Starting /dee2/code/volunteer_pipeline.sh ERR5052706 current disk space = 1525841612800 free memory = 1602356880 ERR5052706 SRAfilesize 49565f307b83f747db24e3db05e1a907 ERR5052706.sra ERR5052706.sra file validated ERR5052706 is paired end ERR5052706 is conventional basespace ERR5052706 read1 length is 70 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR5052706_1.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 70 %GC 49 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 34.22525 35.0 35.0 35.0 35.0 35.0 2 34.5755 35.0 35.0 35.0 35.0 35.0 3 34.66275 35.0 35.0 35.0 35.0 35.0 4 34.6785 35.0 35.0 35.0 35.0 35.0 5 34.67 35.0 35.0 35.0 35.0 35.0 6 39.494 40.0 40.0 40.0 39.0 40.0 7 39.48975 40.0 40.0 40.0 39.0 40.0 8 39.45025 40.0 40.0 40.0 39.0 40.0 9 39.515 40.0 40.0 40.0 39.0 40.0 10 39.50725 40.0 40.0 40.0 39.0 40.0 11 39.48725 40.0 40.0 40.0 39.0 40.0 12 39.47475 40.0 40.0 40.0 39.0 40.0 13 39.49875 40.0 40.0 40.0 39.0 40.0 14 39.4585 40.0 40.0 40.0 39.0 40.0 15 39.4875 40.0 40.0 40.0 39.0 40.0 16 39.46 40.0 40.0 40.0 39.0 40.0 17 39.4595 40.0 40.0 40.0 39.0 40.0 18 39.4675 40.0 40.0 40.0 39.0 40.0 19 39.46475 40.0 40.0 40.0 39.0 40.0 20 39.47175 40.0 40.0 40.0 39.0 40.0 21 39.4805 40.0 40.0 40.0 39.0 40.0 22 39.49125 40.0 40.0 40.0 39.0 40.0 23 39.3855 40.0 40.0 40.0 39.0 40.0 24 39.401 40.0 40.0 40.0 39.0 40.0 25 39.4555 40.0 40.0 40.0 39.0 40.0 26 39.4145 40.0 40.0 40.0 39.0 40.0 27 39.467 40.0 40.0 40.0 39.0 40.0 28 39.46025 40.0 40.0 40.0 39.0 40.0 29 39.435 40.0 40.0 40.0 39.0 40.0 30 39.42925 40.0 40.0 40.0 39.0 40.0 31 39.40225 40.0 40.0 40.0 39.0 40.0 32 39.384 40.0 40.0 40.0 39.0 40.0 33 39.39525 40.0 40.0 40.0 39.0 40.0 34 39.39525 40.0 40.0 40.0 39.0 40.0 35 39.37475 40.0 40.0 40.0 39.0 40.0 36 39.3815 40.0 40.0 40.0 39.0 40.0 37 39.44075 40.0 40.0 40.0 39.0 40.0 38 39.393 40.0 40.0 40.0 39.0 40.0 39 39.3845 40.0 40.0 40.0 39.0 40.0 40 39.39925 40.0 40.0 40.0 39.0 40.0 41 39.387 40.0 40.0 40.0 39.0 40.0 42 39.38925 40.0 40.0 40.0 39.0 40.0 43 39.38475 40.0 40.0 40.0 39.0 40.0 44 39.44775 40.0 40.0 40.0 39.0 40.0 45 39.41825 40.0 40.0 40.0 39.0 40.0 46 39.39075 40.0 40.0 40.0 39.0 40.0 47 39.431 40.0 40.0 40.0 39.0 40.0 48 39.4225 40.0 40.0 40.0 39.0 40.0 49 39.4455 40.0 40.0 40.0 39.0 40.0 50 39.42575 40.0 40.0 40.0 39.0 40.0 51 39.44425 40.0 40.0 40.0 39.0 40.0 52 39.35675 40.0 40.0 40.0 39.0 40.0 53 39.4235 40.0 40.0 40.0 39.0 40.0 54 39.32075 40.0 40.0 40.0 39.0 40.0 55 39.433 40.0 40.0 40.0 39.0 40.0 56 39.396 40.0 40.0 40.0 39.0 40.0 57 39.393 40.0 40.0 40.0 39.0 40.0 58 39.3535 40.0 40.0 40.0 39.0 40.0 59 39.35925 40.0 40.0 40.0 39.0 40.0 60 39.4015 40.0 40.0 40.0 39.0 40.0 61 39.34375 40.0 40.0 40.0 39.0 40.0 62 39.3285 40.0 40.0 40.0 39.0 40.0 63 39.39675 40.0 40.0 40.0 39.0 40.0 64 39.37725 40.0 40.0 40.0 39.0 40.0 65 39.39925 40.0 40.0 40.0 39.0 40.0 66 39.3615 40.0 40.0 40.0 39.0 40.0 67 39.41875 40.0 40.0 40.0 39.0 40.0 68 39.37175 40.0 40.0 40.0 39.0 40.0 69 39.34575 40.0 40.0 40.0 39.0 40.0 70 39.3835 40.0 40.0 40.0 39.0 40.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 23 2.0 24 2.0 25 0.0 26 2.0 27 3.0 28 10.0 29 8.0 30 18.0 31 19.0 32 26.0 33 36.0 34 29.0 35 43.0 36 78.0 37 87.0 38 229.0 39 3408.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 28.02030456852792 8.883248730964468 7.588832487309645 55.50761421319797 2 21.025 11.975 37.275000000000006 29.725 3 20.25 13.700000000000001 23.549999999999997 42.5 4 24.725 22.650000000000002 20.424999999999997 32.2 5 26.400000000000002 27.6 24.2 21.8 6 23.075000000000003 30.4 25.575 20.95 7 18.55 23.7 37.425000000000004 20.325 8 19.425 23.225 33.050000000000004 24.3 9 17.724999999999998 21.725 35.3 25.25 10 20.575 33.2 25.85 20.375 11 24.05 24.7 23.724999999999998 27.525 12 23.1 23.1 26.174999999999997 27.625 13 23.575 23.875 26.6 25.95 14 21.4 24.4 28.775000000000002 25.424999999999997 15 21.349999999999998 25.974999999999998 26.25 26.424999999999997 16 23.75 24.975 25.8 25.474999999999998 17 23.225 25.174999999999997 25.924999999999997 25.674999999999997 18 22.400000000000002 25.224999999999998 26.424999999999997 25.95 19 23.075000000000003 24.7 25.874999999999996 26.35 20 23.05 25.224999999999998 25.5 26.224999999999998 21 22.375 24.95 25.35 27.325 22 23.175 25.45 25.374999999999996 26.0 23 22.6 26.174999999999997 26.6 24.625 24 21.375 25.3 25.924999999999997 27.400000000000002 25 23.425 25.474999999999998 25.15 25.95 26 22.650000000000002 25.275 26.55 25.525 27 22.075 25.3 26.825 25.8 28 23.275000000000002 24.4 25.75 26.575 29 24.075 24.224999999999998 25.8 25.900000000000002 30 22.275 24.275 26.150000000000002 27.3 31 22.625 25.7 25.05 26.625 32 22.15 27.1 25.85 24.9 33 23.125 24.775 24.474999999999998 27.625 34 23.3 26.025 24.025 26.650000000000002 35 23.1 25.8 26.1 25.0 36 22.625 24.95 26.450000000000003 25.974999999999998 37 23.325000000000003 24.625 24.875 27.175 38 22.3 25.4 26.05 26.25 39 22.0 25.05 25.224999999999998 27.725 40 22.825 25.775 25.775 25.624999999999996 41 23.025000000000002 26.275 25.55 25.15 42 21.55 26.200000000000003 25.8 26.450000000000003 43 23.125 24.425 26.224999999999998 26.224999999999998 44 22.8 25.074999999999996 26.025 26.1 45 23.625 23.674999999999997 25.575 27.125 46 22.2 24.975 26.025 26.8 47 22.6 26.400000000000002 25.974999999999998 25.025 48 22.400000000000002 25.45 26.224999999999998 25.924999999999997 49 22.475 25.674999999999997 25.2 26.650000000000002 50 22.650000000000002 24.775 26.224999999999998 26.35 51 22.925 25.575 25.275 26.224999999999998 52 22.575 25.674999999999997 24.25 27.500000000000004 53 23.849999999999998 24.65 26.974999999999998 24.525 54 23.400000000000002 26.174999999999997 26.3 24.125 55 24.175 23.825 25.4 26.6 56 23.3 25.7 25.900000000000002 25.1 57 22.15 26.0 25.45 26.400000000000002 58 23.525 24.925 24.05 27.500000000000004 59 23.925 25.825 25.374999999999996 24.875 60 23.830957739434858 25.381345336334082 24.85621405351338 25.93148287071768 61 22.661330665332667 24.83741870935468 24.7623811905953 27.738869434717362 62 23.08654327163582 24.512256128064035 27.613806903451728 24.787393696848426 63 21.641230923192396 25.369026770077557 26.870152614460846 26.1195896922692 64 23.517638228671505 24.91868901676257 24.64348261195897 26.920190142606952 65 23.0980980980981 25.05005005005005 26.626626626626624 25.225225225225223 66 21.731493099121707 25.821831869510664 26.649937264742785 25.796737766624844 67 22.376387487386477 25.832492431886983 25.02522704339051 26.765893037336024 68 23.061119671289163 25.012840267077557 25.577812018489986 26.348228043143294 69 22.87903667214012 20.333880678708265 27.339901477832512 29.4471811713191 70 24.339411983624863 0.0 35.61592854484555 40.044659471529584 >>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 0.0 20 0.0 21 0.0 22 1.0 23 2.0 24 1.0 25 2.0 26 4.5 27 5.0 28 6.0 29 10.5 30 14.0 31 16.5 32 29.5 33 40.0 34 56.0 35 76.0 36 99.0 37 118.0 38 134.0 39 165.0 40 180.0 41 212.5 42 243.5 43 242.0 44 263.0 45 292.0 46 271.5 47 243.0 48 251.0 49 247.0 50 235.0 51 217.0 52 192.5 53 186.0 54 163.0 55 140.0 56 117.5 57 95.0 58 97.5 59 87.5 60 75.0 61 87.5 62 95.0 63 90.0 64 82.0 65 78.0 66 69.5 67 57.0 68 48.5 69 38.5 70 37.0 71 30.5 72 24.0 73 24.0 74 20.5 75 13.5 76 7.5 77 5.0 78 4.5 79 2.5 80 1.0 81 1.0 82 0.5 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 fail #Base N-Count 1 1.5 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 0.0 24 0.0 25 0.0 26 0.0 27 0.0 28 0.0 29 0.0 30 0.0 31 0.0 32 0.0 33 0.0 34 0.0 35 0.0 36 0.0 37 0.0 38 0.0 39 0.0 40 0.0 41 0.0 42 0.0 43 0.0 44 0.0 45 0.0 46 0.0 47 0.0 48 0.0 49 0.0 50 0.0 51 0.0 52 0.0 53 0.0 54 0.0 55 0.0 56 0.0 57 0.0 58 0.0 59 0.0 60 0.025 61 0.05 62 0.05 63 0.075 64 0.075 65 0.1 66 0.375 67 0.8999999999999999 68 2.65 69 8.649999999999999 70 32.824999999999996 >>END_MODULE >>Sequence Length Distribution pass #Length Count 70 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 99.52499999999999 #Duplication Level Percentage of deduplicated Percentage of total 1 99.5227329816629 99.05000000000001 2 0.4772670183371013 0.95 3 0.0 0.0 4 0.0 0.0 5 0.0 0.0 6 0.0 0.0 7 0.0 0.0 8 0.0 0.0 9 0.0 0.0 >10 0.0 0.0 >50 0.0 0.0 >100 0.0 0.0 >500 0.0 0.0 >1k 0.0 0.0 >5k 0.0 0.0 >10k+ 0.0 0.0 >>END_MODULE >>Overrepresented sequences pass >>END_MODULE >>Adapter Content pass #Position Illumina Universal Adapter Illumina Small RNA 3' Adapter Illumina Small RNA 5' Adapter Nextera Transposase Sequence SOLID Small RNA Adapter 1 0.0 0.0 0.0 0.0 0.0 2 0.0 0.0 0.0 0.0 0.0 3 0.0 0.0 0.0 0.0 0.0 4 0.0 0.0 0.0 0.0 0.0 5 0.0 0.0 0.0 0.0 0.0 6 0.0 0.0 0.0 0.0 0.0 7 0.0 0.0 0.0 0.0 0.0 8 0.0 0.0 0.0 0.0 0.0 9 0.0 0.0 0.0 0.0 0.0 10 0.0 0.0 0.0 0.0 0.0 11 0.0 0.0 0.0 0.0 0.0 12 0.0 0.0 0.0 0.0 0.0 13 0.0 0.0 0.0 0.0 0.0 14 0.0 0.0 0.0 0.0 0.0 15 0.0 0.0 0.0 0.0 0.0 16 0.0 0.0 0.0 0.0 0.0 17 0.0 0.0 0.0 0.0 0.0 18 0.0 0.0 0.0 0.0 0.0 19 0.0 0.0 0.0 0.0 0.0 20 0.0 0.0 0.0 0.0 0.0 21 0.0 0.0 0.0 0.0 0.0 22 0.0 0.0 0.0 0.0 0.0 23 0.0 0.0 0.0 0.0 0.0 24 0.0 0.0 0.0 0.0 0.0 25 0.0 0.0 0.0 0.0 0.0 26 0.0 0.0 0.0 0.0 0.0 27 0.0 0.0 0.0 0.0 0.0 28 0.0 0.0 0.0 0.0 0.0 29 0.0 0.0 0.0 0.0 0.0 30 0.0 0.0 0.0 0.0 0.0 31 0.0 0.0 0.0 0.0 0.0 32 0.0 0.0 0.0 0.0 0.0 33 0.0 0.0 0.0 0.0 0.0 34 0.0 0.0 0.0 0.0 0.0 35 0.0 0.0 0.0 0.0 0.0 36 0.0 0.0 0.0 0.0 0.0 37 0.0 0.0 0.0 0.0 0.0 38 0.0 0.0 0.0 0.0 0.0 39 0.0 0.0 0.0 0.0 0.0 40 0.0 0.0 0.0 0.0 0.0 41 0.0 0.0 0.0 0.0 0.0 42 0.0 0.0 0.0 0.0 0.0 43 0.0 0.0 0.0 0.0 0.0 44 0.0 0.0 0.0 0.0 0.0 45 0.0 0.0 0.0 0.0 0.0 46 0.0 0.0 0.0 0.0 0.0 47 0.0 0.0 0.0 0.0 0.0 48 0.0 0.0 0.0 0.0 0.0 49 0.0 0.0 0.0 0.0 0.0 50 0.0 0.0 0.0 0.0 0.0 51 0.0 0.0 0.0 0.0 0.0 52 0.0 0.0 0.0 0.0 0.0 53 0.0 0.0 0.0 0.0 0.0 54 0.0 0.0 0.0 0.0 0.0 55 0.0 0.0 0.0 0.0 0.0 56 0.0 0.0 0.0 0.0 0.0 57 0.0 0.0 0.0 0.0 0.0 58 0.0 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE ERR5052706 read2 length is 70 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR5052706_2.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 70 %GC 50 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 34.43875 35.0 35.0 35.0 33.0 35.0 2 34.36325 35.0 35.0 35.0 33.0 35.0 3 34.479 35.0 35.0 35.0 34.0 35.0 4 34.4685 35.0 35.0 35.0 34.0 35.0 5 34.4355 35.0 35.0 35.0 33.0 35.0 6 39.31225 40.0 40.0 40.0 39.0 40.0 7 39.21325 40.0 40.0 40.0 39.0 40.0 8 39.27625 40.0 40.0 40.0 39.0 40.0 9 39.3145 40.0 40.0 40.0 39.0 40.0 10 39.343 40.0 40.0 40.0 39.0 40.0 11 39.30375 40.0 40.0 40.0 39.0 40.0 12 39.29625 40.0 40.0 40.0 39.0 40.0 13 39.31075 40.0 40.0 40.0 39.0 40.0 14 39.35125 40.0 40.0 40.0 39.0 40.0 15 39.353 40.0 40.0 40.0 39.0 40.0 16 39.3005 40.0 40.0 40.0 39.0 40.0 17 39.31925 40.0 40.0 40.0 39.0 40.0 18 39.30425 40.0 40.0 40.0 39.0 40.0 19 39.2925 40.0 40.0 40.0 39.0 40.0 20 39.242 40.0 40.0 40.0 39.0 40.0 21 39.28325 40.0 40.0 40.0 39.0 40.0 22 39.24525 40.0 40.0 40.0 39.0 40.0 23 39.28625 40.0 40.0 40.0 39.0 40.0 24 39.2705 40.0 40.0 40.0 39.0 40.0 25 39.30275 40.0 40.0 40.0 39.0 40.0 26 39.3245 40.0 40.0 40.0 39.0 40.0 27 39.3085 40.0 40.0 40.0 39.0 40.0 28 39.24425 40.0 40.0 40.0 39.0 40.0 29 39.25075 40.0 40.0 40.0 39.0 40.0 30 39.32225 40.0 40.0 40.0 39.0 40.0 31 39.27975 40.0 40.0 40.0 39.0 40.0 32 39.30775 40.0 40.0 40.0 39.0 40.0 33 39.31275 40.0 40.0 40.0 39.0 40.0 34 39.3035 40.0 40.0 40.0 39.0 40.0 35 39.2665 40.0 40.0 40.0 39.0 40.0 36 39.2065 40.0 40.0 40.0 39.0 40.0 37 39.22675 40.0 40.0 40.0 39.0 40.0 38 39.23375 40.0 40.0 40.0 39.0 40.0 39 39.22225 40.0 40.0 40.0 39.0 40.0 40 39.23825 40.0 40.0 40.0 39.0 40.0 41 39.2305 40.0 40.0 40.0 39.0 40.0 42 39.2505 40.0 40.0 40.0 39.0 40.0 43 39.23025 40.0 40.0 40.0 39.0 40.0 44 39.256 40.0 40.0 40.0 39.0 40.0 45 39.22775 40.0 40.0 40.0 39.0 40.0 46 39.28975 40.0 40.0 40.0 39.0 40.0 47 39.2375 40.0 40.0 40.0 39.0 40.0 48 39.25575 40.0 40.0 40.0 39.0 40.0 49 39.177 40.0 40.0 40.0 39.0 40.0 50 39.189 40.0 40.0 40.0 39.0 40.0 51 39.19325 40.0 40.0 40.0 39.0 40.0 52 39.04975 40.0 40.0 40.0 39.0 40.0 53 39.049 40.0 40.0 40.0 39.0 40.0 54 39.1285 40.0 40.0 40.0 39.0 40.0 55 39.16975 40.0 40.0 40.0 39.0 40.0 56 39.14875 40.0 40.0 40.0 39.0 40.0 57 39.16575 40.0 40.0 40.0 39.0 40.0 58 39.18925 40.0 40.0 40.0 39.0 40.0 59 39.1535 40.0 40.0 40.0 39.0 40.0 60 39.21925 40.0 40.0 40.0 39.0 40.0 61 39.21425 40.0 40.0 40.0 39.0 40.0 62 39.226 40.0 40.0 40.0 39.0 40.0 63 39.13675 40.0 40.0 40.0 39.0 40.0 64 39.091 40.0 40.0 40.0 39.0 40.0 65 39.14325 40.0 40.0 40.0 39.0 40.0 66 39.11425 40.0 40.0 40.0 39.0 40.0 67 39.087 40.0 40.0 40.0 39.0 40.0 68 39.11325 40.0 40.0 40.0 39.0 40.0 69 39.1365 40.0 40.0 40.0 39.0 40.0 70 39.029 40.0 40.0 40.0 38.0 40.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 19 3.0 20 3.0 21 5.0 22 3.0 23 9.0 24 4.0 25 10.0 26 9.0 27 12.0 28 11.0 29 20.0 30 14.0 31 15.0 32 19.0 33 27.0 34 27.0 35 42.0 36 67.0 37 99.0 38 246.0 39 3355.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 26.200000000000003 17.474999999999998 12.025 44.3 2 28.425 21.95 31.424999999999997 18.2 3 21.925 25.624999999999996 28.000000000000004 24.45 4 25.4 27.875 22.15 24.575 5 28.775000000000002 31.900000000000002 20.8 18.525 6 22.25 34.875 21.3 21.575 7 22.525000000000002 18.425 35.525 23.525 8 22.425 21.55 27.925 28.1 9 24.15 21.5 29.049999999999997 25.3 10 24.95 30.8 22.925 21.325 11 28.025 23.474999999999998 21.75 26.75 12 27.3 22.175 24.575 25.95 13 26.174999999999997 23.549999999999997 23.7 26.575 14 25.8 24.4 24.925 24.875 15 25.7 26.400000000000002 24.349999999999998 23.549999999999997 16 26.625 25.174999999999997 23.599999999999998 24.6 17 26.674999999999997 24.224999999999998 23.474999999999998 25.624999999999996 18 25.825 25.575 24.775 23.825 19 26.424999999999997 24.8 24.224999999999998 24.55 20 26.05 24.825 24.2 24.925 21 26.150000000000002 27.075 24.675 22.1 22 26.025 25.15 24.45 24.375 23 25.825 24.275 25.275 24.625 24 24.349999999999998 24.875 26.025 24.75 25 25.525 24.7 24.224999999999998 25.55 26 26.875 26.150000000000002 23.875 23.1 27 25.275 25.15 25.324999999999996 24.25 28 26.05 25.025 24.875 24.05 29 25.474999999999998 25.424999999999997 24.3 24.8 30 25.074999999999996 24.8 26.474999999999998 23.65 31 25.674999999999997 25.95 24.2 24.175 32 25.650000000000002 25.7 25.7 22.95 33 26.950000000000003 25.900000000000002 24.525 22.625 34 25.25 24.95 24.575 25.224999999999998 35 26.1 25.45 24.075 24.375 36 27.075 24.7 25.35 22.875 37 26.075 24.875 24.349999999999998 24.7 38 27.075 24.95 24.825 23.150000000000002 39 25.275 25.874999999999996 24.4 24.45 40 26.474999999999998 24.224999999999998 25.124999999999996 24.175 41 26.900000000000002 25.424999999999997 23.625 24.05 42 24.875 26.6 25.3 23.225 43 25.724999999999998 25.6 24.05 24.625 44 25.874999999999996 25.1 24.675 24.349999999999998 45 24.95 25.25 26.400000000000002 23.400000000000002 46 26.150000000000002 23.674999999999997 24.55 25.624999999999996 47 26.950000000000003 25.6 23.200000000000003 24.25 48 25.374999999999996 26.400000000000002 24.55 23.674999999999997 49 26.924999999999997 24.45 24.6 24.025 50 25.45 25.174999999999997 26.125 23.25 51 25.724999999999998 26.3 24.25 23.724999999999998 52 26.424999999999997 24.525 24.675 24.375 53 28.249999999999996 24.425 24.375 22.95 54 26.85 24.95 25.124999999999996 23.075000000000003 55 25.825 25.15 24.275 24.75 56 27.250000000000004 26.150000000000002 24.275 22.325 57 26.5 25.1 25.45 22.95 58 25.525 24.75 25.874999999999996 23.849999999999998 59 26.85 25.974999999999998 24.025 23.150000000000002 60 24.175 25.575 25.650000000000002 24.6 61 26.063031515757878 24.537268634317158 25.737868934467233 23.66183091545773 62 25.86293146573287 25.087543771885944 25.237618809404704 23.81190595297649 63 25.494120590442833 25.619214410808105 25.794345759319487 23.092319239429575 64 25.69427070302727 24.618463847885916 24.34325744308231 25.344008006004504 65 25.825825825825827 24.2992992992993 25.675675675675674 24.1991991991992 66 24.88086280411337 24.931025833960373 27.188362177075497 22.999749184850764 67 26.898814029775426 23.92127176381529 25.13247539742619 24.04743880898309 68 27.839586028460545 23.415265200517467 26.209573091849936 22.535575679172055 69 26.915575369183614 20.479242128726664 27.16634159933129 25.43884090275843 70 28.438661710037177 0.0 35.09293680297398 36.46840148698885 >>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 0.0 20 0.0 21 0.0 22 0.0 23 0.0 24 1.0 25 2.5 26 3.5 27 4.0 28 6.0 29 13.5 30 19.0 31 17.0 32 25.5 33 36.0 34 41.5 35 65.5 36 100.5 37 117.0 38 134.5 39 168.5 40 185.0 41 193.5 42 227.5 43 253.0 44 270.0 45 271.0 46 246.0 47 237.0 48 232.5 49 212.0 50 196.0 51 189.0 52 180.0 53 178.0 54 175.5 55 163.0 56 137.0 57 121.0 58 125.5 59 122.0 60 114.0 61 103.0 62 88.5 63 85.0 64 80.5 65 77.5 66 82.5 67 86.0 68 72.0 69 53.0 70 48.0 71 41.5 72 26.0 73 17.0 74 18.5 75 16.5 76 8.5 77 4.0 78 2.5 79 1.5 80 2.0 81 2.0 82 1.0 83 0.0 84 0.0 85 0.0 86 0.5 87 1.0 88 0.5 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 fail #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 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 0.0 24 0.0 25 0.0 26 0.0 27 0.0 28 0.0 29 0.0 30 0.0 31 0.0 32 0.0 33 0.0 34 0.0 35 0.0 36 0.0 37 0.0 38 0.0 39 0.0 40 0.0 41 0.0 42 0.0 43 0.0 44 0.0 45 0.0 46 0.0 47 0.0 48 0.0 49 0.0 50 0.0 51 0.0 52 0.0 53 0.0 54 0.0 55 0.0 56 0.0 57 0.0 58 0.0 59 0.0 60 0.0 61 0.05 62 0.05 63 0.075 64 0.075 65 0.1 66 0.325 67 0.9249999999999999 68 3.375 69 10.274999999999999 70 32.75 >>END_MODULE >>Sequence Length Distribution pass #Length Count 70 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 99.52499999999999 #Duplication Level Percentage of deduplicated Percentage of total 1 99.62321024868123 99.15 2 0.27631248430042704 0.5499999999999999 3 0.10047726701833709 0.3 4 0.0 0.0 5 0.0 0.0 6 0.0 0.0 7 0.0 0.0 8 0.0 0.0 9 0.0 0.0 >10 0.0 0.0 >50 0.0 0.0 >100 0.0 0.0 >500 0.0 0.0 >1k 0.0 0.0 >5k 0.0 0.0 >10k+ 0.0 0.0 >>END_MODULE >>Overrepresented sequences pass >>END_MODULE >>Adapter Content pass #Position Illumina Universal Adapter Illumina Small RNA 3' Adapter Illumina Small RNA 5' Adapter Nextera Transposase Sequence SOLID Small RNA Adapter 1 0.0 0.0 0.0 0.0 0.0 2 0.0 0.0 0.0 0.0 0.0 3 0.0 0.0 0.0 0.0 0.0 4 0.0 0.0 0.0 0.0 0.0 5 0.0 0.0 0.0 0.0 0.0 6 0.0 0.0 0.0 0.0 0.0 7 0.0 0.0 0.0 0.0 0.0 8 0.0 0.0 0.0 0.0 0.0 9 0.0 0.0 0.0 0.0 0.0 10 0.0 0.0 0.0 0.0 0.0 11 0.0 0.0 0.0 0.0 0.0 12 0.0 0.0 0.0 0.0 0.0 13 0.0 0.0 0.0 0.0 0.0 14 0.0 0.0 0.0 0.0 0.0 15 0.0 0.0 0.0 0.0 0.0 16 0.0 0.0 0.0 0.0 0.0 17 0.0 0.0 0.0 0.0 0.0 18 0.0 0.0 0.0 0.0 0.0 19 0.0 0.0 0.0 0.0 0.0 20 0.0 0.0 0.0 0.0 0.0 21 0.0 0.0 0.0 0.0 0.0 22 0.0 0.0 0.0 0.0 0.0 23 0.0 0.0 0.0 0.0 0.0 24 0.0 0.0 0.0 0.0 0.0 25 0.0 0.0 0.0 0.0 0.0 26 0.0 0.0 0.0 0.0 0.0 27 0.0 0.0 0.0 0.0 0.0 28 0.0 0.0 0.0 0.0 0.0 29 0.0 0.0 0.0 0.0 0.0 30 0.0 0.0 0.0 0.0 0.0 31 0.0 0.0 0.0 0.0 0.0 32 0.0 0.0 0.0 0.0 0.0 33 0.0 0.0 0.0 0.0 0.0 34 0.0 0.0 0.0 0.0 0.0 35 0.0 0.0 0.0 0.0 0.0 36 0.0 0.0 0.0 0.0 0.0 37 0.0 0.0 0.0 0.0 0.0 38 0.0 0.0 0.0 0.0 0.0 39 0.0 0.0 0.0 0.0 0.0 40 0.0 0.0 0.0 0.0 0.0 41 0.0 0.0 0.0 0.0 0.0 42 0.0 0.0 0.0 0.0 0.0 43 0.0 0.0 0.0 0.0 0.0 44 0.0 0.0 0.0 0.0 0.0 45 0.0 0.0 0.0 0.0 0.0 46 0.0 0.0 0.0 0.0 0.0 47 0.0 0.0 0.0 0.0 0.0 48 0.0 0.0 0.0 0.0 0.0 49 0.0 0.0 0.0 0.0 0.0 50 0.0 0.0 0.0 0.0 0.0 51 0.0 0.0 0.0 0.0 0.0 52 0.0 0.0 0.0 0.0 0.0 53 0.0 0.0 0.0 0.0 0.0 54 0.0 0.0 0.0 0.0 0.0 55 0.0 0.0 0.0 0.0 0.0 56 0.0 0.0 0.0 0.0 0.0 57 0.0 0.0 0.0 0.0 0.0 58 0.0 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Read 297611 spots for ERR5052706.sra Written 297611 spots for ERR5052706.sra Read 297611 spots for ERR5052706.sra Written 297611 spots for ERR5052706.sra Read 297611 spots for ERR5052706.sra Written 297611 spots for ERR5052706.sra Read 297611 spots for ERR5052706.sra Written 297611 spots for ERR5052706.sra Read 297611 spots for ERR5052706.sra Written 297611 spots for ERR5052706.sra Read 297611 spots for ERR5052706.sra Written 297611 spots for ERR5052706.sra Read 297611 spots for ERR5052706.sra Written 297611 spots for ERR5052706.sra Read 297611 spots for ERR5052706.sra Written 297611 spots for ERR5052706.sra Read 297611 spots for ERR5052706.sra Written 297611 spots for ERR5052706.sra Read 297611 spots for ERR5052706.sra Written 297611 spots for ERR5052706.sra Read 297611 spots for ERR5052706.sra Written 297611 spots for ERR5052706.sra Read 297611 spots for ERR5052706.sra Written 297611 spots for ERR5052706.sra Read 297621 spots for ERR5052706.sra Read 297611 spots for ERR5052706.sra Written 297621 spots for ERR5052706.sra Written 297611 spots for ERR5052706.sra Read 297611 spots for ERR5052706.sra Written 297611 spots for ERR5052706.sra Read 297611 spots for ERR5052706.sra Written 297611 spots for ERR5052706.sra Read 297611 spots for ERR5052706.sra Written 297611 spots for ERR5052706.sra Read 297611 spots for ERR5052706.sra Written 297611 spots for ERR5052706.sra Read 297611 spots for ERR5052706.sra Written 297611 spots for ERR5052706.sra Read 297611 spots for ERR5052706.sra Written 297611 spots for ERR5052706.sra SRR ids: ['ERR5052706.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_tla6s6jt ERR5052706.sra spots: 5952230 blocks: [[1, 297611], [297612, 595222], [595223, 892833], [892834, 1190444], [1190445, 1488055], [1488056, 1785666], [1785667, 2083277], [2083278, 2380888], [2380889, 2678499], [2678500, 2976110], [2976111, 3273721], [3273722, 3571332], [3571333, 3868943], [3868944, 4166554], [4166555, 4464165], [4464166, 4761776], [4761777, 5059387], [5059388, 5356998], [5356999, 5654609], [5654610, 5952230]] ERR5052706 file size 1055746 ERR5052706 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 ERR5052706 ERR5052706_1.fastq ERR5052706_2.fastq Input file: ERR5052706_1.fastq Paired file: ERR5052706_2.fastq trimmed: ERR5052706-trimmed-pair1.fastq, ERR5052706-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 Dec 10 05:44:09 2024 >> started Tue Dec 10 05:44:15 2024 >> done (6.254s) 5952230 read pairs processed; of these: 0 ( 0.00%) short read pairs filtered out after trimming by size control 11 ( 0.00%) empty read pairs filtered out after trimming by size control 5952219 (100.00%) read pairs available; of these: 20 ( 0.00%) trimmed read pairs available after processing 5952199 (100.00%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 32 1 0.00% 33 0 0.00% 34 0 0.00% 35 0 0.00% 36 0 0.00% 37 1 0.00% 38 1 0.00% 39 0 0.00% 40 0 0.00% 41 0 0.00% 42 0 0.00% 43 1 0.00% 44 2 0.00% 45 0 0.00% 46 0 0.00% 47 0 0.00% 48 0 0.00% 49 0 0.00% 50 0 0.00% 51 2 0.00% 52 1 0.00% 53 1 0.00% 54 1 0.00% 55 0 0.00% 56 0 0.00% 57 0 0.00% 58 0 0.00% 59 0 0.00% 60 0 0.00% 61 0 0.00% 62 1 0.00% 63 0 0.00% 64 0 0.00% 65 0 0.00% 66 0 0.00% 67 0 0.00% 68 0 0.00% 69 8 0.00% 70 5952199 100.00% 5952219 reads passed initial QC criterion=sequence-density sequence-density=0.15 sequence-density-rank=1 fanout-score=2.19 fanout-score-rank=30 prefix-density=0.16 prefix-fanout=2.1 sequence=GATCTCGCCGAAG criterion=fanout-score sequence-density=0.04 sequence-density-rank=9 fanout-score=301.00 fanout-score-rank=1 prefix-density=0.49 prefix-fanout=26.8 sequence=CTTCTTCTTGTC criterion=sequence-density sequence-density=0.29 sequence-density-rank=1 fanout-score=2.00 fanout-score-rank=29 prefix-density=0.28 prefix-fanout=2.0 sequence=CGGTTCCGGTTC criterion=fanout-score sequence-density=0.05 sequence-density-rank=22 fanout-score=248.15 fanout-score-rank=1 prefix-density=0.60 prefix-fanout=19.7 sequence=CGCCGCCGCCGA ERR5052706 testing PE reads STAR mapping to Ensembl genome Started job on | Dec 10 05:44:48 Started mapping on | Dec 10 05:44:48 Finished on | Dec 10 05:45:05 Mapping speed, Million of reads per hour | 1260.47 Number of input reads | 5952219 Average input read length | 139 UNIQUE READS: Uniquely mapped reads number | 5730305 Uniquely mapped reads % | 96.27% Average mapped length | 138.72 Number of splices: Total | 2899532 Number of splices: Annotated (sjdb) | 2761790 Number of splices: GT/AG | 2862081 Number of splices: GC/AG | 32964 Number of splices: AT/AC | 1566 Number of splices: Non-canonical | 2921 Mismatch rate per base, % | 0.19% Deletion rate per base | 0.01% Deletion average length | 1.89 Insertion rate per base | 0.01% Insertion average length | 1.70 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 85859 % of reads mapped to multiple loci | 1.44% Number of reads mapped to too many loci | 12363 % of reads mapped to too many loci | 0.21% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.48% % of reads unmapped: other | 0.59% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 136055 136055 136055 N_multimapping 85859 85859 85859 N_noFeature 184497 5591835 219732 N_ambiguous 122203 506 19160 UnstrandedReadsAssigned:5423605 PositiveStrandReadsAssigned:137964 NegativeStrandReadsAssigned:5491413 Dataset is classified negative stranded MeadianReadLen=70 20thPercentileLength=70 echo kmer=65 ERR5052706 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: ERR5052706-trimmed-pair1.fastq ERR5052706-trimmed-pair2.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 5,952,219 reads, 5,555,630 reads pseudoaligned [quant] estimated average fragment length: 187.333 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,034 rounds 52973 ERR5052706.ke.tsv 35125 ERR5052706.se.tsv 88098 total ==> ERR5052706.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 749.979 18.3984 6.62409 PNS24247 1044 857.667 18.9853 5.97714 PNS24249 1928 1741.67 54.6392 8.471 PNS24246 1044 857.667 18.9853 5.97714 PNS24248 1044 857.667 18.9853 5.97714 PNS24244 1471 1284.67 33.0067 6.93757 PNS24243 293 125.476 0 0 KQK14069 1603 1416.67 7168.04 1366.25 KQK14071 474 291.329 172.843 160.2 ==> ERR5052706.se.tsv <== BRADI_1g14170v3 7945 BRADI_1g53295v3 53 BRADI_1g59795v3 234 BRADI_1g07683v3 0 BRADI_1g00485v3 9 BRADI_1g20270v3 397 BRADI_1g74790v3 124 BRADI_1g09890v3 0 BRADI_1g77505v3 179 BRADI_1g48960v3 1 ERR5052706 completed mapping pipeline successfully