Starting /dee2/code/volunteer_pipeline.sh ERR10610852 current disk space = 1549129543680 free memory = 1414358352 ERR10610852 SRAfilesize 7ffd78c5a2df99a3d120c6c74c109137 ERR10610852.sra ERR10610852.sra file validated ERR10610852 is paired end ERR10610852 is conventional basespace ERR10610852 read1 length is 101 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR10610852_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 27.73575 32.0 18.0 33.0 18.0 33.0 2 29.5635 31.0 28.0 33.0 18.0 33.0 3 30.09 33.0 29.0 33.0 18.0 33.0 4 30.49275 33.0 31.0 33.0 25.0 34.0 5 30.57 33.0 31.0 33.0 25.0 34.0 6 32.34575 36.0 29.0 38.0 16.0 38.0 7 32.65775 37.0 29.0 38.0 16.0 38.0 8 33.712 38.0 33.0 38.0 16.0 38.0 9 33.4815 38.0 33.0 38.0 16.0 38.0 10-11 30.689749999999997 35.0 23.0 38.0 16.0 38.0 12-13 33.49025 37.5 32.0 38.0 16.0 38.0 14-15 33.911375 38.0 34.0 38.0 16.0 38.0 16-17 34.101625 38.0 34.0 38.0 20.5 38.0 18-19 34.11225 38.0 34.0 38.0 16.0 38.0 20-21 33.897875 38.0 34.0 38.0 16.0 38.0 22-23 33.892375 38.0 33.5 38.0 16.0 38.0 24-25 33.938500000000005 38.0 34.0 38.0 16.0 38.0 26-27 33.9725 38.0 34.0 38.0 16.0 38.0 28-29 33.729 38.0 33.5 38.0 16.0 38.0 30-31 33.305499999999995 38.0 32.0 38.0 16.0 38.0 32-33 33.685375 38.0 33.5 38.0 16.0 38.0 34-35 33.9845 38.0 34.0 38.0 16.0 38.0 36-37 33.871375 38.0 34.0 38.0 16.0 38.0 38-39 33.88275 38.0 34.0 38.0 16.0 38.0 40-41 33.798125 38.0 33.5 38.0 16.0 38.0 42-43 34.168625000000006 38.0 34.0 38.0 20.5 38.0 44-45 33.862875 38.0 33.5 38.0 16.0 38.0 46-47 33.876125 38.0 34.0 38.0 16.0 38.0 48-49 33.834 38.0 34.0 38.0 16.0 38.0 50-51 34.181625 38.0 34.0 38.0 16.0 38.0 52-53 34.002125 38.0 33.5 38.0 20.0 38.0 54-55 33.9495 38.0 34.0 38.0 16.0 38.0 56-57 33.90225 38.0 33.5 38.0 16.0 38.0 58-59 34.02475 38.0 34.0 38.0 16.0 38.0 60-61 34.119375 38.0 34.0 38.0 20.0 38.0 62-63 34.212875 38.0 34.0 38.0 20.0 38.0 64-65 34.117625000000004 38.0 34.0 38.0 20.0 38.0 66-67 34.14775 38.0 34.0 38.0 20.0 38.0 68-69 34.105000000000004 38.0 34.0 38.0 20.0 38.0 70-71 34.014625 38.0 34.0 38.0 16.0 38.0 72-73 34.116625 38.0 34.0 38.0 16.0 38.0 74-75 34.089 38.0 34.0 38.0 16.0 38.0 76-77 34.082125000000005 38.0 34.0 38.0 20.0 38.0 78-79 34.048874999999995 38.0 34.0 38.0 16.0 38.0 80-81 33.9765 38.0 34.0 38.0 16.0 38.0 82-83 33.882875 38.0 34.0 38.0 16.0 38.0 84-85 33.923 38.0 34.0 38.0 16.0 38.0 86-87 33.84375 38.0 34.0 38.0 19.0 38.0 88-89 33.7945 38.0 33.5 38.0 16.0 38.0 90-91 33.79325 38.0 34.0 38.0 16.0 38.0 92-93 33.622125 38.0 33.0 38.0 16.0 38.0 94-95 33.696625 38.0 34.0 38.0 15.5 38.0 96-97 33.875 38.0 34.0 38.0 18.5 38.0 98-99 33.845875 38.0 34.0 38.0 18.0 38.0 100-101 32.853750000000005 37.0 31.5 38.0 15.0 38.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 17 1.0 18 16.0 19 34.0 20 35.0 21 63.0 22 55.0 23 78.0 24 65.0 25 71.0 26 92.0 27 94.0 28 96.0 29 112.0 30 132.0 31 134.0 32 158.0 33 224.0 34 288.0 35 367.0 36 692.0 37 1193.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 35.59364759263927 8.44466851525082 11.19233677842198 44.76934711368792 2 23.724999999999998 14.6 37.775 23.9 3 21.625 16.825000000000003 23.599999999999998 37.95 4 25.074999999999996 26.450000000000003 23.425 25.05 5 25.874999999999996 28.999999999999996 25.074999999999996 20.05 6 20.599999999999998 32.4 26.6 20.4 7 16.404101025256317 22.080520130032507 41.31032758189547 20.205051262815704 8 18.975 23.549999999999997 31.900000000000002 25.575 9 19.675 21.925 34.699999999999996 23.7 10-11 22.95 28.999999999999996 25.4875 22.5625 12-13 21.36784196049012 24.01850462615654 28.432108027006752 26.18154538634659 14-15 21.61790447611903 25.206301575393848 27.969492373093274 25.206301575393848 16-17 21.742935733933482 26.144036009002253 27.26931732933233 24.843710927731934 18-19 22.518129532383096 25.743935983995996 26.531632908227053 25.206301575393848 20-21 21.680420105026258 26.84421105276319 27.081770442610654 24.3935983995999 22-23 22.177772221527693 26.178272284035504 26.790848856107015 24.85310663832979 24-25 21.440180022502815 25.378172271533945 26.62832854106763 26.553319164895612 26-27 21.41517689711214 26.128266033254157 26.803350418802353 25.653206650831358 28-29 22.615326915864483 26.403300412551566 26.290786348293537 24.69058632329041 30-31 22.95 25.924999999999997 26.487500000000004 24.637500000000003 32-33 22.5625 25.8125 26.625 25.0 34-35 22.3875 25.162499999999998 26.400000000000002 26.05 36-37 23.175 25.3 26.025 25.5 38-39 22.0125 25.637500000000003 26.8125 25.5375 40-41 22.225 26.3625 26.275 25.137500000000003 42-43 22.5625 24.962500000000002 26.937499999999996 25.5375 44-45 21.6875 26.1625 25.887500000000003 26.2625 46-47 22.1375 25.575 26.2875 26.0 48-49 21.512500000000003 25.4875 26.5375 26.4625 50-51 22.4625 26.0125 26.150000000000002 25.374999999999996 52-53 23.150000000000002 26.0625 26.1125 24.675 54-55 21.85 26.4125 26.55 25.1875 56-57 21.7 25.8 27.3 25.2 58-59 22.125 25.974999999999998 27.212500000000002 24.6875 60-61 21.85 25.324999999999996 26.3625 26.4625 62-63 22.775000000000002 26.0125 25.775 25.4375 64-65 22.3125 26.05 26.974999999999998 24.6625 66-67 22.5875 25.874999999999996 25.8625 25.674999999999997 68-69 22.4375 25.5 26.400000000000002 25.662499999999998 70-71 22.375 25.85 26.25 25.525 72-73 22.475 24.887500000000003 26.400000000000002 26.237500000000004 74-75 22.675 25.874999999999996 26.575 24.875 76-77 22.037499999999998 26.700000000000003 25.525 25.7375 78-79 22.662499999999998 26.174999999999997 25.85 25.3125 80-81 22.2625 25.525 26.150000000000002 26.0625 82-83 23.1375 24.825 26.575 25.4625 84-85 23.0 24.825 26.424999999999997 25.75 86-87 22.650000000000002 25.75 26.0625 25.5375 88-89 22.8 25.8125 25.4625 25.924999999999997 90-91 23.9125 25.687500000000004 26.075 24.325 92-93 23.25 25.3 25.650000000000002 25.8 94-95 22.662499999999998 25.5625 26.5625 25.2125 96-97 22.9375 24.95 25.8 26.3125 98-99 22.0625 26.4625 26.2875 25.1875 100-101 23.3125 25.874999999999996 26.137500000000003 24.675 >>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 0.5 24 0.5 25 0.5 26 1.0 27 1.0 28 0.5 29 2.0 30 6.5 31 7.5 32 9.5 33 15.5 34 24.5 35 34.5 36 48.0 37 69.0 38 86.0 39 110.5 40 140.5 41 164.0 42 193.5 43 224.5 44 233.5 45 226.5 46 213.0 47 196.5 48 195.0 49 185.5 50 166.5 51 156.5 52 151.5 53 145.5 54 112.0 55 91.0 56 104.0 57 106.5 58 95.5 59 87.5 60 77.0 61 65.0 62 55.0 63 44.5 64 33.5 65 27.5 66 25.5 67 20.5 68 17.0 69 10.0 70 7.5 71 5.0 72 2.0 73 2.0 74 1.0 75 0.5 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 0.8250000000000001 2 0.0 3 0.0 4 0.0 5 0.0 6 0.0 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 0.0 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 98.97500000000001 #Duplication Level Percentage of deduplicated Percentage of total 1 99.09067946451124 98.075 2 0.7830260166708766 1.55 3 0.1262945188178833 0.375 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 0.025 0.0 0.0 0.0 0.0 54-55 0.025 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 0.025 0.0 0.0 0.0 0.0 62-63 0.025 0.0 0.0 0.0 0.0 64-65 0.025 0.0 0.0 0.0 0.0 66-67 0.025 0.0 0.0 0.0 0.0 68-69 0.025 0.0 0.0 0.0 0.0 70-71 0.0625 0.0 0.0 0.0 0.0 72-73 0.1 0.0 0.0 0.0 0.0 74-75 0.1 0.0 0.0 0.0 0.0 76-77 0.125 0.0 0.0 0.0 0.0 78-79 0.2 0.0 0.0 0.0 0.0 80-81 0.2 0.0 0.0 0.0 0.0 82-83 0.2 0.0 0.0 0.0 0.0 84-85 0.25 0.0 0.0 0.0 0.0 86-87 0.4 0.0 0.0 0.0 0.0 88-89 0.6875 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE ERR10610852 read2 length is 101 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename ERR10610852_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 29.617 33.0 27.0 33.0 18.0 34.0 2 30.03175 33.0 28.0 33.0 18.0 34.0 3 30.2445 33.0 31.0 33.0 18.0 34.0 4 29.98275 33.0 31.0 33.0 15.0 34.0 5 29.7195 33.0 30.0 33.0 15.0 34.0 6 33.11675 38.0 31.0 38.0 16.0 38.0 7 33.43075 38.0 33.0 38.0 16.0 38.0 8 33.09075 38.0 31.0 38.0 16.0 38.0 9 33.45525 38.0 33.0 38.0 16.0 38.0 10-11 33.349000000000004 38.0 32.5 38.0 16.0 38.0 12-13 33.52775 38.0 33.0 38.0 16.0 38.0 14-15 33.24325 38.0 32.0 38.0 16.0 38.0 16-17 32.597125000000005 37.5 30.0 38.0 16.0 38.0 18-19 33.055625000000006 37.5 30.0 38.0 16.0 38.0 20-21 33.223749999999995 38.0 32.0 38.0 16.0 38.0 22-23 33.255875 38.0 32.0 38.0 16.0 38.0 24-25 33.2445 38.0 31.0 38.0 16.0 38.0 26-27 33.034875 38.0 31.5 38.0 16.0 38.0 28-29 32.880125 38.0 30.0 38.0 16.0 38.0 30-31 33.19262500000001 38.0 31.0 38.0 16.0 38.0 32-33 33.259375 38.0 32.0 38.0 16.0 38.0 34-35 33.387875 38.0 33.0 38.0 16.0 38.0 36-37 33.054874999999996 38.0 31.0 38.0 16.0 38.0 38-39 33.247 38.0 33.0 38.0 16.0 38.0 40-41 33.351749999999996 38.0 32.5 38.0 16.0 38.0 42-43 33.085499999999996 38.0 31.0 38.0 16.0 38.0 44-45 33.344375 38.0 33.0 38.0 16.0 38.0 46-47 33.12975 38.0 31.0 38.0 16.0 38.0 48-49 33.288624999999996 38.0 33.0 38.0 16.0 38.0 50-51 33.11775 38.0 32.0 38.0 16.0 38.0 52-53 33.2195 38.0 31.5 38.0 16.0 38.0 54-55 33.05875 38.0 31.0 38.0 16.0 38.0 56-57 33.11825 38.0 31.0 38.0 16.0 38.0 58-59 33.124375 38.0 31.0 38.0 16.0 38.0 60-61 33.23675 38.0 32.0 38.0 16.0 38.0 62-63 32.963125000000005 38.0 31.0 38.0 16.0 38.0 64-65 33.26049999999999 38.0 32.0 38.0 16.0 38.0 66-67 33.12775 38.0 32.0 38.0 16.0 38.0 68-69 33.108374999999995 38.0 31.0 38.0 16.0 38.0 70-71 32.99125 38.0 31.0 38.0 16.0 38.0 72-73 33.13075 38.0 32.0 38.0 16.0 38.0 74-75 33.166 38.0 31.5 38.0 16.0 38.0 76-77 33.103375 38.0 31.0 38.0 16.0 38.0 78-79 32.870875 38.0 31.0 38.0 15.5 38.0 80-81 32.926500000000004 37.0 31.0 38.0 16.0 38.0 82-83 32.95625 38.0 31.0 38.0 15.0 38.0 84-85 32.99875 38.0 31.0 38.0 15.0 38.0 86-87 32.869875 38.0 31.0 38.0 15.0 38.0 88-89 32.887125 38.0 31.0 38.0 15.0 38.0 90-91 32.852875 37.0 31.0 38.0 15.0 38.0 92-93 32.86775 37.5 31.0 38.0 15.0 38.0 94-95 32.694125 38.0 31.0 38.0 15.0 38.0 96-97 32.754125 37.5 31.0 38.0 15.0 38.0 98-99 32.689625 38.0 31.0 38.0 15.0 38.0 100-101 31.691000000000003 36.0 28.0 38.0 15.0 38.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 16 2.0 17 4.0 18 35.0 19 51.0 20 77.0 21 61.0 22 82.0 23 98.0 24 98.0 25 92.0 26 97.0 27 102.0 28 121.0 29 116.0 30 118.0 31 144.0 32 175.0 33 193.0 34 262.0 35 345.0 36 518.0 37 1209.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 29.875 16.3 15.075 38.75 2 26.05 22.525000000000002 32.85 18.575 3 22.825 25.525 26.275 25.374999999999996 4 25.35 31.45 20.8 22.400000000000002 5 28.299999999999997 31.724999999999998 21.075 18.9 6 23.075000000000003 34.599999999999994 20.875 21.45 7 21.3 18.4 36.35 23.95 8 23.549999999999997 22.15 26.25 28.050000000000004 9 23.025000000000002 23.05 29.4 24.525 10-11 26.875 28.025 20.925 24.175 12-13 25.587500000000002 22.900000000000002 25.324999999999996 26.187500000000004 14-15 25.3125 25.45 25.124999999999996 24.1125 16-17 26.224999999999998 24.5625 24.8625 24.349999999999998 18-19 25.0125 26.1 24.825 24.0625 20-21 25.15 25.7875 24.9875 24.075 22-23 25.162499999999998 25.275 25.6125 23.95 24-25 25.95 25.162499999999998 25.525 23.3625 26-27 25.6 26.2625 25.474999999999998 22.662499999999998 28-29 25.412499999999998 24.9375 25.95 23.7 30-31 25.7625 25.4375 25.124999999999996 23.674999999999997 32-33 25.3125 25.775 24.75 24.1625 34-35 25.2875 26.375 24.675 23.6625 36-37 25.324999999999996 26.0625 25.3 23.3125 38-39 25.415676959619955 25.240655081885237 25.61570196274534 23.72796599574947 40-41 25.324999999999996 25.6 25.45 23.625 42-43 25.224999999999998 25.412499999999998 26.400000000000002 22.9625 44-45 25.4625 26.25 25.2375 23.05 46-47 25.324999999999996 26.087500000000002 25.087500000000002 23.5 48-49 25.7875 25.874999999999996 25.15 23.1875 50-51 25.637500000000003 27.0125 24.6125 22.7375 52-53 26.174999999999997 25.525 25.2625 23.0375 54-55 25.624999999999996 25.5 25.912499999999998 22.9625 56-57 26.224999999999998 26.525 24.7 22.55 58-59 25.4875 25.775 25.5 23.2375 60-61 24.0375 26.387500000000003 25.874999999999996 23.7 62-63 25.75 25.137500000000003 25.5625 23.549999999999997 64-65 24.90311288911114 25.17814726840855 25.490686335791974 24.428053506688336 66-67 25.087500000000002 26.974999999999998 25.0 22.9375 68-69 25.2875 26.8 25.0625 22.85 70-71 26.924999999999997 25.5 25.412499999999998 22.162499999999998 72-73 25.15 26.25 25.912499999999998 22.6875 74-75 25.224999999999998 25.2875 26.150000000000002 23.3375 76-77 25.224999999999998 25.837500000000002 25.7875 23.150000000000002 78-79 25.112499999999997 26.087500000000002 25.650000000000002 23.150000000000002 80-81 25.775 25.45 25.5 23.275000000000002 82-83 25.887500000000003 25.6125 25.6 22.900000000000002 84-85 24.7875 26.8 25.55 22.8625 86-87 25.0625 25.8625 26.474999999999998 22.6 88-89 25.337500000000002 25.5625 26.087500000000002 23.0125 90-91 25.087500000000002 26.787499999999998 25.6 22.525000000000002 92-93 25.412499999999998 26.8125 25.25 22.525000000000002 94-95 26.325 26.3125 24.4875 22.875 96-97 25.124999999999996 27.175 25.224999999999998 22.475 98-99 25.45 26.2875 25.912499999999998 22.35 100-101 27.275 25.6125 25.05 22.0625 >>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 0.5 24 1.0 25 1.0 26 1.0 27 0.5 28 0.5 29 3.0 30 5.5 31 6.5 32 9.0 33 11.5 34 15.0 35 25.5 36 33.0 37 48.0 38 70.5 39 93.0 40 121.5 41 155.5 42 189.0 43 199.5 44 211.0 45 220.0 46 217.0 47 206.0 48 196.5 49 183.5 50 174.5 51 170.5 52 147.5 53 131.5 54 126.0 55 113.0 56 103.5 57 106.0 58 102.0 59 97.5 60 88.5 61 80.0 62 74.0 63 59.5 64 48.5 65 38.5 66 32.0 67 28.5 68 21.0 69 15.0 70 10.0 71 4.5 72 1.0 73 1.0 74 0.5 75 0.5 76 0.5 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 0.0 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 0.0125 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 0.0 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 98.925 #Duplication Level Percentage of deduplicated Percentage of total 1 99.09021986353298 98.02499999999999 2 0.7581501137225171 1.5 3 0.1263583522870862 0.375 4 0.025271670457417232 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 10-11 0.0 0.0 0.0 0.0 0.0 12-13 0.0 0.0 0.0 0.0 0.0 14-15 0.0 0.0 0.0 0.0 0.0 16-17 0.0 0.0 0.0 0.0 0.0 18-19 0.0 0.0 0.0 0.0 0.0 20-21 0.0 0.0 0.0 0.0 0.0 22-23 0.0 0.0 0.0 0.0 0.0 24-25 0.0 0.0 0.0 0.0 0.0 26-27 0.0 0.0 0.0 0.0 0.0 28-29 0.0 0.0 0.0 0.0 0.0 30-31 0.0 0.0 0.0 0.0 0.0 32-33 0.0 0.0 0.0 0.0 0.0 34-35 0.0 0.0 0.0 0.0 0.0 36-37 0.0 0.0 0.0 0.0 0.0 38-39 0.0 0.0 0.0 0.0 0.0 40-41 0.0 0.0 0.0 0.0 0.0 42-43 0.0 0.0 0.0 0.0 0.0 44-45 0.0 0.0 0.0 0.0 0.0 46-47 0.0 0.0 0.0 0.0 0.0 48-49 0.0 0.0 0.0 0.0 0.0 50-51 0.0 0.0 0.0 0.0 0.0 52-53 0.0 0.0 0.0 0.0 0.0 54-55 0.0 0.0 0.0 0.0 0.0 56-57 0.0 0.0 0.0 0.0 0.0 58-59 0.0 0.0 0.0 0.0 0.0 60-61 0.0 0.0 0.0 0.0 0.0 62-63 0.0 0.0 0.0 0.0 0.0 64-65 0.0 0.0 0.0 0.0 0.0 66-67 0.0 0.0 0.0 0.0 0.0 68-69 0.0 0.0 0.0 0.0 0.0 70-71 0.037500000000000006 0.0 0.0 0.0 0.0 72-73 0.075 0.0 0.0 0.0 0.0 74-75 0.075 0.0 0.0 0.0 0.0 76-77 0.1 0.0 0.0 0.0 0.0 78-79 0.175 0.0 0.0 0.0 0.0 80-81 0.175 0.0 0.0 0.0 0.0 82-83 0.175 0.0 0.0 0.0 0.0 84-85 0.25 0.0 0.0 0.0 0.0 86-87 0.3875 0.0 0.0 0.0 0.0 88-89 0.6875 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Read 711039 spots for ERR10610852.sra Written 711039 spots for ERR10610852.sra Read 711039 spots for ERR10610852.sra Written 711039 spots for ERR10610852.sra Read 711039 spots for ERR10610852.sra Written 711039 spots for ERR10610852.sra Read 711039 spots for ERR10610852.sra Written 711039 spots for ERR10610852.sra Read 711039 spots for ERR10610852.sra Written 711039 spots for ERR10610852.sra Read 711039 spots for ERR10610852.sra Written 711039 spots for ERR10610852.sra Read 711039 spots for ERR10610852.sra Written 711039 spots for ERR10610852.sra Read 711039 spots for ERR10610852.sra Written 711039 spots for ERR10610852.sra Read 711039 spots for ERR10610852.sra Written 711039 spots for ERR10610852.sra Read 711039 spots for ERR10610852.sra Written 711039 spots for ERR10610852.sra Read 711039 spots for ERR10610852.sra Written 711039 spots for ERR10610852.sra Read 711039 spots for ERR10610852.sra Written 711039 spots for ERR10610852.sra Read 711039 spots for ERR10610852.sra Written 711039 spots for ERR10610852.sra Read 711039 spots for ERR10610852.sra Written 711039 spots for ERR10610852.sra Read 711039 spots for ERR10610852.sra Written 711039 spots for ERR10610852.sra Read 711039 spots for ERR10610852.sra Written 711039 spots for ERR10610852.sra Read 711039 spots for ERR10610852.sra Written 711039 spots for ERR10610852.sra Read 711039 spots for ERR10610852.sra Written 711039 spots for ERR10610852.sra Read 711039 spots for ERR10610852.sra Written 711039 spots for ERR10610852.sra Read 711051 spots for ERR10610852.sra Written 711051 spots for ERR10610852.sra SRR ids: ['ERR10610852.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_0fs8ygfg ERR10610852.sra spots: 14220792 blocks: [[1, 711039], [711040, 1422078], [1422079, 2133117], [2133118, 2844156], [2844157, 3555195], [3555196, 4266234], [4266235, 4977273], [4977274, 5688312], [5688313, 6399351], [6399352, 7110390], [7110391, 7821429], [7821430, 8532468], [8532469, 9243507], [9243508, 9954546], [9954547, 10665585], [10665586, 11376624], [11376625, 12087663], [12087664, 12798702], [12798703, 13509741], [13509742, 14220792]] ERR10610852 file size 3422397 ERR10610852 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 ERR10610852 ERR10610852_1.fastq ERR10610852_2.fastq Input file: ERR10610852_1.fastq Paired file: ERR10610852_2.fastq trimmed: ERR10610852-trimmed-pair1.fastq, ERR10610852-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 21:13:13 2024 >> started Fri Dec 6 21:13:27 2024 >> done (14.335s) 14220792 read pairs processed; of these: 44 ( 0.00%) short read pairs filtered out after trimming by size control 1998 ( 0.01%) empty read pairs filtered out after trimming by size control 14218750 (99.99%) read pairs available; of these: 399521 ( 2.81%) trimmed read pairs available after processing 13819229 (97.19%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 18 2 0.00% 19 1 0.00% 20 1 0.00% 21 2 0.00% 22 2 0.00% 23 2 0.00% 24 1 0.00% 25 1 0.00% 26 2 0.00% 27 1 0.00% 28 7 0.00% 29 4 0.00% 30 11 0.00% 31 2 0.00% 32 11 0.00% 33 14 0.00% 34 15 0.00% 35 15 0.00% 36 27 0.00% 37 17 0.00% 38 24 0.00% 39 25 0.00% 40 41 0.00% 41 48 0.00% 42 43 0.00% 43 68 0.00% 44 66 0.00% 45 68 0.00% 46 70 0.00% 47 104 0.00% 48 106 0.00% 49 106 0.00% 50 132 0.00% 51 152 0.00% 52 169 0.00% 53 242 0.00% 54 233 0.00% 55 235 0.00% 56 274 0.00% 57 327 0.00% 58 382 0.00% 59 421 0.00% 60 474 0.00% 61 551 0.00% 62 589 0.00% 63 617 0.00% 64 794 0.01% 65 839 0.01% 66 974 0.01% 67 1101 0.01% 68 1236 0.01% 69 1414 0.01% 70 1586 0.01% 71 1743 0.01% 72 2072 0.01% 73 2301 0.02% 74 2584 0.02% 75 2887 0.02% 76 3394 0.02% 77 3700 0.03% 78 4347 0.03% 79 4717 0.03% 80 5259 0.04% 81 5922 0.04% 82 6697 0.05% 83 7386 0.05% 84 8055 0.06% 85 9145 0.06% 86 10156 0.07% 87 11203 0.08% 88 12738 0.09% 89 13821 0.10% 90 15241 0.11% 91 16649 0.12% 92 18313 0.13% 93 20233 0.14% 94 21977 0.15% 95 23371 0.16% 96 25648 0.18% 97 28327 0.20% 98 30211 0.21% 99 32566 0.23% 100 35209 0.25% 101 13819229 97.19% 14218750 reads passed initial QC criterion=sequence-density sequence-density=0.52 sequence-density-rank=1 fanout-score=2.11 fanout-score-rank=23 prefix-density=0.52 prefix-fanout=2.1 sequence=GTGGCGTCGGTGCACCCGAACATGGGCAGCTTCCACATTGTCCAGTACCTGCC criterion=fanout-score sequence-density=0.01 sequence-density-rank=34 fanout-score=28.82 fanout-score-rank=1 prefix-density=0.06 prefix-fanout=2.5 sequence=TGGTACACACGATTCACGATTCTTCCGTCATTCATTCACTCGTGCACCTCATGCTTAATTACATCGCGCGGGGTTCACTCCACCATGGTACAAATCAACACATAACTAGACAAAGGTACAAGTTGATCTACGGCGTACAAGTACACATGCATGCATACATCGATCGTCCGATGGATGGACCGATATATACTACAGCTAGCTGCTAATTCTCATTTAGCTCCCGGGGGCGAAGTTGGTAGCAAAGGCCCATGCATTGTTGTTGACTGGGTCGGCGACGTGGTCGAAGAGGTTCTCGACGGGTCCCTTGCCCGTGACGATGGC criterion=sequence-density sequence-density=0.41 sequence-density-rank=1 fanout-score=3.81 fanout-score-rank=10 prefix-density=0.45 prefix-fanout=3.4 sequence=GAGTTCAGCAAGGTCGGCTT criterion=fanout-score sequence-density=0.02 sequence-density-rank=28 fanout-score=38.06 fanout-score-rank=1 prefix-density=0.10 prefix-fanout=6.2 sequence=AGAAGTTCAAGACCGAGGTCTACGACAAGAAGCCGGATGTCTTCGAGCCGCTCAAGGCCGGCCAGGCCCCCAAGTACATGGTGTTCGCCTGCGCCGACTCACGTGTGTGCCCGTCGGTGACCCTGGGCCTGGAGCCCGGCGAGGCCTTCACCGTCCGCAACATCGCCAACATGGTCCCGTCCTACTGCAAGAACAAGTACGCCGGTGTTGGGTCGGCCATCGAGTACGCCGTGTGTGCCCTCAAGGTTGAGGTCATCGTGGTGATTGGCCACAGCCGCTGCGGTGGAATCAAGGCACTCCTCTCGCTCAAGGATGGTGCAGATGACAGCTTCCACTTCGTCGAGGACTGGGTCAGGATCGGGTTCCCGGCCAAGAAGAAGGTGCAGACCGAGTGCGCCTCCATGCCTTTCGATGACCAATGCGCCGTCTTGGAAAAGGAGGCCGTGAACGTGTCCCTCGAGAACCTCAAGACCTACCCGTTCGTCAAGGAAGGCGTCGCCAACGGAACCCT ERR10610852 testing PE reads STAR mapping to Ensembl genome Started job on | Dec 06 21:14:29 Started mapping on | Dec 06 21:14:29 Finished on | Dec 06 21:16:40 Mapping speed, Million of reads per hour | 390.74 Number of input reads | 14218750 Average input read length | 193 UNIQUE READS: Uniquely mapped reads number | 12008997 Uniquely mapped reads % | 84.46% Average mapped length | 191.99 Number of splices: Total | 7890279 Number of splices: Annotated (sjdb) | 7400713 Number of splices: GT/AG | 7769902 Number of splices: GC/AG | 91745 Number of splices: AT/AC | 3140 Number of splices: Non-canonical | 25492 Mismatch rate per base, % | 1.02% Deletion rate per base | 0.02% Deletion average length | 2.10 Insertion rate per base | 0.02% Insertion average length | 2.22 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 384939 % of reads mapped to multiple loci | 2.71% Number of reads mapped to too many loci | 64515 % of reads mapped to too many loci | 0.45% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 10.59% % of reads unmapped: other | 1.79% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 1824814 1824814 1824814 N_multimapping 384939 384939 384939 N_noFeature 486992 11666609 561269 N_ambiguous 315372 1256 48132 UnstrandedReadsAssigned:11206633 PositiveStrandReadsAssigned:341132 NegativeStrandReadsAssigned:11399596 Dataset is classified negative stranded MeadianReadLen=93 20thPercentileLength=93 echo kmer=89 ERR10610852 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: ERR10610852-trimmed-pair1.fastq ERR10610852-trimmed-pair2.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 14,218,750 reads, 12,142,399 reads pseudoaligned [quant] estimated average fragment length: 176.525 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,246 rounds 52973 ERR10610852.ke.tsv 35125 ERR10610852.se.tsv 88098 total ==> ERR10610852.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 760.643 0 0 PNS24247 1044 868.475 28.6185 4.03628 PNS24249 1928 1752.47 6.66184 0.465623 PNS24246 1044 868.475 28.6185 4.03628 PNS24248 1044 868.475 28.6185 4.03628 PNS24244 1471 1295.47 37.4828 3.54401 PNS24243 293 128.927 0 0 KQK14069 1603 1427.47 320.733 27.5212 KQK14071 474 300.34 8.0202 3.27088 ==> ERR10610852.se.tsv <== BRADI_1g14170v3 370 BRADI_1g53295v3 597 BRADI_1g59795v3 92 BRADI_1g07683v3 0 BRADI_1g00485v3 1 BRADI_1g20270v3 340 BRADI_1g74790v3 38 BRADI_1g09890v3 0 BRADI_1g77505v3 258 BRADI_1g48960v3 0 ERR10610852 completed mapping pipeline successfully