Starting /dee2/code/volunteer_pipeline.sh SRR5578506 current disk space = 1521951076352 free memory = 1573120520 SRR5578506 SRAfilesize 3b6742562bf27296ef744ad7c259e651 SRR5578506.sra SRR5578506.sra file validated SRR5578506 is paired end SRR5578506 is conventional basespace SRR5578506 read1 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5578506_1.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 151 %GC 46 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 32.97125 34.0 34.0 34.0 33.0 34.0 2 33.4985 34.0 34.0 34.0 33.0 34.0 3 33.56025 34.0 34.0 34.0 33.0 34.0 4 33.554 34.0 34.0 34.0 33.0 34.0 5 33.57975 34.0 34.0 34.0 33.0 34.0 6 37.23175 38.0 38.0 38.0 36.0 38.0 7 37.37925 38.0 38.0 38.0 37.0 38.0 8 37.487 38.0 38.0 38.0 38.0 38.0 9 37.6075 38.0 38.0 38.0 38.0 38.0 10-14 37.5865 38.0 38.0 38.0 38.0 38.0 15-19 37.5781 38.0 38.0 38.0 38.0 38.0 20-24 37.55985 38.0 38.0 38.0 38.0 38.0 25-29 37.525299999999994 38.0 38.0 38.0 38.0 38.0 30-34 37.44815 38.0 38.0 38.0 38.0 38.0 35-39 37.3542 38.0 38.0 38.0 37.8 38.0 40-44 37.1846 38.0 38.0 38.0 37.0 38.0 45-49 37.2548 38.0 38.0 38.0 37.0 38.0 50-54 37.207499999999996 38.0 38.0 38.0 37.0 38.0 55-59 37.20315000000001 38.0 38.0 38.0 37.0 38.0 60-64 37.14265 38.0 38.0 38.0 37.0 38.0 65-69 37.06305 38.0 38.0 38.0 36.4 38.0 70-74 36.945299999999996 38.0 38.0 38.0 36.0 38.0 75-79 36.410450000000004 38.0 38.0 38.0 35.6 38.0 80-84 36.3023 38.0 38.0 38.0 35.0 38.0 85-89 36.18730000000001 38.0 38.0 38.0 34.6 38.0 90-94 36.07430000000001 38.0 38.0 38.0 34.4 38.0 95-99 35.98565 38.0 38.0 38.0 34.0 38.0 100-104 35.9013 38.0 38.0 38.0 34.0 38.0 105-109 35.79515 38.0 38.0 38.0 33.4 38.0 110-114 35.64730000000001 38.0 38.0 38.0 33.0 38.0 115-119 35.453700000000005 38.0 38.0 38.0 32.8 38.0 120-124 35.469049999999996 38.0 38.0 38.0 32.8 38.0 125-129 35.2073 38.0 36.4 38.0 31.2 38.0 130-134 34.856199999999994 38.0 36.0 38.0 28.8 38.0 135-139 34.64535 38.0 35.8 38.0 28.0 38.0 140-144 34.28135 38.0 35.2 38.0 25.6 38.0 145-149 33.665549999999996 38.0 35.0 38.0 21.0 38.0 150-151 30.237875000000003 36.5 29.0 38.0 7.5 38.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 6 1.0 7 3.0 8 2.0 9 0.0 10 5.0 11 0.0 12 4.0 13 5.0 14 6.0 15 5.0 16 6.0 17 4.0 18 24.0 19 41.0 20 8.0 21 3.0 22 5.0 23 3.0 24 15.0 25 12.0 26 12.0 27 18.0 28 22.0 29 25.0 30 35.0 31 37.0 32 41.0 33 54.0 34 80.0 35 176.0 36 521.0 37 2827.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 48.24159021406727 12.257900101936798 11.18756371049949 28.312945973496433 2 26.825 14.95 29.375 28.849999999999998 3 22.2 20.424999999999997 26.474999999999998 30.9 4 25.95 24.975 24.45 24.625 5 24.575 30.225 26.3 18.9 6 22.425 30.925000000000004 28.325 18.325 7 15.15 26.200000000000003 41.55 17.1 8 19.15 26.474999999999998 31.900000000000002 22.475 9 18.975 23.474999999999998 35.55 22.0 10-14 22.795 27.855 26.915 22.435 15-19 22.415 27.02 27.465 23.1 20-24 22.15 26.325 28.365000000000002 23.16 25-29 21.240000000000002 27.38 28.915000000000003 22.465 30-34 21.14605730286514 28.581429071453574 26.86134306715336 23.411170558527928 35-39 21.76108805440272 28.0114005700285 26.79133956697835 23.43617180859043 40-44 23.196159807990398 27.11135556777839 26.17130856542827 23.52117605880294 45-49 23.49 26.945000000000004 27.725 21.84 50-54 23.974999999999998 26.525 26.435 23.064999999999998 55-59 22.205 26.334999999999997 28.110000000000003 23.35 60-64 21.625 27.584999999999997 27.305 23.485 65-69 21.115000000000002 29.175 26.375 23.335 70-74 22.35 28.21 26.025 23.415 75-79 21.990000000000002 27.395000000000003 26.61 24.005000000000003 80-84 23.04 26.935 26.340000000000003 23.685000000000002 85-89 23.82 26.52 26.169999999999998 23.49 90-94 23.18 27.229999999999997 26.419999999999998 23.169999999999998 95-99 22.43 26.55 26.584999999999997 24.435000000000002 100-104 22.650000000000002 28.16 25.814999999999998 23.375 105-109 22.405 28.03 26.51 23.055 110-114 21.529999999999998 27.575 25.505 25.39 115-119 21.709999999999997 27.689999999999998 26.150000000000002 24.45 120-124 23.43351502725409 27.519127869180377 24.663699554933242 24.383657548632296 125-129 22.279481663081 28.993845999899936 24.89117926652324 23.835493070495822 130-134 22.54901960784314 28.16126450580232 24.99499799919968 24.294717887154864 135-139 22.23611180559028 28.95644782239112 25.711285564278214 23.096154807740387 140-144 22.615 28.335 24.89 24.16 145-149 21.884999999999998 28.415000000000003 24.43 25.27 150-151 22.512826930296583 28.119134025779 24.389938681016144 24.978100362908272 >>END_MODULE >>Per sequence GC content warn #GC Content Count 0 1.0 1 0.5 2 0.0 3 0.5 4 0.5 5 0.5 6 0.5 7 0.5 8 0.5 9 0.5 10 1.0 11 1.5 12 1.0 13 1.0 14 1.5 15 1.0 16 1.0 17 0.5 18 0.5 19 0.5 20 1.0 21 1.0 22 0.0 23 0.5 24 2.5 25 2.0 26 2.0 27 3.5 28 5.0 29 18.5 30 26.0 31 38.5 32 60.0 33 68.5 34 80.0 35 96.0 36 123.0 37 159.5 38 167.0 39 136.5 40 133.5 41 145.5 42 142.5 43 131.0 44 139.0 45 159.5 46 168.0 47 173.5 48 180.5 49 175.5 50 160.5 51 159.5 52 152.0 53 148.5 54 135.5 55 113.0 56 88.0 57 65.5 58 58.5 59 54.5 60 42.0 61 34.0 62 31.0 63 33.0 64 32.0 65 24.0 66 21.0 67 17.0 68 12.0 69 9.5 70 10.5 71 9.5 72 6.5 73 4.0 74 4.0 75 4.0 76 5.0 77 5.0 78 2.0 79 0.5 80 2.0 81 1.5 82 0.0 83 0.5 84 0.5 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 1.9 2 0.0 3 0.0 4 0.0 5 0.0 6 0.0 7 0.0 8 0.0 9 0.0 10-14 0.0 15-19 0.0 20-24 0.0 25-29 0.0 30-34 0.005 35-39 0.005 40-44 0.005 45-49 0.0 50-54 0.0 55-59 0.0 60-64 0.0 65-69 0.0 70-74 0.0 75-79 0.0 80-84 0.0 85-89 0.0 90-94 0.0 95-99 0.0 100-104 0.0 105-109 0.0 110-114 0.0 115-119 0.0 120-124 0.015 125-129 0.065 130-134 0.04 135-139 0.005 140-144 0.0 145-149 0.0 150-151 0.11249999999999999 >>END_MODULE >>Sequence Length Distribution pass #Length Count 151 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 79.025 #Duplication Level Percentage of deduplicated Percentage of total 1 88.01012337867763 69.55 2 7.086365074343562 11.200000000000001 3 2.404302435937994 5.7 4 0.9807023093957609 3.1 5 0.5694400506168934 2.25 6 0.2847200253084467 1.35 7 0.15817779183802594 0.8750000000000001 8 0.06327111673521038 0.4 9 0.09490667510281556 0.675 >10 0.3163555836760519 3.4250000000000003 >50 0.03163555836760519 1.4749999999999999 >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 fail #Sequence Count Percentage Possible Source GATCGGAAGAGCACACGTCTGAACTCCAGTCACACAAACATCTCGTATGC 59 1.4749999999999999 TruSeq Adapter, Index 5 (97% over 36bp) GCCTCACTTAGTTACAGTTTTATGGATAATTGGGATATTCTTTGGTATAG 20 0.5 No Hit GCCTTATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGA 18 0.44999999999999996 No Hit GGAAGCTATACTATATAGGTGGCTATCTATCCCTACCAAGGCTTATATTG 18 0.44999999999999996 No Hit GGGATATTCTTTGGTATAGTTGGGATTTTAATATCATTAATAGCATGATG 14 0.35000000000000003 No Hit CTTATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGT 13 0.325 No Hit GGGAAGCTATACTATATAGGTGGCTATCTATCCCTACCAAGGCTTATATT 12 0.3 No Hit CCCATTTTTAGTTATAATGATGCCTTATGTGATAGATGCCTCTTTAAAAT 11 0.27499999999999997 No Hit GTGGCTATCTATCCCTACCAAGGCTTATATTGAAGTATAAACCAATGAGA 11 0.27499999999999997 No Hit GGCAGTTTCCAGAAACGTGTATCACATCTAGGCATGGAATCTTATGCCAG 10 0.25 No Hit GGATATTCTTTGGTATAGTTGGGATTTTAATATCATTAATAGCATGATGG 10 0.25 No Hit GTAGTTTATAAGGAATATATCCCATTTTTAGTTATAATGATGCCTTATGT 9 0.22499999999999998 No Hit GGATAATTGGGATATTCTTTGGTATAGTTGGGATTTTAATATCATTAATA 9 0.22499999999999998 No Hit GCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGTAGGGATGAGCATAA 9 0.22499999999999998 No Hit ATTCTGTATAAGGTGATCGCAGGTTGTGCAATCATTGCTCAAAAGGGTGT 8 0.2 No Hit CGCTATTAAAACCTTGAAAAGTATATTCAATATCCCTGTGGGATATTCTG 8 0.2 No Hit GTTGATTTCATGAATGCGATTTCTGATATGGCGGCGGTCGGTTTCCAGTT 7 0.17500000000000002 No Hit GCAGTAGTTTATAAGGAATATATCCCATTTTTAGTTATAATGATGCCTTA 7 0.17500000000000002 No Hit GGGGATAATTGCGCGGTTTTGACTGCGGAAGGAAGCCAAGGCCCACCTAA 7 0.17500000000000002 No Hit GGGGTTATGAGTAGGGATGAGCATAAACCAACAACTCTCAAAGAAGATGG 7 0.17500000000000002 No Hit CTTTGATATTCTCTGCATCCTATTTAGGGCTATTGATATTTAACAAATAT 7 0.17500000000000002 No Hit GCTGGGGTTATGAGTAGGGATGAGCATAAACCAACAACTCTCAAAGAAGA 6 0.15 No Hit CCAGGAGATGTTGGAACTCTACCAATTGGAGCTTTCTTAGCTGTCTTAGC 6 0.15 No Hit GTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGTAGGGA 6 0.15 No Hit GATGCCTTATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTA 6 0.15 No Hit GCCCGTTTCAGGTGGTCCTCAGCGTACGGCGGGACCTCTGAGAATTGGGA 6 0.15 No Hit GTCGGAAGATCCTGAATAAATCCTACTGTATCTGAAAGAAGAACACTGTA 6 0.15 No Hit GTTATGAGTAGGGATGAGCATAAACCAACAACTCTCAAAGAAGATGGGAA 6 0.15 No Hit GCAGTTTCCAGAAACGTGTATCACATCTAGGCATGGAATCTTATGCCAGC 6 0.15 No Hit GCCATTCGGACCTACCGTAAGCCTATATTTCGTTTTTCTGAGACCTATCC 6 0.15 No Hit GCCCATAACAATAGGAAATATCAGAAATCCAATAAGAATCAGCAATTCAG 5 0.125 No Hit GTGCGGTCAATCATCTTCACTTCAATTGCTGTTGCCAATGACTTCAGCTG 5 0.125 No Hit GGAATATATCCCATTTTTAGTTATAATGATGCCTTATGTGATAGATGCCT 5 0.125 No Hit ATCGGAAGAGCACACGTCTGAACTCCAGTCACACAAACATCTCGTATGCC 5 0.125 TruSeq Adapter, Index 5 (97% over 35bp) CCTCACTTAGTTACAGTTTTATGGATAATTGGGATATTCTTTGGTATAGT 5 0.125 No Hit GTCGCAAAAAACCAGCAAAAATTCTTAACATTATTTTTAGAAATCCCATA 5 0.125 No Hit GGGTTATGAGTAGGGATGAGCATAAACCAACAACTCTCAAAGAAGATGGG 5 0.125 No Hit GCTATTGATATTTAACAAATATCCAGCAAAGGTTTTTCCAGGAGATGTTG 5 0.125 No Hit GGCTATCTATCCCTACCAAGGCTTATATTGAAGTATAAACCAATGAGAGA 5 0.125 No Hit CCCTTATGAAGATGTCAATTTAAACGCTATTAAAACCTTGAAAAGTATAT 5 0.125 No Hit ATCCTATTTAGGGCTATTGATATTTAACAAATATCCAGCAAAGGTTTTTC 5 0.125 No Hit CTTTGGTATAGTTGGGATTTTAATATCATTAATAGCATGATGGTGATTGT 5 0.125 No Hit GGTCAATCATCTTCACTTCAATTGCTGTTGCCAATGACTTCAGCTGACTT 5 0.125 No Hit GGCTAAGATTGCAGCTACAGAGGCAACAGGTTTTGGTTGTTCAGTTATAA 5 0.125 No Hit GTCGAGACTGAAAAGCTATAACCCGCAGACCCGAGCGAAAGCGGCGGTCC 5 0.125 No Hit GGGATGAGCATAAACCAACAACTCTCAAAGAAGATGGGAAGCTATACTAT 5 0.125 No Hit GGCCCACCTAAAGTATGCTGCAAACATATGCAGATCCCCTGAGACAGAGT 5 0.125 No Hit GTTTTATGGATAATTGGGATATTCTTTGGTATAGTTGGGATTTTAATATC 5 0.125 No Hit >>END_MODULE >>Adapter Content fail #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 0.0125 0.0 0.0 0.0 0.0 64-65 0.037500000000000006 0.0 0.0 0.0 0.0 66-67 0.05 0.0 0.0 0.0 0.0 68-69 0.05 0.0 0.0 0.0 0.0 70-71 0.0875 0.0 0.0 0.0 0.0 72-73 0.1125 0.0 0.0 0.0 0.0 74-75 0.21250000000000002 0.0 0.0 0.0 0.0 76-77 0.2625 0.0 0.0 0.0 0.0 78-79 0.3 0.0 0.0 0.0 0.0 80-81 0.44999999999999996 0.0 0.0 0.0 0.0 82-83 0.5875 0.0 0.0 0.0 0.0 84-85 0.675 0.0 0.0 0.0 0.0 86-87 0.8 0.0 0.0 0.0 0.0 88-89 0.875 0.0 0.0 0.0 0.0 90-91 1.1875 0.0 0.0 0.0 0.0 92-93 1.5 0.0 0.0 0.0 0.0 94-95 1.8625 0.0 0.0 0.0 0.0 96-97 2.275 0.0 0.0 0.0 0.0 98-99 2.6375 0.0 0.0 0.0 0.0 100-101 3.05 0.0 0.0 0.0 0.0 102-103 3.4875 0.0 0.0 0.0 0.0 104-105 3.9000000000000004 0.0 0.0 0.0 0.0 106-107 4.3625 0.0 0.0 0.0 0.0 108-109 4.7875 0.0 0.0 0.0 0.0 110-111 5.2375 0.0 0.0 0.0 0.0 112-113 5.675000000000001 0.0 0.0 0.0 0.0 114-115 6.3125 0.0 0.0 0.0 0.0 116-117 6.9875 0.0 0.0 0.0 0.0 118-119 7.7125 0.0 0.0 0.0 0.0 120-121 8.337499999999999 0.0 0.0 0.0 0.0 122-123 8.8 0.0 0.0 0.0 0.0 124-125 9.625 0.0 0.0 0.0 0.0 126-127 10.55 0.0 0.0 0.0 0.0 128-129 11.287500000000001 0.0 0.0 0.0 0.0 130-131 12.025 0.0 0.0 0.0 0.0 132-133 12.925 0.0 0.0 0.0 0.0 134-135 13.8375 0.0 0.0 0.0 0.0 136-137 14.6625 0.0 0.0 0.0 0.0 138-139 15.375 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE SRR5578506 read2 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5578506_2.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 151 %GC 46 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 33.00875 33.0 33.0 34.0 32.0 34.0 2 33.07525 34.0 33.0 34.0 32.0 34.0 3 33.03775 34.0 33.0 34.0 33.0 34.0 4 32.92375 34.0 33.0 34.0 33.0 34.0 5 33.0285 34.0 33.0 34.0 33.0 34.0 6 37.1145 38.0 38.0 38.0 37.0 38.0 7 37.0955 38.0 38.0 38.0 37.0 38.0 8 37.1085 38.0 38.0 38.0 37.0 38.0 9 37.0915 38.0 38.0 38.0 37.0 38.0 10-14 37.119350000000004 38.0 38.0 38.0 37.0 38.0 15-19 37.111799999999995 38.0 38.0 38.0 37.2 38.0 20-24 37.084450000000004 38.0 38.0 38.0 37.0 38.0 25-29 37.06095 38.0 38.0 38.0 37.0 38.0 30-34 37.02055 38.0 38.0 38.0 37.0 38.0 35-39 37.018449999999994 38.0 38.0 38.0 37.0 38.0 40-44 37.055550000000004 38.0 38.0 38.0 37.0 38.0 45-49 36.915350000000004 38.0 38.0 38.0 37.0 38.0 50-54 36.87425 38.0 38.0 38.0 36.6 38.0 55-59 36.93480000000001 38.0 38.0 38.0 37.0 38.0 60-64 36.871849999999995 38.0 38.0 38.0 36.6 38.0 65-69 36.66875 38.0 38.0 38.0 36.4 38.0 70-74 36.1873 38.0 38.0 38.0 35.4 38.0 75-79 36.1166 38.0 38.0 38.0 35.0 38.0 80-84 36.07655 38.0 38.0 38.0 34.8 38.0 85-89 35.8497 38.0 38.0 38.0 34.0 38.0 90-94 35.8172 38.0 38.0 38.0 34.0 38.0 95-99 35.66825 38.0 38.0 38.0 33.6 38.0 100-104 35.45065 38.0 38.0 38.0 32.8 38.0 105-109 35.271699999999996 38.0 38.0 38.0 32.0 38.0 110-114 35.10575 38.0 37.8 38.0 30.6 38.0 115-119 34.87669999999999 38.0 37.0 38.0 28.8 38.0 120-124 34.69205 38.0 36.6 38.0 28.2 38.0 125-129 34.29455 38.0 36.0 38.0 24.6 38.0 130-134 33.891149999999996 38.0 35.2 38.0 22.4 38.0 135-139 33.42235 38.0 33.8 38.0 19.0 38.0 140-144 32.58705 38.0 33.0 38.0 13.0 38.0 145-149 31.17145 38.0 31.4 38.0 4.2 38.0 150-151 26.034 33.0 16.5 37.0 2.0 38.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 2 13.0 3 7.0 4 0.0 5 1.0 6 0.0 7 4.0 8 1.0 9 0.0 10 5.0 11 5.0 12 8.0 13 10.0 14 9.0 15 9.0 16 13.0 17 56.0 18 8.0 19 11.0 20 10.0 21 13.0 22 13.0 23 6.0 24 10.0 25 10.0 26 14.0 27 20.0 28 22.0 29 36.0 30 35.0 31 38.0 32 58.0 33 95.0 34 126.0 35 221.0 36 578.0 37 2535.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 42.8 19.925 13.700000000000001 23.575 2 28.499999999999996 26.674999999999997 23.724999999999998 21.099999999999998 3 25.0 24.525 28.725 21.75 4 25.275 31.55 22.05 21.125 5 27.425 33.025 20.7 18.85 6 24.875 33.2 22.425 19.5 7 21.775 23.599999999999998 33.425 21.2 8 23.025000000000002 26.525 24.0 26.450000000000003 9 24.025 26.1 25.974999999999998 23.9 10-14 25.545 26.76 23.77 23.925 15-19 24.73 26.605 25.255 23.41 20-24 25.145 27.125 24.560000000000002 23.169999999999998 25-29 26.47 26.745 23.549999999999997 23.235 30-34 26.41 25.729999999999997 25.47 22.39 35-39 24.23 25.31 25.900000000000002 24.560000000000002 40-44 26.340000000000003 25.485000000000003 25.695 22.48 45-49 25.585 24.990000000000002 26.490000000000002 22.935 50-54 23.580000000000002 25.09 27.810000000000002 23.52 55-59 23.400000000000002 26.784999999999997 26.950000000000003 22.865 60-64 22.715 27.700000000000003 27.134999999999998 22.45 65-69 22.245 28.265 26.400000000000002 23.09 70-74 23.085 27.76 25.755 23.400000000000002 75-79 22.695 28.055000000000003 25.605 23.645 80-84 23.23 27.42 26.340000000000003 23.01 85-89 22.905 27.845 26.995 22.255 90-94 23.885 28.560000000000002 26.545 21.01 95-99 23.91 28.425 26.295 21.37 100-104 24.01 28.444999999999997 25.52 22.025 105-109 24.54 28.64 24.560000000000002 22.259999999999998 110-114 23.56 28.975 24.709999999999997 22.755 115-119 24.52 29.89 24.08 21.51 120-124 24.945 29.585 24.654999999999998 20.815 125-129 24.18 29.325000000000003 24.755 21.740000000000002 130-134 24.95 28.04 25.495 21.515 135-139 25.419999999999998 28.560000000000002 24.905 21.115000000000002 140-144 26.41 27.965 25.46 20.165 145-149 26.474999999999998 27.689999999999998 25.16 20.674999999999997 150-151 26.4125 27.8625 26.075 19.650000000000002 >>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 0.5 11 0.5 12 0.5 13 0.5 14 0.0 15 0.5 16 0.5 17 1.0 18 1.5 19 0.5 20 0.0 21 0.0 22 0.0 23 0.5 24 0.5 25 0.5 26 1.0 27 4.0 28 6.5 29 5.0 30 7.5 31 21.5 32 32.0 33 36.0 34 58.0 35 79.0 36 96.5 37 119.0 38 145.0 39 169.5 40 216.0 41 179.5 42 108.5 43 123.5 44 146.5 45 156.5 46 146.0 47 156.0 48 186.0 49 181.0 50 147.5 51 132.5 52 148.0 53 150.0 54 145.0 55 136.5 56 112.5 57 93.5 58 83.5 59 76.0 60 57.5 61 38.5 62 34.0 63 33.0 64 24.5 65 26.0 66 28.5 67 22.0 68 18.0 69 20.5 70 18.0 71 13.0 72 11.0 73 9.5 74 8.5 75 6.5 76 6.0 77 4.0 78 2.0 79 2.5 80 2.0 81 1.0 82 0.5 83 0.5 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 0.0 2 0.0 3 0.0 4 0.0 5 0.0 6 0.0 7 0.0 8 0.0 9 0.0 10-14 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 0.0 50-54 0.0 55-59 0.0 60-64 0.0 65-69 0.0 70-74 0.0 75-79 0.0 80-84 0.0 85-89 0.0 90-94 0.0 95-99 0.0 100-104 0.0 105-109 0.0 110-114 0.0 115-119 0.0 120-124 0.0 125-129 0.0 130-134 0.0 135-139 0.0 140-144 0.0 145-149 0.0 150-151 0.0 >>END_MODULE >>Sequence Length Distribution pass #Length Count 151 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 75.75 #Duplication Level Percentage of deduplicated Percentage of total 1 87.52475247524752 66.3 2 7.359735973597361 11.15 3 2.376237623762376 5.4 4 1.155115511551155 3.5000000000000004 5 0.46204620462046203 1.7500000000000002 6 0.23102310231023102 1.05 7 0.066006600660066 0.35000000000000003 8 0.16501650165016502 1.0 9 0.0 0.0 >10 0.6270627062706271 7.9 >50 0.033003300330033 1.6 >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 fail #Sequence Count Percentage Possible Source GATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCG 64 1.6 Illumina Single End PCR Primer 1 (100% over 50bp) GGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTC 32 0.8 No Hit GGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTT 28 0.7000000000000001 No Hit CATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAAT 21 0.525 No Hit CCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGT 19 0.475 No Hit TAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGT 19 0.475 No Hit GCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCC 18 0.44999999999999996 No Hit AATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGA 18 0.44999999999999996 No Hit CCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGG 18 0.44999999999999996 No Hit GAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCC 16 0.4 No Hit GCTGCTCACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGATCGTGG 15 0.375 No Hit ATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAG 15 0.375 No Hit ATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATA 15 0.375 No Hit GGTAGGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGA 14 0.35000000000000003 No Hit AGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTT 13 0.325 No Hit TAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGG 13 0.325 No Hit GGACATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCC 12 0.3 No Hit CTTCAATATAAGCCTTGGTAGGGATAGATAGCCACCTATATAGTATAGCT 10 0.25 No Hit GTGAGGCTCTCTCATTGGTTTATACTTCAATATAAGCCTTGGTAGGGATA 10 0.25 No Hit GCCACAGGCGTCATACTTCCCAAGAAGCGGCCATAGCCCAGATGCGAGGT 10 0.25 No Hit CAATAACGTCTCTTTCAGAAGGCATTGGTATCTTTTCCCCACTTCCAAGC 8 0.2 No Hit AATAACGTCTCTTTCAGAAGGCATTGGTATCTTTTCCCCACTTCCAAGCA 8 0.2 No Hit TGAAAATTCTATGGAAGAGCTAGCATCTCTGACGAAAACAGCAGACGGAA 8 0.2 No Hit CCCAATTATCCATAAAACTGTAACTAAGTGAGGCTCTCTCATTGGTTTAT 8 0.2 No Hit GGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTCAAAACAATCAC 8 0.2 No Hit AAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCT 7 0.17500000000000002 No Hit CTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTT 7 0.17500000000000002 No Hit GCCCAAGCTGCTCACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGA 6 0.15 No Hit GGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATGGT 6 0.15 No Hit CTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCT 6 0.15 No Hit GGGATAGATAGCCACCTATATAGTATAGCTTCCCATCTTCTTTGAGAGTT 6 0.15 No Hit TAGGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATG 6 0.15 No Hit CACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGATCGTGGTTTTAC 6 0.15 No Hit GATAGATAGCCACCTATATAGTATAGCTTCCCATCTTCTTTGAGAGTTGT 6 0.15 No Hit TTTGAAAATTCTATGGAAGAGCTAGCATCTCTGACGAAAACAGCAGACGG 5 0.125 No Hit AATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATGGTTT 5 0.125 No Hit AGGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATGG 5 0.125 No Hit GTACTGACCAGCGTCACACAAAAACGGAACAGGGCTGACGCCGCTACATA 5 0.125 No Hit CCTTGGCTTCCTTCCGCAGTCAAAACCGCGCAATTATCCCCGTCCTGATT 5 0.125 No Hit GGAAGAGCTAGCATCTCTGACGAAAACAGCAGACGGAAAAGTACTGACCA 5 0.125 No Hit AAAGAATATCCCAATTATCCATAAAACTGTAACTAAGTGAGGCTCTCTCA 5 0.125 No Hit AACGAATAGCTCGTAACCAAACATGCACAGCGGTCAAACAGTATGTCCCA 5 0.125 No Hit GACGAATTGCCAGAATTATTAACTGCGCAGTTAGGGCAGCGTCTGAGGAA 5 0.125 No Hit CCTGAAACGGGCATCGTCGCTCTTCGTTGTTCGTCGACTTCTAGTGTGGA 5 0.125 No Hit GGGGCGTTGAGTCCGTCCGACTTCACTGCCCCCTTTCAGCCTTTTGGGTC 5 0.125 No Hit ATTACTTCCATTTCCGCCCAAGCTGCTCACAGTATACGGGCGTCGGCATC 5 0.125 No Hit ATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGT 5 0.125 Illumina Single End PCR Primer 1 (100% over 50bp) GTAGGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGAT 5 0.125 No Hit >>END_MODULE >>Adapter Content fail #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 0.0125 0.0 0.0 0.0 0.0 62-63 0.037500000000000006 0.0 0.0 0.0 0.0 64-65 0.0625 0.0 0.0 0.0 0.0 66-67 0.075 0.0 0.0 0.0 0.0 68-69 0.075 0.0 0.0 0.0 0.0 70-71 0.1125 0.0 0.0 0.0 0.0 72-73 0.1375 0.0 0.0 0.0 0.0 74-75 0.21250000000000002 0.0 0.0 0.0 0.0 76-77 0.2625 0.0 0.0 0.0 0.0 78-79 0.3125 0.0 0.0 0.0 0.0 80-81 0.44999999999999996 0.0 0.0 0.0 0.0 82-83 0.5625 0.0 0.0 0.0 0.0 84-85 0.625 0.0 0.0 0.0 0.0 86-87 0.7749999999999999 0.0 0.0 0.0 0.0 88-89 0.8875 0.0 0.0 0.0 0.0 90-91 1.2 0.0 0.0 0.0 0.0 92-93 1.5 0.0 0.0 0.0 0.0 94-95 1.8875 0.0 0.0 0.0 0.0 96-97 2.2875 0.0 0.0 0.0 0.0 98-99 2.6500000000000004 0.0 0.0 0.0 0.0 100-101 3.0625 0.0 0.0 0.0 0.0 102-103 3.425 0.0 0.0 0.0 0.0 104-105 3.825 0.0 0.0 0.0 0.0 106-107 4.275 0.0 0.0 0.0 0.0 108-109 4.625 0.0 0.0 0.0 0.0 110-111 5.15 0.0 0.0 0.0 0.0 112-113 5.550000000000001 0.0 0.0 0.0 0.0 114-115 6.25 0.0 0.0 0.0 0.0 116-117 6.975 0.0 0.0 0.0 0.0 118-119 7.6875 0.0 0.0 0.0 0.0 120-121 8.25 0.0 0.0 0.0 0.0 122-123 8.6375 0.0 0.0 0.0 0.0 124-125 9.4375 0.0 0.0 0.0 0.0 126-127 10.4875 0.0 0.0 0.0 0.0 128-129 11.2375 0.0 0.0 0.0 0.0 130-131 11.9375 0.0 0.0 0.0 0.0 132-133 12.825 0.0 0.0 0.0 0.0 134-135 13.825 0.0 0.0 0.0 0.0 136-137 14.625 0.0 0.0 0.0 0.0 138-139 15.35 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Read 601433 spots for SRR5578506.sra Written 601433 spots for SRR5578506.sra Read 601433 spots for SRR5578506.sra Written 601433 spots for SRR5578506.sra Read 601433 spots for SRR5578506.sra Written 601433 spots for SRR5578506.sra Read 601433 spots for SRR5578506.sra Written 601433 spots for SRR5578506.sra Read 601433 spots for SRR5578506.sra Written 601433 spots for SRR5578506.sra Read 601433 spots for SRR5578506.sra Written 601433 spots for SRR5578506.sra Read 601433 spots for SRR5578506.sra Written 601433 spots for SRR5578506.sra Read 601433 spots for SRR5578506.sra Written 601433 spots for SRR5578506.sra Read 601433 spots for SRR5578506.sra Written 601433 spots for SRR5578506.sra Read 601433 spots for SRR5578506.sra Written 601433 spots for SRR5578506.sra Read 601433 spots for SRR5578506.sra Written 601433 spots for SRR5578506.sra Read 601433 spots for SRR5578506.sra Written 601433 spots for SRR5578506.sra Read 601433 spots for SRR5578506.sra Written 601433 spots for SRR5578506.sra Read 601433 spots for SRR5578506.sra Written 601433 spots for SRR5578506.sra Read 601433 spots for SRR5578506.sra Written 601433 spots for SRR5578506.sra Read 601433 spots for SRR5578506.sra Written 601433 spots for SRR5578506.sra Read 601439 spots for SRR5578506.sra Written 601439 spots for SRR5578506.sra Read 601433 spots for SRR5578506.sra Written 601433 spots for SRR5578506.sra Read 601433 spots for SRR5578506.sra Written 601433 spots for SRR5578506.sra Read 601433 spots for SRR5578506.sra Written 601433 spots for SRR5578506.sra SRR ids: ['SRR5578506.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_udqt_sd2 SRR5578506.sra spots: 12028666 blocks: [[1, 601433], [601434, 1202866], [1202867, 1804299], [1804300, 2405732], [2405733, 3007165], [3007166, 3608598], [3608599, 4210031], [4210032, 4811464], [4811465, 5412897], [5412898, 6014330], [6014331, 6615763], [6615764, 7217196], [7217197, 7818629], [7818630, 8420062], [8420063, 9021495], [9021496, 9622928], [9622929, 10224361], [10224362, 10825794], [10825795, 11427227], [11427228, 12028666]] SRR5578506 file size 4054419 SRR5578506 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 SRR5578506 SRR5578506_1.fastq SRR5578506_2.fastq Input file: SRR5578506_1.fastq Paired file: SRR5578506_2.fastq trimmed: SRR5578506-trimmed-pair1.fastq, SRR5578506-trimmed-pair2.fastq Parameters used: -- 3' end adapter sequence (-x): AGATCGGAAGAGCACACGTCTGAACTCCAGTCAC -- paired 3' end adapter sequence (-y): AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTA -- 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 -- number of concurrent threads (-t): 20 Mon Dec 9 21:17:25 2024 >> started Mon Dec 9 21:17:42 2024 >> done (16.517s) 12028666 read pairs processed; of these: 34158 ( 0.28%) short read pairs filtered out after trimming by size control 191818 ( 1.59%) empty read pairs filtered out after trimming by size control 11802690 (98.12%) read pairs available; of these: 6375451 (54.02%) trimmed read pairs available after processing 5427239 (45.98%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 18 9 0.00% 19 4 0.00% 20 17 0.00% 21 14 0.00% 22 24 0.00% 23 21 0.00% 24 28 0.00% 25 17 0.00% 26 24 0.00% 27 134 0.00% 28 39 0.00% 29 42 0.00% 30 41 0.00% 31 58 0.00% 32 29 0.00% 33 37 0.00% 34 31 0.00% 35 53 0.00% 36 43 0.00% 37 46 0.00% 38 59 0.00% 39 41 0.00% 40 52 0.00% 41 54 0.00% 42 85 0.00% 43 89 0.00% 44 110 0.00% 45 138 0.00% 46 184 0.00% 47 180 0.00% 48 216 0.00% 49 236 0.00% 50 227 0.00% 51 319 0.00% 52 392 0.00% 53 350 0.00% 54 344 0.00% 55 394 0.00% 56 442 0.00% 57 492 0.00% 58 592 0.01% 59 520 0.00% 60 599 0.01% 61 700 0.01% 62 835 0.01% 63 840 0.01% 64 1058 0.01% 65 1441 0.01% 66 2100 0.02% 67 3098 0.03% 68 4323 0.04% 69 14931 0.13% 70 24295 0.21% 71 13501 0.11% 72 6623 0.06% 73 4361 0.04% 74 4043 0.03% 75 4145 0.04% 76 4255 0.04% 77 4608 0.04% 78 4911 0.04% 79 5377 0.05% 80 5768 0.05% 81 6348 0.05% 82 7534 0.06% 83 8633 0.07% 84 10937 0.09% 85 12654 0.11% 86 13478 0.11% 87 14473 0.12% 88 15457 0.13% 89 16404 0.14% 90 17170 0.15% 91 17748 0.15% 92 18834 0.16% 93 20396 0.17% 94 21153 0.18% 95 22655 0.19% 96 23627 0.20% 97 24589 0.21% 98 25438 0.22% 99 26571 0.23% 100 28582 0.24% 101 29474 0.25% 102 30717 0.26% 103 33421 0.28% 104 34659 0.29% 105 36248 0.31% 106 37721 0.32% 107 37910 0.32% 108 39620 0.34% 109 39319 0.33% 110 41226 0.35% 111 42537 0.36% 112 45222 0.38% 113 49916 0.42% 114 51880 0.44% 115 53299 0.45% 116 52418 0.44% 117 52981 0.45% 118 51344 0.44% 119 51694 0.44% 120 53645 0.45% 121 55049 0.47% 122 56641 0.48% 123 59155 0.50% 124 61470 0.52% 125 62340 0.53% 126 64007 0.54% 127 62172 0.53% 128 60545 0.51% 129 64152 0.54% 130 63054 0.53% 131 64293 0.54% 132 67217 0.57% 133 68525 0.58% 134 69716 0.59% 135 70681 0.60% 136 71358 0.60% 137 72238 0.61% 138 75179 0.64% 139 77524 0.66% 140 79040 0.67% 141 80301 0.68% 142 89156 0.76% 143 92593 0.78% 144 97521 0.83% 145 109776 0.93% 146 128464 1.09% 147 156478 1.33% 148 218544 1.85% 149 427048 3.62% 150 2315243 19.62% 151 5427239 45.98% 11802690 reads passed initial QC criterion=sequence-density sequence-density=0.35 sequence-density-rank=1 fanout-score=23.81 fanout-score-rank=4 prefix-density=4.26 prefix-fanout=1.9 sequence=TTCGTTTTTTTTCTTG criterion=fanout-score sequence-density=0.03 sequence-density-rank=26 fanout-score=77.05 fanout-score-rank=1 prefix-density=1.81 prefix-fanout=1.3 sequence=ATCATCTTCACGATACCAGCATCACCGTTCTTCAAGAACTTGGGCTCCTTCTCCAGCTCCTT criterion=sequence-density sequence-density=0.63 sequence-density-rank=1 fanout-score=5.07 fanout-score-rank=16 prefix-density=3.18 prefix-fanout=1.0 sequence=CAAGAAAAAAAACGAA criterion=fanout-score sequence-density=0.10 sequence-density-rank=12 fanout-score=89.84 fanout-score-rank=1 prefix-density=9.19 prefix-fanout=1.0 sequence=GGTTTTCAAAAA SRR5578506 testing PE reads STAR mapping to Ensembl genome Started job on | Dec 09 21:19:39 Started mapping on | Dec 09 21:19:40 Finished on | Dec 09 21:45:07 Mapping speed, Million of reads per hour | 27.83 Number of input reads | 11802690 Average input read length | 285 UNIQUE READS: Uniquely mapped reads number | 4163001 Uniquely mapped reads % | 35.27% Average mapped length | 283.80 Number of splices: Total | 2941403 Number of splices: Annotated (sjdb) | 2741300 Number of splices: GT/AG | 2902821 Number of splices: GC/AG | 33762 Number of splices: AT/AC | 2005 Number of splices: Non-canonical | 2815 Mismatch rate per base, % | 0.09% Deletion rate per base | 0.00% Deletion average length | 1.45 Insertion rate per base | 0.00% Insertion average length | 1.10 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 61338 % of reads mapped to multiple loci | 0.52% Number of reads mapped to too many loci | 47499 % of reads mapped to too many loci | 0.40% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 62.14% % of reads unmapped: other | 1.67% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 7586329 7586329 7586329 N_multimapping 61338 61338 61338 N_noFeature 104794 4027241 146735 N_ambiguous 103767 707 10237 UnstrandedReadsAssigned:3954440 PositiveStrandReadsAssigned:135053 NegativeStrandReadsAssigned:4006029 Dataset is classified negative stranded MeadianReadLen=151 20thPercentileLength=138 echo kmer=133 SRR5578506 Starting Kallisto paired end mapping to ensembl reference transcriptome [quant] fragment length distribution will be estimated from the data [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 paired-end mode [quant] will process pair 1: SRR5578506-trimmed-pair1.fastq SRR5578506-trimmed-pair2.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 11,802,690 reads, 4,066,085 reads pseudoaligned [quant] estimated average fragment length: 201.234 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,071 rounds 52973 SRR5578506.ke.tsv 35125 SRR5578506.se.tsv 88098 total ==> SRR5578506.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 735.9 0 0 PNS24247 1044 843.766 0 0 PNS24249 1928 1727.77 3.78067 0.642087 PNS24246 1044 843.766 0 0 PNS24248 1044 843.766 0 0 PNS24244 1471 1270.77 103.219 23.8345 PNS24243 293 118.217 0 0 KQK14069 1603 1402.77 4324.43 904.593 KQK14071 474 279.56 15.6987 16.4778 ==> SRR5578506.se.tsv <== BRADI_1g14170v3 4344 BRADI_1g53295v3 6 BRADI_1g59795v3 96 BRADI_1g07683v3 0 BRADI_1g00485v3 29 BRADI_1g20270v3 193 BRADI_1g74790v3 13 BRADI_1g09890v3 3 BRADI_1g77505v3 73 BRADI_1g48960v3 0 SRR5578506 completed mapping pipeline successfully