Starting /dee2/code/volunteer_pipeline.sh ERR5052694 current disk space = 1525878026240 free memory = 1403112600 ERR5052694 SRAfilesize 1426acab31530c9019548f99f9b20e14 ERR5052694.sra ERR5052694.sra file validated ERR5052694 is paired end ERR5052694 is conventional basespace ERR5052694 read1 length is 70 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR5052694_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 50 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 34.0615 35.0 35.0 35.0 35.0 35.0 2 34.528 35.0 35.0 35.0 34.0 35.0 3 34.5725 35.0 35.0 35.0 34.0 35.0 4 34.65075 35.0 35.0 35.0 35.0 35.0 5 34.63875 35.0 35.0 35.0 35.0 35.0 6 39.46425 40.0 40.0 40.0 39.0 40.0 7 39.42575 40.0 40.0 40.0 39.0 40.0 8 39.432 40.0 40.0 40.0 39.0 40.0 9 39.37675 40.0 40.0 40.0 39.0 40.0 10 39.38025 40.0 40.0 40.0 39.0 40.0 11 39.40725 40.0 40.0 40.0 39.0 40.0 12 39.3675 40.0 40.0 40.0 39.0 40.0 13 39.3135 40.0 40.0 40.0 39.0 40.0 14 39.36375 40.0 40.0 40.0 39.0 40.0 15 39.31775 40.0 40.0 40.0 39.0 40.0 16 39.3715 40.0 40.0 40.0 39.0 40.0 17 39.39125 40.0 40.0 40.0 39.0 40.0 18 39.36 40.0 40.0 40.0 39.0 40.0 19 39.394 40.0 40.0 40.0 39.0 40.0 20 39.3465 40.0 40.0 40.0 39.0 40.0 21 39.35675 40.0 40.0 40.0 39.0 40.0 22 39.359 40.0 40.0 40.0 39.0 40.0 23 39.35675 40.0 40.0 40.0 39.0 40.0 24 39.25175 40.0 40.0 40.0 39.0 40.0 25 39.3415 40.0 40.0 40.0 39.0 40.0 26 39.31525 40.0 40.0 40.0 39.0 40.0 27 39.35725 40.0 40.0 40.0 39.0 40.0 28 39.34125 40.0 40.0 40.0 39.0 40.0 29 39.3385 40.0 40.0 40.0 39.0 40.0 30 39.3805 40.0 40.0 40.0 39.0 40.0 31 39.2885 40.0 40.0 40.0 39.0 40.0 32 39.3355 40.0 40.0 40.0 39.0 40.0 33 39.39775 40.0 40.0 40.0 39.0 40.0 34 39.225 40.0 40.0 40.0 39.0 40.0 35 39.22975 40.0 40.0 40.0 39.0 40.0 36 39.24825 40.0 40.0 40.0 39.0 40.0 37 39.282 40.0 40.0 40.0 39.0 40.0 38 39.31175 40.0 40.0 40.0 39.0 40.0 39 39.3445 40.0 40.0 40.0 39.0 40.0 40 39.31525 40.0 40.0 40.0 39.0 40.0 41 39.23025 40.0 40.0 40.0 39.0 40.0 42 39.2925 40.0 40.0 40.0 39.0 40.0 43 39.302 40.0 40.0 40.0 39.0 40.0 44 39.2785 40.0 40.0 40.0 39.0 40.0 45 39.2975 40.0 40.0 40.0 39.0 40.0 46 39.2935 40.0 40.0 40.0 39.0 40.0 47 39.30525 40.0 40.0 40.0 39.0 40.0 48 39.3265 40.0 40.0 40.0 39.0 40.0 49 39.34425 40.0 40.0 40.0 39.0 40.0 50 39.35325 40.0 40.0 40.0 39.0 40.0 51 39.324 40.0 40.0 40.0 39.0 40.0 52 39.272 40.0 40.0 40.0 39.0 40.0 53 39.283 40.0 40.0 40.0 39.0 40.0 54 39.25525 40.0 40.0 40.0 39.0 40.0 55 39.27975 40.0 40.0 40.0 39.0 40.0 56 39.2775 40.0 40.0 40.0 39.0 40.0 57 39.31925 40.0 40.0 40.0 39.0 40.0 58 39.31475 40.0 40.0 40.0 39.0 40.0 59 39.23325 40.0 40.0 40.0 39.0 40.0 60 39.30025 40.0 40.0 40.0 39.0 40.0 61 39.28325 40.0 40.0 40.0 39.0 40.0 62 39.21675 40.0 40.0 40.0 39.0 40.0 63 39.2255 40.0 40.0 40.0 39.0 40.0 64 39.2345 40.0 40.0 40.0 39.0 40.0 65 39.2795 40.0 40.0 40.0 39.0 40.0 66 39.27225 40.0 40.0 40.0 39.0 40.0 67 39.233 40.0 40.0 40.0 39.0 40.0 68 39.2805 40.0 40.0 40.0 39.0 40.0 69 39.2505 40.0 40.0 40.0 39.0 40.0 70 39.253 40.0 40.0 40.0 39.0 40.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 23 1.0 24 0.0 25 2.0 26 4.0 27 8.0 28 13.0 29 11.0 30 17.0 31 22.0 32 30.0 33 37.0 34 53.0 35 52.0 36 71.0 37 132.0 38 226.0 39 3321.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 38.543788187372705 11.430753564154786 12.092668024439918 37.93279022403259 2 23.150000000000002 15.45 28.325 33.074999999999996 3 22.725 21.4 24.025 31.85 4 26.224999999999998 27.05 22.625 24.099999999999998 5 25.074999999999996 31.424999999999997 23.474999999999998 20.025000000000002 6 22.650000000000002 28.825 25.900000000000002 22.625 7 19.075 22.95 36.7 21.275 8 19.025 22.825 30.425 27.725 9 21.075 22.95 30.75 25.224999999999998 10 23.425 30.925000000000004 23.150000000000002 22.5 11 25.025 23.0 22.825 29.15 12 23.599999999999998 22.025 26.224999999999998 28.15 13 23.5 23.974999999999998 27.1 25.424999999999997 14 23.225 25.25 26.650000000000002 24.875 15 23.225 25.124999999999996 25.124999999999996 26.525 16 23.425 25.05 24.224999999999998 27.3 17 23.1 25.4 25.95 25.55 18 23.125 24.775 24.5 27.6 19 24.6 25.25 25.7 24.45 20 24.0 25.025 24.95 26.025 21 23.275000000000002 25.374999999999996 24.5 26.85 22 23.3 25.7 24.75 26.25 23 22.475 25.55 25.5 26.474999999999998 24 24.025 23.925 25.775 26.275 25 23.625 24.575 25.275 26.525 26 23.325000000000003 25.15 24.5 27.025 27 23.799999999999997 24.375 24.75 27.075 28 24.05 24.575 24.75 26.625 29 23.200000000000003 25.474999999999998 25.775 25.55 30 23.625 23.474999999999998 24.85 28.050000000000004 31 24.825 24.9 24.425 25.85 32 23.175 25.025 25.2 26.6 33 23.075000000000003 23.674999999999997 25.900000000000002 27.35 34 24.625 24.875 23.625 26.875 35 23.474999999999998 24.7 25.55 26.275 36 23.35 23.799999999999997 25.1 27.750000000000004 37 23.075000000000003 25.474999999999998 24.825 26.625 38 22.45 26.05 25.124999999999996 26.375 39 23.5 24.275 24.575 27.650000000000002 40 24.8 25.324999999999996 24.5 25.374999999999996 41 22.85 25.324999999999996 26.424999999999997 25.4 42 24.55 24.6 24.8 26.05 43 24.099999999999998 24.7 25.4 25.8 44 23.3 26.275 25.5 24.925 45 24.4 23.7 24.95 26.950000000000003 46 23.9 25.525 24.375 26.200000000000003 47 23.25 24.3 26.224999999999998 26.224999999999998 48 23.925 25.474999999999998 24.9 25.7 49 24.425 24.125 24.325 27.125 50 22.775000000000002 25.1 25.4 26.724999999999998 51 22.8 24.575 24.925 27.700000000000003 52 23.549999999999997 25.025 24.8 26.625 53 23.5 24.9 25.3 26.3 54 22.95 23.799999999999997 25.275 27.975 55 25.1 25.275 24.474999999999998 25.15 56 22.95 26.6 24.15 26.3 57 24.05 24.85 25.1 26.0 58 24.7 25.924999999999997 24.4 24.975 59 23.9 25.624999999999996 23.775 26.700000000000003 60 23.65 24.3 24.6 27.450000000000003 61 24.15 23.425 25.374999999999996 27.05 62 23.45 25.924999999999997 24.75 25.874999999999996 63 24.15 25.3 23.7 26.85 64 24.325 24.275 25.25 26.150000000000002 65 23.200000000000003 25.55 24.15 27.1 66 24.69290549009777 23.21383805465029 25.545249435948858 26.548007019303082 67 24.50214267708596 24.02319132845979 25.031509957146458 26.44315603730779 68 24.081213055769727 24.518118735543563 25.057825751734775 26.342842456951942 69 23.646408839779006 20.165745856353592 27.734806629834253 28.45303867403315 70 25.904977375565615 0.0 35.48265460030166 38.612368024132735 >>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 0.5 23 1.0 24 1.0 25 3.5 26 5.5 27 5.0 28 7.5 29 12.5 30 15.0 31 16.0 32 24.0 33 31.0 34 45.5 35 73.0 36 100.0 37 114.0 38 121.5 39 162.0 40 195.0 41 192.5 42 209.0 43 228.0 44 242.5 45 262.5 46 268.5 47 269.0 48 243.0 49 227.0 50 237.0 51 224.5 52 190.0 53 168.0 54 172.0 55 147.5 56 121.5 57 124.0 58 113.0 59 105.0 60 108.0 61 101.0 62 95.5 63 97.0 64 86.0 65 80.0 66 77.5 67 70.0 68 64.5 69 54.0 70 49.0 71 45.0 72 40.5 73 40.0 74 26.5 75 15.0 76 11.5 77 6.0 78 4.5 79 4.5 80 6.0 81 3.0 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 fail #Base N-Count 1 1.7999999999999998 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 0.0 62 0.0 63 0.0 64 0.0 65 0.0 66 0.27499999999999997 67 0.8250000000000001 68 2.725 69 9.5 70 33.7 >>END_MODULE >>Sequence Length Distribution pass #Length Count 70 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 99.5 #Duplication Level Percentage of deduplicated Percentage of total 1 99.52261306532664 99.02499999999999 2 0.4522613065326633 0.8999999999999999 3 0.02512562814070352 0.075 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 ERR5052694 read2 length is 70 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR5052694_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 51 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 34.42575 35.0 35.0 35.0 34.0 35.0 2 34.34125 35.0 35.0 35.0 33.0 35.0 3 34.178 35.0 35.0 35.0 33.0 35.0 4 34.10675 35.0 35.0 35.0 33.0 35.0 5 34.0995 35.0 35.0 35.0 33.0 35.0 6 38.8265 40.0 40.0 40.0 38.0 40.0 7 38.71275 40.0 40.0 40.0 38.0 40.0 8 38.81425 40.0 40.0 40.0 38.0 40.0 9 38.735 40.0 40.0 40.0 38.0 40.0 10 38.843 40.0 40.0 40.0 38.0 40.0 11 38.78875 40.0 40.0 40.0 38.0 40.0 12 38.7455 40.0 40.0 40.0 38.0 40.0 13 38.77975 40.0 40.0 40.0 38.0 40.0 14 38.76875 40.0 40.0 40.0 38.0 40.0 15 38.81375 40.0 40.0 40.0 38.0 40.0 16 38.80625 40.0 40.0 40.0 38.0 40.0 17 38.78025 40.0 40.0 40.0 38.0 40.0 18 38.8035 40.0 40.0 40.0 38.0 40.0 19 38.843 40.0 40.0 40.0 38.0 40.0 20 38.7665 40.0 40.0 40.0 38.0 40.0 21 38.75975 40.0 40.0 40.0 38.0 40.0 22 38.72675 40.0 40.0 40.0 38.0 40.0 23 38.7745 40.0 40.0 40.0 38.0 40.0 24 38.8015 40.0 40.0 40.0 38.0 40.0 25 38.80125 40.0 40.0 40.0 38.0 40.0 26 38.82225 40.0 40.0 40.0 38.0 40.0 27 38.746 40.0 40.0 40.0 38.0 40.0 28 38.748 40.0 40.0 40.0 38.0 40.0 29 38.75425 40.0 40.0 40.0 38.0 40.0 30 38.71775 40.0 40.0 40.0 38.0 40.0 31 38.801 40.0 40.0 40.0 38.0 40.0 32 38.79 40.0 40.0 40.0 38.0 40.0 33 38.75375 40.0 40.0 40.0 38.0 40.0 34 38.755 40.0 40.0 40.0 38.0 40.0 35 38.755 40.0 40.0 40.0 38.0 40.0 36 38.7695 40.0 40.0 40.0 38.0 40.0 37 38.77825 40.0 40.0 40.0 38.0 40.0 38 38.71675 40.0 40.0 40.0 38.0 40.0 39 38.6365 40.0 40.0 40.0 37.0 40.0 40 38.719 40.0 40.0 40.0 38.0 40.0 41 38.73575 40.0 40.0 40.0 38.0 40.0 42 38.74725 40.0 40.0 40.0 38.0 40.0 43 38.74125 40.0 40.0 40.0 38.0 40.0 44 38.765 40.0 40.0 40.0 38.0 40.0 45 38.741 40.0 40.0 40.0 38.0 40.0 46 38.72175 40.0 40.0 40.0 38.0 40.0 47 38.808 40.0 40.0 40.0 38.0 40.0 48 38.68825 40.0 40.0 40.0 38.0 40.0 49 38.62675 40.0 40.0 40.0 37.0 40.0 50 38.69225 40.0 40.0 40.0 38.0 40.0 51 38.7215 40.0 40.0 40.0 37.0 40.0 52 38.60325 40.0 40.0 40.0 37.0 40.0 53 38.64775 40.0 40.0 40.0 37.0 40.0 54 38.66775 40.0 40.0 40.0 38.0 40.0 55 38.69125 40.0 40.0 40.0 38.0 40.0 56 38.6795 40.0 40.0 40.0 38.0 40.0 57 38.664 40.0 40.0 40.0 38.0 40.0 58 38.6695 40.0 40.0 40.0 38.0 40.0 59 38.65425 40.0 40.0 40.0 38.0 40.0 60 38.6525 40.0 40.0 40.0 38.0 40.0 61 38.67025 40.0 40.0 40.0 38.0 40.0 62 38.65925 40.0 40.0 40.0 38.0 40.0 63 38.58525 40.0 40.0 40.0 37.0 40.0 64 38.6535 40.0 40.0 40.0 37.0 40.0 65 38.6515 40.0 40.0 40.0 38.0 40.0 66 38.6455 40.0 40.0 40.0 38.0 40.0 67 38.63975 40.0 40.0 40.0 38.0 40.0 68 38.668 40.0 40.0 40.0 38.0 40.0 69 38.6275 40.0 40.0 40.0 38.0 40.0 70 38.543 40.0 40.0 40.0 37.0 40.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 16 2.0 17 6.0 18 9.0 19 19.0 20 14.0 21 18.0 22 25.0 23 17.0 24 14.0 25 13.0 26 9.0 27 10.0 28 12.0 29 18.0 30 20.0 31 24.0 32 24.0 33 29.0 34 30.0 35 46.0 36 78.0 37 92.0 38 192.0 39 3279.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 37.025000000000006 18.775 16.275000000000002 27.925 2 30.075000000000003 23.674999999999997 24.275 21.975 3 22.375 26.450000000000003 28.000000000000004 23.175 4 26.325 30.025000000000002 20.674999999999997 22.975 5 26.200000000000003 32.525 19.425 21.85 6 23.025000000000002 30.349999999999998 23.549999999999997 23.075000000000003 7 24.2 18.675 31.525 25.6 8 24.474999999999998 21.7 24.9 28.925 9 25.35 23.799999999999997 24.575 26.275 10 24.95 31.5 20.575 22.975 11 27.700000000000003 23.0 21.099999999999998 28.199999999999996 12 26.775 21.875 23.925 27.425 13 26.025 24.474999999999998 25.650000000000002 23.849999999999998 14 26.075 24.675 23.5 25.75 15 26.1 24.6 23.925 25.374999999999996 16 25.275 25.525 25.15 24.05 17 26.125 24.975 23.325000000000003 25.575 18 26.150000000000002 26.0 22.85 25.0 19 26.25 23.799999999999997 24.975 24.975 20 26.400000000000002 25.074999999999996 23.400000000000002 25.124999999999996 21 26.075 24.675 24.474999999999998 24.775 22 25.4 24.099999999999998 24.0 26.5 23 26.6 24.875 24.0 24.525 24 26.900000000000002 24.224999999999998 23.7 25.174999999999997 25 26.950000000000003 23.775 24.0 25.275 26 26.650000000000002 25.05 23.575 24.725 27 26.150000000000002 24.025 24.75 25.074999999999996 28 25.374999999999996 24.65 24.8 25.174999999999997 29 24.8 25.35 24.25 25.6 30 26.625 24.9 23.75 24.725 31 23.674999999999997 24.875 26.275 25.174999999999997 32 27.375 24.625 21.75 26.25 33 25.75 25.974999999999998 23.9 24.375 34 25.75 25.674999999999997 24.625 23.95 35 26.450000000000003 24.625 24.2 24.725 36 26.55 24.4 25.474999999999998 23.575 37 26.6 25.650000000000002 23.974999999999998 23.775 38 27.425 25.324999999999996 23.25 24.0 39 26.474999999999998 25.1 24.85 23.575 40 26.625 23.1 24.775 25.5 41 26.174999999999997 25.275 23.7 24.85 42 25.55 25.95 24.05 24.45 43 26.75 24.349999999999998 24.85 24.05 44 25.775 25.825 23.175 25.224999999999998 45 26.35 24.975 24.349999999999998 24.325 46 26.200000000000003 25.4 24.725 23.674999999999997 47 27.175 25.324999999999996 23.45 24.05 48 25.95 25.1 24.95 24.0 49 25.825 25.374999999999996 24.4 24.4 50 27.675 25.424999999999997 23.825 23.075000000000003 51 25.575 23.974999999999998 23.549999999999997 26.900000000000002 52 26.3 24.925 23.799999999999997 24.975 53 26.700000000000003 24.575 23.474999999999998 25.25 54 25.324999999999996 25.05 23.575 26.05 55 26.1 24.3 25.95 23.65 56 27.500000000000004 24.975 23.674999999999997 23.849999999999998 57 25.224999999999998 25.674999999999997 24.375 24.725 58 26.200000000000003 25.55 24.25 24.0 59 26.450000000000003 25.374999999999996 23.575 24.6 60 26.075 24.8 24.675 24.45 61 27.224999999999998 25.2 23.325000000000003 24.25 62 26.775 25.025 23.674999999999997 24.525 63 26.125 24.975 25.6 23.3 64 27.125 23.95 24.125 24.8 65 25.806451612903224 25.581395348837212 23.705926481620406 24.90622655663916 66 26.10874467551992 25.482335254322226 24.65547481834127 23.753445251816586 67 27.016129032258064 24.39516129032258 24.495967741935484 24.092741935483872 68 26.609994848016488 22.48840803709428 25.090159711488923 25.811437403400312 69 27.578599007170435 20.077220077220076 26.282404853833423 26.061776061776058 70 30.866965620328852 0.0 34.60388639760837 34.52914798206278 >>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 0.5 13 1.0 14 0.5 15 0.0 16 0.0 17 0.0 18 0.5 19 0.5 20 0.0 21 0.5 22 1.0 23 1.0 24 0.5 25 1.0 26 4.0 27 6.0 28 7.5 29 12.0 30 15.0 31 16.5 32 26.5 33 35.0 34 39.0 35 52.5 36 85.5 37 109.0 38 112.5 39 146.0 40 176.0 41 179.5 42 202.5 43 222.0 44 229.0 45 262.0 46 265.0 47 242.0 48 232.0 49 215.5 50 209.0 51 209.0 52 195.5 53 182.0 54 175.0 55 157.5 56 138.5 57 130.0 58 126.5 59 116.0 60 109.0 61 110.5 62 102.5 63 93.0 64 82.5 65 78.0 66 86.0 67 88.0 68 78.0 69 59.0 70 50.0 71 48.0 72 44.0 73 42.0 74 39.5 75 29.5 76 18.0 77 14.0 78 9.0 79 2.5 80 1.0 81 1.0 82 0.5 83 0.0 84 0.0 85 0.5 86 0.5 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 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 0.0 62 0.0 63 0.0 64 0.0 65 0.025 66 0.22499999999999998 67 0.8 68 2.9499999999999997 69 9.35 70 33.1 >>END_MODULE >>Sequence Length Distribution pass #Length Count 70 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 99.325 #Duplication Level Percentage of deduplicated Percentage of total 1 99.39592247671784 98.725 2 0.5537377296753083 1.0999999999999999 3 0.025169896803423106 0.075 4 0.025169896803423106 0.1 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 379503 spots for ERR5052694.sra Written 379503 spots for ERR5052694.sra Read 379503 spots for ERR5052694.sra Written 379503 spots for ERR5052694.sra Read 379503 spots for ERR5052694.sra Written 379503 spots for ERR5052694.sra Read 379503 spots for ERR5052694.sra Written 379503 spots for ERR5052694.sra Read 379503 spots for ERR5052694.sra Written 379503 spots for ERR5052694.sra Read 379503 spots for ERR5052694.sra Written 379503 spots for ERR5052694.sra Read 379503 spots for ERR5052694.sra Written 379503 spots for ERR5052694.sra Read 379503 spots for ERR5052694.sra Written 379503 spots for ERR5052694.sra Read 379503 spots for ERR5052694.sra Written 379503 spots for ERR5052694.sra Read 379503 spots for ERR5052694.sra Written 379503 spots for ERR5052694.sra Read 379503 spots for ERR5052694.sra Written 379503 spots for ERR5052694.sra Read 379503 spots for ERR5052694.sra Written 379503 spots for ERR5052694.sra Read 379503 spots for ERR5052694.sra Written 379503 spots for ERR5052694.sra Read 379503 spots for ERR5052694.sra Written 379503 spots for ERR5052694.sra Read 379503 spots for ERR5052694.sra Written 379503 spots for ERR5052694.sra Read 379505 spots for ERR5052694.sra Written 379505 spots for ERR5052694.sra Read 379503 spots for ERR5052694.sra Written 379503 spots for ERR5052694.sra Read 379503 spots for ERR5052694.sra Written 379503 spots for ERR5052694.sra Read 379503 spots for ERR5052694.sra Written 379503 spots for ERR5052694.sra Read 379503 spots for ERR5052694.sra Written 379503 spots for ERR5052694.sra SRR ids: ['ERR5052694.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_63aayikb ERR5052694.sra spots: 7590062 blocks: [[1, 379503], [379504, 759006], [759007, 1138509], [1138510, 1518012], [1518013, 1897515], [1897516, 2277018], [2277019, 2656521], [2656522, 3036024], [3036025, 3415527], [3415528, 3795030], [3795031, 4174533], [4174534, 4554036], [4554037, 4933539], [4933540, 5313042], [5313043, 5692545], [5692546, 6072048], [6072049, 6451551], [6451552, 6831054], [6831055, 7210557], [7210558, 7590062]] ERR5052694 file size 1346845 ERR5052694 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 ERR5052694 ERR5052694_1.fastq ERR5052694_2.fastq Input file: ERR5052694_1.fastq Paired file: ERR5052694_2.fastq trimmed: ERR5052694-trimmed-pair1.fastq, ERR5052694-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 05:32:56 2024 >> started Tue Dec 10 05:33:03 2024 >> done (7.100s) 7590062 read pairs processed; of these: 0 ( 0.00%) short read pairs filtered out after trimming by size control 30 ( 0.00%) empty read pairs filtered out after trimming by size control 7590032 (100.00%) read pairs available; of these: 20 ( 0.00%) trimmed read pairs available after processing 7590012 (100.00%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 52 1 0.00% 53 0 0.00% 54 0 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 2 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 17 0.00% 70 7590012 100.00% 7590032 reads passed initial QC criterion=sequence-density sequence-density=0.10 sequence-density-rank=1 fanout-score=3.99 fanout-score-rank=22 prefix-density=0.13 prefix-fanout=3.0 sequence=GCTGCTGCAGCA criterion=fanout-score sequence-density=0.06 sequence-density-rank=7 fanout-score=157.51 fanout-score-rank=1 prefix-density=0.44 prefix-fanout=20.6 sequence=CTTCTTCTTGTC criterion=sequence-density sequence-density=0.35 sequence-density-rank=1 fanout-score=2.10 fanout-score-rank=26 prefix-density=0.35 prefix-fanout=2.1 sequence=CGGTTCCGGTTC criterion=fanout-score sequence-density=0.06 sequence-density-rank=21 fanout-score=202.34 fanout-score-rank=1 prefix-density=0.60 prefix-fanout=20.4 sequence=CGCCGCCGCCGTC ERR5052694 testing PE reads STAR mapping to Ensembl genome Started job on | Dec 10 05:33:43 Started mapping on | Dec 10 05:33:43 Finished on | Dec 10 05:34:02 Mapping speed, Million of reads per hour | 1438.11 Number of input reads | 7590032 Average input read length | 139 UNIQUE READS: Uniquely mapped reads number | 7175951 Uniquely mapped reads % | 94.54% Average mapped length | 138.74 Number of splices: Total | 3484239 Number of splices: Annotated (sjdb) | 3312157 Number of splices: GT/AG | 3439556 Number of splices: GC/AG | 39337 Number of splices: AT/AC | 1666 Number of splices: Non-canonical | 3680 Mismatch rate per base, % | 0.22% Deletion rate per base | 0.01% Deletion average length | 1.91 Insertion rate per base | 0.01% Insertion average length | 1.75 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 101687 % of reads mapped to multiple loci | 1.34% Number of reads mapped to too many loci | 14193 % of reads mapped to too many loci | 0.19% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 3.41% % of reads unmapped: other | 0.52% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 312394 312394 312394 N_multimapping 101687 101687 101687 N_noFeature 217798 6997662 260843 N_ambiguous 159958 625 25048 UnstrandedReadsAssigned:6798195 PositiveStrandReadsAssigned:177664 NegativeStrandReadsAssigned:6890060 Dataset is classified negative stranded MeadianReadLen=70 20thPercentileLength=70 echo kmer=65 ERR5052694 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: ERR5052694-trimmed-pair1.fastq ERR5052694-trimmed-pair2.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 7,590,032 reads, 7,076,907 reads pseudoaligned [quant] estimated average fragment length: 178.053 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,266 rounds 52973 ERR5052694.ke.tsv 35125 ERR5052694.se.tsv 88098 total ==> ERR5052694.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 759.22 17.3203 4.70001 PNS24247 1044 866.947 24.1429 5.7373 PNS24249 1928 1750.95 64.063 7.53781 PNS24246 1044 866.947 24.1429 5.7373 PNS24248 1044 866.947 24.1429 5.7373 PNS24244 1471 1293.95 33.1881 5.28418 PNS24243 293 125.701 0 0 KQK14069 1603 1425.95 10026.8 1448.67 KQK14071 474 299.35 411.827 283.43 ==> ERR5052694.se.tsv <== BRADI_1g14170v3 10997 BRADI_1g53295v3 42 BRADI_1g59795v3 302 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 341 BRADI_1g74790v3 136 BRADI_1g09890v3 0 BRADI_1g77505v3 191 BRADI_1g48960v3 0 ERR5052694 completed mapping pipeline successfully