Starting /dee2/code/volunteer_pipeline.sh SRR1772226 current disk space = 1540230361088 free memory = 1448337544 SRR1772226 SRAfilesize a9527bf4914be1bdf6e0f1301cb4fa48 SRR1772226.sra SRR1772226.sra file validated SRR1772226 is single end SRR1772226 is conventional basespace SRR1772226 read1 length is 50 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR1772226_1.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 50 %GC 43 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 32.882 34.0 31.0 34.0 31.0 34.0 2 33.02275 34.0 31.0 34.0 31.0 34.0 3 32.7975 34.0 31.0 34.0 31.0 34.0 4 36.2395 37.0 37.0 37.0 35.0 37.0 5 36.335 37.0 37.0 37.0 35.0 37.0 6 36.199 37.0 37.0 37.0 35.0 37.0 7 36.26425 37.0 37.0 37.0 35.0 37.0 8 36.2385 37.0 37.0 37.0 35.0 37.0 9 38.00625 39.0 38.0 39.0 35.0 39.0 10 37.87925 39.0 38.0 39.0 35.0 39.0 11 37.98775 39.0 38.0 39.0 35.0 39.0 12 38.0025 39.0 38.0 39.0 35.0 39.0 13 37.96375 39.0 38.0 39.0 35.0 39.0 14 39.30975 41.0 39.0 41.0 36.0 41.0 15 39.42675 41.0 39.0 41.0 36.0 41.0 16 39.215 41.0 39.0 41.0 36.0 41.0 17 39.3665 41.0 39.0 41.0 36.0 41.0 18 39.42175 41.0 39.0 41.0 36.0 41.0 19 39.29175 41.0 39.0 41.0 36.0 41.0 20 39.3465 41.0 39.0 41.0 36.0 41.0 21 39.21225 41.0 39.0 41.0 36.0 41.0 22 39.2725 41.0 39.0 41.0 36.0 41.0 23 39.021 41.0 39.0 41.0 36.0 41.0 24 38.98775 41.0 39.0 41.0 35.0 41.0 25 39.038 40.0 39.0 41.0 36.0 41.0 26 38.5825 40.0 38.0 41.0 34.0 41.0 27 38.7645 40.0 38.0 41.0 35.0 41.0 28 38.8525 40.0 38.0 41.0 35.0 41.0 29 38.6085 40.0 38.0 41.0 34.0 41.0 30 38.469 40.0 38.0 41.0 34.0 41.0 31 38.31175 40.0 38.0 41.0 34.0 41.0 32 38.1505 40.0 38.0 41.0 34.0 41.0 33 38.14575 40.0 38.0 41.0 33.0 41.0 34 38.511 40.0 38.0 41.0 34.0 41.0 35 38.5615 40.0 38.0 41.0 35.0 41.0 36 38.51525 40.0 38.0 41.0 35.0 41.0 37 38.17425 40.0 38.0 41.0 33.0 41.0 38 37.8545 40.0 38.0 41.0 33.0 41.0 39 37.94175 40.0 38.0 41.0 33.0 41.0 40 37.94825 40.0 38.0 41.0 33.0 41.0 41 37.759 40.0 38.0 41.0 33.0 41.0 42 37.84275 40.0 38.0 41.0 33.0 41.0 43 37.6455 40.0 38.0 41.0 33.0 41.0 44 37.49725 40.0 38.0 41.0 33.0 41.0 45 37.35175 40.0 38.0 41.0 33.0 41.0 46 37.319 40.0 38.0 41.0 33.0 41.0 47 36.89675 40.0 37.0 41.0 31.0 41.0 48 36.95075 40.0 38.0 41.0 31.0 41.0 49 37.00825 40.0 38.0 41.0 31.0 41.0 50 36.735 40.0 37.0 41.0 31.0 41.0 >>END_MODULE >>Per tile sequence quality pass #Tile Base Mean 1101 1 0.0 1101 2 0.0 1101 3 0.0 1101 4 0.0 1101 5 0.0 1101 6 0.0 1101 7 0.0 1101 8 0.0 1101 9 0.0 1101 10 0.0 1101 11 0.0 1101 12 0.0 1101 13 0.0 1101 14 0.0 1101 15 0.0 1101 16 0.0 1101 17 0.0 1101 18 0.0 1101 19 0.0 1101 20 0.0 1101 21 0.0 1101 22 0.0 1101 23 0.0 1101 24 0.0 1101 25 0.0 1101 26 0.0 1101 27 0.0 1101 28 0.0 1101 29 0.0 1101 30 0.0 1101 31 0.0 1101 32 0.0 1101 33 0.0 1101 34 0.0 1101 35 0.0 1101 36 0.0 1101 37 0.0 1101 38 0.0 1101 39 0.0 1101 40 0.0 1101 41 0.0 1101 42 0.0 1101 43 0.0 1101 44 0.0 1101 45 0.0 1101 46 0.0 1101 47 0.0 1101 48 0.0 1101 49 0.0 1101 50 0.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 11 1.0 12 0.0 13 1.0 14 1.0 15 1.0 16 1.0 17 4.0 18 3.0 19 6.0 20 4.0 21 9.0 22 10.0 23 3.0 24 13.0 25 10.0 26 15.0 27 26.0 28 26.0 29 36.0 30 39.0 31 62.0 32 83.0 33 87.0 34 111.0 35 130.0 36 193.0 37 275.0 38 601.0 39 2249.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 38.467317806160786 12.59704482844979 13.498622589531681 35.43701477585775 2 28.549999999999997 12.375 30.275000000000002 28.799999999999997 3 39.46639818776743 19.43116033224264 17.442738484772214 23.659702995217717 4 31.225 30.925000000000004 16.5 21.349999999999998 5 30.95 33.25 19.375 16.425 6 21.775 35.275 19.35 23.599999999999998 7 11.475 36.375 37.1 15.049999999999999 8 21.15 26.05 29.425 23.375 9 21.5 19.175 32.7 26.625 10 15.875 43.9 24.2 16.025 11 23.625 34.150000000000006 17.849999999999998 24.375 12 25.95 29.825000000000003 23.525 20.7 13 16.8 39.125 24.125 19.950000000000003 14 24.425 32.925 26.450000000000003 16.2 15 18.925 34.375 22.3 24.4 16 21.65 37.35 22.55 18.45 17 21.2 34.699999999999996 23.025000000000002 21.075 18 17.1 36.4 23.45 23.05 19 21.025 33.550000000000004 25.624999999999996 19.8 20 15.25 35.975 26.150000000000002 22.625 21 17.349999999999998 30.775000000000002 27.775 24.099999999999998 22 14.649999999999999 42.675000000000004 22.675 20.0 23 21.025 35.099999999999994 25.85 18.025 24 19.7 34.55 21.9 23.849999999999998 25 17.75 34.375 28.050000000000004 19.825 26 18.7 37.025000000000006 23.425 20.849999999999998 27 24.8 28.875 28.075 18.25 28 24.65 39.875 20.3 15.174999999999999 29 24.5 32.275 24.3 18.925 30 25.55 31.225 23.625 19.6 31 29.875 27.0 23.1 20.025000000000002 32 24.474999999999998 31.45 24.575 19.5 33 26.3 34.975 20.3 18.425 34 24.224999999999998 33.775 22.3 19.7 35 19.875 35.25 25.55 19.325 36 21.224999999999998 27.725 30.9 20.150000000000002 37 23.697394789579157 28.75751503006012 30.210420841683366 17.334669338677354 38 20.925 26.55 31.324999999999996 21.2 39 25.2 27.725 27.224999999999998 19.85 40 18.025 34.8 28.1 19.075 41 22.325 28.249999999999996 28.7 20.724999999999998 42 19.950000000000003 31.900000000000002 24.875 23.275000000000002 43 21.4 34.275 22.375 21.95 44 20.025000000000002 30.425 27.925 21.625 45 20.29058116232465 31.362725450901802 30.961923847695388 17.384769539078157 46 18.914185639229423 30.64798598949212 31.548661496122094 18.88916687515637 47 19.93496748374187 33.81690845422711 26.3631815907954 19.884942471235618 48 23.455863965991497 31.707926981745437 24.981245311327832 19.854963740935233 49 20.955238809702426 32.0830207551888 26.331582895723933 20.630157539384847 50 24.20605151287822 27.181795448862218 27.53188297074269 21.080270067516878 >>END_MODULE >>Per sequence GC content fail #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 0.5 12 1.0 13 0.5 14 0.0 15 0.0 16 0.0 17 0.5 18 1.0 19 5.0 20 9.0 21 7.0 22 5.0 23 13.5 24 22.0 25 31.0 26 40.0 27 40.0 28 40.0 29 44.5 30 49.0 31 67.0 32 85.0 33 160.0 34 235.0 35 309.5 36 384.0 37 471.0 38 558.0 39 442.5 40 327.0 41 346.0 42 365.0 43 392.5 44 420.0 45 429.5 46 439.0 47 325.5 48 212.0 49 246.5 50 281.0 51 211.5 52 142.0 53 116.5 54 91.0 55 72.0 56 53.0 57 47.0 58 41.0 59 32.5 60 24.0 61 31.5 62 39.0 63 26.5 64 14.0 65 16.5 66 19.0 67 21.5 68 24.0 69 23.0 70 22.0 71 23.0 72 24.0 73 17.5 74 11.0 75 9.0 76 7.0 77 6.5 78 6.0 79 5.5 80 5.0 81 3.5 82 2.0 83 1.0 84 0.0 85 0.5 86 1.0 87 1.0 88 1.0 89 1.0 90 1.0 91 0.5 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 0.17500000000000002 2 0.0 3 0.675 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 0.0 29 0.0 30 0.0 31 0.0 32 0.0 33 0.0 34 0.0 35 0.0 36 0.0 37 0.2 38 0.0 39 0.0 40 0.0 41 0.0 42 0.0 43 0.0 44 0.0 45 0.2 46 0.075 47 0.05 48 0.025 49 0.025 50 0.025 >>END_MODULE >>Sequence Length Distribution pass #Length Count 50 4000.0 >>END_MODULE >>Sequence Duplication Levels warn #Total Deduplicated Percentage 50.975 #Duplication Level Percentage of deduplicated Percentage of total 1 85.09073075036783 43.375 2 6.473761647866601 6.6000000000000005 3 2.30505149583129 3.5249999999999995 4 1.2751348700343306 2.6 5 0.9318293281020108 2.375 6 0.4904364884747425 1.5 7 0.24521824423737126 0.8750000000000001 8 0.392349190779794 1.6 9 0.392349190779794 1.7999999999999998 >10 2.108876900441393 22.650000000000002 >50 0.196174595389897 6.275 >100 0.0980872976949485 6.825 >500 0.0 0.0 >1k 0.0 0.0 >5k 0.0 0.0 >10k+ 0.0 0.0 >>END_MODULE >>Overrepresented sequences fail #Sequence Count Percentage Possible Source GCGGGAACTTCAAGAGCAGCTAGATCTAGAGGGAAGTTGTGAGCATTACG 143 3.5749999999999997 No Hit GGGAACTTCAAGAGCAGCTAGATCTAGAGGGAAGTTGTGAGCATTACGTT 130 3.25 No Hit CTGCGATGAAGGCGATAATAAATACAGAAGTTGCGGTCAATAAGGTAGGG 86 2.15 No Hit TCTGCCTGGAATACAATCATAAAGTTGAAAGTACCAGATATTCCTAAAGG 57 1.425 No Hit CTGGAATACAATCATAAAGTTGAAAGTACCAGATATTCCTAAAGGCATAC 55 1.375 No Hit GCGATGAAGGCGATAATAAATACAGAAGTTGCGGTCAATAAGGTAGGGAT 53 1.325 No Hit GTGCTCTGCCTGGAATACAATCATAAAGTTGAAAGTACCAGATATTCCTA 50 1.25 No Hit GCGACCTTGACTATCAACTACAGATTGGTTGAAATTGAATCCATTTAGGT 42 1.05 No Hit GCGGTCAATAAGGTAGGGATCATCAAAACACCGAACCATCCGATGTAAAG 40 1.0 No Hit CGGGAACTTCAAGAGCAGCTAGATCTAGAGGGAAGTTGTGAGCATTACGT 39 0.975 No Hit GTTGTGCTCTGCCTGGAATACAATCATAAAGTTGAAAGTACCAGATATTC 37 0.9249999999999999 No Hit GCCTGGAATACAATCATAAAGTTGAAAGTACCAGATATTCCTAAAGGCAT 37 0.9249999999999999 No Hit ATAAGGATGTTGTGCTCTGCCTGGAATACAATCATAAAGTTGAAAGTACC 31 0.775 No Hit CGATGAAGGCGATAATAAATACAGAAGTTGCGGTCAATAAGGTAGGGATC 30 0.75 No Hit GATCGGAAGAGCACACGTCTGAACTCCAGTCACTCCTGAGCATCTCGTAT 29 0.7250000000000001 TruSeq Adapter, Index 6 (97% over 36bp) ACGCGACCTTGACTATCAACTACAGATTGGTTGAAATTGAATCCATTTAG 27 0.675 No Hit CTCTGCCTGGAATACAATCATAAAGTTGAAAGTACCAGATATTCCTAAAG 27 0.675 No Hit CGCAGAAGTAGGAATAATAGCACCAGAGATAATATTGTTTCCATAAAGTA 26 0.65 No Hit CGCGACCTTGACTATCAACTACAGATTGGTTGAAATTGAATCCATTTAGG 26 0.65 No Hit GTCAATAAGGTAGGGATCATCAAAACACCGAACCATCCGATGTAAAGACG 26 0.65 No Hit GGTCAATAAGGTAGGGATCATCAAAACACCGAACCATCCGATGTAAAGAC 23 0.575 No Hit CAATAAGGTAGGGATCATCAAAACACCGAACCATCCGATGTAAAGACGAT 22 0.5499999999999999 No Hit TTGTGCTCTGCCTGGAATACAATCATAAAGTTGAAAGTACCAGATATTCC 22 0.5499999999999999 No Hit CGGTCAATAAGGTAGGGATCATCAAAACACCGAACCATCCGATGTAAAGA 22 0.5499999999999999 No Hit GGCGATAATAAATACAGAAGTTGCGGTCAATAAGGTAGGGATCATCAAAA 20 0.5 No Hit CCAAGTATTAATAACGCGACCTTGACTATCAACTACAGATTGGTTGAAAT 20 0.5 No Hit GCCAAAATAACCATGAGCAGCCACAATATTATAAGTCTCTTCCTCTTGAC 20 0.5 No Hit CTCATTAGCAGATTCATTTTCAGTAGTTTCCCTGATCAAACTAGAGGTTA 20 0.5 No Hit CGGAAAAACCTTATCCATTAATAGCGGGAACTTCAAGAGCAGCTAGATCT 19 0.475 No Hit CTCGCGAATACCATCAATATCTACTGGAGGGGCTGCGATGAAGGCGATAA 19 0.475 No Hit TGTGCTCTGCCTGGAATACAATCATAAAGTTGAAAGTACCAGATATTCCT 16 0.4 No Hit CTGCCTGGAATACAATCATAAAGTTGAAAGTACCAGATATTCCTAAAGGC 16 0.4 No Hit GGAAAAACCTTATCCATTAATAGCGGGAACTTCAAGAGCAGCTAGATCTA 14 0.35000000000000003 No Hit ATGAAGGCGATAATAAATACAGAAGTTGCGGTCAATAAGGTAGGGATCAT 14 0.35000000000000003 No Hit CTTTTCTTCAAAAATTCTTATATGTTAGCGGAAAAACCTTATCCATTAAT 13 0.325 No Hit CCCAAGTATTAATAACGCGACCTTGACTATCAACTACAGATTGGTTGAAA 13 0.325 No Hit GGAGGGGCTGCGATGAAGGCGATAATAAATACAGAAGTTGCGGTCAATAA 12 0.3 No Hit CCACCATTGTATAACCATTCATCAACGGATGCAGCTTCCCAAATTGGGTA 12 0.3 No Hit GCGAATACCATCAATATCTACTGGAGGGGCTGCGATGAAGGCGATAATAA 12 0.3 No Hit GGAACTTCAAGAGCAGCTAGATCTAGAGGGAAGTTGTGAGCATTACGTTC 12 0.3 No Hit GGGGCTGCGATGAAGGCGATAATAAATACAGAAGTTGCGGTCAATAAGGT 12 0.3 No Hit AGGGGCTGCGATGAAGGCGATAATAAATACAGAAGTTGCGGTCAATAAGG 12 0.3 No Hit GGCCAAAATAACCATGAGCAGCCACAATATTATAAGTCTCTTCCTCTTGA 11 0.27499999999999997 No Hit GCCGAAAACACCAGCTACACCTAACATGTGAAATGGATGCATAAGGATGT 11 0.27499999999999997 No Hit CCACAATATTATAAGTCTCTTCCTCTTGACCAAATTTGTAACCCTCATTA 11 0.27499999999999997 No Hit GCGGAAAAACCTTATCCATTAATAGCGGGAACTTCAAGAGCAGCTAGATC 11 0.27499999999999997 No Hit GCTGCGATGAAGGCGATAATAAATACAGAAGTTGCGGTCAATAAGGTAGG 10 0.25 No Hit CGCTGGAGTAGGCTGCGAGGCCCAAGCGGCCAAGGAGTGCAGCGGCCCGT 10 0.25 No Hit CACCATTGTATAACCATTCATCAACGGATGCAGCTTCCCAAATTGGGTAA 10 0.25 No Hit AATAAGGTAGGGATCATCAAAACACCGAACCATCCGATGTAAAGACGATT 9 0.22499999999999998 No Hit CGCGAATACCATCAATATCTACTGGAGGGGCTGCGATGAAGGCGATAATA 9 0.22499999999999998 No Hit CGCCATAGTACTAATACCTAAAGCAGTGAACCAGATTCCTACTACAGGCC 9 0.22499999999999998 No Hit GCGATAATAAATACAGAAGTTGCGGTCAATAAGGTAGGGATCATCAAAAC 9 0.22499999999999998 No Hit TTCAAGAGCAGCTAGATCTAGAGGGAAGTTGTGAGCATTACGTTCGTGCA 9 0.22499999999999998 No Hit ATTACGTTCGTGCATTACTTCCATACCAAGATTAGCACGGTTGATGATAT 9 0.22499999999999998 No Hit CCGGGGTGTAGTAAGTCAATCTATAATCTTTAACACCAGCTTTAAATCCA 9 0.22499999999999998 No Hit GCTCTGCCTGGAATACAATCATAAAGTTGAAAGTACCAGATATTCCTAAA 9 0.22499999999999998 No Hit TGATGATATCAGCCCAAGTATTAATAACGCGACCTTGACTATCAACTACA 8 0.2 No Hit GCGCGACCTTGACTATCAACTACAGATTGGTTGAAATTGAATCCATTTAG 8 0.2 No Hit ATAAGGTAGGGATCATCAAAACACCGAACCATCCGATGTAAAGACGATTT 8 0.2 No Hit GTTGATGATATCAGCCCAAGTATTAATAACGCGACCTTGACTATCAACTA 8 0.2 No Hit ATAATAAATACAGAAGTTGCGGTCAATAAGGTAGGGATCATCAAAACACC 8 0.2 No Hit CACGGTTGATGATATCAGCCCAAGTATTAATAACGCGACCTTGACTATCA 8 0.2 No Hit CTCTTGACCAAATTTGTAACCCTCATTAGCAGATTCATTTTCAGTAGTTT 8 0.2 No Hit GTTGAAACTAGCATATTGGAAGATTAATCGGCCAAAATAACCATGAGCAG 8 0.2 No Hit CTTCCTCTTGACCAAATTTGTAACCCTCATTAGCAGATTCATTTTCAGTA 7 0.17500000000000002 No Hit GGATCATCAAAACACCGAACCATCCGATGTAAAGACGATTTTCAGTGCTA 7 0.17500000000000002 No Hit CCGAAAACACCAGCTACACCTAACATGTGAAATGGATGCATAAGGATGTT 7 0.17500000000000002 No Hit GTAGGGATCATCAAAACACCGAACCATCCGATGTAAAGACGATTTTCAGT 7 0.17500000000000002 No Hit AATAAATACAGAAGTTGCGGTCAATAAGGTAGGGATCATCAAAACACCGA 7 0.17500000000000002 No Hit CTGGAGTAGGCTGCGAGGCCCAAGCGGCCAAGGAGTGCAGCGGCCCGTTA 6 0.15 No Hit TAAGGTAGGGATCATCAAAACACCGAACCATCCGATGTAAAGACGATTTT 6 0.15 No Hit TTTCTTTTCTTCAAAAATTCTTATATGTTAGCGGAAAAACCTTATCCATT 6 0.15 No Hit TGCGGGAACTTCAAGAGCAGCTAGATCTAGAGGGAAGTTGTGAGCATTAC 6 0.15 No Hit CGTCTCTCTAAAATTGCAGTCATGGTAAGATCTTGGTTTATTCAAATTGC 6 0.15 No Hit GGGATCATCAAAACACCGAACCATCCGATGTAAAGACGATTTTCAGTGCT 6 0.15 No Hit TGCGGTCAATAAGGTAGGGATCATCAAAACACCGAACCATCCGATGTAAA 6 0.15 No Hit CGCAGCTGCAACAGGAGCTGAATATGCAACAGCAATCCAAGGGCGCATAC 6 0.15 No Hit CTTTCTTTTCTTCAAAAATTCTTATATGTTAGCGGAAAAACCTTATCCAT 6 0.15 No Hit AGCAGCCACAATATTATAAGTCTCTTCCTCTTGACCAAATTTGTAACCCT 6 0.15 No Hit TGCTCTGCCTGGAATACAATCATAAAGTTGAAAGTACCAGATATTCCTAA 5 0.125 No Hit CGCGGGAACTTCAAGAGCAGCTAGATCTAGAGGGAAGTTGTGAGCATTAC 5 0.125 No Hit CTGCCATCCACGCACGAATACCCTCGTTTAAAAGAATATTTTTGGTGTAG 5 0.125 No Hit GGCGCATACCCAAACGGAAACTAAGTTCCCACTCACGACCCATATAACAA 5 0.125 No Hit TGTTGTGCTCTGCCTGGAATACAATCATAAAGTTGAAAGTACCAGATATT 5 0.125 No Hit CAAGTATTAATAACGCGACCTTGACTATCAACTACAGATTGGTTGAAATT 5 0.125 No Hit CGAAAACACCAGCTACACCTAACATGTGAAATGGATGCATAAGGATGTTG 5 0.125 No Hit TGGAGGGGCTGCGATGAAGGCGATAATAAATACAGAAGTTGCGGTCAATA 5 0.125 No Hit GTGAGCATTACGTTCGTGCATTACTTCCATACCAAGATTAGCACGGTTGA 5 0.125 No Hit TCAATAAGGTAGGGATCATCAAAACACCGAACCATCCGATGTAAAGACGA 5 0.125 No Hit GGGCTGCGATGAAGGCGATAATAAATACAGAAGTTGCGGTCAATAAGGTA 5 0.125 No Hit ACCAAATTGTAATACAGAATCATCCCCAAAGATTTCGGTCAGAGCTGGCA 5 0.125 No Hit TTTTCTTCAAAAATTCTTATATGTTAGCGGAAAAACCTTATCCATTAATA 5 0.125 No Hit CGCATACCCAAACGGAAACTAAGTTCCCACTCACGACCCATATAACAAGC 5 0.125 No Hit AGCGGGAACTTCAAGAGCAGCTAGATCTAGAGGGAAGTTGTGAGCATTAC 5 0.125 No Hit ATGATATCAGCCCAAGTATTAATAACGCGACCTTGACTATCAACTACAGA 5 0.125 No Hit GTGCCTGCCAACATTATGGGCCGCGAAGCCTAGCTTTCGCTTAAGCTCCA 5 0.125 No Hit CCTGGAATACAATCATAAAGTTGAAAGTACCAGATATTCCTAAAGGCATA 5 0.125 No Hit TAAAGAACGAGAGTTGTTGAAACTAGCATATTGGAAGATTAATCGGCCAA 5 0.125 No Hit >>END_MODULE >>Adapter Content pass #Position Illumina Universal Adapter Illumina Small RNA 3' Adapter Illumina Small RNA 5' Adapter Nextera Transposase Sequence SOLID Small RNA Adapter 1 0.0 0.0 0.0 0.0 0.0 2 0.0 0.0 0.0 0.0 0.0 3 0.0 0.0 0.0 0.0 0.0 4 0.0 0.0 0.0 0.0 0.0 5 0.0 0.0 0.0 0.0 0.0 6 0.0 0.0 0.0 0.0 0.0 7 0.0 0.0 0.0 0.0 0.0 8 0.0 0.0 0.0 0.0 0.0 9 0.0 0.0 0.0 0.0 0.0 10 0.0 0.0 0.0 0.0 0.0 11 0.0 0.0 0.0 0.0 0.0 12 0.0 0.0 0.0 0.0 0.0 13 0.0 0.0 0.0 0.0 0.0 14 0.0 0.0 0.0 0.0 0.0 15 0.0 0.0 0.0 0.0 0.0 16 0.0 0.0 0.0 0.0 0.0 17 0.0 0.0 0.0 0.0 0.0 18 0.0 0.0 0.0 0.0 0.0 19 0.0 0.0 0.0 0.0 0.0 20 0.0 0.0 0.0 0.0 0.0 21 0.0 0.0 0.0 0.0 0.0 22 0.0 0.0 0.0 0.0 0.0 23 0.0 0.0 0.0 0.0 0.0 24 0.0 0.0 0.0 0.0 0.0 25 0.0 0.0 0.0 0.0 0.0 26 0.0 0.0 0.0 0.0 0.0 27 0.0 0.0 0.0 0.0 0.0 28 0.0 0.0 0.0 0.0 0.0 29 0.0 0.0 0.0 0.0 0.0 30 0.0 0.0 0.0 0.0 0.0 31 0.0 0.0 0.0 0.0 0.0 32 0.0 0.0 0.0 0.0 0.0 33 0.0 0.0 0.0 0.0 0.0 34 0.0 0.0 0.0 0.0 0.0 35 0.0 0.0 0.0 0.0 0.0 36 0.0 0.0 0.0 0.0 0.0 37 0.0 0.0 0.0 0.0 0.0 38 0.0 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Read 940386 spots for SRR1772226.sra Written 940386 spots for SRR1772226.sra Read 940386 spots for SRR1772226.sra Written 940386 spots for SRR1772226.sra Read 940386 spots for SRR1772226.sra Written 940386 spots for SRR1772226.sra Read 940386 spots for SRR1772226.sra Written 940386 spots for SRR1772226.sra Read 940386 spots for SRR1772226.sra Written 940386 spots for SRR1772226.sra Read 940386 spots for SRR1772226.sra Written 940386 spots for SRR1772226.sra Read 940386 spots for SRR1772226.sra Written 940386 spots for SRR1772226.sra Read 940386 spots for SRR1772226.sra Written 940386 spots for SRR1772226.sra Read 940386 spots for SRR1772226.sra Written 940386 spots for SRR1772226.sra Read 940386 spots for SRR1772226.sra Written 940386 spots for SRR1772226.sra Read 940386 spots for SRR1772226.sra Written 940386 spots for SRR1772226.sra Read 940386 spots for SRR1772226.sra Written 940386 spots for SRR1772226.sra Read 940386 spots for SRR1772226.sra Written 940386 spots for SRR1772226.sra Read 940386 spots for SRR1772226.sra Written 940386 spots for SRR1772226.sra Read 940386 spots for SRR1772226.sra Written 940386 spots for SRR1772226.sra Read 940386 spots for SRR1772226.sra Written 940386 spots for SRR1772226.sra Read 940386 spots for SRR1772226.sra Written 940386 spots for SRR1772226.sra Read 940386 spots for SRR1772226.sra Written 940386 spots for SRR1772226.sra Read 940386 spots for SRR1772226.sra Written 940386 spots for SRR1772226.sra Read 940402 spots for SRR1772226.sra Written 940402 spots for SRR1772226.sra SRR ids: ['SRR1772226.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_lff_n6uo SRR1772226.sra spots: 18807736 blocks: [[1, 940386], [940387, 1880772], [1880773, 2821158], [2821159, 3761544], [3761545, 4701930], [4701931, 5642316], [5642317, 6582702], [6582703, 7523088], [7523089, 8463474], [8463475, 9403860], [9403861, 10344246], [10344247, 11284632], [11284633, 12225018], [12225019, 13165404], [13165405, 14105790], [14105791, 15046176], [15046177, 15986562], [15986563, 16926948], [16926949, 17867334], [17867335, 18807736]] SRR1772226 file size 3248862 SRR1772226 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 SRR1772226 SRR1772226_1.fastq Input file: SRR1772226_1.fastq trimmed: SRR1772226-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 19:20:25 2024 >> started Sat Dec 7 19:20:37 2024 >> done (12.087s) 18807736 reads processed; of these: 2172 ( 0.01%) short reads filtered out after trimming by size control 123101 ( 0.65%) empty reads filtered out after trimming by size control 18682463 (99.33%) reads available; of these: 864849 ( 4.63%) trimmed reads available after processing 17817614 (95.37%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 1255 0.01% 19 1691 0.01% 20 4098 0.02% 21 4385 0.02% 22 5229 0.03% 23 4649 0.02% 24 7186 0.04% 25 8014 0.04% 26 7174 0.04% 27 10320 0.06% 28 11092 0.06% 29 17917 0.10% 30 14498 0.08% 31 16332 0.09% 32 19715 0.11% 33 12138 0.06% 34 12667 0.07% 35 16043 0.09% 36 15425 0.08% 37 21848 0.12% 38 17152 0.09% 39 19789 0.11% 40 33756 0.18% 41 28169 0.15% 42 55731 0.30% 43 47749 0.26% 44 60477 0.32% 45 59970 0.32% 46 69033 0.37% 47 84495 0.45% 48 92435 0.49% 49 84417 0.45% 50 17817614 95.37% 18682463 reads passed initial QC criterion=sequence-density sequence-density=0.21 sequence-density-rank=1 fanout-score=0.00 fanout-score-rank=18 prefix-density=0.00 prefix-fanout=1.0 sequence=TGCGGGAACTTC criterion=fanout-score sequence-density=0.01 sequence-density-rank=36 fanout-score=26.63 fanout-score-rank=1 prefix-density=0.17 prefix-fanout=1.0 sequence=GGAGGATTCATTAAATTGTGAAACGTTGCCCTGCCATAATGTGATATGTTTCCAATGCCAATAAAAAGTAACCCATCCAATAGTATTTAACATCCAGAAAACTGCCAAATAAAACGCGTCCCAA Started job on | Dec 07 19:20:50 Started mapping on | Dec 07 19:20:50 Finished on | Dec 07 19:21:05 Mapping speed, Million of reads per hour | 4483.79 Number of input reads | 18682463 Average input read length | 49 UNIQUE READS: Uniquely mapped reads number | 4223737 Uniquely mapped reads % | 22.61% Average mapped length | 49.45 Number of splices: Total | 260487 Number of splices: Annotated (sjdb) | 246225 Number of splices: GT/AG | 255364 Number of splices: GC/AG | 3173 Number of splices: AT/AC | 128 Number of splices: Non-canonical | 1822 Mismatch rate per base, % | 0.25% Deletion rate per base | 0.01% Deletion average length | 1.40 Insertion rate per base | 0.01% Insertion average length | 1.39 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 14186374 % of reads mapped to multiple loci | 75.93% Number of reads mapped to too many loci | 39898 % of reads mapped to too many loci | 0.21% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.24% % of reads unmapped: other | 0.01% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 272352 272352 272352 N_multimapping 14186374 14186374 14186374 N_noFeature 1020063 4105054 1079208 N_ambiguous 94016 1047 34079 UnstrandedReadsAssigned:3109658 PositiveStrandReadsAssigned:117636 NegativeStrandReadsAssigned:3110450 Dataset is classified negative stranded MeadianReadLen=50 20thPercentileLength=50 echo kmer=45 SRR1772226 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: SRR1772226-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 18,682,463 reads, 15,643,593 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,007 rounds 52973 SRR1772226.ke.tsv 35125 SRR1772226.se.tsv 88098 total ==> SRR1772226.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 837 0 0 PNS24247 1044 945 4.84462 0.366973 PNS24249 1928 1829 32.4661 1.27064 PNS24246 1044 945 4.84462 0.366973 PNS24248 1044 945 4.84462 0.366973 PNS24244 1471 1372 0 0 PNS24243 293 194 0 0 KQK14069 1603 1504 82.6863 3.93543 KQK14071 474 375 30.9954 5.9166 ==> SRR1772226.se.tsv <== BRADI_1g14170v3 231 BRADI_1g53295v3 3 BRADI_1g59795v3 26 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 7 BRADI_1g74790v3 10 BRADI_1g09890v3 0 BRADI_1g77505v3 16 BRADI_1g48960v3 0 SRR1772226 completed mapping pipeline successfully