Starting /dee2/code/volunteer_pipeline.sh SRR5578445 current disk space = 1523671941120 free memory = 1576390592 SRR5578445 SRAfilesize a36438437d28e4173198258f98779ca4 SRR5578445.sra SRR5578445.sra file validated SRR5578445 is paired end SRR5578445 is conventional basespace SRR5578445 read1 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5578445_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 43 >>END_MODULE >>Per base sequence quality fail #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 32.55925 34.0 33.0 34.0 33.0 34.0 2 33.29875 34.0 34.0 34.0 33.0 34.0 3 33.40925 34.0 34.0 34.0 33.0 34.0 4 33.39275 34.0 34.0 34.0 33.0 34.0 5 33.47775 34.0 34.0 34.0 33.0 34.0 6 36.9805 38.0 37.0 38.0 36.0 38.0 7 37.3285 38.0 38.0 38.0 37.0 38.0 8 37.49725 38.0 38.0 38.0 37.0 38.0 9 37.57575 38.0 38.0 38.0 38.0 38.0 10-14 37.57619999999999 38.0 38.0 38.0 38.0 38.0 15-19 37.60505 38.0 38.0 38.0 37.8 38.0 20-24 37.57725000000001 38.0 38.0 38.0 38.0 38.0 25-29 37.520950000000006 38.0 38.0 38.0 38.0 38.0 30-34 37.47055 38.0 38.0 38.0 38.0 38.0 35-39 37.32125 38.0 38.0 38.0 37.6 38.0 40-44 36.4722 38.0 37.6 38.0 33.4 38.0 45-49 37.17815 38.0 38.0 38.0 37.0 38.0 50-54 37.1018 38.0 38.0 38.0 36.6 38.0 55-59 37.072649999999996 38.0 38.0 38.0 36.6 38.0 60-64 36.9628 38.0 38.0 38.0 36.0 38.0 65-69 36.8304 38.0 38.0 38.0 35.8 38.0 70-74 35.610150000000004 38.0 37.4 38.0 28.2 38.0 75-79 30.16485 38.0 33.6 38.0 2.0 38.0 80-84 29.962149999999998 38.0 33.4 38.0 2.0 38.0 85-89 29.8373 38.0 33.0 38.0 2.0 38.0 90-94 29.6789 38.0 32.0 38.0 2.0 38.0 95-99 29.544600000000003 38.0 31.2 38.0 2.0 38.0 100-104 29.3921 38.0 29.4 38.0 2.0 38.0 105-109 29.269 38.0 28.6 38.0 2.0 38.0 110-114 29.130950000000002 38.0 27.6 38.0 2.0 38.0 115-119 28.951299999999996 38.0 26.0 38.0 2.0 38.0 120-124 28.8673 38.0 24.8 38.0 2.0 38.0 125-129 28.7301 38.0 23.2 38.0 2.0 38.0 130-134 28.45965 38.0 20.2 38.0 2.0 38.0 135-139 28.142199999999995 38.0 14.8 38.0 2.0 38.0 140-144 27.769099999999998 38.0 14.0 38.0 2.0 38.0 145-149 27.3166 36.6 11.0 38.0 2.0 38.0 150-151 24.296625 33.5 2.0 37.0 2.0 38.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 6 1.0 7 4.0 8 2.0 9 1.0 10 4.0 11 4.0 12 7.0 13 10.0 14 8.0 15 15.0 16 20.0 17 44.0 18 206.0 19 487.0 20 22.0 21 16.0 22 10.0 23 7.0 24 6.0 25 15.0 26 6.0 27 13.0 28 20.0 29 25.0 30 25.0 31 32.0 32 41.0 33 55.0 34 69.0 35 137.0 36 486.0 37 2202.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 57.40454076367389 10.47471620227038 8.539731682146542 23.581011351909183 2 24.0 28.425 24.875 22.7 3 20.165123842882164 14.886164623467602 39.82987240430323 25.11883912934701 4 21.325 19.825 21.975 36.875 5 40.550000000000004 21.3 23.575 14.575 6 37.574999999999996 26.200000000000003 22.7 13.525 7 12.75 40.0 34.0 13.25 8 15.65 40.0 27.375 16.975 9 35.199999999999996 19.025 29.799999999999997 15.975 10-14 23.445 29.73 22.415 24.41 15-19 21.765 25.324999999999996 27.560000000000002 25.35 20-24 22.64 28.49 27.200000000000003 21.67 25-29 20.630000000000003 26.314999999999998 28.115000000000002 24.94 30-34 21.275 27.05 26.415 25.259999999999998 35-39 22.355 29.255 22.6 25.790000000000003 40-44 19.48 25.215 29.995 25.31 45-49 26.650000000000002 26.155 30.830000000000002 16.365 50-54 24.03 22.075 25.69 28.205000000000002 55-59 22.235 21.83 34.25 21.685 60-64 20.94 28.09 29.49 21.48 65-69 16.5 43.685 21.755 18.060000000000002 70-74 18.47 43.07 20.669999999999998 17.79 75-79 18.425 38.29 22.2 21.085 80-84 21.154999999999998 34.055 23.905 20.885 85-89 23.72 29.99 24.32 21.97 90-94 21.25 27.82 27.639999999999997 23.29 95-99 19.84 29.154999999999998 28.110000000000003 22.895 100-104 19.975 36.66 23.11 20.255000000000003 105-109 19.425 39.910000000000004 21.845 18.82 110-114 18.9 37.525 21.625 21.95 115-119 18.995 36.9 22.345000000000002 21.759999999999998 120-124 20.97 34.73 21.240000000000002 23.06 125-129 20.715 34.839999999999996 21.404999999999998 23.04 130-134 21.560000000000002 33.25 21.715 23.474999999999998 135-139 21.14 33.485 23.044999999999998 22.33 140-144 20.93 33.184999999999995 22.400000000000002 23.485 145-149 20.905 34.2 21.205 23.69 150-151 19.55 34.375 21.337500000000002 24.7375 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 1.0 1 1.0 2 1.0 3 1.5 4 1.5 5 1.0 6 1.0 7 0.5 8 1.5 9 1.5 10 0.0 11 0.5 12 0.5 13 0.0 14 0.0 15 0.0 16 1.0 17 2.0 18 1.0 19 1.5 20 3.5 21 2.0 22 1.5 23 2.0 24 0.5 25 1.5 26 2.0 27 4.0 28 6.5 29 19.0 30 36.5 31 54.0 32 56.0 33 53.5 34 82.0 35 105.0 36 136.5 37 193.0 38 201.5 39 170.5 40 182.0 41 193.5 42 168.0 43 154.0 44 160.5 45 152.0 46 150.0 47 155.0 48 161.5 49 155.0 50 123.5 51 126.0 52 155.0 53 165.0 54 143.5 55 102.5 56 78.0 57 70.0 58 56.0 59 50.0 60 37.0 61 23.5 62 18.0 63 17.0 64 16.5 65 9.5 66 3.5 67 3.0 68 3.0 69 2.5 70 3.0 71 2.0 72 2.5 73 3.5 74 2.0 75 1.0 76 1.5 77 1.0 78 0.5 79 0.0 80 0.0 81 0.0 82 0.0 83 0.0 84 0.0 85 0.0 86 0.0 87 0.0 88 0.0 89 0.0 90 0.0 91 0.0 92 0.0 93 0.0 94 0.0 95 0.0 96 0.0 97 0.0 98 0.0 99 0.0 100 0.0 >>END_MODULE >>Per base N content pass #Base N-Count 1 3.1 2 0.0 3 0.075 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 52.1 #Duplication Level Percentage of deduplicated Percentage of total 1 76.7274472168906 39.975 2 12.428023032629557 12.950000000000001 3 4.750479846449136 7.425 4 2.015355086372361 4.2 5 1.3435700575815739 3.5000000000000004 6 0.7677543186180422 2.4 7 0.47984644913627633 1.7500000000000002 8 0.43186180422264875 1.7999999999999998 9 0.09596928982725528 0.44999999999999996 >10 0.9117082533589251 7.6499999999999995 >50 0.0 0.0 >100 0.0 0.0 >500 0.04798464491362764 17.9 >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 GATCGGAAGAGCACACGTCTGAACTCCAGTCACGACGACATCTCGTATGC 716 17.9 TruSeq Adapter, Index 6 (97% over 36bp) GCCTTATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGA 38 0.95 No Hit GGATAATTGGGATATTCTTTGGTATAGTTGGGATTTTAATATCATTAATA 26 0.65 No Hit GCCTCACTTAGTTACAGTTTTATGGATAATTGGGATATTCTTTGGTATAG 26 0.65 No Hit NATCGGAAGAGCACACGTCTGAACTCCAGTCACGACGACATCTCGTATGC 22 0.5499999999999999 TruSeq Adapter, Index 9 (97% over 35bp) GGATATTCTTTGGTATAGTTGGGATTTTAATATCATTAATAGCATGATGG 19 0.475 No Hit CTTATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGT 18 0.44999999999999996 No Hit GGGGTTATGAGTAGGGATGAGCATAAACCAACAACTCTCAAAGAAGATGG 16 0.4 No Hit GCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGTAGGGATGAGCATAA 16 0.4 No Hit GGGATATTCTTTGGTATAGTTGGGATTTTAATATCATTAATAGCATGATG 14 0.35000000000000003 No Hit GTGGCTATCTATCCCTACCAAGGCTTATATTGAAGTATAAACCAATGAGA 13 0.325 No Hit ATCGGAAGAGCACACGTCTGAACTCCAGTCACGACGACATCTCGTATGCC 12 0.3 TruSeq Adapter, Index 6 (97% over 35bp) CTTTGGTATAGTTGGGATTTTAATATCATTAATAGCATGATGGTGATTGT 12 0.3 No Hit AGGAGATGTTGGAACTCTACCAATTGGAGCTTTCTTAGCTGTCTTAGCAG 12 0.3 No Hit GGGGATAATTGCGCGGTTTTGACTGCGGAAGGAAGCCAAGGCCCACCTAA 11 0.27499999999999997 No Hit GGAAGCTATACTATATAGGTGGCTATCTATCCCTACCAAGGCTTATATTG 11 0.27499999999999997 No Hit GGGAAGCTATACTATATAGGTGGCTATCTATCCCTACCAAGGCTTATATT 10 0.25 No Hit GTCCTTACAAGTCCGCTCCTCGGGGAGCTTGATTGATAATTCTGTATAAG 10 0.25 No Hit GTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGTAGGGA 10 0.25 No Hit GCCATTCGGACCTACCGTAAGCCTATATTTCGTTTTTCTGAGACCTATCC 10 0.25 No Hit CAGGAGATGTTGGAACTCTACCAATTGGAGCTTTCTTAGCTGTCTTAGCA 9 0.22499999999999998 No Hit GCCCGTTTCAGGTGGTCCTCAGCGTACGGCGGGACCTCTGAGAATTGGGA 9 0.22499999999999998 No Hit GCCCTGACCCCGGGGAACAGTCGCATGACGAGGCAGTTTCCAGAAACGTG 8 0.2 No Hit CGGAAGAGCACACGTCTGAACTCCAGTCACGACGACATCTCGTATGCCGT 8 0.2 RNA PCR Primer, Index 41 (97% over 34bp) CCTCACTTAGTTACAGTTTTATGGATAATTGGGATATTCTTTGGTATAGT 8 0.2 No Hit AGATCGGAAGAGCACACGTCTGAACTCCAGTCACGACGACATCTCGTATG 8 0.2 TruSeq Adapter, Index 6 (97% over 36bp) GTCGAGTTGTACGGCCGTTCAGCCACGAGTCACGGGGTCTAACGCCTACC 8 0.2 No Hit CCGGGGAACAGTCGCATGACGAGGCAGTTTCCAGAAACGTGTATCACATC 8 0.2 No Hit GCTATCTATCCCTACCAAGGCTTATATTGAAGTATAAACCAATGAGAGAG 8 0.2 No Hit GGTGTACACCGCCCTTAGACGTCTTGGTATACGGACAACTGATGGACCCA 8 0.2 No Hit CCCATTTTTAGTTATAATGATGCCTTATGTGATAGATGCCTCTTTAAAAT 8 0.2 No Hit CTTACAAGTCCGCTCCTCGGGGAGCTTGATTGATAATTCTGTATAAGGTG 7 0.17500000000000002 No Hit GCTGGGGTTATGAGTAGGGATGAGCATAAACCAACAACTCTCAAAGAAGA 7 0.17500000000000002 No Hit CTCACTTAGTTACAGTTTTATGGATAATTGGGATATTCTTTGGTATAGTT 7 0.17500000000000002 No Hit CTGAGACAGAGTCGCTATCGTTATGTCTCCTTCCCGCGGTCAAGGCGAAA 7 0.17500000000000002 No Hit GCAGTAGTTTATAAGGAATATATCCCATTTTTAGTTATAATGATGCCTTA 7 0.17500000000000002 No Hit ATCCTATTTAGGGCTATTGATATTTAACAAATATCCAGCAAAGGTTTTTC 7 0.17500000000000002 No Hit ATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGTAGG 7 0.17500000000000002 No Hit GATATTCTTTGGTATAGTTGGGATTTTAATATCATTAATAGCATGATGGT 7 0.17500000000000002 No Hit CCATTTTTAGTTATAATGATGCCTTATGTGATAGATGCCTCTTTAAAATA 7 0.17500000000000002 No Hit GCTTTCTTAGCTGTCTTAGCAGTAGTTTATAAGGAATATATCCCATTTTT 7 0.17500000000000002 No Hit GGGCTATTGATATTTAACAAATATCCAGCAAAGGTTTTTCCAGGAGATGT 6 0.15 No Hit GTCTTGGTATACGGACAACTGATGGACCCACGTTGCGAGTCCAGTAAATC 6 0.15 No Hit GCCCATAACAATAGGAAATATCAGAAATCCAATAAGAATCAGCAATTCAG 6 0.15 No Hit GGCTATCTATCCCTACCAAGGCTTATATTGAAGTATAAACCAATGAGAGA 6 0.15 No Hit GCTAGCCCGTCGAGACTGAAAAGCTATAACCCGCAGACCCGAGCGAAAGC 6 0.15 No Hit GCAGTTAATAATTCTGGCAATTCGTCTCCACACTAGAAGTCGACGAACAA 6 0.15 No Hit GTTATGAGTAGGGATGAGCATAAACCAACAACTCTCAAAGAAGATGGGAA 6 0.15 No Hit GCAGTTTCCAGAAACGTGTATCACATCTAGGCATGGAATCTTATGCCAGC 6 0.15 No Hit CCAGGAGATGTTGGAACTCTACCAATTGGAGCTTTCTTAGCTGTCTTAGC 6 0.15 No Hit GGATGTTGTTGTTAGACACTTCTTTTTGTCTTTAAATATAAGGCGTGGTA 6 0.15 No Hit GTAGTTTATAAGGAATATATCCCATTTTTAGTTATAATGATGCCTTATGT 6 0.15 No Hit TGGCTATCTATCCCTACCAAGGCTTATATTGAAGTATAAACCAATGAGAG 6 0.15 No Hit GTTGGAACTCTACCAATTGGAGCTTTCTTAGCTGTCTTAGCAGTAGTTTA 6 0.15 No Hit CCCGTTTCAGGTGGTCCTCAGCGTACGGCGGGACCTCTGAGAATTGGGAT 6 0.15 No Hit ATTCTTTGGTATAGTTGGGATTTTAATATCATTAATAGCATGATGGTGAT 6 0.15 No Hit GATGCCTTATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTA 6 0.15 No Hit CACTGATCCAAGCGTCCGGTGTGTAAGCGTAACGATGTTGGTGTCGCTCT 5 0.125 No Hit GTCCAAAGTTAAGCTCTGCACCTGTTACACTATAGTCATCGTCCATAACA 5 0.125 No Hit ATCACATCTAGGCATGGAATCTTATGCCAGCTAACGGAACAAGCTTTGTG 5 0.125 No Hit GGAAGAAATATGACAAGGAGTAGTAGTGTGGATGTTGTTGTTAGACACTT 5 0.125 No Hit GGACAACTGATGGACCCACGTTGCGAGTCCAGTAAATCAGGACGGGGATA 5 0.125 No Hit GGGAGCTTGATTGATAATTCTGTATAAGGTGATCGCAGGTTGTGCAATCA 5 0.125 No Hit GCCAGCTAACGGAACAAGCTTTGTGCCATTCGGACCTACCGTAAGCCTAT 5 0.125 No Hit GTTGTTGTTAGACACTTCTTTTTGTCTTTAAATATAAGGCGTGGTAGAAT 5 0.125 No Hit TTATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGTA 5 0.125 No Hit GTTACAGTTTTATGGATAATTGGGATATTCTTTGGTATAGTTGGGATTTT 5 0.125 No Hit GTCGCAAAAAACCAGCAAAAATTCTTAACATTATTTTTAGAAATCCCATA 5 0.125 No Hit CCGCAGACCCGAGCGAAAGCGGCGGTCCTTACAAGTCCGCTCCTCGGGGA 5 0.125 No Hit CCCATAACAATAGGAAATATCAGAAATCCAATAAGAATCAGCAATTCAGG 5 0.125 No Hit CGGCGCTCTTCCTAGTTGGTACAGAACTGAGTGTCATGTGTCCAAAGTTA 5 0.125 No Hit GCCCTAACTGCGCAGTTAATAATTCTGGCAATTCGTCTCCACACTAGAAG 5 0.125 No Hit CGGCTGTCGAGTTGTACGGCCGTTCAGCCACGAGTCACGGGGTCTAACGC 5 0.125 No Hit CCCTGACCCCGGGGAACAGTCGCATGACGAGGCAGTTTCCAGAAACGTGT 5 0.125 No Hit GTGCCATTCGGACCTACCGTAAGCCTATATTTCGTTTTTCTGAGACCTAT 5 0.125 No Hit GTTTATAAGGAATATATCCCATTTTTAGTTATAATGATGCCTTATGTGAT 5 0.125 No Hit AGCAAAAATTCTTAACATTATTTTTAGAAATCCCATACTGCCACCGAATA 5 0.125 No Hit GGTCCTTACAAGTCCGCTCCTCGGGGAGCTTGATTGATAATTCTGTATAA 5 0.125 No Hit GTTTTTCTGAGACCTATCCGAGTTCAGTGCGACCGTACAGCTCTGGAACC 5 0.125 No Hit GTCGAGACTGAAAAGCTATAACCCGCAGACCCGAGCGAAAGCGGCGGTCC 5 0.125 No Hit GTATAGTTGGGATTTTAATATCATTAATAGCATGATGGTGATTGTTTTGA 5 0.125 No Hit GGCAGGTTCATTTTAAACGCGGTGACTAGGATGCTCATTTGAATGTCCCC 5 0.125 No Hit GCCTTCTCTCGTTCTCGCCCGCTTTGCAAAAATATCTAATATCAATTGCG 5 0.125 No Hit AGCGGCCCTGACCCCGGGGAACAGTCGCATGACGAGGCAGTTTCCAGAAA 5 0.125 No Hit GGCCTTATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATG 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 0.2 0.0 0.0 0.0 0.0 2 0.2 0.0 0.0 0.0 0.0 3 0.2 0.0 0.0 0.0 0.0 4 0.2 0.0 0.0 0.0 0.0 5 0.2 0.0 0.0 0.0 0.0 6 0.2 0.0 0.0 0.0 0.0 7 0.2 0.0 0.0 0.0 0.0 8 0.2 0.0 0.0 0.0 0.0 9 0.2 0.0 0.0 0.0 0.0 10-11 0.2 0.0 0.0 0.0 0.0 12-13 0.2 0.0 0.0 0.0 0.0 14-15 0.2 0.0 0.0 0.0 0.0 16-17 0.2 0.0 0.0 0.0 0.0 18-19 0.2 0.0 0.0 0.0 0.0 20-21 0.2 0.0 0.0 0.0 0.0 22-23 0.2 0.0 0.0 0.0 0.0 24-25 0.2 0.0 0.0 0.0 0.0 26-27 0.2 0.0 0.0 0.0 0.0 28-29 0.2 0.0 0.0 0.0 0.0 30-31 0.2 0.0 0.0 0.0 0.0 32-33 0.2 0.0 0.0 0.0 0.0 34-35 0.2 0.0 0.0 0.0 0.0 36-37 0.2 0.0 0.0 0.0 0.0 38-39 0.2 0.0 0.0 0.0 0.0 40-41 0.2 0.0 0.0 0.0 0.0 42-43 0.225 0.0 0.0 0.0 0.0 44-45 0.225 0.0 0.0 0.0 0.0 46-47 0.225 0.0 0.0 0.0 0.0 48-49 0.225 0.0 0.0 0.0 0.0 50-51 0.2375 0.0 0.0 0.0 0.0 52-53 0.25 0.0 0.0 0.0 0.0 54-55 0.25 0.0 0.0 0.0 0.0 56-57 0.25 0.0 0.0 0.0 0.0 58-59 0.25 0.0 0.0 0.0 0.0 60-61 0.275 0.0 0.0 0.0 0.0 62-63 0.3375 0.0 0.0 0.0 0.0 64-65 0.35 0.0 0.0 0.0 0.0 66-67 0.35 0.0 0.0 0.0 0.0 68-69 0.375 0.0 0.0 0.0 0.0 70-71 0.375 0.0 0.0 0.0 0.0 72-73 0.44999999999999996 0.0 0.0 0.0 0.0 74-75 0.5375 0.0 0.0 0.0 0.0 76-77 0.65 0.0 0.0 0.0 0.0 78-79 0.7875000000000001 0.0 0.0 0.0 0.0 80-81 0.85 0.0 0.0 0.0 0.0 82-83 1.0 0.0 0.0 0.0 0.0 84-85 1.1125 0.0 0.0 0.0 0.0 86-87 1.55 0.0 0.0 0.0 0.0 88-89 1.8875000000000002 0.0 0.0 0.0 0.0 90-91 2.1375 0.0 0.0 0.0 0.0 92-93 2.3875 0.0 0.0 0.0 0.0 94-95 2.7125 0.0 0.0 0.0 0.0 96-97 3.1875 0.0 0.0 0.0 0.0 98-99 3.6125 0.0 0.0 0.0 0.0 100-101 4.1 0.0 0.0 0.0 0.0 102-103 4.5875 0.0 0.0 0.0 0.0 104-105 5.2 0.0 0.0 0.0 0.0 106-107 5.6875 0.0 0.0 0.0 0.0 108-109 6.3 0.0 0.0 0.0 0.0 110-111 6.8 0.0 0.0 0.0 0.0 112-113 7.4125 0.0 0.0 0.0 0.0 114-115 8.0 0.0 0.0 0.0 0.0 116-117 8.8125 0.0 0.0 0.0 0.0 118-119 9.5 0.0 0.0 0.0 0.0 120-121 10.3125 0.0 0.0 0.0 0.0 122-123 11.1125 0.0 0.0 0.0 0.0 124-125 12.087499999999999 0.0 0.0 0.0 0.0 126-127 13.0125 0.0 0.0 0.0 0.0 128-129 13.925 0.0 0.0 0.0 0.0 130-131 14.7625 0.0 0.0 0.0 0.0 132-133 15.4625 0.0 0.0 0.0 0.0 134-135 16.175 0.0 0.0 0.0 0.0 136-137 16.9 0.0 0.0 0.0 0.0 138-139 17.5375 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position TGATATT 10 0.0068343505 144.975 8 TATTGAT 10 0.0068343505 144.975 5 ATTGATA 10 0.0068343505 144.975 6 CTATTGA 10 0.0068343505 144.975 4 GAGCACA 165 0.0 70.29091 9 AGAGCAC 165 0.0 70.29091 8 AAGAGCA 165 0.0 65.89773 7 GGAAGAG 165 0.0 65.89773 5 GAAGAGC 170 0.0 63.95956 6 TCGGAAG 175 0.0 62.13214 3 CGGAAGA 175 0.0 62.13214 4 GATCGGA 180 0.0 61.95513 1 ATCGGAA 180 0.0 60.40625 2 TGAAAAA 80 0.0 28.995 60-64 GCTTGAA 90 0.0 25.773335 55-59 CTTGAAA 90 0.0 25.773335 60-64 TTCTGCT 95 0.0 24.416842 55-59 TGCTTGA 95 0.0 24.416842 55-59 CCGTCTT 100 0.0 23.196001 50-54 GTCTTCT 100 0.0 23.196001 50-54 >>END_MODULE SRR5578445 read2 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5578445_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 44 >>END_MODULE >>Per base sequence quality fail #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 32.73575 33.0 33.0 34.0 32.0 34.0 2 32.76975 34.0 33.0 34.0 32.0 34.0 3 32.7235 33.0 33.0 34.0 32.0 34.0 4 32.66125 34.0 33.0 34.0 32.0 34.0 5 32.73875 34.0 33.0 34.0 32.0 34.0 6 36.79125 38.0 38.0 38.0 37.0 38.0 7 36.74625 38.0 38.0 38.0 36.0 38.0 8 36.7095 38.0 38.0 38.0 36.0 38.0 9 36.7845 38.0 38.0 38.0 36.0 38.0 10-14 36.75695 38.0 38.0 38.0 36.8 38.0 15-19 36.74285 38.0 38.0 38.0 36.4 38.0 20-24 36.74895000000001 38.0 38.0 38.0 36.8 38.0 25-29 36.68495 38.0 38.0 38.0 36.6 38.0 30-34 36.50965 38.0 38.0 38.0 35.6 38.0 35-39 36.38925 38.0 38.0 38.0 35.2 38.0 40-44 36.3521 38.0 38.0 38.0 35.2 38.0 45-49 35.8967 38.0 38.0 38.0 32.6 38.0 50-54 35.887 38.0 38.0 38.0 32.6 38.0 55-59 36.183499999999995 38.0 38.0 38.0 34.6 38.0 60-64 36.3631 38.0 38.0 38.0 35.6 38.0 65-69 33.9233 38.0 36.6 38.0 21.6 38.0 70-74 29.90165 38.0 33.0 38.0 2.0 38.0 75-79 29.82355 38.0 33.2 38.0 2.0 38.0 80-84 29.73655 38.0 33.2 38.0 2.0 38.0 85-89 29.649649999999998 38.0 32.0 38.0 2.0 38.0 90-94 29.5659 38.0 31.0 38.0 2.0 38.0 95-99 29.437400000000004 38.0 30.0 38.0 2.0 38.0 100-104 29.273699999999998 38.0 28.8 38.0 2.0 38.0 105-109 29.19015 38.0 27.8 38.0 2.0 38.0 110-114 28.97885 38.0 24.8 38.0 2.0 38.0 115-119 28.7677 38.0 23.2 38.0 2.0 38.0 120-124 28.575350000000004 38.0 19.8 38.0 2.0 38.0 125-129 28.3807 38.0 15.0 38.0 2.0 38.0 130-134 27.900349999999996 38.0 13.0 38.0 2.0 38.0 135-139 27.36565 38.0 13.0 38.0 2.0 38.0 140-144 26.756700000000002 36.8 4.2 38.0 2.0 38.0 145-149 25.65775 36.0 2.0 38.0 2.0 38.0 150-151 21.284625 28.0 2.0 36.0 2.0 38.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 2 37.0 3 6.0 4 3.0 5 5.0 6 5.0 7 5.0 8 6.0 9 3.0 10 5.0 11 11.0 12 17.0 13 16.0 14 22.0 15 33.0 16 95.0 17 560.0 18 29.0 19 14.0 20 8.0 21 9.0 22 13.0 23 10.0 24 17.0 25 16.0 26 9.0 27 17.0 28 20.0 29 22.0 30 30.0 31 43.0 32 49.0 33 70.0 34 93.0 35 174.0 36 440.0 37 2088.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 49.975 17.25 11.65 21.125 2 23.674999999999997 39.85 19.425 17.05 3 19.125 18.8 43.5 18.575 4 20.25 26.075 18.15 35.525 5 39.175 28.525 17.05 15.25 6 36.425000000000004 27.775 18.375 17.424999999999997 7 15.475 37.475 29.025000000000002 18.025 8 18.099999999999998 40.949999999999996 21.0 19.950000000000003 9 37.0 22.2 23.25 17.549999999999997 10-14 27.36 25.97 22.919999999999998 23.75 15-19 28.144999999999996 21.93 28.12 21.805 20-24 30.759999999999998 29.659999999999997 20.52 19.06 25-29 28.047804780478046 33.3033303330333 20.217021702170218 18.43184318431843 30-34 28.841536614645857 25.455182072829132 28.106242496998803 17.59703881552621 35-39 20.25708998149352 23.78332416345721 29.195218326414246 26.764367528635024 40-44 35.996799839992 20.616030801540077 25.166258312915645 18.220911045552278 45-49 24.46867030054508 19.307896184427666 26.55898384757714 29.664449667450114 50-54 22.341117055852795 23.621181059052955 31.776588829441472 22.261113055652782 55-59 18.236382733956884 32.18626519281749 31.250937828239884 18.326414244985745 60-64 17.8612514380033 40.4641624568599 23.113089581353474 18.561496523783326 65-69 17.443955164131307 41.50320256204964 22.70816653322658 18.34467574059247 70-74 19.0004502476362 37.70073540447246 22.962629446195407 20.336184901695933 75-79 19.318693412035415 36.54144364964234 23.400530238607374 20.739332699714872 80-84 21.083704407865113 34.532446089958476 24.37084104668034 20.013008455496074 85-89 22.322232223222322 32.1982198219822 24.952495249524954 20.527052705270528 90-94 22.992299229922992 32.05820582058206 24.56245624562456 20.387038703870385 95-99 22.377237723772378 33.19331933193319 24.47244724472447 19.95699569956996 100-104 22.17776221677587 34.231981193417695 22.99304756664833 20.597209023158104 105-109 22.396198099049524 36.238119059529765 21.73086543271636 19.634817408704354 110-114 21.27308211980183 34.914677475854475 22.69429014662463 21.117950257719063 115-119 22.351763822867152 35.34650988241181 22.211658744058045 20.090067550662997 120-124 22.505754027819474 34.41909336535575 23.001100770539377 20.0740518362854 125-129 23.740431280332217 34.22224445889828 21.47896132486116 20.558362935908338 130-134 23.81285964473355 31.673755316487366 24.02301726294721 20.490367775831874 135-139 24.506027712470612 32.61467660447202 22.715221849832425 20.16407383322495 140-144 25.982794838451532 31.634490347104133 23.687106131839553 18.69560868260478 145-149 25.406351587896975 31.76794198549637 23.270817704426104 19.554888722180543 150-151 25.35 31.412499999999998 22.925 20.3125 >>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 0.0 13 0.0 14 0.0 15 0.0 16 0.5 17 0.5 18 0.0 19 0.0 20 0.0 21 1.0 22 2.0 23 1.0 24 1.5 25 2.0 26 1.0 27 2.5 28 6.5 29 10.0 30 21.0 31 33.5 32 40.5 33 43.5 34 71.5 35 108.0 36 125.5 37 177.0 38 213.5 39 234.0 40 316.5 41 258.5 42 136.5 43 128.5 44 126.5 45 116.5 46 110.0 47 113.5 48 126.0 49 131.0 50 117.5 51 114.5 52 143.5 53 166.0 54 168.5 55 142.0 56 102.0 57 89.0 58 80.0 59 66.5 60 39.5 61 19.5 62 18.5 63 17.0 64 14.0 65 8.5 66 3.0 67 2.0 68 1.0 69 2.5 70 3.5 71 4.5 72 4.5 73 3.0 74 1.5 75 1.0 76 2.0 77 1.0 78 0.5 79 0.5 80 0.0 81 1.0 82 1.0 83 0.0 84 0.0 85 0.0 86 0.0 87 0.0 88 0.0 89 0.0 90 0.0 91 0.0 92 0.0 93 0.0 94 0.0 95 0.0 96 0.0 97 0.0 98 0.0 99 0.0 100 0.0 >>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 0.01 30-34 0.04 35-39 0.034999999999999996 40-44 0.005 45-49 0.015 50-54 0.005 55-59 0.034999999999999996 60-64 0.034999999999999996 65-69 0.08 70-74 0.055 75-79 0.045 80-84 0.065 85-89 0.01 90-94 0.01 95-99 0.01 100-104 0.034999999999999996 105-109 0.05 110-114 0.08499999999999999 115-119 0.075 120-124 0.06999999999999999 125-129 0.065 130-134 0.075 135-139 0.045 140-144 0.03 145-149 0.025 150-151 0.0 >>END_MODULE >>Sequence Length Distribution pass #Length Count 151 4000.0 >>END_MODULE >>Sequence Duplication Levels warn #Total Deduplicated Percentage 50.05 #Duplication Level Percentage of deduplicated Percentage of total 1 78.52147852147851 39.300000000000004 2 11.538461538461538 11.55 3 4.495504495504496 6.75 4 1.948051948051948 3.9 5 0.7492507492507493 1.875 6 0.6493506493506493 1.95 7 0.0999000999000999 0.35000000000000003 8 0.3996003996003996 1.6 9 0.1998001998001998 0.8999999999999999 >10 1.3486513486513485 13.725000000000001 >50 0.0 0.0 >100 0.0 0.0 >500 0.04995004995004995 18.099999999999998 >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 724 18.099999999999998 Illumina Single End PCR Primer 1 (100% over 50bp) CATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAAT 44 1.0999999999999999 No Hit GGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTC 37 0.9249999999999999 No Hit CCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGT 36 0.8999999999999999 No Hit GAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCC 34 0.8500000000000001 No Hit TAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGT 30 0.75 No Hit GGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTT 28 0.7000000000000001 No Hit CTTCAATATAAGCCTTGGTAGGGATAGATAGCCACCTATATAGTATAGCT 25 0.625 No Hit GCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCC 24 0.6 No Hit AATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGA 24 0.6 No Hit ATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAG 22 0.5499999999999999 No Hit CCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGG 22 0.5499999999999999 No Hit AGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTT 21 0.525 No Hit GCTGCTCACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGATCGTGG 21 0.525 No Hit GGACATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCC 19 0.475 No Hit ATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATA 19 0.475 No Hit GGTAGGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGA 17 0.42500000000000004 No Hit GGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATGGTTTTTA 15 0.375 No Hit GGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTCAAAACAATCAC 15 0.375 No Hit TAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGG 12 0.3 No Hit GCCACAGGCGTCATACTTCCCAAGAAGCGGCCATAGCCCAGATGCGAGGT 11 0.27499999999999997 No Hit TGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATGGTTTTT 11 0.27499999999999997 No Hit CTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTT 11 0.27499999999999997 No Hit TCCATTTCCGCCCAAGCTGCTCACAGTATACGGGCGTCGGCATCCAGACC 11 0.27499999999999997 No Hit CTTCCATTTCCGCCCAAGCTGCTCACAGTATACGGGCGTCGGCATCCAGA 10 0.25 No Hit AAAGAATATCCCAATTATCCATAAAACTGTAACTAAGTGAGGCTCTCTCA 10 0.25 No Hit CTGGACATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATC 10 0.25 No Hit GCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATG 10 0.25 No Hit GCCCAAGCTGCTCACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGA 9 0.22499999999999998 No Hit GGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATGGT 9 0.22499999999999998 No Hit GGGGCGTTGAGTCCGTCCGACTTCACTGCCCCCTTTCAGCCTTTTGGGTC 9 0.22499999999999998 No Hit CGGGCGTCGGCATCCAGACCGTCGGCTGATCGTGGTTTTACTAGGCTAGA 9 0.22499999999999998 No Hit CTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTCA 8 0.2 No Hit GTTAGGGCAGCGTCTGAGGAAGTTTGCTGCGGTTTCGCCTTGACCGCGGG 8 0.2 No Hit AGCTGCTCACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGATCGTG 8 0.2 No Hit GGCTTCCTTCCGCAGTCAAAACCGCGCAATTATCCCCGTCCTGATTTACT 8 0.2 No Hit GACGAATTGCCAGAATTATTAACTGCGCAGTTAGGGCAGCGTCTGAGGAA 8 0.2 No Hit TAGGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATG 8 0.2 No Hit AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCC 8 0.2 Illumina Single End PCR Primer 1 (100% over 50bp) GTAGGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGAT 8 0.2 No Hit AAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCT 7 0.17500000000000002 No Hit GTTCGATTTCTTAAAGGACTGAATATTCGGTGGCAGTATGGGATTTCTAA 7 0.17500000000000002 No Hit GCCAGAATTATTAACTGCGCAGTTAGGGCAGCGTCTGAGGAAGTTTGCTG 6 0.15 No Hit CAAGCTGCTCACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGATCG 6 0.15 No Hit GTCAAAACCGCGCAATTATCCCCGTCCTGATTTACTGGACTCGCAACGTG 6 0.15 No Hit AGTGAGGCTCTCTCATTGGTTTATACTTCAATATAAGCCTTGGTAGGGAT 6 0.15 No Hit CTCTCATTGGTTTATACTTCAATATAAGCCTTGGTAGGGATAGATAGCCA 6 0.15 No Hit AGGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATGG 6 0.15 No Hit GAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTCAAAACAATCACCA 6 0.15 No Hit CCCAATTATCCATAAAACTGTAACTAAGTGAGGCTCTCTCATTGGTTTAT 6 0.15 No Hit CGCCACAGGCGTCATACTTCCCAAGAAGCGGCCATAGCCCAGATGCGAGG 6 0.15 No Hit GCTGAGGACCACCTGAAACGGGCATCGTCGCTCTTCGTTGTTCGTCGACT 6 0.15 No Hit CGAATAGCTCGTAACCAAACATGCACAGCGGTCAAACAGTATGTCCCAAG 6 0.15 No Hit GGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATGGTTTTTAC 6 0.15 No Hit GGTATTTGCATTATTGATGGTTTTTACTATGTTGGGTATGCTGTTCGATT 6 0.15 No Hit GGTACCAAGAAAAAAACGAACCTTTGGGTTCCAGAGCTGTACGGTCGCAC 5 0.125 No Hit TGGACATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCC 5 0.125 No Hit CTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCT 5 0.125 No Hit GTCGCACTGAACTCGGATAGGTCTCAGAAAAACGAAATATAGGCTTACGG 5 0.125 No Hit CTGTAACTAAGTGAGGCTCTCTCATTGGTTTATACTTCAATATAAGCCTT 5 0.125 No Hit GGCTGATCGTGGTTTTACTAGGCTAGACTAGCGTACGAGCACTATGGTCA 5 0.125 No Hit CAGATTACTTCCATTTCCGCCCAAGCTGCTCACAGTATACGGGCGTCGGC 5 0.125 No Hit AAGCTGCTCACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGATCGT 5 0.125 No Hit AAAAAAACGAACCTTTGGGTTCCAGAGCTGTACGGTCGCACTGAACTCGG 5 0.125 No Hit CCCAGATGCGAGGTGGAAAAGTCACACTAGAGCGACACCAACATCGTTAC 5 0.125 No Hit ATTACTTCCATTTCCGCCCAAGCTGCTCACAGTATACGGGCGTCGGCATC 5 0.125 No Hit CACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGATCGTGGTTTTAC 5 0.125 No Hit CGGCATCCAGACCGTCGGCTGATCGTGGTTTTACTAGGCTAGACTAGCGT 5 0.125 No Hit CATATGTTTGCAGCATACTTTAGGTGGGCCTTGGCTTCCTTCCGCAGTCA 5 0.125 No Hit TCAATATAAGCCTTGGTAGGGATAGATAGCCACCTATATAGTATAGCTTC 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 0.2 0.0 0.0 0.0 0.0 2 0.2 0.0 0.0 0.0 0.0 3 0.2 0.0 0.0 0.0 0.0 4 0.2 0.0 0.0 0.0 0.0 5 0.2 0.0 0.0 0.0 0.0 6 0.2 0.0 0.0 0.0 0.0 7 0.2 0.0 0.0 0.0 0.0 8 0.2 0.0 0.0 0.0 0.0 9 0.2 0.0 0.0 0.0 0.0 10-11 0.2 0.0 0.0 0.0 0.0 12-13 0.2 0.0 0.0 0.0 0.0 14-15 0.2 0.0 0.0 0.0 0.0 16-17 0.2 0.0 0.0 0.0 0.0 18-19 0.2 0.0 0.0 0.0 0.0 20-21 0.2 0.0 0.0 0.0 0.0 22-23 0.2 0.0 0.0 0.0 0.0 24-25 0.2 0.0 0.0 0.0 0.0 26-27 0.2 0.0 0.0 0.0 0.0 28-29 0.2 0.0 0.0 0.0 0.0 30-31 0.2 0.0 0.0 0.0 0.0 32-33 0.2 0.0 0.0 0.0 0.0 34-35 0.2 0.0 0.0 0.0 0.0 36-37 0.2 0.0 0.0 0.0 0.0 38-39 0.2 0.0 0.0 0.0 0.0 40-41 0.2 0.0 0.0 0.0 0.0 42-43 0.225 0.0 0.0 0.0 0.0 44-45 0.225 0.0 0.0 0.0 0.0 46-47 0.225 0.0 0.0 0.0 0.0 48-49 0.225 0.0 0.0 0.0 0.0 50-51 0.2375 0.0 0.0 0.0 0.0 52-53 0.25 0.0 0.0 0.0 0.0 54-55 0.25 0.0 0.0 0.0 0.0 56-57 0.25 0.0 0.0 0.0 0.0 58-59 0.25 0.0 0.0 0.0 0.0 60-61 0.275 0.0 0.0 0.0 0.0 62-63 0.3375 0.0 0.0 0.0 0.0 64-65 0.35 0.0 0.0 0.0 0.0 66-67 0.35 0.0 0.0 0.0 0.0 68-69 0.375 0.0 0.0 0.0 0.0 70-71 0.375 0.0 0.0 0.0 0.0 72-73 0.42500000000000004 0.0 0.0 0.0 0.0 74-75 0.5125 0.0 0.0 0.0 0.0 76-77 0.625 0.0 0.0 0.0 0.0 78-79 0.7625 0.0 0.0 0.0 0.0 80-81 0.8375 0.0 0.0 0.0 0.0 82-83 0.925 0.0 0.0 0.0 0.0 84-85 1.075 0.0 0.0 0.0 0.0 86-87 1.5125 0.0 0.0 0.0 0.0 88-89 1.8624999999999998 0.0 0.0 0.0 0.0 90-91 2.1375 0.0 0.0 0.0 0.0 92-93 2.4 0.0 0.0 0.0 0.0 94-95 2.7125 0.0 0.0 0.0 0.0 96-97 3.2125000000000004 0.0 0.0 0.0 0.0 98-99 3.6624999999999996 0.0 0.0 0.0 0.0 100-101 4.1375 0.0 0.0 0.0 0.0 102-103 4.6125 0.0 0.0 0.0 0.0 104-105 5.1875 0.0 0.0 0.0 0.0 106-107 5.65 0.0 0.0 0.0 0.0 108-109 6.2875 0.0 0.0 0.0 0.0 110-111 6.7375 0.0 0.0 0.0 0.0 112-113 7.4375 0.0 0.0 0.0 0.0 114-115 8.0 0.0 0.0 0.0 0.0 116-117 8.8125 0.0 0.0 0.0 0.0 118-119 9.475 0.0 0.0 0.0 0.0 120-121 10.375 0.0 0.0 0.0 0.0 122-123 11.2 0.0 0.0 0.0 0.0 124-125 12.1125 0.0 0.0 0.0 0.0 126-127 13.0875 0.0 0.0 0.0 0.0 128-129 14.024999999999999 0.0 0.0 0.0 0.0 130-131 14.8 0.0 0.0 0.0 0.0 132-133 15.45 0.0 0.0 0.0 0.0 134-135 16.225 0.0 0.0 0.0 0.0 136-137 17.05 0.0 0.0 0.0 0.0 138-139 17.762500000000003 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content fail #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position GAGCGTC 155 0.0 74.838715 9 AGAGCGT 155 0.0 74.838715 8 GGAAGAG 165 0.0 70.30303 5 AAGAGCG 170 0.0 68.2353 7 GAAGAGC 170 0.0 68.2353 6 TCGGAAG 170 0.0 68.2353 3 CGGAAGA 175 0.0 66.28571 4 GATCGGA 180 0.0 64.44444 1 ATCGGAA 180 0.0 64.44444 2 TATCATT 95 0.0 25.947369 50-54 GTATCAT 90 0.0 25.777777 50-54 CATTAAA 90 0.0 25.777777 50-54 TCATTAA 90 0.0 25.777777 50-54 CCGTATC 95 0.0 24.421053 45-49 CGTATCA 95 0.0 24.421053 45-49 ATCATTA 95 0.0 24.421053 50-54 TAAAAAA 100 0.0 23.199999 55-59 GCCGTAT 100 0.0 23.199999 45-49 TTAAAAA 100 0.0 23.199999 55-59 TGGTCGC 105 0.0 22.095238 40-44 >>END_MODULE Read 715343 spots for SRR5578445.sra Written 715343 spots for SRR5578445.sra Read 715343 spots for SRR5578445.sra Written 715343 spots for SRR5578445.sra Read 715343 spots for SRR5578445.sra Written 715343 spots for SRR5578445.sra Read 715343 spots for SRR5578445.sra Written 715343 spots for SRR5578445.sra Read 715343 spots for SRR5578445.sra Written 715343 spots for SRR5578445.sra Read 715343 spots for SRR5578445.sra Written 715343 spots for SRR5578445.sra Read 715343 spots for SRR5578445.sra Written 715343 spots for SRR5578445.sra Read 715343 spots for SRR5578445.sra Written 715343 spots for SRR5578445.sra Read 715343 spots for SRR5578445.sra Written 715343 spots for SRR5578445.sra Read 715343 spots for SRR5578445.sra Written 715343 spots for SRR5578445.sra Read 715343 spots for SRR5578445.sra Written 715343 spots for SRR5578445.sra Read 715343 spots for SRR5578445.sra Written 715343 spots for SRR5578445.sra Read 715343 spots for SRR5578445.sra Written 715343 spots for SRR5578445.sra Read 715343 spots for SRR5578445.sra Written 715343 spots for SRR5578445.sra Read 715343 spots for SRR5578445.sra Written 715343 spots for SRR5578445.sra Read 715343 spots for SRR5578445.sra Written 715343 spots for SRR5578445.sra Read 715343 spots for SRR5578445.sra Written 715343 spots for SRR5578445.sra Read 715343 spots for SRR5578445.sra Written 715343 spots for SRR5578445.sra Read 715355 spots for SRR5578445.sra Written 715355 spots for SRR5578445.sra Read 715343 spots for SRR5578445.sra Written 715343 spots for SRR5578445.sra SRR ids: ['SRR5578445.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_9k2c_0tv SRR5578445.sra spots: 14306872 blocks: [[1, 715343], [715344, 1430686], [1430687, 2146029], [2146030, 2861372], [2861373, 3576715], [3576716, 4292058], [4292059, 5007401], [5007402, 5722744], [5722745, 6438087], [6438088, 7153430], [7153431, 7868773], [7868774, 8584116], [8584117, 9299459], [9299460, 10014802], [10014803, 10730145], [10730146, 11445488], [11445489, 12160831], [12160832, 12876174], [12876175, 13591517], [13591518, 14306872]] SRR5578445 file size 4826429 SRR5578445 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 SRR5578445 SRR5578445_1.fastq SRR5578445_2.fastq Input file: SRR5578445_1.fastq Paired file: SRR5578445_2.fastq trimmed: SRR5578445-trimmed-pair1.fastq, SRR5578445-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 17:50:54 2024 >> started Mon Dec 9 17:51:10 2024 >> done (16.116s) 14306872 read pairs processed; of these: 48738 ( 0.34%) short read pairs filtered out after trimming by size control 2675864 (18.70%) empty read pairs filtered out after trimming by size control 11582270 (80.96%) read pairs available; of these: 6898605 (59.56%) trimmed read pairs available after processing 4683665 (40.44%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 18 42 0.00% 19 66 0.00% 20 48 0.00% 21 70 0.00% 22 90 0.00% 23 94 0.00% 24 129 0.00% 25 62 0.00% 26 141 0.00% 27 122 0.00% 28 112 0.00% 29 115 0.00% 30 159 0.00% 31 169 0.00% 32 160 0.00% 33 154 0.00% 34 169 0.00% 35 341 0.00% 36 252 0.00% 37 242 0.00% 38 272 0.00% 39 195 0.00% 40 225 0.00% 41 273 0.00% 42 262 0.00% 43 477 0.00% 44 710 0.01% 45 1199 0.01% 46 1306 0.01% 47 1295 0.01% 48 1564 0.01% 49 2027 0.02% 50 1782 0.02% 51 2096 0.02% 52 2368 0.02% 53 1732 0.01% 54 1733 0.01% 55 1874 0.02% 56 1950 0.02% 57 2061 0.02% 58 2308 0.02% 59 2111 0.02% 60 2130 0.02% 61 2434 0.02% 62 2691 0.02% 63 3279 0.03% 64 4093 0.04% 65 6592 0.06% 66 10633 0.09% 67 15658 0.14% 68 33995 0.29% 69 85054 0.73% 70 112954 0.98% 71 46479 0.40% 72 22693 0.20% 73 16136 0.14% 74 13670 0.12% 75 12932 0.11% 76 12399 0.11% 77 12687 0.11% 78 12844 0.11% 79 13955 0.12% 80 14410 0.12% 81 15054 0.13% 82 17829 0.15% 83 18891 0.16% 84 21990 0.19% 85 23527 0.20% 86 24247 0.21% 87 26434 0.23% 88 27371 0.24% 89 29121 0.25% 90 30477 0.26% 91 30848 0.27% 92 33406 0.29% 93 35018 0.30% 94 35617 0.31% 95 37326 0.32% 96 38979 0.34% 97 39757 0.34% 98 40041 0.35% 99 42658 0.37% 100 45880 0.40% 101 45638 0.39% 102 44792 0.39% 103 49102 0.42% 104 50830 0.44% 105 52067 0.45% 106 53752 0.46% 107 53585 0.46% 108 55123 0.48% 109 51881 0.45% 110 52567 0.45% 111 55515 0.48% 112 58930 0.51% 113 65048 0.56% 114 68323 0.59% 115 67999 0.59% 116 65458 0.57% 117 63289 0.55% 118 60259 0.52% 119 60626 0.52% 120 63345 0.55% 121 62986 0.54% 122 65603 0.57% 123 69323 0.60% 124 71332 0.62% 125 70509 0.61% 126 71443 0.62% 127 68648 0.59% 128 63230 0.55% 129 69504 0.60% 130 66263 0.57% 131 65685 0.57% 132 68644 0.59% 133 70304 0.61% 134 72092 0.62% 135 70054 0.60% 136 69449 0.60% 137 68258 0.59% 138 73271 0.63% 139 73723 0.64% 140 75167 0.65% 141 72708 0.63% 142 85536 0.74% 143 85935 0.74% 144 88900 0.77% 145 99512 0.86% 146 118029 1.02% 147 139547 1.20% 148 195315 1.69% 149 373153 3.22% 150 2011607 17.37% 151 4683665 40.44% 11582270 reads passed initial QC criterion=sequence-density sequence-density=0.87 sequence-density-rank=1 fanout-score=21.71 fanout-score-rank=8 prefix-density=9.59 prefix-fanout=2.0 sequence=TTCGTTTTTTTTCTTG criterion=fanout-score sequence-density=0.01 sequence-density-rank=43 fanout-score=490.17 fanout-score-rank=1 prefix-density=2.57 prefix-fanout=1.0 sequence=GGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTCAAAACAATCACCATCATGCTATTAATGATATTAAAATCCCAACTATACCAAAGAATATCCCAATTATCCATAAAACTGTAACTAAGTGAGGCTCTCTCATTGGTTTATACTTCAATATAAGCCTTGGTAGGGATAGATAGCCACCTATATAGTATAGCTTCCCATCTTCTTTGAGAGTTGTTGGTTTATGCTCATCCCTACTCATAACCCCAGCACTTAGATATTTTAAAGAGGCATCTATCACATAAGGCATCATTATAACTAAAAATGGGATAT criterion=sequence-density sequence-density=1.46 sequence-density-rank=1 fanout-score=4.80 fanout-score-rank=17 prefix-density=7.00 prefix-fanout=1.0 sequence=CAAGAAAAAAAACGAA criterion=fanout-score sequence-density=0.07 sequence-density-rank=20 fanout-score=240.97 fanout-score-rank=1 prefix-density=16.68 prefix-fanout=1.0 sequence=ACCAAAGAATACCCC SRR5578445 testing PE reads STAR mapping to Ensembl genome Started job on | Dec 09 17:53:38 Started mapping on | Dec 09 17:53:38 Finished on | Dec 09 18:26:44 Mapping speed, Million of reads per hour | 21.00 Number of input reads | 11582270 Average input read length | 274 UNIQUE READS: Uniquely mapped reads number | 816175 Uniquely mapped reads % | 7.05% Average mapped length | 271.19 Number of splices: Total | 469523 Number of splices: Annotated (sjdb) | 439649 Number of splices: GT/AG | 463651 Number of splices: GC/AG | 5018 Number of splices: AT/AC | 180 Number of splices: Non-canonical | 674 Mismatch rate per base, % | 0.10% Deletion rate per base | 0.00% Deletion average length | 1.50 Insertion rate per base | 0.00% Insertion average length | 1.20 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 13831 % of reads mapped to multiple loci | 0.12% Number of reads mapped to too many loci | 4371 % of reads mapped to too many loci | 0.04% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 92.72% % of reads unmapped: other | 0.08% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 10754056 10754056 10754056 N_multimapping 13831 13831 13831 N_noFeature 23042 782003 35881 N_ambiguous 24946 81 3732 UnstrandedReadsAssigned:768187 PositiveStrandReadsAssigned:34091 NegativeStrandReadsAssigned:776562 Dataset is classified negative stranded MeadianReadLen=151 20thPercentileLength=124 echo kmer=119 SRR5578445 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: SRR5578445-trimmed-pair1.fastq SRR5578445-trimmed-pair2.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 11,582,270 reads, 790,799 reads pseudoaligned [quant] estimated average fragment length: 179.822 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 914 rounds 52973 SRR5578445.ke.tsv 35125 SRR5578445.se.tsv 88098 total ==> SRR5578445.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 757.324 0 0 PNS24247 1044 865.178 0 0 PNS24249 1928 1749.18 0 0 PNS24246 1044 865.178 0 0 PNS24248 1044 865.178 0 0 PNS24244 1471 1292.18 10 10.6649 PNS24243 293 133.853 0 0 KQK14069 1603 1424.18 224 216.752 KQK14071 474 299.397 0 0 ==> SRR5578445.se.tsv <== BRADI_1g14170v3 224 BRADI_1g53295v3 0 BRADI_1g59795v3 0 BRADI_1g07683v3 0 BRADI_1g00485v3 0 BRADI_1g20270v3 35 BRADI_1g74790v3 34 BRADI_1g09890v3 0 BRADI_1g77505v3 11 BRADI_1g48960v3 0 SRR5578445 completed mapping pipeline successfully