Starting /dee2/code/volunteer_pipeline.sh SRR12682218 current disk space = 1547616296960 free memory = 1597755452 SRR12682218 SRAfilesize dbadfb6b8309243c775dfb52d54b03b9 SRR12682218.sra SRR12682218.sra file validated SRR12682218 is single end SRR12682218 is conventional basespace SRR12682218 read1 length is 52-150 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR12682218_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 51 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 31.599 32.0 32.0 32.0 32.0 32.0 2 31.55175 32.0 32.0 32.0 32.0 32.0 3 31.601 32.0 32.0 32.0 32.0 32.0 4 31.59925 32.0 32.0 32.0 32.0 32.0 5 31.69175 32.0 32.0 32.0 32.0 32.0 6 34.8755 36.0 36.0 36.0 36.0 36.0 7 35.2575 36.0 36.0 36.0 36.0 36.0 8 35.1085 36.0 36.0 36.0 36.0 36.0 9 35.11725 36.0 36.0 36.0 36.0 36.0 10-14 35.1419 36.0 36.0 36.0 36.0 36.0 15-19 35.10675 36.0 36.0 36.0 36.0 36.0 20-24 35.03395 36.0 36.0 36.0 36.0 36.0 25-29 34.9048 36.0 36.0 36.0 33.6 36.0 30-34 34.88215 36.0 36.0 36.0 35.2 36.0 35-39 34.85255 36.0 36.0 36.0 32.8 36.0 40-44 34.742000000000004 36.0 36.0 36.0 32.0 36.0 45-49 34.63705 36.0 36.0 36.0 32.8 36.0 50-54 34.54629916229057 36.0 36.0 36.0 32.0 36.0 55-59 34.46241560390098 36.0 36.0 36.0 32.0 36.0 60-64 34.283253573246476 36.0 36.0 36.0 32.0 36.0 65-69 34.172915692440206 36.0 36.0 36.0 32.0 36.0 70-74 34.191186780170256 36.0 36.0 36.0 32.0 36.0 75-79 34.13033399002883 36.0 36.0 36.0 32.0 36.0 80-84 33.99027984752265 36.0 36.0 36.0 31.0 36.0 85-89 33.961594466069805 36.0 36.0 36.0 31.0 36.0 90-94 33.88275214020136 36.0 36.0 36.0 30.0 36.0 95-99 33.88605759410981 36.0 36.0 36.0 27.0 36.0 100-104 33.775829207878985 36.0 36.0 36.0 28.0 36.0 105-109 33.443745756785454 36.0 34.4 36.0 27.0 36.0 110-114 33.357434852396 36.0 32.0 36.0 27.0 36.0 115-119 32.99144333071506 36.0 32.0 36.0 27.0 36.0 120-124 32.337938790419514 34.4 32.0 36.0 24.6 36.0 125-129 32.26280550514973 34.4 32.0 36.0 25.8 36.0 130-134 31.734416089408512 32.0 32.0 36.0 22.2 36.0 135-139 31.696160021387044 33.6 32.0 36.0 21.0 36.0 140-144 31.932781674823833 33.6 32.0 36.0 23.4 36.0 145-149 31.674333562520324 32.0 32.0 36.0 22.2 36.0 150 26.39044776119403 27.0 14.0 32.0 14.0 36.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 18 2.0 19 1.0 20 3.0 21 5.0 22 4.0 23 9.0 24 17.0 25 24.0 26 50.0 27 69.0 28 78.0 29 91.0 30 128.0 31 150.0 32 231.0 33 379.0 34 984.0 35 1775.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 29.475 9.025 7.475 54.025 2 22.025 13.575000000000001 33.225 31.175000000000004 3 21.05 14.799999999999999 19.825 44.324999999999996 4 28.4 23.65 18.65 29.299999999999997 5 27.224999999999998 27.500000000000004 21.95 23.325000000000003 6 23.36354481369587 30.236656596173212 24.72306143001007 21.676737160120847 7 17.575 23.1 38.25 21.075 8 19.55 19.75 33.4 27.3 9 21.025 20.3 32.800000000000004 25.874999999999996 10-14 23.225 25.275 24.959999999999997 26.540000000000003 15-19 23.28 24.215 26.22 26.284999999999997 20-24 24.325 24.099999999999998 25.074999999999996 26.5 25-29 23.425 24.27 24.455 27.85 30-34 22.945 22.985 25.064999999999998 29.005 35-39 23.345 24.34 24.404999999999998 27.91 40-44 23.731186559327966 23.91119555977799 24.73123656182809 27.626381319065953 45-49 23.2973297329733 24.58745874587459 24.81248124812481 27.302730273027304 50-54 22.82342351352703 24.423663549532428 24.653698054708208 28.09921488223234 55-59 23.305487469361214 24.00080036016207 24.76114251413136 27.932569656345358 60-64 22.961813723036887 22.50137630749212 25.954656924077874 28.58215304539312 65-69 22.98142864293938 23.702257596235672 25.72958902738149 27.586724733443457 70-74 23.697394789579157 23.46192384769539 25.586172344689377 27.25450901803607 75-79 24.342467812233856 24.33745804318421 24.39757527177997 26.922498872801963 80-84 23.595900733447202 23.32462574098262 24.942228473826987 28.137245051743193 85-89 22.730024213075062 23.622881355932204 24.85371267150928 28.793381759483456 90-94 23.833933918692583 23.229964979952292 25.09262548850429 27.84347561285084 95-99 23.431176681522466 24.153475744070487 24.424978228574357 27.990369345832693 100-104 23.235309371920543 23.562055909963174 24.910533686012137 28.292101032104146 105-109 22.964993673555462 24.530788696752424 25.442851117671868 27.061366512020246 110-114 24.67259498787389 24.13365669630827 23.767178658043655 27.426569657774184 115-119 23.955261254242945 23.298647821490178 25.173891269267152 27.572199654999725 120-124 24.418268953172817 22.945897569143714 25.099601593625497 27.536231884057973 125-129 24.228329809725157 24.651162790697676 23.41286620356388 27.707641196013288 130-134 25.05592841163311 22.876318312559924 24.838606583573025 27.22914669223394 135-139 25.387228260869566 23.26086956521739 24.130434782608695 27.221467391304348 140-144 24.110700572339347 24.132434977903355 23.712236470332538 28.044627979424764 145-149 24.908946951702298 22.30403800475059 23.74505146476643 29.04196357878068 150 27.46268656716418 0.0 34.08955223880597 38.44776119402985 >>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 0.0 22 0.0 23 0.0 24 0.0 25 0.0 26 1.0 27 2.0 28 1.5 29 0.5 30 1.5 31 3.0 32 9.5 33 16.5 34 19.5 35 23.0 36 43.0 37 63.0 38 53.5 39 57.0 40 74.5 41 74.5 42 78.5 43 103.5 44 117.0 45 126.5 46 148.5 47 172.0 48 195.5 49 211.0 50 220.0 51 211.5 52 192.0 53 181.5 54 174.5 55 189.0 56 186.5 57 142.0 58 126.5 59 113.5 60 88.5 61 87.0 62 79.0 63 70.0 64 59.5 65 47.0 66 46.0 67 41.5 68 36.0 69 27.5 70 20.5 71 17.5 72 17.5 73 13.0 74 6.5 75 7.5 76 10.5 77 7.5 78 2.5 79 1.0 80 0.0 81 0.0 82 0.0 83 0.0 84 0.0 85 0.0 86 0.0 87 0.5 88 0.5 89 0.0 90 0.0 91 0.0 92 0.0 93 0.0 94 0.0 95 0.0 96 0.0 97 0.0 98 0.0 99 0.0 100 0.0 >>END_MODULE >>Per base N content pass #Base N-Count 1 0.0 2 0.0 3 0.0 4 0.0 5 0.0 6 0.7000000000000001 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 0.005 45-49 0.01 50-54 0.005000500050005001 55-59 0.020005001250312578 60-64 0.040022012106658664 65-69 0.025022520268241418 70-74 0.050075112669003496 75-79 0.0050095180843602845 80-84 0.020090406830738324 85-89 0.02017349203147065 90-94 0.040586474557353765 95-99 0.04608294930875576 100-104 0.051837644497434034 105-109 0.031622219879835566 110-114 0.01077760413859999 115-119 0.022253129346314324 120-124 0.011546677443565615 125-129 0.036229696274379566 130-134 0.006391409945033875 135-139 0.006793016778751444 140-144 0.014487504527345164 145-149 0.023747328425552126 150 0.0 >>END_MODULE >>Sequence Length Distribution warn #Length Count 52-53 1.0 54-55 0.0 56-57 0.0 58-59 1.0 60-61 0.0 62-63 1.0 64-65 0.0 66-67 1.0 68-69 2.0 70-71 0.0 72-73 0.0 74-75 1.0 76-77 1.0 78-79 6.0 80-81 4.0 82-83 6.0 84-85 6.0 86-87 8.0 88-89 6.0 90-91 12.0 92-93 18.0 94-95 10.0 96-97 18.0 98-99 19.0 100-101 18.0 102-103 25.0 104-105 27.0 106-107 25.0 108-109 36.0 110-111 28.0 112-113 53.0 114-115 49.0 116-117 47.0 118-119 51.0 120-121 53.0 122-123 62.0 124-125 57.0 126-127 66.0 128-129 76.0 130-131 77.0 132-133 76.0 134-135 75.0 136-137 67.0 138-139 82.0 140-141 63.0 142-143 76.0 144-145 68.0 146-147 129.0 148-149 818.0 150-151 1675.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 78.0 #Duplication Level Percentage of deduplicated Percentage of total 1 87.78846153846153 68.475 2 6.506410256410257 10.15 3 2.435897435897436 5.7 4 0.9615384615384616 3.0 5 1.1217948717948718 4.375 6 0.2884615384615385 1.35 7 0.2564102564102564 1.4000000000000001 8 0.2564102564102564 1.6 9 0.0641025641025641 0.44999999999999996 >10 0.3205128205128205 3.5000000000000004 >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 CTCGTTGAAGACCAACAATTGCAATGATCTATCCCCATCACGATGAAATT 18 0.44999999999999996 No Hit CCCAACTTTCGTTCTTGATTAATGAAAACATCCTTGGCAAATGCTTTCGC 15 0.375 No Hit CTCTGACTATGAAATACGAATGCCCCCGACTGTCCCTATTAATCATTACT 15 0.375 No Hit GTCGGCATCGTTTATGGTTGAGACTAGGACGGTATCTGATCGTCTTCGAG 14 0.35000000000000003 No Hit ATCACGATGAAATTTCCCAAGATTACCCGGGCCTGTCGGCCAAGGCTATA 14 0.35000000000000003 No Hit CCTCTAAGAAGCTAGCTGCGGAGGGATGGCTCCGCATAGCTAGTTAGCAG 12 0.3 No Hit CCTAATTCTCCGTCACCCGTCACCACCATGGTAGGCCCCTATCCTACCAT 11 0.27499999999999997 No Hit CCGACATCGAAGGATCAAAAAGCAACGTCGCTATGAACGCTTGGCTGCCA 11 0.27499999999999997 No Hit CCCCGACTGTCCCTATTAATCATTACTCCGATCCCGAAGGCCAACACAAT 11 0.27499999999999997 No Hit CGAGCTTTTTAACTGCAACAACTTAAATATACGCTATTGGAGCTGGAATT 9 0.22499999999999998 No Hit CCCCAACTTTCGTTCTTGATTAATGAAAACATCCTTGGCAAATGCTTTCG 9 0.22499999999999998 No Hit CTCGTTGAATACATCAGTGTAGCGCGCGTGCGGCCCAGAACATCTAAGGG 8 0.2 No Hit CGCTATTGGAGCTGGAATTACCGCGGCTGCTGGCACCAGACTTGCCCTCC 8 0.2 No Hit CCCTTTTGTTCCACACGAGATTTCTGTTCTCGTTGAGCTCATCTTAGGAC 8 0.2 No Hit CCCTGGTCGGCATCGTTTATGGTTGAGACTAGGACGGTATCTGATCGTCT 8 0.2 No Hit CAACAACTTAAATATACGCTATTGGAGCTGGAATTACCGCGGCTGCTGGC 8 0.2 No Hit CGTCAATTCCTTTAAGTTTCAGCCTTGCGACCATACTCCCCCCGGAACCC 8 0.2 No Hit CTAATTCTCCGTCACCCGTCACCACCATGGTAGGCCCCTATCCTACCATC 8 0.2 No Hit CGCGGCTGCTGGCACCAGACTTGCCCTCCAATGGATCCTCGTTAAGGGAT 8 0.2 No Hit CGTTGAAGACCAACAATTGCAATGATCTATCCCCATCACGATGAAATTTC 7 0.17500000000000002 No Hit CTTCCGTCAATTCCTTTAAGTTTCAGCCTTGCGACCATACTCCCCCCGGA 7 0.17500000000000002 No Hit CTCCTACTCATCGGGGCATGGCGCTCGCCCAGATGGCCGGGTGTGGGTCG 7 0.17500000000000002 No Hit CTAGAATTACTACGGTTATCCGAGTAGCACGTACCATCAAACAAACTATA 7 0.17500000000000002 No Hit GTTGAGACTAGGACGGTATCTGATCGTCTTCGAGCCCCCAACTTTCGTTC 7 0.17500000000000002 No Hit GGCGGTGTGTACAAAGGGCAGGGACGTAGTCAACGCGAGCTGATGACTCG 7 0.17500000000000002 No Hit CGTTAACGGAATTAACCAGACAAATCGCTCCACCAACTAAGAACGGCCAT 7 0.17500000000000002 No Hit GTTGAATACATCAGTGTAGCGCGCGTGCGGCCCAGAACATCTAAGGGCAT 7 0.17500000000000002 No Hit CTTGTTACGACTTCTCCTTCCTCTAAATGATAAGGTTCAATGGACTTCTC 6 0.15 No Hit CCCGGAACCCAAAGACTTTGATTTCTCATAAGGTGCCGGCGGAGTCCTAT 6 0.15 No Hit CTCAGAGCCAATCCTTTTCCCGAAGTTACGGATCCGTTTTGCCGACTTCC 6 0.15 No Hit CCGAAGGCCAACACAATAGGACCGGAATCCTATGATGTTATCCCATGCTA 6 0.15 No Hit CAGGGACGTAGTCAACGCGAGCTGATGACTCGCGCTTACTAGGCATTCCT 6 0.15 No Hit GTCAATTCCTTTAAGTTTCAGCCTTGCGACCATACTCCCCCCGGAACCCA 6 0.15 No Hit GTCGAGTTATCATGAATCATCGGATCAGCGAGCAAAGCCCGCGTCAGCCT 6 0.15 No Hit GTTCGTTAACGGAATTAACCAGACAAATCGCTCCACCAACTAAGAACGGC 6 0.15 No Hit GTCCCGACAGGCGTGCTCCAACTCGAACCCTTCACAGAAGATCAGGGTCG 6 0.15 No Hit CCCGCGTCAGCCTTTTATCTAATAAATGCGCCCCTCCCAGAAGTCGGGGT 5 0.125 No Hit GAGCTTTTTAACTGCAACAACTTAAATATACGCTATTGGAGCTGGAATTA 5 0.125 No Hit ATCGCTTCGAGCCTCCACCAGAGTTTCCTCTGGCTTCGCCCCGCTCAGGC 5 0.125 No Hit GTTCGATTAGTCTTTCGCCCCTATACCCAAGTCAGACGAACGATTTGCAC 5 0.125 No Hit GCTTTACCTGATAGAACTCGTAATGGGCTCCAGCTATCCTGAGGGAAACT 5 0.125 No Hit CCTGTATTTAGCCTTGGACGGAGTCTACCGCCCGATTTGGGCTGCATTCC 5 0.125 No Hit CCCGGCTTCCGGTTCATCCCGCATCGCCAGTTCTGCTTACCAAAAATGGC 5 0.125 No Hit CTGACTATGAAATACGAATGCCCCCGACTGTCCCTATTAATCATTACTCC 5 0.125 No Hit GGGAAACTTCGGAGGGAACCAGCTACTAGATGGTTCGATTAGTCTTTCGC 5 0.125 No Hit CCTCGTTGAAGACCAACAATTGCAATGATCTATCCCCATCACGATGAAAT 5 0.125 No Hit CTGTTATTGCCTCAAACTTCCGTCGCCTAAACGGCGATAGTCCCTCTAAG 5 0.125 No Hit CGGGCGGTGTGTACAAAGGGCAGGGACGTAGTCAACGCGAGCTGATGACT 5 0.125 No Hit GTAGCGCGCGTGCGGCCCAGAACATCTAAGGGCATCACAGACCTGTTATT 5 0.125 No Hit GTCAGGATTGGGTAATTTGCGCGCCTGCTGCCTTCCTTGGATGTGGTAGC 5 0.125 No Hit CGCCCCTATACCCAAGTCAGACGAACGATTTGCACGTCAGTATCGCTTCG 5 0.125 No Hit CCGGAACCCAAAGACTTTGATTTCTCATAAGGTGCCGGCGGAGTCCTATA 5 0.125 No Hit CCTTCCGTCAATTCCTTTAAGTTTCAGCCTTGCGACCATACTCCCCCCGG 5 0.125 No Hit CTCCAATGGATCCTCGTTAAGGGATTTAGATTGTACTCATTCCAATTACC 5 0.125 No Hit CATCAGTGTAGCGCGCGTGCGGCCCAGAACATCTAAGGGCATCACAGACC 5 0.125 No Hit CTCTAAGAAGCTAGCTGCGGAGGGATGGCTCCGCATAGCTAGTTAGCAGG 5 0.125 No Hit CAGAGCGATGGCTTGCTTTGAGCACTCTAATTTCTTCAAAGTAACGATGC 5 0.125 No Hit CTCGCCTGTATTTAGCCTTGGACGGAGTCTACCGCCCGATTTGGGCTGCA 5 0.125 No Hit CCGCTGATTCCGCCAAGCCCGTTCCCTTGGCTGTGGTTTCGCTGGATAGT 5 0.125 No Hit CAGCCTTTTATCTAATAAATGCGCCCCTCCCAGAAGTCGGGGTTTGTTGC 5 0.125 No Hit GTCGGGGCAGGCGGCGGGCGCAGGCGCCGCTTGCTAGCTTGGATTCTGAC 5 0.125 No Hit CCCTCTAAGAAGCTAGCTGCGGAGGGATGGCTCCGCATAGCTAGTTAGCA 5 0.125 No Hit GTGCCCTTCCGTCAATTCCTTTAAGTTTCAGCCTTGCGACCATACTCCCC 5 0.125 No Hit CAGAAATTTGAATGATGCGTCGCCGGCACGAGGGCCGTGCGATCCGTCGA 5 0.125 No Hit CTCATTCCAATTACCAGACACTAATGTGCCCGGTATTGTTATTTATTGTC 5 0.125 No Hit CTCCGTCACCCGTCACCACCATGGTAGGCCCCTATCCTACCATCGAAAGT 5 0.125 No Hit CCATGCTAATGTATCCAGAGCGATGGCTTGCTTTGAGCACTCTAATTTCT 5 0.125 No Hit CCCATCACGATGAAATTTCCCAAGATTACCCGGGCCTGTCGGCCAAGGCT 5 0.125 No Hit CGCGGCACGGTCATCAGTAGGGTAAAACTAACCTGTCTCACGACGGTCTA 5 0.125 No Hit GCCGCAGGCTCCACGCCTGGTGGTGCCCTTCCGTCAATTCCTTTAAGTTT 5 0.125 No Hit CTATTAATCATTACTCCGATCCCGAAGGCCAACACAATAGGACCGGAATC 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 0.0125 0.0 0.0 0.0 0.0 86-87 0.025 0.0 0.0 0.0 0.0 88-89 0.025 0.0 0.0 0.0 0.0 90-91 0.025 0.0 0.0 0.0 0.0 92-93 0.025 0.0 0.0 0.0 0.0 94-95 0.025 0.0 0.0 0.0 0.0 96-97 0.025 0.0 0.0 0.0 0.0 98-99 0.025 0.0 0.0 0.0 0.0 100-101 0.025 0.0 0.0 0.0 0.0 102-103 0.025 0.0 0.0 0.0 0.0 104-105 0.025 0.0 0.0 0.0 0.0 106-107 0.025 0.0 0.0 0.0 0.0 108-109 0.025 0.0 0.0 0.0 0.0 110-111 0.025 0.0 0.0 0.0 0.0 112-113 0.025 0.0 0.0 0.0 0.0 114-115 0.025 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 0.05 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 warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position TATTTAG 10 0.0084414035 135.08751 9 TGTATTT 10 0.0084414035 135.08751 7 GCCTGTA 10 0.0084414035 135.08751 4 CTCGCCT 10 0.0084414035 135.08751 1 CTCCGTG 10 0.0084414035 135.08751 8 >>END_MODULE Rejected 1437213 READS because READLEN < 1 Read 1437213 spots for SRR12682218.sra Written 1437213 spots for SRR12682218.sra Rejected 1437213 READS because READLEN < 1 Read 1437213 spots for SRR12682218.sra Written 1437213 spots for SRR12682218.sra Rejected 1437213 READS because READLEN < 1 Read 1437213 spots for SRR12682218.sra Written 1437213 spots for SRR12682218.sra Rejected 1437213 READS because READLEN < 1 Read 1437213 spots for SRR12682218.sra Written 1437213 spots for SRR12682218.sra Rejected 1437213 READS because READLEN < 1 Read 1437213 spots for SRR12682218.sra Written 1437213 spots for SRR12682218.sra Rejected 1437213 READS because READLEN < 1 Read 1437213 spots for SRR12682218.sra Written 1437213 spots for SRR12682218.sra Rejected 1437213 READS because READLEN < 1 Read 1437213 spots for SRR12682218.sra Written 1437213 spots for SRR12682218.sra Rejected 1437213 READS because READLEN < 1 Read 1437213 spots for SRR12682218.sra Written 1437213 spots for SRR12682218.sra Rejected 1437217 READS because READLEN < 1 Read 1437217 spots for SRR12682218.sra Written 1437217 spots for SRR12682218.sra Rejected 1437213 READS because READLEN < 1 Read 1437213 spots for SRR12682218.sra Written 1437213 spots for SRR12682218.sra Rejected 1437213 READS because READLEN < 1 Read 1437213 spots for SRR12682218.sra Written 1437213 spots for SRR12682218.sra Rejected 1437213 READS because READLEN < 1 Read 1437213 spots for SRR12682218.sra Written 1437213 spots for SRR12682218.sra Rejected 1437213 READS because READLEN < 1 Read 1437213 spots for SRR12682218.sra Written 1437213 spots for SRR12682218.sra Rejected 1437213 READS because READLEN < 1 Read 1437213 spots for SRR12682218.sra Written 1437213 spots for SRR12682218.sra Rejected 1437213 READS because READLEN < 1 Read 1437213 spots for SRR12682218.sra Written 1437213 spots for SRR12682218.sra Rejected 1437213 READS because READLEN < 1 Read 1437213 spots for SRR12682218.sra Written 1437213 spots for SRR12682218.sra Rejected 1437213 READS because READLEN < 1 Read 1437213 spots for SRR12682218.sra Written 1437213 spots for SRR12682218.sra Rejected 1437213 READS because READLEN < 1 Read 1437213 spots for SRR12682218.sra Written 1437213 spots for SRR12682218.sra Rejected 1437213 READS because READLEN < 1 Read 1437213 spots for SRR12682218.sra Written 1437213 spots for SRR12682218.sra Rejected 1437213 READS because READLEN < 1 Read 1437213 spots for SRR12682218.sra Written 1437213 spots for SRR12682218.sra SRR ids: ['SRR12682218.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_aghqe9op SRR12682218.sra spots: 28744264 blocks: [[1, 1437213], [1437214, 2874426], [2874427, 4311639], [4311640, 5748852], [5748853, 7186065], [7186066, 8623278], [8623279, 10060491], [10060492, 11497704], [11497705, 12934917], [12934918, 14372130], [14372131, 15809343], [15809344, 17246556], [17246557, 18683769], [18683770, 20120982], [20120983, 21558195], [21558196, 22995408], [22995409, 24432621], [24432622, 25869834], [25869835, 27307047], [27307048, 28744264]] SRR12682218 file size 9124907 SRR12682218 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 SRR12682218 SRR12682218_1.fastq Input file: SRR12682218_1.fastq trimmed: SRR12682218-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 03:08:57 2024 >> started Sat Dec 7 03:09:13 2024 >> done (15.603s) 28744264 reads processed; of these: 0 ( 0.00%) short reads filtered out after trimming by size control 642 ( 0.00%) empty reads filtered out after trimming by size control 28743622 (100.00%) reads available; of these: 9779 ( 0.03%) trimmed reads available after processing 28733843 (99.97%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 20 1 0.00% 21 0 0.00% 22 10 0.00% 23 15 0.00% 24 24 0.00% 25 26 0.00% 26 25 0.00% 27 31 0.00% 28 54 0.00% 29 45 0.00% 30 68 0.00% 31 74 0.00% 32 100 0.00% 33 90 0.00% 34 86 0.00% 35 148 0.00% 36 133 0.00% 37 164 0.00% 38 211 0.00% 39 234 0.00% 40 273 0.00% 41 337 0.00% 42 303 0.00% 43 322 0.00% 44 337 0.00% 45 339 0.00% 46 434 0.00% 47 561 0.00% 48 641 0.00% 49 737 0.00% 50 835 0.00% 51 852 0.00% 52 1011 0.00% 53 999 0.00% 54 1033 0.00% 55 1246 0.00% 56 1328 0.00% 57 1478 0.01% 58 1790 0.01% 59 1914 0.01% 60 1980 0.01% 61 2278 0.01% 62 2621 0.01% 63 2688 0.01% 64 2872 0.01% 65 3015 0.01% 66 3426 0.01% 67 3927 0.01% 68 4220 0.01% 69 4574 0.02% 70 4839 0.02% 71 5859 0.02% 72 6624 0.02% 73 7295 0.03% 74 7565 0.03% 75 8341 0.03% 76 9581 0.03% 77 10047 0.03% 78 11083 0.04% 79 12479 0.04% 80 13880 0.05% 81 14919 0.05% 82 17142 0.06% 83 18134 0.06% 84 20067 0.07% 85 23682 0.08% 86 27045 0.09% 87 28868 0.10% 88 31003 0.11% 89 33138 0.12% 90 36316 0.13% 91 38002 0.13% 92 44032 0.15% 93 47941 0.17% 94 50599 0.18% 95 57292 0.20% 96 62131 0.22% 97 66871 0.23% 98 75115 0.26% 99 77022 0.27% 100 80886 0.28% 101 84011 0.29% 102 91527 0.32% 103 100258 0.35% 104 105706 0.37% 105 109868 0.38% 106 114776 0.40% 107 125999 0.44% 108 122905 0.43% 109 136492 0.47% 110 137824 0.48% 111 149471 0.52% 112 163530 0.57% 113 162687 0.57% 114 177800 0.62% 115 191381 0.67% 116 197819 0.69% 117 189480 0.66% 118 192532 0.67% 119 206747 0.72% 120 223826 0.78% 121 213926 0.74% 122 238022 0.83% 123 249201 0.87% 124 234434 0.82% 125 237114 0.82% 126 246582 0.86% 127 240028 0.84% 128 247161 0.86% 129 264110 0.92% 130 255419 0.89% 131 254974 0.89% 132 260309 0.91% 133 269684 0.94% 134 258281 0.90% 135 263785 0.92% 136 274954 0.96% 137 274879 0.96% 138 260299 0.91% 139 269856 0.94% 140 266614 0.93% 141 256945 0.89% 142 256920 0.89% 143 257454 0.90% 144 269438 0.94% 145 259078 0.90% 146 321419 1.12% 147 553571 1.93% 148 1236280 4.30% 149 4369989 15.20% 150 11900549 41.40% 28743622 reads passed initial QC criterion=sequence-density sequence-density=0.97 sequence-density-rank=1 fanout-score=2.87 fanout-score-rank=30 prefix-density=0.99 prefix-fanout=2.8 sequence=CCCAGCTCACGTTCCCTATTGGTGGGTGAACAATCCAACACTTGGTGAATTCTGCTTCACAATGATAGGAAGAGCCGACATCGAAGGATCAAAAAGCAACGTCGCTATGAACGCTTGGCTGCCACAAGCCAGTTATCCCTGTGGTAACTTTTCTGACACCTCTAGCTTCAAACTCCGAAGATCTAAAGGATCGATAGGCCACGCTTTCACGGTTCGTATTCGTACTGGAAATCAGAATCAAACGAGCTTTTACCCTTTTGTTCCACACGAGATTTCTGTTCTCGTTGAGCTCATCTTAGGACACCTGCGTTATCTTTTAACAGATGTGCCGCCCCAGCCAAACTCCCCACCTGACAATGTCTTCCGCCCGGATCGGCCCGGTCAGACCGGGCCTTGGAGCCAAAAGGAGGGGACTTGCCCCGCTTCCGACCCACGGAATAAGTAAAATAACGTTAAAAGTAGTGGTATTTCACTTGCGCCCGTAAAGGCTCCCACTTATCCTACACCTCTC criterion=fanout-score sequence-density=0.05 sequence-density-rank=30 fanout-score=36.66 fanout-score-rank=1 prefix-density=1.89 prefix-fanout=1.0 sequence=TGGGTAATTTGTGCGCCTGCTGC Started job on | Dec 07 03:09:34 Started mapping on | Dec 07 03:09:34 Finished on | Dec 07 03:11:02 Mapping speed, Million of reads per hour | 1175.88 Number of input reads | 28743622 Average input read length | 139 UNIQUE READS: Uniquely mapped reads number | 12191393 Uniquely mapped reads % | 42.41% Average mapped length | 139.79 Number of splices: Total | 5140386 Number of splices: Annotated (sjdb) | 4878038 Number of splices: GT/AG | 5072931 Number of splices: GC/AG | 59511 Number of splices: AT/AC | 4065 Number of splices: Non-canonical | 3879 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 | 1.15 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 1129363 % of reads mapped to multiple loci | 3.93% Number of reads mapped to too many loci | 13258208 % of reads mapped to too many loci | 46.13% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.71% % of reads unmapped: other | 5.82% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 15422866 15422866 15422866 N_multimapping 1129363 1129363 1129363 N_noFeature 717792 11909948 809641 N_ambiguous 234018 1215 45266 UnstrandedReadsAssigned:11239583 PositiveStrandReadsAssigned:280230 NegativeStrandReadsAssigned:11336486 Dataset is classified negative stranded MeadianReadLen=149 20thPercentileLength=128 echo kmer=123 SRR12682218 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: SRR12682218-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 28,743,622 reads, 11,622,254 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,059 rounds 52973 SRR12682218.ke.tsv 35125 SRR12682218.se.tsv 88098 total ==> SRR12682218.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 837 130.459 20.376 PNS24247 1044 945 3.54421 0.490295 PNS24249 1928 1829 87.4457 6.25022 PNS24246 1044 945 3.54421 0.490295 PNS24248 1044 945 3.54421 0.490295 PNS24244 1471 1372 62.4623 5.9516 PNS24243 293 194 0 0 KQK14069 1603 1504 2414.79 209.895 KQK14071 474 375 122.036 42.543 ==> SRR12682218.se.tsv <== BRADI_1g14170v3 2791 BRADI_1g53295v3 54 BRADI_1g59795v3 183 BRADI_1g07683v3 0 BRADI_1g00485v3 11 BRADI_1g20270v3 1034 BRADI_1g74790v3 124 BRADI_1g09890v3 1 BRADI_1g77505v3 99 BRADI_1g48960v3 0 SRR12682218 completed mapping pipeline successfully