16.9 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position TTTCACA 40 0.005621335 54.375 7 ATTTCAC 45 0.008957279 48.333332 6 >>END_MODULE SRR7473348 read2 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR7473348_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 33.24575 34.0 33.0 34.0 33.0 34.0 2 33.29 34.0 33.0 34.0 33.0 34.0 3 33.26075 34.0 33.0 34.0 33.0 34.0 4 33.09775 34.0 33.0 34.0 33.0 34.0 5 33.295 34.0 33.0 34.0 33.0 34.0 6 36.856 38.0 38.0 38.0 36.0 38.0 7 37.17375 38.0 38.0 38.0 37.0 38.0 8 37.17775 38.0 38.0 38.0 38.0 38.0 9 37.3015 38.0 38.0 38.0 38.0 38.0 10-14 37.24055 38.0 38.0 38.0 38.0 38.0 15-19 37.191250000000004 38.0 38.0 38.0 37.8 38.0 20-24 37.1713 38.0 38.0 38.0 37.6 38.0 25-29 37.29600000000001 38.0 38.0 38.0 38.0 38.0 30-34 37.3492 38.0 38.0 38.0 38.0 38.0 35-39 37.30915 38.0 38.0 38.0 38.0 38.0 40-44 37.2889 38.0 38.0 38.0 38.0 38.0 45-49 37.19385 38.0 38.0 38.0 37.6 38.0 50-54 37.27605 38.0 38.0 38.0 38.0 38.0 55-59 37.3485 38.0 38.0 38.0 38.0 38.0 60-64 37.3215 38.0 38.0 38.0 38.0 38.0 65-69 37.052350000000004 38.0 38.0 38.0 37.4 38.0 70-74 36.6488 38.0 38.0 38.0 37.2 38.0 75-79 36.5989 38.0 38.0 38.0 37.0 38.0 80-84 36.54425 38.0 38.0 38.0 37.0 38.0 85-89 36.42545 38.0 38.0 38.0 36.0 38.0 90-94 36.37945 38.0 38.0 38.0 35.6 38.0 95-99 36.2896 38.0 38.0 38.0 35.2 38.0 100-104 36.19455000000001 38.0 38.0 38.0 35.0 38.0 105-109 36.0182 38.0 38.0 38.0 34.2 38.0 110-114 35.5105 38.0 38.0 38.0 32.4 38.0 115-119 35.602 38.0 38.0 38.0 33.0 38.0 120-124 34.995850000000004 38.0 36.4 38.0 27.6 38.0 125-129 35.0325 38.0 36.6 38.0 30.6 38.0 130-134 34.822849999999995 38.0 36.0 38.0 29.4 38.0 135-139 34.471050000000005 38.0 36.0 38.0 27.8 38.0 140-144 33.809999999999995 38.0 35.2 38.0 22.6 38.0 145-149 33.006150000000005 38.0 33.2 38.0 12.2 38.0 150-151 27.806874999999998 34.5 17.5 38.0 2.0 38.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 2 5.0 3 3.0 4 2.0 5 0.0 6 1.0 7 2.0 8 0.0 9 0.0 10 6.0 11 13.0 12 4.0 13 0.0 14 6.0 15 3.0 16 12.0 17 44.0 18 5.0 19 6.0 20 4.0 21 4.0 22 7.0 23 3.0 24 12.0 25 13.0 26 16.0 27 13.0 28 18.0 29 26.0 30 34.0 31 32.0 32 41.0 33 75.0 34 105.0 35 188.0 36 517.0 37 2780.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 42.65 17.150000000000002 11.375 28.825 2 33.300000000000004 19.575 26.474999999999998 20.65 3 26.224999999999998 22.85 25.924999999999997 25.0 4 29.925 31.324999999999996 17.724999999999998 21.025 5 32.425 31.974999999999998 16.5 19.1 6 26.325 36.075 16.900000000000002 20.7 7 23.525 19.275000000000002 33.25 23.95 8 26.8 23.25 21.725 28.225 9 28.249999999999996 23.200000000000003 23.225 25.324999999999996 10-14 28.59 25.480000000000004 20.57 25.36 15-19 30.235 23.775 22.220000000000002 23.77 20-24 30.990000000000002 25.080000000000002 21.39 22.54 25-29 28.15 26.565 22.605 22.68 30-34 29.395 26.150000000000002 21.92 22.535 35-39 30.11 24.515 22.395 22.98 40-44 31.46 24.705 22.16 21.675 45-49 29.475 25.324999999999996 22.470000000000002 22.73 50-54 28.575 24.925 23.72 22.78 55-59 29.220000000000002 25.615 23.805 21.36 60-64 27.76 26.06 22.725 23.455000000000002 65-69 28.575 25.915 23.09 22.42 70-74 29.56 26.445 22.97 21.025 75-79 28.095 26.384999999999998 23.13 22.39 80-84 29.404999999999998 25.66 23.0 21.935 85-89 28.884999999999998 25.490000000000002 23.085 22.54 90-94 29.125 26.015 23.330000000000002 21.529999999999998 95-99 28.22 27.05 22.925 21.805 100-104 29.310000000000002 25.945 22.765 21.98 105-109 28.24 26.41 22.56 22.79 110-114 29.50795079507951 26.92269226922692 22.50725072507251 21.062106210621064 115-119 29.805 27.700000000000003 21.875 20.62 120-124 28.73 26.83 23.465 20.974999999999998 125-129 28.395 26.974999999999998 23.294999999999998 21.335 130-134 29.725 26.63 22.175 21.47 135-139 29.770000000000003 26.625 22.134999999999998 21.47 140-144 29.985 26.290000000000003 22.475 21.25 145-149 30.31 27.450000000000003 21.634999999999998 20.605 150-151 30.825000000000003 27.187499999999996 21.125 20.8625 >>END_MODULE >>Per sequence GC content warn #GC Content Count 0 1.0 1 0.5 2 0.0 3 0.0 4 0.0 5 0.0 6 0.0 7 0.0 8 0.0 9 0.0 10 0.0 11 0.0 12 0.0 13 0.0 14 0.0 15 0.0 16 0.0 17 0.0 18 0.5 19 0.5 20 3.5 21 5.5 22 4.0 23 4.5 24 3.0 25 1.5 26 1.5 27 2.5 28 8.0 29 8.5 30 7.5 31 8.0 32 10.5 33 15.5 34 21.5 35 30.0 36 30.5 37 36.5 38 42.5 39 49.5 40 66.0 41 82.5 42 83.0 43 81.0 44 88.0 45 94.0 46 103.0 47 104.0 48 124.0 49 150.5 50 166.5 51 168.5 52 192.5 53 266.0 54 293.5 55 282.5 56 242.0 57 168.0 58 131.5 59 118.5 60 93.5 61 84.0 62 94.0 63 82.5 64 57.5 65 39.0 66 32.0 67 37.5 68 38.5 69 32.5 70 27.5 71 20.0 72 13.5 73 13.0 74 11.0 75 7.5 76 6.0 77 3.5 78 2.0 79 1.0 80 0.5 81 0.5 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 0.0 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 0.01 115-119 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 75.625 #Duplication Level Percentage of deduplicated Percentage of total 1 88.03305785123968 66.57499999999999 2 6.446280991735537 9.75 3 2.479338842975207 5.625 4 1.1570247933884297 3.5000000000000004 5 0.5289256198347108 2.0 6 0.19834710743801653 0.8999999999999999 7 0.2644628099173554 1.4000000000000001 8 0.1652892561983471 1.0 9 0.06611570247933884 0.44999999999999996 >10 0.628099173553719 7.475 >50 0.03305785123966942 1.325 >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 53 1.325 Illumina Single End PCR Primer 1 (100% over 50bp) GCCTGATGCAGCCATGCCGCGTGTATGAAGAAGGCCTTCGGGTTGTAAAG 33 0.8250000000000001 No Hit CTCAGATTGAACGCTGGCGGCAGGCCTAACACATGCAAGTCGAACGGTAA 28 0.7000000000000001 No Hit CCTACGGGAGGCAGCAGTGGGGAATATTGCACAATGGGCGCAAGCCTGAT 24 0.6 No Hit GCGACTTATATTCTGTAGCAAGGTTAACCGAATAGGGGAGCCGAAGGGAA 23 0.575 No Hit GGGAAACCGAGTCTTAACTGGGCGTTAAGTTGCAGGGTATAGACCCGAAA 21 0.525 No Hit GCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAG 16 0.4 No Hit CGGGAACTCAAAGGAGACTGCCAGTGATAAACTGGAGGAAGGTGGGGATG 16 0.4 No Hit GGTGAGTCGACCCCTAAGGCGAGGCCGAAAGGCGTAGTCGATGGGAAACA 16 0.4 No Hit GGTGGATGCCCTGGCAGTCAGAGGCGATGAAGGACGTGCTAATCTGCGAT 16 0.4 No Hit CTCCTACGGGAGGCAGCAGTGGGGAATATTGCACAATGGGCGCAAGCCTG 13 0.325 No Hit CAGCAGTGGGGAATATTGCACAATGGGCGCAAGCCTGATGCAGCCATGCC 11 0.27499999999999997 No Hit GTCAGATGTGAAATCCCCGGGCTCAACCTGGGAACTGCATCTGATACTGG 11 0.27499999999999997 No Hit GTGAGTCGACCCCTAAGGCGAGGCCGAAAGGCGTAGTCGATGGGAAACAG 11 0.27499999999999997 No Hit GACTCCTACGGGAGGCAGCAGTGGGGAATATTGCACAATGGGCGCAAGCC 10 0.25 No Hit CATGGCTCAGATTGAACGCTGGCGGCAGGCCTAACACATGCAAGTCGAAC 10 0.25 No Hit CAAGCCTGATGCAGCCATGCCGCGTGTATGAAGAAGGCCTTCGGGTTGTA 10 0.25 No Hit GTTTGATCATGGCTCAGATTGAACGCTGGCGGCAGGCCTAACACATGCAA 10 0.25 No Hit GGAATATTGCACAATGGGCGCAAGCCTGATGCAGCCATGCCGCGTGTATG 10 0.25 No Hit CGTTAATCGGAATTACTGGGCGTAAAGCGCACGCAGGCGGTTTGTTAAGT 10 0.25 No Hit GTGGATGCCCTGGCAGTCAGAGGCGATGAAGGACGTGCTAATCTGCGATA 9 0.22499999999999998 No Hit GTTAATACCTTTGCTCATTGACGTTACCCGCAGAAGAAGCACCGGCTAAC 9 0.22499999999999998 No Hit GTCCAACGTTAATCGGGGCAGGGTGAGTCGACCCCTAAGGCGAGGCCGAA 8 0.2 No Hit GGGGAATATTGCACAATGGGCGCAAGCCTGATGCAGCCATGCCGCGTGTA 8 0.2 No Hit AGCGCACGCAGGCGGTTTGTTAAGTCAGATGTGAAATCCCCGGGCTCAAC 8 0.2 No Hit GTTCGGTCCCTATCTGCCGTGGGCGCTGGAGAACTGAGGGGGGCTGCTCC 8 0.2 No Hit AGCGTACACGGTGGATGCCCTGGCAGTCAGAGGCGATGAAGGACGTGCTA 8 0.2 No Hit GGTTAACCGAATAGGGGAGCCGAAGGGAAACCGAGTCTTAACTGGGCGTT 7 0.17500000000000002 No Hit CGGTGGATGCCCTGGCAGTCAGAGGCGATGAAGGACGTGCTAATCTGCGA 7 0.17500000000000002 No Hit GTCCAGACTCCTACGGGAGGCAGCAGTGGGGAATATTGCACAATGGGCGC 7 0.17500000000000002 No Hit GCCTAACACATGCAAGTCGAACGGTAACAGGAAGAAGCTTGCTTCTTTGC 7 0.17500000000000002 No Hit CCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAGG 7 0.17500000000000002 No Hit TCCTACGGGAGGCAGCAGTGGGGAATATTGCACAATGGGCGCAAGCCTGA 7 0.17500000000000002 No Hit ACGGGAGGCAGCAGTGGGGAATATTGCACAATGGGCGCAAGCCTGATGCA 7 0.17500000000000002 No Hit CTTATATTCTGTAGCAAGGTTAACCGAATAGGGGAGCCGAAGGGAAACCG 7 0.17500000000000002 No Hit ATTGAACGCTGGCGGCAGGCCTAACACATGCAAGTCGAACGGTAACAGGA 6 0.15 No Hit GGGAGGCAGCAGTGGGGAATATTGCACAATGGGCGCAAGCCTGATGCAGC 6 0.15 No Hit GGGAACTCAAAGGAGACTGCCAGTGATAAACTGGAGGAAGGTGGGGATGA 6 0.15 No Hit AGAAGGCCTTCGGGTTGTAAAGTACTTTCAGCGGGGAGGAAGGGAGTAAA 6 0.15 No Hit GGAGGGTGCAAGCGTTAATCGGAATTACTGGGCGTAAAGCGCACGCAGGC 6 0.15 No Hit CCGGGAACTCAAAGGAGACTGCCAGTGATAAACTGGAGGAAGGTGGGGAT 6 0.15 No Hit CCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAGGG 5 0.125 No Hit GGCAGTCAGAGGCGATGAAGGACGTGCTAATCTGCGATAAGCGTCGGTAA 5 0.125 No Hit GCCTGATGGAGGGGGATAACTACTGGAAACGGTAGCTAATACCGCATAAC 5 0.125 No Hit AAACCATGCACCGAAGCTGCGGCAGCGACGCTTATGCGTTGTTGGGTAGG 5 0.125 No Hit CATGCACCGAAGCTGCGGCAGCGACGCTTATGCGTTGTTGGGTAGGGGAG 5 0.125 No Hit AGACTCCTACGGGAGGCAGCAGTGGGGAATATTGCACAATGGGCGCAAGC 5 0.125 No Hit AAGCCTGATGCAGCCATGCCGCGTGTATGAAGAAGGCCTTCGGGTTGTAA 5 0.125 No Hit GTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATC 5 0.125 No Hit CGGGAGGCAGCAGTGGGGAATATTGCACAATGGGCGCAAGCCTGATGCAG 5 0.125 No Hit GGGTGAGTCGACCCCTAAGGCGAGGCCGAAAGGCGTAGTCGATGGGAAAC 5 0.125 No Hit CGTGTACGTACAAGCAGTGGGAGCACGCTTAGGCGTGTGACTGCGTACCT 5 0.125 No Hit GTTAATCGGAATTACTGGGCGTAAAGCGCACGCAGGCGGTTTGTTAAGTC 5 0.125 No Hit GCACAATGGGCGCAAGCCTGATGCAGCCATGCCGCGTGTATGAAGAAGGC 5 0.125 No Hit CGGGCCTCTTGCCATCGGATGTGCCCAGATGGGATTAGCTAGTAGGTGGG 5 0.125 No Hit GTTAAGTCAGATGTGAAATCCCCGGGCTCAACCTGGGAACTGCATCTGAT 5 0.125 No Hit CTTCGGGCCTCTTGCCATCGGATGTGCCCAGATGGGATTAGCTAGTAGGT 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 0.05 0.0 0.0 0.0 0.0 2 0.05 0.0 0.0 0.0 0.0 3 0.05 0.0 0.0 0.0 0.0 4 0.05 0.0 0.0 0.0 0.0 5 0.05 0.0 0.0 0.0 0.0 6 0.05 0.0 0.0 0.0 0.0 7 0.05 0.0 0.0 0.0 0.0 8 0.05 0.0 0.0 0.0 0.0 9 0.05 0.0 0.0 0.0 0.0 10-11 0.05 0.0 0.0 0.0 0.0 12-13 0.0625 0.0 0.0 0.0 0.0 14-15 0.075 0.0 0.0 0.0 0.0 16-17 0.075 0.0 0.0 0.0 0.0 18-19 0.075 0.0 0.0 0.0 0.0 20-21 0.075 0.0 0.0 0.0 0.0 22-23 0.075 0.0 0.0 0.0 0.0 24-25 0.075 0.0 0.0 0.0 0.0 26-27 0.075 0.0 0.0 0.0 0.0 28-29 0.075 0.0 0.0 0.0 0.0 30-31 0.0875 0.0 0.0 0.0 0.0 32-33 0.1 0.0 0.0 0.0 0.0 34-35 0.1 0.0 0.0 0.0 0.0 36-37 0.1 0.0 0.0 0.0 0.0 38-39 0.1 0.0 0.0 0.0 0.0 40-41 0.1 0.0 0.0 0.0 0.0 42-43 0.1 0.0 0.0 0.0 0.0 44-45 0.1 0.0 0.0 0.0 0.0 46-47 0.1 0.0 0.0 0.0 0.0 48-49 0.1 0.0 0.0 0.0 0.0 50-51 0.1 0.0 0.0 0.0 0.0 52-53 0.1 0.0 0.0 0.0 0.0 54-55 0.1 0.0 0.0 0.0 0.0 56-57 0.1 0.0 0.0 0.0 0.0 58-59 0.1 0.0 0.0 0.0 0.0 60-61 0.125 0.0 0.0 0.0 0.0 62-63 0.175 0.0 0.0 0.0 0.0 64-65 0.21250000000000002 0.0 0.0 0.0 0.0 66-67 0.2625 0.0 0.0 0.0 0.0 68-69 0.325 0.0 0.0 0.0 0.0 70-71 0.3375 0.0 0.0 0.0 0.0 72-73 0.375 0.0 0.0 0.0 0.0 74-75 0.4 0.0 0.0 0.0 0.0 76-77 0.475 0.0 0.0 0.0 0.0 78-79 0.525 0.0 0.0 0.0 0.0 80-81 0.55 0.0 0.0 0.0 0.0 82-83 0.6125 0.0 0.0 0.0 0.0 84-85 0.7125 0.0 0.0 0.0 0.0 86-87 0.8875 0.0 0.0 0.0 0.0 88-89 1.0875 0.0 0.0 0.0 0.0 90-91 1.4 0.0 0.0 0.0 0.0 92-93 1.7625000000000002 0.0 0.0 0.0 0.0 94-95 2.075 0.0 0.0 0.0 0.0 96-97 2.4375 0.0 0.0 0.0 0.0 98-99 2.7375 0.0 0.0 0.0 0.0 100-101 3.075 0.0 0.0 0.0 0.0 102-103 3.5250000000000004 0.0 0.0 0.0 0.0 104-105 3.8875 0.0 0.0 0.0 0.0 106-107 4.5 0.0 0.0 0.0 0.0 108-109 5.0125 0.025 0.0 0.0 0.0 110-111 5.699999999999999 0.025 0.0 0.0 0.0 112-113 6.3125 0.025 0.0 0.0 0.0 114-115 6.925 0.025 0.0 0.0 0.0 116-117 7.5 0.025 0.0 0.0 0.0 118-119 8.0625 0.025 0.0 0.0 0.0 120-121 8.75 0.025 0.0 0.0 0.0 122-123 9.587499999999999 0.025 0.0 0.0 0.0 124-125 10.575 0.025 0.0 0.0 0.0 126-127 11.399999999999999 0.025 0.0 0.0 0.0 128-129 12.1375 0.025 0.0 0.0 0.0 130-131 12.774999999999999 0.025 0.0 0.0 0.0 132-133 13.4 0.025 0.0 0.0 0.0 134-135 14.412500000000001 0.025 0.0 0.0 0.0 136-137 15.6625 0.025 0.0 0.0 0.0 138-139 16.8875 0.025 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position TGATCAT 10 0.006830828 145.0 4 CCAGAGG 10 0.006830828 145.0 2 TCATGGC 10 0.006830828 145.0 7 TTGATCA 10 0.006830828 145.0 3 ATCATGG 10 0.006830828 145.0 6 TTTGATC 10 0.006830828 145.0 2 >>END_MODULE Read 903928 spots for SRR7473348.sra Written 903928 spots for SRR7473348.sra Read 903928 spots for SRR7473348.sra Written 903928 spots for SRR7473348.sra Read 903928 spots for SRR7473348.sra Written 903928 spots for SRR7473348.sra Read 903928 spots for SRR7473348.sra Written 903928 spots for SRR7473348.sra Read 903928 spots for SRR7473348.sra Written 903928 spots for SRR7473348.sra Read 903928 spots for SRR7473348.sra Written 903928 spots for SRR7473348.sra Read 903928 spots for SRR7473348.sra Written 903928 spots for SRR7473348.sra Read 903928 spots for SRR7473348.sra Written 903928 spots for SRR7473348.sra Read 903928 spots for SRR7473348.sra Written 903928 spots for SRR7473348.sra Read 903928 spots for SRR7473348.sra Written 903928 spots for SRR7473348.sra Read 903928 spots for SRR7473348.sra Written 903928 spots for SRR7473348.sra Read 903928 spots for SRR7473348.sra Written 903928 spots for SRR7473348.sra Read 903928 spots for SRR7473348.sra Written 903928 spots for SRR7473348.sra Read 903928 spots for SRR7473348.sra Written 903928 spots for SRR7473348.sra Read 903928 spots for SRR7473348.sra Written 903928 spots for SRR7473348.sra Read 903928 spots for SRR7473348.sra Written 903928 spots for SRR7473348.sra Read 903928 spots for SRR7473348.sra Written 903928 spots for SRR7473348.sra Read 903928 spots for SRR7473348.sra Written 903928 spots for SRR7473348.sra Read 903928 spots for SRR7473348.sra Written 903928 spots for SRR7473348.sra Read 903945 spots for SRR7473348.sra Written 903945 spots for SRR7473348.sra SRR ids: ['SRR7473348.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_rmzxv051 SRR7473348.sra spots: 18078577 blocks: [[1, 903928], [903929, 1807856], [1807857, 2711784], [2711785, 3615712], [3615713, 4519640], [4519641, 5423568], [5423569, 6327496], [6327497, 7231424], [7231425, 8135352], [8135353, 9039280], [9039281, 9943208], [9943209, 10847136], [10847137, 11751064], [11751065, 12654992], [12654993, 13558920], [13558921, 14462848], [14462849, 15366776], [15366777, 16270704], [16270705, 17174632], [17174633, 18078577]] SRR7473348 file size 6104536 SRR7473348 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 SRR7473348 SRR7473348_1.fastq SRR7473348_2.fastq Input file: SRR7473348_1.fastq Paired file: SRR7473348_2.fastq trimmed: SRR7473348-trimmed-pair1.fastq, SRR7473348-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 14:28:46 2024 >> started Sat Dec 7 14:29:15 2024 >> done (29.137s) 18078577 read pairs processed; of these: 33178 ( 0.18%) short read pairs filtered out after trimming by size control 280288 ( 1.55%) empty read pairs filtered out after trimming by size control 17765111 (98.27%) read pairs available; of these: 9555007 (53.79%) trimmed read pairs available after processing 8210104 (46.21%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 18 13 0.00% 19 28 0.00% 20 13 0.00% 21 13 0.00% 22 24 0.00% 23 27 0.00% 24 28 0.00% 25 31 0.00% 26 13 0.00% 27 24 0.00% 28 41 0.00% 29 48 0.00% 30 46 0.00% 31 59 0.00% 32 43 0.00% 33 49 0.00% 34 78 0.00% 35 71 0.00% 36 74 0.00% 37 79 0.00% 38 111 0.00% 39 105 0.00% 40 157 0.00% 41 145 0.00% 42 171 0.00% 43 166 0.00% 44 195 0.00% 45 268 0.00% 46 251 0.00% 47 289 0.00% 48 370 0.00% 49 362 0.00% 50 460 0.00% 51 491 0.00% 52 556 0.00% 53 566 0.00% 54 540 0.00% 55 613 0.00% 56 744 0.00% 57 788 0.00% 58 899 0.01% 59 962 0.01% 60 1087 0.01% 61 1311 0.01% 62 1446 0.01% 63 1418 0.01% 64 1797 0.01% 65 2325 0.01% 66 2593 0.01% 67 3433 0.02% 68 6082 0.03% 69 27484 0.15% 70 42467 0.24% 71 22720 0.13% 72 12696 0.07% 73 9166 0.05% 74 8333 0.05% 75 7289 0.04% 76 6964 0.04% 77 7050 0.04% 78 7643 0.04% 79 8533 0.05% 80 9151 0.05% 81 9925 0.06% 82 11386 0.06% 83 13449 0.08% 84 17505 0.10% 85 18062 0.10% 86 19676 0.11% 87 20678 0.12% 88 24511 0.14% 89 24079 0.14% 90 26206 0.15% 91 27854 0.16% 92 27300 0.15% 93 34610 0.19% 94 34311 0.19% 95 40482 0.23% 96 39406 0.22% 97 40542 0.23% 98 38733 0.22% 99 39942 0.22% 100 44966 0.25% 101 40654 0.23% 102 43829 0.25% 103 44442 0.25% 104 47682 0.27% 105 55004 0.31% 106 50994 0.29% 107 49619 0.28% 108 54022 0.30% 109 66467 0.37% 110 70210 0.40% 111 58671 0.33% 112 59515 0.34% 113 76534 0.43% 114 64057 0.36% 115 71565 0.40% 116 74763 0.42% 117 68597 0.39% 118 70197 0.40% 119 70386 0.40% 120 74670 0.42% 121 68778 0.39% 122 76313 0.43% 123 81540 0.46% 124 80443 0.45% 125 80445 0.45% 126 78343 0.44% 127 81571 0.46% 128 81987 0.46% 129 83895 0.47% 130 86504 0.49% 131 87739 0.49% 132 89725 0.51% 133 94078 0.53% 134 102529 0.58% 135 104262 0.59% 136 103069 0.58% 137 115849 0.65% 138 115859 0.65% 139 117800 0.66% 140 116996 0.66% 141 131092 0.74% 142 129807 0.73% 143 137226 0.77% 144 148936 0.84% 145 165258 0.93% 146 189609 1.07% 147 230626 1.30% 148 328240 1.85% 149 638028 3.59% 150 3641960 20.50% 151 8210104 46.21% 17765111 reads passed initial QC criterion=sequence-density sequence-density=1.52 sequence-density-rank=1 fanout-score=2.42 fanout-score-rank=24 prefix-density=1.52 prefix-fanout=2.4 sequence=ATTAGTCGGTTCGGTCCTCCAGTTAGTGTTACCCAACCTTCAACCTGCCCATGGCTAGATCACCGGGTTTCGGGTCTATACCCTGCAACTTAACGCCCAGTTAAGACTCGGTTTCCCTTCGGCTCCCCTATTCGGTTAACCTTGCTACAGAATATAAGTCGCTGACCCATTATACAAAAGGTACGCAGTCACACGCCTAAGCGTGCTCCCACTGCTTGTACGTACACGGTTTCAGGTTCTTTTTCACTCCCCTCGCCGGGGTTCTTTTCGCCTTTCCCTCACGGTACTGGTTCACTATCGGTCAGTCAGGAGTATTTAGCCTTGGAGGATGGTCCCCCCATATTCAGACAGGATACCACGTGTCCCGCCCTACTCATCGAGCTCACAGCATGTGCATTTTTGTGTACGGGGCTGTCACCCTGTATCGCGCGCCTTTCCAGACGCTTCCACTAACACACACACTGATTCAGGCTCTGGGCTGCTCCCCGTTCGCTCGCCGCTACTGGGGGAA criterion=fanout-score sequence-density=0.36 sequence-density-rank=20 fanout-score=9.15 fanout-score-rank=1 prefix-density=3.26 prefix-fanout=1.0 sequence=AAGAGGCCCGAGGGTCCCCCTCT criterion=sequence-density sequence-density=4.58 sequence-density-rank=1 fanout-score=1.93 fanout-score-rank=36 prefix-density=4.59 prefix-fanout=1.9 sequence=GCTGACGAGTGGCGGACGGGTGAGTAATGTCTGGGAAACTGCCTGATGGAGGGGGATAACTACTGGAAACGGTAGCTAATACCGCATAACGTCGCAAGACCAAAGAGGGGGACCTTCGGGCCTCTTGCCATCGGATGTGCCCAGATGGGATTAGCTAGTAGGTGGGGTAACGGCTCACCTAGGCGACGATCCCTAGCTGGTCTGAGAGGATGACCAGCCACACTGGAACTGAGACACGGTCCAGACTCCTACGGGAGGCAGCAGTGGGGAATATTGCACAATGGGCGCAAGCCTGATGCAGCCATGCCGCGTGTATGAAGAAGGCCTTCGGGTTGTAAAGTACTTTCAGCGGGGAGGAAGGGAGTAAAGTTAATACCTTTGCTCATTGACGTTACCCGCAGAAGAAGCACCGGCTAACTCCGTGCCAGCAGCCGCGGTAATACGGAGGGTGCAAGCGTTAATCGGAATTACTGGGCGTAAAGCGCACGCAGGCGGTTTGTTAAGTCAGATG criterion=fanout-score sequence-density=0.01 sequence-density-rank=36 fanout-score=35.92 fanout-score-rank=1 prefix-density=0.24 prefix-fanout=1.1 sequence=GGGTTGTGAGGTTAAGCGACTAAGCGTACACGGTGGATGCCCTGGCAGTCAGAGGCGATGAAGGACGTGCTAATCTGCGATAAGCGTCGGTAAGGTGATATGAACCGTTATAACCGGCGATTTCCGAATGGGGAAACCCAGTGTGTTTCGACACACTATCATTAACTGAATCCATAGGTTAATGAGGCGAACCGGGGGAACTGAAACATCTAAGTACCCCGAGGAAAAGAAATCAACCGAGATTCCCCCAGTAGCGGCGAGCGAACGGGGAGCAGCCCAGAGCCTGAATCAGTGTGTGTGTTAGTGGAAGCGTCTGGAAAGGCGCGCGATACAGGGTGACAGCCCCGTACACAAAAATGCACATGCTGTGAGCTCGATGAGTAGGGCGGGACACGTGGTATCCTGTCTGAATATGGGGGGACCATCCTCCAAGGCTAAATACTCCTGACTGACCGATAGTGAACCAGTACCGTGAGGGAAAGGCGAAAAGAACCCCGGCGAGGGGAGTGAA 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 ATTAGTCGGTTCGGTCCTCCAGTTAGTGTTACCCAACCTTCAACCTGCCCATGGCTAGATCACCGGGTTTCGGGTCTATACCCTGCAACTTAACGCCCAGTTAAGACTCGGTTTCCCTTCGGCTCCCCTATTCGGTTAACCTTGCTACAGAATATAAGTCGCTGACCCATTATACAAAAGGTACGCAGTCACACGCCTAAGCGTGCTCCCACTGCTTGTACGTACACGGTTTCAGGTTCTTTTTCACTCCCCTCGCCGGGGTTCTTTTCGCCTTTCCCTCACGGTACTGGTTCACTATCGGTCAGTCAGGAGTATTTAGCCTTGGAGGATGGTCCCCCCATATTCAGACAGGATACCACGTGTCCCGCCCTACTCATCGAGCTCACAGCATGTGCATTTTTGTGTACGGGGCTGTCACCCTGTATCGCGCGCCTTTCCAGACGCTTCCACTAACACACACACTGATTCAGGCTCTGGGCTGCTCCCCGTTCGCTCGCCGCTACTGGGGGAA -y GCTGACGAGTGGCGGACGGGTGAGTAATGTCTGGGAAACTGCCTGATGGAGGGGGATAACTACTGGAAACGGTAGCTAATACCGCATAACGTCGCAAGACCAAAGAGGGGGACCTTCGGGCCTCTTGCCATCGGATGTGCCCAGATGGGATTAGCTAGTAGGTGGGGTAACGGCTCACCTAGGCGACGATCCCTAGCTGGTCTGAGAGGATGACCAGCCACACTGGAACTGAGACACGGTCCAGACTCCTACGGGAGGCAGCAGTGGGGAATATTGCACAATGGGCGCAAGCCTGATGCAGCCATGCCGCGTGTATGAAGAAGGCCTTCGGGTTGTAAAGTACTTTCAGCGGGGAGGAAGGGAGTAAAGTTAATACCTTTGCTCATTGACGTTACCCGCAGAAGAAGCACCGGCTAACTCCGTGCCAGCAGCCGCGGTAATACGGAGGGTGCAAGCGTTAATCGGAATTACTGGGCGTAAAGCGCACGCAGGCGGTTTGTTAAGTCAGATG -o SRR7473348 SRR7473348_1.fastq SRR7473348_2.fastq Input file: SRR7473348_1.fastq Paired file: SRR7473348_2.fastq trimmed: SRR7473348-trimmed-pair1.fastq, SRR7473348-trimmed-pair2.fastq Parameters used: -- 3' end adapter sequence (-x): ATTAGTCGGTTCGGTCCTCCAGTTAGTGTTACCCAACCTTCAACCTGCCCATGGCTAGATCACC -- 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 14:30:31 2024 >> started Sat Dec 7 14:30:46 2024 >> done (15.152s) 8882556 read pairs processed; of these: 94 ( 0.00%) short read pairs filtered out after trimming by size control 1556 ( 0.02%) empty read pairs filtered out after trimming by size control 8880906 (99.98%) read pairs available; of these: 1775 ( 0.02%) trimmed read pairs available after processing 8879131 (99.98%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 18 8 0.00% 19 13 0.00% 20 7 0.00% 21 7 0.00% 22 15 0.00% 23 14 0.00% 24 14 0.00% 25 18 0.00% 26 10 0.00% 27 6 0.00% 28 16 0.00% 29 24 0.00% 30 23 0.00% 31 38 0.00% 32 18 0.00% 33 23 0.00% 34 38 0.00% 35 36 0.00% 36 28 0.00% 37 34 0.00% 38 50 0.00% 39 57 0.00% 40 70 0.00% 41 78 0.00% 42 76 0.00% 43 78 0.00% 44 93 0.00% 45 136 0.00% 46 125 0.00% 47 142 0.00% 48 183 0.00% 49 183 0.00% 50 221 0.00% 51 238 0.00% 52 280 0.00% 53 296 0.00% 54 249 0.00% 55 307 0.00% 56 371 0.00% 57 407 0.00% 58 457 0.01% 59 490 0.01% 60 546 0.01% 61 663 0.01% 62 699 0.01% 63 718 0.01% 64 895 0.01% 65 1160 0.01% 66 1309 0.01% 67 1658 0.02% 68 3027 0.03% 69 13875 0.16% 70 21184 0.24% 71 11459 0.13% 72 6387 0.07% 73 4575 0.05% 74 4215 0.05% 75 3696 0.04% 76 3485 0.04% 77 3506 0.04% 78 3822 0.04% 79 4266 0.05% 80 4583 0.05% 81 4974 0.06% 82 5720 0.06% 83 6726 0.08% 84 8680 0.10% 85 9053 0.10% 86 9918 0.11% 87 10300 0.12% 88 12171 0.14% 89 11974 0.13% 90 13097 0.15% 91 13905 0.16% 92 13618 0.15% 93 17390 0.20% 94 17015 0.19% 95 20297 0.23% 96 19846 0.22% 97 20350 0.23% 98 19422 0.22% 99 19868 0.22% 100 22453 0.25% 101 20360 0.23% 102 21916 0.25% 103 22252 0.25% 104 23792 0.27% 105 27376 0.31% 106 25575 0.29% 107 24723 0.28% 108 27194 0.31% 109 33349 0.38% 110 34930 0.39% 111 29244 0.33% 112 29969 0.34% 113 38177 0.43% 114 32017 0.36% 115 35687 0.40% 116 37361 0.42% 117 34291 0.39% 118 34866 0.39% 119 35292 0.40% 120 37596 0.42% 121 34628 0.39% 122 38178 0.43% 123 40800 0.46% 124 40284 0.45% 125 40406 0.45% 126 39102 0.44% 127 40632 0.46% 128 40934 0.46% 129 41854 0.47% 130 43017 0.48% 131 43562 0.49% 132 44867 0.51% 133 47034 0.53% 134 51253 0.58% 135 52181 0.59% 136 51579 0.58% 137 58022 0.65% 138 57976 0.65% 139 59130 0.67% 140 58595 0.66% 141 65661 0.74% 142 65115 0.73% 143 68512 0.77% 144 74309 0.84% 145 82876 0.93% 146 94878 1.07% 147 115028 1.30% 148 163878 1.85% 149 318417 3.59% 150 1819975 20.49% 151 4104774 46.22% criterion=sequence-density sequence-density=1.53 sequence-density-rank=1 fanout-score=2.41 fanout-score-rank=25 prefix-density=1.54 prefix-fanout=2.4 sequence=ATTAGTCGGTTCGGTCCTCCAGTTAGTGTTACCCAACCTTCAACCTGCCCATGGCTAGATCACCGGGTTTCGGGTCTATACCCTGCAACTTAACGCCCAGTTAAGACTCGGTTTCCCTTCGGCTCCCCTATTCGGTTAACCTTGCTACAGAATATAAGTCGCTGACCCATTATACAAAAGGTACGCAGTCACACGCCTAAGCGTGCTCCCACTGCTTGTACGTACACGGTTTCAGGTTCTTTTTCACTCCCCTCGCCGGGGTTCTTTTCGCCTTTCCCTCACGGTACTGGTTCACTATCGGTCAGTCAGGAGTATTTAGCCTTGGAGGATGGTCCCCCCATATTCAGACAGGATACCACGTGTCCCGCCCTACTCATCGAGCTCACAGCATGTGCATTTTTGTGTACGGGGCTGTCACCCTGTATCGCGCGCCTTTCCAGACGCTTCCACTAACACACACACTGATTCAGGCTCTGGGCTGCTCCCCGTTCGCTCGCCGCTACTGGGGGAA criterion=fanout-score sequence-density=0.33 sequence-density-rank=20 fanout-score=9.50 fanout-score-rank=1 prefix-density=3.13 prefix-fanout=1.0 sequence=AAGAGGCCCGAGGGTCCCCCTCT criterion=sequence-density sequence-density=4.46 sequence-density-rank=1 fanout-score=1.93 fanout-score-rank=35 prefix-density=4.48 prefix-fanout=1.9 sequence=GCTGACGAGTGGCGGACGGGTGAGTAATGTCTGGGAAACTGCCTGATGGAGGGGGATAACTACTGGAAACGGTAGCTAATACCGCATAACGTCGCAAGACCAAAGAGGGGGACCTTCGGGCCTCTTGCCATCGGATGTGCCCAGATGGGATTAGCTAGTAGGTGGGGTAACGGCTCACCTAGGCGACGATCCCTAGCTGGTCTGAGAGGATGACCAGCCACACTGGAACTGAGACACGGTCCAGACTCCTACGGGAGGCAGCAGTGGGGAATATTGCACAATGGGCGCAAGCCTGATGCAGCCATGCCGCGTGTATGAAGAAGGCCTTCGGGTTGTAAAGTACTTTCAGCGGGGAGGAAGGGAGTAAAGTTAATACCTTTGCTCATTGACGTTACCCGCAGAAGAAGCACCGGCTAACTCCGTGCCAGCAGCCGCGGTAATACGGAGGGTGCAAGCGTTAATCGGAATTACTGGGCGTAAAGCGCACGCAGGCGGTTTGTTAAGTCAGATG criterion=fanout-score sequence-density=0.38 sequence-density-rank=18 fanout-score=12.06 fanout-score-rank=1 prefix-density=4.56 prefix-fanout=1.0 sequence=ATGTCTGGGAAGCTGCCTGATGG SRR7473348 testing PE reads STAR mapping to Ensembl genome Started job on | Dec 07 14:32:32 Started mapping on | Dec 07 14:32:32 Finished on | Dec 07 14:53:44 Mapping speed, Million of reads per hour | 50.27 Number of input reads | 17763461 Average input read length | 285 UNIQUE READS: Uniquely mapped reads number | 8477142 Uniquely mapped reads % | 47.72% Average mapped length | 290.08 Number of splices: Total | 6527606 Number of splices: Annotated (sjdb) | 6113398 Number of splices: GT/AG | 6441017 Number of splices: GC/AG | 74618 Number of splices: AT/AC | 2522 Number of splices: Non-canonical | 9449 Mismatch rate per base, % | 0.11% Deletion rate per base | 0.00% Deletion average length | 1.50 Insertion rate per base | 0.01% Insertion average length | 1.67 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 129962 % of reads mapped to multiple loci | 0.73% Number of reads mapped to too many loci | 6215 % of reads mapped to too many loci | 0.03% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 48.60% % of reads unmapped: other | 2.91% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 9164621 9164621 9164621 N_multimapping 129962 129962 129962 N_noFeature 274295 8136965 375693 N_ambiguous 286657 1217 47983 UnstrandedReadsAssigned:7916190 PositiveStrandReadsAssigned:338960 NegativeStrandReadsAssigned:8053466 Dataset is classified negative stranded MeadianReadLen=151 20thPercentileLength=140 echo kmer=135 SRR7473348 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: SRR7473348-trimmed-pair1.fastq SRR7473348-trimmed-pair2.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 17,763,461 reads, 8,247,906 reads pseudoaligned [quant] estimated average fragment length: 224.337 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,089 rounds 52973 SRR7473348.ke.tsv 35125 SRR7473348.se.tsv 88098 total ==> SRR7473348.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 712.825 1.34752 0.252228 PNS24247 1044 820.663 0 0 PNS24249 1928 1704.66 14.9205 1.16784 PNS24246 1044 820.663 0 0 PNS24248 1044 820.663 0 0 PNS24244 1471 1247.66 49.732 5.31839 PNS24243 293 107.069 0 0 KQK14069 1603 1379.66 781.461 75.5746 KQK14071 474 260.975 10.7697 5.50613 ==> SRR7473348.se.tsv <== BRADI_1g14170v3 845 BRADI_1g53295v3 17 BRADI_1g59795v3 450 BRADI_1g07683v3 0 BRADI_1g00485v3 3 BRADI_1g20270v3 462 BRADI_1g74790v3 85 BRADI_1g09890v3 3 BRADI_1g77505v3 287 BRADI_1g48960v3 0 SRR7473348 completed mapping pipeline successfully