Starting /dee2/code/volunteer_pipeline.sh SRR12670151 current disk space = 3055487553536 free memory = 1571827828 SRR12670151 SRAfilesize 78ecb2e4a87424631f19b8eb27c5baca SRR12670151.sra SRR12670151.sra file validated SRR12670151 is paired end SRR12670151 is conventional basespace SRR12670151 read1 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR12670151_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 45 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 36.668 37.0 37.0 37.0 37.0 37.0 2 36.49575 37.0 37.0 37.0 37.0 37.0 3 36.6225 37.0 37.0 37.0 37.0 37.0 4 36.6465 37.0 37.0 37.0 37.0 37.0 5 36.6755 37.0 37.0 37.0 37.0 37.0 6 36.649 37.0 37.0 37.0 37.0 37.0 7 36.55 37.0 37.0 37.0 37.0 37.0 8 36.641 37.0 37.0 37.0 37.0 37.0 9 36.589 37.0 37.0 37.0 37.0 37.0 10-14 36.596799999999995 37.0 37.0 37.0 37.0 37.0 15-19 36.5869 37.0 37.0 37.0 37.0 37.0 20-24 36.530100000000004 37.0 37.0 37.0 37.0 37.0 25-29 36.5274 37.0 37.0 37.0 37.0 37.0 30-34 36.4914 37.0 37.0 37.0 37.0 37.0 35-39 36.475 37.0 37.0 37.0 37.0 37.0 40-44 36.432900000000004 37.0 37.0 37.0 37.0 37.0 45-49 36.4451 37.0 37.0 37.0 37.0 37.0 50-54 36.444500000000005 37.0 37.0 37.0 37.0 37.0 55-59 36.3693 37.0 37.0 37.0 37.0 37.0 60-64 36.3365 37.0 37.0 37.0 37.0 37.0 65-69 36.3198 37.0 37.0 37.0 37.0 37.0 70-74 36.33449999999999 37.0 37.0 37.0 37.0 37.0 75-79 36.3085 37.0 37.0 37.0 37.0 37.0 80-84 36.333800000000004 37.0 37.0 37.0 37.0 37.0 85-89 36.307 37.0 37.0 37.0 37.0 37.0 90-94 36.285900000000005 37.0 37.0 37.0 37.0 37.0 95-99 36.2452 37.0 37.0 37.0 37.0 37.0 100-104 36.232000000000006 37.0 37.0 37.0 37.0 37.0 105-109 36.272800000000004 37.0 37.0 37.0 37.0 37.0 110-114 36.177800000000005 37.0 37.0 37.0 37.0 37.0 115-119 36.13349999999999 37.0 37.0 37.0 37.0 37.0 120-124 36.04600000000001 37.0 37.0 37.0 37.0 37.0 125-129 36.007600000000004 37.0 37.0 37.0 37.0 37.0 130-134 35.942699999999995 37.0 37.0 37.0 37.0 37.0 135-139 35.7842 37.0 37.0 37.0 37.0 37.0 140-144 35.5641 37.0 37.0 37.0 37.0 37.0 145-149 35.51469999999999 37.0 37.0 37.0 37.0 37.0 150-151 35.20425 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 1.0 24 1.0 25 1.0 26 3.0 27 6.0 28 17.0 29 15.0 30 30.0 31 32.0 32 43.0 33 51.0 34 131.0 35 359.0 36 2918.0 37 390.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 37.15 12.125 6.0249999999999995 44.7 2 18.02252816020025 11.364205256570713 38.423028785982474 32.19023779724656 3 17.474999999999998 16.075 26.875 39.574999999999996 4 21.975 24.075 24.099999999999998 29.849999999999998 5 24.075 29.45 24.825 21.65 6 19.625 35.55 24.675 20.150000000000002 7 14.524999999999999 25.8 40.8 18.875 8 18.075 24.55 32.300000000000004 25.074999999999996 9 17.375 21.8 36.525 24.3 10-14 19.81 30.130000000000003 27.515 22.545 15-19 20.195 27.625 28.09 24.09 20-24 20.49 27.634999999999998 27.77 24.104999999999997 25-29 20.385 28.549999999999997 27.38 23.685000000000002 30-34 20.23 28.29 27.195000000000004 24.285 35-39 20.915 28.215 27.439999999999998 23.43 40-44 19.985 28.65 27.41 23.955000000000002 45-49 20.69 28.26 27.634999999999998 23.415 50-54 21.035 28.575 27.015 23.375 55-59 20.419999999999998 28.4 27.66 23.52 60-64 20.380000000000003 27.865000000000002 27.99 23.765 65-69 20.925 27.33 27.915 23.830000000000002 70-74 20.54 28.560000000000002 27.275 23.625 75-79 20.345 28.050000000000004 27.625 23.98 80-84 20.885 27.689999999999998 28.065 23.36 85-89 21.445 28.03 27.755000000000003 22.770000000000003 90-94 21.990000000000002 28.610000000000003 26.540000000000003 22.86 95-99 20.995 28.305000000000003 26.815 23.885 100-104 21.855 28.43 26.16 23.555 105-109 21.43 28.810000000000002 25.94 23.82 110-114 21.45 27.944999999999997 26.39 24.215 115-119 21.91 28.139999999999997 25.674999999999997 24.275 120-124 20.64 28.64 26.145000000000003 24.575 125-129 20.86 28.71 25.09 25.34 130-134 21.315 28.439999999999998 25.105 25.14 135-139 21.64 27.634999999999998 25.615 25.11 140-144 21.89 26.790000000000003 25.314999999999998 26.005 145-149 21.845 26.805 26.255 25.095 150-151 21.875 26.200000000000003 25.650000000000002 26.275 >>END_MODULE >>Per sequence GC content pass #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 0.5 16 0.5 17 0.5 18 1.0 19 2.0 20 1.5 21 1.0 22 1.0 23 0.5 24 1.0 25 1.5 26 2.5 27 3.0 28 6.0 29 9.5 30 14.5 31 27.5 32 26.5 33 24.0 34 43.0 35 61.5 36 73.5 37 97.0 38 125.5 39 143.5 40 165.0 41 207.5 42 240.5 43 249.0 44 271.5 45 281.5 46 274.0 47 259.0 48 232.5 49 218.5 50 195.0 51 158.0 52 121.5 53 95.5 54 91.0 55 83.0 56 59.5 57 37.0 58 25.5 59 20.0 60 17.0 61 12.0 62 5.5 63 3.0 64 1.5 65 3.0 66 3.0 67 1.0 68 0.5 69 0.0 70 0.0 71 0.0 72 0.0 73 0.0 74 0.0 75 0.0 76 0.0 77 0.0 78 0.0 79 0.0 80 0.0 81 0.0 82 0.0 83 0.0 84 0.0 85 0.0 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 0.0 2 0.125 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 79.05 #Duplication Level Percentage of deduplicated Percentage of total 1 80.48703352308665 63.625 2 14.389626818469322 22.75 3 3.826691967109425 9.075 4 0.8222643896268185 2.6 5 0.41113219481340924 1.625 6 0.031625553447185324 0.15 7 0.031625553447185324 0.17500000000000002 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 GGCCCTTATTGGGATCCATGTACACAGCGCCAATTGATGACGTGAACACC 7 0.17500000000000002 No Hit CTCCCATTCCCTTAGCGGGGTCAGTCAGAATTAACTCAGCTCCAAAAGCT 6 0.15 No Hit CCCTCACCAAGCTCCCAATGGTATTCACAGCTAACTTCAAATCCTCCAAG 5 0.125 No Hit GCCCGATTCAGCATCCGAATCCAGAAGCTAAAAACAAAAACAAAGTAGAA 5 0.125 No Hit AGCAGTAGCATGAAGGCTAGTTTTTGTAACAGCATCAAATCCTCCTGAAG 5 0.125 No Hit GTATAATAGGTTTTGAGCATGATCAGAAGGGAAACTACTTGGGGAAAACA 5 0.125 No Hit ATCAGCAACCACTTCTTTGTCAAGGTTCTTTATGTACAGAACAGATGCAG 5 0.125 No Hit TGGCTCACCTTCAGGGCAGCGATTTGCCATCCATTTAAAGATAGGAGGGA 5 0.125 No Hit CTCATTTATATTGCTTTTCGTTTAGCTGAACCTAATCATCTCCAAACATC 5 0.125 No Hit GGCTAACCATTTTGGCTCAATGAAACCTCCTGTGCCTTCAGGGTCTGAAA 5 0.125 No Hit CTTTGATTCATTAACCAGCCTTTTCAAGATTGCACGGTTAGCTAGCCTCC 5 0.125 No Hit CTTTGAAACAGGTAGACCTAAGGCTTTTGCGTTCACAATACTTGGACTTG 5 0.125 No Hit CCTGACCTCATCAGCAGTAGCAGGAGGTTGTCCCTGTCCCTGTTGTTGCT 5 0.125 No Hit CCTCGGCCCAGCCAATAAAGAATAACTCAACAATGAAGAGTGTGGTGGTG 5 0.125 No Hit AACCAAACATCCATGACATACAAAAAGTGTAGCCACATAAACACACAGCC 5 0.125 No Hit >>END_MODULE >>Adapter Content fail #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 0.0125 0.0 0.0 0.0 0.0 50-51 0.0625 0.0 0.0 0.0 0.0 52-53 0.1 0.0 0.0 0.0 0.0 54-55 0.1 0.0 0.0 0.0 0.0 56-57 0.1 0.0 0.0 0.0 0.0 58-59 0.1 0.0 0.0 0.0 0.0 60-61 0.225 0.0 0.0 0.0 0.0 62-63 0.3 0.0 0.0 0.0 0.0 64-65 0.325 0.0 0.0 0.0 0.0 66-67 0.3375 0.0 0.0 0.0 0.0 68-69 0.4375 0.0 0.0 0.0 0.0 70-71 0.675 0.0 0.0 0.0 0.0 72-73 0.875 0.0 0.0 0.0 0.0 74-75 1.0375 0.0 0.0 0.0 0.0 76-77 1.3125 0.0 0.0 0.0 0.0 78-79 1.525 0.0 0.0 0.0 0.0 80-81 1.8625 0.0 0.0 0.0 0.0 82-83 2.5125 0.0 0.0 0.0 0.0 84-85 3.0875000000000004 0.0 0.0 0.0 0.0 86-87 3.7249999999999996 0.0 0.0 0.0 0.0 88-89 4.375 0.0 0.0 0.0 0.0 90-91 5.275 0.0 0.0 0.0 0.0 92-93 6.3125 0.0 0.0 0.0 0.0 94-95 7.125 0.0 0.0 0.0 0.0 96-97 8.274999999999999 0.0 0.0 0.0 0.0 98-99 9.337499999999999 0.0 0.0 0.0 0.0 100-101 10.212499999999999 0.0 0.0 0.0 0.0 102-103 11.1875 0.0 0.0 0.0 0.0 104-105 12.3875 0.0 0.0 0.0 0.0 106-107 13.6375 0.0 0.0 0.0 0.0 108-109 14.725000000000001 0.0 0.0 0.0 0.0 110-111 15.975000000000001 0.0 0.0 0.0 0.0 112-113 17.05 0.0 0.0 0.0 0.0 114-115 18.200000000000003 0.0 0.0 0.0 0.0 116-117 19.025 0.0 0.0 0.0 0.0 118-119 19.9375 0.0 0.0 0.0 0.0 120-121 20.862499999999997 0.0 0.0 0.0 0.0 122-123 21.875 0.0 0.0 0.0 0.0 124-125 23.549999999999997 0.0 0.0 0.0 0.0 126-127 24.5375 0.0 0.0 0.0 0.0 128-129 25.6875 0.0 0.0 0.0 0.0 130-131 26.987499999999997 0.0 0.0 0.0 0.0 132-133 27.9 0.0 0.0 0.0 0.0 134-135 28.7125 0.0 0.0 0.0 0.0 136-137 29.875 0.0 0.0 0.0 0.0 138-139 31.0375 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position CTGGGAT 10 0.006830828 145.0 145 GGGGGGG 55 4.8029233E-6 26.363638 145 >>END_MODULE SRR12670151 read2 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR12670151_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 45 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 36.3845 37.0 37.0 37.0 37.0 37.0 2 36.236 37.0 37.0 37.0 37.0 37.0 3 36.21 37.0 37.0 37.0 37.0 37.0 4 36.3075 37.0 37.0 37.0 37.0 37.0 5 36.406 37.0 37.0 37.0 37.0 37.0 6 36.404 37.0 37.0 37.0 37.0 37.0 7 36.337 37.0 37.0 37.0 37.0 37.0 8 36.4675 37.0 37.0 37.0 37.0 37.0 9 36.355 37.0 37.0 37.0 37.0 37.0 10-14 36.4043 37.0 37.0 37.0 37.0 37.0 15-19 36.4473 37.0 37.0 37.0 37.0 37.0 20-24 36.392700000000005 37.0 37.0 37.0 37.0 37.0 25-29 36.404799999999994 37.0 37.0 37.0 37.0 37.0 30-34 36.297799999999995 37.0 37.0 37.0 37.0 37.0 35-39 36.2824 37.0 37.0 37.0 37.0 37.0 40-44 36.2707 37.0 37.0 37.0 37.0 37.0 45-49 36.2669 37.0 37.0 37.0 37.0 37.0 50-54 36.2772 37.0 37.0 37.0 37.0 37.0 55-59 36.267399999999995 37.0 37.0 37.0 37.0 37.0 60-64 36.196600000000004 37.0 37.0 37.0 37.0 37.0 65-69 36.2072 37.0 37.0 37.0 37.0 37.0 70-74 36.1964 37.0 37.0 37.0 37.0 37.0 75-79 36.1767 37.0 37.0 37.0 37.0 37.0 80-84 36.125099999999996 37.0 37.0 37.0 37.0 37.0 85-89 36.0692 37.0 37.0 37.0 37.0 37.0 90-94 36.0605 37.0 37.0 37.0 37.0 37.0 95-99 35.9794 37.0 37.0 37.0 37.0 37.0 100-104 35.9442 37.0 37.0 37.0 37.0 37.0 105-109 35.8005 37.0 37.0 37.0 37.0 37.0 110-114 35.7616 37.0 37.0 37.0 37.0 37.0 115-119 35.704899999999995 37.0 37.0 37.0 37.0 37.0 120-124 35.5482 37.0 37.0 37.0 37.0 37.0 125-129 35.3441 37.0 37.0 37.0 34.6 37.0 130-134 35.018 37.0 37.0 37.0 27.4 37.0 135-139 34.775099999999995 37.0 37.0 37.0 25.0 37.0 140-144 34.3775 37.0 37.0 37.0 25.0 37.0 145-149 33.983799999999995 37.0 37.0 37.0 25.0 37.0 150-151 33.615 37.0 37.0 37.0 18.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 12 2.0 13 3.0 14 1.0 15 1.0 16 0.0 17 0.0 18 0.0 19 0.0 20 1.0 21 0.0 22 1.0 23 0.0 24 5.0 25 6.0 26 6.0 27 16.0 28 8.0 29 15.0 30 23.0 31 60.0 32 81.0 33 128.0 34 258.0 35 586.0 36 2488.0 37 311.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 35.85 22.025 10.325 31.8 2 26.474999999999998 26.1 30.775000000000002 16.650000000000002 3 18.975 27.975 32.6 20.45 4 21.8 34.75 23.75 19.7 5 25.1 36.275 22.05 16.575 6 20.625 40.0 22.15 17.224999999999998 7 19.025 22.2 39.1 19.675 8 19.475 25.900000000000002 29.4 25.224999999999998 9 23.05 24.85 29.875 22.225 10-14 22.86 28.965000000000003 27.034999999999997 21.14 15-19 22.55 28.144999999999996 27.445000000000004 21.86 20-24 22.945 28.23 27.655 21.17 25-29 22.994999999999997 28.22 27.76 21.025 30-34 23.175 28.9 27.560000000000002 20.365 35-39 22.875 27.915 27.79 21.42 40-44 22.545 27.845 28.305000000000003 21.305 45-49 23.07 27.93 27.884999999999998 21.115000000000002 50-54 22.88 27.915 28.13 21.075 55-59 23.105 27.93 27.505000000000003 21.46 60-64 23.18 27.35 28.405 21.065 65-69 23.21 27.55 28.405 20.835 70-74 23.3 27.584999999999997 27.689999999999998 21.425 75-79 23.380000000000003 27.939999999999998 27.77 20.91 80-84 24.27 28.110000000000003 26.715 20.905 85-89 24.759999999999998 27.339999999999996 27.555000000000003 20.345 90-94 24.3 28.375 27.095000000000002 20.23 95-99 24.7 28.48 26.505000000000003 20.315 100-104 25.415 28.439999999999998 25.869999999999997 20.275000000000002 105-109 26.119999999999997 27.115000000000002 26.61 20.155 110-114 26.575 27.834999999999997 26.369999999999997 19.220000000000002 115-119 26.729999999999997 28.355000000000004 25.755 19.16 120-124 28.065 27.860000000000003 25.72 18.355 125-129 28.050000000000004 28.12 25.119999999999997 18.709999999999997 130-134 28.134999999999998 27.46 25.915 18.490000000000002 135-139 29.37 27.37 25.115 18.145 140-144 30.12 25.44 26.145000000000003 18.295 145-149 31.075000000000003 25.715 25.005 18.205 150-151 32.300000000000004 26.325 24.3 17.075000000000003 >>END_MODULE >>Per sequence GC content pass #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 1.0 21 1.0 22 0.0 23 1.0 24 2.0 25 2.5 26 3.0 27 4.0 28 5.5 29 12.5 30 18.5 31 20.5 32 27.0 33 37.0 34 48.5 35 63.5 36 79.5 37 111.0 38 143.0 39 157.0 40 198.5 41 231.5 42 233.5 43 257.5 44 279.0 45 279.0 46 261.0 47 244.5 48 223.0 49 205.0 50 174.5 51 146.5 52 112.5 53 86.0 54 94.0 55 76.0 56 48.0 57 26.5 58 18.0 59 16.0 60 17.5 61 10.5 62 2.5 63 2.5 64 3.0 65 2.0 66 1.5 67 1.5 68 0.5 69 0.5 70 0.5 71 0.5 72 0.5 73 1.0 74 1.0 75 0.0 76 0.5 77 0.5 78 0.0 79 0.0 80 0.0 81 0.0 82 0.0 83 0.0 84 0.0 85 0.0 86 0.0 87 0.0 88 0.5 89 1.0 90 0.5 91 0.0 92 0.5 93 0.5 94 0.0 95 0.0 96 0.0 97 0.0 98 0.0 99 0.5 100 1.0 >>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 78.925 #Duplication Level Percentage of deduplicated Percentage of total 1 80.93126385809313 63.87500000000001 2 13.84225530566994 21.85 3 3.7694013303769403 8.924999999999999 4 0.9819448843839088 3.1 5 0.2850807728856509 1.125 6 0.06335128286347799 0.3 7 0.06335128286347799 0.35000000000000003 8 0.0 0.0 9 0.031675641431738996 0.22499999999999998 >10 0.031675641431738996 0.25 >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 AGAACACATTCATACTCCAAGTCTTTTAGTTCATCCATTTAAGCTTAATC 10 0.25 No Hit CAGAGAACACATTCATACTCCAAGTCTTTTAGTTCATCCATTTAAGCTTA 9 0.22499999999999998 No Hit AGTCACCATTCGTGTCCTCAAGGAAAAGCTCTTTTGTTGTTAGAGCAGCT 7 0.17500000000000002 No Hit ACTGCTTCTCCTGTCACAGATGATCCGGAAGAAATGGTGGAGCCAGCAGT 7 0.17500000000000002 No Hit CCGGCATTGGCAATGATAGAAGATGCAGAAAAGAAGAACTTGATTGCTCC 6 0.15 No Hit AGAGAACACATTCATACTCCAAGTCTTTTAGTTCATCCATTTAAGCTTAA 6 0.15 No Hit GTTCATTGTTTAAGAGAGACTAATACGGTGCTAAGAAGATATTTCAAAGA 5 0.125 No Hit CTAAGATGGAATGTGCAAGCAGAACTTGTTCACTGTAGATGGGCAATGTT 5 0.125 No Hit CGTCAGCTGCTGCTGGCTCATATGATTCTGTAGCCGGGTATGCTGGGATT 5 0.125 No Hit CCTTGTATCTTTATGGGTATTTTTGTGTGGGTCAGGATTTGTTCTTTGTT 5 0.125 No Hit GGTAGAATGTGCGCGGAGGCAATAGTTGAGGGTTCTGGAAATGGCAAGAG 5 0.125 No Hit GCTCAAACCCAACCTCCACCACCACACATGTGGGCTCAACATCAGGCCCA 5 0.125 No Hit GAAATAGAGAGTAAAAGGCTCGTTCCAGAGGAAATTTTATCACTTCCAAA 5 0.125 No Hit TTTTCACTTTGCCTTGTCTGTAATTTTAAACGTATTTTTAATCCGGTCAA 5 0.125 No Hit GATTTGACCGAGGTCATTAAGGCTTTCCATGGCCAATCAGTGTGGGGCGA 5 0.125 No Hit >>END_MODULE >>Adapter Content fail #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 0.0125 0.0 0.0 0.0 0.0 50-51 0.0625 0.0 0.0 0.0 0.0 52-53 0.1 0.0 0.0 0.0 0.0 54-55 0.1 0.0 0.0 0.0 0.0 56-57 0.1 0.0 0.0 0.0 0.0 58-59 0.1125 0.0 0.0 0.0 0.0 60-61 0.25 0.0 0.0 0.0 0.0 62-63 0.325 0.0 0.0 0.0 0.0 64-65 0.35 0.0 0.0 0.0 0.0 66-67 0.3625 0.0 0.0 0.0 0.0 68-69 0.4625 0.0 0.0 0.0 0.0 70-71 0.7 0.0 0.0 0.0 0.0 72-73 0.8999999999999999 0.0 0.0 0.0 0.0 74-75 1.0625 0.0 0.0 0.0 0.0 76-77 1.3375 0.0 0.0 0.0 0.0 78-79 1.5499999999999998 0.0 0.0 0.0 0.0 80-81 1.8875 0.0 0.0 0.0 0.0 82-83 2.5374999999999996 0.0 0.0 0.0 0.0 84-85 3.15 0.0 0.0 0.0 0.0 86-87 3.8 0.0 0.0 0.0 0.0 88-89 4.45 0.0 0.0 0.0 0.0 90-91 5.35 0.0 0.0 0.0 0.0 92-93 6.3875 0.0 0.0 0.0 0.0 94-95 7.2 0.0 0.0 0.0 0.0 96-97 8.375 0.0 0.0 0.0 0.0 98-99 9.425 0.0 0.0 0.0 0.0 100-101 10.2625 0.0 0.0 0.0 0.0 102-103 11.2375 0.0 0.0 0.0 0.0 104-105 12.45 0.0 0.0 0.0 0.0 106-107 13.7 0.0 0.0 0.0 0.0 108-109 14.7625 0.0 0.0 0.0 0.0 110-111 16.0 0.0 0.0 0.0 0.0 112-113 17.125 0.0 0.0 0.0 0.0 114-115 18.299999999999997 0.0 0.0 0.0 0.0 116-117 19.125 0.0 0.0 0.0 0.0 118-119 20.0625 0.0 0.0 0.0 0.0 120-121 20.987499999999997 0.0 0.0 0.0 0.0 122-123 22.0 0.0 0.0 0.0 0.0 124-125 23.65 0.0 0.0 0.0 0.0 126-127 24.6625 0.0 0.0 0.0 0.0 128-129 25.825 0.0 0.0 0.0 0.0 130-131 27.15 0.0 0.0 0.0 0.0 132-133 28.075 0.0 0.0 0.0 0.0 134-135 28.9 0.0 0.0 0.0 0.0 136-137 30.0625 0.0 0.0 0.0 0.0 138-139 31.25 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position ATTGAAA 10 0.006830828 145.0 5 >>END_MODULE Read 658031 spots for SRR12670151.sra Written 658031 spots for SRR12670151.sra Read 658031 spots for SRR12670151.sra Written 658031 spots for SRR12670151.sra Read 658031 spots for SRR12670151.sra Written 658031 spots for SRR12670151.sra Read 658031 spots for SRR12670151.sra Written 658031 spots for SRR12670151.sra Read 658031 spots for SRR12670151.sra Written 658031 spots for SRR12670151.sra Read 658031 spots for SRR12670151.sra Written 658031 spots for SRR12670151.sra Read 658031 spots for SRR12670151.sra Written 658031 spots for SRR12670151.sra Read 658031 spots for SRR12670151.sra Written 658031 spots for SRR12670151.sra Read 658031 spots for SRR12670151.sra Written 658031 spots for SRR12670151.sra Read 658031 spots for SRR12670151.sra Written 658031 spots for SRR12670151.sra Read 658031 spots for SRR12670151.sra Written 658031 spots for SRR12670151.sra Read 658031 spots for SRR12670151.sra Written 658031 spots for SRR12670151.sra Read 658031 spots for SRR12670151.sra Written 658031 spots for SRR12670151.sra Read 658031 spots for SRR12670151.sra Written 658031 spots for SRR12670151.sra Read 658031 spots for SRR12670151.sra Written 658031 spots for SRR12670151.sra Read 658031 spots for SRR12670151.sra Written 658031 spots for SRR12670151.sra Read 658031 spots for SRR12670151.sra Written 658031 spots for SRR12670151.sra Read 658031 spots for SRR12670151.sra Written 658031 spots for SRR12670151.sra Read 658031 spots for SRR12670151.sra Written 658031 spots for SRR12670151.sra Read 658031 spots for SRR12670151.sra Written 658031 spots for SRR12670151.sra SRR ids: ['SRR12670151.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_lmjdxf0o SRR12670151.sra spots: 13160620 blocks: [[1, 658031], [658032, 1316062], [1316063, 1974093], [1974094, 2632124], [2632125, 3290155], [3290156, 3948186], [3948187, 4606217], [4606218, 5264248], [5264249, 5922279], [5922280, 6580310], [6580311, 7238341], [7238342, 7896372], [7896373, 8554403], [8554404, 9212434], [9212435, 9870465], [9870466, 10528496], [10528497, 11186527], [11186528, 11844558], [11844559, 12502589], [12502590, 13160620]] SRR12670151 file size 4450854 SRR12670151 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 SRR12670151 SRR12670151_1.fastq SRR12670151_2.fastq Input file: SRR12670151_1.fastq Paired file: SRR12670151_2.fastq trimmed: SRR12670151-trimmed-pair1.fastq, SRR12670151-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 Tue Feb 11 04:35:50 2025 >> started Tue Feb 11 04:44:01 2025 >> done (491.568s) 13160620 read pairs processed; of these: 76 ( 0.00%) short read pairs filtered out after trimming by size control 5866 ( 0.04%) empty read pairs filtered out after trimming by size control 13154678 (99.95%) read pairs available; of these: 4630927 (35.20%) trimmed read pairs available after processing 8523751 (64.80%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 18 6 0.00% 19 10 0.00% 20 6 0.00% 21 9 0.00% 22 12 0.00% 23 9 0.00% 24 19 0.00% 25 37 0.00% 26 31 0.00% 27 33 0.00% 28 50 0.00% 29 65 0.00% 30 61 0.00% 31 88 0.00% 32 89 0.00% 33 118 0.00% 34 127 0.00% 35 159 0.00% 36 126 0.00% 37 210 0.00% 38 215 0.00% 39 244 0.00% 40 267 0.00% 41 313 0.00% 42 342 0.00% 43 354 0.00% 44 381 0.00% 45 427 0.00% 46 512 0.00% 47 613 0.00% 48 733 0.01% 49 867 0.01% 50 1018 0.01% 51 1181 0.01% 52 1379 0.01% 53 1364 0.01% 54 1567 0.01% 55 1571 0.01% 56 1808 0.01% 57 2182 0.02% 58 2560 0.02% 59 3110 0.02% 60 3570 0.03% 61 4212 0.03% 62 4769 0.04% 63 5043 0.04% 64 5513 0.04% 65 5883 0.04% 66 6632 0.05% 67 7374 0.06% 68 8291 0.06% 69 9202 0.07% 70 10906 0.08% 71 12109 0.09% 72 13513 0.10% 73 15286 0.12% 74 16899 0.13% 75 18091 0.14% 76 19322 0.15% 77 20678 0.16% 78 21766 0.17% 79 24152 0.18% 80 25834 0.20% 81 28885 0.22% 82 31390 0.24% 83 33190 0.25% 84 36515 0.28% 85 38556 0.29% 86 40474 0.31% 87 41479 0.32% 88 43464 0.33% 89 44344 0.34% 90 46463 0.35% 91 49307 0.37% 92 50779 0.39% 93 53812 0.41% 94 55638 0.42% 95 58297 0.44% 96 59042 0.45% 97 60120 0.46% 98 60554 0.46% 99 61038 0.46% 100 62008 0.47% 101 62644 0.48% 102 64510 0.49% 103 65530 0.50% 104 66543 0.51% 105 67786 0.52% 106 68609 0.52% 107 68809 0.52% 108 68651 0.52% 109 68660 0.52% 110 67800 0.52% 111 67774 0.52% 112 68981 0.52% 113 68643 0.52% 114 69644 0.53% 115 70459 0.54% 116 71665 0.54% 117 71863 0.55% 118 71810 0.55% 119 70537 0.54% 120 70794 0.54% 121 70598 0.54% 122 70165 0.53% 123 70189 0.53% 124 70338 0.53% 125 69716 0.53% 126 71191 0.54% 127 70229 0.53% 128 70269 0.53% 129 69424 0.53% 130 69640 0.53% 131 68009 0.52% 132 67868 0.52% 133 67860 0.52% 134 66758 0.51% 135 67064 0.51% 136 67247 0.51% 137 67121 0.51% 138 66854 0.51% 139 67492 0.51% 140 65887 0.50% 141 66238 0.50% 142 65510 0.50% 143 64158 0.49% 144 65641 0.50% 145 64154 0.49% 146 63938 0.49% 147 64059 0.49% 148 65227 0.50% 149 63256 0.48% 150 64442 0.49% 151 8523751 64.80% 13154678 reads passed initial QC criterion=sequence-density sequence-density=0.62 sequence-density-rank=1 fanout-score=1.94 fanout-score-rank=26 prefix-density=0.62 prefix-fanout=1.9 sequence=TGTCGCAGGTGCTAGACATGATGATTGATTGATTAAGCTTAAATGGATGAACTAAAAGACTTGGAGTATGAATGTGTTCTCTGTGTAGC criterion=fanout-score sequence-density=0.02 sequence-density-rank=26 fanout-score=25.51 fanout-score-rank=1 prefix-density=0.07 prefix-fanout=6.4 sequence=ACCACACCAGAGGCCACAGACATGGCCAATACATAACAATGAAGAAGACACAAAGATAAAGACACTCACGGACACTTTTGTTTGTTCACTCCACACCCACAAGTACAGAAGAACACAGATTATTTATCAGAAATTACATTATTAATCCACTCCCAATCCCACATCAAACATGATAGTTGATGTGCTTGCTTAATGACCGCATGTGCAGGTAGTGCAAGTGCAGCCAGTACCGCAGTTGCACTTGCCATCGTTCTCAGCTGCTGGCACCTCCATGACTACGGAGGAGACATAGTTCTTCTCAGTCTCGACGATGCCAGCAGTGTAGCTGCTTCCCTTCTTGACACACTGGGTCTTGTCAGCGCAGTCGCAG criterion=sequence-density sequence-density=1.03 sequence-density-rank=1 fanout-score=1.98 fanout-score-rank=27 prefix-density=1.02 prefix-fanout=2.0 sequence=CTGCGACTGCGCTGACAAGACCCAGTGTGTCAAGAAGGGAAGCAGCTACACTGCTGGCATCGTCGAGACTGAGAAGAACTATGTCTCCTCCGTAGTCATGGAGGTGCCAGCAGCTGAGAACGATGGCAAGTGCAACTGCGGTACTGGCTGCACTTGCACTACCTGCACATGCGGTCATTAAGCAAGCACATCAACTATCATGTTTGATGTGGGATTGGGAGTGGATTAATAATGTAATTTCTGATAAATAATCTGTGTTCTTCTGTACTTGTGGGTGTGGAGTGAACAAACAAAAGTGTCCGTGAGTGTCTTTATCTTTGTGTCTTCTTCATTGTTATGTATTGGCCATGTCTGTGGCCTCTGGTGTGGT criterion=fanout-score sequence-density=0.13 sequence-density-rank=22 fanout-score=17.12 fanout-score-rank=1 prefix-density=0.48 prefix-fanout=4.6 sequence=AATGGCAGCCTCAGTTATGGCTTCACTGAACCTGAAACCATCTCCATTCACGGTTGAGAAGTCTTCAGTGAGAGGCCTCCCAACTCTTTCAAGGAGATCTTTCAAGATTGAAGCCAGTGGTGTCAAGAAGATCAAGACCGATACGCCTTATGGAACTGGTGGTGGCATGAACCT SRR12670151 testing PE reads STAR mapping to Ensembl genome Started job on | Feb 11 05:47:50 Started mapping on | Feb 11 05:48:09 Finished on | Feb 11 07:33:14 Mapping speed, Million of reads per hour | 7.51 Number of input reads | 13154678 Average input read length | 276 UNIQUE READS: Uniquely mapped reads number | 12389019 Uniquely mapped reads % | 94.18% Average mapped length | 275.43 Number of splices: Total | 11417752 Number of splices: Annotated (sjdb) | 11166414 Number of splices: GT/AG | 11176692 Number of splices: GC/AG | 191082 Number of splices: AT/AC | 6587 Number of splices: Non-canonical | 43391 Mismatch rate per base, % | 0.36% Deletion rate per base | 0.03% Deletion average length | 2.80 Insertion rate per base | 0.02% Insertion average length | 2.29 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 299714 % of reads mapped to multiple loci | 2.28% Number of reads mapped to too many loci | 119367 % of reads mapped to too many loci | 0.91% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 2.36% % of reads unmapped: other | 0.28% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 465945 465945 465945 N_multimapping 299714 299714 299714 N_noFeature 534294 12175726 646715 N_ambiguous 176397 813 74910 UnstrandedReadsAssigned:11678328 PositiveStrandReadsAssigned:212480 NegativeStrandReadsAssigned:11667394 Dataset is classified negative stranded MeadianReadLen=151 20thPercentileLength=121 echo kmer=117 SRR12670151 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: 52,400 [index] number of k-mers: 62,057,036 [index] number of equivalence classes: 130,681 [quant] running in paired-end mode [quant] will process pair 1: SRR12670151-trimmed-pair1.fastq SRR12670151-trimmed-pair2.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 13,154,678 reads, 11,755,195 reads pseudoaligned [quant] estimated average fragment length: 188.85 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,141 rounds 52401 SRR12670151.ke.tsv 34699 SRR12670151.se.tsv 87100 total ==> SRR12670151.ke.tsv <== target_id length eff_length est_counts tpm Potri.005G200100.1.v4.1 2018 1830.15 586 27.8637 Potri.005G024800.1.v4.1 1035 847.15 249 25.578 Potri.004G059700.1.v4.1 961 773.224 0 0 Potri.007G009000.2.v4.1 1416 1228.15 0 0 Potri.003G141000.2.v4.1 2943 2755.15 780 24.6364 Potri.016G087400.1.v4.1 270 118.783 544 398.541 Potri.015G069301.1.v4.1 564 382.572 0 0 Potri.010G195200.1.v4.1 1773 1585.15 25 1.37245 Potri.012G127500.1.v4.1 977 789.192 68 7.49814 ==> SRR12670151.se.tsv <== Potri.001G166300.v4.1 0 Potri.001G448400.v4.1 66 Potri.001G233950.v4.1 0 Potri.001G122700.v4.1 162 Potri.001G212900.v4.1 1 Potri.001G182400.v4.1 0 Potri.001G256600.v4.1 0 Potri.001G040500.v4.1 18 Potri.001G416900.v4.1 0 Potri.001G452600.v4.1 0 SRR12670151 completed mapping pipeline successfully