Starting /dee2/code/volunteer_pipeline.sh SRR12682215 current disk space = 1547246383104 free memory = 1594167448 SRR12682215 SRAfilesize ac8133c33246e269605ddc700c9b6019 SRR12682215.sra SRR12682215.sra file validated SRR12682215 is single end SRR12682215 is conventional basespace SRR12682215 read1 length is 52-150 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR12682215_1.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 52-150 %GC 52 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 31.4995 32.0 32.0 32.0 32.0 32.0 2 31.4935 32.0 32.0 32.0 32.0 32.0 3 31.566 32.0 32.0 32.0 32.0 32.0 4 31.63475 32.0 32.0 32.0 32.0 32.0 5 31.6965 32.0 32.0 32.0 32.0 32.0 6 34.866 36.0 36.0 36.0 36.0 36.0 7 35.21 36.0 36.0 36.0 36.0 36.0 8 35.058 36.0 36.0 36.0 36.0 36.0 9 35.13025 36.0 36.0 36.0 36.0 36.0 10-14 35.10615 36.0 36.0 36.0 36.0 36.0 15-19 35.072950000000006 36.0 36.0 36.0 36.0 36.0 20-24 35.03275 36.0 36.0 36.0 36.0 36.0 25-29 34.84065 36.0 36.0 36.0 32.8 36.0 30-34 34.8553 36.0 36.0 36.0 32.8 36.0 35-39 34.794050000000006 36.0 36.0 36.0 32.8 36.0 40-44 34.723400000000005 36.0 36.0 36.0 33.6 36.0 45-49 34.52545 36.0 36.0 36.0 32.0 36.0 50-54 34.51384864966242 36.0 36.0 36.0 32.0 36.0 55-59 34.384994013602984 36.0 36.0 36.0 32.0 36.0 60-64 34.25261718234499 36.0 36.0 36.0 32.0 36.0 65-69 34.085645805172035 36.0 36.0 36.0 32.0 36.0 70-74 34.084265580694634 36.0 36.0 36.0 32.0 36.0 75-79 34.05074052234924 36.0 36.0 36.0 32.0 36.0 80-84 33.93914724345897 36.0 36.0 36.0 30.0 36.0 85-89 33.87466384063627 36.0 36.0 36.0 29.0 36.0 90-94 33.877291914831915 36.0 36.0 36.0 29.0 36.0 95-99 33.735635824182346 36.0 36.0 36.0 27.0 36.0 100-104 33.71337503149489 36.0 36.0 36.0 27.0 36.0 105-109 33.40230729414131 36.0 32.8 36.0 27.0 36.0 110-114 33.29333223053346 36.0 32.8 36.0 27.0 36.0 115-119 32.88274455297717 36.0 32.8 36.0 27.0 36.0 120-124 32.32268152555539 34.4 32.0 36.0 24.6 36.0 125-129 32.01161379970793 33.6 32.0 36.0 23.4 36.0 130-134 31.624829050998592 32.0 32.0 36.0 21.0 36.0 135-139 31.60644754218945 32.8 32.0 36.0 21.0 36.0 140-144 31.825617236441843 33.6 32.0 36.0 22.2 36.0 145-149 31.742249975592067 32.0 32.0 36.0 22.2 36.0 150 26.30636195182211 27.0 14.0 32.0 14.0 36.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 18 1.0 19 0.0 20 1.0 21 4.0 22 5.0 23 12.0 24 18.0 25 40.0 26 47.0 27 60.0 28 83.0 29 95.0 30 141.0 31 154.0 32 240.0 33 380.0 34 973.0 35 1746.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 25.45 9.75 7.5 57.3 2 20.4 12.025 35.025 32.550000000000004 3 20.075000000000003 15.35 20.849999999999998 43.725 4 26.625 23.075000000000003 18.325 31.974999999999998 5 26.525 27.625 22.075 23.775 6 23.61986387698513 30.451222586337284 24.426518779934458 21.502394756743133 7 17.575 23.075000000000003 37.75 21.6 8 20.375 17.675 32.775 29.175 9 19.5 18.8 34.8 26.900000000000002 10-14 22.555 25.605 24.625 27.215 15-19 22.695 22.98 26.119999999999997 28.205000000000002 20-24 24.45 23.93 25.19 26.43 25-29 23.080000000000002 23.62 24.23 29.07 30-34 23.535 22.585 25.275 28.605000000000004 35-39 23.465 23.385 24.215 28.935 40-44 24.255 24.015 23.549999999999997 28.18 45-49 23.971198559928 23.386169308465423 25.256262813140655 27.386369318465924 50-54 22.40724072407241 23.657365736573656 25.302530253025303 28.63286328632863 55-59 23.12581323190872 23.856470823741365 24.60714643178861 28.410569512561306 60-64 23.172503632446514 22.18046996342502 26.6646625582444 27.982363845884063 65-69 22.262901850644464 23.291037664877877 25.332263403380313 29.11379708109735 70-74 23.927243493116272 22.25404481961612 25.419555823535323 28.39915586373229 75-79 24.635275178589396 23.427910252540496 24.167421269745446 27.769393299124662 80-84 24.335254271560004 21.979577393590134 24.527348094227076 29.15782024062279 85-89 23.808070014756016 22.714089451992063 24.7392255635272 28.738614969724726 90-94 23.98478462012954 22.58661457797882 25.08995579315308 28.33864500873856 95-99 23.35560659845479 23.198997703069534 24.979118813948634 28.46627688452704 100-104 24.336990094791776 23.298540845670466 24.486100756204067 27.87836830333369 105-109 23.956858045538727 22.01764898137052 25.988669789737447 28.036823183353306 110-114 24.976189142248863 23.20017928175248 25.037817244663568 26.78581433133509 115-119 24.88476573895793 22.451718303284906 24.558025555750042 28.105490402007117 120-124 24.425620086537876 22.932537022365775 25.27881040892193 27.363032482174415 125-129 23.510570147341447 24.804612427930813 22.581678411274826 29.103139013452918 130-134 24.698468627185257 22.652120883588562 24.15638975470931 28.493020734516872 135-139 25.557473744784925 22.6010645950223 24.298662063012515 27.542799597180263 140-144 24.55176623178454 22.89616235599298 23.74303807125963 28.80903334096284 145-149 25.963840501940066 21.555353752167093 23.569718484273096 28.91108726161975 150 25.75663990117356 0.0 33.600988264360716 40.64237183446572 >>END_MODULE >>Per sequence GC content warn #GC Content Count 0 0.0 1 0.0 2 0.0 3 0.0 4 0.0 5 0.0 6 0.0 7 0.0 8 0.0 9 0.0 10 0.0 11 0.0 12 0.0 13 0.0 14 0.0 15 0.0 16 0.0 17 0.0 18 0.0 19 0.0 20 0.0 21 0.5 22 0.5 23 0.0 24 0.0 25 0.5 26 1.0 27 1.0 28 0.5 29 0.5 30 1.0 31 3.0 32 4.0 33 3.5 34 8.5 35 16.0 36 38.0 37 44.5 38 40.0 39 55.5 40 65.0 41 71.0 42 72.5 43 88.0 44 112.0 45 126.0 46 151.5 47 176.0 48 198.0 49 231.0 50 235.5 51 211.0 52 211.5 53 212.5 54 181.0 55 173.5 56 195.0 57 162.5 58 118.0 59 105.0 60 90.0 61 75.0 62 66.0 63 68.5 64 58.5 65 42.5 66 41.0 67 38.5 68 37.0 69 35.5 70 37.0 71 31.5 72 26.0 73 19.5 74 5.5 75 12.5 76 14.5 77 6.5 78 4.5 79 4.0 80 2.0 81 0.5 82 0.5 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 0.5 >>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 0.8250000000000001 7 0.0 8 0.0 9 0.0 10-14 0.0 15-19 0.0 20-24 0.0 25-29 0.0 30-34 0.0 35-39 0.0 40-44 0.0 45-49 0.005 50-54 0.0 55-59 0.025016260569370095 60-64 0.03505960132224782 65-69 0.010029587282483326 70-74 0.03013863773357444 75-79 0.005030434126465114 80-84 0.010109179134654266 85-89 0.015262515262515262 90-94 0.020557097337855896 95-99 0.04696060527002348 100-104 0.04258490365165549 105-109 0.027228666339922672 110-114 0.0056022408963585435 115-119 0.023333138890509246 120-124 0.012186947778928767 125-129 0.032020493115593976 130-134 0.006775526797208484 135-139 0.007192692224699705 140-144 0.01525669387443741 145-149 0.01650846058605035 150 0.0 >>END_MODULE >>Sequence Length Distribution warn #Length Count 52-53 1.0 54-55 1.0 56-57 1.0 58-59 2.0 60-61 2.0 62-63 1.0 64-65 2.0 66-67 3.0 68-69 3.0 70-71 1.0 72-73 6.0 74-75 0.0 76-77 2.0 78-79 8.0 80-81 11.0 82-83 7.0 84-85 10.0 86-87 13.0 88-89 18.0 90-91 14.0 92-93 24.0 94-95 24.0 96-97 25.0 98-99 30.0 100-101 37.0 102-103 28.0 104-105 32.0 106-107 43.0 108-109 38.0 110-111 48.0 112-113 41.0 114-115 59.0 116-117 67.0 118-119 60.0 120-121 54.0 122-123 60.0 124-125 68.0 126-127 61.0 128-129 75.0 130-131 71.0 132-133 60.0 134-135 74.0 136-137 71.0 138-139 65.0 140-141 59.0 142-143 51.0 144-145 69.0 146-147 102.0 148-149 779.0 150-151 1619.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 72.52499999999999 #Duplication Level Percentage of deduplicated Percentage of total 1 84.10892795587729 61.0 2 7.549120992761117 10.95 3 3.378145467080317 7.35 4 2.1371940710099966 6.2 5 1.1030679076180627 4.0 6 0.5860048259220959 2.55 7 0.44812133746983795 2.275 8 0.2068252326783868 1.2 9 0.1034126163391934 0.675 >10 0.3791795932437091 3.8 >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 20 0.5 No Hit CTCGTTGAAGACCAACAATTGCAATGATCTATCCCCATCACGATGAAATT 20 0.5 No Hit CTCAGAGCCAATCCTTTTCCCGAAGTTACGGATCCGTTTTGCCGACTTCC 20 0.5 No Hit CCCATCACGATGAAATTTCCCAAGATTACCCGGGCCTGTCGGCCAAGGCT 16 0.4 No Hit CCTCGCGGTACTTGTTCGCTATCGGTCTCTCGCCTGTATTTAGCCTTGGA 12 0.3 No Hit ATCACGATGAAATTTCCCAAGATTACCCGGGCCTGTCGGCCAAGGCTATA 12 0.3 No Hit CTTTTGTTCCACACGAGATTTCTGTTCTCGTTGAGCTCATCTTAGGACAC 11 0.27499999999999997 No Hit CCTAATTCTCCGTCACCCGTCACCACCATGGTAGGCCCCTATCCTACCAT 11 0.27499999999999997 No Hit CTTCCGTCAATTCCTTTAAGTTTCAGCCTTGCGACCATACTCCCCCCGGA 10 0.25 No Hit CCCCAACTTTCGTTCTTGATTAATGAAAACATCCTTGGCAAATGCTTTCG 10 0.25 No Hit CCCAACTTTCGTTCTTGATTAATGAAAACATCCTTGGCAAATGCTTTCGC 10 0.25 No Hit CCGACATCGAAGGATCAAAAAGCAACGTCGCTATGAACGCTTGGCTGCCA 9 0.22499999999999998 No Hit CAACAACTTAAATATACGCTATTGGAGCTGGAATTACCGCGGCTGCTGGC 9 0.22499999999999998 No Hit CACGCTTTCACGGTTCGTATTCGTACTGGAAATCAGAATCAAACGAGCTT 9 0.22499999999999998 No Hit CTCTAAGAAGCTAGCTGCGGAGGGATGGCTCCGCATAGCTAGTTAGCAGG 8 0.2 No Hit GTTCGATTAGTCTTTCGCCCCTATACCCAAGTCAGACGAACGATTTGCAC 8 0.2 No Hit CCGCCGTTTACCCGCGCTTGGTTGAATTTCTTCACTTTGACATTCAGAGC 8 0.2 No Hit GTCGGGGCAGGCGGCGGGCGCAGGCGCCGCTTGCTAGCTTGGATTCTGAC 8 0.2 No Hit CCGGATTTTCATGGGCCGCCGGGGGCGCACCGGACACCGCGCGACGTGCG 8 0.2 No Hit GCCGCAGGCTCCACGCCTGGTGGTGCCCTTCCGTCAATTCCTTTAAGTTT 8 0.2 No Hit CAACTACGAGCTTTTTAACTGCAACAACTTAAATATACGCTATTGGAGCT 7 0.17500000000000002 No Hit CCCTAATTCTCCGTCACCCGTCACCACCATGGTAGGCCCCTATCCTACCA 7 0.17500000000000002 No Hit GCATCGTTTATGGTTGAGACTAGGACGGTATCTGATCGTCTTCGAGCCCC 7 0.17500000000000002 No Hit CTTTTATCTAATAAATGCGCCCCTCCCAGAAGTCGGGGTTTGTTGCACGT 7 0.17500000000000002 No Hit CTTTAAGTTTCAGCCTTGCGACCATACTCCCCCCGGAACCCAAAGACTTT 7 0.17500000000000002 No Hit CCCAAGTCAGACGAACGATTTGCACGTCAGTATCGCTTCGAGCCTCCACC 7 0.17500000000000002 No Hit CCCGGAACCCAAAGACTTTGATTTCTCATAAGGTGCCGGCGGAGTCCTAT 7 0.17500000000000002 No Hit GTCGAGTTATCATGAATCATCGGATCAGCGAGCAAAGCCCGCGTCAGCCT 7 0.17500000000000002 No Hit CCACGCTTTCACGGTTCGTATTCGTACTGGAAATCAGAATCAAACGAGCT 7 0.17500000000000002 No Hit GTGCGACGTGGGGCTGGATCTCAGTGGATCGTGGCAGCAAGGCCACTCTG 7 0.17500000000000002 No Hit GCTGGAATTACCGCGGCTGCTGGCACCAGACTTGCCCTCCAATGGATCCT 7 0.17500000000000002 No Hit GCCACGCTTTCACGGTTCGTATTCGTACTGGAAATCAGAATCAAACGAGC 7 0.17500000000000002 No Hit CCGGAACCCAAAGACTTTGATTTCTCATAAGGTGCCGGCGGAGTCCTATA 7 0.17500000000000002 No Hit CCCGAAGTTACGGATCCGTTTTGCCGACTTCCCTTGCCTACATTGTTCCA 6 0.15 No Hit CTCTGACTATGAAATACGAATGCCCCCGACTGTCCCTATTAATCATTACT 6 0.15 No Hit CAGCCTTGCGACCATACTCCCCCCGGAACCCAAAGACTTTGATTTCTCAT 6 0.15 No Hit CGGAAACCTTGTTACGACTTCTCCTTCCTCTAAATGATAAGGTTCAATGG 6 0.15 No Hit CCCAAGATTACCCGGGCCTGTCGGCCAAGGCTATATACTCGTTGAATACA 6 0.15 No Hit GTCAATTCCTTTAAGTTTCAGCCTTGCGACCATACTCCCCCCGGAACCCA 6 0.15 No Hit GTCCTTTTCATCTTTCCCTCGCGGTACTTGTTCGCTATCGGTCTCTCGCC 6 0.15 No Hit GGGAAACTTCGGAGGGAACCAGCTACTAGATGGTTCGATTAGTCTTTCGC 6 0.15 No Hit CGAGCTTTTTAACTGCAACAACTTAAATATACGCTATTGGAGCTGGAATT 6 0.15 No Hit CTTGGCTGTGGTTTCGCTGGATAGTAGACAGGGACAGTGGGAATCTCGTT 6 0.15 No Hit CTCCGATCCCGAAGGCCAACACAATAGGACCGGAATCCTATGATGTTATC 6 0.15 No Hit GCCGACATCGAAGGATCAAAAAGCAACGTCGCTATGAACGCTTGGCTGCC 6 0.15 No Hit CTAGAATTACTACGGTTATCCGAGTAGCACGTACCATCAAACAAACTATA 6 0.15 No Hit CCCGTGTCAGGATTGGGTAATTTGCGCGCCTGCTGCCTTCCTTGGATGTG 6 0.15 No Hit TTTTGTTCCACACGAGATTTCTGTTCTCGTTGAGCTCATCTTAGGACACC 6 0.15 No Hit CCGCAGGCTCCACGCCTGGTGGTGCCCTTCCGTCAATTCCTTTAAGTTTC 6 0.15 No Hit GTTGAATTACTATCGCGGCACGGTCATCAGTAGGGTAAAACTAACCTGTC 6 0.15 No Hit GCCCGGTATTGTTATTTATTGTCACTACCTCCCCGTGTCAGGATTGGGTA 5 0.125 No Hit GTTCCGCATACGGCCAGGACGCATCGCCGGCCCCCATCCGCTTCCCTCCC 5 0.125 No Hit CTCGTTCGTTAACGGAATTAACCAGACAAATCGCTCCACCAACTAAGAAC 5 0.125 No Hit CCCCTATACCCAAGTCAGACGAACGATTTGCACGTCAGTATCGCTTCGAG 5 0.125 No Hit CCAACTACGAGCTTTTTAACTGCAACAACTTAAATATACGCTATTGGAGC 5 0.125 No Hit CCCATGCTAATGTATCCAGAGCGATGGCTTGCTTTGAGCACTCTAATTTC 5 0.125 No Hit CGACTTCTCCTTCCTCTAAATGATAAGGTTCAATGGACTTCTCGCGACGT 5 0.125 No Hit CTGACTATGAAATACGAATGCCCCCGACTGTCCCTATTAATCATTACTCC 5 0.125 No Hit GCCCAGTCCTCAGAGCCAATCCTTTTCCCGAAGTTACGGATCCGTTTTGC 5 0.125 No Hit CCTCAAACTTCCGTCGCCTAAACGGCGATAGTCCCTCTAAGAAGCTAGCT 5 0.125 No Hit CCCACTTGGAGCTCCCGATTCCATGGCGCGGCTCACCGGAGCAGCCGCGC 5 0.125 No Hit GTCGGCATCGTTTATGGTTGAGACTAGGACGGTATCTGATCGTCTTCGAG 5 0.125 No Hit GTGGTTTCGCTGGATAGTAGACAGGGACAGTGGGAATCTCGTTAATCCAT 5 0.125 No Hit CTTGATTAATGAAAACATCCTTGGCAAATGCTTTCGCAGTTGTTCGTCTT 5 0.125 No Hit CTGCTGCCTTCCTTGGATGTGGTAGCCGTTTCTCAGGCTCCCTCTCCGGA 5 0.125 No Hit CCTCGTTGAAGACCAACAATTGCAATGATCTATCCCCATCACGATGAAAT 5 0.125 No Hit GTGCCCTTCCGTCAATTCCTTTAAGTTTCAGCCTTGCGACCATACTCCCC 5 0.125 No Hit ATCGGTAGGAGCGACGGGCGGTGTGTACAAAGGGCAGGGACGTAGTCAAC 5 0.125 No Hit CGTTAACGGAATTAACCAGACAAATCGCTCCACCAACTAAGAACGGCCAT 5 0.125 No Hit CCTCTAAGAAGCTAGCTGCGGAGGGATGGCTCCGCATAGCTAGTTAGCAG 5 0.125 No Hit CCGTCAATTCCTTTAAGTTTCAGCCTTGCGACCATACTCCCCCCGGAACC 5 0.125 No Hit CCTATACCCAAGTCAGACGAACGATTTGCACGTCAGTATCGCTTCGAGCC 5 0.125 No Hit CCCCTTGTCCGTACCAGTTCTGAGTCGACTGTTCAGCGCTCGGGGAAAGC 5 0.125 No Hit CCCGCTCAGGCATAGTTCACCATCTTTCGGGTCCCGACAGGCGTGCTCCA 5 0.125 No Hit CCCAAACAACCCGACTCGTTGACGGCGCCTCGTGGGGCGACAGGGTCCGG 5 0.125 No Hit CTCTAGAATTACTACGGTTATCCGAGTAGCACGTACCATCAAACAAACTA 5 0.125 No Hit CGAAGGATCAAAAAGCAACGTCGCTATGAACGCTTGGCTGCCACAAGCCA 5 0.125 No Hit CCGACTCGTTGACGGCGCCTCGTGGGGCGACAGGGTCCGGGCCGGACGGG 5 0.125 No Hit CGCCCCTATACCCAAGTCAGACGAACGATTTGCACGTCAGTATCGCTTCG 5 0.125 No Hit CTGGAAATCAGAATCAAACGAGCTTTTACCCTTTTGTTCCACACGAGATT 5 0.125 No Hit CCCACTTATCCTACACCTCTCAAGTCATTTCACAAAGTCGGACTAGAGTC 5 0.125 No Hit CCCTTTTGTTCCACACGAGATTTCTGTTCTCGTTGAGCTCATCTTAGGAC 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 0.0 0.0 0.0 0.0 0.0 118-119 0.0 0.0 0.0 0.0 0.0 120-121 0.0 0.0 0.0 0.0 0.0 122-123 0.037500000000000006 0.0 0.0 0.0 0.0 124-125 0.05 0.0 0.0 0.0 0.0 126-127 0.0625 0.0 0.0 0.0 0.0 128-129 0.075 0.0 0.0 0.0 0.0 130-131 0.075 0.0 0.0 0.0 0.0 132-133 0.075 0.0 0.0 0.0 0.0 134-135 0.075 0.0 0.0 0.0 0.0 136-137 0.075 0.0 0.0 0.0 0.0 138 0.075 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Rejected 1256937 READS because READLEN < 1 Read 1256937 spots for SRR12682215.sra Written 1256937 spots for SRR12682215.sra Rejected 1256937 READS because READLEN < 1 Read 1256937 spots for SRR12682215.sra Written 1256937 spots for SRR12682215.sra Rejected 1256937 READS because READLEN < 1 Read 1256937 spots for SRR12682215.sra Written 1256937 spots for SRR12682215.sra Rejected 1256937 READS because READLEN < 1 Read 1256937 spots for SRR12682215.sra Written 1256937 spots for SRR12682215.sra Rejected 1256937 READS because READLEN < 1 Read 1256937 spots for SRR12682215.sra Written 1256937 spots for SRR12682215.sra Rejected 1256937 READS because READLEN < 1 Read 1256937 spots for SRR12682215.sra Written 1256937 spots for SRR12682215.sra Rejected 1256937 READS because READLEN < 1 Read 1256937 spots for SRR12682215.sra Written 1256937 spots for SRR12682215.sra Rejected 1256937 READS because READLEN < 1 Read 1256937 spots for SRR12682215.sra Written 1256937 spots for SRR12682215.sra Rejected 1256937 READS because READLEN < 1 Read 1256937 spots for SRR12682215.sra Written 1256937 spots for SRR12682215.sra Rejected 1256937 READS because READLEN < 1 Read 1256937 spots for SRR12682215.sra Written 1256937 spots for SRR12682215.sra Rejected 1256937 READS because READLEN < 1 Read 1256937 spots for SRR12682215.sra Written 1256937 spots for SRR12682215.sra Rejected 1256937 READS because READLEN < 1 Read 1256937 spots for SRR12682215.sra Written 1256937 spots for SRR12682215.sra Rejected 1256937 READS because READLEN < 1 Read 1256937 spots for SRR12682215.sra Written 1256937 spots for SRR12682215.sra Rejected 1256937 READS because READLEN < 1 Read 1256937 spots for SRR12682215.sra Written 1256937 spots for SRR12682215.sra Rejected 1256937 READS because READLEN < 1 Read 1256937 spots for SRR12682215.sra Written 1256937 spots for SRR12682215.sra Rejected 1256937 READS because READLEN < 1 Read 1256937 spots for SRR12682215.sra Written 1256937 spots for SRR12682215.sra Rejected 1256937 READS because READLEN < 1 Read 1256937 spots for SRR12682215.sra Written 1256937 spots for SRR12682215.sra Rejected 1256937 READS because READLEN < 1 Read 1256937 spots for SRR12682215.sra Written 1256937 spots for SRR12682215.sra Rejected 1256937 READS because READLEN < 1 Read 1256937 spots for SRR12682215.sra Written 1256937 spots for SRR12682215.sra Rejected 1256937 READS because READLEN < 1 Read 1256937 spots for SRR12682215.sra Written 1256937 spots for SRR12682215.sra SRR ids: ['SRR12682215.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_7loqprv0 SRR12682215.sra spots: 25138740 blocks: [[1, 1256937], [1256938, 2513874], [2513875, 3770811], [3770812, 5027748], [5027749, 6284685], [6284686, 7541622], [7541623, 8798559], [8798560, 10055496], [10055497, 11312433], [11312434, 12569370], [12569371, 13826307], [13826308, 15083244], [15083245, 16340181], [16340182, 17597118], [17597119, 18854055], [18854056, 20110992], [20110993, 21367929], [21367930, 22624866], [22624867, 23881803], [23881804, 25138740]] SRR12682215 file size 7871455 SRR12682215 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 SRR12682215 SRR12682215_1.fastq Input file: SRR12682215_1.fastq trimmed: SRR12682215-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 02:52:52 2024 >> started Sat Dec 7 02:53:06 2024 >> done (13.912s) 25138740 reads processed; of these: 1 ( 0.00%) short reads filtered out after trimming by size control 1619 ( 0.01%) empty reads filtered out after trimming by size control 25137120 (99.99%) reads available; of these: 11637 ( 0.05%) trimmed reads available after processing 25125483 (99.95%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 22 18 0.00% 23 23 0.00% 24 24 0.00% 25 27 0.00% 26 31 0.00% 27 38 0.00% 28 65 0.00% 29 73 0.00% 30 121 0.00% 31 85 0.00% 32 102 0.00% 33 123 0.00% 34 164 0.00% 35 212 0.00% 36 280 0.00% 37 316 0.00% 38 365 0.00% 39 450 0.00% 40 560 0.00% 41 630 0.00% 42 636 0.00% 43 665 0.00% 44 700 0.00% 45 726 0.00% 46 911 0.00% 47 1091 0.00% 48 1414 0.01% 49 1481 0.01% 50 1832 0.01% 51 1992 0.01% 52 2085 0.01% 53 2194 0.01% 54 2227 0.01% 55 2604 0.01% 56 2685 0.01% 57 3114 0.01% 58 3906 0.02% 59 4095 0.02% 60 4651 0.02% 61 5066 0.02% 62 5588 0.02% 63 5981 0.02% 64 6163 0.02% 65 6645 0.03% 66 7302 0.03% 67 8052 0.03% 68 8624 0.03% 69 9240 0.04% 70 10005 0.04% 71 12251 0.05% 72 13229 0.05% 73 15014 0.06% 74 15540 0.06% 75 16501 0.07% 76 18427 0.07% 77 19217 0.08% 78 20597 0.08% 79 22936 0.09% 80 24291 0.10% 81 26982 0.11% 82 29698 0.12% 83 30431 0.12% 84 34610 0.14% 85 39537 0.16% 86 43514 0.17% 87 45591 0.18% 88 48216 0.19% 89 50984 0.20% 90 54307 0.22% 91 56339 0.22% 92 63891 0.25% 93 68700 0.27% 94 70758 0.28% 95 78210 0.31% 96 85339 0.34% 97 88433 0.35% 98 101633 0.40% 99 99131 0.39% 100 99862 0.40% 101 101827 0.41% 102 111067 0.44% 103 120489 0.48% 104 125595 0.50% 105 124099 0.49% 106 130872 0.52% 107 140853 0.56% 108 131016 0.52% 109 145938 0.58% 110 144967 0.58% 111 152818 0.61% 112 168733 0.67% 113 159737 0.64% 114 174112 0.69% 115 186703 0.74% 116 192249 0.76% 117 184254 0.73% 118 178093 0.71% 119 188983 0.75% 120 202413 0.81% 121 188650 0.75% 122 210167 0.84% 123 215959 0.86% 124 200604 0.80% 125 205857 0.82% 126 213367 0.85% 127 204013 0.81% 128 208727 0.83% 129 223443 0.89% 130 210070 0.84% 131 212314 0.84% 132 212223 0.84% 133 217254 0.86% 134 201191 0.80% 135 211583 0.84% 136 215399 0.86% 137 220595 0.88% 138 210134 0.84% 139 214137 0.85% 140 208735 0.83% 141 201627 0.80% 142 200225 0.80% 143 195886 0.78% 144 208294 0.83% 145 201403 0.80% 146 254294 1.01% 147 422135 1.68% 148 998353 3.97% 149 3518470 14.00% 150 10157642 40.41% 25137120 reads passed initial QC criterion=sequence-density sequence-density=1.28 sequence-density-rank=1 fanout-score=2.81 fanout-score-rank=28 prefix-density=1.29 prefix-fanout=2.8 sequence=CCCAGCTCACGTTCCCTATTGGTGGGTGAACAATCCAACACTTGGTGAATTCTGCTTCACAATGATAGGAAGAGCCGACATCGAAGGATCAAAAAGCAACGTCGCTATGAACGCTTGGCTGCCACAAGCCAGTTATCCCTGTGGTAACTTTTCTGACACCTCTAGCTTCAAACTCCGAAGATCTAAAGGATCGATAGGCCACGCTTTCACGGTTCGTATTCGTACTGGAAATCAGAATCAAACGAGCTTTTACCCTTTTGTTCCACACGAGATTTCTGTTCTCGTTGAGCTCATCTTAGGACACCTGCGTTATCTTTTAACAGATGTGCCGCCCCAGCCAAACTCCCCACCTGACAATGTCTTCCGCCCGGATCGGCCCGGTCAGACCGGGCCTTGGAGCCAAAAGGAGGGGACTTGCCCCGCTTCCGACCCACGGAATAAGTAAAATAACGTTAAAAGTAGTGGTATTTCACTTGCGCCCGTAAAGGCTCCCACTTATCCTACACCTCTC criterion=fanout-score sequence-density=0.06 sequence-density-rank=27 fanout-score=47.11 fanout-score-rank=1 prefix-density=2.63 prefix-fanout=1.1 sequence=CCCCCGGAATAAGTA Started job on | Dec 07 02:53:27 Started mapping on | Dec 07 02:53:27 Finished on | Dec 07 02:54:50 Mapping speed, Million of reads per hour | 1090.28 Number of input reads | 25137120 Average input read length | 137 UNIQUE READS: Uniquely mapped reads number | 7718672 Uniquely mapped reads % | 30.71% Average mapped length | 137.98 Number of splices: Total | 3196051 Number of splices: Annotated (sjdb) | 3027867 Number of splices: GT/AG | 3152588 Number of splices: GC/AG | 38030 Number of splices: AT/AC | 2564 Number of splices: Non-canonical | 2869 Mismatch rate per base, % | 0.25% Deletion rate per base | 0.01% Deletion average length | 1.66 Insertion rate per base | 0.00% Insertion average length | 1.12 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 949984 % of reads mapped to multiple loci | 3.78% Number of reads mapped to too many loci | 14190921 % of reads mapped to too many loci | 56.45% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.37% % of reads unmapped: other | 7.69% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 16468464 16468464 16468464 N_multimapping 949984 949984 949984 N_noFeature 475158 7535864 532198 N_ambiguous 158412 775 33554 UnstrandedReadsAssigned:7085102 PositiveStrandReadsAssigned:182033 NegativeStrandReadsAssigned:7152920 Dataset is classified negative stranded MeadianReadLen=149 20thPercentileLength=123 echo kmer=119 SRR12682215 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: SRR12682215-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 25,137,120 reads, 7,343,133 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,272 rounds 52973 SRR12682215.ke.tsv 35125 SRR12682215.se.tsv 88098 total ==> SRR12682215.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 837 45.3194 11.0424 PNS24247 1044 945 5.83333 1.2589 PNS24249 1928 1829 47.6024 5.30788 PNS24246 1044 945 5.83333 1.2589 PNS24248 1044 945 5.83333 1.2589 PNS24244 1471 1372 64.5782 9.59925 PNS24243 293 194 0 0 KQK14069 1603 1504 1742.78 236.319 KQK14071 474 375 99.3282 54.019 ==> SRR12682215.se.tsv <== BRADI_1g14170v3 1917 BRADI_1g53295v3 22 BRADI_1g59795v3 117 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 656 BRADI_1g74790v3 122 BRADI_1g09890v3 0 BRADI_1g77505v3 70 BRADI_1g48960v3 0 SRR12682215 completed mapping pipeline successfully