Starting /dee2/code/volunteer_pipeline.sh SRR7814944 current disk space = 1547677663232 free memory = 1603910308 SRR7814944 SRAfilesize 2f3e0423c46ab06f4d23e9f8323fa352 SRR7814944.sra SRR7814944.sra file validated SRR7814944 is paired end SRR7814944 is conventional basespace SRR7814944 read1 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR7814944_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 49 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 36.23675 37.0 37.0 37.0 37.0 37.0 2 36.2805 37.0 37.0 37.0 37.0 37.0 3 36.393 37.0 37.0 37.0 37.0 37.0 4 36.4875 37.0 37.0 37.0 37.0 37.0 5 36.552 37.0 37.0 37.0 37.0 37.0 6 36.5395 37.0 37.0 37.0 37.0 37.0 7 36.3565 37.0 37.0 37.0 37.0 37.0 8 36.455 37.0 37.0 37.0 37.0 37.0 9 36.6175 37.0 37.0 37.0 37.0 37.0 10-14 36.530199999999994 37.0 37.0 37.0 37.0 37.0 15-19 36.5049 37.0 37.0 37.0 37.0 37.0 20-24 36.4252 37.0 37.0 37.0 37.0 37.0 25-29 36.3868 37.0 37.0 37.0 37.0 37.0 30-34 36.4691 37.0 37.0 37.0 37.0 37.0 35-39 36.4416 37.0 37.0 37.0 37.0 37.0 40-44 36.388 37.0 37.0 37.0 37.0 37.0 45-49 36.3305 37.0 37.0 37.0 37.0 37.0 50-54 36.277499999999996 37.0 37.0 37.0 37.0 37.0 55-59 36.25449999999999 37.0 37.0 37.0 37.0 37.0 60-64 36.2846 37.0 37.0 37.0 37.0 37.0 65-69 36.1722 37.0 37.0 37.0 37.0 37.0 70-74 36.15880000000001 37.0 37.0 37.0 37.0 37.0 75-79 36.165499999999994 37.0 37.0 37.0 37.0 37.0 80-84 36.1004 37.0 37.0 37.0 37.0 37.0 85-89 36.122499999999995 37.0 37.0 37.0 37.0 37.0 90-94 36.03529999999999 37.0 37.0 37.0 37.0 37.0 95-99 35.990199999999994 37.0 37.0 37.0 37.0 37.0 100-104 35.91250000000001 37.0 37.0 37.0 37.0 37.0 105-109 35.938500000000005 37.0 37.0 37.0 37.0 37.0 110-114 35.9071 37.0 37.0 37.0 37.0 37.0 115-119 35.8761 37.0 37.0 37.0 37.0 37.0 120-124 35.7646 37.0 37.0 37.0 37.0 37.0 125-129 35.63440000000001 37.0 37.0 37.0 37.0 37.0 130-134 35.564800000000005 37.0 37.0 37.0 37.0 37.0 135-139 35.6381 37.0 37.0 37.0 37.0 37.0 140-144 35.4682 37.0 37.0 37.0 37.0 37.0 145-149 35.428700000000006 37.0 37.0 37.0 34.6 37.0 150-151 34.67425 37.0 37.0 37.0 31.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 1.0 21 0.0 22 1.0 23 0.0 24 0.0 25 2.0 26 2.0 27 16.0 28 14.0 29 17.0 30 32.0 31 47.0 32 60.0 33 85.0 34 162.0 35 450.0 36 2898.0 37 213.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 44.14346626536243 14.396789566089794 9.104589917231001 32.35515425131678 2 24.45 17.4 33.575 24.575 3 21.0 25.324999999999996 25.575 28.1 4 25.324999999999996 30.775000000000002 22.7 21.2 5 25.55 33.050000000000004 22.8 18.6 6 21.224999999999998 33.7 22.3 22.775000000000002 7 16.525000000000002 20.3 43.3 19.875 8 21.125 21.325 28.275 29.275000000000002 9 20.150000000000002 21.0 31.35 27.500000000000004 10-14 22.905 26.52 24.975 25.6 15-19 22.53 26.005 25.745 25.72 20-24 23.28 24.785 26.105 25.83 25-29 22.555 26.08 26.235000000000003 25.130000000000003 30-34 22.55 26.284999999999997 25.629999999999995 25.535000000000004 35-39 23.24 26.215 25.06 25.485000000000003 40-44 22.495 26.179999999999996 25.374999999999996 25.95 45-49 23.119999999999997 25.665 25.805 25.41 50-54 23.07 25.855 25.16 25.915 55-59 23.49 25.71 25.6 25.2 60-64 22.895 25.545 25.174999999999997 26.384999999999998 65-69 23.455000000000002 25.2 25.729999999999997 25.615 70-74 23.155 25.95 25.11 25.785000000000004 75-79 23.195 25.480000000000004 25.374999999999996 25.95 80-84 23.544999999999998 25.569999999999997 25.180000000000003 25.705 85-89 23.44 25.035 25.4 26.125 90-94 23.125 24.990000000000002 25.185000000000002 26.700000000000003 95-99 22.875 25.635 25.369999999999997 26.119999999999997 100-104 23.674999999999997 25.275 25.31 25.740000000000002 105-109 23.39 25.290000000000003 24.990000000000002 26.33 110-114 24.305 25.235000000000003 24.65 25.81 115-119 23.75 25.795 25.19 25.264999999999997 120-124 23.830000000000002 25.905 24.36 25.905 125-129 24.03 24.64 25.2 26.13 130-134 23.965 25.124999999999996 24.965 25.945 135-139 23.855 24.98 24.88 26.284999999999997 140-144 24.09 25.169999999999998 24.945 25.795 145-149 24.279999999999998 24.69 25.085 25.945 150-151 23.6125 25.5125 25.5 25.374999999999996 >>END_MODULE >>Per sequence GC content warn #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 0.0 20 0.0 21 0.0 22 0.0 23 0.5 24 0.5 25 1.0 26 2.0 27 2.5 28 2.0 29 2.5 30 6.5 31 13.5 32 18.5 33 24.5 34 31.5 35 42.5 36 54.0 37 68.5 38 84.0 39 109.5 40 131.5 41 139.5 42 148.5 43 173.0 44 195.0 45 202.5 46 210.5 47 217.5 48 211.5 49 195.0 50 190.5 51 165.0 52 128.5 53 124.5 54 122.5 55 106.5 56 87.0 57 65.0 58 62.5 59 63.0 60 61.5 61 57.0 62 51.0 63 56.5 64 47.5 65 47.0 66 56.5 67 44.5 68 35.5 69 25.0 70 22.0 71 27.5 72 20.5 73 13.5 74 11.0 75 7.0 76 4.0 77 2.5 78 2.5 79 2.0 80 0.0 81 0.5 82 0.5 83 0.0 84 0.5 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 0.0 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 92.4 #Duplication Level Percentage of deduplicated Percentage of total 1 92.61363636363636 85.575 2 6.70995670995671 12.4 3 0.5681818181818182 1.575 4 0.05411255411255411 0.2 5 0.05411255411255411 0.25 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 CTTGGTTGGATCGACCATTGCCTTGCATCCAATCCATTGCTCAGTCAATC 5 0.125 No Hit CCACAATGAGCCAAAACCTTCATCCTTTATTGTGCGTCCAAAGCAGTCCC 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 0.0 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 0.025 0.0 0.0 72-73 0.0 0.0 0.025 0.0 0.0 74-75 0.0 0.0 0.025 0.0 0.0 76-77 0.0 0.0 0.025 0.0 0.0 78-79 0.0 0.0 0.025 0.0 0.0 80-81 0.0 0.0 0.025 0.0 0.0 82-83 0.0 0.0 0.025 0.0 0.0 84-85 0.0 0.0 0.025 0.0 0.0 86-87 0.0 0.0 0.025 0.0 0.0 88-89 0.025 0.0 0.025 0.0 0.025 90-91 0.025 0.0 0.025 0.0 0.025 92-93 0.025 0.0 0.025 0.0 0.025 94-95 0.025 0.0 0.025 0.0 0.025 96-97 0.025 0.0 0.025 0.0 0.025 98-99 0.0625 0.0 0.025 0.0 0.025 100-101 0.075 0.0 0.025 0.0 0.025 102-103 0.0875 0.0 0.025 0.0 0.025 104-105 0.1375 0.0 0.025 0.0 0.025 106-107 0.175 0.0 0.025 0.0 0.025 108-109 0.175 0.0 0.025 0.0 0.025 110-111 0.21250000000000002 0.0 0.025 0.0 0.025 112-113 0.30000000000000004 0.0 0.025 0.0 0.025 114-115 0.325 0.0 0.025 0.0 0.025 116-117 0.3625 0.0 0.025 0.0 0.025 118-119 0.375 0.0 0.025 0.0 0.025 120-121 0.425 0.0 0.025 0.0 0.025 122-123 0.5125 0.0 0.025 0.0 0.025 124-125 0.525 0.0 0.025 0.0 0.025 126-127 0.625 0.0 0.025 0.0 0.025 128-129 0.725 0.0 0.025 0.0 0.025 130-131 0.8375 0.0 0.025 0.0 0.025 132-133 0.975 0.0 0.025 0.0 0.025 134-135 1.125 0.0 0.025 0.0 0.025 136-137 1.1875 0.0 0.025 0.0 0.025 138-139 1.2375 0.0 0.025 0.0 0.025 >>END_MODULE >>Kmer Content pass >>END_MODULE SRR7814944 read2 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR7814944_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 50 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 36.3 37.0 37.0 37.0 37.0 37.0 2 35.856 37.0 37.0 37.0 37.0 37.0 3 35.992 37.0 37.0 37.0 37.0 37.0 4 36.006 37.0 37.0 37.0 37.0 37.0 5 36.163 37.0 37.0 37.0 37.0 37.0 6 36.031 37.0 37.0 37.0 37.0 37.0 7 35.875 37.0 37.0 37.0 37.0 37.0 8 36.013 37.0 37.0 37.0 37.0 37.0 9 35.966 37.0 37.0 37.0 37.0 37.0 10-14 35.9422 37.0 37.0 37.0 37.0 37.0 15-19 35.90260000000001 37.0 37.0 37.0 37.0 37.0 20-24 35.8599 37.0 37.0 37.0 37.0 37.0 25-29 35.732600000000005 37.0 37.0 37.0 37.0 37.0 30-34 35.7998 37.0 37.0 37.0 37.0 37.0 35-39 35.7047 37.0 37.0 37.0 37.0 37.0 40-44 35.5536 37.0 37.0 37.0 37.0 37.0 45-49 35.5846 37.0 37.0 37.0 37.0 37.0 50-54 35.438300000000005 37.0 37.0 37.0 37.0 37.0 55-59 35.307500000000005 37.0 37.0 37.0 34.6 37.0 60-64 35.329899999999995 37.0 37.0 37.0 34.6 37.0 65-69 35.3296 37.0 37.0 37.0 37.0 37.0 70-74 35.2318 37.0 37.0 37.0 29.8 37.0 75-79 35.0856 37.0 37.0 37.0 29.8 37.0 80-84 34.9316 37.0 37.0 37.0 25.0 37.0 85-89 34.951299999999996 37.0 37.0 37.0 25.0 37.0 90-94 34.81609999999999 37.0 37.0 37.0 25.0 37.0 95-99 34.486399999999996 37.0 37.0 37.0 25.0 37.0 100-104 34.6108 37.0 37.0 37.0 25.0 37.0 105-109 34.302800000000005 37.0 37.0 37.0 25.0 37.0 110-114 34.3823 37.0 37.0 37.0 25.0 37.0 115-119 34.5049 37.0 37.0 37.0 25.0 37.0 120-124 34.1442 37.0 37.0 37.0 25.0 37.0 125-129 34.2508 37.0 37.0 37.0 25.0 37.0 130-134 33.8337 37.0 37.0 37.0 25.0 37.0 135-139 33.6129 37.0 37.0 37.0 25.0 37.0 140-144 33.991699999999994 37.0 37.0 37.0 25.0 37.0 145-149 33.636700000000005 37.0 37.0 37.0 25.0 37.0 150-151 33.1035 37.0 31.0 37.0 18.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 12 1.0 13 11.0 14 12.0 15 5.0 16 4.0 17 2.0 18 1.0 19 3.0 20 4.0 21 6.0 22 10.0 23 13.0 24 11.0 25 9.0 26 14.0 27 20.0 28 27.0 29 36.0 30 66.0 31 82.0 32 121.0 33 211.0 34 438.0 35 1000.0 36 1858.0 37 35.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 43.0 16.025 12.325 28.65 2 30.225 20.7 27.375 21.7 3 23.9 24.7 28.599999999999998 22.8 4 28.675 31.175000000000004 19.3 20.849999999999998 5 27.125 33.125 19.05 20.7 6 23.575 34.325 19.85 22.25 7 21.85 16.525000000000002 38.425 23.200000000000003 8 23.724999999999998 21.425 21.75 33.1 9 24.9 21.75 24.85 28.499999999999996 10-14 26.025 25.41 22.765 25.8 15-19 26.66 24.560000000000002 24.18 24.6 20-24 26.025 25.495 23.76 24.72 25-29 26.16 25.435000000000002 24.055 24.349999999999998 30-34 25.415 24.959999999999997 24.58 25.045 35-39 25.924999999999997 25.629999999999995 23.875 24.57 40-44 26.375 25.674999999999997 23.65 24.3 45-49 25.865 25.955000000000002 23.75 24.43 50-54 25.97 25.650000000000002 24.065 24.315 55-59 26.540000000000003 25.419999999999998 23.849999999999998 24.19 60-64 25.779999999999998 25.46 24.115000000000002 24.645 65-69 25.895000000000003 25.979999999999997 23.775 24.349999999999998 70-74 26.090000000000003 25.495 23.72 24.695 75-79 26.400000000000002 26.040000000000003 23.685000000000002 23.875 80-84 26.39 25.285000000000004 24.195 24.13 85-89 26.52 25.665 23.915 23.9 90-94 25.545 26.13 24.04 24.285 95-99 26.355 25.785000000000004 24.34 23.52 100-104 26.640000000000004 25.240000000000002 23.65 24.47 105-109 25.94 25.095 24.29 24.675 110-114 26.38 25.64 24.025 23.955000000000002 115-119 26.305 25.255 24.18 24.26 120-124 26.47 25.485000000000003 24.69 23.355 125-129 26.555 25.240000000000002 24.375 23.830000000000002 130-134 25.945 26.135 24.0 23.919999999999998 135-139 26.435 25.629999999999995 24.395 23.54 140-144 26.22 25.905 24.22 23.655 145-149 26.46 25.674999999999997 23.825 24.04 150-151 26.937499999999996 25.912499999999998 23.8125 23.3375 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 0.0 1 0.5 2 1.0 3 1.0 4 1.0 5 0.5 6 0.5 7 1.5 8 1.0 9 0.0 10 0.5 11 1.5 12 1.5 13 1.0 14 0.5 15 1.5 16 1.5 17 0.0 18 1.5 19 2.5 20 1.5 21 1.0 22 0.5 23 1.0 24 1.5 25 3.0 26 3.0 27 2.0 28 3.0 29 5.5 30 10.0 31 11.5 32 12.5 33 14.5 34 19.0 35 28.5 36 35.0 37 49.5 38 68.5 39 92.0 40 112.5 41 121.5 42 133.5 43 151.5 44 182.0 45 189.0 46 182.0 47 181.5 48 177.5 49 162.0 50 153.0 51 161.5 52 151.5 53 124.0 54 103.5 55 110.5 56 101.5 57 77.0 58 88.5 59 94.5 60 77.5 61 75.5 62 75.5 63 64.5 64 67.0 65 71.0 66 65.5 67 58.5 68 53.5 69 48.5 70 36.5 71 33.5 72 32.5 73 27.0 74 21.5 75 12.0 76 8.0 77 6.5 78 2.5 79 2.0 80 2.0 81 0.5 82 0.5 83 1.0 84 0.5 85 0.5 86 2.5 87 2.5 88 0.5 89 0.0 90 0.0 91 0.5 92 0.5 93 0.5 94 1.0 95 0.5 96 0.0 97 0.0 98 0.5 99 1.5 100 3.0 >>END_MODULE >>Per base N content pass #Base N-Count 1 0.0 2 0.0 3 0.0 4 0.0 5 0.0 6 0.0 7 0.0 8 0.0 9 0.0 10-14 0.0 15-19 0.0 20-24 0.0 25-29 0.0 30-34 0.0 35-39 0.0 40-44 0.0 45-49 0.0 50-54 0.0 55-59 0.0 60-64 0.0 65-69 0.0 70-74 0.0 75-79 0.0 80-84 0.0 85-89 0.0 90-94 0.0 95-99 0.0 100-104 0.0 105-109 0.0 110-114 0.0 115-119 0.0 120-124 0.0 125-129 0.0 130-134 0.0 135-139 0.0 140-144 0.0 145-149 0.0 150-151 0.0 >>END_MODULE >>Sequence Length Distribution pass #Length Count 151 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 92.77499999999999 #Duplication Level Percentage of deduplicated Percentage of total 1 93.18243061169497 86.45 2 6.116949609269739 11.35 3 0.5658852061438965 1.575 4 0.05389382915656157 0.2 5 0.026946914578280787 0.125 6 0.05389382915656157 0.3 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 AGCACACACAAGCCTAGAAGCCTTCAGCTTAATCTTCTTCCTAAGCAAGT 6 0.15 No Hit GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG 6 0.15 No Hit GTCGTCCTCTCCAATCTTTGCTAACGCACCAGCTGAGAAAGGTGTCAAGA 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 0.0 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 0.0 0.0 0.0 0.0 0.0 88-89 0.025 0.0 0.0 0.0 0.0 90-91 0.025 0.0 0.0 0.0 0.0 92-93 0.025 0.0 0.0 0.0 0.0 94-95 0.025 0.0 0.0 0.0 0.0 96-97 0.025 0.0 0.0 0.0 0.0 98-99 0.0625 0.0 0.0 0.0 0.0 100-101 0.075 0.0 0.0 0.0 0.0 102-103 0.0875 0.0 0.0 0.0 0.0 104-105 0.1125 0.0 0.0 0.0 0.0 106-107 0.15 0.0 0.0 0.0 0.0 108-109 0.15 0.0 0.0 0.0 0.0 110-111 0.1875 0.0 0.0 0.0 0.0 112-113 0.275 0.0 0.0 0.0 0.0 114-115 0.3 0.0 0.0 0.0 0.0 116-117 0.3375 0.0 0.0 0.0 0.0 118-119 0.35 0.0 0.0 0.0 0.0 120-121 0.4 0.0 0.0 0.0 0.0 122-123 0.4875 0.0 0.0 0.0 0.0 124-125 0.5 0.0 0.0 0.0 0.0 126-127 0.6 0.0 0.0 0.0 0.0 128-129 0.7 0.0 0.0 0.0 0.0 130-131 0.8125 0.0 0.0 0.0 0.0 132-133 0.925 0.0 0.0 0.0 0.0 134-135 1.0499999999999998 0.0 0.0 0.0 0.0 136-137 1.1125 0.0 0.0 0.0 0.0 138-139 1.1625 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position GTGATTG 10 0.006830828 145.0 145 >>END_MODULE Read 2080281 spots for SRR7814944.sra Written 2080281 spots for SRR7814944.sra Read 2080281 spots for SRR7814944.sra Written 2080281 spots for SRR7814944.sra Read 2080281 spots for SRR7814944.sra Written 2080281 spots for SRR7814944.sra Read 2080281 spots for SRR7814944.sra Written 2080281 spots for SRR7814944.sra Read 2080281 spots for SRR7814944.sra Written 2080281 spots for SRR7814944.sra Read 2080281 spots for SRR7814944.sra Written 2080281 spots for SRR7814944.sra Read 2080281 spots for SRR7814944.sra Written 2080281 spots for SRR7814944.sra Read 2080281 spots for SRR7814944.sra Written 2080281 spots for SRR7814944.sra Read 2080284 spots for SRR7814944.sra Written 2080284 spots for SRR7814944.sra Read 2080281 spots for SRR7814944.sra Written 2080281 spots for SRR7814944.sra Read 2080281 spots for SRR7814944.sra Written 2080281 spots for SRR7814944.sra Read 2080281 spots for SRR7814944.sra Written 2080281 spots for SRR7814944.sra Read 2080281 spots for SRR7814944.sra Written 2080281 spots for SRR7814944.sra Read 2080281 spots for SRR7814944.sra Written 2080281 spots for SRR7814944.sra Read 2080281 spots for SRR7814944.sra Written 2080281 spots for SRR7814944.sra Read 2080281 spots for SRR7814944.sra Written 2080281 spots for SRR7814944.sra Read 2080281 spots for SRR7814944.sra Written 2080281 spots for SRR7814944.sra Read 2080281 spots for SRR7814944.sra Written 2080281 spots for SRR7814944.sra Read 2080281 spots for SRR7814944.sra Written 2080281 spots for SRR7814944.sra Read 2080281 spots for SRR7814944.sra Written 2080281 spots for SRR7814944.sra SRR ids: ['SRR7814944.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_ysx6oeby SRR7814944.sra spots: 41605623 blocks: [[1, 2080281], [2080282, 4160562], [4160563, 6240843], [6240844, 8321124], [8321125, 10401405], [10401406, 12481686], [12481687, 14561967], [14561968, 16642248], [16642249, 18722529], [18722530, 20802810], [20802811, 22883091], [22883092, 24963372], [24963373, 27043653], [27043654, 29123934], [29123935, 31204215], [31204216, 33284496], [33284497, 35364777], [35364778, 37445058], [37445059, 39525339], [39525340, 41605623]] SRR7814944 file size 14077080 SRR7814944 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 SRR7814944 SRR7814944_1.fastq SRR7814944_2.fastq Input file: SRR7814944_1.fastq Paired file: SRR7814944_2.fastq trimmed: SRR7814944-trimmed-pair1.fastq, SRR7814944-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 04:23:14 2024 >> started Sat Dec 7 04:39:23 2024 >> done (969.067s) 41605623 read pairs processed; of these: 118 ( 0.00%) short read pairs filtered out after trimming by size control 5205 ( 0.01%) empty read pairs filtered out after trimming by size control 41600300 (99.99%) read pairs available; of these: 924985 ( 2.22%) trimmed read pairs available after processing 40675315 (97.78%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 18 15 0.00% 19 24 0.00% 20 19 0.00% 21 28 0.00% 22 24 0.00% 23 38 0.00% 24 28 0.00% 25 34 0.00% 26 43 0.00% 27 48 0.00% 28 38 0.00% 29 58 0.00% 30 42 0.00% 31 74 0.00% 32 56 0.00% 33 52 0.00% 34 79 0.00% 35 72 0.00% 36 98 0.00% 37 70 0.00% 38 96 0.00% 39 78 0.00% 40 75 0.00% 41 79 0.00% 42 82 0.00% 43 87 0.00% 44 111 0.00% 45 89 0.00% 46 121 0.00% 47 110 0.00% 48 113 0.00% 49 108 0.00% 50 112 0.00% 51 84 0.00% 52 109 0.00% 53 143 0.00% 54 151 0.00% 55 149 0.00% 56 138 0.00% 57 173 0.00% 58 186 0.00% 59 152 0.00% 60 185 0.00% 61 190 0.00% 62 195 0.00% 63 187 0.00% 64 200 0.00% 65 221 0.00% 66 230 0.00% 67 204 0.00% 68 300 0.00% 69 276 0.00% 70 357 0.00% 71 331 0.00% 72 318 0.00% 73 425 0.00% 74 363 0.00% 75 443 0.00% 76 483 0.00% 77 528 0.00% 78 571 0.00% 79 690 0.00% 80 707 0.00% 81 796 0.00% 82 851 0.00% 83 946 0.00% 84 1088 0.00% 85 1139 0.00% 86 1181 0.00% 87 1286 0.00% 88 1479 0.00% 89 1573 0.00% 90 1767 0.00% 91 1923 0.00% 92 2109 0.01% 93 2187 0.01% 94 2407 0.01% 95 2634 0.01% 96 2945 0.01% 97 3005 0.01% 98 3298 0.01% 99 3478 0.01% 100 3871 0.01% 101 4109 0.01% 102 4446 0.01% 103 4804 0.01% 104 5068 0.01% 105 5450 0.01% 106 5727 0.01% 107 5973 0.01% 108 6300 0.02% 109 6703 0.02% 110 6986 0.02% 111 7580 0.02% 112 8210 0.02% 113 8602 0.02% 114 9043 0.02% 115 9605 0.02% 116 9928 0.02% 117 10479 0.03% 118 10667 0.03% 119 11210 0.03% 120 11764 0.03% 121 12231 0.03% 122 13168 0.03% 123 14058 0.03% 124 14976 0.04% 125 15200 0.04% 126 16027 0.04% 127 16230 0.04% 128 16898 0.04% 129 17512 0.04% 130 18133 0.04% 131 18899 0.05% 132 19989 0.05% 133 21097 0.05% 134 21977 0.05% 135 23292 0.06% 136 24117 0.06% 137 24499 0.06% 138 25330 0.06% 139 26044 0.06% 140 26792 0.06% 141 27654 0.07% 142 29089 0.07% 143 30057 0.07% 144 32560 0.08% 145 33959 0.08% 146 34580 0.08% 147 35202 0.08% 148 35974 0.09% 149 36767 0.09% 150 39167 0.09% 151 40675315 97.78% 41600300 reads passed initial QC criterion=sequence-density sequence-density=0.21 sequence-density-rank=1 fanout-score=3.29 fanout-score-rank=27 prefix-density=0.27 prefix-fanout=2.6 sequence=GATCTCGCCGAAG criterion=fanout-score sequence-density=0.03 sequence-density-rank=30 fanout-score=217.63 fanout-score-rank=1 prefix-density=0.46 prefix-fanout=14.6 sequence=GGCGGCGGCGAACCGCCCCCGTCGCCGCGATCCGAACACTTCACCGGACCATTCAATCGGTAGGAGCGACGGGCGGTGTGTACAAAGGGCAGGGACGTAGTCAACGCGAGCTGATGACTCGCGCTTACTAGGCATTCCTCGTTGAAGACCAACAATTGCAATGATCTATCCCCATCACGATGAAATTTCCCAAGATTACCCGGGCCTGTCGGCCAAGGCTATATACTCGTTGAATACATCAGTGTAGCGCGCGTGCGGCCCAGAACATCTAAGGGCATCACAGACCTGTTATTGCCTCAAACTTCCGTCGCCTAAACGGCGATAGTCCCTCTAAGAAGCTAGCTGCGGAGGGATGGCTCCGCATAGCTAGTTAGCAGGCTGAGGTCTCGTTCGTTAACGGAATTAACCAGACAAATCGCTCCACCAACTAAGAACGGCCATGCACCACCACCCATAGAATCAAGAAAGAGCTCTCAGTCTGTCAATCCTTGCTATGTCTGGACCTGGTAAG criterion=sequence-density sequence-density=0.53 sequence-density-rank=1 fanout-score=2.18 fanout-score-rank=31 prefix-density=0.54 prefix-fanout=2.1 sequence=CGGTTCCGGTTC criterion=fanout-score sequence-density=0.03 sequence-density-rank=33 fanout-score=558.90 fanout-score-rank=1 prefix-density=0.83 prefix-fanout=22.1 sequence=GCCGCCGCCCCTCGTCCTCTGTGTTCCTTCTCCGAGTTTCAGCCATGGGTAAGGAGAAGACTCACATCAACATCGTGGTCATTGGCCATGTCGACTCTGGCAAGTCGACCACCACTGGCCACCTGATCTACAAGCTTGGAGGTATTGACAAGCGTGTGATCGAGAGGTTCGAGAAGGAGGCTGC SRR7814944 testing PE reads STAR mapping to Ensembl genome Started job on | Dec 07 04:50:45 Started mapping on | Dec 07 04:50:45 Finished on | Dec 07 05:07:01 Mapping speed, Million of reads per hour | 153.44 Number of input reads | 41600300 Average input read length | 301 UNIQUE READS: Uniquely mapped reads number | 37550607 Uniquely mapped reads % | 90.27% Average mapped length | 300.11 Number of splices: Total | 37976314 Number of splices: Annotated (sjdb) | 35502524 Number of splices: GT/AG | 37490715 Number of splices: GC/AG | 428590 Number of splices: AT/AC | 26648 Number of splices: Non-canonical | 30361 Mismatch rate per base, % | 0.22% Deletion rate per base | 0.00% Deletion average length | 1.52 Insertion rate per base | 0.00% Insertion average length | 1.12 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 398392 % of reads mapped to multiple loci | 0.96% Number of reads mapped to too many loci | 46098 % of reads mapped to too many loci | 0.11% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 7.82% % of reads unmapped: other | 0.85% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 3651301 3651301 3651301 N_multimapping 398392 398392 398392 N_noFeature 1249458 36512834 1593058 N_ambiguous 823754 6603 129622 UnstrandedReadsAssigned:35477395 PositiveStrandReadsAssigned:1031170 NegativeStrandReadsAssigned:35827927 Dataset is classified negative stranded MeadianReadLen=151 20thPercentileLength=151 echo kmer=147 SRR7814944 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: SRR7814944-trimmed-pair1.fastq SRR7814944-trimmed-pair2.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 41,600,300 reads, 36,686,122 reads pseudoaligned [quant] estimated average fragment length: 324.132 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,124 rounds 52973 SRR7814944.ke.tsv 35125 SRR7814944.se.tsv 88098 total ==> SRR7814944.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 613.884 0 0 PNS24247 1044 720.868 227.892 11.9542 PNS24249 1928 1604.87 248.425 5.85334 PNS24246 1044 720.868 227.892 11.9542 PNS24248 1044 720.868 227.892 11.9542 PNS24244 1471 1147.87 498.9 16.435 PNS24243 293 70.2553 0 0 KQK14069 1603 1279.87 10238.7 302.503 KQK14071 474 190.715 53.6856 10.6444 ==> SRR7814944.se.tsv <== BRADI_1g14170v3 10490 BRADI_1g53295v3 401 BRADI_1g59795v3 1020 BRADI_1g07683v3 0 BRADI_1g00485v3 62 BRADI_1g20270v3 1482 BRADI_1g74790v3 441 BRADI_1g09890v3 0 BRADI_1g77505v3 489 BRADI_1g48960v3 0 SRR7814944 completed mapping pipeline successfully