Starting /dee2/code/volunteer_pipeline.sh ERR9452524 current disk space = 1547814703104 free memory = 1419057552 ERR9452524 SRAfilesize d6cedef5530bb2917496b22bcfee6150 ERR9452524.sra ERR9452524.sra file validated ERR9452524 is paired end ERR9452524 is conventional basespace ERR9452524 read1 length is 150 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR9452524_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 35.86675 37.0 37.0 37.0 37.0 37.0 2 35.63 37.0 37.0 37.0 37.0 37.0 3 36.014 37.0 37.0 37.0 37.0 37.0 4 36.1345 37.0 37.0 37.0 37.0 37.0 5 36.1385 37.0 37.0 37.0 37.0 37.0 6 36.177 37.0 37.0 37.0 37.0 37.0 7 36.018 37.0 37.0 37.0 37.0 37.0 8 36.088 37.0 37.0 37.0 37.0 37.0 9 36.137 37.0 37.0 37.0 37.0 37.0 10-14 36.1393 37.0 37.0 37.0 37.0 37.0 15-19 36.2023 37.0 37.0 37.0 37.0 37.0 20-24 36.1512 37.0 37.0 37.0 37.0 37.0 25-29 36.0477 37.0 37.0 37.0 37.0 37.0 30-34 35.987199999999994 37.0 37.0 37.0 37.0 37.0 35-39 35.9505 37.0 37.0 37.0 37.0 37.0 40-44 35.9127 37.0 37.0 37.0 37.0 37.0 45-49 35.835899999999995 37.0 37.0 37.0 37.0 37.0 50-54 35.990500000000004 37.0 37.0 37.0 37.0 37.0 55-59 35.8752 37.0 37.0 37.0 37.0 37.0 60-64 35.817 37.0 37.0 37.0 37.0 37.0 65-69 35.815999999999995 37.0 37.0 37.0 37.0 37.0 70-74 35.7999 37.0 37.0 37.0 37.0 37.0 75-79 35.775600000000004 37.0 37.0 37.0 37.0 37.0 80-84 35.696200000000005 37.0 37.0 37.0 37.0 37.0 85-89 35.7031 37.0 37.0 37.0 37.0 37.0 90-94 35.53920000000001 37.0 37.0 37.0 37.0 37.0 95-99 35.6234 37.0 37.0 37.0 37.0 37.0 100-104 35.579100000000004 37.0 37.0 37.0 37.0 37.0 105-109 35.4238 37.0 37.0 37.0 37.0 37.0 110-114 35.5656 37.0 37.0 37.0 37.0 37.0 115-119 35.4516 37.0 37.0 37.0 37.0 37.0 120-124 35.355900000000005 37.0 37.0 37.0 34.6 37.0 125-129 35.4274 37.0 37.0 37.0 37.0 37.0 130-134 35.3461 37.0 37.0 37.0 34.6 37.0 135-139 35.138099999999994 37.0 37.0 37.0 25.0 37.0 140-144 35.1332 37.0 37.0 37.0 27.4 37.0 145-149 35.354600000000005 37.0 37.0 37.0 37.0 37.0 150 35.4215 37.0 37.0 37.0 37.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 1.0 21 0.0 22 2.0 23 3.0 24 6.0 25 6.0 26 14.0 27 28.0 28 19.0 29 46.0 30 70.0 31 102.0 32 97.0 33 128.0 34 201.0 35 399.0 36 2644.0 37 234.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 27.031757939484873 14.153538384596148 15.27881970492623 43.53588397099275 2 30.225 21.575 27.200000000000003 21.0 3 26.150000000000002 25.825 18.5 29.525000000000002 4 30.725 29.675 15.049999999999999 24.55 5 28.499999999999996 30.25 19.3 21.95 6 23.1 31.775 20.075000000000003 25.05 7 21.675 13.950000000000001 36.75 27.625 8 22.775000000000002 16.775000000000002 25.874999999999996 34.575 9 25.0 18.25 25.75 31.0 10-14 26.645000000000003 23.34 21.959999999999997 28.055000000000003 15-19 26.584999999999997 22.384999999999998 23.549999999999997 27.48 20-24 27.295 22.745 22.59 27.37 25-29 26.21 23.25 22.42 28.12 30-34 26.345000000000002 22.68 22.935 28.04 35-39 27.034999999999997 22.945 22.32 27.700000000000003 40-44 26.965 22.66 22.755 27.62 45-49 27.26 22.595000000000002 21.855 28.29 50-54 27.150000000000002 22.615 22.295 27.939999999999998 55-59 27.195000000000004 22.220000000000002 22.395 28.189999999999998 60-64 27.97 22.68 21.93 27.42 65-69 27.02 22.605 22.275 28.1 70-74 27.310000000000002 23.06 21.755 27.875 75-79 27.525 22.155 22.08 28.24 80-84 27.589999999999996 22.15 21.985 28.275 85-89 28.189999999999998 21.845 21.94 28.025 90-94 28.475 21.605 22.02 27.900000000000002 95-99 28.275 21.93 21.945 27.85 100-104 27.700000000000003 22.095000000000002 22.235 27.97 105-109 27.855 22.09 21.93 28.125 110-114 27.805000000000003 22.23 22.06 27.905 115-119 27.63 22.31 22.125 27.935 120-124 27.860000000000003 21.97 22.355 27.815 125-129 27.73 22.735 21.955 27.58 130-134 27.694999999999997 22.689999999999998 21.995 27.62 135-139 27.994999999999997 21.805 22.27 27.93 140-144 28.325 21.875 22.255 27.544999999999998 145-149 28.165000000000003 21.62 22.3 27.915 150 28.000000000000004 23.400000000000002 21.175 27.425 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 1.0 1 1.0 2 0.5 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 0.5 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 0.0 23 0.0 24 1.5 25 2.0 26 1.5 27 2.5 28 2.5 29 2.5 30 2.0 31 5.5 32 10.5 33 12.0 34 15.5 35 22.5 36 30.5 37 41.5 38 50.5 39 56.5 40 78.0 41 95.5 42 111.0 43 109.5 44 110.5 45 125.0 46 126.0 47 135.5 48 133.5 49 128.5 50 120.0 51 117.5 52 116.0 53 114.5 54 107.0 55 93.5 56 101.0 57 101.5 58 97.5 59 90.5 60 91.5 61 87.0 62 94.0 63 100.0 64 85.0 65 96.0 66 108.5 67 111.5 68 99.0 69 82.0 70 79.5 71 74.5 72 69.0 73 64.5 74 49.0 75 45.0 76 43.0 77 30.5 78 27.5 79 20.5 80 16.0 81 13.5 82 11.5 83 10.5 84 7.0 85 4.0 86 1.0 87 1.0 88 0.5 89 1.0 90 1.0 91 0.0 92 0.0 93 0.0 94 0.0 95 0.0 96 0.0 97 0.5 98 0.5 99 0.0 100 0.0 >>END_MODULE >>Per base N content pass #Base N-Count 1 0.025 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 93.45 #Duplication Level Percentage of deduplicated Percentage of total 1 93.36543606206527 87.25 2 6.313536650615302 11.799999999999999 3 0.294275013376137 0.8250000000000001 4 0.0 0.0 5 0.026752273943285176 0.125 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 warn #Sequence Count Percentage Possible Source GCCACCGTAGGTGTCGATGATGATCTTGCGGCCGGTGAGACCAGCATCAC 5 0.125 No Hit >>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 0.025 22-23 0.0 0.0 0.0 0.0 0.025 24-25 0.0 0.0 0.0 0.0 0.025 26-27 0.0 0.0 0.0 0.0 0.025 28-29 0.0 0.0 0.0 0.0 0.025 30-31 0.0 0.0 0.0 0.0 0.025 32-33 0.0 0.0 0.0 0.0 0.025 34-35 0.0 0.0 0.0 0.0 0.025 36-37 0.0 0.0 0.0 0.0 0.025 38-39 0.0 0.0 0.0 0.0 0.025 40-41 0.0 0.0 0.0 0.0 0.025 42-43 0.0 0.0 0.0 0.0 0.025 44-45 0.0 0.0 0.0 0.0 0.025 46-47 0.0 0.0 0.0 0.0 0.025 48-49 0.0 0.0 0.0 0.0 0.025 50-51 0.0 0.0 0.0 0.0 0.025 52-53 0.0 0.0 0.0 0.0 0.025 54-55 0.0 0.0 0.0 0.0 0.025 56-57 0.0 0.0 0.0 0.0 0.025 58-59 0.0 0.0 0.0 0.0 0.025 60-61 0.0 0.0 0.0 0.0 0.025 62-63 0.0 0.0 0.0 0.0 0.025 64-65 0.0 0.0 0.0 0.0 0.025 66-67 0.0 0.0 0.0 0.0 0.025 68-69 0.0 0.0 0.0 0.0 0.025 70-71 0.0 0.0 0.0 0.0 0.025 72-73 0.0 0.0 0.0 0.0 0.025 74-75 0.0 0.0 0.0 0.0 0.025 76-77 0.0 0.0 0.0 0.0 0.025 78-79 0.0 0.0 0.0 0.0 0.025 80-81 0.0 0.0 0.0 0.0 0.025 82-83 0.0 0.0 0.0 0.0 0.025 84-85 0.0 0.0 0.0 0.0 0.025 86-87 0.037500000000000006 0.0 0.0 0.0 0.025 88-89 0.05 0.0 0.0 0.0 0.025 90-91 0.05 0.0 0.0 0.0 0.025 92-93 0.0625 0.0 0.0 0.0 0.025 94-95 0.1125 0.0 0.0 0.0 0.025 96-97 0.1375 0.0 0.0 0.0 0.025 98-99 0.15 0.0 0.0 0.0 0.025 100-101 0.175 0.0 0.0 0.0 0.025 102-103 0.2 0.0 0.0 0.0 0.025 104-105 0.25 0.0 0.0 0.0 0.025 106-107 0.3125 0.0 0.0 0.0 0.025 108-109 0.325 0.0 0.0 0.0 0.025 110-111 0.35 0.0 0.0 0.0 0.025 112-113 0.375 0.0 0.0 0.0 0.025 114-115 0.45 0.0 0.0 0.0 0.025 116-117 0.475 0.0 0.0 0.0 0.025 118-119 0.575 0.0 0.0 0.0 0.025 120-121 0.725 0.0 0.0 0.0 0.025 122-123 0.8 0.0 0.0 0.0 0.025 124-125 0.825 0.0 0.0 0.0 0.025 126-127 0.875 0.0 0.0 0.0 0.025 128-129 0.9375 0.0 0.0 0.0 0.025 130-131 0.9875 0.0 0.0 0.0 0.025 132-133 1.0125 0.0 0.0 0.0 0.025 134-135 1.1125 0.0 0.0 0.0 0.025 136-137 1.2000000000000002 0.0 0.0 0.0 0.025 138 1.325 0.0 0.0 0.0 0.025 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position GTCGATG 10 0.006973645 144.0 8 AATTGAC 10 0.006973645 144.0 5 >>END_MODULE ERR9452524 read2 length is 150 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR9452524_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 35.758 37.0 37.0 37.0 37.0 37.0 2 35.8215 37.0 37.0 37.0 37.0 37.0 3 35.918 37.0 37.0 37.0 37.0 37.0 4 35.928 37.0 37.0 37.0 37.0 37.0 5 35.893 37.0 37.0 37.0 37.0 37.0 6 35.574 37.0 37.0 37.0 37.0 37.0 7 35.977 37.0 37.0 37.0 37.0 37.0 8 35.581 37.0 37.0 37.0 37.0 37.0 9 35.826 37.0 37.0 37.0 37.0 37.0 10-14 35.9092 37.0 37.0 37.0 37.0 37.0 15-19 35.7793 37.0 37.0 37.0 37.0 37.0 20-24 35.8148 37.0 37.0 37.0 37.0 37.0 25-29 35.7901 37.0 37.0 37.0 37.0 37.0 30-34 35.7774 37.0 37.0 37.0 37.0 37.0 35-39 35.768100000000004 37.0 37.0 37.0 37.0 37.0 40-44 35.8402 37.0 37.0 37.0 37.0 37.0 45-49 35.7593 37.0 37.0 37.0 37.0 37.0 50-54 35.7104 37.0 37.0 37.0 37.0 37.0 55-59 35.671400000000006 37.0 37.0 37.0 37.0 37.0 60-64 35.690099999999994 37.0 37.0 37.0 37.0 37.0 65-69 35.6688 37.0 37.0 37.0 37.0 37.0 70-74 35.5512 37.0 37.0 37.0 37.0 37.0 75-79 35.6492 37.0 37.0 37.0 37.0 37.0 80-84 35.6254 37.0 37.0 37.0 37.0 37.0 85-89 35.597100000000005 37.0 37.0 37.0 37.0 37.0 90-94 35.6149 37.0 37.0 37.0 37.0 37.0 95-99 35.4821 37.0 37.0 37.0 37.0 37.0 100-104 35.455200000000005 37.0 37.0 37.0 37.0 37.0 105-109 35.462999999999994 37.0 37.0 37.0 37.0 37.0 110-114 35.1899 37.0 37.0 37.0 27.4 37.0 115-119 35.3249 37.0 37.0 37.0 34.6 37.0 120-124 35.178399999999996 37.0 37.0 37.0 29.8 37.0 125-129 35.36030000000001 37.0 37.0 37.0 34.6 37.0 130-134 35.3211 37.0 37.0 37.0 34.6 37.0 135-139 35.1796 37.0 37.0 37.0 29.8 37.0 140-144 35.048 37.0 37.0 37.0 25.0 37.0 145-149 34.8358 37.0 37.0 37.0 25.0 37.0 150 35.0315 37.0 37.0 37.0 25.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 19 1.0 20 2.0 21 1.0 22 3.0 23 1.0 24 13.0 25 11.0 26 16.0 27 26.0 28 37.0 29 45.0 30 60.0 31 85.0 32 94.0 33 136.0 34 206.0 35 665.0 36 2447.0 37 151.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 30.020030045067603 12.894341512268404 14.897346019028543 42.18828242363546 2 28.075 21.625 26.700000000000003 23.599999999999998 3 26.200000000000003 26.400000000000002 19.275000000000002 28.125 4 31.25 30.25 14.099999999999998 24.4 5 28.499999999999996 31.225 18.3 21.975 6 22.45 30.349999999999998 20.424999999999997 26.775 7 21.05 13.175 38.550000000000004 27.224999999999998 8 23.25 18.125 25.025 33.6 9 24.725 18.625 26.150000000000002 30.5 10-14 26.33 23.575 21.72 28.375 15-19 27.145000000000003 22.395 22.405 28.055000000000003 20-24 26.555 23.14 22.225 28.08 25-29 27.345000000000002 23.45 21.795 27.41 30-34 26.479999999999997 23.895 21.990000000000002 27.634999999999998 35-39 27.025 22.715 22.900000000000002 27.36 40-44 26.91 22.415 22.585 28.09 45-49 27.175 22.445 22.935 27.445000000000004 50-54 27.139999999999997 22.485 21.63 28.744999999999997 55-59 26.810000000000002 22.564999999999998 22.314999999999998 28.310000000000002 60-64 27.785 22.515 21.44 28.26 65-69 27.500000000000004 22.745 22.085 27.67 70-74 27.72 22.11 22.105 28.065 75-79 27.08 22.43 22.57 27.92 80-84 27.32 22.475 22.1 28.105000000000004 85-89 28.060000000000002 21.935 21.75 28.255000000000003 90-94 27.694999999999997 22.335 21.895 28.075 95-99 28.22 22.555 21.654999999999998 27.57 100-104 27.435 22.365 21.759999999999998 28.439999999999998 105-109 28.294999999999998 22.745 21.584999999999997 27.375 110-114 27.939999999999998 22.845 21.455 27.76 115-119 28.16 22.075 21.785 27.98 120-124 27.944999999999997 22.655 21.834999999999997 27.565 125-129 28.03 22.62 21.240000000000002 28.110000000000003 130-134 28.475 21.97 21.345 28.21 135-139 28.134999999999998 21.695 22.955000000000002 27.215 140-144 28.634999999999998 22.61 21.154999999999998 27.6 145-149 28.455000000000002 22.189999999999998 21.94 27.415 150 27.675 22.5 22.875 26.950000000000003 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 0.0 1 0.5 2 0.5 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 0.5 20 0.5 21 0.0 22 0.5 23 1.0 24 0.5 25 1.0 26 1.5 27 1.5 28 2.0 29 1.5 30 3.0 31 5.0 32 9.5 33 16.0 34 15.5 35 21.5 36 27.5 37 30.0 38 47.0 39 64.0 40 75.0 41 94.0 42 103.5 43 116.0 44 136.0 45 128.0 46 123.0 47 128.0 48 131.0 49 140.0 50 128.0 51 112.0 52 110.5 53 100.0 54 99.0 55 109.0 56 109.0 57 101.0 58 101.5 59 105.0 60 98.5 61 90.5 62 93.5 63 100.0 64 97.5 65 90.5 66 83.0 67 90.5 68 88.5 69 77.5 70 83.5 71 79.5 72 67.0 73 61.5 74 50.0 75 41.0 76 39.0 77 37.0 78 34.5 79 25.5 80 20.0 81 17.0 82 12.0 83 8.0 84 2.5 85 2.0 86 2.5 87 1.5 88 2.0 89 2.0 90 1.0 91 0.0 92 0.0 93 0.5 94 0.5 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 0.15 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 93.77499999999999 #Duplication Level Percentage of deduplicated Percentage of total 1 93.73500399893362 87.9 2 5.971740869101573 11.200000000000001 3 0.21327645961077046 0.6 4 0.07997867235403892 0.3 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 0.0 0.0 0.0 0.0 0.0 64-65 0.0 0.0 0.0 0.0 0.0 66-67 0.0 0.0 0.0 0.0 0.0 68-69 0.0 0.0 0.0 0.0 0.0 70-71 0.0 0.0 0.0 0.0 0.0 72-73 0.0 0.0 0.0 0.0 0.0 74-75 0.0 0.0 0.0 0.0 0.0 76-77 0.0 0.0 0.0 0.0 0.0 78-79 0.0 0.0 0.0 0.0 0.0 80-81 0.0 0.0 0.0 0.0 0.0 82-83 0.0 0.0 0.0 0.0 0.0 84-85 0.0 0.0 0.0 0.0 0.0 86-87 0.037500000000000006 0.0 0.0 0.0 0.0 88-89 0.05 0.0 0.0 0.0 0.0 90-91 0.05 0.0 0.0 0.0 0.0 92-93 0.0625 0.0 0.0 0.0 0.0 94-95 0.1125 0.0 0.0 0.0 0.0 96-97 0.1375 0.0 0.0 0.0 0.0 98-99 0.15 0.0 0.0 0.0 0.0 100-101 0.175 0.0 0.0 0.0 0.0 102-103 0.2 0.0 0.0 0.0 0.0 104-105 0.25 0.0 0.0 0.0 0.0 106-107 0.3125 0.0 0.0 0.0 0.0 108-109 0.325 0.0 0.0 0.0 0.0 110-111 0.35 0.0 0.0 0.0 0.0 112-113 0.375 0.0 0.0 0.0 0.0 114-115 0.425 0.0 0.0 0.0 0.0 116-117 0.45 0.0 0.0 0.0 0.0 118-119 0.55 0.0 0.0 0.0 0.0 120-121 0.7 0.0 0.0 0.0 0.0 122-123 0.775 0.0 0.0 0.0 0.0 124-125 0.825 0.0 0.0 0.0 0.0 126-127 0.875 0.0 0.0 0.0 0.0 128-129 0.925 0.0 0.0 0.0 0.0 130-131 0.9624999999999999 0.0 0.0 0.0 0.0 132-133 0.975 0.0 0.0 0.0 0.0 134-135 1.0375 0.0 0.0 0.0 0.0 136-137 1.125 0.0 0.0 0.0 0.0 138 1.25 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Read 1378897 spots for ERR9452524.sra Written 1378897 spots for ERR9452524.sra Read 1378897 spots for ERR9452524.sra Written 1378897 spots for ERR9452524.sra Read 1378897 spots for ERR9452524.sra Written 1378897 spots for ERR9452524.sra Read 1378897 spots for ERR9452524.sra Written 1378897 spots for ERR9452524.sra Read 1378897 spots for ERR9452524.sra Written 1378897 spots for ERR9452524.sra Read 1378897 spots for ERR9452524.sra Written 1378897 spots for ERR9452524.sra Read 1378897 spots for ERR9452524.sra Written 1378897 spots for ERR9452524.sra Read 1378897 spots for ERR9452524.sra Written 1378897 spots for ERR9452524.sra Read 1378897 spots for ERR9452524.sra Written 1378897 spots for ERR9452524.sra Read 1378897 spots for ERR9452524.sra Written 1378897 spots for ERR9452524.sra Read 1378897 spots for ERR9452524.sra Written 1378897 spots for ERR9452524.sra Read 1378897 spots for ERR9452524.sra Written 1378897 spots for ERR9452524.sra Read 1378897 spots for ERR9452524.sra Written 1378897 spots for ERR9452524.sra Read 1378897 spots for ERR9452524.sra Written 1378897 spots for ERR9452524.sra Read 1378897 spots for ERR9452524.sra Written 1378897 spots for ERR9452524.sra Read 1378897 spots for ERR9452524.sra Written 1378897 spots for ERR9452524.sra Read 1378909 spots for ERR9452524.sra Written 1378909 spots for ERR9452524.sra Read 1378897 spots for ERR9452524.sra Written 1378897 spots for ERR9452524.sra Read 1378897 spots for ERR9452524.sra Written 1378897 spots for ERR9452524.sra Read 1378897 spots for ERR9452524.sra Written 1378897 spots for ERR9452524.sra SRR ids: ['ERR9452524.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_5r0pxi92 ERR9452524.sra spots: 27577952 blocks: [[1, 1378897], [1378898, 2757794], [2757795, 4136691], [4136692, 5515588], [5515589, 6894485], [6894486, 8273382], [8273383, 9652279], [9652280, 11031176], [11031177, 12410073], [12410074, 13788970], [13788971, 15167867], [15167868, 16546764], [16546765, 17925661], [17925662, 19304558], [19304559, 20683455], [20683456, 22062352], [22062353, 23441249], [23441250, 24820146], [24820147, 26199043], [26199044, 27577952]] ERR9452524 file size 9269699 ERR9452524 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 ERR9452524 ERR9452524_1.fastq ERR9452524_2.fastq Input file: ERR9452524_1.fastq Paired file: ERR9452524_2.fastq trimmed: ERR9452524-trimmed-pair1.fastq, ERR9452524-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 00:07:05 2024 >> started Sat Dec 7 00:07:47 2024 >> done (41.609s) 27577952 read pairs processed; of these: 306 ( 0.00%) short read pairs filtered out after trimming by size control 980 ( 0.00%) empty read pairs filtered out after trimming by size control 27576666 (100.00%) read pairs available; of these: 730025 ( 2.65%) trimmed read pairs available after processing 26846641 (97.35%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 18 10 0.00% 19 13 0.00% 20 183 0.00% 21 14 0.00% 22 15 0.00% 23 15 0.00% 24 13 0.00% 25 16 0.00% 26 20 0.00% 27 30 0.00% 28 40 0.00% 29 53 0.00% 30 132 0.00% 31 74 0.00% 32 31 0.00% 33 19 0.00% 34 25 0.00% 35 21 0.00% 36 31 0.00% 37 23 0.00% 38 30 0.00% 39 27 0.00% 40 40 0.00% 41 42 0.00% 42 45 0.00% 43 39 0.00% 44 57 0.00% 45 70 0.00% 46 73 0.00% 47 80 0.00% 48 79 0.00% 49 113 0.00% 50 112 0.00% 51 141 0.00% 52 147 0.00% 53 167 0.00% 54 172 0.00% 55 206 0.00% 56 223 0.00% 57 282 0.00% 58 286 0.00% 59 348 0.00% 60 371 0.00% 61 421 0.00% 62 446 0.00% 63 465 0.00% 64 516 0.00% 65 556 0.00% 66 599 0.00% 67 547 0.00% 68 734 0.00% 69 727 0.00% 70 851 0.00% 71 908 0.00% 72 892 0.00% 73 892 0.00% 74 962 0.00% 75 1064 0.00% 76 1165 0.00% 77 1218 0.00% 78 1162 0.00% 79 1322 0.00% 80 1345 0.00% 81 1383 0.01% 82 1600 0.01% 83 1623 0.01% 84 1676 0.01% 85 1831 0.01% 86 1837 0.01% 87 2095 0.01% 88 2186 0.01% 89 2114 0.01% 90 2217 0.01% 91 2508 0.01% 92 2577 0.01% 93 2804 0.01% 94 2756 0.01% 95 2934 0.01% 96 3010 0.01% 97 3120 0.01% 98 3453 0.01% 99 3444 0.01% 100 3673 0.01% 101 3806 0.01% 102 4021 0.01% 103 4291 0.02% 104 4690 0.02% 105 4602 0.02% 106 4817 0.02% 107 5061 0.02% 108 5272 0.02% 109 5458 0.02% 110 5526 0.02% 111 5929 0.02% 112 6126 0.02% 113 6588 0.02% 114 6881 0.02% 115 7376 0.03% 116 7375 0.03% 117 7733 0.03% 118 8345 0.03% 119 8488 0.03% 120 8736 0.03% 121 9067 0.03% 122 9770 0.04% 123 10035 0.04% 124 10628 0.04% 125 11481 0.04% 126 11805 0.04% 127 12406 0.04% 128 12848 0.05% 129 13209 0.05% 130 14077 0.05% 131 14153 0.05% 132 15388 0.06% 133 16010 0.06% 134 16756 0.06% 135 17447 0.06% 136 18505 0.07% 137 19040 0.07% 138 19894 0.07% 139 20726 0.08% 140 21633 0.08% 141 22597 0.08% 142 23413 0.08% 143 24367 0.09% 144 25251 0.09% 145 27230 0.10% 146 28667 0.10% 147 29867 0.11% 148 31089 0.11% 149 31984 0.12% 150 26846641 97.35% 27576666 reads passed initial QC criterion=sequence-density sequence-density=0.20 sequence-density-rank=1 fanout-score=2.33 fanout-score-rank=33 prefix-density=0.21 prefix-fanout=2.3 sequence=CTCCGATCCCGA criterion=fanout-score sequence-density=0.06 sequence-density-rank=31 fanout-score=387.37 fanout-score-rank=1 prefix-density=1.06 prefix-fanout=20.9 sequence=GGCGGCGGCGAACCGCCCCCGTCGCCGCGATCCGAACACTTCACCGGACCATTCAATCGGTAGGAGCGACGGGCGGTGTGTACAAAGGGCAGGGACGTAGTCAACGCGAGCTGATGACTCGCGCTTACTAGGCATTCCTCGTTGAAGACCAACAATTGCAATGATCTATCCCCATCACGATGAAATTTCCCAAGATTACCCGGGCCTGTCGGCCAAGGCTATATACTCGTTGAATACATCAGTGTAGCGCGCGTGCGGCCCAGAACATCTAAGGGCATCACAGACCTGTTATTGCCTCAAACTTCCGTCGCCTAAACGGCGATAGTCCCTCTAAGAAGCTAGCTGCGGAGGGATGGCTCCGCATAGCTAGTTAGCAGGCTGAGGTCTCGTTCGTTAACGGAATTAACCAGACAAATCGCTCCACCAACTAAGAACGGCCATGCACCACCACCCATAGAATCAAGAAAGAGCTCTCAGTCTGTCAATCCTTGCTATGTCTGGACCTGGTAAG criterion=sequence-density sequence-density=0.21 sequence-density-rank=1 fanout-score=2.29 fanout-score-rank=33 prefix-density=0.22 prefix-fanout=2.2 sequence=CTCCGATCCCGA criterion=fanout-score sequence-density=0.05 sequence-density-rank=30 fanout-score=406.48 fanout-score-rank=1 prefix-density=1.03 prefix-fanout=21.6 sequence=GGCGGCGGCGAACCGCCCCCGTCGCCGCGATCCGAACACTTCACCGGACCATTCAATCGGTAGGAGCGACGGGCGGTGTGTACAAAGGGCAGGGACGTAGTCAACGCGAGCTGATGACTCGCGCTTACTAGGCATTCCTCGTTGAAGACCAACAATTGCAATGATCTATCCCCATCACGATGAAATTTCCCAAGATTACCCGGGCCTGTCGGCCAAGGCTATATACTCGTTGAATACATCAGTGTAGCGCGCGTGCGGCCCAGAACATCTAAGGGCATCACAGACCTGTTATTGCCTCAAACTTCCGTCGCCTAAACGGCGATAGTCCCTCTAAGAAGCTAGCTGCGGAGGGATGGCTCCGCATAGCTAGTTAGCAGGCTGAGGTCTCGTTCGTTAACGGAATTAACCAGACAAATCGCTCCACCAACTAAGAACGGCCATGCACCACCACCCATAGAATCAAGAAAGAGCTCTCAGTCTGTCAATCCTTGCTATGTCTGGACCTGGTAAG ERR9452524 testing PE reads STAR mapping to Ensembl genome Started job on | Dec 07 00:08:46 Started mapping on | Dec 07 00:08:46 Finished on | Dec 07 00:13:09 Mapping speed, Million of reads per hour | 377.48 Number of input reads | 27576666 Average input read length | 298 UNIQUE READS: Uniquely mapped reads number | 24942935 Uniquely mapped reads % | 90.45% Average mapped length | 297.80 Number of splices: Total | 23244953 Number of splices: Annotated (sjdb) | 21937134 Number of splices: GT/AG | 22924787 Number of splices: GC/AG | 285155 Number of splices: AT/AC | 11177 Number of splices: Non-canonical | 23834 Mismatch rate per base, % | 0.19% Deletion rate per base | 0.00% Deletion average length | 1.70 Insertion rate per base | 0.00% Insertion average length | 1.21 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 370716 % of reads mapped to multiple loci | 1.34% Number of reads mapped to too many loci | 121858 % of reads mapped to too many loci | 0.44% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 3.21% % of reads unmapped: other | 4.55% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 2263015 2263015 2263015 N_multimapping 370716 370716 370716 N_noFeature 855656 12641626 12721233 N_ambiguous 548007 58702 58390 UnstrandedReadsAssigned:23539272 PositiveStrandReadsAssigned:12242607 NegativeStrandReadsAssigned:12163312 Dataset is classified unstranded MeadianReadLen=150 20thPercentileLength=150 echo kmer=145 ERR9452524 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: ERR9452524-trimmed-pair1.fastq ERR9452524-trimmed-pair2.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 27,576,666 reads, 24,658,994 reads pseudoaligned [quant] estimated average fragment length: 236.272 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,122 rounds 52973 ERR9452524.ke.tsv 35125 ERR9452524.se.tsv 88098 total ==> ERR9452524.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 701.033 0 0 PNS24247 1044 808.728 46.0761 2.94989 PNS24249 1928 1692.73 351.601 10.7546 PNS24246 1044 808.728 46.0761 2.94989 PNS24248 1044 808.728 46.0761 2.94989 PNS24244 1471 1235.73 43.1707 1.80883 PNS24243 293 70.3488 37 27.2319 KQK14069 1603 1367.73 14026.8 530.995 KQK14071 474 240.97 1707.18 366.818 ==> ERR9452524.se.tsv <== BRADI_1g14170v3 17768 BRADI_1g53295v3 66 BRADI_1g59795v3 426 BRADI_1g07683v3 0 BRADI_1g00485v3 58 BRADI_1g20270v3 979 BRADI_1g74790v3 1076 BRADI_1g09890v3 4 BRADI_1g77505v3 499 BRADI_1g48960v3 0 ERR9452524 completed mapping pipeline successfully