Starting /dee2/code/volunteer_pipeline.sh SRR12682228 current disk space = 1547287011328 free memory = 1604129708 SRR12682228 SRAfilesize 698994665060d58b45822f6df80121c3 SRR12682228.sra SRR12682228.sra file validated SRR12682228 is single end SRR12682228 is conventional basespace SRR12682228 read1 length is 35-150 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR12682228_1.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 35-150 %GC 51 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 31.2255 32.0 32.0 32.0 32.0 32.0 2 31.27325 32.0 32.0 32.0 32.0 32.0 3 31.396 32.0 32.0 32.0 32.0 32.0 4 31.3965 32.0 32.0 32.0 32.0 32.0 5 31.4125 32.0 32.0 32.0 32.0 32.0 6 34.26325 36.0 36.0 36.0 32.0 36.0 7 34.90675 36.0 36.0 36.0 36.0 36.0 8 34.858 36.0 36.0 36.0 36.0 36.0 9 34.72575 36.0 36.0 36.0 32.0 36.0 10-14 34.8545 36.0 36.0 36.0 36.0 36.0 15-19 34.7539 36.0 36.0 36.0 34.4 36.0 20-24 34.66705 36.0 36.0 36.0 33.6 36.0 25-29 34.443 36.0 36.0 36.0 32.0 36.0 30-34 34.41615 36.0 36.0 36.0 32.0 36.0 35-39 34.61832656516094 36.0 36.0 36.0 32.0 36.0 40-44 34.601046787996765 36.0 36.0 36.0 32.0 36.0 45-49 34.41129691224121 36.0 36.0 36.0 32.0 36.0 50-54 34.42355022825227 36.0 36.0 36.0 32.0 36.0 55-59 34.30175966865032 36.0 36.0 36.0 32.0 36.0 60-64 34.110463088119445 36.0 36.0 36.0 32.0 36.0 65-69 33.977832634292 36.0 36.0 36.0 32.0 36.0 70-74 33.96791092559727 36.0 36.0 36.0 32.0 36.0 75-79 33.9650159607279 36.0 36.0 36.0 31.0 36.0 80-84 33.83848711600346 36.0 36.0 36.0 29.0 36.0 85-89 33.77893718470301 36.0 36.0 36.0 27.0 36.0 90-94 33.740486733313794 36.0 36.0 36.0 28.0 36.0 95-99 33.695688824946394 36.0 36.0 36.0 27.0 36.0 100-104 33.676300887296385 36.0 36.0 36.0 27.0 36.0 105-109 33.297857913346185 36.0 32.8 36.0 27.0 36.0 110-114 33.262654386027414 36.0 33.6 36.0 27.0 36.0 115-119 32.86308754572167 36.0 32.0 36.0 27.0 36.0 120-124 32.27560947269726 34.4 32.0 36.0 24.6 36.0 125-129 32.18913975812452 34.4 32.0 36.0 24.6 36.0 130-134 31.500057934675418 32.0 32.0 36.0 21.0 36.0 135-139 31.59684277236015 33.6 32.0 36.0 21.0 36.0 140-144 31.670574751904876 35.2 32.0 36.0 19.6 36.0 145-149 31.38020797314966 32.8 32.0 36.0 21.0 36.0 150 27.082077051926298 27.0 21.0 32.0 14.0 36.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 2 33.0 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 1.0 18 3.0 19 3.0 20 2.0 21 6.0 22 6.0 23 14.0 24 16.0 25 29.0 26 43.0 27 49.0 28 91.0 29 102.0 30 126.0 31 137.0 32 218.0 33 325.0 34 694.0 35 2102.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 30.224350894882786 9.427779178220318 8.343836652382153 52.00403327451475 2 23.418200151247795 12.32669523569448 33.501386438114444 30.753718174943284 3 21.023443408116965 15.376859087471642 21.552810688177466 42.04688681623393 4 28.91353667759012 22.157801865389462 18.225359213511467 30.70330224350895 5 26.796067557348124 28.106881774640787 20.8469876480968 24.250063019914293 6 22.572380220343323 31.181142710735333 23.674096848578017 22.572380220343323 7 18.2757751449458 20.796571716662466 38.99672296445677 21.93093017393496 8 19.611797327955635 18.805142425006302 33.17368288379128 28.409377363246787 9 20.418452230904965 19.4857574993698 32.16536425510461 27.93042601462062 10-14 23.216536425510462 25.334005545752458 24.74413914797076 26.70531888076632 15-19 22.81825056717923 24.103856818754725 25.92891353667759 27.148979077388454 20-24 24.26518779934459 24.426518779934458 24.99117721199899 26.31711620872196 25-29 23.367784219813462 23.342576254096294 24.572724981094026 28.716914544996218 30-34 23.488782455255862 22.556087723720697 25.379379884043356 28.57574993698009 35-39 23.213475213071764 24.54990165918604 24.650764032477685 27.58585909526451 40-44 23.57366454609714 23.856407149348684 25.088357063516103 27.481571241038072 45-49 23.586192954970436 23.419416788800728 25.673421943700408 27.320968312528425 50-54 22.48718859404333 24.339134405601502 25.739509868587955 27.43416713176721 55-59 22.819477798783915 23.647233151090898 25.28741505288437 28.245873997240817 60-64 22.486608982282654 21.78100535640709 26.69447878038731 29.037906880922947 65-69 22.28633811603244 23.9342898731545 26.362029527968396 27.417342482844663 70-74 23.55536877495272 22.96175667156966 26.029628073124606 27.453246480353016 75-79 24.01170524075552 24.12875764831072 24.75658419792498 27.102952913008778 80-84 23.743970516503172 22.94184597040811 24.95257709609235 28.36160641699637 85-89 23.98839091365742 22.749344198247474 25.556733828207847 27.705531059887257 90-94 23.90399074609601 23.065355696934645 25.072296124927707 27.95835743204164 95-99 22.792820200790995 23.23090964405233 26.17584423486462 27.80042592029206 100-104 23.52713428405498 23.901400271020197 24.991933922694713 27.57953152223011 105-109 23.566438403541536 23.995296396209447 25.696894238085356 26.741370962163657 110-114 24.80631816472358 24.512974802557352 24.40015043249342 26.280556600225648 115-119 24.376569037656903 22.761506276150627 25.255230125523013 27.606694560669453 120-124 24.65274496834546 23.216479259189267 25.351979589908343 26.77879618255693 125-129 24.900376952073238 24.32956381260097 23.651050080775445 27.11900915455035 130-134 25.028030397408745 22.922636103151863 23.433412233711223 28.61592126572817 135-139 26.21316522504032 23.691540829790352 24.409910570297612 25.68538337487172 140-144 24.652121628586155 23.999312832846588 23.724445971482563 27.624119567084694 145-149 26.462738657359886 22.130979265037983 23.424348183124614 27.981933894477518 150 28.8107202680067 0.0 34.33835845896148 36.85092127303183 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 33.0 1 16.5 2 0.0 3 0.0 4 0.0 5 0.0 6 0.0 7 0.0 8 0.0 9 0.0 10 0.0 11 0.0 12 0.0 13 0.0 14 0.0 15 0.0 16 0.0 17 0.0 18 0.0 19 0.0 20 0.0 21 0.0 22 0.0 23 0.0 24 0.0 25 0.0 26 0.0 27 0.0 28 0.5 29 0.5 30 1.0 31 2.5 32 2.5 33 4.5 34 8.0 35 15.5 36 44.5 37 60.0 38 55.0 39 62.5 40 63.5 41 79.5 42 99.0 43 96.5 44 109.5 45 135.0 46 165.5 47 214.0 48 234.5 49 228.5 50 243.0 51 241.5 52 224.0 53 213.0 54 202.0 55 195.0 56 177.5 57 142.0 58 122.5 59 108.0 60 85.0 61 76.5 62 76.0 63 72.0 64 58.5 65 37.0 66 19.0 67 25.5 68 33.5 69 23.5 70 15.5 71 14.0 72 12.0 73 7.0 74 4.5 75 5.5 76 5.0 77 3.0 78 2.0 79 2.0 80 1.5 81 0.5 82 0.0 83 0.0 84 0.0 85 0.0 86 0.0 87 0.0 88 0.0 89 0.5 90 0.5 91 0.0 92 0.0 93 0.0 94 0.0 95 0.0 96 1.0 97 1.0 98 0.5 99 1.0 100 8.5 >>END_MODULE >>Per base N content pass #Base N-Count 1 0.8250000000000001 2 0.8250000000000001 3 0.8250000000000001 4 0.8250000000000001 5 0.8250000000000001 6 2.4250000000000003 7 0.8250000000000001 8 0.8250000000000001 9 0.8250000000000001 10-14 0.8250000000000001 15-19 0.8250000000000001 20-24 0.8250000000000001 25-29 0.8250000000000001 30-34 0.8250000000000001 35-39 0.16614641023059107 40-44 0.0 45-49 0.01010662489261711 50-54 0.0050735667174023336 55-59 0.020434227330779056 60-64 0.025745327223109002 65-69 0.01039609106975777 70-74 0.03150929524209642 75-79 0.005320280910832092 80-84 0.005419466724474312 85-89 0.011161337128187957 90-94 0.028910089621277828 95-99 0.04257389611969347 100-104 0.03225390272222939 105-109 0.027660604384205794 110-114 0.007521058965102287 115-119 0.01673360107095047 120-124 0.01889466225791214 125-129 0.03229974160206719 130-134 0.012456402590931738 135-139 0.01465845793022574 140-144 0.017176228100309172 145-149 0.04104247896572953 150 0.0 >>END_MODULE >>Sequence Length Distribution warn #Length Count 35-39 36.0 40-44 4.0 45-49 9.0 50-54 25.0 55-59 33.0 60-64 34.0 65-69 36.0 70-74 39.0 75-79 58.0 80-84 95.0 85-89 117.0 90-94 153.0 95-99 185.0 100-104 194.0 105-109 215.0 110-114 260.0 115-119 290.0 120-124 256.0 125-129 253.0 130-134 256.0 135-139 207.0 140-144 195.0 145-149 453.0 150-151 597.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 73.45 #Duplication Level Percentage of deduplicated Percentage of total 1 84.51327433628319 62.075 2 7.8284547311095976 11.5 3 3.5398230088495577 7.8 4 1.531654186521443 4.5 5 1.0211027910142956 3.75 6 0.6126616746085772 2.7 7 0.3063308373042886 1.575 8 0.10211027910142954 0.6 9 0.13614703880190604 0.8999999999999999 >10 0.4084411164057182 4.6 >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 warn #Sequence Count Percentage Possible Source NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN 33 0.8250000000000001 No Hit GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG 18 0.44999999999999996 No Hit CCCGACTGTCCCTATTAATCATTACTCCGATCCCGAAGGCCAACACAATA 17 0.42500000000000004 No Hit CCGACATCGAAGGATCAAAAAGCAACGTCGCTATGAACGCTTGGCTGCCA 16 0.4 No Hit CGTTAACGGAATTAACCAGACAAATCGCTCCACCAACTAAGAACGGCCAT 15 0.375 No Hit CTCGTTGAAGACCAACAATTGCAATGATCTATCCCCATCACGATGAAATT 15 0.375 No Hit AGCAGGCTGAGGTCTCGTTCGTTAACGGAATTAACCAGACAAATCGCTCC 14 0.35000000000000003 No Hit CTCAGAGCCAATCCTTTTCCCGAAGTTACGGATCCGTTTTGCCGACTTCC 13 0.325 No Hit GCCACGCTTTCACGGTTCGTATTCGTACTGGAAATCAGAATCAAACGAGC 12 0.3 No Hit CAACAACTTAAATATACGCTATTGGAGCTGGAATTACCGCGGCTGCTGGC 11 0.27499999999999997 No Hit CCCGAAGTTACGGATCCGTTTTGCCGACTTCCCTTGCCTACATTGTTCCA 10 0.25 No Hit CCTAATTCTCCGTCACCCGTCACCACCATGGTAGGCCCCTATCCTACCAT 10 0.25 No Hit GTACAAAGGGCAGGGACGTAGTCAACGCGAGCTGATGACTCGCGCTTACT 9 0.22499999999999998 No Hit CTGACTATGAAATACGAATGCCCCCGACTGTCCCTATTAATCATTACTCC 9 0.22499999999999998 No Hit CGTCAATTCCTTTAAGTTTCAGCCTTGCGACCATACTCCCCCCGGAACCC 9 0.22499999999999998 No Hit GCCGCAGGCTCCACGCCTGGTGGTGCCCTTCCGTCAATTCCTTTAAGTTT 9 0.22499999999999998 No Hit GAGCTTTTTAACTGCAACAACTTAAATATACGCTATTGGAGCTGGAATTA 8 0.2 No Hit CCAACTTTCGTTCTTGATTAATGAAAACATCCTTGGCAAATGCTTTCGCA 8 0.2 No Hit CTCCAATGGATCCTCGTTAAGGGATTTAGATTGTACTCATTCCAATTACC 8 0.2 No Hit CTCTGACTATGAAATACGAATGCCCCCGACTGTCCCTATTAATCATTACT 7 0.17500000000000002 No Hit CCCGCGTCAGCCTTTTATCTAATAAATGCGCCCCTCCCAGAAGTCGGGGT 7 0.17500000000000002 No Hit CCGGAATCGAACCCTAATTCTCCGTCACCCGTCACCACCATGGTAGGCCC 7 0.17500000000000002 No Hit GCTCATCTTAGGACACCTGCGTTATCTTTTAACAGATGTGCCGCCCCAGC 7 0.17500000000000002 No Hit GTCGGCATCGTTTATGGTTGAGACTAGGACGGTATCTGATCGTCTTCGAG 7 0.17500000000000002 No Hit GGGAAACTTCGGAGGGAACCAGCTACTAGATGGTTCGATTAGTCTTTCGC 7 0.17500000000000002 No Hit CCCGAGCCCAGTCCTCAGAGCCAATCCTTTTCCCGAAGTTACGGATCCGT 7 0.17500000000000002 No Hit CCGGAACCCAAAGACTTTGATTTCTCATAAGGTGCCGGCGGAGTCCTATA 7 0.17500000000000002 No Hit GTAGGAGCGACGGGCGGTGTGTACAAAGGGCAGGGACGTAGTCAACGCGA 7 0.17500000000000002 No Hit GTTCGATTAGTCTTTCGCCCCTATACCCAAGTCAGACGAACGATTTGCAC 6 0.15 No Hit CTTCCGTCAATTCCTTTAAGTTTCAGCCTTGCGACCATACTCCCCCCGGA 6 0.15 No Hit CTTTGACATTCAGAGCACTGGGCAGAAATCACATTGCGTCAGCATCCGCG 6 0.15 No Hit GCCAATCCTTTTCCCGAAGTTACGGATCCGTTTTGCCGACTTCCCTTGCC 6 0.15 No Hit CCCCAACTTTCGTTCTTGATTAATGAAAACATCCTTGGCAAATGCTTTCG 6 0.15 No Hit CCCCCATCCGCTTCCCTCCCGGCAATTTCAAGCACTCTTTGACTCTCTTT 6 0.15 No Hit GTCAATTCCTTTAAGTTTCAGCCTTGCGACCATACTCCCCCCGGAACCCA 6 0.15 No Hit CCCGGAACCCAAAGACTTTGATTTCTCATAAGGTGCCGGCGGAGTCCTAT 6 0.15 No Hit CCTCGTTGAAGACCAACAATTGCAATGATCTATCCCCATCACGATGAAAT 6 0.15 No Hit CTCAAACTTCCGTCGCCTAAACGGCGATAGTCCCTCTAAGAAGCTAGCTG 6 0.15 No Hit CTTGGCTGTGGTTTCGCTGGATAGTAGACAGGGACAGTGGGAATCTCGTT 6 0.15 No Hit CCGGTATTGTTATTTATTGTCACTACCTCCCCGTGTCAGGATTGGGTAAT 6 0.15 No Hit GTTCGTTAACGGAATTAACCAGACAAATCGCTCCACCAACTAAGAACGGC 6 0.15 No Hit CCTCTAAGAAGCTAGCTGCGGAGGGATGGCTCCGCATAGCTAGTTAGCAG 6 0.15 No Hit CCGAGTAGCACGTACCATCAAACAAACTATAACTGATTTAATGAGCCATT 6 0.15 No Hit CCCAACTTTCGTTCTTGATTAATGAAAACATCCTTGGCAAATGCTTTCGC 6 0.15 No Hit CGCGGCTGCTGGCACCAGACTTGCCCTCCAATGGATCCTCGTTAAGGGAT 6 0.15 No Hit CCTGTGGTAACTTTTCTGACACCTCTAGCTTCAAACTCCGAAGATCTAAA 6 0.15 No Hit CTCTAAGAAGCTAGCTGCGGAGGGATGGCTCCGCATAGCTAGTTAGCAGG 5 0.125 No Hit CCCGATTCCATGGCGCGGCTCACCGGAGCAGCCGCGCCGTCCTACCTATT 5 0.125 No Hit GCACTCTTTGACTCTCTTTTCAAAGTCCTTTTCATCTTTCCCTCGCGGTA 5 0.125 No Hit GCCCGGTATTGTTATTTATTGTCACTACCTCCCCGTGTCAGGATTGGGTA 5 0.125 No Hit CTTTTATCTAATAAATGCGCCCCTCCCAGAAGTCGGGGTTTGTTGCACGT 5 0.125 No Hit CACGTATTAGCTCTAGAATTACTACGGTTATCCGAGTAGCACGTACCATC 5 0.125 No Hit CTCGCCTGTATTTAGCCTTGGACGGAGTCTACCGCCCGATTTGGGCTGCA 5 0.125 No Hit CCAACTACGAGCTTTTTAACTGCAACAACTTAAATATACGCTATTGGAGC 5 0.125 No Hit CAGCCTTTTATCTAATAAATGCGCCCCTCCCAGAAGTCGGGGTTTGTTGC 5 0.125 No Hit GTCGGGGCAGGCGGCGGGCGCAGGCGCCGCTTGCTAGCTTGGATTCTGAC 5 0.125 No Hit GCGGTGTGTACAAAGGGCAGGGACGTAGTCAACGCGAGCTGATGACTCGC 5 0.125 No Hit GTCCTTTTCATCTTTCCCTCGCGGTACTTGTTCGCTATCGGTCTCTCGCC 5 0.125 No Hit CTGCTGCCTTCCTTGGATGTGGTAGCCGTTTCTCAGGCTCCCTCTCCGGA 5 0.125 No Hit CTCATCTTAGGACACCTGCGTTATCTTTTAACAGATGTGCCGCCCCAGCC 5 0.125 No Hit GTCAAATTAAGCCGCAGGCTCCACGCCTGGTGGTGCCCTTCCGTCAATTC 5 0.125 No Hit CAGAAATTTGAATGATGCGTCGCCGGCACGAGGGCCGTGCGATCCGTCGA 5 0.125 No Hit CTCCGCATAGCTAGTTAGCAGGCTGAGGTCTCGTTCGTTAACGGAATTAA 5 0.125 No Hit CTCTCAAGTCATTTCACAAAGTCGGACTAGAGTCAAGCTCAACAGGGTCT 5 0.125 No Hit CATGAATCATCGGATCAGCGAGCAAAGCCCGCGTCAGCCTTTTATCTAAT 5 0.125 No Hit CCTCGCGGTACTTGTTCGCTATCGGTCTCTCGCCTGTATTTAGCCTTGGA 5 0.125 No Hit CTAGAATTACTACGGTTATCCGAGTAGCACGTACCATCAAACAAACTATA 5 0.125 No Hit GTTGAATACATCAGTGTAGCGCGCGTGCGGCCCAGAACATCTAAGGGCAT 5 0.125 No Hit CCCGCTCAGGCATAGTTCACCATCTTTCGGGTCCCGACAGGCGTGCTCCA 5 0.125 No Hit CGAAGGATCAAAAAGCAACGTCGCTATGAACGCTTGGCTGCCACAAGCCA 5 0.125 No Hit ATCACGATGAAATTTCCCAAGATTACCCGGGCCTGTCGGCCAAGGCTATA 5 0.125 No Hit CGCTATTGGAGCTGGAATTACCGCGGCTGCTGGCACCAGACTTGCCCTCC 5 0.125 No Hit CTGGAAATCAGAATCAAACGAGCTTTTACCCTTTTGTTCCACACGAGATT 5 0.125 No Hit CCCCAGCCAAACTCCCCACCTGACAATGTCTTCCGCCCGGATCGGCCCGG 5 0.125 No Hit GTCCAACTACGAGCTTTTTAACTGCAACAACTTAAATATACGCTATTGGA 5 0.125 No Hit GTCGCGCGCTTTAGCGCCATCCATTTTCGGGGCTAGTTGATTCGGCAGGT 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 10-11 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 0.0 0.0 0.0 0.0 0.0 72-73 0.0 0.0 0.0 0.0 0.0 74-75 0.0 0.0 0.0 0.0 0.0 76-77 0.0 0.0 0.0 0.0 0.0 78-79 0.0 0.0 0.0 0.0 0.0 80-81 0.0 0.0 0.0 0.0 0.0 82-83 0.0 0.0 0.0 0.0 0.0 84-85 0.0 0.0 0.0 0.0 0.0 86-87 0.0 0.0 0.0 0.0 0.0 88-89 0.0 0.0 0.0 0.0 0.0 90-91 0.0 0.0 0.0 0.0 0.0 92-93 0.0 0.0 0.0 0.0 0.0 94-95 0.0 0.0 0.0 0.0 0.0 96-97 0.0 0.0 0.0 0.0 0.0 98-99 0.0 0.0 0.0 0.0 0.0 100-101 0.0 0.0 0.0 0.0 0.0 102-103 0.0 0.0 0.0 0.0 0.0 104-105 0.0 0.0 0.0 0.0 0.0 106-107 0.0 0.0 0.0 0.0 0.0 108-109 0.0 0.0 0.0 0.0 0.0 110-111 0.0 0.0 0.0 0.0 0.0 112-113 0.0125 0.0 0.0 0.0 0.0 114-115 0.05 0.0 0.0 0.0 0.0 116-117 0.05 0.0 0.0 0.0 0.0 118-119 0.05 0.0 0.0 0.0 0.0 120-121 0.05 0.0 0.0 0.0 0.0 122-123 0.05 0.0 0.0 0.0 0.0 124-125 0.05 0.0 0.0 0.0 0.0 126-127 0.05 0.0 0.0 0.0 0.0 128-129 0.05 0.0 0.0 0.0 0.0 130-131 0.05 0.0 0.0 0.0 0.0 132-133 0.05 0.0 0.0 0.0 0.0 134-135 0.05 0.0 0.0 0.0 0.0 136-137 0.05 0.0 0.0 0.0 0.0 138 0.05 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Rejected 2901643 READS because READLEN < 1 Read 2901643 spots for SRR12682228.sra Written 2901643 spots for SRR12682228.sra Rejected 2901643 READS because READLEN < 1 Read 2901643 spots for SRR12682228.sra Written 2901643 spots for SRR12682228.sra Rejected 2901643 READS because READLEN < 1 Read 2901643 spots for SRR12682228.sra Written 2901643 spots for SRR12682228.sra Rejected 2901643 READS because READLEN < 1 Read 2901643 spots for SRR12682228.sra Written 2901643 spots for SRR12682228.sra Rejected 2901643 READS because READLEN < 1 Read 2901643 spots for SRR12682228.sra Written 2901643 spots for SRR12682228.sra Rejected 2901643 READS because READLEN < 1 Read 2901643 spots for SRR12682228.sra Written 2901643 spots for SRR12682228.sra Rejected 2901643 READS because READLEN < 1 Read 2901643 spots for SRR12682228.sra Written 2901643 spots for SRR12682228.sra Rejected 2901643 READS because READLEN < 1 Read 2901643 spots for SRR12682228.sra Written 2901643 spots for SRR12682228.sra Rejected 2901643 READS because READLEN < 1 Read 2901643 spots for SRR12682228.sra Written 2901643 spots for SRR12682228.sra Rejected 2901643 READS because READLEN < 1 Read 2901643 spots for SRR12682228.sra Written 2901643 spots for SRR12682228.sra Rejected 2901643 READS because READLEN < 1 Read 2901643 spots for SRR12682228.sra Written 2901643 spots for SRR12682228.sra Rejected 2901643 READS because READLEN < 1 Read 2901643 spots for SRR12682228.sra Written 2901643 spots for SRR12682228.sra Rejected 2901643 READS because READLEN < 1 Read 2901643 spots for SRR12682228.sra Written 2901643 spots for SRR12682228.sra Rejected 2901643 READS because READLEN < 1 Read 2901643 spots for SRR12682228.sra Written 2901643 spots for SRR12682228.sra Rejected 2901643 READS because READLEN < 1 Read 2901643 spots for SRR12682228.sra Written 2901643 spots for SRR12682228.sra Rejected 2901643 READS because READLEN < 1 Read 2901643 spots for SRR12682228.sra Written 2901643 spots for SRR12682228.sra Rejected 2901643 READS because READLEN < 1 Read 2901643 spots for SRR12682228.sra Written 2901643 spots for SRR12682228.sra Rejected 2901647 READS because READLEN < 1 Read 2901647 spots for SRR12682228.sra Written 2901647 spots for SRR12682228.sra Rejected 2901643 READS because READLEN < 1 Read 2901643 spots for SRR12682228.sra Written 2901643 spots for SRR12682228.sra Rejected 2901643 READS because READLEN < 1 Read 2901643 spots for SRR12682228.sra Written 2901643 spots for SRR12682228.sra SRR ids: ['SRR12682228.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_f3et4oxa SRR12682228.sra spots: 58032864 blocks: [[1, 2901643], [2901644, 5803286], [5803287, 8704929], [8704930, 11606572], [11606573, 14508215], [14508216, 17409858], [17409859, 20311501], [20311502, 23213144], [23213145, 26114787], [26114788, 29016430], [29016431, 31918073], [31918074, 34819716], [34819717, 37721359], [37721360, 40623002], [40623003, 43524645], [43524646, 46426288], [46426289, 49327931], [49327932, 52229574], [52229575, 55131217], [55131218, 58032864]] SRR12682228 file size 16078618 SRR12682228 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 SRR12682228 SRR12682228_1.fastq Input file: SRR12682228_1.fastq trimmed: SRR12682228-trimmed.fastq Parameters used: -- 3' end adapter sequence (-x): AGATCGGAAGAGCACACGTCTGAACTCCAGTCAC -- 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 -- minimum overlap length for adapter detection (-k): inf -- number of concurrent threads (-t): 20 Sat Dec 7 03:55:24 2024 >> started Sat Dec 7 03:55:58 2024 >> done (33.996s) 58032864 reads processed; of these: 5 ( 0.00%) short reads filtered out after trimming by size control 858612 ( 1.48%) empty reads filtered out after trimming by size control 57174247 (98.52%) reads available; of these: 127095 ( 0.22%) trimmed reads available after processing 57047152 (99.78%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 22 375 0.00% 23 582 0.00% 24 954 0.00% 25 1770 0.00% 26 2944 0.01% 27 4209 0.01% 28 5963 0.01% 29 6553 0.01% 30 7791 0.01% 31 7824 0.01% 32 9038 0.02% 33 10873 0.02% 34 11843 0.02% 35 14187 0.02% 36 16742 0.03% 37 18727 0.03% 38 22154 0.04% 39 26250 0.05% 40 28698 0.05% 41 32505 0.06% 42 30867 0.05% 43 30581 0.05% 44 29787 0.05% 45 30579 0.05% 46 32932 0.06% 47 38419 0.07% 48 46815 0.08% 49 52079 0.09% 50 56898 0.10% 51 59834 0.10% 52 60931 0.11% 53 58945 0.10% 54 59103 0.10% 55 62323 0.11% 56 64355 0.11% 57 69934 0.12% 58 80952 0.14% 59 85831 0.15% 60 93052 0.16% 61 97253 0.17% 62 104846 0.18% 63 101261 0.18% 64 104785 0.18% 65 106572 0.19% 66 113532 0.20% 67 119857 0.21% 68 124200 0.22% 69 128799 0.23% 70 132424 0.23% 71 153470 0.27% 72 162519 0.28% 73 173911 0.30% 74 177152 0.31% 75 183403 0.32% 76 190244 0.33% 77 194174 0.34% 78 205042 0.36% 79 223029 0.39% 80 234189 0.41% 81 245516 0.43% 82 260956 0.46% 83 266440 0.47% 84 287889 0.50% 85 318625 0.56% 86 349837 0.61% 87 355747 0.62% 88 365731 0.64% 89 373168 0.65% 90 399689 0.70% 91 398664 0.70% 92 444615 0.78% 93 471242 0.82% 94 467762 0.82% 95 507645 0.89% 96 538924 0.94% 97 543713 0.95% 98 602794 1.05% 99 592065 1.04% 100 579363 1.01% 101 583778 1.02% 102 616076 1.08% 103 643636 1.13% 104 658217 1.15% 105 636627 1.11% 106 656677 1.15% 107 687938 1.20% 108 639623 1.12% 109 698120 1.22% 110 693679 1.21% 111 723595 1.27% 112 770641 1.35% 113 720624 1.26% 114 757973 1.33% 115 797948 1.40% 116 794584 1.39% 117 745035 1.30% 118 725081 1.27% 119 748657 1.31% 120 787322 1.38% 121 726518 1.27% 122 787993 1.38% 123 789871 1.38% 124 729316 1.28% 125 725242 1.27% 126 731062 1.28% 127 692624 1.21% 128 692261 1.21% 129 735675 1.29% 130 678908 1.19% 131 659425 1.15% 132 654694 1.15% 133 654488 1.14% 134 621202 1.09% 135 617102 1.08% 136 615488 1.08% 137 606656 1.06% 138 560951 0.98% 139 554594 0.97% 140 535895 0.94% 141 503952 0.88% 142 506427 0.89% 143 478064 0.84% 144 494949 0.87% 145 451858 0.79% 146 496288 0.87% 147 676977 1.18% 148 1039634 1.82% 149 3347887 5.86% 150 9047169 15.82% 57174247 reads passed initial QC criterion=sequence-density sequence-density=0.68 sequence-density-rank=1 fanout-score=2.75 fanout-score-rank=33 prefix-density=1.86 prefix-fanout=1.0 sequence=CTTGGATGTGGCAGCCGTTTCTC criterion=fanout-score sequence-density=0.05 sequence-density-rank=36 fanout-score=30.94 fanout-score-rank=1 prefix-density=1.70 prefix-fanout=1.0 sequence=CGAAGTTACGGGGCTATTTTGCCGAGTTCCTTAGAGAGAGTTGTCTCGCGCCCCTAGGTATTCTCTACCTACCCACCTGTGTCGGTTTCGGGTACAGGTACCCTTTTGT Started job on | Dec 07 03:56:19 Started mapping on | Dec 07 03:56:19 Finished on | Dec 07 03:59:49 Mapping speed, Million of reads per hour | 980.13 Number of input reads | 57174247 Average input read length | 120 UNIQUE READS: Uniquely mapped reads number | 15548148 Uniquely mapped reads % | 27.19% Average mapped length | 121.41 Number of splices: Total | 5043577 Number of splices: Annotated (sjdb) | 4712006 Number of splices: GT/AG | 4974566 Number of splices: GC/AG | 61163 Number of splices: AT/AC | 3427 Number of splices: Non-canonical | 4421 Mismatch rate per base, % | 0.23% Deletion rate per base | 0.01% Deletion average length | 1.72 Insertion rate per base | 0.00% Insertion average length | 1.16 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 3573407 % of reads mapped to multiple loci | 6.25% Number of reads mapped to too many loci | 32229564 % of reads mapped to too many loci | 56.37% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 4.75% % of reads unmapped: other | 5.44% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 38052692 38052692 38052692 N_multimapping 3573407 3573407 3573407 N_noFeature 1332843 15103840 1490535 N_ambiguous 356956 1708 72340 UnstrandedReadsAssigned:13858349 PositiveStrandReadsAssigned:442600 NegativeStrandReadsAssigned:13985273 Dataset is classified negative stranded MeadianReadLen=123 20thPercentileLength=98 echo kmer=93 SRR12682228 Starting Kallisto single end mapping to ensembl reference transcriptome. kmer=31 [quant] fragment length distribution is truncated gaussian with mean = 100, sd = 20 [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 single-end mode [quant] will process file 1: SRR12682228-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 57,174,247 reads, 14,681,460 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,096 rounds 52973 SRR12682228.ke.tsv 35125 SRR12682228.se.tsv 88098 total ==> SRR12682228.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 837 9.19089e-06 1.109e-06 PNS24247 1044 945 33.9002 3.62302 PNS24249 1928 1829 60.5339 3.3426 PNS24246 1044 945 33.9002 3.62302 PNS24248 1044 945 33.9002 3.62302 PNS24244 1471 1372 193.765 14.2634 PNS24243 293 194 0 0 KQK14069 1603 1504 14205.7 953.927 KQK14071 474 375 529.811 142.689 ==> SRR12682228.se.tsv <== BRADI_1g14170v3 16156 BRADI_1g53295v3 130 BRADI_1g59795v3 359 BRADI_1g07683v3 0 BRADI_1g00485v3 14 BRADI_1g20270v3 620 BRADI_1g74790v3 415 BRADI_1g09890v3 0 BRADI_1g77505v3 188 BRADI_1g48960v3 0 SRR12682228 completed mapping pipeline successfully