Starting /dee2/code/volunteer_pipeline.sh SRR7814829 current disk space = 1551636635648 free memory = 1605417436 SRR7814829 SRAfilesize 300f5e3c96c4796f1b825eaeb00b6194 SRR7814829.sra SRR7814829.sra file validated SRR7814829 is paired end SRR7814829 is conventional basespace SRR7814829 read1 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR7814829_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 36.44875 37.0 37.0 37.0 37.0 37.0 2 36.29975 37.0 37.0 37.0 37.0 37.0 3 36.5315 37.0 37.0 37.0 37.0 37.0 4 36.479 37.0 37.0 37.0 37.0 37.0 5 36.55 37.0 37.0 37.0 37.0 37.0 6 36.5235 37.0 37.0 37.0 37.0 37.0 7 36.404 37.0 37.0 37.0 37.0 37.0 8 36.4645 37.0 37.0 37.0 37.0 37.0 9 36.4445 37.0 37.0 37.0 37.0 37.0 10-14 36.4773 37.0 37.0 37.0 37.0 37.0 15-19 36.5044 37.0 37.0 37.0 37.0 37.0 20-24 36.4679 37.0 37.0 37.0 37.0 37.0 25-29 36.4156 37.0 37.0 37.0 37.0 37.0 30-34 36.4461 37.0 37.0 37.0 37.0 37.0 35-39 36.3803 37.0 37.0 37.0 37.0 37.0 40-44 36.2858 37.0 37.0 37.0 37.0 37.0 45-49 36.2932 37.0 37.0 37.0 37.0 37.0 50-54 36.2222 37.0 37.0 37.0 37.0 37.0 55-59 36.221900000000005 37.0 37.0 37.0 37.0 37.0 60-64 36.209500000000006 37.0 37.0 37.0 37.0 37.0 65-69 36.1779 37.0 37.0 37.0 37.0 37.0 70-74 36.0784 37.0 37.0 37.0 37.0 37.0 75-79 36.1134 37.0 37.0 37.0 37.0 37.0 80-84 36.0664 37.0 37.0 37.0 37.0 37.0 85-89 36.0429 37.0 37.0 37.0 37.0 37.0 90-94 35.9541 37.0 37.0 37.0 37.0 37.0 95-99 35.9181 37.0 37.0 37.0 37.0 37.0 100-104 35.856399999999994 37.0 37.0 37.0 37.0 37.0 105-109 35.832100000000004 37.0 37.0 37.0 37.0 37.0 110-114 35.80799999999999 37.0 37.0 37.0 37.0 37.0 115-119 35.638799999999996 37.0 37.0 37.0 37.0 37.0 120-124 35.5581 37.0 37.0 37.0 37.0 37.0 125-129 35.57619999999999 37.0 37.0 37.0 37.0 37.0 130-134 35.4095 37.0 37.0 37.0 37.0 37.0 135-139 35.3021 37.0 37.0 37.0 34.6 37.0 140-144 35.291599999999995 37.0 37.0 37.0 34.6 37.0 145-149 35.0476 37.0 37.0 37.0 27.4 37.0 150-151 34.38 37.0 37.0 37.0 25.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 1.0 21 2.0 22 1.0 23 1.0 24 1.0 25 9.0 26 10.0 27 12.0 28 25.0 29 27.0 30 32.0 31 58.0 32 69.0 33 112.0 34 163.0 35 403.0 36 2794.0 37 280.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 52.86751815677435 11.745554720761332 4.583020285499624 30.80390683696469 2 26.30657664416104 12.628157039259817 31.557889472368096 29.507376844211052 3 22.400000000000002 19.5 24.25 33.85 4 26.1 26.825 20.05 27.025 5 26.3 29.825000000000003 21.975 21.9 6 23.025000000000002 32.5 22.425 22.05 7 19.625 22.85 37.925 19.6 8 19.5 22.85 28.825 28.825 9 20.375 21.9 32.1 25.624999999999996 10-14 23.945 26.314999999999998 24.52 25.22 15-19 23.765 25.555 24.795 25.885 20-24 24.18 25.31 25.245 25.264999999999997 25-29 23.995 26.205000000000002 23.965 25.835 30-34 24.305 25.035 24.7 25.96 35-39 23.96 25.180000000000003 24.425 26.435 40-44 23.73 25.755 23.990000000000002 26.525 45-49 24.065 25.130000000000003 24.485 26.32 50-54 24.03 25.180000000000003 24.455 26.334999999999997 55-59 24.16 25.424999999999997 24.305 26.11 60-64 24.115000000000002 24.83 24.79 26.265 65-69 24.09 24.465 24.610000000000003 26.834999999999997 70-74 23.78 25.115 24.32 26.784999999999997 75-79 24.63 25.605 23.595 26.169999999999998 80-84 24.8 24.75 24.62 25.83 85-89 23.955000000000002 24.91 24.295 26.840000000000003 90-94 24.725 24.990000000000002 23.724999999999998 26.56 95-99 24.705 24.625 24.47 26.200000000000003 100-104 24.245 24.85 24.195 26.71 105-109 25.06 24.48 24.240000000000002 26.22 110-114 24.990000000000002 24.685000000000002 23.895 26.43 115-119 25.014999999999997 24.3 24.15 26.534999999999997 120-124 24.495 25.395 23.674999999999997 26.435 125-129 24.93 24.779999999999998 23.77 26.52 130-134 25.245 24.4 23.915 26.44 135-139 24.485 24.46 23.84 27.215 140-144 25.455 24.88 23.400000000000002 26.265 145-149 25.669999999999998 24.265 23.465 26.6 150-151 25.5375 23.95 23.8625 26.650000000000002 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 0.0 1 0.0 2 0.5 3 0.5 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 0.0 21 0.0 22 0.5 23 1.0 24 1.0 25 0.5 26 1.0 27 1.0 28 2.0 29 4.0 30 9.0 31 11.0 32 10.0 33 14.5 34 23.0 35 27.5 36 34.5 37 60.0 38 72.5 39 84.0 40 110.0 41 120.5 42 145.5 43 169.5 44 179.0 45 179.0 46 173.0 47 191.5 48 192.0 49 181.0 50 176.0 51 160.0 52 141.5 53 129.0 54 132.5 55 118.0 56 88.5 57 83.5 58 82.5 59 83.0 60 88.0 61 75.0 62 62.5 63 59.5 64 59.5 65 58.5 66 49.5 67 42.5 68 46.0 69 44.5 70 41.5 71 39.5 72 32.5 73 25.0 74 23.0 75 23.5 76 14.0 77 7.5 78 5.0 79 3.5 80 2.5 81 0.5 82 0.5 83 1.0 84 0.5 85 0.0 86 0.0 87 0.0 88 0.0 89 0.0 90 0.0 91 0.0 92 0.0 93 0.0 94 0.0 95 0.0 96 0.0 97 0.0 98 0.0 99 0.0 100 0.0 >>END_MODULE >>Per base N content pass #Base N-Count 1 0.17500000000000002 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 0.0 135-139 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 95.42500000000001 #Duplication Level Percentage of deduplicated Percentage of total 1 95.38904899135446 91.025 2 4.427560911710768 8.450000000000001 3 0.18339009693476552 0.525 4 0.0 0.0 5 0.0 0.0 6 0.0 0.0 7 0.0 0.0 8 0.0 0.0 9 0.0 0.0 >10 0.0 0.0 >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 pass >>END_MODULE >>Adapter Content warn #Position Illumina Universal Adapter Illumina Small RNA 3' Adapter Illumina Small RNA 5' Adapter Nextera Transposase Sequence SOLID Small RNA Adapter 1 0.0 0.0 0.0 0.0 0.0 2 0.0 0.0 0.0 0.0 0.0 3 0.0 0.0 0.0 0.0 0.0 4 0.0 0.0 0.0 0.0 0.0 5 0.0 0.0 0.0 0.0 0.0 6 0.0 0.0 0.0 0.0 0.0 7 0.0 0.0 0.0 0.0 0.0 8 0.0 0.0 0.0 0.0 0.0 9 0.0 0.0 0.0 0.0 0.0 10-11 0.0 0.0 0.0 0.0 0.0 12-13 0.0 0.0 0.0 0.0 0.0 14-15 0.0 0.0 0.0 0.0 0.0 16-17 0.0 0.0 0.0 0.0 0.0 18-19 0.0 0.0 0.0 0.0 0.0 20-21 0.0 0.0 0.0 0.0 0.0 22-23 0.0 0.0 0.0 0.0 0.0 24-25 0.0 0.0 0.0 0.0 0.0 26-27 0.0 0.0 0.0 0.0 0.0 28-29 0.0 0.0 0.0 0.0 0.0 30-31 0.0 0.0 0.0 0.0 0.0 32-33 0.0 0.0 0.0 0.0 0.0 34-35 0.0 0.0 0.0 0.0 0.0 36-37 0.0 0.0 0.0 0.0 0.0 38-39 0.0 0.0 0.0 0.0 0.0 40-41 0.0 0.0 0.0 0.0 0.0 42-43 0.0 0.0 0.0 0.0 0.0 44-45 0.0 0.0 0.0 0.0 0.0 46-47 0.0 0.0 0.0 0.0 0.0 48-49 0.0 0.0 0.0 0.0 0.0 50-51 0.0 0.0 0.0 0.0 0.0 52-53 0.0 0.0 0.0 0.0 0.0 54-55 0.0 0.0 0.0 0.0 0.0 56-57 0.0 0.0 0.0 0.0 0.0 58-59 0.0 0.0 0.0 0.0 0.0 60-61 0.0125 0.0 0.0 0.0 0.0 62-63 0.025 0.0 0.0 0.0 0.0 64-65 0.025 0.0 0.0 0.0 0.0 66-67 0.025 0.0 0.0 0.0 0.0 68-69 0.025 0.0 0.0 0.0 0.0 70-71 0.025 0.0 0.0 0.0 0.0 72-73 0.025 0.0 0.0 0.0 0.0 74-75 0.0625 0.0 0.0 0.0 0.0 76-77 0.075 0.0 0.0 0.0 0.0 78-79 0.15 0.0 0.0 0.0 0.0 80-81 0.175 0.0 0.0 0.0 0.0 82-83 0.175 0.0 0.0 0.0 0.0 84-85 0.2 0.0 0.0 0.0 0.0 86-87 0.225 0.0 0.0 0.0 0.0 88-89 0.30000000000000004 0.0 0.0 0.0 0.0 90-91 0.375 0.0 0.0 0.0 0.0 92-93 0.4625 0.0 0.0 0.0 0.0 94-95 0.625 0.0 0.0 0.0 0.0 96-97 0.7625 0.0 0.0 0.0 0.0 98-99 0.85 0.0 0.0 0.0 0.0 100-101 1.0375 0.0 0.0 0.0 0.0 102-103 1.2125 0.0 0.0 0.0 0.0 104-105 1.5375 0.0 0.0 0.0 0.0 106-107 1.8125 0.0 0.0 0.0 0.0 108-109 2.1125 0.0 0.0 0.0 0.0 110-111 2.425 0.0 0.0 0.0 0.0 112-113 2.6875 0.0 0.0 0.0 0.0 114-115 2.9375 0.0 0.0 0.0 0.0 116-117 3.125 0.0 0.0 0.0 0.0 118-119 3.4375 0.0 0.0 0.0 0.0 120-121 3.7125 0.0 0.0 0.0 0.0 122-123 4.0875 0.0 0.0 0.0 0.0 124-125 4.449999999999999 0.0 0.0 0.0 0.0 126-127 4.7625 0.0 0.0 0.0 0.0 128-129 5.125 0.0 0.0 0.0 0.0 130-131 5.575 0.0 0.0 0.0 0.0 132-133 6.1875 0.0 0.0 0.0 0.0 134-135 6.862500000000001 0.0 0.0 0.0 0.0 136-137 7.3875 0.0 0.0 0.0 0.0 138-139 7.7625 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE SRR7814829 read2 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR7814829_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 36.299 37.0 37.0 37.0 37.0 37.0 2 36.0365 37.0 37.0 37.0 37.0 37.0 3 35.9645 37.0 37.0 37.0 37.0 37.0 4 36.1595 37.0 37.0 37.0 37.0 37.0 5 36.247 37.0 37.0 37.0 37.0 37.0 6 36.1125 37.0 37.0 37.0 37.0 37.0 7 36.076 37.0 37.0 37.0 37.0 37.0 8 36.223 37.0 37.0 37.0 37.0 37.0 9 36.182 37.0 37.0 37.0 37.0 37.0 10-14 36.154 37.0 37.0 37.0 37.0 37.0 15-19 36.11030000000001 37.0 37.0 37.0 37.0 37.0 20-24 36.0437 37.0 37.0 37.0 37.0 37.0 25-29 36.005700000000004 37.0 37.0 37.0 37.0 37.0 30-34 35.958999999999996 37.0 37.0 37.0 37.0 37.0 35-39 35.8719 37.0 37.0 37.0 37.0 37.0 40-44 35.844800000000006 37.0 37.0 37.0 37.0 37.0 45-49 35.7858 37.0 37.0 37.0 37.0 37.0 50-54 35.7336 37.0 37.0 37.0 37.0 37.0 55-59 35.755199999999995 37.0 37.0 37.0 37.0 37.0 60-64 35.6535 37.0 37.0 37.0 37.0 37.0 65-69 35.6182 37.0 37.0 37.0 37.0 37.0 70-74 35.562400000000004 37.0 37.0 37.0 37.0 37.0 75-79 35.637 37.0 37.0 37.0 37.0 37.0 80-84 35.5068 37.0 37.0 37.0 37.0 37.0 85-89 35.4855 37.0 37.0 37.0 37.0 37.0 90-94 35.393299999999996 37.0 37.0 37.0 37.0 37.0 95-99 35.325 37.0 37.0 37.0 37.0 37.0 100-104 35.297000000000004 37.0 37.0 37.0 34.6 37.0 105-109 35.2453 37.0 37.0 37.0 37.0 37.0 110-114 35.0678 37.0 37.0 37.0 25.0 37.0 115-119 35.0268 37.0 37.0 37.0 25.0 37.0 120-124 34.956599999999995 37.0 37.0 37.0 25.0 37.0 125-129 34.8494 37.0 37.0 37.0 25.0 37.0 130-134 34.700199999999995 37.0 37.0 37.0 25.0 37.0 135-139 34.469100000000005 37.0 37.0 37.0 25.0 37.0 140-144 34.2673 37.0 37.0 37.0 25.0 37.0 145-149 34.2272 37.0 37.0 37.0 25.0 37.0 150-151 33.400999999999996 37.0 37.0 37.0 18.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 13 6.0 14 5.0 15 4.0 16 3.0 17 4.0 18 1.0 19 2.0 20 6.0 21 6.0 22 7.0 23 10.0 24 7.0 25 8.0 26 10.0 27 16.0 28 23.0 29 42.0 30 27.0 31 52.0 32 85.0 33 162.0 34 292.0 35 794.0 36 2331.0 37 97.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 45.574999999999996 18.025 7.75 28.65 2 30.55 21.15 26.85 21.45 3 23.25 23.025000000000002 27.700000000000003 26.025 4 28.575 29.425 19.525000000000002 22.475 5 30.175 32.550000000000004 17.724999999999998 19.55 6 25.15 33.925 18.65 22.275 7 23.375 18.525 33.15 24.95 8 24.125 22.45 23.799999999999997 29.625 9 24.975 21.975 27.1 25.95 10-14 27.525 24.57 22.105 25.8 15-19 27.055 23.9 23.46 25.585 20-24 26.455000000000002 24.834999999999997 23.395 25.314999999999998 25-29 27.67 24.11 22.935 25.285000000000004 30-34 26.275 24.305 23.915 25.505 35-39 26.51 24.65 23.405 25.435000000000002 40-44 27.025 24.135 23.305 25.535000000000004 45-49 26.615 24.215 23.865 25.305 50-54 26.685 25.545 23.3 24.47 55-59 27.134999999999998 24.23 24.085 24.55 60-64 27.1 25.025 23.455000000000002 24.42 65-69 26.575 24.795 24.36 24.27 70-74 27.1 24.88 23.205000000000002 24.815 75-79 26.61 24.645 24.315 24.43 80-84 26.735 25.095 23.365 24.805 85-89 27.02 24.735 23.56 24.685000000000002 90-94 26.945000000000004 24.715 23.635 24.705 95-99 27.389999999999997 24.325 23.945 24.34 100-104 27.275 25.724999999999998 23.080000000000002 23.919999999999998 105-109 26.87 24.79 24.065 24.275 110-114 27.455000000000002 24.87 23.79 23.885 115-119 27.715 24.85 23.185 24.25 120-124 27.205000000000002 24.805 23.625 24.365000000000002 125-129 27.46 24.935 23.5 24.104999999999997 130-134 28.325 24.69 23.715 23.27 135-139 28.645 24.37 23.380000000000003 23.605 140-144 28.585 24.95 23.16 23.305 145-149 29.04 24.685000000000002 23.525 22.75 150-151 28.9875 23.9875 24.7 22.325 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 0.0 1 0.0 2 0.0 3 0.0 4 0.5 5 3.0 6 3.0 7 1.0 8 0.5 9 0.5 10 0.5 11 0.0 12 0.5 13 0.5 14 0.5 15 0.5 16 0.0 17 0.0 18 1.5 19 1.5 20 0.0 21 0.0 22 0.0 23 0.0 24 0.5 25 1.0 26 1.0 27 1.0 28 2.5 29 5.0 30 6.0 31 7.0 32 10.0 33 11.0 34 11.5 35 20.0 36 35.5 37 41.5 38 56.0 39 80.5 40 87.5 41 113.5 42 134.0 43 129.0 44 151.0 45 162.0 46 161.5 47 170.0 48 180.5 49 170.0 50 159.5 51 166.0 52 153.5 53 138.0 54 128.0 55 119.0 56 95.5 57 94.0 58 106.5 59 96.5 60 86.0 61 81.5 62 72.0 63 69.0 64 73.0 65 71.0 66 73.0 67 72.5 68 69.5 69 58.0 70 47.0 71 36.5 72 23.5 73 25.5 74 26.0 75 23.0 76 17.0 77 10.5 78 9.5 79 6.5 80 3.5 81 3.5 82 3.0 83 1.0 84 0.5 85 1.5 86 1.5 87 1.0 88 0.5 89 0.5 90 0.5 91 0.0 92 0.5 93 0.5 94 0.5 95 0.5 96 0.5 97 1.5 98 1.0 99 0.5 100 4.0 >>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 0.0 135-139 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 94.875 #Duplication Level Percentage of deduplicated Percentage of total 1 95.15151515151516 90.275 2 4.453227931488801 8.450000000000001 3 0.3689064558629776 1.05 4 0.0 0.0 5 0.0 0.0 6 0.0 0.0 7 0.0 0.0 8 0.0 0.0 9 0.026350461133069828 0.22499999999999998 >10 0.0 0.0 >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 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG 9 0.22499999999999998 No Hit >>END_MODULE >>Adapter Content warn #Position Illumina Universal Adapter Illumina Small RNA 3' Adapter Illumina Small RNA 5' Adapter Nextera Transposase Sequence SOLID Small RNA Adapter 1 0.0 0.0 0.0 0.0 0.0 2 0.0 0.0 0.0 0.0 0.0 3 0.0 0.0 0.0 0.0 0.0 4 0.0 0.0 0.0 0.0 0.0 5 0.0 0.0 0.0 0.0 0.0 6 0.0 0.0 0.0 0.0 0.0 7 0.0 0.0 0.0 0.0 0.0 8 0.0 0.0 0.0 0.0 0.0 9 0.0 0.0 0.0 0.0 0.0 10-11 0.0 0.0 0.0 0.0 0.0 12-13 0.0 0.0 0.0 0.0 0.0 14-15 0.0 0.0 0.0 0.0 0.0 16-17 0.0 0.0 0.0 0.0 0.0 18-19 0.0 0.0 0.0 0.0 0.0 20-21 0.0 0.0 0.0 0.0 0.0 22-23 0.0 0.0 0.0 0.0 0.0 24-25 0.0 0.0 0.0 0.0 0.0 26-27 0.0 0.0 0.0 0.0 0.0 28-29 0.0 0.0 0.0 0.0 0.0 30-31 0.0 0.0 0.0 0.0 0.0 32-33 0.0 0.0 0.0 0.0 0.0 34-35 0.0 0.0 0.0 0.0 0.0 36-37 0.0 0.0 0.0 0.0 0.0 38-39 0.0 0.0 0.0 0.0 0.0 40-41 0.0 0.0 0.0 0.0 0.0 42-43 0.0 0.0 0.0 0.0 0.0 44-45 0.0 0.0 0.0 0.0 0.0 46-47 0.0 0.0 0.0 0.0 0.0 48-49 0.0 0.0 0.0 0.0 0.0 50-51 0.0 0.0 0.0 0.0 0.0 52-53 0.0 0.0 0.0 0.0 0.0 54-55 0.0 0.0 0.0 0.0 0.0 56-57 0.0 0.0 0.0 0.0 0.0 58-59 0.0 0.0 0.0 0.0 0.0 60-61 0.0125 0.0 0.0 0.0 0.0 62-63 0.025 0.0 0.0 0.0 0.0 64-65 0.025 0.0 0.0 0.0 0.0 66-67 0.025 0.0 0.0 0.0 0.0 68-69 0.025 0.0 0.0 0.0 0.0 70-71 0.025 0.0 0.0 0.0 0.0 72-73 0.025 0.0 0.0 0.0 0.0 74-75 0.0625 0.0 0.0 0.0 0.0 76-77 0.075 0.0 0.0 0.0 0.0 78-79 0.15 0.0 0.0 0.0 0.0 80-81 0.175 0.0 0.0 0.0 0.0 82-83 0.175 0.0 0.0 0.0 0.0 84-85 0.2 0.0 0.0 0.0 0.0 86-87 0.225 0.0 0.0 0.0 0.0 88-89 0.30000000000000004 0.0 0.0 0.0 0.0 90-91 0.375 0.0 0.0 0.0 0.0 92-93 0.475 0.0 0.0 0.0 0.0 94-95 0.65 0.0 0.0 0.0 0.0 96-97 0.7875000000000001 0.0 0.0 0.0 0.0 98-99 0.875 0.0 0.0 0.0 0.0 100-101 1.0625 0.0 0.0 0.0 0.0 102-103 1.2374999999999998 0.0 0.0 0.0 0.0 104-105 1.5125000000000002 0.0 0.0 0.0 0.0 106-107 1.775 0.0 0.0 0.0 0.0 108-109 2.0625 0.0 0.0 0.0 0.0 110-111 2.3875 0.0 0.0 0.0 0.0 112-113 2.675 0.0 0.0 0.0 0.0 114-115 2.9375 0.0 0.0 0.0 0.0 116-117 3.125 0.0 0.0 0.0 0.0 118-119 3.45 0.0 0.0 0.0 0.0 120-121 3.7125 0.0 0.0 0.0 0.0 122-123 4.0875 0.0 0.0 0.0 0.0 124-125 4.449999999999999 0.0 0.0 0.0 0.0 126-127 4.8 0.0 0.0 0.0 0.0 128-129 5.175000000000001 0.0 0.0 0.0 0.0 130-131 5.6125 0.0 0.0 0.0 0.0 132-133 6.2 0.0 0.0 0.0 0.0 134-135 6.9 0.0 0.0 0.0 0.0 136-137 7.45 0.0 0.0 0.0 0.0 138-139 7.8375 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Read 2018321 spots for SRR7814829.sra Written 2018321 spots for SRR7814829.sra Read 2018308 spots for SRR7814829.sra Written 2018308 spots for SRR7814829.sra Read 2018308 spots for SRR7814829.sra Written 2018308 spots for SRR7814829.sra Read 2018308 spots for SRR7814829.sra Written 2018308 spots for SRR7814829.sra Read 2018308 spots for SRR7814829.sra Written 2018308 spots for SRR7814829.sra Read 2018308 spots for SRR7814829.sra Written 2018308 spots for SRR7814829.sra Read 2018308 spots for SRR7814829.sra Written 2018308 spots for SRR7814829.sra Read 2018308 spots for SRR7814829.sra Written 2018308 spots for SRR7814829.sra Read 2018308 spots for SRR7814829.sra Written 2018308 spots for SRR7814829.sra Read 2018308 spots for SRR7814829.sra Written 2018308 spots for SRR7814829.sra Read 2018308 spots for SRR7814829.sra Written 2018308 spots for SRR7814829.sra Read 2018308 spots for SRR7814829.sra Written 2018308 spots for SRR7814829.sra Read 2018308 spots for SRR7814829.sra Written 2018308 spots for SRR7814829.sra Read 2018308 spots for SRR7814829.sra Written 2018308 spots for SRR7814829.sra Read 2018308 spots for SRR7814829.sra Written 2018308 spots for SRR7814829.sra Read 2018308 spots for SRR7814829.sra Written 2018308 spots for SRR7814829.sra Read 2018308 spots for SRR7814829.sra Written 2018308 spots for SRR7814829.sra Read 2018308 spots for SRR7814829.sra Written 2018308 spots for SRR7814829.sra Read 2018308 spots for SRR7814829.sra Written 2018308 spots for SRR7814829.sra Read 2018308 spots for SRR7814829.sra Written 2018308 spots for SRR7814829.sra SRR ids: ['SRR7814829.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_6cqzv0zu SRR7814829.sra spots: 40366173 blocks: [[1, 2018308], [2018309, 4036616], [4036617, 6054924], [6054925, 8073232], [8073233, 10091540], [10091541, 12109848], [12109849, 14128156], [14128157, 16146464], [16146465, 18164772], [18164773, 20183080], [20183081, 22201388], [22201389, 24219696], [24219697, 26238004], [26238005, 28256312], [28256313, 30274620], [30274621, 32292928], [32292929, 34311236], [34311237, 36329544], [36329545, 38347852], [38347853, 40366173]] SRR7814829 file size 13657071 SRR7814829 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 SRR7814829 SRR7814829_1.fastq SRR7814829_2.fastq Input file: SRR7814829_1.fastq Paired file: SRR7814829_2.fastq trimmed: SRR7814829-trimmed-pair1.fastq, SRR7814829-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 Fri Dec 6 11:36:44 2024 >> started Fri Dec 6 11:37:40 2024 >> done (55.793s) 40366173 read pairs processed; of these: 206 ( 0.00%) short read pairs filtered out after trimming by size control 16236 ( 0.04%) empty read pairs filtered out after trimming by size control 40349731 (99.96%) read pairs available; of these: 4939714 (12.24%) trimmed read pairs available after processing 35410017 (87.76%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 18 19 0.00% 19 14 0.00% 20 12 0.00% 21 29 0.00% 22 26 0.00% 23 29 0.00% 24 36 0.00% 25 37 0.00% 26 58 0.00% 27 63 0.00% 28 68 0.00% 29 68 0.00% 30 61 0.00% 31 59 0.00% 32 72 0.00% 33 84 0.00% 34 77 0.00% 35 92 0.00% 36 102 0.00% 37 106 0.00% 38 120 0.00% 39 119 0.00% 40 114 0.00% 41 115 0.00% 42 124 0.00% 43 152 0.00% 44 123 0.00% 45 144 0.00% 46 183 0.00% 47 183 0.00% 48 214 0.00% 49 254 0.00% 50 273 0.00% 51 322 0.00% 52 311 0.00% 53 318 0.00% 54 327 0.00% 55 357 0.00% 56 424 0.00% 57 435 0.00% 58 500 0.00% 59 594 0.00% 60 721 0.00% 61 865 0.00% 62 891 0.00% 63 927 0.00% 64 991 0.00% 65 1150 0.00% 66 1230 0.00% 67 1376 0.00% 68 1527 0.00% 69 1880 0.00% 70 2025 0.01% 71 2313 0.01% 72 2644 0.01% 73 3065 0.01% 74 3358 0.01% 75 3721 0.01% 76 4089 0.01% 77 4572 0.01% 78 5166 0.01% 79 5706 0.01% 80 6361 0.02% 81 7250 0.02% 82 8258 0.02% 83 9234 0.02% 84 10107 0.03% 85 11052 0.03% 86 12145 0.03% 87 13297 0.03% 88 14658 0.04% 89 15677 0.04% 90 17246 0.04% 91 18996 0.05% 92 20768 0.05% 93 22658 0.06% 94 24536 0.06% 95 26285 0.07% 96 27920 0.07% 97 29736 0.07% 98 30874 0.08% 99 33115 0.08% 100 35567 0.09% 101 37131 0.09% 102 39579 0.10% 103 42075 0.10% 104 43810 0.11% 105 46335 0.11% 106 48151 0.12% 107 50107 0.12% 108 51724 0.13% 109 54368 0.13% 110 56028 0.14% 111 58150 0.14% 112 61415 0.15% 113 63503 0.16% 114 65940 0.16% 115 68641 0.17% 116 70549 0.17% 117 71876 0.18% 118 74105 0.18% 119 74993 0.19% 120 77797 0.19% 121 80328 0.20% 122 82955 0.21% 123 84978 0.21% 124 88061 0.22% 125 90200 0.22% 126 92942 0.23% 127 95025 0.24% 128 95616 0.24% 129 97447 0.24% 130 99465 0.25% 131 100810 0.25% 132 103572 0.26% 133 107303 0.27% 134 108626 0.27% 135 111549 0.28% 136 114102 0.28% 137 114105 0.28% 138 116569 0.29% 139 118526 0.29% 140 119267 0.30% 141 121241 0.30% 142 124238 0.31% 143 126278 0.31% 144 129019 0.32% 145 131479 0.33% 146 132297 0.33% 147 135350 0.34% 148 136136 0.34% 149 136016 0.34% 150 139162 0.34% 151 35410017 87.76% 40349731 reads passed initial QC criterion=sequence-density sequence-density=0.17 sequence-density-rank=1 fanout-score=4.60 fanout-score-rank=28 prefix-density=0.23 prefix-fanout=3.4 sequence=CGCTGCTGGTCCGGGGG criterion=fanout-score sequence-density=0.03 sequence-density-rank=33 fanout-score=364.26 fanout-score-rank=1 prefix-density=0.53 prefix-fanout=19.4 sequence=GGCGGCGGCGAACCGCCCCCGTCGCCGCGATCCGAACACTTCACCGGACCATTCAATCGGTAGGAGCGACGGGCGGTGTGTACAAAGGGCAGGGACGTAGTCAACGCGAGCTGATGACTCGCGCTTACTAGGCATTCCTCGTTGAAGACCAACAATTGCAATGATCTATCCCCATCACGATGAAATTTCCCAAGATTACCCGGGCCTGTCGGCCAAGGCTATATACTCGTTGAATACATCAGTGTAGCGCGCGTGCGGCCCAGAACATCTAAGGGCATCACAGACCTGTTATTGCCTCAAACTTCCGTCGCCTAAACGGCGATAGTCCCTCTAAGAAGCTAGCTGCGGAGGGATGGCTCCGCATAGCTAGTTAGCAGGCTGAGGTCTCGTTCGTTAACGGAATTAACCAGACAAATCGCTCCACCAACTAAGAACGGCCATGCACCACCACCCATAGAATCAAGAAAGAGCTCTCAGTCTGTCAATCCTTGCTATGTCTGGACCTGGTAAG criterion=sequence-density sequence-density=0.38 sequence-density-rank=1 fanout-score=3.02 fanout-score-rank=32 prefix-density=0.44 prefix-fanout=2.6 sequence=GAAGATGTCTTGC criterion=fanout-score sequence-density=0.03 sequence-density-rank=34 fanout-score=649.74 fanout-score-rank=1 prefix-density=0.87 prefix-fanout=21.1 sequence=GCCGCCGCCCCTCGTCCTCTGTGTTCCTTCTCCGAGTTTCAGCCATGGGTAAGGAGAAGACTCACATCAACATCGTGGTCATTGGCCATGTCGACTCTGGCAAGTCGACCACCACTGGCCACCTGATCTACAAGCTTGGAGGTATTGACAAGCGTGTGATCGAGAGGTTCGAGAAGGAGGCTGC SRR7814829 testing PE reads STAR mapping to Ensembl genome Started job on | Dec 06 11:40:00 Started mapping on | Dec 06 11:40:01 Finished on | Dec 06 11:44:58 Mapping speed, Million of reads per hour | 489.09 Number of input reads | 40349731 Average input read length | 296 UNIQUE READS: Uniquely mapped reads number | 37542247 Uniquely mapped reads % | 93.04% Average mapped length | 294.46 Number of splices: Total | 35741664 Number of splices: Annotated (sjdb) | 33693366 Number of splices: GT/AG | 35238851 Number of splices: GC/AG | 395562 Number of splices: AT/AC | 26388 Number of splices: Non-canonical | 80863 Mismatch rate per base, % | 0.42% Deletion rate per base | 0.03% Deletion average length | 3.04 Insertion rate per base | 0.03% Insertion average length | 2.70 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 653899 % of reads mapped to multiple loci | 1.62% Number of reads mapped to too many loci | 57237 % of reads mapped to too many loci | 0.14% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 4.35% % of reads unmapped: other | 0.85% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 2153585 2153585 2153585 N_multimapping 653899 653899 653899 N_noFeature 1020121 36489288 1419673 N_ambiguous 741059 4049 87949 UnstrandedReadsAssigned:35781067 PositiveStrandReadsAssigned:1048910 NegativeStrandReadsAssigned:36034625 Dataset is classified negative stranded MeadianReadLen=151 20thPercentileLength=151 echo kmer=147 SRR7814829 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: SRR7814829-trimmed-pair1.fastq SRR7814829-trimmed-pair2.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 40,349,731 reads, 36,649,754 reads pseudoaligned [quant] estimated average fragment length: 252.218 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,268 rounds 52973 SRR7814829.ke.tsv 35125 SRR7814829.se.tsv 88098 total ==> SRR7814829.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 685.143 37.2147 2.00566 PNS24247 1044 792.782 102.449 4.77174 PNS24249 1928 1676.78 350.259 7.71326 PNS24246 1044 792.782 102.449 4.77174 PNS24248 1044 792.782 102.449 4.77174 PNS24244 1471 1219.78 372.18 11.2667 PNS24243 293 97.0193 0 0 KQK14069 1603 1351.78 5929.47 161.97 KQK14071 474 241.161 23.1131 3.53897 ==> SRR7814829.se.tsv <== BRADI_1g14170v3 5984 BRADI_1g53295v3 1133 BRADI_1g59795v3 132 BRADI_1g07683v3 0 BRADI_1g00485v3 93 BRADI_1g20270v3 2597 BRADI_1g74790v3 131 BRADI_1g09890v3 0 BRADI_1g77505v3 427 BRADI_1g48960v3 0 SRR7814829 completed mapping pipeline successfully