Starting /dee2/code/volunteer_pipeline.sh SRR11389791 current disk space = 1545329983488 free memory = 1601753940 SRR11389791 SRAfilesize b754e62e994fff444ad857c8ac2c1a14 SRR11389791.sra SRR11389791.sra file validated SRR11389791 is paired end SRR11389791 is conventional basespace SRR11389791 read1 length is 35-76 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR11389791_1.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 35-76 %GC 47 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 30.41375 32.0 32.0 32.0 32.0 32.0 2 30.35725 32.0 32.0 32.0 32.0 32.0 3 30.41 32.0 32.0 32.0 32.0 32.0 4 30.57175 32.0 32.0 32.0 32.0 32.0 5 30.44025 32.0 32.0 32.0 32.0 32.0 6 33.4835 36.0 36.0 36.0 32.0 36.0 7 33.44625 36.0 36.0 36.0 32.0 36.0 8 33.4685 36.0 36.0 36.0 32.0 36.0 9 33.49325 36.0 36.0 36.0 32.0 36.0 10-11 33.434 36.0 36.0 36.0 32.0 36.0 12-13 33.4735 36.0 36.0 36.0 32.0 36.0 14-15 33.477000000000004 36.0 36.0 36.0 32.0 36.0 16-17 33.429500000000004 36.0 36.0 36.0 32.0 36.0 18-19 33.38825 36.0 36.0 36.0 32.0 36.0 20-21 33.376875 36.0 36.0 36.0 32.0 36.0 22-23 33.233000000000004 36.0 36.0 36.0 26.5 36.0 24-25 33.1425 36.0 36.0 36.0 21.0 36.0 26-27 33.037375 36.0 36.0 36.0 21.0 36.0 28-29 32.927499999999995 36.0 36.0 36.0 17.5 36.0 30-31 32.865375 36.0 36.0 36.0 17.5 36.0 32-33 32.852375 36.0 36.0 36.0 17.5 36.0 34-35 32.697874999999996 36.0 36.0 36.0 14.0 36.0 36-37 33.48140071831708 36.0 36.0 36.0 27.0 36.0 38-39 33.335171883016926 36.0 36.0 36.0 21.0 36.0 40-41 33.26693175987686 36.0 36.0 36.0 20.5 36.0 42-43 33.08799384299641 36.0 36.0 36.0 17.5 36.0 44-45 32.973576192919445 36.0 36.0 36.0 14.0 36.0 46-47 33.14648537711647 36.0 36.0 36.0 21.0 36.0 48-49 32.9298403226331 36.0 36.0 36.0 14.0 36.0 50-51 32.93905568385938 36.0 36.0 36.0 17.5 36.0 52-53 32.72933778234086 36.0 36.0 36.0 14.0 36.0 54-55 32.54980744544288 36.0 36.0 36.0 14.0 36.0 56-57 32.55121951219512 36.0 34.0 36.0 14.0 36.0 58-59 32.44555726759117 36.0 32.0 36.0 14.0 36.0 60-61 32.17300282558438 36.0 32.0 36.0 14.0 36.0 62-63 32.06491032285884 36.0 32.0 36.0 14.0 36.0 64-65 31.932334561178394 36.0 32.0 36.0 14.0 36.0 66-67 31.816246479122732 36.0 32.0 36.0 14.0 36.0 68-69 31.680802838295115 36.0 32.0 36.0 14.0 36.0 70-71 31.619256836490116 36.0 32.0 36.0 14.0 36.0 72-73 31.49990222977758 36.0 32.0 36.0 14.0 36.0 74-75 31.245363590884626 36.0 32.0 36.0 14.0 36.0 76 30.60590750097163 36.0 32.0 36.0 14.0 36.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 2 102.0 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 2.0 22 4.0 23 5.0 24 6.0 25 23.0 26 51.0 27 57.0 28 114.0 29 168.0 30 256.0 31 335.0 32 468.0 33 722.0 34 1083.0 35 604.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 41.688045151359674 12.16008209338122 11.493073370959467 34.65879938429964 2 22.421754746023602 18.18881477680862 35.40277065161621 23.986659825551566 3 22.524371472550026 19.984607491021038 27.911749615187276 29.57927142124166 4 26.42380708055413 25.243714725500254 20.702924576706003 27.629553617239612 5 27.039507439712672 31.272447408927658 23.268342739866597 18.419702411493073 6 24.704673857216232 30.431432973805855 25.089881869542886 19.774011299435028 7 15.572088250384814 29.117496151872757 36.83940482298615 18.471010774756287 8 17.829656233966137 27.860441251924062 29.86146741918933 24.448435094920473 9 22.088250384812724 23.114417650076962 31.990764494612623 22.80656747049769 10-11 22.088250384812724 33.47870702924577 22.819394561313494 21.613648024628016 12-13 21.575166752180603 26.051821446895847 25.93637762955362 26.43663417136993 14-15 20.112878399179067 27.013853258081067 27.25756798358132 25.615700359158545 16-17 23.845561826577732 24.717804002052336 25.03848127244741 26.398152898922522 18-19 21.80605438686506 25.615700359158545 28.0271934325295 24.551051821446894 20-21 22.4089276552078 27.06516162134428 28.05284761416111 22.473063109286816 22-23 20.94663930220626 30.42585941508466 25.397639815289892 23.229861467419187 24-25 21.600820933812212 25.82093381221139 27.23191380194972 25.346331452026682 26-27 20.51051821446896 25.83376090302719 26.42380708055413 27.23191380194972 28-29 24.230374551051824 27.886095433555667 24.30733709594664 23.57619291944587 30-31 21.485377116469984 26.52642380708055 27.129297075423292 24.858902001026166 32-33 21.010774756285276 28.386351975371987 25.448948178553106 25.153925089789634 34-35 23.755772190867113 28.28373524884556 24.78193945613135 23.178553104155977 36-37 21.575166752180603 27.860441251924062 27.603899435608003 22.960492560287328 38-39 21.151872755259106 26.269881990764492 27.19343252950231 25.384812724474088 40-41 22.93483837865572 25.60287326834274 27.873268342739866 23.58902001026167 42-43 21.395587480759364 26.872755259107233 27.334530528476144 24.39712673165726 44-45 21.511031298101592 24.06362237044638 28.809645972293485 25.615700359158545 46-47 23.217034376603387 24.525397639815292 24.769112365315546 27.488455618265778 48-49 21.436818473380374 26.427196921103267 27.902501603592043 24.23348300192431 50-51 23.90300230946882 24.98075442648191 27.238901719271237 23.877341544778037 52-53 22.6129363449692 24.64065708418891 23.934804928131417 28.81160164271047 54-55 23.31193838254172 24.993581514762518 27.971758664955072 23.72272143774069 56-57 21.399229781771503 25.340179717586647 27.150192554557123 26.110397946084724 58-59 21.89265536723164 25.680534155110422 27.14432460195172 25.28248587570621 60-61 24.10737220652453 25.1220138710506 26.663241715900334 24.10737220652453 62-63 21.881022741873313 24.861878453038674 27.20030836438391 26.0567904407041 64-65 24.411575562700964 24.990353697749196 27.562700964630228 23.035369774919616 66-67 21.66752444673186 28.293875450334532 24.382398353062275 25.656201749871332 68-69 21.096666237611018 28.24044278542927 25.099755438280347 25.563135538679365 70-71 21.37886597938144 28.969072164948457 25.54123711340206 24.11082474226804 72-73 22.366036758995598 28.061092415221328 24.657002329795496 24.915868495987574 74-75 20.985275904775012 25.264896105683228 27.76936837759736 25.980459611944408 76 25.18460940536339 0.0 38.82627283326856 35.98911776136805 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 104.0 1 52.0 2 0.0 3 0.0 4 0.0 5 0.0 6 0.5 7 0.5 8 0.0 9 0.0 10 0.0 11 0.0 12 0.0 13 0.0 14 0.5 15 0.5 16 0.5 17 1.0 18 12.5 19 27.5 20 28.0 21 25.5 22 26.5 23 22.5 24 18.0 25 18.0 26 23.5 27 35.0 28 35.5 29 37.0 30 45.0 31 52.5 32 65.0 33 69.0 34 77.0 35 88.0 36 101.5 37 122.0 38 132.0 39 155.5 40 173.0 41 174.5 42 182.5 43 220.5 44 278.0 45 233.5 46 157.5 47 160.0 48 176.5 49 163.0 50 142.0 51 133.5 52 116.0 53 96.0 54 91.0 55 100.0 56 104.0 57 99.5 58 94.0 59 103.0 60 117.5 61 95.0 62 71.0 63 75.0 64 72.0 65 61.5 66 50.5 67 44.0 68 39.0 69 28.0 70 26.0 71 29.5 72 28.5 73 27.0 74 22.5 75 19.0 76 16.0 77 9.5 78 11.0 79 14.0 80 7.0 81 3.5 82 3.5 83 2.5 84 2.0 85 1.5 86 1.5 87 0.5 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 2.55 2 2.55 3 2.55 4 2.55 5 2.55 6 2.65 7 2.55 8 2.55 9 2.55 10-11 2.55 12-13 2.55 14-15 2.55 16-17 2.55 18-19 2.55 20-21 2.55 22-23 2.55 24-25 2.55 26-27 2.55 28-29 2.55 30-31 2.55 32-33 2.55 34-35 2.55 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 0.0 >>END_MODULE >>Sequence Length Distribution warn #Length Count 35 102.0 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 1.0 49 0.0 50 0.0 51 1.0 52 0.0 53 1.0 54 0.0 55 0.0 56 0.0 57 1.0 58 0.0 59 1.0 60 0.0 61 0.0 62 3.0 63 2.0 64 1.0 65 0.0 66 2.0 67 0.0 68 1.0 69 3.0 70 2.0 71 11.0 72 10.0 73 53.0 74 343.0 75 889.0 76 2573.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 89.17500000000001 #Duplication Level Percentage of deduplicated Percentage of total 1 96.35548079618728 85.925 2 2.5231286795626575 4.5 3 0.6167647883375384 1.6500000000000001 4 0.224278104850014 0.8 5 0.0560695262125035 0.25 6 0.0560695262125035 0.3 7 0.02803476310625175 0.17500000000000002 8 0.0 0.0 9 0.02803476310625175 0.22499999999999998 >10 0.0560695262125035 1.0 >50 0.0 0.0 >100 0.0560695262125035 5.175 >500 0.0 0.0 >1k 0.0 0.0 >5k 0.0 0.0 >10k+ 0.0 0.0 >>END_MODULE >>Overrepresented sequences fail #Sequence Count Percentage Possible Source GATCGGAAGAGCACACGTCTGAACTCCAGTCACGAATTCGTATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAA 105 2.625 TruSeq Adapter, Index 7 (97% over 35bp) NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN 102 2.55 No Hit GCCGAGTTTAATTGCAGTCAATTAGAAGAATAAAGAAGAATTACTGCATT 21 0.525 No Hit GATCGGAAGAGCACACGTCTGAACTCCAGTCACGAATTCGTATCTCGTAT 19 0.475 TruSeq Adapter, Index 7 (97% over 35bp) GTCAATTAGAAGAATAAAGAAGAATTACTGCATTTCGTAACTTATTTTTT 9 0.22499999999999998 No Hit GTAACTTATTTTTTCTCTTTTTATTTTGTTTCTTTTTATTTAGACCTTCT 7 0.17500000000000002 No Hit GGCTAGTTCAGGACTCCATTTGCAAGCTGCTCGGATAATTTCATTACCTTCACGAGCAAGATCGCGCCCTTCGTT 6 0.15 No Hit GAAGAATTACTGCATTTCGTAACTTATTTTTTCTCTTTTTATTTTGTTTC 6 0.15 No Hit ATTTTTTCTCTTTTTATTTTGTTTCTTTTTATTTAGACCTTCTTCATATT 5 0.125 No Hit AATTAGAAGAATAAAGAAGAATTACTGCATTTCGTAACTTATTTTTTCTCTTTTTATTTTGTTTCTTTTTATTT 5 0.125 No Hit >>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 0.025 0.0 0.0 0.0 0.0 22 0.025 0.0 0.0 0.0 0.0 23 0.05 0.0 0.0 0.0 0.0 24 0.05 0.0 0.0 0.0 0.0 25 0.05 0.0 0.0 0.0 0.0 26 0.05 0.0 0.0 0.0 0.0 27 0.05 0.0 0.0 0.0 0.0 28 0.05 0.0 0.0 0.0 0.0 29 0.05 0.0 0.0 0.0 0.0 30 0.05 0.0 0.0 0.0 0.0 31 0.05 0.0 0.0 0.0 0.0 32 0.05 0.0 0.0 0.0 0.0 33 0.075 0.0 0.0 0.0 0.0 34 0.075 0.0 0.0 0.0 0.0 35 0.075 0.0 0.0 0.0 0.0 36 0.075 0.0 0.0 0.0 0.0 37 0.075 0.0 0.0 0.0 0.0 38 0.075 0.0 0.0 0.0 0.0 39 0.075 0.0 0.0 0.0 0.0 40 0.075 0.0 0.0 0.0 0.0 41 0.075 0.0 0.0 0.0 0.0 42 0.075 0.0 0.0 0.0 0.0 43 0.075 0.0 0.0 0.0 0.0 44 0.075 0.0 0.0 0.0 0.0 45 0.075 0.0 0.0 0.0 0.0 46 0.075 0.0 0.0 0.0 0.0 47 0.075 0.0 0.0 0.0 0.0 48 0.075 0.0 0.0 0.0 0.0 49 0.075 0.0 0.0 0.0 0.0 50 0.075 0.0 0.0 0.0 0.0 51 0.075 0.0 0.0 0.0 0.0 52 0.075 0.0 0.0 0.0 0.0 53 0.075 0.0 0.0 0.0 0.0 54 0.075 0.0 0.0 0.0 0.0 55 0.075 0.0 0.0 0.0 0.0 56 0.075 0.0 0.0 0.0 0.0 57 0.075 0.0 0.0 0.0 0.0 58 0.075 0.0 0.0 0.0 0.0 59 0.075 0.0 0.0 0.0 0.0 60 0.075 0.0 0.0 0.0 0.0 61 0.075 0.0 0.0 0.0 0.0 62 0.075 0.0 0.0 0.0 0.0 63 0.075 0.0 0.0 0.0 0.0 64 0.075 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE SRR11389791 read2 length is 35-76 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR11389791_2.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 35-76 %GC 50 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 30.16525 32.0 32.0 32.0 32.0 32.0 2 29.56 32.0 32.0 32.0 14.0 32.0 3 29.12275 32.0 32.0 32.0 14.0 32.0 4 29.104 32.0 32.0 32.0 14.0 32.0 5 29.07425 32.0 32.0 32.0 14.0 32.0 6 32.21875 36.0 36.0 36.0 14.0 36.0 7 31.87575 36.0 32.0 36.0 14.0 36.0 8 31.94925 36.0 32.0 36.0 14.0 36.0 9 31.85625 36.0 36.0 36.0 14.0 36.0 10-11 31.7915 36.0 36.0 36.0 14.0 36.0 12-13 31.937875 36.0 34.0 36.0 14.0 36.0 14-15 31.756125 36.0 32.0 36.0 14.0 36.0 16-17 31.859499999999997 36.0 34.0 36.0 14.0 36.0 18-19 31.83775 36.0 36.0 36.0 14.0 36.0 20-21 31.621875000000003 36.0 32.0 36.0 14.0 36.0 22-23 31.80875 36.0 34.0 36.0 14.0 36.0 24-25 31.433 36.0 32.0 36.0 14.0 36.0 26-27 31.32775 36.0 32.0 36.0 14.0 36.0 28-29 31.289625 36.0 32.0 36.0 14.0 36.0 30-31 31.26475 36.0 32.0 36.0 14.0 36.0 32-33 31.172375000000002 36.0 32.0 36.0 14.0 36.0 34-35 31.143500000000003 36.0 32.0 36.0 14.0 36.0 36-37 31.862294661190965 36.0 32.0 36.0 14.0 36.0 38-39 31.7398613963039 36.0 32.0 36.0 14.0 36.0 40-41 31.82079589216945 36.0 32.0 36.0 14.0 36.0 42-43 31.570603337612322 36.0 32.0 36.0 14.0 36.0 44-45 31.39917801181608 36.0 32.0 36.0 14.0 36.0 46-47 31.422424865142563 36.0 32.0 36.0 14.0 36.0 48-49 31.197547928410785 36.0 32.0 36.0 14.0 36.0 50-51 31.297790339157245 36.0 32.0 36.0 14.0 36.0 52-53 31.076458493960423 36.0 32.0 36.0 14.0 36.0 54-55 31.016966580976863 36.0 32.0 36.0 14.0 36.0 56-57 30.85218508997429 36.0 32.0 36.0 14.0 36.0 58-59 30.787863203908458 36.0 32.0 36.0 14.0 36.0 60-61 30.714634773662553 36.0 29.5 36.0 14.0 36.0 62-63 30.443798759076536 36.0 29.5 36.0 14.0 36.0 64-65 30.150050723341934 36.0 27.0 36.0 14.0 36.0 66-67 30.263034778073838 36.0 27.0 36.0 14.0 36.0 68-69 30.007716368842374 36.0 27.0 36.0 14.0 36.0 70-71 29.846616933125844 36.0 27.0 36.0 14.0 36.0 72-73 29.80563911127133 36.0 27.0 36.0 14.0 36.0 74-75 30.09539510463877 36.0 27.0 36.0 14.0 36.0 76 29.445656565656567 32.0 27.0 36.0 14.0 36.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 2 104.0 3 0.0 4 3.0 5 0.0 6 0.0 7 1.0 8 0.0 9 1.0 10 1.0 11 2.0 12 1.0 13 0.0 14 17.0 15 55.0 16 76.0 17 37.0 18 10.0 19 16.0 20 14.0 21 13.0 22 18.0 23 21.0 24 45.0 25 51.0 26 93.0 27 113.0 28 151.0 29 186.0 30 228.0 31 332.0 32 408.0 33 664.0 34 818.0 35 521.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 41.54043645699615 20.61617458279846 10.320924261874199 27.522464698331195 2 32.152028762198256 20.390344119157678 29.48125321006677 17.976373908577298 3 27.46406570841889 26.71971252566735 22.946611909650922 22.869609856262834 4 32.80287474332649 29.466119096509242 17.5564681724846 20.17453798767967 5 31.108829568788497 32.80287474332649 19.096509240246405 16.991786447638603 6 26.514373716632445 32.87987679671458 21.12422997946612 19.48151950718686 7 25.795687885010267 17.376796714579054 33.752566735112936 23.074948665297743 8 24.76239404058567 23.246853326483432 24.96789108656563 27.022861546365274 9 25.81556640123298 23.092730541998456 25.738505008990497 25.353198047778065 10-11 29.030186255619782 28.477842003853564 19.47334617854849 23.018625561978162 12-13 28.84491841192342 21.996659385840935 23.230116921495565 25.928305280740076 14-15 28.04783950617284 24.11265432098765 24.537037037037038 23.30246913580247 16-17 29.47761194029851 23.494595985589296 23.674729799279465 23.353062274832734 18-19 29.148443529714434 24.607666580910728 23.141240030872137 23.1026498585027 20-21 26.795366795366792 25.45688545688546 24.684684684684687 23.063063063063062 22-23 29.90990990990991 23.706563706563706 23.35907335907336 23.024453024453024 24-25 26.94287184765826 26.01646937725167 24.189397838394235 22.85126093669583 26-27 25.18346852066435 26.947341315823355 25.27359340800824 22.595596755504054 28-29 26.260288065843625 27.019032921810698 23.443930041152264 23.276748971193413 30-31 27.18621399176955 25.102880658436217 24.948559670781894 22.76234567901235 32-33 27.450475945459225 24.37612554669411 25.585284280936456 22.588114226910214 34-35 28.372811534500514 24.497940267765188 24.678166838311018 22.451081359423274 36-37 26.65722744239928 24.945295404814004 24.777963701892137 23.61951345089458 38-39 27.225939269171384 25.231600617601647 24.511065362840966 23.031394750386 40-41 26.90923116482386 26.202108511185397 23.823605039856005 23.06505528413474 42-43 28.586131480766756 24.8166730991895 23.59449376045285 23.00270165959089 44-45 26.94980694980695 25.36679536679537 25.1994851994852 22.483912483912484 46-47 27.289094650205765 26.06738683127572 24.151234567901234 22.492283950617285 48-49 26.3259526261586 25.720906282183314 24.94850669412976 23.00463439752832 50-51 26.383526383526384 27.52895752895753 23.809523809523807 22.27799227799228 52-53 28.49780984282401 26.33341922185004 21.862921927338313 23.305849007987632 54-55 28.01235839340886 25.283213182286303 23.50669412976313 23.19773429454171 56-57 26.905252317198762 25.68228630278064 24.98712667353244 22.425334706488158 58-59 28.67448151487827 24.964575550689165 23.895401262398558 22.465541672034007 60-61 28.720525705450328 25.02254864063909 23.68251513980157 22.574410514109005 62-63 27.818580079886612 25.202937765751837 24.13348795258343 22.84499420177812 64-65 28.300425861401475 25.719447670667183 22.480320041295652 23.499806426635693 66-67 26.41290322580645 27.122580645161293 23.10967741935484 23.35483870967742 68-69 25.564880568108457 26.86894770819884 25.474499677211103 22.0916720464816 70-71 25.25839793281654 27.002583979328165 25.56847545219638 22.170542635658915 72-73 24.2601246105919 28.219106957424717 24.38992731048806 23.130841121495326 74-75 24.681026203868843 26.190149540403347 24.96913156811634 24.15969268761147 76 28.652367462565763 0.0 36.05827600161878 35.28935653581546 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 107.0 1 53.5 2 0.0 3 1.0 4 2.0 5 1.5 6 1.5 7 1.5 8 1.0 9 1.0 10 1.5 11 1.0 12 0.0 13 0.5 14 1.5 15 3.5 16 4.5 17 3.5 18 9.5 19 13.0 20 9.5 21 10.5 22 10.5 23 13.5 24 17.5 25 14.5 26 14.0 27 19.5 28 28.5 29 36.0 30 35.5 31 36.0 32 48.0 33 54.0 34 53.0 35 66.5 36 97.5 37 113.0 38 106.5 39 106.0 40 111.5 41 138.5 42 164.5 43 164.0 44 165.5 45 166.0 46 167.0 47 169.5 48 181.5 49 183.0 50 162.5 51 149.5 52 144.0 53 137.0 54 138.0 55 140.0 56 129.0 57 120.5 58 123.0 59 125.0 60 123.5 61 124.5 62 122.0 63 94.5 64 78.5 65 75.5 66 63.0 67 65.5 68 64.0 69 56.5 70 51.0 71 51.5 72 52.0 73 44.0 74 31.5 75 27.5 76 28.5 77 25.0 78 19.0 79 14.5 80 10.0 81 6.5 82 6.5 83 6.0 84 3.5 85 1.5 86 1.5 87 1.5 88 1.5 89 1.5 90 1.0 91 1.0 92 1.0 93 1.0 94 1.0 95 0.5 96 0.0 97 0.0 98 0.5 99 2.5 100 4.0 >>END_MODULE >>Per base N content pass #Base N-Count 1 2.625 2 2.65 3 2.6 4 2.6 5 2.6 6 2.6 7 2.6 8 2.675 9 2.675 10-11 2.6875 12-13 2.7125 14-15 2.8000000000000003 16-17 2.85 18-19 2.825 20-21 2.875 22-23 2.875 24-25 2.85 26-27 2.9125 28-29 2.8000000000000003 30-31 2.8000000000000003 32-33 2.825 34-35 2.9000000000000004 36-37 0.2951745379876797 38-39 0.25667351129363447 40-41 0.1540436456996149 42-43 0.21822849807445444 44-45 0.20549704597996404 46-47 0.12843565373747753 48-49 0.21836865767501604 50-51 0.1798561151079137 52-53 0.2570033410434336 54-55 0.15424164524421594 56-57 0.15424164524421594 58-59 0.1928516328104911 60-61 0.19290123456790123 62-63 0.1543805480509456 64-65 0.18034265103697023 66-67 0.12886597938144329 68-69 0.15469898156503803 70-71 0.12903225806451613 72-73 0.1037344398340249 74-75 0.12332145793368045 76 0.1616161616161616 >>END_MODULE >>Sequence Length Distribution warn #Length Count 35 104.0 36 0.0 37 0.0 38 0.0 39 1.0 40 0.0 41 0.0 42 0.0 43 2.0 44 0.0 45 0.0 46 0.0 47 0.0 48 1.0 49 0.0 50 0.0 51 1.0 52 0.0 53 1.0 54 0.0 55 0.0 56 0.0 57 1.0 58 0.0 59 1.0 60 0.0 61 0.0 62 3.0 63 3.0 64 1.0 65 0.0 66 2.0 67 0.0 68 1.0 69 1.0 70 4.0 71 8.0 72 18.0 73 72.0 74 252.0 75 1048.0 76 2475.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 93.175 #Duplication Level Percentage of deduplicated Percentage of total 1 97.18272068687953 90.55 2 1.851354977193453 3.45 3 0.5634558626240944 1.575 4 0.13415615776764153 0.5 5 0.10732492621411323 0.5 6 0.08049369466058491 0.44999999999999996 7 0.026831231553528307 0.17500000000000002 8 0.026831231553528307 0.2 9 0.0 0.0 >10 0.0 0.0 >50 0.0 0.0 >100 0.026831231553528307 2.6 >500 0.0 0.0 >1k 0.0 0.0 >5k 0.0 0.0 >10k+ 0.0 0.0 >>END_MODULE >>Overrepresented sequences fail #Sequence Count Percentage Possible Source NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN 104 2.6 No Hit ATCGATTAATAGATAAAACTAAATATGAAGAAGGTCTAAATAAAAAGAAA 8 0.2 No Hit AAATTATCCGAGCAGCTTGCAAATGGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTCG 7 0.17500000000000002 No Hit TGCAAATGGAGTCCTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGAT 6 0.15 No Hit GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG 6 0.15 No Hit GGAACTTTAGGACATCCTTGGGGAAATGCACCTGGTGCAGCAGCTAATCGAGTGGCTTTAGAAGCCTGTGTACA 6 0.15 No Hit GTGGTATTCATGTTTGGCATATGCCAGCTCTGACCGAAATCTTTGGGGAT 5 0.125 No Hit AGCACACACAAGCCTAGAAGCCTTCAGCTTAATCTTCTTCCTAAGCAAGT 5 0.125 No Hit GTGAAGTATGGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGATTAATAGATAAAACTAAATATGA 5 0.125 No Hit CTGAACTAGCCGCAGCTTGTGAAGTATGGAAGGCGATCAAATTCGAGTTCGCGCCGGTAGATACTATCGATTAAT 5 0.125 No Hit >>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 0.025 0.0 0.0 0.0 0.0 20 0.025 0.0 0.0 0.0 0.0 21 0.025 0.0 0.0 0.0 0.0 22 0.025 0.0 0.0 0.0 0.0 23 0.025 0.0 0.0 0.0 0.0 24 0.025 0.0 0.0 0.0 0.0 25 0.05 0.0 0.0 0.0 0.0 26 0.05 0.0 0.0 0.0 0.0 27 0.05 0.0 0.0 0.0 0.0 28 0.05 0.0 0.0 0.0 0.0 29 0.05 0.0 0.0 0.0 0.0 30 0.05 0.0 0.0 0.0 0.0 31 0.075 0.0 0.0 0.0 0.0 32 0.075 0.0 0.0 0.0 0.0 33 0.075 0.0 0.0 0.0 0.0 34 0.075 0.0 0.0 0.0 0.0 35 0.075 0.0 0.0 0.0 0.0 36 0.075 0.0 0.0 0.0 0.0 37 0.075 0.0 0.0 0.0 0.0 38 0.075 0.0 0.0 0.0 0.0 39 0.075 0.0 0.0 0.0 0.0 40 0.075 0.0 0.0 0.0 0.0 41 0.075 0.0 0.0 0.0 0.0 42 0.075 0.0 0.0 0.0 0.0 43 0.075 0.0 0.0 0.0 0.0 44 0.075 0.0 0.0 0.0 0.0 45 0.075 0.0 0.0 0.0 0.0 46 0.075 0.0 0.0 0.0 0.0 47 0.075 0.0 0.0 0.0 0.0 48 0.075 0.0 0.0 0.0 0.0 49 0.075 0.0 0.0 0.0 0.0 50 0.075 0.0 0.0 0.0 0.0 51 0.075 0.0 0.0 0.0 0.0 52 0.075 0.0 0.0 0.0 0.0 53 0.075 0.0 0.0 0.0 0.0 54 0.075 0.0 0.0 0.0 0.0 55 0.075 0.0 0.0 0.0 0.0 56 0.075 0.0 0.0 0.0 0.0 57 0.075 0.0 0.0 0.0 0.0 58 0.075 0.0 0.0 0.0 0.0 59 0.075 0.0 0.0 0.0 0.0 60 0.075 0.0 0.0 0.0 0.0 61 0.075 0.0 0.0 0.0 0.0 62 0.075 0.0 0.0 0.0 0.0 63 0.075 0.0 0.0 0.0 0.0 64 0.075 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Read 1050912 spots for SRR11389791.sra Written 1050912 spots for SRR11389791.sra Read 1050912 spots for SRR11389791.sra Written 1050912 spots for SRR11389791.sra Read 1050912 spots for SRR11389791.sra Written 1050912 spots for SRR11389791.sra Read 1050912 spots for SRR11389791.sra Written 1050912 spots for SRR11389791.sra Read 1050912 spots for SRR11389791.sra Written 1050912 spots for SRR11389791.sra Read 1050912 spots for SRR11389791.sra Written 1050912 spots for SRR11389791.sra Read 1050912 spots for SRR11389791.sra Written 1050912 spots for SRR11389791.sra Read 1050912 spots for SRR11389791.sra Written 1050912 spots for SRR11389791.sra Read 1050912 spots for SRR11389791.sra Written 1050912 spots for SRR11389791.sra Read 1050912 spots for SRR11389791.sra Written 1050912 spots for SRR11389791.sra Read 1050912 spots for SRR11389791.sra Written 1050912 spots for SRR11389791.sra Read 1050925 spots for SRR11389791.sra Written 1050925 spots for SRR11389791.sra Read 1050912 spots for SRR11389791.sra Written 1050912 spots for SRR11389791.sra Read 1050912 spots for SRR11389791.sra Written 1050912 spots for SRR11389791.sra Read 1050912 spots for SRR11389791.sra Written 1050912 spots for SRR11389791.sra Read 1050912 spots for SRR11389791.sra Written 1050912 spots for SRR11389791.sra Read 1050912 spots for SRR11389791.sra Written 1050912 spots for SRR11389791.sra Read 1050912 spots for SRR11389791.sra Written 1050912 spots for SRR11389791.sra Read 1050912 spots for SRR11389791.sra Written 1050912 spots for SRR11389791.sra Read 1050912 spots for SRR11389791.sra Written 1050912 spots for SRR11389791.sra SRR ids: ['SRR11389791.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_iee_83wz SRR11389791.sra spots: 21018253 blocks: [[1, 1050912], [1050913, 2101824], [2101825, 3152736], [3152737, 4203648], [4203649, 5254560], [5254561, 6305472], [6305473, 7356384], [7356385, 8407296], [8407297, 9458208], [9458209, 10509120], [10509121, 11560032], [11560033, 12610944], [12610945, 13661856], [13661857, 14712768], [14712769, 15763680], [15763681, 16814592], [16814593, 17865504], [17865505, 18916416], [18916417, 19967328], [19967329, 21018253]] SRR11389791 file size 3947092 SRR11389791 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 SRR11389791 SRR11389791_1.fastq SRR11389791_2.fastq Input file: SRR11389791_1.fastq Paired file: SRR11389791_2.fastq trimmed: SRR11389791-trimmed-pair1.fastq, SRR11389791-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 Sat Dec 7 06:33:20 2024 >> started Sat Dec 7 06:33:39 2024 >> done (19.957s) 21018253 read pairs processed; of these: 1124 ( 0.01%) short read pairs filtered out after trimming by size control 1729410 ( 8.23%) empty read pairs filtered out after trimming by size control 19287719 (91.77%) read pairs available; of these: 29543 ( 0.15%) trimmed read pairs available after processing 19258176 (99.85%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 18 814 0.00% 19 28 0.00% 20 997 0.01% 21 18 0.00% 22 1144 0.01% 23 25 0.00% 24 1294 0.01% 25 29 0.00% 26 1413 0.01% 27 25 0.00% 28 1189 0.01% 29 31 0.00% 30 905 0.00% 31 11 0.00% 32 677 0.00% 33 10 0.00% 34 462 0.00% 35 193 0.00% 36 2181 0.01% 37 249 0.00% 38 1108 0.01% 39 269 0.00% 40 706 0.00% 41 415 0.00% 42 606 0.00% 43 548 0.00% 44 687 0.00% 45 710 0.00% 46 807 0.00% 47 808 0.00% 48 961 0.00% 49 1039 0.01% 50 1130 0.01% 51 1350 0.01% 52 1597 0.01% 53 1685 0.01% 54 1890 0.01% 55 2701 0.01% 56 3172 0.02% 57 3099 0.02% 58 3063 0.02% 59 3402 0.02% 60 3447 0.02% 61 3781 0.02% 62 4321 0.02% 63 5078 0.03% 64 5403 0.03% 65 5689 0.03% 66 6550 0.03% 67 7678 0.04% 68 7057 0.04% 69 8274 0.04% 70 9573 0.05% 71 12889 0.07% 72 29061 0.15% 73 189460 0.98% 74 1417308 7.35% 75 8884976 46.07% 76 8643726 44.81% 19287719 reads passed initial QC criterion=sequence-density sequence-density=1.47 sequence-density-rank=1 fanout-score=2.01 fanout-score-rank=24 prefix-density=1.41 prefix-fanout=2.0 sequence=TTCAAATGTACA criterion=fanout-score sequence-density=0.03 sequence-density-rank=25 fanout-score=15.04 fanout-score-rank=1 prefix-density=0.25 prefix-fanout=1.5 sequence=TTTAGGAATTCTACCAAGGGCTATAGTCATAGTGATCCTCCTATTCAATTACTTCAACCATTTCCGAGCACCTCGTATCACTTCCAAGGCATATGATAGTTTGATTATCTGTGGACGATTTCTTTCTCGTGCAATGCCGTTTTTCAATGGTCTCGAAGATATAAATTTTTTCATTTTTATCTATGGAGTCACAACCGAGGTCGTGGTAAATCCATAAATTGGATTCGATTTTTTTCTTAT criterion=sequence-density sequence-density=1.05 sequence-density-rank=1 fanout-score=2.08 fanout-score-rank=21 prefix-density=1.07 prefix-fanout=2.1 sequence=GTGCAGTGCATCAGCTTCATCGCCTTCAAGCCACCGGGTTGTGAGGAGTCCGG criterion=fanout-score sequence-density=0.03 sequence-density-rank=24 fanout-score=29.34 fanout-score-rank=1 prefix-density=0.27 prefix-fanout=3.6 sequence=CGTCGTCGCCAGCCTCGGCACCCCGGCCCCGTCCTCTTCCGGCAGCTTCCGGCCCAGGCTCATCAGGAACGCCCCCGTCCAGGCCGCGCCCGTCGCGCCCGCATTGATGGACGCCGCCGTGGAGCGCCTCAAGACCGGGTTCGAGAAGTTCAAGACCGAGGTCTACGACAAGAAGCCGGATGTCTTCGAGCCGCTCAAGGCCGGCCAGGCCCCCAAGTACATGGTGTTCGCCTGCGCCGACTCACGTGTGTGCCCGTCGGTGACCCTGGGCCTGGAGCCCGGTGAGGCCTTCACCGTCCGCAACATCGCCAACATGGTCCCGTCCTACTGCAAGAACAAGTACGCCGGTGTTGGGTCGGCCATCGAGTACGCCGTGTGTGCCCTCAAGGTTGAGGTCATCGTGGTGATTGGCCACAGCCGCTGCGGTGGAATCAAGGCACTCCTCTCGCTCAAGGATGGTGCAGATGACAGCTTCCACTTCGTCGAGGACTGGGTCAGGATCGGGTTCCCG SRR11389791 testing PE reads STAR mapping to Ensembl genome Started job on | Dec 07 06:34:21 Started mapping on | Dec 07 06:34:21 Finished on | Dec 07 06:37:03 Mapping speed, Million of reads per hour | 428.62 Number of input reads | 19287719 Average input read length | 150 UNIQUE READS: Uniquely mapped reads number | 16043431 Uniquely mapped reads % | 83.18% Average mapped length | 149.74 Number of splices: Total | 4556620 Number of splices: Annotated (sjdb) | 4286092 Number of splices: GT/AG | 4493761 Number of splices: GC/AG | 52350 Number of splices: AT/AC | 1179 Number of splices: Non-canonical | 9330 Mismatch rate per base, % | 1.23% Deletion rate per base | 0.01% Deletion average length | 1.71 Insertion rate per base | 0.01% Insertion average length | 1.68 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 1973138 % of reads mapped to multiple loci | 10.23% Number of reads mapped to too many loci | 53747 % of reads mapped to too many loci | 0.28% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 4.92% % of reads unmapped: other | 1.39% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 1271155 1271155 1271155 N_multimapping 1973138 1973138 1973138 N_noFeature 652286 15463892 844732 N_ambiguous 546523 3999 186036 UnstrandedReadsAssigned:14844622 PositiveStrandReadsAssigned:575540 NegativeStrandReadsAssigned:15012663 Dataset is classified negative stranded MeadianReadLen=76 20thPercentileLength=75 echo kmer=71 SRR11389791 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: SRR11389791-trimmed-pair1.fastq SRR11389791-trimmed-pair2.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 19,287,719 reads, 16,809,676 reads pseudoaligned [quant] estimated average fragment length: 181.798 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,133 rounds 52973 SRR11389791.ke.tsv 35125 SRR11389791.se.tsv 88098 total ==> SRR11389791.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 755.264 0 0 PNS24247 1044 863.202 11.2144 0.974793 PNS24249 1928 1747.2 44.2008 1.89817 PNS24246 1044 863.202 11.2144 0.974793 PNS24248 1044 863.202 11.2144 0.974793 PNS24244 1471 1290.2 223.156 12.9777 PNS24243 293 122.2 0 0 KQK14069 1603 1422.2 323.746 17.0801 KQK14071 474 294.609 8.52097 2.17016 ==> SRR11389791.se.tsv <== BRADI_1g14170v3 355 BRADI_1g53295v3 21 BRADI_1g59795v3 454 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 371 BRADI_1g74790v3 269 BRADI_1g09890v3 0 BRADI_1g77505v3 157 BRADI_1g48960v3 0 SRR11389791 completed mapping pipeline successfully