Starting /dee2/code/volunteer_pipeline.sh SRR7814810 current disk space = 1551530291200 free memory = 1602315708 SRR7814810 SRAfilesize 572243eb924110d88e82c654c43b3837 SRR7814810.sra SRR7814810.sra file validated SRR7814810 is paired end SRR7814810 is conventional basespace SRR7814810 read1 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR7814810_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 36.22325 37.0 37.0 37.0 37.0 37.0 2 36.26925 37.0 37.0 37.0 37.0 37.0 3 36.4235 37.0 37.0 37.0 37.0 37.0 4 36.4555 37.0 37.0 37.0 37.0 37.0 5 36.539 37.0 37.0 37.0 37.0 37.0 6 36.491 37.0 37.0 37.0 37.0 37.0 7 36.4815 37.0 37.0 37.0 37.0 37.0 8 36.4945 37.0 37.0 37.0 37.0 37.0 9 36.487 37.0 37.0 37.0 37.0 37.0 10-14 36.5305 37.0 37.0 37.0 37.0 37.0 15-19 36.5074 37.0 37.0 37.0 37.0 37.0 20-24 36.431200000000004 37.0 37.0 37.0 37.0 37.0 25-29 36.3895 37.0 37.0 37.0 37.0 37.0 30-34 36.4675 37.0 37.0 37.0 37.0 37.0 35-39 36.4168 37.0 37.0 37.0 37.0 37.0 40-44 36.3834 37.0 37.0 37.0 37.0 37.0 45-49 36.32619999999999 37.0 37.0 37.0 37.0 37.0 50-54 36.2987 37.0 37.0 37.0 37.0 37.0 55-59 36.2912 37.0 37.0 37.0 37.0 37.0 60-64 36.2171 37.0 37.0 37.0 37.0 37.0 65-69 36.18599999999999 37.0 37.0 37.0 37.0 37.0 70-74 36.1096 37.0 37.0 37.0 37.0 37.0 75-79 36.0955 37.0 37.0 37.0 37.0 37.0 80-84 36.103899999999996 37.0 37.0 37.0 37.0 37.0 85-89 36.061899999999994 37.0 37.0 37.0 37.0 37.0 90-94 35.9418 37.0 37.0 37.0 37.0 37.0 95-99 35.8323 37.0 37.0 37.0 37.0 37.0 100-104 35.879 37.0 37.0 37.0 37.0 37.0 105-109 35.911199999999994 37.0 37.0 37.0 37.0 37.0 110-114 35.835499999999996 37.0 37.0 37.0 37.0 37.0 115-119 35.6396 37.0 37.0 37.0 37.0 37.0 120-124 35.6319 37.0 37.0 37.0 37.0 37.0 125-129 35.6135 37.0 37.0 37.0 37.0 37.0 130-134 35.5342 37.0 37.0 37.0 37.0 37.0 135-139 35.3403 37.0 37.0 37.0 34.6 37.0 140-144 35.2555 37.0 37.0 37.0 32.2 37.0 145-149 35.0388 37.0 37.0 37.0 25.0 37.0 150-151 34.38275 37.0 37.0 37.0 25.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 21 2.0 22 0.0 23 4.0 24 1.0 25 2.0 26 4.0 27 14.0 28 16.0 29 28.0 30 35.0 31 40.0 32 86.0 33 119.0 34 178.0 35 406.0 36 2807.0 37 258.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 50.38876348131427 11.161274140958113 5.543014798093806 32.90694757963381 2 24.58114528632158 14.87871967991998 30.90772693173293 29.632408102025504 3 21.65 19.3 23.275000000000002 35.775 4 26.875 27.025 20.65 25.45 5 27.675 29.65 22.225 20.45 6 21.85 32.2 22.5 23.45 7 17.2 24.474999999999998 38.6 19.725 8 20.05 22.375 30.925000000000004 26.650000000000002 9 20.875 19.625 32.6 26.900000000000002 10-14 23.525 26.279999999999998 25.230000000000004 24.965 15-19 23.325000000000003 26.38 25.040000000000003 25.255 20-24 23.3 25.674999999999997 25.35 25.674999999999997 25-29 23.25 25.374999999999996 25.419999999999998 25.955000000000002 30-34 23.685000000000002 25.264999999999997 24.9 26.150000000000002 35-39 23.74 25.895000000000003 24.675 25.69 40-44 23.580000000000002 25.900000000000002 24.985 25.535000000000004 45-49 24.215 26.029999999999998 23.685000000000002 26.07 50-54 24.135 25.36 24.8 25.705 55-59 23.895 25.945 24.099999999999998 26.06 60-64 23.655 25.779999999999998 24.29 26.275 65-69 23.21 25.91 24.345 26.534999999999997 70-74 24.505 24.55 25.0 25.945 75-79 24.32 25.27 23.94 26.47 80-84 24.295 25.145 24.6 25.96 85-89 24.33 25.174999999999997 24.605 25.89 90-94 23.34 24.935 25.16 26.565 95-99 24.104999999999997 25.34 24.48 26.075 100-104 24.13 25.14 24.59 26.14 105-109 24.385 24.525 24.37 26.72 110-114 24.055 25.03 24.474999999999998 26.44 115-119 24.365000000000002 25.419999999999998 23.805 26.41 120-124 24.32 25.35 24.055 26.275 125-129 24.740000000000002 24.685000000000002 24.29 26.284999999999997 130-134 24.345 25.03 24.34 26.284999999999997 135-139 24.445 25.03 24.43 26.095000000000002 140-144 24.945 24.515 23.98 26.56 145-149 25.0 24.224999999999998 24.615000000000002 26.16 150-151 25.224999999999998 24.762500000000003 23.9875 26.025 >>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 0.0 23 0.5 24 0.5 25 0.0 26 1.0 27 2.0 28 1.5 29 1.5 30 5.5 31 9.0 32 9.5 33 12.0 34 24.0 35 39.0 36 43.5 37 58.0 38 86.0 39 106.0 40 130.0 41 143.5 42 162.0 43 185.0 44 186.5 45 182.0 46 186.0 47 187.0 48 183.5 49 185.0 50 169.0 51 144.0 52 139.5 53 133.0 54 115.5 55 106.0 56 94.5 57 89.5 58 77.5 59 67.5 60 68.5 61 62.0 62 56.5 63 61.5 64 65.5 65 50.5 66 48.0 67 47.0 68 41.0 69 37.0 70 26.5 71 26.0 72 31.5 73 32.5 74 22.5 75 14.5 76 10.0 77 8.5 78 9.0 79 7.0 80 2.5 81 1.0 82 1.5 83 1.0 84 1.0 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 0.325 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 95.89999999999999 #Duplication Level Percentage of deduplicated Percentage of total 1 95.98540145985402 92.05 2 3.7539103232533892 7.199999999999999 3 0.2606882168925964 0.75 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 0.025 0.0 0.0 0.0 0.0 60-61 0.025 0.0 0.0 0.0 0.0 62-63 0.05 0.0 0.0 0.0 0.0 64-65 0.05 0.0 0.0 0.0 0.0 66-67 0.05 0.0 0.0 0.0 0.0 68-69 0.075 0.0 0.0 0.0 0.0 70-71 0.075 0.0 0.0 0.0 0.0 72-73 0.0875 0.0 0.0 0.0 0.0 74-75 0.1 0.0 0.0 0.0 0.0 76-77 0.1 0.0 0.0 0.0 0.0 78-79 0.1875 0.0 0.0 0.0 0.0 80-81 0.21250000000000002 0.0 0.0 0.0 0.0 82-83 0.2875 0.0 0.0 0.0 0.0 84-85 0.3 0.0 0.0 0.0 0.0 86-87 0.32499999999999996 0.0 0.0 0.0 0.0 88-89 0.3875 0.0 0.0 0.0 0.0 90-91 0.4375 0.0 0.0 0.0 0.0 92-93 0.6 0.0 0.0 0.0 0.0 94-95 0.7125 0.0 0.0 0.0 0.0 96-97 0.8625 0.0 0.0 0.0 0.0 98-99 1.0 0.0 0.0 0.0 0.0 100-101 1.15 0.0 0.0 0.0 0.0 102-103 1.3125 0.0 0.0 0.0 0.0 104-105 1.4625 0.0 0.0 0.0 0.0 106-107 1.6 0.0 0.0 0.0 0.0 108-109 1.675 0.0 0.0 0.0 0.0 110-111 1.9125 0.0 0.0 0.0 0.0 112-113 2.1625 0.0 0.0 0.0 0.0 114-115 2.4625 0.0 0.0 0.0 0.0 116-117 2.725 0.0 0.0 0.0 0.0 118-119 2.9375 0.0 0.0 0.0 0.0 120-121 3.1875 0.0 0.0 0.0 0.0 122-123 3.575 0.0 0.0 0.0 0.0 124-125 4.05 0.0 0.0 0.0 0.0 126-127 4.425 0.0 0.0 0.0 0.0 128-129 4.725 0.0 0.0 0.0 0.0 130-131 5.025 0.0 0.0 0.0 0.0 132-133 5.4375 0.0 0.0 0.0 0.0 134-135 5.8125 0.0 0.0 0.0 0.0 136-137 6.3875 0.0 0.0 0.0 0.0 138-139 6.8375 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE SRR7814810 read2 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR7814810_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 36.323 37.0 37.0 37.0 37.0 37.0 2 36.1545 37.0 37.0 37.0 37.0 37.0 3 36.182 37.0 37.0 37.0 37.0 37.0 4 36.1865 37.0 37.0 37.0 37.0 37.0 5 36.378 37.0 37.0 37.0 37.0 37.0 6 36.2295 37.0 37.0 37.0 37.0 37.0 7 36.2105 37.0 37.0 37.0 37.0 37.0 8 36.2075 37.0 37.0 37.0 37.0 37.0 9 36.2185 37.0 37.0 37.0 37.0 37.0 10-14 36.1575 37.0 37.0 37.0 37.0 37.0 15-19 36.1071 37.0 37.0 37.0 37.0 37.0 20-24 36.100100000000005 37.0 37.0 37.0 37.0 37.0 25-29 36.0299 37.0 37.0 37.0 37.0 37.0 30-34 35.9225 37.0 37.0 37.0 37.0 37.0 35-39 35.9123 37.0 37.0 37.0 37.0 37.0 40-44 35.9035 37.0 37.0 37.0 37.0 37.0 45-49 35.8209 37.0 37.0 37.0 37.0 37.0 50-54 35.828199999999995 37.0 37.0 37.0 37.0 37.0 55-59 35.8159 37.0 37.0 37.0 37.0 37.0 60-64 35.6914 37.0 37.0 37.0 37.0 37.0 65-69 35.6774 37.0 37.0 37.0 37.0 37.0 70-74 35.6357 37.0 37.0 37.0 37.0 37.0 75-79 35.63629999999999 37.0 37.0 37.0 37.0 37.0 80-84 35.5736 37.0 37.0 37.0 37.0 37.0 85-89 35.465199999999996 37.0 37.0 37.0 37.0 37.0 90-94 35.4603 37.0 37.0 37.0 37.0 37.0 95-99 35.4292 37.0 37.0 37.0 37.0 37.0 100-104 35.3141 37.0 37.0 37.0 37.0 37.0 105-109 35.32619999999999 37.0 37.0 37.0 37.0 37.0 110-114 35.08579999999999 37.0 37.0 37.0 29.8 37.0 115-119 35.1256 37.0 37.0 37.0 27.4 37.0 120-124 34.9721 37.0 37.0 37.0 25.0 37.0 125-129 34.917 37.0 37.0 37.0 25.0 37.0 130-134 34.820499999999996 37.0 37.0 37.0 25.0 37.0 135-139 34.586200000000005 37.0 37.0 37.0 25.0 37.0 140-144 34.4099 37.0 37.0 37.0 25.0 37.0 145-149 34.4202 37.0 37.0 37.0 25.0 37.0 150-151 33.8405 37.0 37.0 37.0 25.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 12 1.0 13 6.0 14 9.0 15 5.0 16 6.0 17 5.0 18 4.0 19 6.0 20 5.0 21 4.0 22 10.0 23 9.0 24 9.0 25 4.0 26 7.0 27 11.0 28 16.0 29 23.0 30 34.0 31 42.0 32 71.0 33 147.0 34 271.0 35 726.0 36 2444.0 37 125.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 46.45 16.975 8.0 28.575 2 30.925000000000004 22.45 26.525 20.1 3 24.45 25.074999999999996 25.8 24.675 4 29.45 29.875 18.7 21.975 5 28.549999999999997 32.4 18.075 20.974999999999998 6 24.125 34.35 19.8 21.725 7 23.35 18.925 33.45 24.275 8 23.95 23.225 23.625 29.2 9 25.4 21.6 25.674999999999997 27.325 10-14 27.37 25.605 21.785 25.240000000000002 15-19 26.900000000000002 24.895 23.62 24.585 20-24 25.900000000000002 25.25 23.47 25.380000000000003 25-29 26.61 24.895 22.8 25.695 30-34 26.705000000000002 25.14 23.66 24.495 35-39 26.165 25.569999999999997 23.205000000000002 25.06 40-44 26.650000000000002 25.115 23.52 24.715 45-49 26.47 25.509999999999998 23.65 24.37 50-54 26.71 24.785 23.625 24.88 55-59 26.575 24.59 24.09 24.745 60-64 26.415 24.605 24.29 24.69 65-69 26.88 25.224999999999998 23.525 24.37 70-74 26.305 24.779999999999998 24.135 24.779999999999998 75-79 26.424999999999997 25.069999999999997 24.099999999999998 24.404999999999998 80-84 26.52 25.445 23.75 24.285 85-89 26.36 24.990000000000002 24.285 24.365000000000002 90-94 26.515 25.35 24.415 23.72 95-99 26.55 25.069999999999997 23.895 24.485 100-104 26.529999999999998 25.055 24.335 24.08 105-109 27.13 25.355 23.98 23.535 110-114 26.540000000000003 25.395 24.065 24.0 115-119 26.56 25.080000000000002 24.044999999999998 24.315 120-124 26.490000000000002 25.374999999999996 24.175 23.96 125-129 27.150000000000002 25.27 24.07 23.51 130-134 27.529999999999998 25.330000000000002 24.07 23.07 135-139 26.825 25.729999999999997 23.94 23.505000000000003 140-144 27.88 25.465 24.01 22.645 145-149 28.025 25.255 23.835 22.884999999999998 150-151 28.012500000000003 24.9125 23.65 23.425 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 0.0 1 0.5 2 0.5 3 0.5 4 0.5 5 0.0 6 0.5 7 1.0 8 0.5 9 0.0 10 0.5 11 0.5 12 0.0 13 0.5 14 2.5 15 3.0 16 2.5 17 1.5 18 0.5 19 1.0 20 0.5 21 0.5 22 1.0 23 0.5 24 0.5 25 1.0 26 1.0 27 1.0 28 1.0 29 2.5 30 4.5 31 4.0 32 7.5 33 10.5 34 18.0 35 30.0 36 43.0 37 53.0 38 66.0 39 90.0 40 110.0 41 121.5 42 138.0 43 149.5 44 154.5 45 165.5 46 180.0 47 200.0 48 182.0 49 154.0 50 153.0 51 154.5 52 132.5 53 116.0 54 121.0 55 111.5 56 101.5 57 98.0 58 90.0 59 80.5 60 80.5 61 81.0 62 79.0 63 68.0 64 68.5 65 66.5 66 58.5 67 59.0 68 53.5 69 48.5 70 45.5 71 40.0 72 33.5 73 32.0 74 26.0 75 21.0 76 18.5 77 13.0 78 7.0 79 3.5 80 1.5 81 3.5 82 3.5 83 1.5 84 2.5 85 1.5 86 1.5 87 2.0 88 1.0 89 0.5 90 0.5 91 0.5 92 0.5 93 1.0 94 0.5 95 0.5 96 1.0 97 0.5 98 0.0 99 0.5 100 3.5 >>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 95.825 #Duplication Level Percentage of deduplicated Percentage of total 1 96.19097312809811 92.175 2 3.5481346204017745 6.800000000000001 3 0.20871380120010435 0.6 4 0.0 0.0 5 0.026089225150013044 0.125 6 0.0 0.0 7 0.0 0.0 8 0.0 0.0 9 0.0 0.0 >10 0.026089225150013044 0.3 >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 AGCACACACAAGCCTAGAAGCCTTCAGCTTAATCTTCTTCCTAAGCAAGT 12 0.3 No Hit GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG 5 0.125 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 0.025 0.0 0.0 0.0 0.0 60-61 0.025 0.0 0.0 0.0 0.0 62-63 0.05 0.0 0.0 0.0 0.0 64-65 0.05 0.0 0.0 0.0 0.0 66-67 0.05 0.0 0.0 0.0 0.0 68-69 0.075 0.0 0.0 0.0 0.0 70-71 0.075 0.0 0.0 0.0 0.0 72-73 0.0875 0.0 0.0 0.0 0.0 74-75 0.1 0.0 0.0 0.0 0.0 76-77 0.1 0.0 0.0 0.0 0.0 78-79 0.1875 0.0 0.0 0.0 0.0 80-81 0.21250000000000002 0.0 0.0 0.0 0.0 82-83 0.2875 0.0 0.0 0.0 0.0 84-85 0.3 0.0 0.0 0.0 0.0 86-87 0.32499999999999996 0.0 0.0 0.0 0.0 88-89 0.3875 0.0 0.0 0.0 0.0 90-91 0.4375 0.0 0.0 0.0 0.0 92-93 0.6 0.0 0.0 0.0 0.0 94-95 0.7125 0.0 0.0 0.0 0.0 96-97 0.8625 0.0 0.0 0.0 0.0 98-99 1.0 0.0 0.0 0.0 0.0 100-101 1.15 0.0 0.0 0.0 0.0 102-103 1.3125 0.0 0.0 0.0 0.0 104-105 1.4625 0.0 0.0 0.0 0.0 106-107 1.6 0.0 0.0 0.0 0.0 108-109 1.675 0.0 0.0 0.0 0.0 110-111 1.9125 0.0 0.0 0.0 0.0 112-113 2.175 0.0 0.0 0.0 0.0 114-115 2.4875 0.0 0.0 0.0 0.0 116-117 2.7375 0.0 0.0 0.0 0.0 118-119 2.9125 0.0 0.0 0.0 0.0 120-121 3.1625 0.0 0.0 0.0 0.0 122-123 3.55 0.0 0.0 0.0 0.0 124-125 4.05 0.0 0.0 0.0 0.0 126-127 4.425 0.0 0.0 0.0 0.0 128-129 4.725 0.0 0.0 0.0 0.0 130-131 5.025 0.0 0.0 0.0 0.0 132-133 5.4375 0.0 0.0 0.0 0.0 134-135 5.825 0.0 0.0 0.0 0.0 136-137 6.3875 0.0 0.0 0.0 0.0 138-139 6.8375 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Read 1450948 spots for SRR7814810.sra Written 1450948 spots for SRR7814810.sra Read 1450948 spots for SRR7814810.sra Written 1450948 spots for SRR7814810.sra Read 1450948 spots for SRR7814810.sra Written 1450948 spots for SRR7814810.sra Read 1450948 spots for SRR7814810.sra Written 1450948 spots for SRR7814810.sra Read 1450948 spots for SRR7814810.sra Written 1450948 spots for SRR7814810.sra Read 1450948 spots for SRR7814810.sra Written 1450948 spots for SRR7814810.sra Read 1450948 spots for SRR7814810.sra Written 1450948 spots for SRR7814810.sra Read 1450948 spots for SRR7814810.sra Written 1450948 spots for SRR7814810.sra Read 1450948 spots for SRR7814810.sra Written 1450948 spots for SRR7814810.sra Read 1450948 spots for SRR7814810.sra Written 1450948 spots for SRR7814810.sra Read 1450948 spots for SRR7814810.sra Written 1450948 spots for SRR7814810.sra Read 1450948 spots for SRR7814810.sra Written 1450948 spots for SRR7814810.sra Read 1450948 spots for SRR7814810.sra Written 1450948 spots for SRR7814810.sra Read 1450948 spots for SRR7814810.sra Written 1450948 spots for SRR7814810.sra Read 1450948 spots for SRR7814810.sra Written 1450948 spots for SRR7814810.sra Read 1450948 spots for SRR7814810.sra Written 1450948 spots for SRR7814810.sra Read 1450948 spots for SRR7814810.sra Written 1450948 spots for SRR7814810.sra Read 1450961 spots for SRR7814810.sra Written 1450961 spots for SRR7814810.sra Read 1450948 spots for SRR7814810.sra Written 1450948 spots for SRR7814810.sra Read 1450948 spots for SRR7814810.sra Written 1450948 spots for SRR7814810.sra SRR ids: ['SRR7814810.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_xziuh33t SRR7814810.sra spots: 29018973 blocks: [[1, 1450948], [1450949, 2901896], [2901897, 4352844], [4352845, 5803792], [5803793, 7254740], [7254741, 8705688], [8705689, 10156636], [10156637, 11607584], [11607585, 13058532], [13058533, 14509480], [14509481, 15960428], [15960429, 17411376], [17411377, 18862324], [18862325, 20313272], [20313273, 21764220], [21764221, 23215168], [23215169, 24666116], [24666117, 26117064], [26117065, 27568012], [27568013, 29018973]] SRR7814810 file size 9811877 SRR7814810 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 SRR7814810 SRR7814810_1.fastq SRR7814810_2.fastq Input file: SRR7814810_1.fastq Paired file: SRR7814810_2.fastq trimmed: SRR7814810-trimmed-pair1.fastq, SRR7814810-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 10:48:02 2024 >> started Fri Dec 6 10:48:48 2024 >> done (45.664s) 29018973 read pairs processed; of these: 136 ( 0.00%) short read pairs filtered out after trimming by size control 6839 ( 0.02%) empty read pairs filtered out after trimming by size control 29011998 (99.98%) read pairs available; of these: 3292671 (11.35%) trimmed read pairs available after processing 25719327 (88.65%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 18 6 0.00% 19 19 0.00% 20 19 0.00% 21 19 0.00% 22 17 0.00% 23 19 0.00% 24 20 0.00% 25 27 0.00% 26 28 0.00% 27 25 0.00% 28 34 0.00% 29 33 0.00% 30 42 0.00% 31 38 0.00% 32 51 0.00% 33 44 0.00% 34 56 0.00% 35 50 0.00% 36 50 0.00% 37 52 0.00% 38 65 0.00% 39 73 0.00% 40 76 0.00% 41 60 0.00% 42 101 0.00% 43 65 0.00% 44 74 0.00% 45 100 0.00% 46 103 0.00% 47 123 0.00% 48 91 0.00% 49 147 0.00% 50 164 0.00% 51 185 0.00% 52 176 0.00% 53 192 0.00% 54 186 0.00% 55 225 0.00% 56 264 0.00% 57 301 0.00% 58 342 0.00% 59 341 0.00% 60 453 0.00% 61 502 0.00% 62 569 0.00% 63 595 0.00% 64 675 0.00% 65 704 0.00% 66 797 0.00% 67 906 0.00% 68 1040 0.00% 69 1079 0.00% 70 1282 0.00% 71 1608 0.01% 72 1883 0.01% 73 1940 0.01% 74 2271 0.01% 75 2475 0.01% 76 2777 0.01% 77 3125 0.01% 78 3384 0.01% 79 3857 0.01% 80 4270 0.01% 81 4936 0.02% 82 5519 0.02% 83 6179 0.02% 84 6995 0.02% 85 7503 0.03% 86 8127 0.03% 87 8950 0.03% 88 9594 0.03% 89 10550 0.04% 90 11253 0.04% 91 12947 0.04% 92 13795 0.05% 93 15453 0.05% 94 16529 0.06% 95 17783 0.06% 96 18661 0.06% 97 19628 0.07% 98 20685 0.07% 99 22057 0.08% 100 23554 0.08% 101 24733 0.09% 102 26398 0.09% 103 27961 0.10% 104 29375 0.10% 105 30841 0.11% 106 32503 0.11% 107 32940 0.11% 108 34765 0.12% 109 36147 0.12% 110 36982 0.13% 111 38715 0.13% 112 40396 0.14% 113 42369 0.15% 114 43944 0.15% 115 45603 0.16% 116 46757 0.16% 117 48351 0.17% 118 48907 0.17% 119 50107 0.17% 120 51741 0.18% 121 53185 0.18% 122 54797 0.19% 123 56423 0.19% 124 58922 0.20% 125 60114 0.21% 126 61613 0.21% 127 62622 0.22% 128 63057 0.22% 129 65527 0.23% 130 65615 0.23% 131 66453 0.23% 132 69085 0.24% 133 70573 0.24% 134 72220 0.25% 135 74506 0.26% 136 76125 0.26% 137 76524 0.26% 138 77472 0.27% 139 78882 0.27% 140 79178 0.27% 141 80173 0.28% 142 83053 0.29% 143 83675 0.29% 144 85970 0.30% 145 88049 0.30% 146 89557 0.31% 147 92182 0.32% 148 91370 0.31% 149 91848 0.32% 150 93373 0.32% 151 25719327 88.65% 29011998 reads passed initial QC criterion=sequence-density sequence-density=0.18 sequence-density-rank=1 fanout-score=4.61 fanout-score-rank=29 prefix-density=0.24 prefix-fanout=3.4 sequence=GGCAGCCTCCTT criterion=fanout-score sequence-density=0.03 sequence-density-rank=35 fanout-score=360.51 fanout-score-rank=1 prefix-density=0.55 prefix-fanout=18.2 sequence=GGCGGCGGCGAACCGCCCCCGTCGCCGCGATCCGAACACTTCACCGGACCATTCAATCGGTAGGAGCGACGGGCGGTGTGTACAAAGGGCAGGGACGTAGTCAACGCGAGCTGATGACTCGCGCTTACTAGGCATTCCTCGTTGAAGACCAACAATTGCAATGATCTATCCCCATCACGATGAAATTTCCCAAGATTACCCGGGCCTGTCGGCCAAGGCTATATACTCGTTGAATACATCAGTGTAGCGCGCGTGCGGCCCAGAACATCTAAGGGCATCACAGACCTGTTATTGCCTCAAACTTCCGTCGCCTAAACGGCGATAGTCCCTCTAAGAAGCTAGCTGCGGAGGGATGGCTCCGCATAGCTAGTTAGCAGGCTGAGGTCTCGTTCGTTAACGGAATTAACCAGACAAATCGCTCCACCAACTAAGAACGGCCATGCACCACCACCCATAGAATCAAGAAAGAGCTCTCAGTCTGTCAATCCTTGCTATGTCTGGACCTGGTAAG criterion=sequence-density sequence-density=0.43 sequence-density-rank=1 fanout-score=2.44 fanout-score-rank=33 prefix-density=0.46 prefix-fanout=2.3 sequence=CGGTTCCGGTTC criterion=fanout-score sequence-density=0.08 sequence-density-rank=26 fanout-score=264.88 fanout-score-rank=1 prefix-density=1.17 prefix-fanout=18.4 sequence=CGCCGCCGCCGA SRR7814810 testing PE reads STAR mapping to Ensembl genome Started job on | Dec 06 10:50:27 Started mapping on | Dec 06 10:50:27 Finished on | Dec 06 10:54:01 Mapping speed, Million of reads per hour | 488.05 Number of input reads | 29011998 Average input read length | 288 UNIQUE READS: Uniquely mapped reads number | 24459079 Uniquely mapped reads % | 84.31% Average mapped length | 288.75 Number of splices: Total | 23881326 Number of splices: Annotated (sjdb) | 22441115 Number of splices: GT/AG | 23531628 Number of splices: GC/AG | 272537 Number of splices: AT/AC | 19422 Number of splices: Non-canonical | 57739 Mismatch rate per base, % | 0.45% Deletion rate per base | 0.03% Deletion average length | 3.04 Insertion rate per base | 0.02% Insertion average length | 2.70 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 434109 % of reads mapped to multiple loci | 1.50% Number of reads mapped to too many loci | 62615 % of reads mapped to too many loci | 0.22% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 12.94% % of reads unmapped: other | 1.05% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 4118811 4118811 4118811 N_multimapping 434109 434109 434109 N_noFeature 780685 23838214 1007633 N_ambiguous 523095 4054 130709 UnstrandedReadsAssigned:23155299 PositiveStrandReadsAssigned:616811 NegativeStrandReadsAssigned:23320737 Dataset is classified negative stranded MeadianReadLen=151 20thPercentileLength=151 echo kmer=147 SRR7814810 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: SRR7814810-trimmed-pair1.fastq SRR7814810-trimmed-pair2.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 29,011,998 reads, 26,169,748 reads pseudoaligned [quant] estimated average fragment length: 249.892 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,166 rounds 52973 SRR7814810.ke.tsv 35125 SRR7814810.se.tsv 88098 total ==> SRR7814810.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 687.546 0 0 PNS24247 1044 795.108 121.667 8.14123 PNS24249 1928 1679.11 437.973 13.8775 PNS24246 1044 795.108 121.667 8.14123 PNS24248 1044 795.108 121.667 8.14123 PNS24244 1471 1222.11 122.025 5.31229 PNS24243 293 100.82 0 0 KQK14069 1603 1354.11 1237.47 48.6209 KQK14071 474 244.783 2.23106 0.484922 ==> SRR7814810.se.tsv <== BRADI_1g14170v3 1081 BRADI_1g53295v3 816 BRADI_1g59795v3 116 BRADI_1g07683v3 0 BRADI_1g00485v3 117 BRADI_1g20270v3 2905 BRADI_1g74790v3 98 BRADI_1g09890v3 3 BRADI_1g77505v3 554 BRADI_1g48960v3 0 SRR7814810 completed mapping pipeline successfully