Starting /dee2/code/volunteer_pipeline.sh ERR10610830 current disk space = 1549515481088 free memory = 1598262560 ERR10610830 SRAfilesize d5c369014ac1bcc981949bf2f13dc2c6 ERR10610830.sra ERR10610830.sra file validated ERR10610830 is paired end ERR10610830 is conventional basespace ERR10610830 read1 length is 101 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR10610830_1.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 101 %GC 47 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 27.48525 31.0 18.0 33.0 18.0 33.0 2 29.4415 31.0 28.0 33.0 18.0 33.0 3 29.957 33.0 29.0 33.0 18.0 33.0 4 30.34125 33.0 31.0 33.0 25.0 33.0 5 30.4135 33.0 31.0 33.0 25.0 34.0 6 32.10925 36.0 29.0 38.0 16.0 38.0 7 32.47425 37.0 29.0 38.0 16.0 38.0 8 33.61025 37.0 33.0 38.0 16.0 38.0 9 33.34075 38.0 32.0 38.0 16.0 38.0 10-11 30.729 35.0 23.0 38.0 16.0 38.0 12-13 33.244625 37.5 31.0 38.0 16.0 38.0 14-15 33.727374999999995 38.0 33.5 38.0 16.0 38.0 16-17 33.918875 38.0 34.0 38.0 16.0 38.0 18-19 34.092375 38.0 34.0 38.0 16.0 38.0 20-21 33.705625 38.0 33.5 38.0 16.0 38.0 22-23 33.909375 38.0 33.5 38.0 16.0 38.0 24-25 34.00775 38.0 34.0 38.0 16.0 38.0 26-27 33.909375 38.0 34.0 38.0 16.0 38.0 28-29 33.676500000000004 38.0 33.5 38.0 16.0 38.0 30-31 33.078625 38.0 30.0 38.0 16.0 38.0 32-33 33.634125 38.0 33.0 38.0 16.0 38.0 34-35 33.888125 38.0 34.0 38.0 16.0 38.0 36-37 33.804625 38.0 34.0 38.0 16.0 38.0 38-39 33.80775 38.0 34.0 38.0 16.0 38.0 40-41 33.78225 38.0 33.5 38.0 16.0 38.0 42-43 34.079750000000004 38.0 34.0 38.0 20.0 38.0 44-45 33.875875 38.0 34.0 38.0 16.0 38.0 46-47 33.8585 38.0 34.0 38.0 16.0 38.0 48-49 33.87575 38.0 34.0 38.0 16.0 38.0 50-51 33.93375 38.0 34.0 38.0 16.0 38.0 52-53 33.885999999999996 38.0 33.5 38.0 20.0 38.0 54-55 33.982124999999996 38.0 34.0 38.0 16.0 38.0 56-57 33.97025 38.0 34.0 38.0 16.0 38.0 58-59 33.97425 38.0 34.0 38.0 16.0 38.0 60-61 34.157375 38.0 34.0 38.0 24.0 38.0 62-63 34.20975 38.0 34.0 38.0 20.0 38.0 64-65 34.208 38.0 34.0 38.0 20.0 38.0 66-67 34.125625 38.0 34.0 38.0 20.0 38.0 68-69 33.96825 38.0 34.0 38.0 16.0 38.0 70-71 34.03125 38.0 34.0 38.0 20.0 38.0 72-73 34.0255 38.0 34.0 38.0 16.0 38.0 74-75 34.065749999999994 38.0 34.0 38.0 16.0 38.0 76-77 34.087375 38.0 34.0 38.0 16.0 38.0 78-79 33.966125000000005 38.0 34.0 38.0 16.0 38.0 80-81 34.160250000000005 38.0 34.0 38.0 20.0 38.0 82-83 33.896 38.0 34.0 38.0 16.0 38.0 84-85 33.867125 38.0 34.0 38.0 16.0 38.0 86-87 34.013125 38.0 34.0 38.0 16.0 38.0 88-89 33.960625 38.0 34.0 38.0 20.0 38.0 90-91 33.852000000000004 38.0 34.0 38.0 15.5 38.0 92-93 33.569 38.0 33.5 38.0 15.5 38.0 94-95 33.676 38.0 33.5 38.0 15.5 38.0 96-97 33.907624999999996 38.0 34.0 38.0 18.5 38.0 98-99 33.833875 38.0 34.0 38.0 19.0 38.0 100-101 32.876625000000004 37.5 31.5 38.0 15.0 38.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 17 2.0 18 15.0 19 50.0 20 46.0 21 49.0 22 57.0 23 66.0 24 66.0 25 83.0 26 84.0 27 93.0 28 98.0 29 98.0 30 132.0 31 143.0 32 173.0 33 232.0 34 257.0 35 382.0 36 672.0 37 1202.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 32.459016393442624 9.962168978562422 10.567465321563683 47.01134930643127 2 23.400000000000002 15.65 39.45 21.5 3 20.875 18.35 23.549999999999997 37.225 4 24.7 26.674999999999997 23.025000000000002 25.6 5 24.5 30.525000000000002 25.724999999999998 19.25 6 19.30482620655164 33.05826456614154 25.806451612903224 21.8304576144036 7 17.029257314328582 21.180295073768445 41.46036509127281 20.330082520630157 8 19.875 22.15 31.15 26.825 9 19.2 21.575 33.775 25.45 10-11 22.0625 29.7125 24.55 23.674999999999997 12-13 21.792948237059264 23.618404601150285 28.069517379344838 26.51912978244561 14-15 21.417854463615903 25.681420355088775 27.544386096524132 25.35633908477119 16-17 22.55563890972743 25.568892223055762 26.91922980745186 24.956239059764943 18-19 22.543135783945985 25.818954738684667 26.431607901975497 25.206301575393848 20-21 22.85571392848212 25.23130782695674 26.019004751187797 25.893973493373345 22-23 21.727715964495562 26.253281660207527 26.8533566695837 25.165645705713214 24-25 22.26528316039505 25.815726965870734 26.015751968996128 25.90323790473809 26-27 21.590198774846854 26.340792599074884 27.365920740092513 24.70308788598575 28-29 22.327790973871732 26.578322290286287 26.178272284035504 24.915614451806476 30-31 21.3125 25.9875 27.025 25.674999999999997 32-33 21.8 26.1125 26.3125 25.775 34-35 22.375 27.1 25.9875 24.5375 36-37 22.475 25.85 26.387500000000003 25.2875 38-39 22.112499999999997 26.1625 25.775 25.95 40-41 22.1375 26.237500000000004 26.575 25.05 42-43 22.575 25.112499999999997 26.687499999999996 25.624999999999996 44-45 22.25 25.687500000000004 27.287499999999998 24.775 46-47 21.875 25.900000000000002 27.525 24.7 48-49 21.8875 25.5125 26.987499999999997 25.6125 50-51 22.287499999999998 26.937499999999996 25.7 25.074999999999996 52-53 22.225 26.450000000000003 25.45 25.874999999999996 54-55 22.15 25.650000000000002 26.9125 25.2875 56-57 22.75 25.7375 26.4625 25.05 58-59 22.9875 26.900000000000002 25.0625 25.05 60-61 21.975 25.662499999999998 25.5375 26.825 62-63 23.0125 26.075 26.174999999999997 24.7375 64-65 23.1125 25.45 26.1125 25.324999999999996 66-67 23.0125 26.724999999999998 25.15 25.112499999999997 68-69 23.4125 26.200000000000003 25.8 24.587500000000002 70-71 23.400000000000002 25.4875 25.2625 25.85 72-73 22.112499999999997 26.275 26.55 25.0625 74-75 22.3375 25.5125 26.55 25.6 76-77 22.3125 26.6125 26.325 24.75 78-79 22.4375 25.1 26.125 26.337500000000002 80-81 22.8 24.7375 27.1 25.362499999999997 82-83 23.125 26.087500000000002 25.8 24.9875 84-85 23.425 25.75 25.112499999999997 25.7125 86-87 23.400000000000002 25.0125 27.1 24.4875 88-89 23.75 25.45 25.474999999999998 25.324999999999996 90-91 22.85 26.187500000000004 24.9375 26.025 92-93 22.22777847230904 26.253281660207527 26.540817602200274 24.978122265283158 94-95 23.3 26.8375 25.0375 24.825 96-97 23.549999999999997 25.874999999999996 25.087500000000002 25.4875 98-99 23.2875 26.424999999999997 25.4 24.887500000000003 100-101 24.15 25.687500000000004 24.9875 25.174999999999997 >>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 0.0 25 0.5 26 1.0 27 1.5 28 1.5 29 3.0 30 4.0 31 5.0 32 10.0 33 16.0 34 24.0 35 39.0 36 45.0 37 63.0 38 92.5 39 117.5 40 137.5 41 159.5 42 189.0 43 210.5 44 220.0 45 219.5 46 224.0 47 215.5 48 195.5 49 186.0 50 175.0 51 158.5 52 146.0 53 133.5 54 121.5 55 116.0 56 104.0 57 98.0 58 93.5 59 78.0 60 72.5 61 70.5 62 57.5 63 45.0 64 40.0 65 31.5 66 28.5 67 21.5 68 10.0 69 7.0 70 6.5 71 3.5 72 0.5 73 0.0 74 0.0 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 0.0 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 0.8750000000000001 2 0.0 3 0.0 4 0.0 5 0.0 6 0.025 7 0.025 8 0.0 9 0.0 10-11 0.0 12-13 0.025 14-15 0.025 16-17 0.025 18-19 0.025 20-21 0.025 22-23 0.0125 24-25 0.0125 26-27 0.0125 28-29 0.0125 30-31 0.0 32-33 0.0 34-35 0.0 36-37 0.0 38-39 0.0 40-41 0.0 42-43 0.0 44-45 0.0 46-47 0.0 48-49 0.0 50-51 0.0 52-53 0.0 54-55 0.0 56-57 0.0 58-59 0.0 60-61 0.0 62-63 0.0 64-65 0.0 66-67 0.0 68-69 0.0 70-71 0.0 72-73 0.0 74-75 0.0 76-77 0.0 78-79 0.0 80-81 0.0 82-83 0.0 84-85 0.0 86-87 0.0 88-89 0.0 90-91 0.0 92-93 0.0125 94-95 0.0 96-97 0.0 98-99 0.0 100-101 0.0 >>END_MODULE >>Sequence Length Distribution pass #Length Count 101 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 99.275 #Duplication Level Percentage of deduplicated Percentage of total 1 99.32007051120625 98.6 2 0.6295643414756988 1.25 3 0.0503651473180559 0.15 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 10-11 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 0.0125 0.0 0.0 46-47 0.0 0.0 0.025 0.0 0.0 48-49 0.0 0.0 0.025 0.0 0.0 50-51 0.0 0.0 0.025 0.0 0.0 52-53 0.0 0.0 0.025 0.0 0.0 54-55 0.0 0.0 0.025 0.0 0.0 56-57 0.025 0.0 0.025 0.0 0.0 58-59 0.025 0.0 0.025 0.0 0.0 60-61 0.05 0.0 0.025 0.0 0.0 62-63 0.05 0.0 0.025 0.0 0.0 64-65 0.0875 0.0 0.025 0.0 0.0 66-67 0.125 0.0 0.025 0.0 0.0 68-69 0.125 0.0 0.025 0.0 0.0 70-71 0.15 0.0 0.025 0.0 0.0 72-73 0.2 0.0 0.025 0.0 0.0 74-75 0.2875 0.0 0.025 0.0 0.0 76-77 0.35 0.0 0.025 0.0 0.0 78-79 0.4 0.0 0.025 0.0 0.0 80-81 0.5125 0.0 0.025 0.0 0.0 82-83 0.625 0.0 0.025 0.0 0.0 84-85 0.875 0.0 0.025 0.0 0.0 86-87 1.1375 0.0 0.025 0.0 0.0 88-89 1.375 0.0 0.025 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE ERR10610830 read2 length is 101 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR10610830_2.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 101 %GC 48 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 29.66325 33.0 28.0 33.0 18.0 34.0 2 30.16425 33.0 30.0 33.0 18.0 34.0 3 30.27725 33.0 31.0 33.0 18.0 34.0 4 29.929 33.0 31.0 33.0 15.0 34.0 5 29.86 33.0 31.0 33.0 15.0 34.0 6 33.349 38.0 32.0 38.0 16.0 38.0 7 33.729 38.0 33.0 38.0 16.0 38.0 8 33.4265 38.0 33.0 38.0 16.0 38.0 9 33.52525 38.0 33.0 38.0 16.0 38.0 10-11 33.424375 38.0 33.0 38.0 16.0 38.0 12-13 33.530375 38.0 33.0 38.0 16.0 38.0 14-15 33.491249999999994 38.0 33.0 38.0 16.0 38.0 16-17 32.733374999999995 37.5 31.0 38.0 16.0 38.0 18-19 33.336 37.5 32.0 38.0 16.0 38.0 20-21 33.430625 38.0 33.0 38.0 16.0 38.0 22-23 33.317 38.0 32.0 38.0 16.0 38.0 24-25 33.488749999999996 38.0 33.0 38.0 16.0 38.0 26-27 33.180375 38.0 31.5 38.0 16.0 38.0 28-29 33.010875 38.0 31.0 38.0 16.0 38.0 30-31 33.291875000000005 38.0 33.0 38.0 16.0 38.0 32-33 33.376625000000004 38.0 33.0 38.0 16.0 38.0 34-35 33.631625 38.0 33.0 38.0 16.0 38.0 36-37 33.328500000000005 38.0 32.0 38.0 16.0 38.0 38-39 33.5895 38.0 33.0 38.0 16.0 38.0 40-41 33.517250000000004 38.0 33.5 38.0 16.0 38.0 42-43 33.17725 38.0 31.0 38.0 16.0 38.0 44-45 33.399875 38.0 33.0 38.0 16.0 38.0 46-47 33.403375 38.0 33.0 38.0 16.0 38.0 48-49 33.57125 38.0 33.0 38.0 16.0 38.0 50-51 33.325375 38.0 32.0 38.0 16.0 38.0 52-53 33.29975 38.0 33.0 38.0 16.0 38.0 54-55 33.301249999999996 38.0 32.0 38.0 16.0 38.0 56-57 33.231625 38.0 32.5 38.0 16.0 38.0 58-59 33.457499999999996 38.0 33.0 38.0 16.0 38.0 60-61 33.446124999999995 38.0 33.0 38.0 16.0 38.0 62-63 33.16575 38.0 32.0 38.0 16.0 38.0 64-65 33.303625 38.0 33.0 38.0 16.0 38.0 66-67 33.312250000000006 38.0 32.0 38.0 16.0 38.0 68-69 33.36725 38.0 33.0 38.0 16.0 38.0 70-71 33.368125000000006 38.0 33.0 38.0 16.0 38.0 72-73 33.37875 38.0 33.0 38.0 16.0 38.0 74-75 33.319874999999996 38.0 33.0 38.0 16.0 38.0 76-77 33.26475 38.0 33.0 38.0 16.0 38.0 78-79 33.11225 38.0 32.0 38.0 16.0 38.0 80-81 33.246750000000006 38.0 32.5 38.0 16.0 38.0 82-83 33.173249999999996 38.0 32.0 38.0 15.5 38.0 84-85 33.221625 38.0 32.0 38.0 15.5 38.0 86-87 33.091375 38.0 32.0 38.0 15.0 38.0 88-89 33.0275 38.0 32.0 38.0 15.0 38.0 90-91 33.101625 38.0 32.0 38.0 15.0 38.0 92-93 33.141 38.0 33.0 38.0 15.0 38.0 94-95 33.028999999999996 38.0 32.5 38.0 15.0 38.0 96-97 32.915000000000006 37.5 31.0 38.0 15.0 38.0 98-99 33.146249999999995 38.0 33.0 38.0 15.0 38.0 100-101 31.82225 36.5 28.0 38.0 15.0 38.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 16 2.0 17 7.0 18 30.0 19 48.0 20 57.0 21 75.0 22 65.0 23 93.0 24 71.0 25 82.0 26 100.0 27 94.0 28 104.0 29 118.0 30 152.0 31 157.0 32 180.0 33 199.0 34 255.0 35 351.0 36 530.0 37 1230.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 28.299999999999997 15.950000000000001 13.925 41.825 2 27.474999999999998 20.925 33.650000000000006 17.95 3 21.825 24.0 28.325 25.85 4 25.874999999999996 30.349999999999998 19.85 23.925 5 27.875 32.675 20.825 18.625 6 23.075000000000003 35.099999999999994 21.725 20.1 7 20.325 17.25 38.75 23.674999999999997 8 23.65 20.825 26.3 29.225 9 23.425 22.55 28.225 25.8 10-11 25.8625 28.262500000000003 20.7625 25.112499999999997 12-13 25.025 23.025000000000002 26.150000000000002 25.8 14-15 25.912499999999998 24.462500000000002 25.362499999999997 24.2625 16-17 26.724999999999998 25.4375 24.575 23.2625 18-19 26.237500000000004 25.7 24.712500000000002 23.35 20-21 25.0375 25.95 26.0625 22.95 22-23 24.6125 26.125 24.6625 24.6 24-25 25.587500000000002 25.474999999999998 25.4875 23.45 26-27 25.137500000000003 26.825 24.474999999999998 23.5625 28-29 26.3125 25.1875 25.324999999999996 23.175 30-31 24.975 25.650000000000002 25.3125 24.0625 32-33 25.337500000000002 26.0 25.7125 22.95 34-35 26.0 25.362499999999997 25.1 23.5375 36-37 24.9875 25.4 25.825 23.7875 38-39 25.378172271533945 25.365670708838607 26.24078009751219 23.015376922115262 40-41 25.778222277784725 25.91573946743343 24.415551943992998 23.89048631078885 42-43 24.9875 25.4 25.674999999999997 23.9375 44-45 25.418854713678417 25.756439109777446 25.831457864466117 22.99324831207802 46-47 26.0 25.087500000000002 24.95 23.962500000000002 48-49 24.5375 26.700000000000003 25.362499999999997 23.400000000000002 50-51 26.075 25.825 24.975 23.125 52-53 25.2 25.1 25.837500000000002 23.8625 54-55 25.5375 25.05 25.937500000000004 23.474999999999998 56-57 24.425 26.125 25.6125 23.8375 58-59 25.575 25.575 25.624999999999996 23.225 60-61 24.837500000000002 26.825 25.6125 22.725 62-63 26.09457092819615 25.83187390542907 24.856142106579934 23.217413059794847 64-65 26.319739804853644 25.956967725794343 25.31898924193145 22.404303227420566 66-67 24.637500000000003 25.4 26.4125 23.549999999999997 68-69 25.30949105914718 26.47242716018507 25.75965987245217 22.45842190821558 70-71 25.5125 26.625 24.875 22.9875 72-73 25.324999999999996 26.2625 25.3125 23.1 74-75 26.125 25.75 25.9875 22.1375 76-77 25.15 26.400000000000002 24.9125 23.5375 78-79 25.7125 26.0625 25.424999999999997 22.8 80-81 24.878109763720467 27.040880110013752 25.57819727465933 22.502812851606453 82-83 25.2375 26.474999999999998 25.2625 23.025000000000002 84-85 24.85 25.575 26.1125 23.4625 86-87 25.11255627813907 26.650825412706354 25.937968984492244 22.298649324662332 88-89 25.887500000000003 26.1625 25.087500000000002 22.8625 90-91 24.296611229210953 26.34738026760035 26.50994122796049 22.84606727522821 92-93 25.2875 26.637499999999996 26.0 22.075 94-95 25.95 26.187500000000004 25.124999999999996 22.7375 96-97 24.9875 26.275 25.95 22.787499999999998 98-99 26.075 26.075 25.912499999999998 21.9375 100-101 26.6125 25.937500000000004 25.2375 22.2125 >>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 0.5 21 0.5 22 0.0 23 0.0 24 0.5 25 1.0 26 1.5 27 2.5 28 1.5 29 1.5 30 2.5 31 4.0 32 5.0 33 9.5 34 16.0 35 25.0 36 42.5 37 65.5 38 82.0 39 105.0 40 128.5 41 154.0 42 172.0 43 187.5 44 187.5 45 191.0 46 208.5 47 198.5 48 197.0 49 195.5 50 177.0 51 165.5 52 169.0 53 152.5 54 132.0 55 123.0 56 110.0 57 109.5 58 113.0 59 97.5 60 84.5 61 67.0 62 54.0 63 52.5 64 45.5 65 47.0 66 38.5 67 24.5 68 19.5 69 12.5 70 7.5 71 5.5 72 3.5 73 2.0 74 0.5 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 0.0 3 0.0 4 0.0 5 0.0 6 0.0 7 0.0 8 0.0 9 0.0 10-11 0.0 12-13 0.0 14-15 0.0 16-17 0.0 18-19 0.0 20-21 0.0 22-23 0.0 24-25 0.0 26-27 0.0 28-29 0.0 30-31 0.0 32-33 0.0 34-35 0.0 36-37 0.0 38-39 0.0125 40-41 0.0125 42-43 0.0 44-45 0.025 46-47 0.0 48-49 0.0 50-51 0.0 52-53 0.0 54-55 0.0 56-57 0.0 58-59 0.0 60-61 0.0 62-63 0.075 64-65 0.075 66-67 0.0 68-69 0.0375 70-71 0.0 72-73 0.0 74-75 0.0 76-77 0.0 78-79 0.0 80-81 0.0125 82-83 0.0 84-85 0.0 86-87 0.05 88-89 0.0 90-91 0.0375 92-93 0.0 94-95 0.0 96-97 0.0 98-99 0.0 100-101 0.0 >>END_MODULE >>Sequence Length Distribution pass #Length Count 101 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 99.35000000000001 #Duplication Level Percentage of deduplicated Percentage of total 1 99.39607448414695 98.75 2 0.5535983895319577 1.0999999999999999 3 0.050327126321087066 0.15 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 10-11 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 0.025 0.0 0.0 0.0 0.0 58-59 0.025 0.0 0.0 0.0 0.0 60-61 0.0625 0.0 0.0 0.0 0.0 62-63 0.075 0.0 0.0 0.0 0.0 64-65 0.11249999999999999 0.0 0.0 0.0 0.0 66-67 0.15 0.0 0.0 0.0 0.0 68-69 0.15 0.0 0.0 0.0 0.0 70-71 0.175 0.0 0.0 0.0 0.0 72-73 0.225 0.0 0.0 0.0 0.0 74-75 0.3125 0.0 0.0 0.0 0.0 76-77 0.375 0.0 0.0 0.0 0.0 78-79 0.425 0.0 0.0 0.0 0.0 80-81 0.5375 0.0 0.0 0.0 0.0 82-83 0.6499999999999999 0.0 0.0 0.0 0.0 84-85 0.9 0.0 0.0 0.0 0.0 86-87 1.1625 0.0 0.0 0.0 0.0 88-89 1.4 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Read 861427 spots for ERR10610830.sra Written 861427 spots for ERR10610830.sra Read 861427 spots for ERR10610830.sra Written 861427 spots for ERR10610830.sra Read 861427 spots for ERR10610830.sra Written 861427 spots for ERR10610830.sra Read 861427 spots for ERR10610830.sra Written 861427 spots for ERR10610830.sra Read 861427 spots for ERR10610830.sra Written 861427 spots for ERR10610830.sra Read 861427 spots for ERR10610830.sra Written 861427 spots for ERR10610830.sra Read 861427 spots for ERR10610830.sra Written 861427 spots for ERR10610830.sra Read 861427 spots for ERR10610830.sra Written 861427 spots for ERR10610830.sra Read 861427 spots for ERR10610830.sra Written 861427 spots for ERR10610830.sra Read 861427 spots for ERR10610830.sra Written 861427 spots for ERR10610830.sra Read 861427 spots for ERR10610830.sra Written 861427 spots for ERR10610830.sra Read 861427 spots for ERR10610830.sra Written 861427 spots for ERR10610830.sra Read 861427 spots for ERR10610830.sra Written 861427 spots for ERR10610830.sra Read 861427 spots for ERR10610830.sra Written 861427 spots for ERR10610830.sra Read 861427 spots for ERR10610830.sra Written 861427 spots for ERR10610830.sra Read 861427 spots for ERR10610830.sra Written 861427 spots for ERR10610830.sra Read 861435 spots for ERR10610830.sra Written 861435 spots for ERR10610830.sra Read 861427 spots for ERR10610830.sra Written 861427 spots for ERR10610830.sra Read 861427 spots for ERR10610830.sra Written 861427 spots for ERR10610830.sra Read 861427 spots for ERR10610830.sra Written 861427 spots for ERR10610830.sra SRR ids: ['ERR10610830.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_dpn0z9xg ERR10610830.sra spots: 17228548 blocks: [[1, 861427], [861428, 1722854], [1722855, 2584281], [2584282, 3445708], [3445709, 4307135], [4307136, 5168562], [5168563, 6029989], [6029990, 6891416], [6891417, 7752843], [7752844, 8614270], [8614271, 9475697], [9475698, 10337124], [10337125, 11198551], [11198552, 12059978], [12059979, 12921405], [12921406, 13782832], [13782833, 14644259], [14644260, 15505686], [15505687, 16367113], [16367114, 17228548]] ERR10610830 file size 4150838 ERR10610830 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 ERR10610830 ERR10610830_1.fastq ERR10610830_2.fastq Input file: ERR10610830_1.fastq Paired file: ERR10610830_2.fastq trimmed: ERR10610830-trimmed-pair1.fastq, ERR10610830-trimmed-pair2.fastq Parameters used: -- 3' end adapter sequence (-x): AGATCGGAAGAGCACACGTCTGAACTCCAGTCAC -- paired 3' end adapter sequence (-y): AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTA -- maximum error ratio allowed (-r): 0.100 -- maximum indel error ratio allowed (-d): 0.030 -- end quality threshold (-q): 10 -- minimum read length allowed after trimming (-l): 18 -- file format (-f): Sanger/Illumina 1.8+ FASTQ -- number of concurrent threads (-t): 20 Fri Dec 6 20:29:50 2024 >> started Fri Dec 6 20:30:05 2024 >> done (15.144s) 17228548 read pairs processed; of these: 66 ( 0.00%) short read pairs filtered out after trimming by size control 1147 ( 0.01%) empty read pairs filtered out after trimming by size control 17227335 (99.99%) read pairs available; of these: 830004 ( 4.82%) trimmed read pairs available after processing 16397331 (95.18%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 19 1 0.00% 20 5 0.00% 21 2 0.00% 22 1 0.00% 23 4 0.00% 24 5 0.00% 25 1 0.00% 26 6 0.00% 27 5 0.00% 28 5 0.00% 29 13 0.00% 30 13 0.00% 31 25 0.00% 32 25 0.00% 33 36 0.00% 34 45 0.00% 35 47 0.00% 36 52 0.00% 37 86 0.00% 38 67 0.00% 39 85 0.00% 40 121 0.00% 41 137 0.00% 42 160 0.00% 43 183 0.00% 44 195 0.00% 45 195 0.00% 46 221 0.00% 47 311 0.00% 48 347 0.00% 49 407 0.00% 50 442 0.00% 51 461 0.00% 52 526 0.00% 53 535 0.00% 54 660 0.00% 55 709 0.00% 56 765 0.00% 57 898 0.01% 58 1049 0.01% 59 1162 0.01% 60 1331 0.01% 61 1523 0.01% 62 1690 0.01% 63 1869 0.01% 64 2090 0.01% 65 2313 0.01% 66 2544 0.01% 67 2851 0.02% 68 3080 0.02% 69 3450 0.02% 70 3757 0.02% 71 4381 0.03% 72 4850 0.03% 73 5706 0.03% 74 6151 0.04% 75 7065 0.04% 76 7873 0.05% 77 8590 0.05% 78 9634 0.06% 79 10721 0.06% 80 11588 0.07% 81 12995 0.08% 82 14429 0.08% 83 15987 0.09% 84 17755 0.10% 85 20061 0.12% 86 21995 0.13% 87 24188 0.14% 88 26516 0.15% 89 28692 0.17% 90 31022 0.18% 91 34384 0.20% 92 36837 0.21% 93 40173 0.23% 94 43887 0.25% 95 47362 0.27% 96 51081 0.30% 97 56158 0.33% 98 60145 0.35% 99 64480 0.37% 100 68787 0.40% 101 16397331 95.18% 17227335 reads passed initial QC criterion=sequence-density sequence-density=0.41 sequence-density-rank=1 fanout-score=3.18 fanout-score-rank=23 prefix-density=0.42 prefix-fanout=3.1 sequence=GTGGCGTCGGTGCACCCGAACATGGGCAG criterion=fanout-score sequence-density=0.01 sequence-density-rank=33 fanout-score=81.50 fanout-score-rank=1 prefix-density=0.18 prefix-fanout=2.5 sequence=TCTTGATGAAAATGGTATTATAATTATATAGTTGATGTCTTTTGGTCACAAGACGACCAAATTACGCATCACAAGTACAACCCCGCGTCAGAAAATGGTAGAAACTTCTATTGCTTATTACAAATTCACATCGAGCCATCCGGCATGCAGTACTGGAAAATAGCGAGTACATATACTCCATGGCATCGCATCCACATCAATGGATCGATCTGTAGGGTCATCTCCATATCTGTATGTATAAGTATACGTTGTATGTATAGGAGTTAACCGGATGAGAGGACTTAGAGCGCCCATGTGTCGAACTTGCCGGAGACGAAGTCGTAGTGGCCGCCCACGAGCTTGAGGGTTCCGTTGGCGACGCCTTCCTTGACGAACGGGTAGGTCTTGAGGTTCTCGAGGGACACGTTCACGGCCTCCTTTTCCAAGACGGCGCATTGGTCATCGAAAGGCATGGAGGCGCACTCGGTCTGCACCTTCTTCTTGGCCGGGAACCCGATCCTGACCCAGTCCT criterion=sequence-density sequence-density=0.38 sequence-density-rank=1 fanout-score=3.24 fanout-score-rank=23 prefix-density=0.41 prefix-fanout=3.0 sequence=GAGTTCAGCAAGGTCGGCTT criterion=fanout-score sequence-density=0.01 sequence-density-rank=30 fanout-score=64.03 fanout-score-rank=1 prefix-density=0.12 prefix-fanout=5.2 sequence=AGGCTGCAATTGCAAGCTTGTGTCAAAGAAGAGGGTAGCACCTGATCCTCTTGCCTTTGGAGCCAGAAACAATGGCCTCGGCTACTATCCTCAAATCGTCTTTCCTTCCCAAGAAGTCCGAATGGGGCGCCACCCGCCAGGCTGCCACTCCCAAGCAGATGACCGTCTCCATGGTTGTCCGTGCCAGCGCATACGCTGATGAACTTGTCAAGACCGCGAAAACCATCGCATCACCAGGAAGGGGCATCCTAGCCATGGATGAGTCCAATGCTACCTGTGGAAAGAGACTTGACTCGATTGGCCTTGAGAACACTGAGGCTAACCGCCAGGCTTACCGTACCCTCCTTGTCACTCCACCAGGCCTGGGAAATTACATCTCTGGTGCTATCCTCTTCGAGGAGACCCTCTACCAATCGACTGTTGATGGCAAGAAGATTGTTGACATCCTTGTCGAGCAGGGAATCGTTCCCGGCATCAAGGTTGACAAGGGTCTTGTGCCACTCGTTGGTTC ERR10610830 testing PE reads STAR mapping to Ensembl genome Started job on | Dec 06 20:30:41 Started mapping on | Dec 06 20:30:42 Finished on | Dec 06 20:34:58 Mapping speed, Million of reads per hour | 242.26 Number of input reads | 17227335 Average input read length | 200 UNIQUE READS: Uniquely mapped reads number | 15537842 Uniquely mapped reads % | 90.19% Average mapped length | 199.49 Number of splices: Total | 10860035 Number of splices: Annotated (sjdb) | 10240681 Number of splices: GT/AG | 10704146 Number of splices: GC/AG | 132739 Number of splices: AT/AC | 3612 Number of splices: Non-canonical | 19538 Mismatch rate per base, % | 0.96% Deletion rate per base | 0.02% Deletion average length | 2.30 Insertion rate per base | 0.02% Insertion average length | 2.11 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 343636 % of reads mapped to multiple loci | 1.99% Number of reads mapped to too many loci | 15396 % of reads mapped to too many loci | 0.09% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 7.02% % of reads unmapped: other | 0.71% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 1345857 1345857 1345857 N_multimapping 343636 343636 343636 N_noFeature 559986 15117338 651606 N_ambiguous 380869 1401 52879 UnstrandedReadsAssigned:14596987 PositiveStrandReadsAssigned:419103 NegativeStrandReadsAssigned:14833357 Dataset is classified negative stranded MeadianReadLen=101 20thPercentileLength=101 echo kmer=97 ERR10610830 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: ERR10610830-trimmed-pair1.fastq ERR10610830-trimmed-pair2.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 17,227,335 reads, 15,154,171 reads pseudoaligned [quant] estimated average fragment length: 165.052 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,166 rounds 52973 ERR10610830.ke.tsv 35125 ERR10610830.se.tsv 88098 total ==> ERR10610830.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 772.059 0 0 PNS24247 1044 879.948 33.8982 3.81721 PNS24249 1928 1763.95 22.9378 1.28852 PNS24246 1044 879.948 33.8982 3.81721 PNS24248 1044 879.948 33.8982 3.81721 PNS24244 1471 1306.95 80.3675 6.09325 PNS24243 293 135.777 0 0 KQK14069 1603 1438.95 1589.25 109.44 KQK14071 474 311.221 39.1558 12.4668 ==> ERR10610830.se.tsv <== BRADI_1g14170v3 1748 BRADI_1g53295v3 845 BRADI_1g59795v3 123 BRADI_1g07683v3 0 BRADI_1g00485v3 3 BRADI_1g20270v3 269 BRADI_1g74790v3 155 BRADI_1g09890v3 0 BRADI_1g77505v3 398 BRADI_1g48960v3 0 ERR10610830 completed mapping pipeline successfully