Starting /dee2/code/volunteer_pipeline.sh ERR9452519 current disk space = 1547544416256 free memory = 1370386056 ERR9452519 SRAfilesize 8ac254e94a54cb73e9e0a3380f5d335c ERR9452519.sra ERR9452519.sra file validated ERR9452519 is paired end ERR9452519 is conventional basespace ERR9452519 read1 length is 150 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR9452519_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 35.7145 37.0 37.0 37.0 37.0 37.0 2 35.77125 37.0 37.0 37.0 37.0 37.0 3 36.0505 37.0 37.0 37.0 37.0 37.0 4 35.995 37.0 37.0 37.0 37.0 37.0 5 36.115 37.0 37.0 37.0 37.0 37.0 6 36.0925 37.0 37.0 37.0 37.0 37.0 7 36.0425 37.0 37.0 37.0 37.0 37.0 8 36.259 37.0 37.0 37.0 37.0 37.0 9 36.286 37.0 37.0 37.0 37.0 37.0 10-14 36.2688 37.0 37.0 37.0 37.0 37.0 15-19 36.219100000000005 37.0 37.0 37.0 37.0 37.0 20-24 36.16250000000001 37.0 37.0 37.0 37.0 37.0 25-29 36.0862 37.0 37.0 37.0 37.0 37.0 30-34 36.0722 37.0 37.0 37.0 37.0 37.0 35-39 35.9891 37.0 37.0 37.0 37.0 37.0 40-44 35.81949999999999 37.0 37.0 37.0 37.0 37.0 45-49 35.844 37.0 37.0 37.0 37.0 37.0 50-54 35.9698 37.0 37.0 37.0 37.0 37.0 55-59 35.847500000000004 37.0 37.0 37.0 37.0 37.0 60-64 35.9578 37.0 37.0 37.0 37.0 37.0 65-69 35.9094 37.0 37.0 37.0 37.0 37.0 70-74 35.807300000000005 37.0 37.0 37.0 37.0 37.0 75-79 35.7932 37.0 37.0 37.0 37.0 37.0 80-84 35.7813 37.0 37.0 37.0 37.0 37.0 85-89 35.8022 37.0 37.0 37.0 37.0 37.0 90-94 35.7907 37.0 37.0 37.0 37.0 37.0 95-99 35.7719 37.0 37.0 37.0 37.0 37.0 100-104 35.73989999999999 37.0 37.0 37.0 37.0 37.0 105-109 35.6885 37.0 37.0 37.0 37.0 37.0 110-114 35.6452 37.0 37.0 37.0 37.0 37.0 115-119 35.5435 37.0 37.0 37.0 37.0 37.0 120-124 35.577 37.0 37.0 37.0 37.0 37.0 125-129 35.668699999999994 37.0 37.0 37.0 37.0 37.0 130-134 35.5072 37.0 37.0 37.0 37.0 37.0 135-139 35.3647 37.0 37.0 37.0 34.6 37.0 140-144 35.2883 37.0 37.0 37.0 34.6 37.0 145-149 35.3939 37.0 37.0 37.0 37.0 37.0 150 35.502 37.0 37.0 37.0 37.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 15 1.0 16 0.0 17 0.0 18 2.0 19 0.0 20 1.0 21 1.0 22 1.0 23 0.0 24 6.0 25 8.0 26 6.0 27 16.0 28 17.0 29 43.0 30 66.0 31 90.0 32 102.0 33 139.0 34 205.0 35 370.0 36 2623.0 37 303.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 28.267401101652478 12.819228843264895 14.897346019028543 44.01602403605408 2 28.982245561390346 19.954988747186796 29.507376844211052 21.555388847211805 3 26.275 23.275000000000002 20.175 30.275000000000002 4 31.05 28.449999999999996 15.45 25.05 5 27.375 30.25 18.875 23.5 6 22.1 31.15 20.0 26.75 7 22.15 12.25 36.65 28.95 8 23.549999999999997 17.275 24.625 34.55 9 24.05 18.4 26.3 31.25 10-14 26.345000000000002 23.61 21.54 28.505000000000003 15-19 26.634999999999998 22.16 22.5 28.705000000000002 20-24 27.26 22.855 21.88 28.005000000000003 25-29 27.465 22.564999999999998 21.995 27.975 30-34 27.195000000000004 22.275 21.915000000000003 28.615000000000002 35-39 27.04 22.555 21.88 28.525 40-44 28.175 21.935 21.834999999999997 28.055000000000003 45-49 27.500000000000004 23.005 21.515 27.98 50-54 27.485 22.525000000000002 21.735 28.255000000000003 55-59 27.139999999999997 21.855 21.955 29.049999999999997 60-64 28.544999999999998 21.58 21.645 28.23 65-69 27.91 21.64 21.61 28.84 70-74 27.47 22.09 22.375 28.065 75-79 27.455000000000002 22.38 22.115000000000002 28.050000000000004 80-84 27.54 22.235 21.755 28.470000000000002 85-89 28.125 21.895 22.040000000000003 27.939999999999998 90-94 28.494999999999997 21.94 21.615000000000002 27.950000000000003 95-99 28.155 22.06 21.5 28.285 100-104 28.12 22.08 21.795 28.005000000000003 105-109 27.785 22.285 21.65 28.28 110-114 28.24 22.005 22.0 27.755000000000003 115-119 28.67 22.0 21.365000000000002 27.965 120-124 27.76 21.67 22.12 28.449999999999996 125-129 28.555000000000003 22.275 21.44 27.73 130-134 28.735 22.235 21.634999999999998 27.395000000000003 135-139 28.275 21.925 21.965 27.834999999999997 140-144 28.144999999999996 22.45 21.404999999999998 28.000000000000004 145-149 28.03 22.905 21.404999999999998 27.66 150 29.349999999999998 21.05 21.85 27.750000000000004 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 0.0 1 0.0 2 0.0 3 0.0 4 0.0 5 0.0 6 0.0 7 0.0 8 0.0 9 0.0 10 0.0 11 0.0 12 0.0 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 0.0 23 0.5 24 1.0 25 0.5 26 0.5 27 1.5 28 2.5 29 1.5 30 3.5 31 8.5 32 11.5 33 14.5 34 17.0 35 22.5 36 26.5 37 32.0 38 48.5 39 59.5 40 69.0 41 89.0 42 112.0 43 119.0 44 110.5 45 117.0 46 142.0 47 145.0 48 136.0 49 129.0 50 100.5 51 101.5 52 110.0 53 95.5 54 84.0 55 82.5 56 90.5 57 83.5 58 78.0 59 87.5 60 98.0 61 102.5 62 103.5 63 96.5 64 96.5 65 103.5 66 107.0 67 99.0 68 89.0 69 86.0 70 86.0 71 86.0 72 83.0 73 79.0 74 65.0 75 54.0 76 48.0 77 39.5 78 33.5 79 29.0 80 22.0 81 17.5 82 14.0 83 10.5 84 7.0 85 4.0 86 2.0 87 1.5 88 1.0 89 0.0 90 0.0 91 0.5 92 0.5 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 0.15 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 0.0 >>END_MODULE >>Sequence Length Distribution pass #Length Count 150 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 92.4 #Duplication Level Percentage of deduplicated Percentage of total 1 92.37012987012987 85.35000000000001 2 7.169913419913419 13.25 3 0.3787878787878788 1.05 4 0.05411255411255411 0.2 5 0.0 0.0 6 0.027056277056277056 0.15 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 CTCCGATCCCGAAGGCCAACACAATAGGACCGGAATCCTATGATGTTATC 6 0.15 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 0.0125 0.0 0.0 0.0 0.0 22-23 0.025 0.0 0.0 0.0 0.0 24-25 0.025 0.0 0.0 0.0 0.0 26-27 0.025 0.0 0.0 0.0 0.0 28-29 0.025 0.0 0.0 0.0 0.0 30-31 0.025 0.0 0.0 0.0 0.0 32-33 0.025 0.0 0.0 0.0 0.0 34-35 0.025 0.0 0.0 0.0 0.0 36-37 0.025 0.0 0.0 0.0 0.0 38-39 0.025 0.0 0.0 0.0 0.0 40-41 0.025 0.0 0.0 0.0 0.0 42-43 0.025 0.0 0.0 0.0 0.0 44-45 0.025 0.0 0.0 0.0 0.0 46-47 0.025 0.0 0.0 0.0 0.0 48-49 0.025 0.0 0.0 0.0 0.0 50-51 0.025 0.0 0.0 0.0 0.0 52-53 0.025 0.0 0.0 0.0 0.0 54-55 0.025 0.0 0.0 0.0 0.0 56-57 0.025 0.0 0.0 0.0 0.0 58-59 0.025 0.0 0.0 0.0 0.0 60-61 0.05 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 0.075 0.0 0.0 0.0 0.0 74-75 0.075 0.0 0.0 0.0 0.0 76-77 0.075 0.0 0.0 0.0 0.0 78-79 0.075 0.0 0.0 0.0 0.0 80-81 0.0875 0.0 0.0 0.0 0.0 82-83 0.1 0.0 0.0 0.0 0.0 84-85 0.1125 0.0 0.0 0.0 0.0 86-87 0.125 0.0 0.0 0.0 0.0 88-89 0.125 0.0 0.0 0.0 0.0 90-91 0.125 0.0 0.0 0.0 0.0 92-93 0.125 0.0 0.0 0.0 0.0 94-95 0.1375 0.0 0.0 0.0 0.0 96-97 0.16249999999999998 0.0 0.0 0.0 0.0 98-99 0.1875 0.0 0.0 0.0 0.0 100-101 0.2 0.0 0.0 0.0 0.0 102-103 0.25 0.0 0.0 0.0 0.0 104-105 0.25 0.0 0.0 0.0 0.0 106-107 0.25 0.0 0.0 0.0 0.0 108-109 0.275 0.0 0.0 0.0 0.0 110-111 0.3 0.0 0.0 0.0 0.0 112-113 0.3375 0.0 0.0 0.0 0.0 114-115 0.4 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 0.6 0.0 0.0 0.0 0.0 122-123 0.7125 0.0 0.0 0.0 0.0 124-125 0.7875000000000001 0.0 0.0 0.0 0.0 126-127 0.825 0.0 0.0 0.0 0.0 128-129 0.9125 0.0 0.0 0.0 0.0 130-131 1.1 0.0 0.0 0.0 0.0 132-133 1.3125 0.0 0.0 0.0 0.0 134-135 1.4125 0.0 0.0 0.0 0.0 136-137 1.575 0.0 0.0 0.0 0.0 138 1.75 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE ERR9452519 read2 length is 150 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR9452519_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 35.8005 37.0 37.0 37.0 37.0 37.0 2 35.719 37.0 37.0 37.0 37.0 37.0 3 35.9205 37.0 37.0 37.0 37.0 37.0 4 35.889 37.0 37.0 37.0 37.0 37.0 5 35.7885 37.0 37.0 37.0 37.0 37.0 6 35.8355 37.0 37.0 37.0 37.0 37.0 7 35.8655 37.0 37.0 37.0 37.0 37.0 8 35.758 37.0 37.0 37.0 37.0 37.0 9 35.731 37.0 37.0 37.0 37.0 37.0 10-14 35.9731 37.0 37.0 37.0 37.0 37.0 15-19 35.822700000000005 37.0 37.0 37.0 37.0 37.0 20-24 35.8806 37.0 37.0 37.0 37.0 37.0 25-29 35.8685 37.0 37.0 37.0 37.0 37.0 30-34 35.777499999999996 37.0 37.0 37.0 37.0 37.0 35-39 35.878499999999995 37.0 37.0 37.0 37.0 37.0 40-44 35.8196 37.0 37.0 37.0 37.0 37.0 45-49 35.7344 37.0 37.0 37.0 37.0 37.0 50-54 35.7283 37.0 37.0 37.0 37.0 37.0 55-59 35.837599999999995 37.0 37.0 37.0 37.0 37.0 60-64 35.650600000000004 37.0 37.0 37.0 37.0 37.0 65-69 35.7194 37.0 37.0 37.0 37.0 37.0 70-74 35.584900000000005 37.0 37.0 37.0 37.0 37.0 75-79 35.57359999999999 37.0 37.0 37.0 37.0 37.0 80-84 35.609899999999996 37.0 37.0 37.0 37.0 37.0 85-89 35.3864 37.0 37.0 37.0 34.6 37.0 90-94 35.4485 37.0 37.0 37.0 34.6 37.0 95-99 35.3706 37.0 37.0 37.0 32.2 37.0 100-104 35.3852 37.0 37.0 37.0 37.0 37.0 105-109 35.3677 37.0 37.0 37.0 34.6 37.0 110-114 35.387699999999995 37.0 37.0 37.0 34.6 37.0 115-119 35.3348 37.0 37.0 37.0 32.2 37.0 120-124 35.215700000000005 37.0 37.0 37.0 27.4 37.0 125-129 35.154199999999996 37.0 37.0 37.0 29.8 37.0 130-134 35.1653 37.0 37.0 37.0 32.2 37.0 135-139 35.2529 37.0 37.0 37.0 29.8 37.0 140-144 35.07090000000001 37.0 37.0 37.0 27.4 37.0 145-149 34.832499999999996 37.0 37.0 37.0 25.0 37.0 150 35.06 37.0 37.0 37.0 25.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 18 1.0 19 0.0 20 1.0 21 2.0 22 5.0 23 5.0 24 15.0 25 10.0 26 9.0 27 26.0 28 32.0 29 47.0 30 54.0 31 89.0 32 105.0 33 150.0 34 246.0 35 583.0 36 2464.0 37 156.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 27.150000000000002 13.125 15.950000000000001 43.775 2 29.275000000000002 21.55 26.224999999999998 22.95 3 26.224999999999998 26.85 18.025 28.9 4 31.05 28.4 16.575 23.974999999999998 5 30.65 28.425 18.35 22.575 6 22.175 32.475 20.3 25.05 7 21.65 14.325 35.85 28.175 8 24.099999999999998 17.375 24.099999999999998 34.425 9 23.75 18.625 26.700000000000003 30.925000000000004 10-14 25.285000000000004 24.505 21.36 28.849999999999998 15-19 26.810000000000002 21.94 22.84 28.410000000000004 20-24 26.625 23.055 22.285 28.035 25-29 26.14 23.18 22.015 28.665000000000003 30-34 27.115000000000002 23.150000000000002 22.215 27.52 35-39 26.634999999999998 22.715 22.285 28.365000000000002 40-44 27.57 22.475 22.825 27.13 45-49 26.86 22.145 22.73 28.265 50-54 27.11 22.695 21.825 28.37 55-59 27.425 22.07 22.015 28.49 60-64 27.66 22.39 21.68 28.27 65-69 27.075 22.165000000000003 22.63 28.13 70-74 27.825 22.305 22.17 27.700000000000003 75-79 27.589999999999996 22.07 21.965 28.375 80-84 28.015 21.935 21.91 28.139999999999997 85-89 28.24 22.52 21.515 27.725 90-94 27.26 22.64 22.205 27.894999999999996 95-99 27.98 21.560000000000002 22.15 28.310000000000002 100-104 27.58 22.085 21.685 28.65 105-109 27.810000000000002 22.005 22.465 27.72 110-114 28.42 21.8 21.705 28.075 115-119 28.615000000000002 21.525 21.83 28.03 120-124 28.365000000000002 22.145 21.555 27.935 125-129 28.444999999999997 21.565 22.085 27.905 130-134 28.705000000000002 21.985 21.235 28.075 135-139 28.18 22.545 21.325 27.950000000000003 140-144 28.375 22.52 21.61 27.495000000000005 145-149 29.555 22.16 21.245 27.04 150 27.474999999999998 23.05 22.45 27.025 >>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 0.0 12 0.0 13 0.0 14 0.5 15 0.5 16 0.0 17 0.0 18 0.0 19 0.0 20 0.0 21 0.0 22 0.5 23 0.5 24 1.0 25 2.0 26 2.0 27 1.0 28 1.5 29 3.0 30 6.5 31 8.5 32 9.0 33 12.0 34 17.0 35 25.5 36 30.0 37 40.0 38 50.0 39 59.5 40 79.0 41 92.5 42 111.0 43 122.0 44 126.0 45 138.5 46 130.0 47 119.0 48 121.5 49 120.5 50 113.5 51 115.0 52 105.0 53 92.0 54 93.0 55 88.5 56 87.0 57 98.5 58 103.5 59 97.0 60 95.0 61 93.5 62 87.0 63 102.0 64 121.0 65 98.5 66 87.5 67 94.0 68 91.0 69 94.5 70 79.0 71 62.5 72 69.0 73 74.0 74 75.0 75 55.5 76 38.5 77 35.5 78 30.5 79 24.0 80 17.5 81 12.0 82 9.0 83 8.0 84 6.0 85 5.0 86 3.0 87 2.5 88 1.5 89 0.5 90 0.0 91 0.0 92 0.5 93 0.5 94 0.0 95 0.0 96 0.5 97 0.5 98 0.0 99 0.0 100 0.0 >>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 0.0 >>END_MODULE >>Sequence Length Distribution pass #Length Count 150 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 92.30000000000001 #Duplication Level Percentage of deduplicated Percentage of total 1 92.17226435536294 85.075 2 7.367280606717226 13.600000000000001 3 0.40628385698808234 1.125 4 0.054171180931744306 0.2 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 0.025 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 0.05 0.0 0.0 0.0 0.0 70-71 0.05 0.0 0.0 0.0 0.0 72-73 0.05 0.0 0.0 0.0 0.0 74-75 0.05 0.0 0.0 0.0 0.0 76-77 0.05 0.0 0.0 0.0 0.0 78-79 0.05 0.0 0.0 0.0 0.0 80-81 0.0625 0.0 0.0 0.0 0.0 82-83 0.075 0.0 0.0 0.0 0.0 84-85 0.0875 0.0 0.0 0.0 0.0 86-87 0.1 0.0 0.0 0.0 0.0 88-89 0.1 0.0 0.0 0.0 0.0 90-91 0.1 0.0 0.0 0.0 0.0 92-93 0.1 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 0.16249999999999998 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 0.2 0.0 0.0 0.0 0.0 106-107 0.2 0.0 0.0 0.0 0.0 108-109 0.225 0.0 0.0 0.0 0.0 110-111 0.25 0.0 0.0 0.0 0.0 112-113 0.2875 0.0 0.0 0.0 0.0 114-115 0.325 0.0 0.0 0.0 0.0 116-117 0.3875 0.0 0.0 0.0 0.0 118-119 0.5125 0.0 0.0 0.0 0.0 120-121 0.55 0.0 0.0 0.0 0.0 122-123 0.6625 0.0 0.0 0.0 0.0 124-125 0.7375 0.0 0.0 0.0 0.0 126-127 0.775 0.0 0.0 0.0 0.0 128-129 0.8625 0.0 0.0 0.0 0.0 130-131 1.05 0.0 0.0 0.0 0.0 132-133 1.2374999999999998 0.0 0.0 0.0 0.0 134-135 1.3375 0.0 0.0 0.0 0.0 136-137 1.5 0.0 0.0 0.0 0.0 138 1.675 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Read 1410406 spots for ERR9452519.sra Written 1410406 spots for ERR9452519.sra Read 1410406 spots for ERR9452519.sra Written 1410406 spots for ERR9452519.sra Read 1410406 spots for ERR9452519.sra Written 1410406 spots for ERR9452519.sra Read 1410406 spots for ERR9452519.sra Written 1410406 spots for ERR9452519.sra Read 1410406 spots for ERR9452519.sra Written 1410406 spots for ERR9452519.sra Read 1410406 spots for ERR9452519.sra Written 1410406 spots for ERR9452519.sra Read 1410406 spots for ERR9452519.sra Written 1410406 spots for ERR9452519.sra Read 1410406 spots for ERR9452519.sra Written 1410406 spots for ERR9452519.sra Read 1410406 spots for ERR9452519.sra Written 1410406 spots for ERR9452519.sra Read 1410406 spots for ERR9452519.sra Written 1410406 spots for ERR9452519.sra Read 1410406 spots for ERR9452519.sra Written 1410406 spots for ERR9452519.sra Read 1410406 spots for ERR9452519.sra Written 1410406 spots for ERR9452519.sra Read 1410406 spots for ERR9452519.sra Written 1410406 spots for ERR9452519.sra Read 1410406 spots for ERR9452519.sra Written 1410406 spots for ERR9452519.sra Read 1410406 spots for ERR9452519.sra Written 1410406 spots for ERR9452519.sra Read 1410406 spots for ERR9452519.sra Written 1410406 spots for ERR9452519.sra Read 1410406 spots for ERR9452519.sra Written 1410406 spots for ERR9452519.sra Read 1410406 spots for ERR9452519.sra Written 1410406 spots for ERR9452519.sra Read 1410414 spots for ERR9452519.sra Written 1410414 spots for ERR9452519.sra Read 1410406 spots for ERR9452519.sra Written 1410406 spots for ERR9452519.sra SRR ids: ['ERR9452519.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_cgxnfrhn ERR9452519.sra spots: 28208128 blocks: [[1, 1410406], [1410407, 2820812], [2820813, 4231218], [4231219, 5641624], [5641625, 7052030], [7052031, 8462436], [8462437, 9872842], [9872843, 11283248], [11283249, 12693654], [12693655, 14104060], [14104061, 15514466], [15514467, 16924872], [16924873, 18335278], [18335279, 19745684], [19745685, 21156090], [21156091, 22566496], [22566497, 23976902], [23976903, 25387308], [25387309, 26797714], [26797715, 28208128]] ERR9452519 file size 9482014 ERR9452519 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 ERR9452519 ERR9452519_1.fastq ERR9452519_2.fastq Input file: ERR9452519_1.fastq Paired file: ERR9452519_2.fastq trimmed: ERR9452519-trimmed-pair1.fastq, ERR9452519-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 23:33:01 2024 >> started Fri Dec 6 23:35:54 2024 >> done (172.201s) 28208128 read pairs processed; of these: 340 ( 0.00%) short read pairs filtered out after trimming by size control 965 ( 0.00%) empty read pairs filtered out after trimming by size control 28206823 (100.00%) read pairs available; of these: 837753 ( 2.97%) trimmed read pairs available after processing 27369070 (97.03%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 18 29 0.00% 19 38 0.00% 20 4339 0.02% 21 45 0.00% 22 18 0.00% 23 20 0.00% 24 25 0.00% 25 23 0.00% 26 18 0.00% 27 34 0.00% 28 34 0.00% 29 40 0.00% 30 129 0.00% 31 61 0.00% 32 37 0.00% 33 24 0.00% 34 32 0.00% 35 37 0.00% 36 35 0.00% 37 36 0.00% 38 24 0.00% 39 36 0.00% 40 47 0.00% 41 37 0.00% 42 56 0.00% 43 40 0.00% 44 50 0.00% 45 63 0.00% 46 71 0.00% 47 87 0.00% 48 96 0.00% 49 96 0.00% 50 107 0.00% 51 139 0.00% 52 161 0.00% 53 141 0.00% 54 190 0.00% 55 209 0.00% 56 229 0.00% 57 265 0.00% 58 370 0.00% 59 347 0.00% 60 365 0.00% 61 422 0.00% 62 494 0.00% 63 494 0.00% 64 565 0.00% 65 520 0.00% 66 585 0.00% 67 669 0.00% 68 749 0.00% 69 903 0.00% 70 937 0.00% 71 983 0.00% 72 1005 0.00% 73 1157 0.00% 74 1181 0.00% 75 1197 0.00% 76 1304 0.00% 77 1509 0.01% 78 1487 0.01% 79 1533 0.01% 80 1694 0.01% 81 1715 0.01% 82 1890 0.01% 83 1988 0.01% 84 2071 0.01% 85 2131 0.01% 86 2274 0.01% 87 2389 0.01% 88 2547 0.01% 89 2572 0.01% 90 2705 0.01% 91 2825 0.01% 92 3051 0.01% 93 3148 0.01% 94 3495 0.01% 95 3543 0.01% 96 3716 0.01% 97 3758 0.01% 98 3945 0.01% 99 3978 0.01% 100 4251 0.02% 101 4492 0.02% 102 4836 0.02% 103 4830 0.02% 104 5282 0.02% 105 5456 0.02% 106 5757 0.02% 107 6069 0.02% 108 6066 0.02% 109 6416 0.02% 110 6411 0.02% 111 6959 0.02% 112 7260 0.03% 113 7682 0.03% 114 8069 0.03% 115 8444 0.03% 116 9000 0.03% 117 9301 0.03% 118 9681 0.03% 119 10085 0.04% 120 10378 0.04% 121 10891 0.04% 122 11239 0.04% 123 11965 0.04% 124 12419 0.04% 125 12743 0.05% 126 13710 0.05% 127 14146 0.05% 128 14651 0.05% 129 15041 0.05% 130 16015 0.06% 131 16642 0.06% 132 17292 0.06% 133 17942 0.06% 134 19256 0.07% 135 20058 0.07% 136 20965 0.07% 137 21671 0.08% 138 22329 0.08% 139 23531 0.08% 140 24217 0.09% 141 24759 0.09% 142 26407 0.09% 143 27728 0.10% 144 28893 0.10% 145 29738 0.11% 146 31503 0.11% 147 33359 0.12% 148 34360 0.12% 149 36149 0.13% 150 27369070 97.03% 28206823 reads passed initial QC criterion=sequence-density sequence-density=0.30 sequence-density-rank=1 fanout-score=2.75 fanout-score-rank=26 prefix-density=0.32 prefix-fanout=2.6 sequence=GGTGTTGTCGAAGCCGATGATGCGGAC criterion=fanout-score sequence-density=0.03 sequence-density-rank=35 fanout-score=877.73 fanout-score-rank=1 prefix-density=1.03 prefix-fanout=22.3 sequence=GCGGCGGCGAACCGCCCCCGTCGCCGCGATCCGAACACTTCACCGGACCATTCAATCGGTAGGAGCGACGGGCGGTGTGTACAAAGGGCAGGGACGTAGTCAACGCGAGCTGATGACTCGCGCTTACTAGGCATTCCTCGTTGAAGACCAACAATTGCAATGATCTATCCCCATCACGATGAAATTTCCCAAGATTACCCGGGCCTGTCGGCCAAGGCTATATACTCGTTGAATACATCAGTGTAGCGCGCGTGCGGCCCAGAACATCTAAGGGCATCACAGACCTGTTATTGCCTCAAACTTCCGTCGCCTAAACGGCGATAGTCCCTCTAAGAAGCTAGCTGCGGAGGGATGGCTCCGCATAGCTAGTTAGCAGGCTGAGGTCTCGTTCGTTAACGGAATTAACCAGACAAATCGCTCCACCAACTAAGAACGGCCATGCACCACCACCCATAGAATCAAGAAAGAGCTCTCAGTCTGTCAATCCTTGCTATGTCTGGACCTGGTAAGT criterion=sequence-density sequence-density=0.30 sequence-density-rank=1 fanout-score=2.76 fanout-score-rank=26 prefix-density=0.32 prefix-fanout=2.6 sequence=GGTGTTGTCGAAGCCGATGATGCGGAC criterion=fanout-score sequence-density=0.12 sequence-density-rank=20 fanout-score=158.61 fanout-score-rank=1 prefix-density=1.03 prefix-fanout=18.2 sequence=CCGCCGCCGCCG ERR9452519 testing PE reads STAR mapping to Ensembl genome Started job on | Dec 06 23:37:00 Started mapping on | Dec 06 23:37:00 Finished on | Dec 06 23:48:58 Mapping speed, Million of reads per hour | 141.43 Number of input reads | 28206823 Average input read length | 298 UNIQUE READS: Uniquely mapped reads number | 26133090 Uniquely mapped reads % | 92.65% Average mapped length | 297.10 Number of splices: Total | 24933807 Number of splices: Annotated (sjdb) | 23497110 Number of splices: GT/AG | 24549211 Number of splices: GC/AG | 314976 Number of splices: AT/AC | 11181 Number of splices: Non-canonical | 58439 Mismatch rate per base, % | 0.44% Deletion rate per base | 0.03% Deletion average length | 2.90 Insertion rate per base | 0.02% Insertion average length | 2.89 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 447300 % of reads mapped to multiple loci | 1.59% Number of reads mapped to too many loci | 94343 % of reads mapped to too many loci | 0.33% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 2.16% % of reads unmapped: other | 3.28% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 1626433 1626433 1626433 N_multimapping 447300 447300 447300 N_noFeature 892152 13221987 13334177 N_ambiguous 607061 71937 71045 UnstrandedReadsAssigned:24633877 PositiveStrandReadsAssigned:12839166 NegativeStrandReadsAssigned:12727868 Dataset is classified unstranded MeadianReadLen=150 20thPercentileLength=150 echo kmer=145 ERR9452519 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: ERR9452519-trimmed-pair1.fastq ERR9452519-trimmed-pair2.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 28,206,823 reads, 25,680,024 reads pseudoaligned [quant] estimated average fragment length: 236.137 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,191 rounds 52973 ERR9452519.ke.tsv 35125 ERR9452519.se.tsv 88098 total ==> ERR9452519.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 701.133 0 0 PNS24247 1044 808.863 27.3198 1.66908 PNS24249 1928 1692.86 411.755 12.0197 PNS24246 1044 808.863 27.3198 1.66908 PNS24248 1044 808.863 27.3198 1.66908 PNS24244 1471 1235.86 45.2854 1.81077 PNS24243 293 70.314 35 24.5981 KQK14069 1603 1367.86 16503.8 596.233 KQK14071 474 241.163 1733.11 355.133 ==> ERR9452519.se.tsv <== BRADI_1g14170v3 19861 BRADI_1g53295v3 717 BRADI_1g59795v3 144 BRADI_1g07683v3 0 BRADI_1g00485v3 68 BRADI_1g20270v3 1333 BRADI_1g74790v3 380 BRADI_1g09890v3 8 BRADI_1g77505v3 539 BRADI_1g48960v3 0 ERR9452519 completed mapping pipeline successfully