Starting /dee2/code/volunteer_pipeline.sh SRR12682227 current disk space = 1547526311936 free memory = 1598803496 SRR12682227 SRAfilesize 8cb1cc64eb0e05952874c893dcfb83bc SRR12682227.sra SRR12682227.sra file validated SRR12682227 is single end SRR12682227 is conventional basespace SRR12682227 read1 length is 35-150 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR12682227_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 52 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 31.52175 32.0 32.0 32.0 32.0 32.0 2 31.58075 32.0 32.0 32.0 32.0 32.0 3 31.5915 32.0 32.0 32.0 32.0 32.0 4 31.60525 32.0 32.0 32.0 32.0 32.0 5 31.65475 32.0 32.0 32.0 32.0 32.0 6 34.88225 36.0 36.0 36.0 36.0 36.0 7 35.158 36.0 36.0 36.0 36.0 36.0 8 35.0495 36.0 36.0 36.0 36.0 36.0 9 35.193 36.0 36.0 36.0 36.0 36.0 10-14 35.1063 36.0 36.0 36.0 36.0 36.0 15-19 35.062 36.0 36.0 36.0 36.0 36.0 20-24 35.01975 36.0 36.0 36.0 36.0 36.0 25-29 34.86710000000001 36.0 36.0 36.0 33.6 36.0 30-34 34.89765 36.0 36.0 36.0 33.6 36.0 35-39 34.86299322161081 36.0 36.0 36.0 34.4 36.0 40-44 34.72471016594112 36.0 36.0 36.0 32.8 36.0 45-49 34.545158030184304 36.0 36.0 36.0 32.8 36.0 50-54 34.527220787746444 36.0 36.0 36.0 32.0 36.0 55-59 34.41520231248676 36.0 36.0 36.0 32.0 36.0 60-64 34.21011731079971 36.0 36.0 36.0 32.0 36.0 65-69 34.25531754363221 36.0 36.0 36.0 32.0 36.0 70-74 34.13431986475762 36.0 36.0 36.0 32.0 36.0 75-79 34.072875061512704 36.0 36.0 36.0 32.0 36.0 80-84 33.95262103255001 36.0 36.0 36.0 30.0 36.0 85-89 33.88106569800643 36.0 36.0 36.0 29.0 36.0 90-94 33.84893194676046 36.0 36.0 36.0 30.0 36.0 95-99 33.70349985321353 36.0 36.0 36.0 27.0 36.0 100-104 33.60709034946565 36.0 36.0 36.0 27.0 36.0 105-109 33.33832427783011 36.0 33.6 36.0 27.0 36.0 110-114 33.26893448981391 36.0 32.8 36.0 27.0 36.0 115-119 32.86958246553607 36.0 32.0 36.0 27.0 36.0 120-124 32.28205448157498 34.4 32.0 36.0 24.6 36.0 125-129 32.10595770162386 34.4 32.0 36.0 23.4 36.0 130-134 31.56753505325773 32.0 32.0 36.0 21.0 36.0 135-139 31.439520683323337 32.0 32.0 36.0 21.0 36.0 140-144 31.697439917797208 33.6 32.0 36.0 21.0 36.0 145-149 31.69795460096111 32.8 32.0 36.0 21.0 36.0 150 26.105016722408028 27.0 14.0 32.0 14.0 36.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 2 2.0 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 1.0 19 3.0 20 4.0 21 5.0 22 9.0 23 11.0 24 20.0 25 30.0 26 44.0 27 68.0 28 62.0 29 91.0 30 130.0 31 166.0 32 232.0 33 376.0 34 908.0 35 1838.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 28.939469734867433 9.45472736368184 7.85392696348174 53.75187593796898 2 22.386193096548272 12.131065532766383 32.641320660330166 32.84142071035518 3 21.785892946473236 14.18209104552276 19.759879939969984 44.272136068034015 4 27.613806903451728 21.46073036518259 17.658829414707352 33.26663331665833 5 26.713356678339167 25.912956478239117 22.0360180090045 25.337668834417208 6 23.15047810770005 29.491696024157022 23.754403623553095 23.603422244589833 7 18.534267133566786 20.4352176088044 39.619809904952476 21.410705352676338 8 19.70985492746373 17.858929464732366 31.840920460230116 30.590295147573787 9 21.585792896448226 18.63431715857929 32.16608304152076 27.613806903451728 10-14 23.026513256628313 24.362181090545274 24.422211105552776 28.189094547273637 15-19 23.176588294147074 22.78139069534767 26.138069034517258 27.903951975987994 20-24 23.796898449224614 23.426713356678338 25.227613806903452 27.548774387193596 25-29 23.36168084042021 22.846423211605803 24.437218609304654 29.354677338669333 30-34 23.491745872936466 21.29064532266133 25.387693846923458 29.82991495747874 35-39 23.69184592296148 23.47673836918459 24.602301150575286 28.22911455727864 40-44 24.420873567819083 23.095011757642467 23.930554860659427 28.55355981387902 45-49 24.215426197507384 22.813954652385004 24.600830872416036 28.369788277691576 50-54 23.36687190268809 22.94638834659859 24.287931120788908 29.39880862992441 55-59 22.973649934876264 22.828373910429818 24.426410179340746 29.77156597535317 60-64 22.82145186374354 21.11072091506547 26.553955751768427 29.513871469422565 65-69 22.344432725629048 23.665310632313798 25.161970769926175 28.828285872130984 70-74 24.531910610026173 22.443124622508556 24.6023756794846 28.422589087980672 75-79 24.05908539053015 22.981586402266288 24.514366653176854 28.44496155402671 80-84 24.211757526444263 21.648698128559804 24.496541903986984 29.643002441008946 85-89 23.990559745523573 21.40475091067672 25.011543789441284 29.593145554358426 90-94 24.766112266112266 22.13097713097713 23.991683991683992 29.11122661122661 95-99 23.228159188203584 21.626763913112416 25.21536916653454 29.929707732149463 100-104 24.065294688072406 22.70768236181446 24.318500161620516 28.90852278849262 105-109 23.730409259566926 22.633881597164535 24.959849365896883 28.675859777371652 110-114 24.94385904301261 22.72125295099902 24.78263373063857 27.552254275349803 115-119 25.08151189469871 21.98405989614781 24.646781789638933 28.28764641951455 120-124 24.21039225674987 23.03234844625573 24.961793173713705 27.795466123280693 125-129 23.98945518453427 23.239151007165066 23.076923076923077 29.694470731377585 130-134 24.954831249548313 22.03512322035123 24.261039242610394 28.749006287490065 135-139 24.830089589125734 22.289156626506024 24.266295953042942 28.614457831325304 140-144 23.84545228422187 23.538678384876878 23.605007876627145 29.010861454274107 145-149 25.205158264947247 22.175128505726395 23.085941022635044 29.533772206691317 150 27.357859531772576 0.0 32.30769230769231 40.33444816053512 >>END_MODULE >>Per sequence GC content warn #GC Content Count 0 2.0 1 1.0 2 0.0 3 0.0 4 0.0 5 0.0 6 0.0 7 0.0 8 0.0 9 0.0 10 0.0 11 0.0 12 0.0 13 0.0 14 0.0 15 0.0 16 0.0 17 0.0 18 0.0 19 0.0 20 0.0 21 0.0 22 0.0 23 0.0 24 0.0 25 0.0 26 0.0 27 0.0 28 0.5 29 1.0 30 1.5 31 1.5 32 2.0 33 4.0 34 5.0 35 9.5 36 22.5 37 29.5 38 26.5 39 36.0 40 50.5 41 63.0 42 70.5 43 79.0 44 100.5 45 113.5 46 152.0 47 183.0 48 192.5 49 214.0 50 216.5 51 213.5 52 203.0 53 208.0 54 211.0 55 209.0 56 192.5 57 158.5 58 144.0 59 115.0 60 96.5 61 93.0 62 81.5 63 80.5 64 78.0 65 62.5 66 48.0 67 40.5 68 39.0 69 28.5 70 23.0 71 28.0 72 25.0 73 18.0 74 13.0 75 19.0 76 18.5 77 12.5 78 9.0 79 3.5 80 2.5 81 1.0 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 0.05 2 0.05 3 0.05 4 0.05 5 0.05 6 0.65 7 0.05 8 0.05 9 0.05 10-14 0.05 15-19 0.05 20-24 0.05 25-29 0.05 30-34 0.05 35-39 0.010004001600640256 40-44 0.0 45-49 0.010009509033581903 50-54 0.005005506056662328 55-59 0.030048076923076924 60-64 0.03510531594784353 65-69 0.010043690051725004 70-74 0.030190198248968503 75-79 0.005058424806515251 80-84 0.010169836265636122 85-89 0.01538935056940597 90-94 0.02598077422707197 95-99 0.04754358161648178 100-104 0.043080236941303175 105-109 0.0387511071744907 110-114 0.011514767689561863 115-119 0.024145840878908607 120-124 0.012733987011333249 125-129 0.033786066626123386 130-134 0.014451911265264832 135-139 0.015444015444015444 140-144 0.016579623642543315 145-149 0.01803263907672888 150 0.0 >>END_MODULE >>Sequence Length Distribution warn #Length Count 35-39 2.0 40-44 1.0 45-49 1.0 50-54 2.0 55-59 4.0 60-64 5.0 65-69 6.0 70-74 14.0 75-79 23.0 80-84 28.0 85-89 43.0 90-94 61.0 95-99 67.0 100-104 84.0 105-109 123.0 110-114 157.0 115-119 171.0 120-124 175.0 125-129 191.0 130-134 180.0 135-139 187.0 140-144 144.0 145-149 836.0 150-151 1495.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 71.15 #Duplication Level Percentage of deduplicated Percentage of total 1 83.0990864371047 59.12500000000001 2 8.468025298664793 12.049999999999999 3 3.3731553056921992 7.199999999999999 4 1.8973998594518624 5.4 5 0.9838369641602248 3.5000000000000004 6 0.7730147575544624 3.3000000000000003 7 0.4919184820801124 2.45 8 0.21082220660576245 1.2 9 0.17568517217146873 1.125 >10 0.5270555165144062 4.65 >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 CCCGACTGTCCCTATTAATCATTACTCCGATCCCGAAGGCCAACACAATA 19 0.475 No Hit CCGACATCGAAGGATCAAAAAGCAACGTCGCTATGAACGCTTGGCTGCCA 18 0.44999999999999996 No Hit CCCATCACGATGAAATTTCCCAAGATTACCCGGGCCTGTCGGCCAAGGCT 14 0.35000000000000003 No Hit GCCACGCTTTCACGGTTCGTATTCGTACTGGAAATCAGAATCAAACGAGC 14 0.35000000000000003 No Hit CCTCGCGGTACTTGTTCGCTATCGGTCTCTCGCCTGTATTTAGCCTTGGA 13 0.325 No Hit CTCGTTGAAGACCAACAATTGCAATGATCTATCCCCATCACGATGAAATT 13 0.325 No Hit CTCTGACTATGAAATACGAATGCCCCCGACTGTCCCTATTAATCATTACT 11 0.27499999999999997 No Hit GTCGGGGCAGGCGGCGGGCGCAGGCGCCGCTTGCTAGCTTGGATTCTGAC 11 0.27499999999999997 No Hit CCGGTATTGTTATTTATTGTCACTACCTCCCCGTGTCAGGATTGGGTAAT 11 0.27499999999999997 No Hit CACGCTTTCACGGTTCGTATTCGTACTGGAAATCAGAATCAAACGAGCTT 11 0.27499999999999997 No Hit ATCACGATGAAATTTCCCAAGATTACCCGGGCCTGTCGGCCAAGGCTATA 11 0.27499999999999997 No Hit GTCCTTTTCATCTTTCCCTCGCGGTACTTGTTCGCTATCGGTCTCTCGCC 10 0.25 No Hit CATGAATCATCGGATCAGCGAGCAAAGCCCGCGTCAGCCTTTTATCTAAT 10 0.25 No Hit CTCAGAGCCAATCCTTTTCCCGAAGTTACGGATCCGTTTTGCCGACTTCC 10 0.25 No Hit CCTGTGGTAACTTTTCTGACACCTCTAGCTTCAAACTCCGAAGATCTAAA 10 0.25 No Hit CTTTTGTTCCACACGAGATTTCTGTTCTCGTTGAGCTCATCTTAGGACAC 9 0.22499999999999998 No Hit GTACAAAGGGCAGGGACGTAGTCAACGCGAGCTGATGACTCGCGCTTACT 9 0.22499999999999998 No Hit CTGACTATGAAATACGAATGCCCCCGACTGTCCCTATTAATCATTACTCC 9 0.22499999999999998 No Hit CCCAACTTTCGTTCTTGATTAATGAAAACATCCTTGGCAAATGCTTTCGC 9 0.22499999999999998 No Hit CCCTTTTGTTCCACACGAGATTTCTGTTCTCGTTGAGCTCATCTTAGGAC 9 0.22499999999999998 No Hit CCCCGCTCAGGCATAGTTCACCATCTTTCGGGTCCCGACAGGCGTGCTCC 8 0.2 No Hit CTTCCGTCAATTCCTTTAAGTTTCAGCCTTGCGACCATACTCCCCCCGGA 8 0.2 No Hit CAGCCTTTTATCTAATAAATGCGCCCCTCCCAGAAGTCGGGGTTTGTTGC 8 0.2 No Hit CAACAACTTAAATATACGCTATTGGAGCTGGAATTACCGCGGCTGCTGGC 8 0.2 No Hit CACCAAGATCTGCACCGACGGCCGCTCCGCCCGGGCTCGCGCCCCGGGTT 8 0.2 No Hit CTCGTTGAATACATCAGTGTAGCGCGCGTGCGGCCCAGAACATCTAAGGG 8 0.2 No Hit GCCCGGTATTGTTATTTATTGTCACTACCTCCCCGTGTCAGGATTGGGTA 7 0.17500000000000002 No Hit CTCCCACTTATCCTACACCTCTCAAGTCATTTCACAAAGTCGGACTAGAG 7 0.17500000000000002 No Hit CCGCCGTTTACCCGCGCTTGGTTGAATTTCTTCACTTTGACATTCAGAGC 7 0.17500000000000002 No Hit CGGCAATTTCAAGCACTCTTTGACTCTCTTTTCAAAGTCCTTTTCATCTT 7 0.17500000000000002 No Hit CTCCGGAATCGAACCCTAATTCTCCGTCACCCGTCACCACCATGGTAGGC 7 0.17500000000000002 No Hit GTCGGCATCGTTTATGGTTGAGACTAGGACGGTATCTGATCGTCTTCGAG 7 0.17500000000000002 No Hit CCTAATTCTCCGTCACCCGTCACCACCATGGTAGGCCCCTATCCTACCAT 7 0.17500000000000002 No Hit CGAAGATCTAAAGGATCGATAGGCCACGCTTTCACGGTTCGTATTCGTAC 7 0.17500000000000002 No Hit GTGCGACGTGGGGCTGGATCTCAGTGGATCGTGGCAGCAAGGCCACTCTG 7 0.17500000000000002 No Hit CGGCATCGTTTATGGTTGAGACTAGGACGGTATCTGATCGTCTTCGAGCC 7 0.17500000000000002 No Hit CCGAAGGCCAACACAATAGGACCGGAATCCTATGATGTTATCCCATGCTA 7 0.17500000000000002 No Hit CCGCATAGCTAGTTAGCAGGCTGAGGTCTCGTTCGTTAACGGAATTAACC 7 0.17500000000000002 No Hit CTCCAATGGATCCTCGTTAAGGGATTTAGATTGTACTCATTCCAATTACC 7 0.17500000000000002 No Hit CCCCGACTGTCCCTATTAATCATTACTCCGATCCCGAAGGCCAACACAAT 7 0.17500000000000002 No Hit GGCCACGCTTTCACGGTTCGTATTCGTACTGGAAATCAGAATCAAACGAG 6 0.15 No Hit ATCCGCTTCCCTCCCGGCAATTTCAAGCACTCTTTGACTCTCTTTTCAAA 6 0.15 No Hit GCCCGCGTCAGCCTTTTATCTAATAAATGCGCCCCTCCCAGAAGTCGGGG 6 0.15 No Hit CCGGACCATTCAATCGGTAGGAGCGACGGGCGGTGTGTACAAAGGGCAGG 6 0.15 No Hit CTTGTCCGTACCAGTTCTGAGTCGACTGTTCAGCGCTCGGGGAAAGCCCC 6 0.15 No Hit CTCGCGCTTACTAGGCATTCCTCGTTGAAGACCAACAATTGCAATGATCT 6 0.15 No Hit GTCAATTCCTTTAAGTTTCAGCCTTGCGACCATACTCCCCCCGGAACCCA 6 0.15 No Hit CTTGTTACGACTTCTCCTTCCTCTAAATGATAAGGTTCAATGGACTTCTC 6 0.15 No Hit CCAGTCCTCAGAGCCAATCCTTTTCCCGAAGTTACGGATCCGTTTTGCCG 6 0.15 No Hit GGACGCATCGCCGGCCCCCATCCGCTTCCCTCCCGGCAATTTCAAGCACT 6 0.15 No Hit GGGAAACTTCGGAGGGAACCAGCTACTAGATGGTTCGATTAGTCTTTCGC 6 0.15 No Hit GTAACTTTTCTGACACCTCTAGCTTCAAACTCCGAAGATCTAAAGGATCG 6 0.15 No Hit CCGAAGATCTAAAGGATCGATAGGCCACGCTTTCACGGTTCGTATTCGTA 6 0.15 No Hit CCCGACTCGTTGACGGCGCCTCGTGGGGCGACAGGGTCCGGGCCGGACGG 6 0.15 No Hit CTAATTCTCCGTCACCCGTCACCACCATGGTAGGCCCCTATCCTACCATC 6 0.15 No Hit CTCCGCATAGCTAGTTAGCAGGCTGAGGTCTCGTTCGTTAACGGAATTAA 6 0.15 No Hit CGTTAACGGAATTAACCAGACAAATCGCTCCACCAACTAAGAACGGCCAT 6 0.15 No Hit AGCCAATCCTTTTCCCGAAGTTACGGATCCGTTTTGCCGACTTCCCTTGC 6 0.15 No Hit GTTGAATACATCAGTGTAGCGCGCGTGCGGCCCAGAACATCTAAGGGCAT 6 0.15 No Hit CCGACTCGTTGACGGCGCCTCGTGGGGCGACAGGGTCCGGGCCGGACGGG 6 0.15 No Hit CGCCCCTATACCCAAGTCAGACGAACGATTTGCACGTCAGTATCGCTTCG 6 0.15 No Hit CCGGAACCCAAAGACTTTGATTTCTCATAAGGTGCCGGCGGAGTCCTATA 6 0.15 No Hit CCCGAAGTTACGGATCCGTTTTGCCGACTTCCCTTGCCTACATTGTTCCA 5 0.125 No Hit GCATCGTTTATGGTTGAGACTAGGACGGTATCTGATCGTCTTCGAGCCCC 5 0.125 No Hit GTTCCATTGGCCAGAGGCTGTTCACCTTGGAGACCTGATGCGGTTATGAG 5 0.125 No Hit GAGCTTTTTAACTGCAACAACTTAAATATACGCTATTGGAGCTGGAATTA 5 0.125 No Hit GTTCGATTAGTCTTTCGCCCCTATACCCAAGTCAGACGAACGATTTGCAC 5 0.125 No Hit GCCAATCCTTTTCCCGAAGTTACGGATCCGTTTTGCCGACTTCCCTTGCC 5 0.125 No Hit GATAGAACTCGTAATGGGCTCCAGCTATCCTGAGGGAAACTTCGGAGGGA 5 0.125 No Hit CCAACTACGAGCTTTTTAACTGCAACAACTTAAATATACGCTATTGGAGC 5 0.125 No Hit CCCCGGAACCCAAAGACTTTGATTTCTCATAAGGTGCCGGCGGAGTCCTA 5 0.125 No Hit CTGTGGTAACTTTTCTGACACCTCTAGCTTCAAACTCCGAAGATCTAAAG 5 0.125 No Hit CTTGATTAATGAAAACATCCTTGGCAAATGCTTTCGCAGTTGTTCGTCTT 5 0.125 No Hit CTCATCTTAGGACACCTGCGTTATCTTTTAACAGATGTGCCGCCCCAGCC 5 0.125 No Hit GTGCGGTGCTCTTCCGGCCACTGGACCCTACCTCCGGCTGAACCGATTCC 5 0.125 No Hit CTTGGCTGTGGTTTCGCTGGATAGTAGACAGGGACAGTGGGAATCTCGTT 5 0.125 No Hit CTCTAATCATTGGCTTTACCTGATAGAACTCGTAATGGGCTCCAGCTATC 5 0.125 No Hit CTCGCGGTACTTGTTCGCTATCGGTCTCTCGCCTGTATTTAGCCTTGGAC 5 0.125 No Hit CTGCAAAGGATTCAGCCCGCCGCCCGTGGGGAAGGGAGCTTCGAGGCGGC 5 0.125 No Hit CCCCGATGCCTCTAATCATTGGCTTTACCTGATAGAACTCGTAATGGGCT 5 0.125 No Hit CTGCTTCACAATGATAGGAAGAGCCGACATCGAAGGATCAAAAAGCAACG 5 0.125 No Hit CTCGAGCAATCCGCCGACAGCCGACGGGTTTGGGGCCGGGACCCCCGAGC 5 0.125 No Hit CCAACTTTCGTTCTTGATTAATGAAAACATCCTTGGCAAATGCTTTCGCA 5 0.125 No Hit TGATAGAACTCGTAATGGGCTCCAGCTATCCTGAGGGAAACTTCGGAGGG 5 0.125 No Hit CCGCAGGCTCCACGCCTGGTGGTGCCCTTCCGTCAATTCCTTTAAGTTTC 5 0.125 No Hit GCCGCAGGCTCCACGCCTGGTGGTGCCCTTCCGTCAATTCCTTTAAGTTT 5 0.125 No Hit GCTTGCTTTGAGCACTCTAATTTCTTCAAAGTAACGATGCCGGAGGCACG 5 0.125 No Hit CTCTCGTACTAGGTTGAATTACTATCGCGGCACGGTCATCAGTAGGGTAA 5 0.125 No Hit CTATGATGTTATCCCATGCTAATGTATCCAGAGCGATGGCTTGCTTTGAG 5 0.125 No Hit GCCCCCGATGCCTCTAATCATTGGCTTTACCTGATAGAACTCGTAATGGG 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 0.0 0.0 0.0 0.0 0.0 114-115 0.0 0.0 0.0 0.0 0.0 116-117 0.025 0.0 0.0 0.0 0.0 118-119 0.025 0.0 0.0 0.0 0.0 120-121 0.025 0.0 0.0 0.0 0.0 122-123 0.025 0.0 0.0 0.0 0.0 124-125 0.025 0.0 0.0 0.0 0.0 126-127 0.025 0.0 0.0 0.0 0.0 128-129 0.025 0.0 0.0 0.0 0.0 130-131 0.025 0.0 0.0 0.0 0.0 132-133 0.025 0.0 0.0 0.0 0.0 134-135 0.025 0.0 0.0 0.0 0.0 136-137 0.025 0.0 0.0 0.0 0.0 138 0.025 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Rejected 1425689 READS because READLEN < 1 Read 1425689 spots for SRR12682227.sra Written 1425689 spots for SRR12682227.sra Rejected 1425689 READS because READLEN < 1 Read 1425689 spots for SRR12682227.sra Written 1425689 spots for SRR12682227.sra Rejected 1425689 READS because READLEN < 1 Read 1425689 spots for SRR12682227.sra Written 1425689 spots for SRR12682227.sra Rejected 1425689 READS because READLEN < 1 Read 1425689 spots for SRR12682227.sra Written 1425689 spots for SRR12682227.sra Rejected 1425689 READS because READLEN < 1 Read 1425689 spots for SRR12682227.sra Written 1425689 spots for SRR12682227.sra Rejected 1425689 READS because READLEN < 1 Read 1425689 spots for SRR12682227.sra Written 1425689 spots for SRR12682227.sra Rejected 1425689 READS because READLEN < 1 Read 1425689 spots for SRR12682227.sra Written 1425689 spots for SRR12682227.sra Rejected 1425689 READS because READLEN < 1 Read 1425689 spots for SRR12682227.sra Written 1425689 spots for SRR12682227.sra Rejected 1425689 READS because READLEN < 1 Read 1425689 spots for SRR12682227.sra Written 1425689 spots for SRR12682227.sra Rejected 1425698 READS because READLEN < 1 Read 1425698 spots for SRR12682227.sra Written 1425698 spots for SRR12682227.sra Rejected 1425689 READS because READLEN < 1 Read 1425689 spots for SRR12682227.sra Written 1425689 spots for SRR12682227.sra Rejected 1425689 READS because READLEN < 1 Read 1425689 spots for SRR12682227.sra Written 1425689 spots for SRR12682227.sra Rejected 1425689 READS because READLEN < 1 Read 1425689 spots for SRR12682227.sra Written 1425689 spots for SRR12682227.sra Rejected 1425689 READS because READLEN < 1 Read 1425689 spots for SRR12682227.sra Written 1425689 spots for SRR12682227.sra Rejected 1425689 READS because READLEN < 1 Read 1425689 spots for SRR12682227.sra Written 1425689 spots for SRR12682227.sra Rejected 1425689 READS because READLEN < 1 Read 1425689 spots for SRR12682227.sra Written 1425689 spots for SRR12682227.sra Rejected 1425689 READS because READLEN < 1 Read 1425689 spots for SRR12682227.sra Written 1425689 spots for SRR12682227.sra Rejected 1425689 READS because READLEN < 1 Read 1425689 spots for SRR12682227.sra Written 1425689 spots for SRR12682227.sra Rejected 1425689 READS because READLEN < 1 Read 1425689 spots for SRR12682227.sra Written 1425689 spots for SRR12682227.sra Rejected 1425689 READS because READLEN < 1 Read 1425689 spots for SRR12682227.sra Written 1425689 spots for SRR12682227.sra SRR ids: ['SRR12682227.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_811y5fkm SRR12682227.sra spots: 28513789 blocks: [[1, 1425689], [1425690, 2851378], [2851379, 4277067], [4277068, 5702756], [5702757, 7128445], [7128446, 8554134], [8554135, 9979823], [9979824, 11405512], [11405513, 12831201], [12831202, 14256890], [14256891, 15682579], [15682580, 17108268], [17108269, 18533957], [18533958, 19959646], [19959647, 21385335], [21385336, 22811024], [22811025, 24236713], [24236714, 25662402], [25662403, 27088091], [27088092, 28513789]] SRR12682227 file size 8848637 SRR12682227 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 SRR12682227 SRR12682227_1.fastq Input file: SRR12682227_1.fastq trimmed: SRR12682227-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 03:36:57 2024 >> started Sat Dec 7 03:37:14 2024 >> done (16.566s) 28513789 reads processed; of these: 0 ( 0.00%) short reads filtered out after trimming by size control 3070 ( 0.01%) empty reads filtered out after trimming by size control 28510719 (99.99%) reads available; of these: 16250 ( 0.06%) trimmed reads available after processing 28494469 (99.94%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 22 22 0.00% 23 18 0.00% 24 35 0.00% 25 46 0.00% 26 64 0.00% 27 75 0.00% 28 117 0.00% 29 143 0.00% 30 165 0.00% 31 177 0.00% 32 222 0.00% 33 286 0.00% 34 283 0.00% 35 353 0.00% 36 450 0.00% 37 531 0.00% 38 625 0.00% 39 790 0.00% 40 874 0.00% 41 1091 0.00% 42 1061 0.00% 43 1134 0.00% 44 1130 0.00% 45 1238 0.00% 46 1368 0.00% 47 1753 0.01% 48 2199 0.01% 49 2432 0.01% 50 2738 0.01% 51 3047 0.01% 52 3191 0.01% 53 3324 0.01% 54 3413 0.01% 55 3908 0.01% 56 4000 0.01% 57 4726 0.02% 58 5243 0.02% 59 5981 0.02% 60 6729 0.02% 61 7317 0.03% 62 8111 0.03% 63 8154 0.03% 64 8604 0.03% 65 9261 0.03% 66 10157 0.04% 67 11399 0.04% 68 11883 0.04% 69 12802 0.04% 70 13453 0.05% 71 16247 0.06% 72 17379 0.06% 73 19431 0.07% 74 20323 0.07% 75 21364 0.07% 76 22902 0.08% 77 24066 0.08% 78 26559 0.09% 79 29651 0.10% 80 31153 0.11% 81 34178 0.12% 82 37471 0.13% 83 38648 0.14% 84 42364 0.15% 85 47883 0.17% 86 52682 0.18% 87 56748 0.20% 88 60046 0.21% 89 62346 0.22% 90 67992 0.24% 91 71113 0.25% 92 81516 0.29% 93 88442 0.31% 94 91621 0.32% 95 101300 0.36% 96 109628 0.38% 97 114543 0.40% 98 130808 0.46% 99 130106 0.46% 100 131287 0.46% 101 134521 0.47% 102 145765 0.51% 103 155330 0.54% 104 161753 0.57% 105 159307 0.56% 106 169943 0.60% 107 183080 0.64% 108 170382 0.60% 109 190422 0.67% 110 190786 0.67% 111 201698 0.71% 112 221664 0.78% 113 208138 0.73% 114 224007 0.79% 115 240854 0.84% 116 243838 0.86% 117 233987 0.82% 118 229060 0.80% 119 238583 0.84% 120 254336 0.89% 121 239691 0.84% 122 263696 0.92% 123 266853 0.94% 124 251704 0.88% 125 256841 0.90% 126 264628 0.93% 127 258135 0.91% 128 261303 0.92% 129 280517 0.98% 130 258368 0.91% 131 258036 0.91% 132 259738 0.91% 133 263742 0.93% 134 256213 0.90% 135 258632 0.91% 136 261610 0.92% 137 263189 0.92% 138 252532 0.89% 139 258459 0.91% 140 251909 0.88% 141 246867 0.87% 142 249054 0.87% 143 238721 0.84% 144 250959 0.88% 145 239396 0.84% 146 300436 1.05% 147 458132 1.61% 148 1041040 3.65% 149 3617139 12.69% 150 10779805 37.81% 28510719 reads passed initial QC criterion=sequence-density sequence-density=1.00 sequence-density-rank=1 fanout-score=2.68 fanout-score-rank=32 prefix-density=2.64 prefix-fanout=1.0 sequence=CTTGGATGTGGCAGCCGTTTCTC criterion=fanout-score sequence-density=0.16 sequence-density-rank=21 fanout-score=31.29 fanout-score-rank=1 prefix-density=2.65 prefix-fanout=1.8 sequence=GGCCCGGTCAGCCCGGGCCTTGG Started job on | Dec 07 03:37:35 Started mapping on | Dec 07 03:37:35 Finished on | Dec 07 03:39:19 Mapping speed, Million of reads per hour | 986.91 Number of input reads | 28510719 Average input read length | 136 UNIQUE READS: Uniquely mapped reads number | 6571121 Uniquely mapped reads % | 23.05% Average mapped length | 136.64 Number of splices: Total | 2339989 Number of splices: Annotated (sjdb) | 2200886 Number of splices: GT/AG | 2307274 Number of splices: GC/AG | 28884 Number of splices: AT/AC | 1833 Number of splices: Non-canonical | 1998 Mismatch rate per base, % | 0.25% Deletion rate per base | 0.01% Deletion average length | 1.82 Insertion rate per base | 0.00% Insertion average length | 1.13 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 1986086 % of reads mapped to multiple loci | 6.97% Number of reads mapped to too many loci | 16906343 % of reads mapped to too many loci | 59.30% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 2.57% % of reads unmapped: other | 8.12% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 19953512 19953512 19953512 N_multimapping 1986086 1986086 1986086 N_noFeature 684284 6409839 736844 N_ambiguous 143438 642 35968 UnstrandedReadsAssigned:5743399 PositiveStrandReadsAssigned:160640 NegativeStrandReadsAssigned:5798309 Dataset is classified negative stranded MeadianReadLen=149 20thPercentileLength=120 echo kmer=115 SRR12682227 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: SRR12682227-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 28,510,719 reads, 6,064,224 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,069 rounds 52973 SRR12682227.ke.tsv 35125 SRR12682227.se.tsv 88098 total ==> SRR12682227.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 837 10.007 2.81566 PNS24247 1044 945 12.6261 3.14656 PNS24249 1928 1829 75.7322 9.75141 PNS24246 1044 945 12.6261 3.14656 PNS24248 1044 945 12.6261 3.14656 PNS24244 1471 1372 55.3825 9.50647 PNS24243 293 194 1 1.21394 KQK14069 1603 1504 3089.82 483.822 KQK14071 474 375 129.141 81.102 ==> SRR12682227.se.tsv <== BRADI_1g14170v3 3438 BRADI_1g53295v3 45 BRADI_1g59795v3 123 BRADI_1g07683v3 0 BRADI_1g00485v3 1 BRADI_1g20270v3 554 BRADI_1g74790v3 173 BRADI_1g09890v3 0 BRADI_1g77505v3 67 BRADI_1g48960v3 0 SRR12682227 completed mapping pipeline successfully