Starting /dee2/code/volunteer_pipeline.sh ERR9452526 current disk space = 1547580313600 free memory = 1376162608 ERR9452526 SRAfilesize 9188985ba0cf26bd731e91a5a0ecfa30 ERR9452526.sra ERR9452526.sra file validated ERR9452526 is paired end ERR9452526 is conventional basespace ERR9452526 read1 length is 150 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR9452526_1.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 150 %GC 55 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 35.8645 37.0 37.0 37.0 37.0 37.0 2 35.5965 37.0 37.0 37.0 37.0 37.0 3 35.8935 37.0 37.0 37.0 37.0 37.0 4 36.0585 37.0 37.0 37.0 37.0 37.0 5 36.244 37.0 37.0 37.0 37.0 37.0 6 36.193 37.0 37.0 37.0 37.0 37.0 7 36.1055 37.0 37.0 37.0 37.0 37.0 8 36.286 37.0 37.0 37.0 37.0 37.0 9 36.309 37.0 37.0 37.0 37.0 37.0 10-14 36.2096 37.0 37.0 37.0 37.0 37.0 15-19 36.245400000000004 37.0 37.0 37.0 37.0 37.0 20-24 36.2204 37.0 37.0 37.0 37.0 37.0 25-29 36.162400000000005 37.0 37.0 37.0 37.0 37.0 30-34 36.10210000000001 37.0 37.0 37.0 37.0 37.0 35-39 35.98479999999999 37.0 37.0 37.0 37.0 37.0 40-44 35.9587 37.0 37.0 37.0 37.0 37.0 45-49 35.9251 37.0 37.0 37.0 37.0 37.0 50-54 35.914699999999996 37.0 37.0 37.0 37.0 37.0 55-59 35.9023 37.0 37.0 37.0 37.0 37.0 60-64 35.86280000000001 37.0 37.0 37.0 37.0 37.0 65-69 35.8095 37.0 37.0 37.0 37.0 37.0 70-74 35.7787 37.0 37.0 37.0 37.0 37.0 75-79 35.795 37.0 37.0 37.0 37.0 37.0 80-84 35.7107 37.0 37.0 37.0 37.0 37.0 85-89 35.754900000000006 37.0 37.0 37.0 37.0 37.0 90-94 35.633700000000005 37.0 37.0 37.0 37.0 37.0 95-99 35.667500000000004 37.0 37.0 37.0 37.0 37.0 100-104 35.6486 37.0 37.0 37.0 37.0 37.0 105-109 35.5016 37.0 37.0 37.0 37.0 37.0 110-114 35.58990000000001 37.0 37.0 37.0 37.0 37.0 115-119 35.4607 37.0 37.0 37.0 37.0 37.0 120-124 35.4549 37.0 37.0 37.0 37.0 37.0 125-129 35.52889999999999 37.0 37.0 37.0 37.0 37.0 130-134 35.4103 37.0 37.0 37.0 37.0 37.0 135-139 35.184599999999996 37.0 37.0 37.0 27.4 37.0 140-144 35.233 37.0 37.0 37.0 29.8 37.0 145-149 35.4084 37.0 37.0 37.0 37.0 37.0 150 35.346 37.0 37.0 37.0 37.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 21 1.0 22 3.0 23 4.0 24 2.0 25 6.0 26 6.0 27 20.0 28 40.0 29 44.0 30 64.0 31 78.0 32 89.0 33 143.0 34 185.0 35 393.0 36 2672.0 37 250.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 30.475 13.05 14.374999999999998 42.1 2 28.46423211605803 21.735867933966986 27.863931965982992 21.935967983991997 3 25.7 26.325 18.525 29.45 4 29.25 31.05 15.2 24.5 5 27.35 31.724999999999998 18.099999999999998 22.825 6 20.349999999999998 32.175 21.625 25.85 7 21.5 13.65 36.425000000000004 28.425 8 23.125 17.075000000000003 24.65 35.15 9 22.55 18.425 27.800000000000004 31.225 10-14 25.86 24.135 22.205 27.800000000000004 15-19 26.33 22.785 22.919999999999998 27.965 20-24 26.77 23.86 21.905 27.465 25-29 26.665 22.835 22.525000000000002 27.975 30-34 27.060000000000002 22.66 22.64 27.639999999999997 35-39 26.83 22.720000000000002 22.495 27.955000000000002 40-44 26.6 23.02 22.725 27.655 45-49 27.029999999999998 22.395 22.62 27.955000000000002 50-54 26.540000000000003 22.650000000000002 22.689999999999998 28.12 55-59 27.26 22.75 22.375 27.615000000000002 60-64 26.75 23.085 22.009999999999998 28.155 65-69 27.185 22.375 22.275 28.165000000000003 70-74 27.445000000000004 23.07 22.105 27.38 75-79 26.905 22.54 22.39 28.165000000000003 80-84 27.255000000000003 22.305 22.12 28.32 85-89 27.38 22.57 22.11 27.939999999999998 90-94 26.955000000000002 22.384999999999998 22.264999999999997 28.395 95-99 27.92 22.485 21.3 28.294999999999998 100-104 27.365000000000002 23.200000000000003 21.37 28.065 105-109 27.67 22.259999999999998 22.395 27.675 110-114 27.785 22.425 21.815 27.975 115-119 27.355 22.56 21.959999999999997 28.125 120-124 27.325 22.215 22.175 28.285 125-129 27.525 22.95 21.805 27.72 130-134 28.060000000000002 22.615 21.67 27.655 135-139 27.655 22.255 22.165000000000003 27.925 140-144 27.815 22.395 21.98 27.810000000000002 145-149 27.62 22.45 21.975 27.955000000000002 150 27.6 22.15 23.474999999999998 26.775 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 0.0 1 0.0 2 1.0 3 1.0 4 0.5 5 0.5 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 0.5 15 1.0 16 1.0 17 1.0 18 0.5 19 0.0 20 0.0 21 0.5 22 0.5 23 0.0 24 0.0 25 0.5 26 1.0 27 0.5 28 0.0 29 1.0 30 4.5 31 7.0 32 6.5 33 13.0 34 20.0 35 29.0 36 34.0 37 33.0 38 46.0 39 65.5 40 83.0 41 93.5 42 105.0 43 122.0 44 128.0 45 129.5 46 146.5 47 146.0 48 146.0 49 140.0 50 120.0 51 112.0 52 111.5 53 112.5 54 101.0 55 104.0 56 95.5 57 78.5 58 86.5 59 88.0 60 76.0 61 84.0 62 91.0 63 83.0 64 90.5 65 92.5 66 95.0 67 97.5 68 95.5 69 84.0 70 80.0 71 86.0 72 82.0 73 64.5 74 52.5 75 47.0 76 37.0 77 37.5 78 27.0 79 17.0 80 16.0 81 12.0 82 7.0 83 8.0 84 5.0 85 4.0 86 4.0 87 1.0 88 0.5 89 0.5 90 1.0 91 1.0 92 0.5 93 0.5 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 0.05 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 0.0 >>END_MODULE >>Sequence Length Distribution pass #Length Count 150 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 93.0 #Duplication Level Percentage of deduplicated Percentage of total 1 92.8763440860215 86.375 2 6.720430107526881 12.5 3 0.4032258064516129 1.125 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 pass #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 0.0 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 0.025 0.0 0.0 0.0 0.0 76-77 0.025 0.0 0.0 0.0 0.0 78-79 0.025 0.0 0.0 0.0 0.0 80-81 0.025 0.0 0.0 0.0 0.0 82-83 0.025 0.0 0.0 0.0 0.0 84-85 0.025 0.0 0.0 0.0 0.0 86-87 0.037500000000000006 0.0 0.0 0.0 0.0 88-89 0.0625 0.0 0.0 0.0 0.0 90-91 0.075 0.0 0.0 0.0 0.0 92-93 0.075 0.0 0.0 0.0 0.0 94-95 0.1 0.0 0.0 0.0 0.0 96-97 0.125 0.0 0.0 0.0 0.0 98-99 0.125 0.0 0.0 0.0 0.0 100-101 0.125 0.0 0.0 0.0 0.0 102-103 0.16249999999999998 0.0 0.0 0.0 0.0 104-105 0.175 0.0 0.0 0.0 0.0 106-107 0.1875 0.0 0.0 0.0 0.0 108-109 0.225 0.0 0.0 0.0 0.0 110-111 0.225 0.0 0.0 0.0 0.0 112-113 0.25 0.0 0.0 0.0 0.0 114-115 0.275 0.0 0.0 0.0 0.0 116-117 0.3125 0.0 0.0 0.0 0.0 118-119 0.325 0.0 0.0 0.0 0.0 120-121 0.35 0.0 0.0 0.0 0.0 122-123 0.4375 0.0 0.0 0.0 0.0 124-125 0.45 0.0 0.0 0.0 0.0 126-127 0.475 0.0 0.0 0.0 0.0 128-129 0.6125 0.0 0.0 0.0 0.0 130-131 0.7625 0.0 0.0 0.0 0.0 132-133 0.8 0.0 0.0 0.0 0.0 134-135 0.85 0.0 0.0 0.0 0.0 136-137 0.9125 0.0 0.0 0.0 0.0 138 0.975 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position ATGAGCT 10 0.006973645 144.0 2 >>END_MODULE ERR9452526 read2 length is 150 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR9452526_2.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 150 %GC 55 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 35.73125 37.0 37.0 37.0 37.0 37.0 2 35.794 37.0 37.0 37.0 37.0 37.0 3 36.025 37.0 37.0 37.0 37.0 37.0 4 35.886 37.0 37.0 37.0 37.0 37.0 5 36.014 37.0 37.0 37.0 37.0 37.0 6 35.6385 37.0 37.0 37.0 37.0 37.0 7 35.979 37.0 37.0 37.0 37.0 37.0 8 35.753 37.0 37.0 37.0 37.0 37.0 9 35.904 37.0 37.0 37.0 37.0 37.0 10-14 35.9144 37.0 37.0 37.0 37.0 37.0 15-19 35.796800000000005 37.0 37.0 37.0 37.0 37.0 20-24 35.9289 37.0 37.0 37.0 37.0 37.0 25-29 35.7517 37.0 37.0 37.0 37.0 37.0 30-34 35.7558 37.0 37.0 37.0 37.0 37.0 35-39 35.69420000000001 37.0 37.0 37.0 37.0 37.0 40-44 35.8443 37.0 37.0 37.0 37.0 37.0 45-49 35.7535 37.0 37.0 37.0 37.0 37.0 50-54 35.7457 37.0 37.0 37.0 37.0 37.0 55-59 35.5829 37.0 37.0 37.0 37.0 37.0 60-64 35.6546 37.0 37.0 37.0 37.0 37.0 65-69 35.6277 37.0 37.0 37.0 37.0 37.0 70-74 35.521699999999996 37.0 37.0 37.0 37.0 37.0 75-79 35.615300000000005 37.0 37.0 37.0 37.0 37.0 80-84 35.6029 37.0 37.0 37.0 37.0 37.0 85-89 35.45870000000001 37.0 37.0 37.0 37.0 37.0 90-94 35.561699999999995 37.0 37.0 37.0 37.0 37.0 95-99 35.4285 37.0 37.0 37.0 37.0 37.0 100-104 35.46079999999999 37.0 37.0 37.0 37.0 37.0 105-109 35.4283 37.0 37.0 37.0 37.0 37.0 110-114 35.1092 37.0 37.0 37.0 27.4 37.0 115-119 35.218900000000005 37.0 37.0 37.0 32.2 37.0 120-124 35.15220000000001 37.0 37.0 37.0 27.4 37.0 125-129 35.220000000000006 37.0 37.0 37.0 32.2 37.0 130-134 35.2216 37.0 37.0 37.0 29.8 37.0 135-139 35.056 37.0 37.0 37.0 27.4 37.0 140-144 35.017700000000005 37.0 37.0 37.0 25.0 37.0 145-149 34.7068 37.0 37.0 37.0 25.0 37.0 150 35.104 37.0 37.0 37.0 25.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 16 1.0 17 0.0 18 0.0 19 1.0 20 0.0 21 3.0 22 4.0 23 8.0 24 21.0 25 10.0 26 18.0 27 18.0 28 23.0 29 51.0 30 61.0 31 69.0 32 86.0 33 140.0 34 248.0 35 737.0 36 2378.0 37 123.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 27.773603806661658 13.072877535687452 14.775857751064361 44.37766090658653 2 26.950000000000003 20.95 30.175 21.925 3 26.575 25.95 19.15 28.325 4 31.374999999999996 28.625 14.85 25.15 5 28.775000000000002 31.075000000000003 18.575 21.575 6 20.974999999999998 31.474999999999998 20.4 27.150000000000002 7 20.775 12.875 37.675 28.675 8 23.9 17.549999999999997 24.349999999999998 34.2 9 24.15 18.325 26.924999999999997 30.599999999999998 10-14 25.759999999999998 23.805 22.2 28.235 15-19 26.455000000000002 22.545 22.88 28.12 20-24 26.775 23.62 22.215 27.389999999999997 25-29 26.71 22.755 22.81 27.725 30-34 26.43 23.380000000000003 22.515 27.675 35-39 27.195000000000004 23.080000000000002 21.959999999999997 27.765 40-44 26.490000000000002 22.919999999999998 22.7 27.889999999999997 45-49 26.369999999999997 23.044999999999998 22.99 27.595 50-54 26.945000000000004 21.905 23.09 28.060000000000002 55-59 27.01 22.48 22.685 27.825 60-64 26.965 22.715 22.38 27.939999999999998 65-69 26.945000000000004 22.86 22.235 27.96 70-74 27.150000000000002 22.595000000000002 22.33 27.925 75-79 27.310000000000002 22.615 22.5 27.575 80-84 27.3 22.485 22.415 27.800000000000004 85-89 27.029999999999998 22.830000000000002 22.225 27.915 90-94 27.245 22.365 22.335 28.055000000000003 95-99 27.834999999999997 21.925 22.759999999999998 27.48 100-104 27.939999999999998 22.36 21.790000000000003 27.91 105-109 27.27 22.37 22.86 27.500000000000004 110-114 27.865000000000002 22.11 22.1 27.925 115-119 28.34 21.75 22.35 27.560000000000002 120-124 28.655 22.325 22.215 26.805 125-129 28.105000000000004 22.005 22.205 27.685 130-134 27.33 21.995 23.119999999999997 27.555000000000003 135-139 28.110000000000003 21.52 22.8 27.57 140-144 28.735 22.13 21.385 27.750000000000004 145-149 28.144999999999996 22.215 21.94 27.700000000000003 150 26.8 21.5 22.15 29.549999999999997 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 1.0 1 0.5 2 0.5 3 1.0 4 0.5 5 0.0 6 0.0 7 0.5 8 0.5 9 0.5 10 0.5 11 0.0 12 0.0 13 0.0 14 0.0 15 0.0 16 0.5 17 0.5 18 1.0 19 1.0 20 0.0 21 0.0 22 0.0 23 0.5 24 0.5 25 0.0 26 0.5 27 1.0 28 1.5 29 3.5 30 9.0 31 10.5 32 11.0 33 14.5 34 21.0 35 25.5 36 30.0 37 38.5 38 52.0 39 69.5 40 84.0 41 101.0 42 113.5 43 120.0 44 125.5 45 126.5 46 131.0 47 136.5 48 131.5 49 127.5 50 126.0 51 119.0 52 117.0 53 110.5 54 104.5 55 96.5 56 85.0 57 86.0 58 91.5 59 93.5 60 83.0 61 84.0 62 91.0 63 93.5 64 93.0 65 89.5 66 87.5 67 89.5 68 94.5 69 87.5 70 73.0 71 70.0 72 75.5 73 71.5 74 59.5 75 49.5 76 40.0 77 31.0 78 33.5 79 24.0 80 14.0 81 14.0 82 8.5 83 7.5 84 5.5 85 2.0 86 1.0 87 0.5 88 1.5 89 1.5 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 0.0 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 0.0 >>END_MODULE >>Sequence Length Distribution pass #Length Count 150 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 93.05 #Duplication Level Percentage of deduplicated Percentage of total 1 92.93390650188071 86.47500000000001 2 6.6630843632455665 12.4 3 0.4030091348737238 1.125 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 pass #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 0.0 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 0.025 0.0 0.0 0.0 0.0 76-77 0.025 0.0 0.0 0.0 0.0 78-79 0.025 0.0 0.0 0.0 0.0 80-81 0.025 0.0 0.0 0.0 0.0 82-83 0.025 0.0 0.0 0.0 0.0 84-85 0.025 0.0 0.0 0.0 0.0 86-87 0.037500000000000006 0.0 0.0 0.0 0.0 88-89 0.0625 0.0 0.0 0.0 0.0 90-91 0.075 0.0 0.0 0.0 0.0 92-93 0.075 0.0 0.0 0.0 0.0 94-95 0.1 0.0 0.0 0.0 0.0 96-97 0.1 0.0 0.0 0.0 0.0 98-99 0.1 0.0 0.0 0.0 0.0 100-101 0.1 0.0 0.0 0.0 0.0 102-103 0.1375 0.0 0.0 0.0 0.0 104-105 0.15 0.0 0.0 0.0 0.0 106-107 0.16249999999999998 0.0 0.0 0.0 0.0 108-109 0.2 0.0 0.0 0.0 0.0 110-111 0.2 0.0 0.0 0.0 0.0 112-113 0.2 0.0 0.0 0.0 0.0 114-115 0.225 0.0 0.0 0.0 0.0 116-117 0.2625 0.0 0.0 0.0 0.0 118-119 0.275 0.0 0.0 0.0 0.0 120-121 0.3 0.0 0.0 0.0 0.0 122-123 0.3875 0.0 0.0 0.0 0.0 124-125 0.4125 0.0 0.0 0.0 0.0 126-127 0.45 0.0 0.0 0.0 0.0 128-129 0.5875 0.0 0.0 0.0 0.0 130-131 0.7375 0.0 0.0 0.0 0.0 132-133 0.775 0.0 0.0 0.0 0.0 134-135 0.825 0.0 0.0 0.0 0.0 136-137 0.8999999999999999 0.0 0.0 0.0 0.0 138 0.975 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position TGACCGG 10 0.006973645 144.0 2 GGCAAAA 10 0.006973645 144.0 7 CTGACCG 10 0.006973645 144.0 1 CGGCAAA 10 0.006973645 144.0 6 >>END_MODULE Read 1303487 spots for ERR9452526.sra Written 1303487 spots for ERR9452526.sra Read 1303487 spots for ERR9452526.sra Written 1303487 spots for ERR9452526.sra Read 1303487 spots for ERR9452526.sra Written 1303487 spots for ERR9452526.sra Read 1303497 spots for ERR9452526.sra Written 1303497 spots for ERR9452526.sra Read 1303487 spots for ERR9452526.sra Written 1303487 spots for ERR9452526.sra Read 1303487 spots for ERR9452526.sra Written 1303487 spots for ERR9452526.sra Read 1303487 spots for ERR9452526.sra Written 1303487 spots for ERR9452526.sra Read 1303487 spots for ERR9452526.sra Written 1303487 spots for ERR9452526.sra Read 1303487 spots for ERR9452526.sra Written 1303487 spots for ERR9452526.sra Read 1303487 spots for ERR9452526.sra Written 1303487 spots for ERR9452526.sra Read 1303487 spots for ERR9452526.sra Written 1303487 spots for ERR9452526.sra Read 1303487 spots for ERR9452526.sra Written 1303487 spots for ERR9452526.sra Read 1303487 spots for ERR9452526.sra Written 1303487 spots for ERR9452526.sra Read 1303487 spots for ERR9452526.sra Written 1303487 spots for ERR9452526.sra Read 1303487 spots for ERR9452526.sra Written 1303487 spots for ERR9452526.sra Read 1303487 spots for ERR9452526.sra Written 1303487 spots for ERR9452526.sra Read 1303487 spots for ERR9452526.sra Written 1303487 spots for ERR9452526.sra Read 1303487 spots for ERR9452526.sra Written 1303487 spots for ERR9452526.sra Read 1303487 spots for ERR9452526.sra Written 1303487 spots for ERR9452526.sra Read 1303487 spots for ERR9452526.sra Written 1303487 spots for ERR9452526.sra SRR ids: ['ERR9452526.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_p_u9wpt8 ERR9452526.sra spots: 26069750 blocks: [[1, 1303487], [1303488, 2606974], [2606975, 3910461], [3910462, 5213948], [5213949, 6517435], [6517436, 7820922], [7820923, 9124409], [9124410, 10427896], [10427897, 11731383], [11731384, 13034870], [13034871, 14338357], [14338358, 15641844], [15641845, 16945331], [16945332, 18248818], [18248819, 19552305], [19552306, 20855792], [20855793, 22159279], [22159280, 23462766], [23462767, 24766253], [24766254, 26069750]] ERR9452526 file size 8761565 ERR9452526 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 ERR9452526 ERR9452526_1.fastq ERR9452526_2.fastq Input file: ERR9452526_1.fastq Paired file: ERR9452526_2.fastq trimmed: ERR9452526-trimmed-pair1.fastq, ERR9452526-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 23:46:01 2024 >> started Fri Dec 6 23:46:33 2024 >> done (31.970s) 26069750 read pairs processed; of these: 205 ( 0.00%) short read pairs filtered out after trimming by size control 661 ( 0.00%) empty read pairs filtered out after trimming by size control 26068884 (100.00%) read pairs available; of these: 591790 ( 2.27%) trimmed read pairs available after processing 25477094 (97.73%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 18 19 0.00% 19 16 0.00% 20 88 0.00% 21 19 0.00% 22 14 0.00% 23 19 0.00% 24 16 0.00% 25 18 0.00% 26 28 0.00% 27 23 0.00% 28 35 0.00% 29 34 0.00% 30 126 0.00% 31 50 0.00% 32 30 0.00% 33 25 0.00% 34 24 0.00% 35 24 0.00% 36 31 0.00% 37 34 0.00% 38 32 0.00% 39 33 0.00% 40 45 0.00% 41 47 0.00% 42 32 0.00% 43 48 0.00% 44 32 0.00% 45 56 0.00% 46 55 0.00% 47 83 0.00% 48 74 0.00% 49 93 0.00% 50 116 0.00% 51 114 0.00% 52 137 0.00% 53 127 0.00% 54 171 0.00% 55 176 0.00% 56 234 0.00% 57 219 0.00% 58 291 0.00% 59 298 0.00% 60 358 0.00% 61 344 0.00% 62 381 0.00% 63 414 0.00% 64 455 0.00% 65 430 0.00% 66 575 0.00% 67 642 0.00% 68 600 0.00% 69 688 0.00% 70 726 0.00% 71 697 0.00% 72 784 0.00% 73 832 0.00% 74 928 0.00% 75 862 0.00% 76 970 0.00% 77 1057 0.00% 78 1027 0.00% 79 1165 0.00% 80 1203 0.00% 81 1266 0.00% 82 1419 0.01% 83 1528 0.01% 84 1538 0.01% 85 1424 0.01% 86 1668 0.01% 87 1736 0.01% 88 1879 0.01% 89 1948 0.01% 90 2007 0.01% 91 2099 0.01% 92 2272 0.01% 93 2280 0.01% 94 2439 0.01% 95 2565 0.01% 96 2866 0.01% 97 2710 0.01% 98 2902 0.01% 99 3096 0.01% 100 3000 0.01% 101 3301 0.01% 102 3558 0.01% 103 3609 0.01% 104 3815 0.01% 105 3994 0.02% 106 4253 0.02% 107 4264 0.02% 108 4234 0.02% 109 4772 0.02% 110 4808 0.02% 111 5155 0.02% 112 5296 0.02% 113 5563 0.02% 114 5754 0.02% 115 6218 0.02% 116 6342 0.02% 117 6591 0.03% 118 6759 0.03% 119 6741 0.03% 120 7337 0.03% 121 7511 0.03% 122 7889 0.03% 123 8455 0.03% 124 8829 0.03% 125 9035 0.03% 126 9619 0.04% 127 9917 0.04% 128 10307 0.04% 129 10526 0.04% 130 10969 0.04% 131 11583 0.04% 132 12197 0.05% 133 12632 0.05% 134 13413 0.05% 135 13841 0.05% 136 14581 0.06% 137 15397 0.06% 138 15866 0.06% 139 16617 0.06% 140 17329 0.07% 141 17435 0.07% 142 18589 0.07% 143 19251 0.07% 144 20190 0.08% 145 21260 0.08% 146 22698 0.09% 147 22787 0.09% 148 24012 0.09% 149 25725 0.10% 150 25477094 97.73% 26068884 reads passed initial QC criterion=sequence-density sequence-density=0.24 sequence-density-rank=1 fanout-score=3.15 fanout-score-rank=22 prefix-density=0.26 prefix-fanout=2.9 sequence=GGTGTTGTCGAAGCCGATGATGCGGAC criterion=fanout-score sequence-density=0.03 sequence-density-rank=33 fanout-score=842.08 fanout-score-rank=1 prefix-density=1.08 prefix-fanout=23.0 sequence=GCGGCGGCGAACCGCCCCCGTCGCCGCGATCCGAACACTTCACCGGACCATTCAATCGGTAGGAGCGACGGGCGGTGTGTACAAAGGGCAGGGACGTAGTCAACGCGAGCTGATGACTCGCGCTTACTAGGCATTCCTCGTTGAAGACCAACAATTGCAATGATCTATCCCCATCACGATGAAATTTCCCAAGATTACCCGGGCCTGTCGGCCAAGGCTATATACTCGTTGAATACATCAGTGTAGCGCGCGTGCGGCCCAGAACATCTAAGGGCATCACAGACCTGTTATTGCCTCAAACTTCCGTCGCCTAAACGGCGATAGTCCCTCTAAGAAGCTAGCTGCGGAGGGATGGCTCCGCATAGCTAGTTAGCAGGCTGAGGTCTCGTTCGTTAACGGAATTAACCAGACAAATCGCTCCACCAACTAAGAACGGCCATGCACCACCACCCATAGAATCAAGAAAGAGCTCTCAGTCTGTCAATCCTTGCTATGTCTGGACCTGGTAAGT criterion=sequence-density sequence-density=0.23 sequence-density-rank=1 fanout-score=3.04 fanout-score-rank=25 prefix-density=0.25 prefix-fanout=2.8 sequence=GGTGTTGTCGAAGCCGATGATGCGGAC criterion=fanout-score sequence-density=0.12 sequence-density-rank=10 fanout-score=173.52 fanout-score-rank=1 prefix-density=1.03 prefix-fanout=20.1 sequence=GCCGCCGCCGCC ERR9452526 testing PE reads STAR mapping to Ensembl genome Started job on | Dec 06 23:47:27 Started mapping on | Dec 06 23:47:27 Finished on | Dec 06 23:51:01 Mapping speed, Million of reads per hour | 438.54 Number of input reads | 26068884 Average input read length | 298 UNIQUE READS: Uniquely mapped reads number | 24093953 Uniquely mapped reads % | 92.42% Average mapped length | 297.34 Number of splices: Total | 22763812 Number of splices: Annotated (sjdb) | 21471364 Number of splices: GT/AG | 22404525 Number of splices: GC/AG | 292885 Number of splices: AT/AC | 9577 Number of splices: Non-canonical | 56825 Mismatch rate per base, % | 0.44% Deletion rate per base | 0.03% Deletion average length | 2.96 Insertion rate per base | 0.02% Insertion average length | 2.92 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 377690 % of reads mapped to multiple loci | 1.45% Number of reads mapped to too many loci | 79014 % of reads mapped to too many loci | 0.30% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 2.77% % of reads unmapped: other | 3.05% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 1597241 1597241 1597241 N_multimapping 377690 377690 377690 N_noFeature 820080 12181888 12281041 N_ambiguous 591910 73506 73034 UnstrandedReadsAssigned:22681963 PositiveStrandReadsAssigned:11838559 NegativeStrandReadsAssigned:11739878 Dataset is classified unstranded MeadianReadLen=150 20thPercentileLength=150 echo kmer=145 ERR9452526 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: ERR9452526-trimmed-pair1.fastq ERR9452526-trimmed-pair2.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 26,068,884 reads, 23,604,526 reads pseudoaligned [quant] estimated average fragment length: 247.977 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,190 rounds 52973 ERR9452526.ke.tsv 35125 ERR9452526.se.tsv 88098 total ==> ERR9452526.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 689.351 0 0 PNS24247 1044 797.023 42.4216 2.9075 PNS24249 1928 1681.02 418.198 13.5898 PNS24246 1044 797.023 42.4216 2.9075 PNS24248 1044 797.023 42.4216 2.9075 PNS24244 1471 1224.02 41.5372 1.85375 PNS24243 293 66.6484 22 18.0317 KQK14069 1603 1356.02 17939.8 722.693 KQK14071 474 230.896 1988.54 470.459 ==> ERR9452526.se.tsv <== BRADI_1g14170v3 22552 BRADI_1g53295v3 614 BRADI_1g59795v3 96 BRADI_1g07683v3 0 BRADI_1g00485v3 41 BRADI_1g20270v3 689 BRADI_1g74790v3 784 BRADI_1g09890v3 0 BRADI_1g77505v3 538 BRADI_1g48960v3 0 ERR9452526 completed mapping pipeline successfully