Starting /dee2/code/volunteer_pipeline.sh SRR13165380 current disk space = 1541553528832 free memory = 1599166184 SRR13165380 SRAfilesize cf46aafc810f35067e9de40150736e13 SRR13165380.sra SRR13165380.sra file validated SRR13165380 is paired end SRR13165380 is conventional basespace SRR13165380 read1 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR13165380_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 56 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 36.576 37.0 37.0 37.0 37.0 37.0 2 36.19975 37.0 37.0 37.0 37.0 37.0 3 36.5235 37.0 37.0 37.0 37.0 37.0 4 36.569 37.0 37.0 37.0 37.0 37.0 5 36.5675 37.0 37.0 37.0 37.0 37.0 6 36.46 37.0 37.0 37.0 37.0 37.0 7 36.5805 37.0 37.0 37.0 37.0 37.0 8 36.5155 37.0 37.0 37.0 37.0 37.0 9 36.6015 37.0 37.0 37.0 37.0 37.0 10-14 36.555499999999995 37.0 37.0 37.0 37.0 37.0 15-19 36.5494 37.0 37.0 37.0 37.0 37.0 20-24 36.5231 37.0 37.0 37.0 37.0 37.0 25-29 36.442600000000006 37.0 37.0 37.0 37.0 37.0 30-34 36.4159 37.0 37.0 37.0 37.0 37.0 35-39 36.4086 37.0 37.0 37.0 37.0 37.0 40-44 36.0631 37.0 37.0 37.0 37.0 37.0 45-49 34.8688 37.0 37.0 37.0 27.0 37.0 50-54 36.041399999999996 37.0 37.0 37.0 37.0 37.0 55-59 34.7332 37.0 37.0 37.0 27.4 37.0 60-64 34.2418 37.0 37.0 37.0 21.8 37.0 65-69 33.0095 37.0 37.0 37.0 19.0 37.0 70-74 34.134600000000006 37.0 37.0 37.0 24.2 37.0 75-79 36.051 37.0 37.0 37.0 37.0 37.0 80-84 36.177200000000006 37.0 37.0 37.0 37.0 37.0 85-89 36.1856 37.0 37.0 37.0 37.0 37.0 90-94 36.1341 37.0 37.0 37.0 37.0 37.0 95-99 36.1262 37.0 37.0 37.0 37.0 37.0 100-104 36.1649 37.0 37.0 37.0 37.0 37.0 105-109 36.1642 37.0 37.0 37.0 37.0 37.0 110-114 36.0878 37.0 37.0 37.0 37.0 37.0 115-119 36.137800000000006 37.0 37.0 37.0 37.0 37.0 120-124 36.028999999999996 37.0 37.0 37.0 37.0 37.0 125-129 36.0415 37.0 37.0 37.0 37.0 37.0 130-134 36.040800000000004 37.0 37.0 37.0 37.0 37.0 135-139 35.942 37.0 37.0 37.0 37.0 37.0 140-144 35.89059999999999 37.0 37.0 37.0 37.0 37.0 145-149 35.6688 37.0 37.0 37.0 37.0 37.0 150-151 35.545 37.0 37.0 37.0 37.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 22 4.0 23 6.0 24 5.0 25 9.0 26 10.0 27 14.0 28 19.0 29 23.0 30 31.0 31 50.0 32 58.0 33 87.0 34 344.0 35 736.0 36 2209.0 37 395.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 57.8 8.725 6.225 27.250000000000004 2 21.897810218978105 27.435187515731187 24.06242134407249 26.604580921218222 3 17.925 11.125 40.65 30.3 4 20.575 15.075 17.325 47.025 5 40.225 20.4 18.099999999999998 21.275 6 40.1 25.025 17.299999999999997 17.575 7 18.025 39.85 27.800000000000004 14.325 8 17.849999999999998 40.2 22.225 19.725 9 35.275 17.675 26.424999999999997 20.625 10-14 22.495 28.32 20.785 28.4 15-19 22.625 23.635 24.955 28.785 20-24 23.200000000000003 27.115000000000002 24.055 25.629999999999995 25-29 23.195 24.115000000000002 23.645 29.044999999999998 30-34 23.41 23.830000000000002 23.53 29.23 35-39 19.645000000000003 23.985 23.51 32.86 40-44 19.42 26.755000000000003 28.749999999999996 25.074999999999996 45-49 24.91 23.655 26.119999999999997 25.314999999999998 50-54 27.150000000000002 19.73 23.87 29.25 55-59 19.445 19.650000000000002 31.564999999999998 29.34 60-64 23.630000000000003 19.6 31.324999999999996 25.445 65-69 23.1 33.875 21.005 22.02 70-74 39.005 20.095 19.564999999999998 21.335 75-79 38.85 19.91 19.63 21.61 80-84 39.0 19.919999999999998 19.48 21.6 85-89 39.795 19.685 19.305 21.215 90-94 39.225 20.395 19.52 20.86 95-99 39.535 19.915 19.56 20.990000000000002 100-104 39.475 20.0 18.995 21.529999999999998 105-109 39.475 20.465 18.78 21.279999999999998 110-114 39.645 20.78 18.52 21.055 115-119 40.23 20.4 18.365000000000002 21.005 120-124 39.53 19.74 19.345000000000002 21.385 125-129 39.425 20.89 18.65 21.035 130-134 39.61 20.455000000000002 18.224999999999998 21.709999999999997 135-139 39.085 19.775000000000002 18.845 22.295 140-144 38.82 19.095000000000002 19.535 22.55 145-149 38.975 19.564999999999998 19.645000000000003 21.815 150-151 39.550000000000004 19.0625 19.2 22.1875 >>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 0.0 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 0.5 28 4.0 29 5.5 30 2.5 31 2.5 32 8.0 33 12.0 34 13.0 35 22.0 36 38.0 37 43.0 38 42.5 39 55.5 40 82.0 41 101.5 42 114.5 43 127.0 44 143.5 45 154.0 46 170.5 47 159.5 48 137.0 49 140.0 50 142.5 51 126.5 52 103.5 53 103.5 54 97.5 55 96.5 56 89.0 57 75.0 58 67.5 59 69.0 60 69.5 61 60.0 62 52.0 63 54.5 64 69.0 65 237.5 66 346.5 67 223.5 68 101.0 69 45.5 70 40.0 71 34.0 72 27.0 73 17.0 74 12.0 75 10.0 76 9.5 77 12.5 78 10.0 79 6.0 80 3.0 81 2.0 82 2.0 83 3.0 84 2.5 85 1.0 86 0.5 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 0.675 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 warn #Total Deduplicated Percentage 55.275 #Duplication Level Percentage of deduplicated Percentage of total 1 70.51108095884216 38.975 2 18.63410221619177 20.599999999999998 3 6.1058344640434195 10.125 4 2.4875621890547266 5.5 5 1.3568521031207599 3.75 6 0.40705563093622793 1.35 7 0.27137042062415195 1.05 8 0.0 0.0 9 0.045228403437358664 0.22499999999999998 >10 0.09045680687471733 0.6 >50 0.0 0.0 >100 0.09045680687471733 17.825 >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 GATCGGAAGAGCACACGTCTGAACTCCAGTCACGTCCACATATCTCGTAT 490 12.25 TruSeq Adapter, Index 18 (97% over 41bp) GATCGGAAGAGCACACGTCTGAACTCCAGTCACGTCCACATATCGCGTAT 223 5.575 TruSeq Adapter, Index 18 (97% over 41bp) CGGAAGAGCACACGTCTGAACTCCAGTCACGTCCACATATCTCGTATGCC 14 0.35000000000000003 TruSeq Adapter, Index 18 (97% over 38bp) CGTCGAAGAGCATGATGGGCCGGGCGTCGGAGGGCTGGAAGAACTCGGCG 10 0.25 No Hit CGCGGTGGAAGAAGACGAAGTTCTCGCTGCCCCACGACGGCCAGCCGCCG 9 0.22499999999999998 No Hit GTCTGTCAGGGTCACTGAGGCCAACACGTGATCTCTTCACCGCTCGTGAT 7 0.17500000000000002 No Hit GGCAGGAACTTGGACTTGTCCCGGAGTTACCAGCTGACTGACGTTTGCCG 7 0.17500000000000002 No Hit AGCATCTTTTCCACAGCATCCATTCCATACACCTCAAACATACTCAATGT 7 0.17500000000000002 No Hit CTTCTGTATTTGGAGCTGGCAAACTGTTCAAGTCTTTGTTCATTGGCAGA 7 0.17500000000000002 No Hit GGATAATACTTTGCTCCACTAAATTTATATCCTTCAAAGAGTCCAGATGT 7 0.17500000000000002 No Hit GTCCATTGGTCGTGTTGCTGCTGCGCGCACTGTGTGACCTGTGAGAAATA 7 0.17500000000000002 No Hit GGTTAGCGTAATTAAGCTGGGGTTACTAGTAGTGTAGTACGGGTAGAGGC 6 0.15 No Hit GGGCGGTGTGTACAAAGGGCAGGGACGTAGTCAACGCGAGCTGATGACTC 6 0.15 No Hit TATGAACCTAGGATTAATGATTAATAAACAAAGGATTCGATGCCTAGCTA 6 0.15 No Hit TCTGACTATGAAATACGAATGCCCCCGACTGTCCCTATTAATCATTACTC 6 0.15 No Hit GCACATGTTAGTCAATGCAAACCTTTATCCTACAATTTCGATGGGCTACA 6 0.15 No Hit CGCTGGCATATATATCGAGTTCAGTACACCTCGCAGGGGAATTGTTCATC 6 0.15 No Hit GGCTCATGAAACGCTACTTCAAAATCTTGTTCTTTTTGGCATCCTCCAGA 6 0.15 No Hit GGCAAGGTATAATCTCCATCCAAGCTACGAGGAGGAGGCTCCAGCAGTAA 6 0.15 No Hit CGGAAGAGCACACGTCTGAACTCCAGTCACGTCCACATATCGCGTATGCC 6 0.15 TruSeq Adapter, Index 18 (97% over 38bp) GCCTAAAGCATTACATTCTTAGCTACTGTACAAGAATAGGTTGTGCAATG 5 0.125 No Hit ATTCATAACTTGGATAAAAACTTCGAGAAACTAAAAGTTTCCAACTGCAA 5 0.125 No Hit GCCTCCTTGACGGGCTCAGGCTCAGGCTCGCGTGGTGGGCTCTTTGGACG 5 0.125 No Hit TAGATGGCATGTTACGCTTCTGCTTCACTATTGGATGAATTGTGTCTTGC 5 0.125 No Hit CCCGCGCGCGGCGGAGAGTTGGCGGCCGTGCTGGCGGCGGCGCCCTCCTC 5 0.125 No Hit CTTCCAGATTGTCTTCCCACTCATAGCAAGGCCCCTCAGTTTTGGATCGC 5 0.125 No Hit GTCCCTCTAAGAAGCTAGCTGCGGAGGGATGGCTCCGCATAGCTAGTTAG 5 0.125 No Hit GGAGCACGTGGAATGGGTGAACCCTAACCCTGAGGTGGAAGGCATCCTTT 5 0.125 No Hit GTTTTGTAACATCCCGAGAAGGAAGCTGCAATGAGTCTATAGCATCCAAG 5 0.125 No Hit CCACGTTCCTATCTCCTTCCCGGCCCTGCAAATCTTCTCGCCGTGCCGAA 5 0.125 No Hit GGGTGATGGTCGTGTAGAAGTCGATGCCCTCGAAGAGAGAGTCGATCTCA 5 0.125 No Hit GAGCAATCTTTTCTTTTTGCCATTTTCAGGATCAGTACCACCAGCAGGTT 5 0.125 No Hit GCCTTTGCTGGACTTCAGAAACTTGTAGATGGGTGCGACATTCTCACCAT 5 0.125 No Hit GCTGGGCTTGGCATAAGGGGACGGGTTGACTAATGCGCGTGCGTACCTTG 5 0.125 No Hit CGGCGACGCGCGTGAGAGCCGGGCAGCTGTAGGAGGATAGATTTAGAGCC 5 0.125 No Hit CCTCCGACCACCCATTTCGAGCCACCTGGCGGACCACAACGTAATCACCC 5 0.125 No Hit GTTGAGGGGCCCGTAGATGTACACCGGCCTGATCGATGTCCAGTTCACAC 5 0.125 No Hit GTGGACGTAGGCCTGGTCCTCGTAGGCGCCCTTGATGGCGACGACGTTCC 5 0.125 No Hit TGGCGCTCCGCCATATATCGATCTATGTTTACATGAACTTGCCCTCGTAA 5 0.125 No Hit CCTCTCTCTCTCTTTTTGTATTTTCTAATGCCTCGGTGTCCAGGAAGTGG 5 0.125 No Hit GCATTATGTTACCCTCAGAGCTGGAATAGTGTGATGCATCTTTTAGCGCA 5 0.125 No Hit CGCACAAACCCAAATTGCTGCTCGAGGCGGATTCCAATGAATAGCAAGCT 5 0.125 No Hit CTAGCAGCACAACGCTTGTATTGCTCTCCCACAACCCCGTTTTCACGGTT 5 0.125 No Hit GGGTCCCTGAACTGCGTCGCGTTCATGCCGGGCTCCGGCACGGCGATCGG 5 0.125 No Hit GGTTCATGGTAGCGGTAGATCGAGTAGCTATATGTAGATGGTCGTTGCAT 5 0.125 No Hit TCTCTCTTCAACAAGCCAACTGAAGTCCTGTCATCCCACACCAGCATCAG 5 0.125 No Hit CCTCAATCAGTACTCCGTACCTGGTATTGCAAGTGAACTAAAAAATGCAG 5 0.125 No Hit GTCATAGATGCCGGGAAGCGGCACGATGGATTCCATGTAGGGCCTGAGCT 5 0.125 No Hit CAGTTGACCAGTAACTGCAGTTACATTCTCCCCAAGGACCCGAATGTAAT 5 0.125 No Hit CACCAAAACCCTTCCCCATTTCACCGTTTTCCTTTCCCCCCTCTACCAAG 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 0.025 0.0 0.0 0.0 0.0 46-47 0.075 0.0 0.0 0.0 0.0 48-49 0.075 0.0 0.0 0.0 0.0 50-51 0.075 0.0 0.0 0.0 0.0 52-53 0.16249999999999998 0.0 0.0 0.0 0.0 54-55 0.175 0.0 0.0 0.0 0.0 56-57 0.175 0.0 0.0 0.0 0.0 58-59 0.225 0.0 0.0 0.0 0.0 60-61 0.225 0.0 0.0 0.0 0.0 62-63 0.225 0.0 0.0 0.0 0.0 64-65 0.225 0.0 0.0 0.0 0.0 66-67 0.225 0.0 0.0 0.0 0.0 68-69 0.25 0.0 0.0 0.0 0.0 70-71 0.3 0.0 0.0 0.0 0.0 72-73 0.375 0.0 0.0 0.0 0.0 74-75 0.5 0.0 0.0 0.0 0.0 76-77 0.5625 0.0 0.0 0.0 0.0 78-79 0.675 0.0 0.0 0.0 0.0 80-81 0.7625 0.0 0.0 0.0 0.0 82-83 1.1125 0.0 0.0 0.0 0.0 84-85 1.3625 0.0 0.0 0.0 0.0 86-87 1.6875 0.0 0.0 0.0 0.0 88-89 2.0 0.0 0.0 0.0 0.0 90-91 2.2625 0.0 0.0 0.0 0.0 92-93 2.6875 0.0 0.0 0.0 0.0 94-95 3.1 0.0 0.0 0.0 0.0 96-97 3.4749999999999996 0.0 0.0 0.0 0.0 98-99 4.0875 0.0 0.0 0.0 0.0 100-101 4.5625 0.0 0.0 0.0 0.0 102-103 5.0875 0.0 0.0 0.0 0.0 104-105 5.525 0.0 0.0 0.0 0.0 106-107 6.375 0.0 0.0 0.0 0.0 108-109 7.0625 0.0 0.0 0.0 0.0 110-111 7.8125 0.0 0.0 0.0 0.0 112-113 8.5625 0.0 0.0 0.0 0.0 114-115 9.2875 0.0 0.0 0.0 0.0 116-117 9.85 0.0 0.0 0.0 0.0 118-119 10.45 0.0 0.0 0.0 0.0 120-121 11.05 0.0 0.0 0.0 0.0 122-123 11.524999999999999 0.0 0.0 0.0 0.0 124-125 12.6625 0.0 0.0 0.0 0.0 126-127 13.399999999999999 0.0 0.0 0.0 0.0 128-129 14.2 0.0 0.0 0.0 0.0 130-131 15.1125 0.0 0.0 0.0 0.0 132-133 15.75 0.0 0.0 0.0 0.0 134-135 16.425 0.0 0.0 0.0 0.0 136-137 17.075000000000003 0.0 0.0 0.0 0.0 138-139 17.7 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position ATTCCAG 10 0.006830828 145.0 8 CGGAAGA 120 0.0 90.625 4 AAGAGCA 115 0.0 88.26087 7 GAAGAGC 115 0.0 88.26087 6 GAGCACA 115 0.0 88.26087 9 AGAGCAC 115 0.0 88.26087 8 TCGGAAG 130 0.0 83.65385 3 GGAAGAG 125 0.0 81.2 5 GATCGGA 135 0.0 80.55555 1 ATCGGAA 135 0.0 80.55555 2 CGCGTAT 30 4.189703E-5 29.000002 40-44 ATGCCGT 85 0.0 27.294117 45-49 CGTCTTC 85 0.0 27.294117 50-54 TCTGCTT 80 0.0 27.1875 55-59 CTGCTTG 80 0.0 27.1875 55-59 AGGGGGG 70 3.6379788E-12 26.928572 65-69 TGCTTGA 65 4.1836756E-11 26.76923 60-64 ATCTCGT 55 5.9590093E-9 26.363636 40-44 GAAAAGG 55 5.9590093E-9 26.363636 65-69 AAGGGGG 55 5.9590093E-9 26.363636 65-69 >>END_MODULE SRR13165380 read2 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR13165380_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 59 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 36.16425 37.0 37.0 37.0 37.0 37.0 2 36.2545 37.0 37.0 37.0 37.0 37.0 3 35.9355 37.0 37.0 37.0 37.0 37.0 4 35.8765 37.0 37.0 37.0 37.0 37.0 5 36.0565 37.0 37.0 37.0 37.0 37.0 6 36.149 37.0 37.0 37.0 37.0 37.0 7 35.567 37.0 37.0 37.0 37.0 37.0 8 34.7075 37.0 37.0 37.0 25.0 37.0 9 34.769 37.0 37.0 37.0 25.0 37.0 10-14 34.1421 37.0 37.0 37.0 25.0 37.0 15-19 34.0635 37.0 37.0 37.0 25.0 37.0 20-24 33.8895 37.0 37.0 37.0 25.0 37.0 25-29 32.3158 37.0 37.0 37.0 11.0 37.0 30-34 31.927000000000003 37.0 37.0 37.0 11.0 37.0 35-39 31.5109 37.0 37.0 37.0 11.0 37.0 40-44 31.503800000000002 37.0 37.0 37.0 11.0 37.0 45-49 31.370749999999997 37.0 37.0 37.0 11.0 37.0 50-54 31.4704 37.0 37.0 37.0 11.0 37.0 55-59 32.118 37.0 37.0 37.0 11.0 37.0 60-64 32.82039999999999 37.0 37.0 37.0 11.0 37.0 65-69 32.1549 37.0 37.0 37.0 11.0 37.0 70-74 31.4738 37.0 37.0 37.0 11.0 37.0 75-79 31.48615 37.0 37.0 37.0 11.0 37.0 80-84 32.51805 37.0 37.0 37.0 11.0 37.0 85-89 34.1235 37.0 37.0 37.0 25.0 37.0 90-94 34.93635 37.0 37.0 37.0 27.4 37.0 95-99 35.3488 37.0 37.0 37.0 34.6 37.0 100-104 35.4598 37.0 37.0 37.0 37.0 37.0 105-109 35.5523 37.0 37.0 37.0 37.0 37.0 110-114 35.561699999999995 37.0 37.0 37.0 37.0 37.0 115-119 35.57520000000001 37.0 37.0 37.0 37.0 37.0 120-124 35.5723 37.0 37.0 37.0 37.0 37.0 125-129 35.47665 37.0 37.0 37.0 37.0 37.0 130-134 35.2854 37.0 37.0 37.0 37.0 37.0 135-139 35.25935 37.0 37.0 37.0 37.0 37.0 140-144 35.001400000000004 37.0 37.0 37.0 29.8 37.0 145-149 34.746050000000004 37.0 37.0 37.0 25.0 37.0 150-151 34.33625 37.0 37.0 37.0 25.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 6 1.0 7 0.0 8 0.0 9 0.0 10 0.0 11 0.0 12 3.0 13 5.0 14 10.0 15 8.0 16 8.0 17 15.0 18 15.0 19 18.0 20 18.0 21 26.0 22 28.0 23 65.0 24 72.0 25 106.0 26 144.0 27 190.0 28 91.0 29 45.0 30 18.0 31 19.0 32 49.0 33 95.0 34 152.0 35 437.0 36 2115.0 37 247.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 54.527213443692006 15.249561073488838 8.251818409831953 21.97140707298721 2 46.425 19.55 18.475 15.55 3 38.324999999999996 20.549999999999997 23.150000000000002 17.974999999999998 4 42.4 25.1 13.750000000000002 18.75 5 42.8 25.624999999999996 15.625 15.950000000000001 6 38.800000000000004 27.725 15.35 18.125 7 40.300000000000004 15.5 25.0 19.2 8 40.625 19.425 17.675 22.275 9 40.025 18.5 20.549999999999997 20.925 10-14 42.059999999999995 20.185 17.565 20.19 15-19 41.765 20.645 18.4 19.189999999999998 20-24 40.69720916274883 20.226067820346103 19.385815744723416 19.690907272181654 25-29 40.8704352176088 20.135067533766886 19.034517258629315 19.959979989995 30-34 37.78511404561824 20.3781512605042 21.928771508603443 19.90796318527411 35-39 37.326197859357805 21.566469940982294 20.1260378113434 20.981294388316496 40-44 37.76510604241697 22.048819527811126 19.742897158863546 20.443177270908365 45-49 30.705747011454008 21.767618666533288 27.53463712299305 19.991997199019657 50-54 34.33029908972692 21.811543463038912 23.737121136340903 20.121036310893267 55-59 39.394697348674335 20.535267633816908 19.969984992496247 20.100050025012507 60-64 40.947284185255576 19.58587576272882 20.111033309992997 19.355806742022608 65-69 39.837967593518705 20.574114822964592 19.42388477695539 20.164032806561313 70-74 36.93846923461731 22.65632816408204 21.09054527263632 19.31465732866433 75-79 36.03121404632084 22.785253364013805 21.039467760492222 20.14406482917313 80-84 39.46486621655414 21.48537134283571 19.584896224056013 19.46486621655414 85-89 40.50025012506253 20.54527263631816 19.319659829914958 19.634817408704354 90-94 41.774621117391085 20.767268543990397 18.49147201520532 18.966638323413196 95-99 41.75252575772731 19.710913273982193 19.12073622086626 19.415824747424224 100-104 41.75587793896948 19.504752376188094 19.074537268634316 19.664832416208103 105-109 42.701350675337665 20.35017508754377 18.644322161080538 18.30415207603802 110-114 42.35770731219366 20.66119835950785 18.64559367810343 18.33550065019506 115-119 42.68134067033517 20.465232616308153 18.269134567283643 18.584292146073036 120-124 43.01150575287644 20.665332666333168 18.22911455727864 18.094047023511756 125-129 43.734680606272825 19.693862238007103 18.4032814766645 18.168175679055576 130-134 44.35661396838103 20.197118270962577 18.50610366219732 16.940164098459075 135-139 44.294361899044475 20.73640502276252 17.70473760568313 17.264495472509882 140-144 44.353305991797534 20.231069320796237 18.48554566369911 16.930079023707112 145-149 44.60453249287108 20.411226174395917 17.98989444194307 16.994346890789934 150-151 45.44658493870403 19.60220165123843 18.376282211658747 16.574931198398797 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 0.0 1 0.0 2 0.0 3 0.5 4 0.5 5 0.0 6 0.5 7 0.5 8 0.5 9 1.0 10 1.0 11 0.5 12 0.0 13 0.0 14 0.0 15 0.0 16 0.0 17 0.0 18 0.5 19 0.5 20 0.5 21 2.0 22 2.0 23 1.5 24 1.5 25 1.0 26 0.5 27 0.0 28 1.5 29 3.5 30 3.0 31 3.0 32 5.5 33 7.0 34 16.0 35 18.0 36 23.0 37 42.5 38 46.5 39 53.0 40 76.5 41 90.5 42 112.0 43 141.0 44 142.0 45 133.0 46 159.0 47 160.0 48 136.5 49 141.5 50 125.5 51 104.5 52 107.0 53 123.0 54 119.5 55 87.5 56 77.0 57 78.0 58 70.0 59 70.5 60 56.0 61 48.5 62 55.5 63 62.0 64 65.5 65 58.5 66 54.5 67 48.0 68 48.0 69 46.0 70 38.0 71 35.5 72 38.0 73 34.0 74 29.5 75 24.5 76 17.0 77 16.0 78 11.5 79 8.5 80 10.0 81 13.5 82 13.0 83 11.0 84 14.0 85 14.5 86 16.0 87 25.0 88 23.5 89 26.5 90 40.5 91 42.0 92 51.0 93 56.5 94 61.0 95 64.5 96 55.5 97 51.0 98 37.0 99 22.5 100 37.0 >>END_MODULE >>Per base N content pass #Base N-Count 1 0.325 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 0.03 25-29 0.05 30-34 0.04 35-39 0.03 40-44 0.04 45-49 0.034999999999999996 50-54 0.03 55-59 0.05 60-64 0.03 65-69 0.02 70-74 0.05 75-79 0.045 80-84 0.025 85-89 0.05 90-94 0.034999999999999996 95-99 0.03 100-104 0.05 105-109 0.05 110-114 0.03 115-119 0.05 120-124 0.05 125-129 0.045 130-134 0.06 135-139 0.055 140-144 0.03 145-149 0.055 150-151 0.075 >>END_MODULE >>Sequence Length Distribution pass #Length Count 151 4000.0 >>END_MODULE >>Sequence Duplication Levels warn #Total Deduplicated Percentage 69.8 #Duplication Level Percentage of deduplicated Percentage of total 1 74.78510028653295 52.2 2 16.117478510028654 22.5 3 5.229226361031518 10.95 4 2.1131805157593124 5.8999999999999995 5 0.9670487106017192 3.375 6 0.3939828080229226 1.6500000000000001 7 0.17908309455587393 0.8750000000000001 8 0.03581661891117478 0.2 9 0.03581661891117478 0.22499999999999998 >10 0.10744985673352436 0.775 >50 0.03581661891117478 1.35 >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 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG 54 1.35 No Hit GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGTGTGGT 11 0.27499999999999997 No Hit CGAGAGGAGAAGGAGGAGAGCAGAGCTGTGAGGAGCATGGCAACCATGGC 10 0.25 No Hit GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGTGGGGG 10 0.25 No Hit GGCGTCTTTCCGGGCGGAGGGGTGGCAGGGCGAGATCGAGAACCTCAAGA 9 0.22499999999999998 No Hit CTGGTTTATCCCACAGAAAACTGGGAAACGCTTGGGAGATTCACTGTCGC 8 0.2 No Hit GATCGACTGGCTGTAGGAACTTACCATACAAAAATTTATGAACACTGTTT 7 0.17500000000000002 No Hit CAATGTCAAGAGAAGGCTGGGTCAACATCTACCTCATCACCCTCAGTTGA 7 0.17500000000000002 No Hit ACGAAGAAGATGAAGCATACTGCATAATTCCTGTTGAAATCTTGCATGTA 7 0.17500000000000002 No Hit TTACAAGACCCCAGATATAGAAACACCTAGTTACCTGATTCTGAAAAGGA 7 0.17500000000000002 No Hit GGAATGGCAGTGATGGCTGTCGGGGTGTACTGTGTGAGCCGGTATGCAGC 7 0.17500000000000002 No Hit TGATTTGATTACTTAACTCGCGTGTGATGCTCGTGTTAGTGGTTTGCTGA 6 0.15 No Hit TGAGAATATGACTCACTGCAAATCTGCAGGAGTCATACTATCTCACCTAG 6 0.15 No Hit AGTTCATGAGCATCGTCATCTCATCTGTTATCAGTGGCAACCCACTGTCC 6 0.15 No Hit AGTGGCCGGGATCGGAGGTGAAGGGCACCGGCGACCCGCTGGAGGACTAC 6 0.15 No Hit GGTCTTCAAGGACGTTGAGTTCTGAGAACAGGCCACCACGATGATGACGA 6 0.15 No Hit CCTCTCCAACTCCAATGAGAAATTGCTCCAATCCATCAAGAAGAAGGAGG 6 0.15 No Hit GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGTTTG 6 0.15 No Hit CTTACCAGGTCCAGACATAGCAAGGATTGACAGACTGAGAGCTCTTTCTT 6 0.15 No Hit TTGGGAGCTCTTGACTGGGCCAAAGTTGTTCATCAGCACCAAGGGTGGCG 6 0.15 No Hit GACTATCGCCGTTTAGGCGACGGAAGTTTGAGGCAATAACAGGTCTGTGA 6 0.15 No Hit GGCATCGTTACTTTGAAGAAATTAGAGTGCTCAAAGCAAGCCATCGCTCT 6 0.15 No Hit ATTCACCGGAGAAGTGCAGGTTACTGCCATATTGGAGGATGGGCGGGAAT 5 0.125 No Hit CACACGCAAAAATGGCACACAGTACAGGTCTGGTACAAGCTATTCTATTT 5 0.125 No Hit GGCAAGTGCAAGTGCGGCACCAGCTGCACCTGCACCAGCTGCACCTGCGG 5 0.125 No Hit GGTGGAACCAAACTGAAGGATTTTGTTGCCACTTTGCAATCCGACAGCAG 5 0.125 No Hit GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGT 5 0.125 No Hit CTAAAATGTCACCAACACATGAGCACTCAAATAGCACATCAGAAGATCCA 5 0.125 No Hit GGTCAACCTTTTAAACTGCCTGCTGAATCCATGAGCAGGCAAGAGACAAC 5 0.125 No Hit GCATAATAGCTCTCTCCTGATGGAATTTAACGTGACATGCTTTTCCCACA 5 0.125 No Hit CTCACAGAGGCAAGGATGTAAGGTTACCTTGTACCAAGATGCTCATGTCC 5 0.125 No Hit GGCAGGACGGCGGCGGCGCGCCGTGGGGCGTGGCGCTGGCGCTGGCGCTC 5 0.125 No Hit GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGTGGG 5 0.125 No Hit GGGAGAAGACCTGCTAGGTGCTATCGCCAAATCAAGAACAAGCCCTACCC 5 0.125 No Hit CACGATGCGGCTGGCGGTGCGGAGCGTCGCCAGGCAGTTCCCGACGGCGA 5 0.125 No Hit GAGACACCCACTTGGGAGGCGAGGACTTCGACAACCGGATGGTTAACCAC 5 0.125 No Hit ACAAGTCGCAGGCCATGATGGACTACTACGCCAAGATGGAGGGCAGCTTC 5 0.125 No Hit TGGATCTACAGCAATCAGGCAGCTGGAACCATGAACGGGATGATGGGGAA 5 0.125 No Hit GCAAGGACCACTGGCGAGCCCCTTTCAAAATACGCTGCCATGGCACACGC 5 0.125 No Hit CGGGGGTGGATTACGCCTGCAAGTCGATCGGCAAGCGCAAGCTCATCACC 5 0.125 No Hit CTGCGGTCATGCAACTTCAAAGATTCATCTGTCACCTGGATTCCTCTAAG 5 0.125 No Hit TACAAGGACCAGGGTTTCGAGATCCTTGCTTTCCCATGCAACCAGTTTGG 5 0.125 No Hit CAATCGAGAAGCTCCTGGAGTACGGCCACATGCTCGTCCAAGAGCAGGAC 5 0.125 No Hit AGCATCTGAAGAGGATTGCTGAAGAGATGCAGAAGCAGGTGGCTGCTGCA 5 0.125 No Hit ATGAACTTTGTTCATTCTATGCTTGGTGTAAGGATACTGGGGTGGCAAGG 5 0.125 No Hit ATGCAGAGTTCTCTTCCAAGGTGCTACATTTGAAAGGTGACAGGCAAGAC 5 0.125 No Hit CATGAACCTGGCTGATGCTATGACCAGGGCCAAGGTGCTGGACATTGACC 5 0.125 No Hit GACCTATGTGGTGCAGGATGGAGACATCATCTTCTTTAAGTTCAATGTTT 5 0.125 No Hit CCAACCAATCCCAGATCCCGTAATTCTCTCCCGAGTTTGTTTCTCCGCCC 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 0.025 0.0 0.0 0.0 0.0 46-47 0.075 0.0 0.0 0.0 0.0 48-49 0.075 0.0 0.0 0.0 0.0 50-51 0.075 0.0 0.0 0.0 0.0 52-53 0.16249999999999998 0.0 0.0 0.0 0.0 54-55 0.175 0.0 0.0 0.0 0.0 56-57 0.175 0.0 0.0 0.0 0.0 58-59 0.225 0.0 0.0 0.0 0.0 60-61 0.225 0.0 0.0 0.0 0.0 62-63 0.225 0.0 0.0 0.0 0.0 64-65 0.225 0.0 0.0 0.0 0.0 66-67 0.225 0.0 0.0 0.0 0.0 68-69 0.25 0.0 0.0 0.0 0.0 70-71 0.3 0.0 0.0 0.0 0.0 72-73 0.375 0.0 0.0 0.0 0.0 74-75 0.5 0.0 0.0 0.0 0.0 76-77 0.5625 0.0 0.0 0.0 0.0 78-79 0.675 0.0 0.0 0.0 0.0 80-81 0.7625 0.0 0.0 0.0 0.0 82-83 1.1125 0.0 0.0 0.0 0.0 84-85 1.3625 0.0 0.0 0.0 0.0 86-87 1.6625 0.0 0.0 0.0 0.0 88-89 1.975 0.0 0.0 0.0 0.0 90-91 2.2375 0.0 0.0 0.0 0.0 92-93 2.6500000000000004 0.0 0.0 0.0 0.0 94-95 3.05 0.0 0.0 0.0 0.0 96-97 3.425 0.0 0.0 0.0 0.0 98-99 4.075 0.0 0.0 0.0 0.0 100-101 4.575 0.0 0.0 0.0 0.0 102-103 5.1 0.0 0.0 0.0 0.0 104-105 5.512499999999999 0.0 0.0 0.0 0.0 106-107 6.35 0.0 0.0 0.0 0.0 108-109 7.0375 0.0 0.0 0.0 0.0 110-111 7.8125 0.0 0.0 0.0 0.0 112-113 8.5625 0.0 0.0 0.0 0.0 114-115 9.3 0.0 0.0 0.0 0.0 116-117 9.9 0.0 0.0 0.0 0.0 118-119 10.5 0.0 0.0 0.0 0.0 120-121 11.125 0.0 0.0 0.0 0.0 122-123 11.5875 0.0 0.0 0.0 0.0 124-125 12.7 0.0 0.0 0.0 0.0 126-127 13.45 0.0 0.0 0.0 0.0 128-129 14.2625 0.0 0.0 0.0 0.0 130-131 15.1875 0.0 0.0 0.0 0.0 132-133 15.7875 0.0 0.0 0.0 0.0 134-135 16.425 0.0 0.0 0.0 0.0 136-137 17.075000000000003 0.0 0.0 0.0 0.0 138-139 17.7125 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position ATCGAGC 10 0.006830828 145.0 2 GGGTTTT 20 0.00593511 29.0 40-44 GGGGGGT 145 0.0016653714 9.0 25-29 >>END_MODULE Read 1306524 spots for SRR13165380.sra Written 1306524 spots for SRR13165380.sra Read 1306524 spots for SRR13165380.sra Written 1306524 spots for SRR13165380.sra Read 1306524 spots for SRR13165380.sra Written 1306524 spots for SRR13165380.sra Read 1306524 spots for SRR13165380.sra Written 1306524 spots for SRR13165380.sra Read 1306524 spots for SRR13165380.sra Written 1306524 spots for SRR13165380.sra Read 1306537 spots for SRR13165380.sra Written 1306537 spots for SRR13165380.sra Read 1306524 spots for SRR13165380.sra Written 1306524 spots for SRR13165380.sra Read 1306524 spots for SRR13165380.sra Written 1306524 spots for SRR13165380.sra Read 1306524 spots for SRR13165380.sra Written 1306524 spots for SRR13165380.sra Read 1306524 spots for SRR13165380.sra Written 1306524 spots for SRR13165380.sra Read 1306524 spots for SRR13165380.sra Written 1306524 spots for SRR13165380.sra Read 1306524 spots for SRR13165380.sra Written 1306524 spots for SRR13165380.sra Read 1306524 spots for SRR13165380.sra Written 1306524 spots for SRR13165380.sra Read 1306524 spots for SRR13165380.sra Written 1306524 spots for SRR13165380.sra Read 1306524 spots for SRR13165380.sra Written 1306524 spots for SRR13165380.sra Read 1306524 spots for SRR13165380.sra Written 1306524 spots for SRR13165380.sra Read 1306524 spots for SRR13165380.sra Written 1306524 spots for SRR13165380.sra Read 1306524 spots for SRR13165380.sra Written 1306524 spots for SRR13165380.sra Read 1306524 spots for SRR13165380.sra Written 1306524 spots for SRR13165380.sra Read 1306524 spots for SRR13165380.sra Written 1306524 spots for SRR13165380.sra SRR ids: ['SRR13165380.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_9tfi3pb5 SRR13165380.sra spots: 26130493 blocks: [[1, 1306524], [1306525, 2613048], [2613049, 3919572], [3919573, 5226096], [5226097, 6532620], [6532621, 7839144], [7839145, 9145668], [9145669, 10452192], [10452193, 11758716], [11758717, 13065240], [13065241, 14371764], [14371765, 15678288], [15678289, 16984812], [16984813, 18291336], [18291337, 19597860], [19597861, 20904384], [20904385, 22210908], [22210909, 23517432], [23517433, 24823956], [24823957, 26130493]] SRR13165380 file size 8858584 SRR13165380 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 SRR13165380 SRR13165380_1.fastq SRR13165380_2.fastq Input file: SRR13165380_1.fastq Paired file: SRR13165380_2.fastq trimmed: SRR13165380-trimmed-pair1.fastq, SRR13165380-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 Sat Dec 7 16:55:52 2024 >> started Sat Dec 7 16:56:21 2024 >> done (29.215s) 26130493 read pairs processed; of these: 1424 ( 0.01%) short read pairs filtered out after trimming by size control 4199120 (16.07%) empty read pairs filtered out after trimming by size control 21929949 (83.92%) read pairs available; of these: 5787828 (26.39%) trimmed read pairs available after processing 16142121 (73.61%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 18 92 0.00% 19 62 0.00% 20 134 0.00% 21 142 0.00% 22 210 0.00% 23 297 0.00% 24 673 0.00% 25 247 0.00% 26 359 0.00% 27 370 0.00% 28 536 0.00% 29 424 0.00% 30 650 0.00% 31 517 0.00% 32 519 0.00% 33 580 0.00% 34 502 0.00% 35 490 0.00% 36 464 0.00% 37 636 0.00% 38 853 0.00% 39 640 0.00% 40 854 0.00% 41 970 0.00% 42 628 0.00% 43 933 0.00% 44 682 0.00% 45 928 0.00% 46 929 0.00% 47 999 0.00% 48 1053 0.00% 49 1175 0.01% 50 1324 0.01% 51 1624 0.01% 52 1636 0.01% 53 1702 0.01% 54 1924 0.01% 55 2055 0.01% 56 2195 0.01% 57 2275 0.01% 58 2284 0.01% 59 2578 0.01% 60 3195 0.01% 61 3306 0.02% 62 3795 0.02% 63 4111 0.02% 64 4580 0.02% 65 5054 0.02% 66 5319 0.02% 67 6080 0.03% 68 6301 0.03% 69 6919 0.03% 70 8175 0.04% 71 8534 0.04% 72 9991 0.05% 73 10855 0.05% 74 12256 0.06% 75 13259 0.06% 76 14727 0.07% 77 15763 0.07% 78 17237 0.08% 79 19168 0.09% 80 20480 0.09% 81 22509 0.10% 82 24932 0.11% 83 26823 0.12% 84 31034 0.14% 85 32830 0.15% 86 35629 0.16% 87 36586 0.17% 88 38895 0.18% 89 40048 0.18% 90 42351 0.19% 91 43481 0.20% 92 47117 0.21% 93 50216 0.23% 94 53156 0.24% 95 55816 0.25% 96 59049 0.27% 97 61762 0.28% 98 61947 0.28% 99 63551 0.29% 100 66196 0.30% 101 66659 0.30% 102 68336 0.31% 103 69884 0.32% 104 72624 0.33% 105 74103 0.34% 106 77125 0.35% 107 78469 0.36% 108 80688 0.37% 109 80735 0.37% 110 81419 0.37% 111 81635 0.37% 112 82920 0.38% 113 83395 0.38% 114 84899 0.39% 115 88796 0.40% 116 90595 0.41% 117 89978 0.41% 118 92712 0.42% 119 93661 0.43% 120 92803 0.42% 121 94075 0.43% 122 93947 0.43% 123 91900 0.42% 124 94426 0.43% 125 96783 0.44% 126 98641 0.45% 127 100094 0.46% 128 99626 0.45% 129 101040 0.46% 130 100860 0.46% 131 100229 0.46% 132 99469 0.45% 133 102510 0.47% 134 100455 0.46% 135 101582 0.46% 136 101919 0.46% 137 102768 0.47% 138 101069 0.46% 139 102130 0.47% 140 102169 0.47% 141 102148 0.47% 142 105100 0.48% 143 101594 0.46% 144 102174 0.47% 145 103964 0.47% 146 104267 0.48% 147 105509 0.48% 148 104264 0.48% 149 105630 0.48% 150 104872 0.48% 151 16142121 73.61% 21929949 reads passed initial QC criterion=sequence-density sequence-density=1.05 sequence-density-rank=1 fanout-score=2.46 fanout-score-rank=31 prefix-density=1.06 prefix-fanout=2.5 sequence=TGCCGCACTTGCAGGATGACCCGCAGTTGCAGTTTCCTCCGCAGCAAGACATCTTCGGTCGAGTGCTCGAACTTGCTTAGGAAGAAGATTAAGCTGAAGGCTTCTAGGCTTGTGTGTGCTTCTT criterion=fanout-score sequence-density=0.09 sequence-density-rank=22 fanout-score=100.07 fanout-score-rank=1 prefix-density=0.50 prefix-fanout=17.8 sequence=CTGCTGCTGCTG criterion=sequence-density sequence-density=0.62 sequence-density-rank=1 fanout-score=2.71 fanout-score-rank=33 prefix-density=0.71 prefix-fanout=2.4 sequence=GCACCAGCTGCACCTGC criterion=fanout-score sequence-density=0.09 sequence-density-rank=17 fanout-score=185.38 fanout-score-rank=1 prefix-density=0.63 prefix-fanout=25.2 sequence=CAAGAAGAAGGT SRR13165380 testing PE reads STAR mapping to Ensembl genome Started job on | Dec 07 16:57:06 Started mapping on | Dec 07 16:57:06 Finished on | Dec 07 16:59:37 Mapping speed, Million of reads per hour | 522.83 Number of input reads | 21929949 Average input read length | 285 UNIQUE READS: Uniquely mapped reads number | 20197712 Uniquely mapped reads % | 92.10% Average mapped length | 284.03 Number of splices: Total | 17613610 Number of splices: Annotated (sjdb) | 16381060 Number of splices: GT/AG | 17372507 Number of splices: GC/AG | 203236 Number of splices: AT/AC | 8678 Number of splices: Non-canonical | 29189 Mismatch rate per base, % | 0.22% Deletion rate per base | 0.01% Deletion average length | 2.76 Insertion rate per base | 0.01% Insertion average length | 2.37 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 339646 % of reads mapped to multiple loci | 1.55% Number of reads mapped to too many loci | 76384 % of reads mapped to too many loci | 0.35% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 4.68% % of reads unmapped: other | 1.32% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 1392862 1392862 1392862 N_multimapping 339646 339646 339646 N_noFeature 687030 19604660 886142 N_ambiguous 474792 3105 80994 UnstrandedReadsAssigned:19035890 PositiveStrandReadsAssigned:589947 NegativeStrandReadsAssigned:19230576 Dataset is classified negative stranded MeadianReadLen=151 20thPercentileLength=138 echo kmer=133 SRR13165380 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: SRR13165380-trimmed-pair1.fastq SRR13165380-trimmed-pair2.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 21,929,949 reads, 19,635,243 reads pseudoaligned [quant] estimated average fragment length: 212.884 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,185 rounds 52973 SRR13165380.ke.tsv 35125 SRR13165380.se.tsv 88098 total ==> SRR13165380.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 724.292 0 0 PNS24247 1044 832.116 106.156 9.04288 PNS24249 1928 1716.12 127.339 5.2597 PNS24246 1044 832.116 106.156 9.04288 PNS24248 1044 832.116 106.156 9.04288 PNS24244 1471 1259.12 176.192 9.91895 PNS24243 293 120.585 0 0 KQK14069 1603 1391.12 409.21 20.851 KQK14071 474 272.58 0 0 ==> SRR13165380.se.tsv <== BRADI_1g14170v3 416 BRADI_1g53295v3 151 BRADI_1g59795v3 259 BRADI_1g07683v3 0 BRADI_1g00485v3 22 BRADI_1g20270v3 481 BRADI_1g74790v3 905 BRADI_1g09890v3 1 BRADI_1g77505v3 194 BRADI_1g48960v3 0 SRR13165380 completed mapping pipeline successfully