Starting /dee2/code/volunteer_pipeline.sh SRR7473333 current disk space = 1542927798272 free memory = 1593842000 SRR7473333 SRAfilesize fd5d213791a55d0234174c307498b879 SRR7473333.sra SRR7473333.sra file validated SRR7473333 is paired end SRR7473333 is conventional basespace SRR7473333 read1 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR7473333_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 33.513 34.0 34.0 34.0 33.0 34.0 2 33.51425 34.0 34.0 34.0 33.0 34.0 3 33.55875 34.0 34.0 34.0 33.0 34.0 4 33.48325 34.0 34.0 34.0 33.0 34.0 5 33.57775 34.0 34.0 34.0 33.0 34.0 6 37.2565 38.0 38.0 38.0 37.0 38.0 7 37.521 38.0 38.0 38.0 38.0 38.0 8 37.52775 38.0 38.0 38.0 38.0 38.0 9 37.565 38.0 38.0 38.0 38.0 38.0 10-14 37.558350000000004 38.0 38.0 38.0 38.0 38.0 15-19 37.5869 38.0 38.0 38.0 38.0 38.0 20-24 37.636449999999996 38.0 38.0 38.0 38.0 38.0 25-29 37.545249999999996 38.0 38.0 38.0 38.0 38.0 30-34 37.49785 38.0 38.0 38.0 37.8 38.0 35-39 37.43235 38.0 38.0 38.0 37.8 38.0 40-44 37.32315 38.0 38.0 38.0 37.8 38.0 45-49 37.33595 38.0 38.0 38.0 37.2 38.0 50-54 37.322849999999995 38.0 38.0 38.0 37.4 38.0 55-59 37.1088 38.0 38.0 38.0 36.6 38.0 60-64 37.1028 38.0 38.0 38.0 36.8 38.0 65-69 36.893550000000005 38.0 38.0 38.0 35.6 38.0 70-74 37.1393 38.0 38.0 38.0 37.0 38.0 75-79 36.625150000000005 38.0 38.0 38.0 36.2 38.0 80-84 36.52875 38.0 38.0 38.0 36.0 38.0 85-89 36.447900000000004 38.0 38.0 38.0 35.8 38.0 90-94 36.3337 38.0 38.0 38.0 35.4 38.0 95-99 36.30884999999999 38.0 38.0 38.0 35.0 38.0 100-104 36.16915 38.0 38.0 38.0 34.4 38.0 105-109 36.11 38.0 38.0 38.0 34.2 38.0 110-114 35.96565 38.0 38.0 38.0 34.0 38.0 115-119 35.79955000000001 38.0 38.0 38.0 33.4 38.0 120-124 35.60975 38.0 38.0 38.0 33.0 38.0 125-129 35.207 38.0 36.6 38.0 31.2 38.0 130-134 34.85265 38.0 36.0 38.0 28.6 38.0 135-139 34.3036 38.0 35.0 38.0 24.4 38.0 140-144 34.176 38.0 34.4 38.0 25.2 38.0 145-149 33.7327 38.0 34.0 38.0 23.2 38.0 150-151 29.393 35.5 27.0 38.0 2.0 38.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 9 3.0 10 0.0 11 1.0 12 2.0 13 3.0 14 9.0 15 8.0 16 13.0 17 7.0 18 22.0 19 26.0 20 5.0 21 5.0 22 4.0 23 1.0 24 6.0 25 15.0 26 11.0 27 10.0 28 21.0 29 21.0 30 35.0 31 49.0 32 59.0 33 67.0 34 102.0 35 195.0 36 469.0 37 2831.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 38.574999999999996 12.075 11.225 38.125 2 23.73560340510766 13.820731096644966 31.171757636454682 31.27190786179269 3 21.75 18.224999999999998 24.85 35.175 4 26.0 25.374999999999996 21.05 27.575 5 25.624999999999996 28.625 22.725 23.025000000000002 6 21.775 27.85 28.000000000000004 22.375 7 15.375 21.25 41.0 22.375 8 18.925 19.8 29.65 31.624999999999996 9 18.475 21.175 32.525 27.825 10-14 22.189999999999998 24.33 24.02 29.459999999999997 15-19 22.994999999999997 23.645 25.869999999999997 27.49 20-24 22.375 25.069999999999997 25.665 26.889999999999997 25-29 21.43 24.315 25.869999999999997 28.384999999999998 30-34 21.14 24.615000000000002 25.635 28.610000000000003 35-39 21.705 25.44 25.915 26.939999999999998 40-44 22.155 24.115000000000002 25.56 28.17 45-49 23.105 23.555 25.535000000000004 27.805000000000003 50-54 22.375 23.880000000000003 25.729999999999997 28.015 55-59 22.075 23.080000000000002 26.125 28.720000000000002 60-64 21.62 22.5 27.35 28.53 65-69 21.085 24.959999999999997 25.465 28.49 70-74 20.965 25.72 25.740000000000002 27.575 75-79 21.04 26.400000000000002 23.565 28.994999999999997 80-84 21.32 26.200000000000003 24.68 27.800000000000004 85-89 22.15 25.290000000000003 23.45 29.110000000000003 90-94 22.75 23.23 24.54 29.48 95-99 22.36 24.985 24.63 28.025 100-104 22.485 26.51 23.525 27.48 105-109 22.235 24.91 23.745 29.110000000000003 110-114 22.505 25.679999999999996 23.75 28.065 115-119 22.32 25.569999999999997 23.990000000000002 28.12 120-124 22.39 26.025 22.88 28.705000000000002 125-129 22.925 25.035 25.22 26.82 130-134 22.111005455182422 26.665332065462188 23.892698063160005 27.330964416195386 135-139 22.843706223734237 26.39083450070042 23.268961376826095 27.496497898739243 140-144 23.885 26.174999999999997 21.915000000000003 28.025 145-149 22.99 25.39 23.52 28.1 150-151 21.125 26.8125 23.8875 28.175 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 1.0 1 0.5 2 0.0 3 0.5 4 0.5 5 0.0 6 1.0 7 1.0 8 0.0 9 0.0 10 0.0 11 0.5 12 0.5 13 0.0 14 0.0 15 0.0 16 0.0 17 0.0 18 0.0 19 0.0 20 0.0 21 0.0 22 0.5 23 1.0 24 1.5 25 1.0 26 1.5 27 4.5 28 5.5 29 5.0 30 4.0 31 5.0 32 14.0 33 20.0 34 25.0 35 29.0 36 37.5 37 56.5 38 63.0 39 65.5 40 75.5 41 92.5 42 105.5 43 121.5 44 136.0 45 127.5 46 126.0 47 123.5 48 118.5 49 132.5 50 166.5 51 187.0 52 209.0 53 284.5 54 324.0 55 287.0 56 211.0 57 158.0 58 138.5 59 113.0 60 97.0 61 83.0 62 62.0 63 36.5 64 20.5 65 16.0 66 13.5 67 14.0 68 15.0 69 12.0 70 9.5 71 8.0 72 6.0 73 6.5 74 5.5 75 3.5 76 4.0 77 3.0 78 1.0 79 0.0 80 0.5 81 0.5 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 0.15 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 0.095 135-139 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 73.575 #Duplication Level Percentage of deduplicated Percentage of total 1 87.80156303092083 64.60000000000001 2 6.252123683316343 9.2 3 1.6649677200135917 3.675 4 1.019367991845056 3.0 5 0.9853890587835541 3.6249999999999996 6 0.44172612979952425 1.95 7 0.6455997281685355 3.325 8 0.37376826367652055 2.1999999999999997 9 0.13591573224600748 0.8999999999999999 >10 0.6795786612300373 7.5249999999999995 >50 0.0 0.0 >100 0.0 0.0 >500 0.0 0.0 >1k 0.0 0.0 >5k 0.0 0.0 >10k+ 0.0 0.0 >>END_MODULE >>Overrepresented sequences warn #Sequence Count Percentage Possible Source GATCGGAAGAGCACACGTCTGAACTCCAGTCACAAAGCAATCTCGTATGC 34 0.8500000000000001 TruSeq Adapter, Index 5 (97% over 37bp) GTCGGTTCGGTCCTCCAGTTAGTGTTACCCAACCTTCAACCTGCCCATGG 28 0.7000000000000001 No Hit ATCGGAAGAGCACACGTCTGAACTCCAGTCACAAAGCAATCTCGTATGCC 22 0.5499999999999999 TruSeq Adapter, Index 5 (97% over 36bp) CCCACTGCTGCCTCCCGTAGGAGTCTGGACCGTGTCTCAGTTCCAGTGTG 21 0.525 No Hit GGCCAACATAGCCTTCTCCGTCCCCCCTTCGCAGTAACACCAAGTACAGG 19 0.475 No Hit GGGGATTTCACATCTGACTTAACAAACCGCCTGCGTGCGCTTTACGCCCA 16 0.4 No Hit CCCACGCTTTCGCACCTGAGCGTCAGTCTTCGTCCAGGGGGCCGCCTTCG 15 0.375 No Hit CGGGAACGTATTCACCGTGGCATTCTGATCCACGATTACTAGCGATTCCG 15 0.375 No Hit CCCCACTGCTGCCTCCCGTAGGAGTCTGGACCGTGTCTCAGTTCCAGTGT 13 0.325 No Hit GTACGATTTGATGTTACCTGATGCTTAGAGGCTTTTCCTGGAAGCAGGGC 13 0.325 No Hit CTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCG 12 0.3 No Hit CCGGGAACGTATTCACCGTGGCATTCTGATCCACGATTACTAGCGATTCC 11 0.27499999999999997 No Hit GTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTC 11 0.27499999999999997 No Hit CCCCCCTTCGCAGTAACACCAAGTACAGGAATATTAACCTGTTTCCCATC 11 0.27499999999999997 No Hit GCCTTTCACCCCCAGCCACAAGTCATCCGCTAATTTTTCAACATTAGTCG 10 0.25 No Hit CACGCTTTCGCACCTGAGCGTCAGTCTTCGTCCAGGGGGCCGCCTTCGCC 10 0.25 No Hit GGAACGTATTCACCGTGGCATTCTGATCCACGATTACTAGCGATTCCGAC 10 0.25 No Hit GCCGGTGCTTCTTCTGCGGGTAACGTCAATGAGCAAAGGTATTAACTTTA 10 0.25 No Hit CTCCGTCCCCCCTTCGCAGTAACACCAAGTACAGGAATATTAACCTGTTT 10 0.25 No Hit CTTCGCAGTAACACCAAGTACAGGAATATTAACCTGTTTCCCATCGACTA 10 0.25 No Hit ATTCCGATTAACGCTTGCACCCTCCGTATTACCGCGGCTGCTGGCACGGA 9 0.22499999999999998 No Hit GTTCGGTCCTCCAGTTAGTGTTACCCAACCTTCAACCTGCCCATGGCTAG 9 0.22499999999999998 No Hit GGCATTTGTTGCTTCAGCACCGTAGTGCCTCGTCATCACGCCTCAGCCTT 9 0.22499999999999998 No Hit GTCCCCCCTTCGCAGTAACACCAAGTACAGGAATATTAACCTGTTTCCCA 9 0.22499999999999998 No Hit CCGGTATTCCTCCAGATCTCTACGCATTTCACCGCTACACCTGGAATTCT 8 0.2 No Hit CGGTATTCCTCCAGATCTCTACGCATTTCACCGCTACACCTGGAATTCTA 8 0.2 No Hit CCCCGGTTCGCCTCATTAACCTATGGATTCAGTTAATGATAGTGTGTCGA 8 0.2 No Hit GCACGGAGTTAGCCGGTGCTTCTTCTGCGGGTAACGTCAATGAGCAAAGG 8 0.2 No Hit GCTTCTTCTGCGGGTAACGTCAATGAGCAAAGGTATTAACTTTACTCCCT 8 0.2 No Hit CTTTCCCTCACGGTACTGGTTCACTATCGGTCAGTCAGGAGTATTTAGCC 8 0.2 No Hit CCCATATTCAGACAGGATACCACGTGTCCCGCCCTACTCATCGAGCTCAC 8 0.2 No Hit CCCCCCTCTACGAGACTCAAGCTTGCCAGTATCAGATGCAGTTCCCAGGT 8 0.2 No Hit GCCTTCGCCACCGGTATTCCTCCAGATCTCTACGCATTTCACCGCTACAC 8 0.2 No Hit GCCTTTCCCTCACGGTACTGGTTCACTATCGGTCAGTCAGGAGTATTTAG 8 0.2 No Hit CGATTAACGCTTGCACCCTCCGTATTACCGCGGCTGCTGGCACGGAGTTA 8 0.2 No Hit GTTTGATTGGCCTTTCACCCCCAGCCACAAGTCATCCGCTAATTTTTCAA 7 0.17500000000000002 No Hit GCCACCGGTATTCCTCCAGATCTCTACGCATTTCACCGCTACACCTGGAA 7 0.17500000000000002 No Hit GTGCTTCTTCTGCGGGTAACGTCAATGAGCAAAGGTATTAACTTTACTCC 7 0.17500000000000002 No Hit GGGAGAACCAGCTATCTCCCGGTTTGATTGGCCTTTCACCCCCAGCCACA 7 0.17500000000000002 No Hit CCCGGTTCGCCTCATTAACCTATGGATTCAGTTAATGATAGTGTGTCGAA 7 0.17500000000000002 No Hit CCTCACGGTACTGGTTCACTATCGGTCAGTCAGGAGTATTTAGCCTTGGA 7 0.17500000000000002 No Hit CTTTGGTCTTGCGACGTTATGCGGTATTAGCTACCGTTTCCAGTAGTTAT 7 0.17500000000000002 No Hit GCTGCTGGCACGGAGTTAGCCGGTGCTTCTTCTGCGGGTAACGTCAATGA 7 0.17500000000000002 No Hit CCCCTTCGCAGTAACACCAAGTACAGGAATATTAACCTGTTTCCCATCGA 7 0.17500000000000002 No Hit GTCGGTTTGGGGTACGATTTGATGTTACCTGATGCTTAGAGGCTTTTCCT 7 0.17500000000000002 No Hit GCGCCATTGTAGCACGTGTGTAGCCCTGGTCGTAAGGGCCATGATGACTT 7 0.17500000000000002 No Hit CCGGGGATTTCACATCTGACTTAACAAACCGCCTGCGTGCGCTTTACGCC 7 0.17500000000000002 No Hit CGGGGATTTCACATCTGACTTAACAAACCGCCTGCGTGCGCTTTACGCCC 7 0.17500000000000002 No Hit AGTAATTCCGATTAACGCTTGCACCCTCCGTATTACCGCGGCTGCTGGCA 7 0.17500000000000002 No Hit CCACGCTTTCGCACCTGAGCGTCAGTCTTCGTCCAGGGGGCCGCCTTCGC 7 0.17500000000000002 No Hit GCCTCATTAACCTATGGATTCAGTTAATGATAGTGTGTCGAAACACACTG 7 0.17500000000000002 No Hit ATCGGAAGAGCACACGTCTGAACTCCAGTCACAAAGCAAACTCGTATGCC 7 0.17500000000000002 TruSeq Adapter, Index 5 (97% over 36bp) CAGTAATTCCGATTAACGCTTGCACCCTCCGTATTACCGCGGCTGCTGGC 7 0.17500000000000002 No Hit GTTCGCCTCATTAACCTATGGATTCAGTTAATGATAGTGTGTCGAAACAC 7 0.17500000000000002 No Hit CCACTGCTGCCTCCCGTAGGAGTCTGGACCGTGTCTCAGTTCCAGTGTGG 6 0.15 No Hit ACGAGACTCAAGCTTGCCAGTATCAGATGCAGTTCCCAGGTTGAGCCCGG 6 0.15 No Hit TTCCGATTAACGCTTGCACCCTCCGTATTACCGCGGCTGCTGGCACGGAG 6 0.15 No Hit CCGATTAACGCTTGCACCCTCCGTATTACCGCGGCTGCTGGCACGGAGTT 6 0.15 No Hit GCGACGTTATGCGGTATTAGCTACCGTTTCCAGTAGTTATCCCCCTCCAT 6 0.15 No Hit GCCTTCTCCGTCCCCCCTTCGCAGTAACACCAAGTACAGGAATATTAACC 6 0.15 No Hit TCCGTCCCCCCTTCGCAGTAACACCAAGTACAGGAATATTAACCTGTTTC 6 0.15 No Hit GGTGCTTCTTCTGCGGGTAACGTCAATGAGCAAAGGTATTAACTTTACTC 6 0.15 No Hit GATTAACGCTTGCACCCTCCGTATTACCGCGGCTGCTGGCACGGAGTTAG 6 0.15 No Hit GTCAGTCTTCGTCCAGGGGGCCGCCTTCGCCACCGGTATTCCTCCAGATC 6 0.15 No Hit GCTGAAAGTACTTTACAACCCGAAGGCCTTCTTCATACACGCGGCATGGC 6 0.15 No Hit GTCGCTTCTCTTTGTATGCGCCATTGTAGCACGTGTGTAGCCCTGGTCGT 6 0.15 No Hit GTCCGCTTGCTCTCGCGAGGTCGCTTCTCTTTGTATGCGCCATTGTAGCA 6 0.15 No Hit CTCCATCAGGCAGTTTCCCAGACATTACTCACCCGTCCGCCACTCGTCAG 5 0.125 No Hit CCTCCATCAGGCAGTTTCCCAGACATTACTCACCCGTCCGCCACTCGTCA 5 0.125 No Hit CCCCCTCTACGAGACTCAAGCTTGCCAGTATCAGATGCAGTTCCCAGGTT 5 0.125 No Hit CTTGGTCTTCCGGCGAGCGGGCTTTTCACCCGCTTTATCGTTACTTATGT 5 0.125 No Hit GGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTTTTGCGACGTTATGCGGTA 5 0.125 No Hit GCCGTGTGTCTCCCGTGATAACATTCTCCGGTATTCGCAGTTTGCATCGG 5 0.125 No Hit GCTGCATCAGGCTTGCGCCCATTGTGCAATATTCCCCACTGCTGCCTCCC 5 0.125 No Hit GTCAAACTACCCACCAGACACTGTCCGCAACCCGGATTACGGGTCAACGT 5 0.125 No Hit GGTCTTCCGGCGAGCGGGCTTTTCACCCGCTTTATCGTTACTTATGTCAG 5 0.125 No Hit GATTTCTTTTCCTCGGGGTACTTAGATGTTTCAGTTCCCCCGGTTCGCCT 5 0.125 No Hit CCTTGGTCTTCCGGCGAGCGGGCTTTTCACCCGCTTTATCGTTACTTATG 5 0.125 No Hit CTCCGTATTACCGCGGCTGCTGGCACGGAGTTAGCCGGTGCTTCTTCTGC 5 0.125 No Hit TCCGTATTACCGCGGCTGCTGGCACGGAGTTAGCCGGTGCTTCTTCTGCG 5 0.125 No Hit CTTCGCCACCGGTATTCCTCCAGATCTCTACGCATTTCACCGCTACACCT 5 0.125 No Hit CACCGGTATTCCTCCAGATCTCTACGCATTTCACCGCTACACCTGGAATT 5 0.125 No Hit GGCCTTTCACCCCCAGCCACAAGTCATCCGCTAATTTTTCAACATTAGTC 5 0.125 No Hit TGAGCGTCAGTCTTCGTCCAGGGGGCCGCCTTCGCCACCGGTATTCCTCC 5 0.125 No Hit GTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTA 5 0.125 No Hit GCCAACATAGCCTTCTCCGTCCCCCCTTCGCAGTAACACCAAGTACAGGA 5 0.125 No Hit CCGGGTTTCGGGTCTATACCCTGCAACTTAACGCCCAGTTAAGACTCGGT 5 0.125 No Hit GCGGTATTAGCTACCGTTTCCAGTAGTTATCCCCCTCCATCAGGCAGTTT 5 0.125 No Hit GTCAGGAGTATTTAGCCTTGGAGGATGGTCCCCCCATATTCAGACAGGAT 5 0.125 No Hit GTTGATTTCTTTTCCTCGGGGTACTTAGATGTTTCAGTTCCCCCGGTTCG 5 0.125 No Hit GCCCGGCCAACATAGCCTTCTCCGTCCCCCCTTCGCAGTAACACCAAGTA 5 0.125 No Hit CCTCTACGAGACTCAAGCTTGCCAGTATCAGATGCAGTTCCCAGGTTGAG 5 0.125 No Hit CCCCTCTTTGGTCTTGCGACGTTATGCGGTATTAGCTACCGTTTCCAGTA 5 0.125 No Hit CTTGCACCCTCCGTATTACCGCGGCTGCTGGCACGGAGTTAGCCGGTGCT 5 0.125 No Hit GGGAACGTATTCACCGTGGCATTCTGATCCACGATTACTAGCGATTCCGA 5 0.125 No Hit CTTCTCCGTCCCCCCTTCGCAGTAACACCAAGTACAGGAATATTAACCTG 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 0.05 0.0 0.0 0.0 0.0 32-33 0.05 0.0 0.0 0.0 0.0 34-35 0.05 0.0 0.0 0.0 0.0 36-37 0.05 0.0 0.0 0.0 0.0 38-39 0.05 0.0 0.0 0.0 0.0 40-41 0.05 0.0 0.0 0.0 0.0 42-43 0.05 0.0 0.0 0.0 0.0 44-45 0.05 0.0 0.0 0.0 0.0 46-47 0.05 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 0.075 0.0 0.0 0.0 0.0 54-55 0.075 0.0 0.0 0.0 0.0 56-57 0.125 0.0 0.0 0.0 0.0 58-59 0.125 0.0 0.0 0.0 0.0 60-61 0.125 0.0 0.0 0.0 0.0 62-63 0.15 0.0 0.0 0.0 0.0 64-65 0.175 0.0 0.0 0.0 0.0 66-67 0.175 0.0 0.0 0.0 0.0 68-69 0.1875 0.0 0.0 0.0 0.0 70-71 0.275 0.0 0.0 0.0 0.0 72-73 0.325 0.0 0.0 0.0 0.0 74-75 0.325 0.0 0.0 0.0 0.0 76-77 0.3875 0.0 0.0 0.0 0.0 78-79 0.4625 0.0 0.0 0.0 0.0 80-81 0.6125 0.0 0.0 0.0 0.0 82-83 0.7749999999999999 0.0 0.0 0.0 0.0 84-85 0.975 0.0 0.0 0.0 0.0 86-87 1.25 0.0 0.0 0.0 0.0 88-89 1.5875 0.0 0.0 0.0 0.0 90-91 1.925 0.0 0.0 0.0 0.0 92-93 2.2875 0.0 0.0 0.0 0.0 94-95 2.8625 0.0 0.0 0.0 0.0 96-97 3.3875 0.0 0.0 0.0 0.0 98-99 3.875 0.0 0.0 0.0 0.0 100-101 4.3125 0.0 0.0 0.0 0.0 102-103 4.85 0.0 0.0 0.0 0.0 104-105 5.5625 0.0 0.0 0.0 0.0 106-107 6.2875 0.0 0.0 0.0 0.0 108-109 6.775 0.0 0.0 0.0 0.0 110-111 7.487500000000001 0.0 0.0 0.0 0.0 112-113 8.075 0.0 0.0 0.0 0.0 114-115 8.725 0.0 0.0 0.0 0.0 116-117 9.537500000000001 0.0 0.0 0.0 0.0 118-119 10.3625 0.0 0.0 0.0 0.0 120-121 11.05 0.0 0.0 0.0 0.0 122-123 11.8 0.0 0.0 0.0 0.0 124-125 12.6 0.0 0.0 0.0 0.0 126-127 13.4875 0.0 0.0 0.0 0.0 128-129 14.3125 0.0 0.0 0.0 0.0 130-131 15.2125 0.0 0.0 0.0 0.0 132-133 16.225 0.0 0.0 0.0 0.0 134-135 17.0625 0.0 0.0 0.0 0.0 136-137 17.875 0.0 0.0 0.0 0.0 138-139 18.7875 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position TTTTTTT 80 0.0018040554 36.25 1 >>END_MODULE SRR7473333 read2 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR7473333_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 32.998 34.0 33.0 34.0 32.0 34.0 2 32.939 34.0 33.0 34.0 33.0 34.0 3 32.8185 34.0 33.0 34.0 33.0 34.0 4 32.65425 34.0 33.0 34.0 32.0 34.0 5 32.8535 34.0 33.0 34.0 32.0 34.0 6 36.42775 38.0 38.0 38.0 35.0 38.0 7 36.851 38.0 38.0 38.0 36.0 38.0 8 36.6445 38.0 38.0 38.0 37.0 38.0 9 36.77725 38.0 38.0 38.0 37.0 38.0 10-14 36.73085 38.0 38.0 38.0 36.8 38.0 15-19 36.68845 38.0 38.0 38.0 36.8 38.0 20-24 36.6652 38.0 38.0 38.0 36.4 38.0 25-29 36.7219 38.0 38.0 38.0 37.0 38.0 30-34 36.680499999999995 38.0 38.0 38.0 37.0 38.0 35-39 36.6469 38.0 38.0 38.0 37.0 38.0 40-44 36.675650000000005 38.0 38.0 38.0 37.0 38.0 45-49 36.5185 38.0 38.0 38.0 36.4 38.0 50-54 36.60255 38.0 38.0 38.0 36.8 38.0 55-59 36.70949999999999 38.0 38.0 38.0 37.0 38.0 60-64 36.671299999999995 38.0 38.0 38.0 37.0 38.0 65-69 36.46185 38.0 38.0 38.0 36.6 38.0 70-74 36.09815 38.0 38.0 38.0 36.0 38.0 75-79 36.06535 38.0 38.0 38.0 35.8 38.0 80-84 35.96849999999999 38.0 38.0 38.0 35.0 38.0 85-89 35.8625 38.0 38.0 38.0 35.0 38.0 90-94 35.812749999999994 38.0 38.0 38.0 34.2 38.0 95-99 35.7253 38.0 38.0 38.0 34.2 38.0 100-104 35.555499999999995 38.0 38.0 38.0 33.8 38.0 105-109 35.3852 38.0 38.0 38.0 33.0 38.0 110-114 34.827799999999996 38.0 37.6 38.0 28.4 38.0 115-119 34.92535 38.0 38.0 38.0 30.2 38.0 120-124 34.342650000000006 38.0 36.2 38.0 25.2 38.0 125-129 34.3386 38.0 35.8 38.0 26.6 38.0 130-134 34.023599999999995 38.0 36.0 38.0 23.2 38.0 135-139 33.78005 38.0 35.8 38.0 21.8 38.0 140-144 33.0971 38.0 33.8 38.0 15.0 38.0 145-149 32.104 38.0 33.0 38.0 5.8 38.0 150-151 27.030375 33.5 17.5 38.0 2.0 38.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 2 28.0 3 12.0 4 11.0 5 1.0 6 5.0 7 2.0 8 2.0 9 5.0 10 14.0 11 13.0 12 7.0 13 4.0 14 2.0 15 8.0 16 13.0 17 35.0 18 9.0 19 1.0 20 11.0 21 3.0 22 6.0 23 13.0 24 13.0 25 8.0 26 12.0 27 18.0 28 17.0 29 25.0 30 40.0 31 42.0 32 59.0 33 90.0 34 121.0 35 188.0 36 503.0 37 2659.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 44.9 17.675 13.4 24.025 2 33.09136420525657 20.97622027534418 24.28035043804756 21.65206508135169 3 27.923866766841975 25.41948409717005 25.19408965689958 21.462559479088405 4 31.246870305458184 29.86980470706059 18.928392588883327 19.954932398597897 5 31.129476584022036 31.930879038317055 16.85449536689206 20.085149010768845 6 26.974999999999998 34.300000000000004 18.925 19.8 7 24.0 19.675 33.425 22.900000000000002 8 28.175 22.525000000000002 20.7 28.599999999999998 9 28.1 23.875 23.125 24.9 10-14 29.044999999999998 24.635 21.445 24.875 15-19 30.099999999999998 24.615000000000002 22.485 22.8 20-24 30.680000000000003 25.085 22.11 22.125 25-29 28.82 26.005 22.535 22.64 30-34 29.95 26.21 22.264999999999997 21.575 35-39 29.28 24.88 22.79 23.05 40-44 30.615 24.715 23.11 21.560000000000002 45-49 29.299999999999997 25.41 23.455000000000002 21.834999999999997 50-54 28.525 25.77 23.385 22.32 55-59 28.294999999999998 26.015 24.005000000000003 21.685 60-64 27.845 26.6 23.215 22.34 65-69 29.14 26.695 23.14 21.025 70-74 29.134999999999998 26.93 23.555 20.380000000000003 75-79 28.325 26.07 23.615 21.990000000000002 80-84 28.645 26.0 23.785 21.57 85-89 29.635 25.8 22.73 21.834999999999997 90-94 28.560000000000002 25.985000000000003 23.5 21.955 95-99 28.355000000000004 26.57 23.31 21.765 100-104 29.725 26.200000000000003 23.11 20.965 105-109 28.15 27.284999999999997 22.35 22.215 110-114 29.403814386544525 27.176252690594183 22.480852980928066 20.939079941933223 115-119 29.281602002503128 27.394242803504383 22.778473091364205 20.545682102628284 120-124 28.782195548887223 27.366841710427607 22.710677669417354 21.14028507126782 125-129 29.26 26.69 23.095 20.955 130-134 29.335 26.795 22.43 21.44 135-139 30.214999999999996 26.765 22.055 20.965 140-144 29.315 26.88 22.770000000000003 21.035 145-149 30.615 26.955000000000002 22.09 20.34 150-151 29.9 28.487499999999997 21.3875 20.225 >>END_MODULE >>Per sequence GC content warn #GC Content Count 0 0.0 1 0.0 2 0.0 3 0.0 4 0.0 5 0.0 6 0.0 7 0.0 8 0.0 9 0.0 10 0.0 11 0.0 12 0.5 13 0.5 14 0.0 15 0.0 16 0.0 17 0.0 18 0.0 19 0.0 20 1.0 21 1.5 22 1.5 23 1.5 24 1.5 25 1.0 26 0.5 27 2.5 28 3.5 29 2.5 30 3.5 31 10.0 32 12.0 33 13.0 34 18.5 35 22.0 36 27.0 37 32.0 38 41.0 39 51.0 40 64.0 41 85.5 42 89.0 43 72.0 44 78.5 45 101.0 46 116.5 47 131.0 48 146.0 49 160.0 50 190.5 51 206.5 52 234.0 53 315.0 54 322.5 55 287.5 56 249.0 57 168.5 58 120.0 59 121.5 60 104.0 61 78.0 62 74.5 63 49.5 64 23.5 65 21.0 66 19.5 67 19.0 68 19.0 69 15.0 70 16.5 71 17.0 72 12.0 73 7.0 74 6.5 75 3.5 76 1.5 77 2.0 78 0.5 79 0.5 80 0.5 81 0.5 82 1.0 83 0.5 84 0.5 85 0.5 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 0.125 3 0.17500000000000002 4 0.15 5 0.17500000000000002 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 0.11499999999999999 115-119 0.125 120-124 0.025 125-129 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 76.375 #Duplication Level Percentage of deduplicated Percentage of total 1 88.15057283142389 67.325 2 6.153846153846154 9.4 3 2.127659574468085 4.875 4 1.4729950900163666 4.5 5 0.851063829787234 3.25 6 0.36006546644844517 1.6500000000000001 7 0.22913256955810146 1.225 8 0.16366612111292964 1.0 9 0.03273322422258593 0.22499999999999998 >10 0.4582651391162029 6.550000000000001 >50 0.0 0.0 >100 0.0 0.0 >500 0.0 0.0 >1k 0.0 0.0 >5k 0.0 0.0 >10k+ 0.0 0.0 >>END_MODULE >>Overrepresented sequences warn #Sequence Count Percentage Possible Source GATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCG 34 0.8500000000000001 Illumina Single End PCR Primer 1 (100% over 50bp) GCCTGATGCAGCCATGCCGCGTGTATGAAGAAGGCCTTCGGGTTGTAAAG 30 0.75 No Hit GGTGGATGCCCTGGCAGTCAGAGGCGATGAAGGACGTGCTAATCTGCGAT 30 0.75 No Hit GCGACTTATATTCTGTAGCAAGGTTAACCGAATAGGGGAGCCGAAGGGAA 25 0.625 No Hit GTTTGATCATGGCTCAGATTGAACGCTGGCGGCAGGCCTAACACATGCAA 24 0.6 No Hit GGTGAGTCGACCCCTAAGGCGAGGCCGAAAGGCGTAGTCGATGGGAAACA 20 0.5 No Hit GGGAAACCGAGTCTTAACTGGGCGTTAAGTTGCAGGGTATAGACCCGAAA 17 0.42500000000000004 No Hit CGGGAACTCAAAGGAGACTGCCAGTGATAAACTGGAGGAAGGTGGGGATG 15 0.375 No Hit CTCAGATTGAACGCTGGCGGCAGGCCTAACACATGCAAGTCGAACGGTAA 13 0.325 No Hit GGAATATTGCACAATGGGCGCAAGCCTGATGCAGCCATGCCGCGTGTATG 12 0.3 No Hit GGGAGGCAGCAGTGGGGAATATTGCACAATGGGCGCAAGCCTGATGCAGC 12 0.3 No Hit GCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAG 10 0.25 No Hit GGGAACTCAAAGGAGACTGCCAGTGATAAACTGGAGGAAGGTGGGGATGA 10 0.25 No Hit GCACAATGGGCGCAAGCCTGATGCAGCCATGCCGCGTGTATGAAGAAGGC 10 0.25 No Hit CCTACGGGAGGCAGCAGTGGGGAATATTGCACAATGGGCGCAAGCCTGAT 9 0.22499999999999998 No Hit GTGAAATCCCCGGGCTCAACCTGGGAACTGCATCTGATACTGGCAAGCTT 8 0.2 No Hit GTGAGTCGACCCCTAAGGCGAGGCCGAAAGGCGTAGTCGATGGGAAACAG 8 0.2 No Hit CCTGATGCAGCCATGCCGCGTGTATGAAGAAGGCCTTCGGGTTGTAAAGT 8 0.2 No Hit GCAGCCATGCCGCGTGTATGAAGAAGGCCTTCGGGTTGTAAAGTACTTTC 8 0.2 No Hit ACGGGAGGCAGCAGTGGGGAATATTGCACAATGGGCGCAAGCCTGATGCA 8 0.2 No Hit CAAGCCTGATGCAGCCATGCCGCGTGTATGAAGAAGGCCTTCGGGTTGTA 7 0.17500000000000002 No Hit GCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTT 7 0.17500000000000002 No Hit CAGACTCCTACGGGAGGCAGCAGTGGGGAATATTGCACAATGGGCGCAAG 7 0.17500000000000002 No Hit GTCAGATGTGAAATCCCCGGGCTCAACCTGGGAACTGCATCTGATACTGG 7 0.17500000000000002 No Hit GCACAAGCGGTGGAGCATGTGGTTTAATTCGATGCAACGCGAAGAACCTT 7 0.17500000000000002 No Hit CGTTAATCGGGGCAGGGTGAGTCGACCCCTAAGGCGAGGCCGAAAGGCGT 7 0.17500000000000002 No Hit CTTATATTCTGTAGCAAGGTTAACCGAATAGGGGAGCCGAAGGGAAACCG 7 0.17500000000000002 No Hit GGGGAATATTGCACAATGGGCGCAAGCCTGATGCAGCCATGCCGCGTGTA 6 0.15 No Hit AAGCGTACACGGTGGATGCCCTGGCAGTCAGAGGCGATGAAGGACGTGCT 6 0.15 No Hit GGGGGACCTTCGGGCCTCTTGCCATCGGATGTGCCCAGATGGGATTAGCT 6 0.15 No Hit TGAACGCTGGCGGCAGGCCTAACACATGCAAGTCGAACGGTAACAGGAAG 6 0.15 No Hit GCATCTGATACTGGCAAGCTTGAGTCTCGTAGAGGGGGGTAGAATTCCAG 6 0.15 No Hit AGTCGACCCCTAAGGCGAGGCCGAAAGGCGTAGTCGATGGGAAACAGGTT 6 0.15 No Hit CTCCTACGGGAGGCAGCAGTGGGGAATATTGCACAATGGGCGCAAGCCTG 6 0.15 No Hit AGCTGGTTCTCCCCGAAAGCTATTTAGGTAGCGCCTCGTGAATTCATCTC 6 0.15 No Hit GCTGAGGCGTGATGACGAGGCACTACGGTGCTGAAGCAACAAATGCCCTG 6 0.15 No Hit CGGGAGGCAGCAGTGGGGAATATTGCACAATGGGCGCAAGCCTGATGCAG 6 0.15 No Hit GTGGATGCCCTGGCAGTCAGAGGCGATGAAGGACGTGCTAATCTGCGATA 6 0.15 No Hit CCTGAATCAGTGTGTGTGTTAGTGGAAGCGTCTGGAAAGGCGCGCGATAC 5 0.125 No Hit GTGATGACGAGGCACTACGGTGCTGAAGCAACAAATGCCCTGCTTCCAGG 5 0.125 No Hit GTAGGCTGGTTTTCCAGGCAAATCCGGAAAATCAAGGCTGAGGCGTGATG 5 0.125 No Hit TCTGTAGCAAGGTTAACCGAATAGGGGAGCCGAAGGGAAACCGAGTCTTA 5 0.125 No Hit CTGGCAGTCAGAGGCGATGAAGGACGTGCTAATCTGCGATAAGCGTCGGT 5 0.125 No Hit GCAGTGGGGAATATTGCACAATGGGCGCAAGCCTGATGCAGCCATGCCGC 5 0.125 No Hit GTGCAAACACGAAAGTGGACGTATACGGTGTGACGCCTGCCCGGTGCCGG 5 0.125 No Hit AAACCATGCACCGAAGCTGCGGCAGCGACGCTTATGCGTTGTTGGGTAGG 5 0.125 No Hit CAAGGCTGAGGCGTGATGACGAGGCACTACGGTGCTGAAGCAACAAATGC 5 0.125 No Hit GCCATGCCGCGTGTATGAAGAAGGCCTTCGGGTTGTAAAGTACTTTCAGC 5 0.125 No Hit GCCTAACACATGCAAGTCGAACGGTAACAGGAAGAAGCTTGCTTCTTTGC 5 0.125 No Hit AGACTCCTACGGGAGGCAGCAGTGGGGAATATTGCACAATGGGCGCAAGC 5 0.125 No Hit GGAAACCGAGTCTTAACTGGGCGTTAAGTTGCAGGGTATAGACCCGAAAC 5 0.125 No Hit GGAAGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAGGGTGAGTCGAC 5 0.125 No Hit GGAAGAAGCTTGCTTCTTTGCTGACGAGTGGCGGACGGGTGAGTAATGTC 5 0.125 No Hit TCCTACGGGAGGCAGCAGTGGGGAATATTGCACAATGGGCGCAAGCCTGA 5 0.125 No Hit AAGCCTGATGCAGCCATGCCGCGTGTATGAAGAAGGCCTTCGGGTTGTAA 5 0.125 No Hit CGAAGGGAAACCGAGTCTTAACTGGGCGTTAAGTTGCAGGGTATAGACCC 5 0.125 No Hit TGCACAATGGGCGCAAGCCTGATGCAGCCATGCCGCGTGTATGAAGAAGG 5 0.125 No Hit GGGTGAGTCGACCCCTAAGGCGAGGCCGAAAGGCGTAGTCGATGGGAAAC 5 0.125 No Hit GTTCGGTCCCTATCTGCCGTGGGCGCTGGAGAACTGAGGGGGGCTGCTCC 5 0.125 No Hit TCAGATTGAACGCTGGCGGCAGGCCTAACACATGCAAGTCGAACGGTAAC 5 0.125 No Hit GAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGG 5 0.125 No Hit ATTGCACAATGGGCGCAAGCCTGATGCAGCCATGCCGCGTGTATGAAGAA 5 0.125 No Hit GCGCACGCAGGCGGTTTGTTAAGTCAGATGTGAAATCCCCGGGCTCAACC 5 0.125 No Hit TGGCAGTCAGAGGCGATGAAGGACGTGCTAATCTGCGATAAGCGTCGGTA 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 0.05 0.0 0.0 0.0 0.0 32-33 0.05 0.0 0.0 0.0 0.0 34-35 0.05 0.0 0.0 0.0 0.0 36-37 0.05 0.0 0.0 0.0 0.0 38-39 0.05 0.0 0.0 0.0 0.0 40-41 0.05 0.0 0.0 0.0 0.0 42-43 0.05 0.0 0.0 0.0 0.0 44-45 0.05 0.0 0.0 0.0 0.0 46-47 0.05 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 0.075 0.0 0.0 0.0 0.0 54-55 0.075 0.0 0.0 0.0 0.0 56-57 0.125 0.0 0.0 0.0 0.0 58-59 0.125 0.0 0.0 0.0 0.0 60-61 0.125 0.0 0.0 0.0 0.0 62-63 0.15 0.0 0.0 0.0 0.0 64-65 0.175 0.0 0.0 0.0 0.0 66-67 0.175 0.0 0.0 0.0 0.0 68-69 0.1875 0.0 0.0 0.0 0.0 70-71 0.275 0.0 0.0 0.0 0.0 72-73 0.325 0.0 0.0 0.0 0.0 74-75 0.325 0.0 0.0 0.0 0.0 76-77 0.3875 0.0 0.0 0.0 0.0 78-79 0.4625 0.0 0.0 0.0 0.0 80-81 0.625 0.0 0.0 0.0 0.0 82-83 0.8 0.0 0.0 0.0 0.0 84-85 1.0 0.0 0.0 0.0 0.0 86-87 1.275 0.0 0.0 0.0 0.0 88-89 1.6 0.0 0.0 0.0 0.0 90-91 1.925 0.0 0.0 0.0 0.0 92-93 2.2874999999999996 0.0 0.0 0.0 0.0 94-95 2.8 0.0 0.0 0.0 0.0 96-97 3.3125 0.0 0.0 0.0 0.0 98-99 3.7875 0.0 0.0 0.0 0.0 100-101 4.1875 0.0 0.0 0.0 0.0 102-103 4.7125 0.0 0.0 0.0 0.0 104-105 5.387499999999999 0.0 0.0 0.0 0.0 106-107 6.0875 0.0 0.0 0.0 0.0 108-109 6.5625 0.0 0.0 0.0 0.0 110-111 7.3 0.0 0.0 0.0 0.0 112-113 7.9125000000000005 0.0 0.0 0.0 0.0 114-115 8.587499999999999 0.0 0.0 0.0 0.0 116-117 9.425 0.0 0.0 0.0 0.0 118-119 10.225 0.0 0.0 0.0 0.0 120-121 10.9625 0.0 0.0 0.0 0.0 122-123 11.712499999999999 0.0 0.0 0.0 0.0 124-125 12.525 0.0 0.0 0.0 0.0 126-127 13.4 0.0 0.0 0.0 0.0 128-129 14.2625 0.0 0.0 0.0 0.0 130-131 15.1625 0.0 0.0 0.0 0.0 132-133 16.112499999999997 0.0 0.0 0.0 0.0 134-135 16.8375 0.0 0.0 0.0 0.0 136-137 17.6625 0.0 0.0 0.0 0.0 138-139 18.625 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position TATATTC 15 1.1411342E-4 145.0 7 TTATATT 15 1.1411342E-4 145.0 6 ACTTATA 15 1.1411342E-4 145.0 4 CTTATAT 15 1.1411342E-4 145.0 5 GACTTAT 15 1.1411342E-4 145.0 3 CGACTTA 20 3.5877043E-4 108.75 2 GCGACTT 25 8.7132835E-4 87.0 1 TATTCTG 25 8.7132835E-4 87.0 9 ATATTCT 25 8.7132835E-4 87.0 8 >>END_MODULE Read 885146 spots for SRR7473333.sra Written 885146 spots for SRR7473333.sra Read 885146 spots for SRR7473333.sra Written 885146 spots for SRR7473333.sra Read 885146 spots for SRR7473333.sra Written 885146 spots for SRR7473333.sra Read 885146 spots for SRR7473333.sra Written 885146 spots for SRR7473333.sra Read 885146 spots for SRR7473333.sra Written 885146 spots for SRR7473333.sra Read 885146 spots for SRR7473333.sra Written 885146 spots for SRR7473333.sra Read 885146 spots for SRR7473333.sra Written 885146 spots for SRR7473333.sra Read 885146 spots for SRR7473333.sra Written 885146 spots for SRR7473333.sra Read 885146 spots for SRR7473333.sra Written 885146 spots for SRR7473333.sra Read 885152 spots for SRR7473333.sra Written 885152 spots for SRR7473333.sra Read 885146 spots for SRR7473333.sra Written 885146 spots for SRR7473333.sra Read 885146 spots for SRR7473333.sra Written 885146 spots for SRR7473333.sra Read 885146 spots for SRR7473333.sra Written 885146 spots for SRR7473333.sra Read 885146 spots for SRR7473333.sra Written 885146 spots for SRR7473333.sra Read 885146 spots for SRR7473333.sra Written 885146 spots for SRR7473333.sra Read 885146 spots for SRR7473333.sra Written 885146 spots for SRR7473333.sra Read 885146 spots for SRR7473333.sra Written 885146 spots for SRR7473333.sra Read 885146 spots for SRR7473333.sra Written 885146 spots for SRR7473333.sra Read 885146 spots for SRR7473333.sra Written 885146 spots for SRR7473333.sra Read 885146 spots for SRR7473333.sra Written 885146 spots for SRR7473333.sra SRR ids: ['SRR7473333.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_8k7z3tuu SRR7473333.sra spots: 17702926 blocks: [[1, 885146], [885147, 1770292], [1770293, 2655438], [2655439, 3540584], [3540585, 4425730], [4425731, 5310876], [5310877, 6196022], [6196023, 7081168], [7081169, 7966314], [7966315, 8851460], [8851461, 9736606], [9736607, 10621752], [10621753, 11506898], [11506899, 12392044], [12392045, 13277190], [13277191, 14162336], [14162337, 15047482], [15047483, 15932628], [15932629, 16817774], [16817775, 17702926]] SRR7473333 file size 5977240 SRR7473333 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 SRR7473333 SRR7473333_1.fastq SRR7473333_2.fastq Input file: SRR7473333_1.fastq Paired file: SRR7473333_2.fastq trimmed: SRR7473333-trimmed-pair1.fastq, SRR7473333-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 13:47:55 2024 >> started Sat Dec 7 13:48:17 2024 >> done (21.352s) 17702926 read pairs processed; of these: 66598 ( 0.38%) short read pairs filtered out after trimming by size control 249238 ( 1.41%) empty read pairs filtered out after trimming by size control 17387090 (98.22%) read pairs available; of these: 9597821 (55.20%) trimmed read pairs available after processing 7789269 (44.80%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 18 10 0.00% 19 16 0.00% 20 14 0.00% 21 21 0.00% 22 21 0.00% 23 24 0.00% 24 93 0.00% 25 41 0.00% 26 41 0.00% 27 44 0.00% 28 144 0.00% 29 75 0.00% 30 106 0.00% 31 92 0.00% 32 81 0.00% 33 89 0.00% 34 108 0.00% 35 138 0.00% 36 111 0.00% 37 152 0.00% 38 167 0.00% 39 174 0.00% 40 201 0.00% 41 205 0.00% 42 271 0.00% 43 247 0.00% 44 280 0.00% 45 344 0.00% 46 299 0.00% 47 431 0.00% 48 474 0.00% 49 550 0.00% 50 635 0.00% 51 731 0.00% 52 842 0.00% 53 859 0.00% 54 827 0.00% 55 844 0.00% 56 994 0.01% 57 1006 0.01% 58 1199 0.01% 59 1322 0.01% 60 1621 0.01% 61 1768 0.01% 62 1919 0.01% 63 2228 0.01% 64 2557 0.01% 65 3038 0.02% 66 3268 0.02% 67 3928 0.02% 68 5882 0.03% 69 27657 0.16% 70 50445 0.29% 71 36593 0.21% 72 22856 0.13% 73 14702 0.08% 74 11628 0.07% 75 10463 0.06% 76 9650 0.06% 77 9557 0.05% 78 9997 0.06% 79 11428 0.07% 80 12250 0.07% 81 13148 0.08% 82 15491 0.09% 83 18696 0.11% 84 24573 0.14% 85 25174 0.14% 86 27359 0.16% 87 28425 0.16% 88 31948 0.18% 89 31213 0.18% 90 33431 0.19% 91 36147 0.21% 92 35644 0.21% 93 43710 0.25% 94 44940 0.26% 95 50036 0.29% 96 47615 0.27% 97 46593 0.27% 98 45549 0.26% 99 46492 0.27% 100 53606 0.31% 101 47960 0.28% 102 51267 0.29% 103 53392 0.31% 104 56996 0.33% 105 66381 0.38% 106 60831 0.35% 107 57485 0.33% 108 62139 0.36% 109 75634 0.44% 110 75836 0.44% 111 63411 0.36% 112 65882 0.38% 113 81099 0.47% 114 71579 0.41% 115 78320 0.45% 116 78461 0.45% 117 72307 0.42% 118 74946 0.43% 119 71387 0.41% 120 77176 0.44% 121 71297 0.41% 122 76535 0.44% 123 82114 0.47% 124 84556 0.49% 125 84086 0.48% 126 82030 0.47% 127 84536 0.49% 128 83033 0.48% 129 84215 0.48% 130 86685 0.50% 131 86356 0.50% 132 89115 0.51% 133 94209 0.54% 134 100694 0.58% 135 106291 0.61% 136 105663 0.61% 137 115569 0.66% 138 114120 0.66% 139 114880 0.66% 140 113218 0.65% 141 126868 0.73% 142 124577 0.72% 143 134472 0.77% 144 146564 0.84% 145 164136 0.94% 146 188136 1.08% 147 228858 1.32% 148 321237 1.85% 149 609941 3.51% 150 3383793 19.46% 151 7789269 44.80% 17387090 reads passed initial QC criterion=sequence-density sequence-density=1.53 sequence-density-rank=1 fanout-score=1.69 fanout-score-rank=41 prefix-density=2.56 prefix-fanout=1.0 sequence=CACTCGTCAGCAAAGAAGCAAGCTTCTTCCTGTTACCGTTCGACTTGCATGTGTTAGGCCTGCCGCCAGCGTTCAATCTGAGCCATGATCAAACTCTTCAATTTAAAAGTTTGATGCTCAAAGAATTAAACTTCGTAATGAATTACGTGTTCACTCTTGAGACTTGGTATTCATTTTTCGTCTTGCGACG criterion=fanout-score sequence-density=0.11 sequence-density-rank=35 fanout-score=62.80 fanout-score-rank=1 prefix-density=5.11 prefix-fanout=1.4 sequence=CCCGAAGGCACCAATCCATCTCTGGAAAGTTCTGTGGATGTCAA criterion=sequence-density sequence-density=4.87 sequence-density-rank=1 fanout-score=1.99 fanout-score-rank=40 prefix-density=4.91 prefix-fanout=2.0 sequence=GCTGACGAGTGGCGGACGGGTGAGTAATGTCTGGGAAACTGCCTGATGGAGGGGGATAACTACTGGAAACGGTAGCTAATACCGCATAACGTCGCAAGACCAAAGAGGGGGACCTTCGGGCCTCTTGCCATCGGATGTGCCCAGATGGGATTAGCTAGTAGGTGGGGTAACGGCTCACCTAGGCGACGATCCCTAGCTGGTCTGAGAGGATGACCAGCCACACTGGAACTGAGACACGGTCCAGACTCCTACGGGAGGCAGCAGTGGGGAATATTGCACAATGGGCGCAAGCCTGATGCAGCCATGCCGCGTGTATGAAGAAGGCCTTCGGGTTGTAAAGTACTTTCAGCGGGGAGGAAGGGAGTAAAGTTAATACCTTTGCTCATTGACGTTACCCGCAGAAGAAGCACCGGCTAACTCCGTGCCAGCAGCCGCGGTAATACGGAGGGTGCAAGCGTTAATCGGAATTACTGGGCGTAAAGCGCACGCAGGCGGTTTGTTAAGTCAGATG criterion=fanout-score sequence-density=0.01 sequence-density-rank=43 fanout-score=1042.64 fanout-score-rank=1 prefix-density=5.82 prefix-fanout=1.0 sequence=AAGAAGCACACACAAGCCTAGAAGCCTTCAGCTTAATCTTCTTCCTAAGCAAGTTCGAGCACTCGACCGAAGATGTCTTGCTGCGGAGGAAACTGCAACTGCGGGTCATCCTGCAAGTGCGGCAGCGGCTGCAACGGCTGCAACATGTACCCTGAAGCCGAGGTCCAGACCTCCAGCCTCCTCGTCGTCGCCACCGCCGCCCACAAGGCGAGCTCCGGCGGGATGGAGATGGCCGCGGAGAACGGCGGCTGCGGCTGCAGCACCTGCAAG 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 CACTCGTCAGCAAAGAAGCAAGCTTCTTCCTGTTACCGTTCGACTTGCATGTGTTAGGCCTGCCGCCAGCGTTCAATCTGAGCCATGATCAAACTCTTCAATTTAAAAGTTTGATGCTCAAAGAATTAAACTTCGTAATGAATTACGTGTTCACTCTTGAGACTTGGTATTCATTTTTCGTCTTGCGACG -y GCTGACGAGTGGCGGACGGGTGAGTAATGTCTGGGAAACTGCCTGATGGAGGGGGATAACTACTGGAAACGGTAGCTAATACCGCATAACGTCGCAAGACCAAAGAGGGGGACCTTCGGGCCTCTTGCCATCGGATGTGCCCAGATGGGATTAGCTAGTAGGTGGGGTAACGGCTCACCTAGGCGACGATCCCTAGCTGGTCTGAGAGGATGACCAGCCACACTGGAACTGAGACACGGTCCAGACTCCTACGGGAGGCAGCAGTGGGGAATATTGCACAATGGGCGCAAGCCTGATGCAGCCATGCCGCGTGTATGAAGAAGGCCTTCGGGTTGTAAAGTACTTTCAGCGGGGAGGAAGGGAGTAAAGTTAATACCTTTGCTCATTGACGTTACCCGCAGAAGAAGCACCGGCTAACTCCGTGCCAGCAGCCGCGGTAATACGGAGGGTGCAAGCGTTAATCGGAATTACTGGGCGTAAAGCGCACGCAGGCGGTTTGTTAAGTCAGATG -o SRR7473333 SRR7473333_1.fastq SRR7473333_2.fastq Input file: SRR7473333_1.fastq Paired file: SRR7473333_2.fastq trimmed: SRR7473333-trimmed-pair1.fastq, SRR7473333-trimmed-pair2.fastq Parameters used: -- 3' end adapter sequence (-x): CACTCGTCAGCAAAGAAGCAAGCTTCTTCCTGTTACCGTTCGACTTGCATGTGTTAGGCCTGCC -- 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 13:49:50 2024 >> started Sat Dec 7 13:50:03 2024 >> done (12.888s) 8693545 read pairs processed; of these: 141 ( 0.00%) short read pairs filtered out after trimming by size control 1169 ( 0.01%) empty read pairs filtered out after trimming by size control 8692235 (99.98%) read pairs available; of these: 3162 ( 0.04%) trimmed read pairs available after processing 8689073 (99.96%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 18 4 0.00% 19 12 0.00% 20 7 0.00% 21 12 0.00% 22 10 0.00% 23 15 0.00% 24 52 0.00% 25 26 0.00% 26 22 0.00% 27 22 0.00% 28 73 0.00% 29 21 0.00% 30 48 0.00% 31 44 0.00% 32 38 0.00% 33 47 0.00% 34 60 0.00% 35 74 0.00% 36 54 0.00% 37 75 0.00% 38 80 0.00% 39 89 0.00% 40 107 0.00% 41 102 0.00% 42 128 0.00% 43 111 0.00% 44 146 0.00% 45 182 0.00% 46 138 0.00% 47 209 0.00% 48 243 0.00% 49 278 0.00% 50 311 0.00% 51 369 0.00% 52 404 0.00% 53 426 0.00% 54 399 0.00% 55 421 0.00% 56 507 0.01% 57 498 0.01% 58 613 0.01% 59 628 0.01% 60 796 0.01% 61 913 0.01% 62 916 0.01% 63 1107 0.01% 64 1275 0.01% 65 1519 0.02% 66 1631 0.02% 67 2000 0.02% 68 2992 0.03% 69 13871 0.16% 70 24952 0.29% 71 18294 0.21% 72 11410 0.13% 73 7283 0.08% 74 5673 0.07% 75 5235 0.06% 76 4841 0.06% 77 4869 0.06% 78 5015 0.06% 79 5632 0.06% 80 6195 0.07% 81 6482 0.07% 82 7758 0.09% 83 9299 0.11% 84 12344 0.14% 85 12583 0.14% 86 13778 0.16% 87 14225 0.16% 88 16047 0.18% 89 15500 0.18% 90 16859 0.19% 91 18066 0.21% 92 17858 0.21% 93 21753 0.25% 94 22394 0.26% 95 25083 0.29% 96 23824 0.27% 97 23253 0.27% 98 22699 0.26% 99 23250 0.27% 100 26819 0.31% 101 23988 0.28% 102 25534 0.29% 103 26806 0.31% 104 28489 0.33% 105 33198 0.38% 106 30392 0.35% 107 28657 0.33% 108 30915 0.36% 109 37634 0.43% 110 37950 0.44% 111 31680 0.36% 112 32965 0.38% 113 40424 0.47% 114 35800 0.41% 115 38837 0.45% 116 39038 0.45% 117 36068 0.41% 118 37363 0.43% 119 35588 0.41% 120 38582 0.44% 121 35672 0.41% 122 38159 0.44% 123 40972 0.47% 124 42294 0.49% 125 42037 0.48% 126 40883 0.47% 127 42265 0.49% 128 41552 0.48% 129 42220 0.49% 130 43378 0.50% 131 43007 0.49% 132 44288 0.51% 133 47020 0.54% 134 50726 0.58% 135 53295 0.61% 136 52603 0.61% 137 57975 0.67% 138 56910 0.65% 139 57330 0.66% 140 56760 0.65% 141 63476 0.73% 142 62186 0.72% 143 67409 0.78% 144 72990 0.84% 145 81795 0.94% 146 93843 1.08% 147 114196 1.31% 148 161042 1.85% 149 304300 3.50% 150 1691885 19.46% 151 3896461 44.83% criterion=sequence-density sequence-density=1.01 sequence-density-rank=1 fanout-score=2.57 fanout-score-rank=36 prefix-density=2.58 prefix-fanout=1.0 sequence=CACTCGTCAGCGAAACAGCAAGCTGTTTCCTGTTACC criterion=fanout-score sequence-density=0.11 sequence-density-rank=33 fanout-score=61.74 fanout-score-rank=1 prefix-density=5.09 prefix-fanout=1.4 sequence=CCCGAAGGCACCAATCCATCTCTGGAAAGTTCTGTGGATGTCAA criterion=sequence-density sequence-density=4.76 sequence-density-rank=1 fanout-score=1.98 fanout-score-rank=41 prefix-density=4.80 prefix-fanout=2.0 sequence=GCTGACGAGTGGCGGACGGGTGAGTAATGTCTGGGAAACTGCCTGATGGAGGGGGATAACTACTGGAAACGGTAGCTAATACCGCATAACGTCGCAAGACCAAAGAGGGGGACCTTCGGGCCTCTTGCCATCGGATGTGCCCAGATGGGATTAGCTAGTAGGTGGGGTAACGGCTCACCTAGGCGACGATCCCTAGCTGGTCTGAGAGGATGACCAGCCACACTGGAACTGAGACACGGTCCAGACTCCTACGGGAGGCAGCAGTGGGGAATATTGCACAATGGGCGCAAGCCTGATGCAGCCATGCCGCGTGTATGAAGAAGGCCTTCGGGTTGTAAAGTACTTTCAGCGGGGAGGAAGGGAGTAAAGTTAATACCTTTGCTCATTGACGTTACCCGCAGAAGAAGCACCGGCTAACTCCGTGCCAGCAGCCGCGGTAATACGGAGGGTGCAAGCGTTAATCGGAATTACTGGGCGTAAAGCGCACGCAGGCGGTTTGTTAAGTCAGATG criterion=fanout-score sequence-density=0.10 sequence-density-rank=32 fanout-score=43.08 fanout-score-rank=1 prefix-density=1.85 prefix-fanout=2.3 sequence=GTGAGACAGGTTAGTTTTACCCTACTGATGACCGTGCCGCGATAGTAATTCAACCTAGTACGAG SRR7473333 testing PE reads STAR mapping to Ensembl genome Started job on | Dec 07 13:51:40 Started mapping on | Dec 07 13:51:40 Finished on | Dec 07 14:16:22 Mapping speed, Million of reads per hour | 42.23 Number of input reads | 17385780 Average input read length | 283 UNIQUE READS: Uniquely mapped reads number | 7621570 Uniquely mapped reads % | 43.84% Average mapped length | 288.21 Number of splices: Total | 5090227 Number of splices: Annotated (sjdb) | 4762959 Number of splices: GT/AG | 5022904 Number of splices: GC/AG | 57875 Number of splices: AT/AC | 1762 Number of splices: Non-canonical | 7686 Mismatch rate per base, % | 0.13% Deletion rate per base | 0.01% Deletion average length | 1.47 Insertion rate per base | 0.01% Insertion average length | 1.38 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 243686 % of reads mapped to multiple loci | 1.40% Number of reads mapped to too many loci | 43387 % of reads mapped to too many loci | 0.25% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 50.44% % of reads unmapped: other | 4.07% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 9543439 9543439 9543439 N_multimapping 243686 243686 243686 N_noFeature 313923 7309106 409277 N_ambiguous 242450 1044 25996 UnstrandedReadsAssigned:7065197 PositiveStrandReadsAssigned:311420 NegativeStrandReadsAssigned:7186297 Dataset is classified negative stranded MeadianReadLen=151 20thPercentileLength=136 echo kmer=131 SRR7473333 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: SRR7473333-trimmed-pair1.fastq SRR7473333-trimmed-pair2.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 17,385,780 reads, 7,482,556 reads pseudoaligned [quant] estimated average fragment length: 225.575 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,081 rounds 52973 SRR7473333.ke.tsv 35125 SRR7473333.se.tsv 88098 total ==> SRR7473333.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 711.614 0 0 PNS24247 1044 819.425 2.26895 0.484622 PNS24249 1928 1703.43 11.1822 1.14893 PNS24246 1044 819.425 2.26895 0.484622 PNS24248 1044 819.425 2.26895 0.484622 PNS24244 1471 1246.43 115.011 16.1495 PNS24243 293 107.889 0 0 KQK14069 1603 1378.43 179.792 22.8283 KQK14071 474 260.377 3.20845 2.15665 ==> SRR7473333.se.tsv <== BRADI_1g14170v3 182 BRADI_1g53295v3 9 BRADI_1g59795v3 46 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 117 BRADI_1g74790v3 95 BRADI_1g09890v3 0 BRADI_1g77505v3 56 BRADI_1g48960v3 0 SRR7473333 completed mapping pipeline successfully