Starting /dee2/code/volunteer_pipeline.sh SRR5578441 current disk space = 1523687809024 free memory = 1579229488 SRR5578441 SRAfilesize 93677648b853d3c3296cf088bca6b787 SRR5578441.sra SRR5578441.sra file validated SRR5578441 is paired end SRR5578441 is conventional basespace SRR5578441 read1 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5578441_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 47 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 32.878 34.0 34.0 34.0 33.0 34.0 2 33.36925 34.0 34.0 34.0 33.0 34.0 3 33.494 34.0 34.0 34.0 33.0 34.0 4 33.50425 34.0 34.0 34.0 33.0 34.0 5 33.4735 34.0 34.0 34.0 33.0 34.0 6 37.119 38.0 38.0 38.0 36.0 38.0 7 37.44875 38.0 38.0 38.0 37.0 38.0 8 37.536 38.0 38.0 38.0 38.0 38.0 9 37.5775 38.0 38.0 38.0 38.0 38.0 10-14 37.50445 38.0 38.0 38.0 37.8 38.0 15-19 37.49465 38.0 38.0 38.0 37.8 38.0 20-24 37.5004 38.0 38.0 38.0 38.0 38.0 25-29 37.4413 38.0 38.0 38.0 38.0 38.0 30-34 37.379200000000004 38.0 38.0 38.0 37.8 38.0 35-39 37.3378 38.0 38.0 38.0 37.2 38.0 40-44 37.11835 38.0 38.0 38.0 36.8 38.0 45-49 37.1607 38.0 38.0 38.0 36.8 38.0 50-54 37.098699999999994 38.0 38.0 38.0 36.4 38.0 55-59 37.1258 38.0 38.0 38.0 36.4 38.0 60-64 37.0232 38.0 38.0 38.0 36.0 38.0 65-69 36.9405 38.0 38.0 38.0 36.0 38.0 70-74 36.6991 38.0 38.0 38.0 35.6 38.0 75-79 36.23015 38.0 38.0 38.0 34.8 38.0 80-84 36.1759 38.0 38.0 38.0 34.4 38.0 85-89 36.134550000000004 38.0 38.0 38.0 34.2 38.0 90-94 35.979600000000005 38.0 38.0 38.0 34.0 38.0 95-99 35.86619999999999 38.0 38.0 38.0 34.0 38.0 100-104 35.690799999999996 38.0 38.0 38.0 33.2 38.0 105-109 35.57895 38.0 38.0 38.0 33.0 38.0 110-114 35.3457 38.0 37.0 38.0 32.0 38.0 115-119 35.2654 38.0 36.8 38.0 31.4 38.0 120-124 35.03945 38.0 36.2 38.0 29.8 38.0 125-129 34.737700000000004 38.0 36.0 38.0 28.2 38.0 130-134 34.495349999999995 38.0 35.2 38.0 27.2 38.0 135-139 34.11035 38.0 35.2 38.0 24.2 38.0 140-144 33.7146 38.0 35.0 38.0 21.8 38.0 145-149 33.19455 38.0 34.4 38.0 15.8 38.0 150-151 29.256375 36.0 27.5 38.0 2.0 38.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 6 1.0 7 1.0 8 1.0 9 1.0 10 3.0 11 5.0 12 3.0 13 11.0 14 9.0 15 8.0 16 10.0 17 7.0 18 22.0 19 34.0 20 2.0 21 5.0 22 6.0 23 12.0 24 7.0 25 13.0 26 11.0 27 20.0 28 22.0 29 32.0 30 27.0 31 39.0 32 50.0 33 74.0 34 107.0 35 240.0 36 640.0 37 2577.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 43.06829765545362 13.200815494393476 10.805300713557594 32.92558613659531 2 27.925 15.1 28.325 28.65 3 23.517638228671505 19.83987990993245 25.093820365273956 31.548661496122094 4 25.8 25.3 24.05 24.85 5 26.29731762346453 29.681624467285033 24.56756079217849 19.453497117071947 6 21.475 34.5 26.200000000000003 17.825 7 15.975 25.025 39.925 19.075 8 19.85 25.35 30.099999999999998 24.7 9 20.65 24.45 33.050000000000004 21.85 10-14 23.105 27.99 25.72 23.185 15-19 22.415 26.695 26.650000000000002 24.240000000000002 20-24 22.145 26.314999999999998 26.840000000000003 24.7 25-29 21.72 26.505000000000003 27.11 24.665 30-34 21.81 27.21 25.569999999999997 25.41 35-39 22.365 26.265 26.729999999999997 24.64 40-44 24.11 26.005 26.155 23.73 45-49 23.974999999999998 26.810000000000002 26.415 22.8 50-54 24.834999999999997 26.484999999999996 24.815 23.865 55-59 22.645 26.540000000000003 25.845000000000002 24.97 60-64 22.785 27.165 25.41 24.64 65-69 22.345000000000002 28.285 25.195 24.175 70-74 23.75 28.455000000000002 24.34 23.455000000000002 75-79 22.605 26.99 24.75 25.655 80-84 23.72 27.325 24.915000000000003 24.04 85-89 24.325 26.445 25.195 24.035 90-94 24.275 25.900000000000002 25.555 24.27 95-99 23.685000000000002 25.945 25.814999999999998 24.555 100-104 24.279999999999998 26.740000000000002 24.45 24.529999999999998 105-109 23.73 27.93 24.13 24.21 110-114 23.115 27.38 24.33 25.174999999999997 115-119 23.400000000000002 27.49 24.14 24.97 120-124 24.40488097619524 27.495499099819966 23.059611922384477 25.040008001600324 125-129 23.727118135440634 27.243172951885562 23.67210163048915 25.35760728218466 130-134 23.705926481620406 27.216804201050266 23.58089522380595 25.496374093523382 135-139 23.10077519379845 27.22180545136284 24.76619154788697 24.91122780695174 140-144 23.476173808690433 28.136406820341016 23.33116655832792 25.056252812640633 145-149 23.286164308215408 27.711385569278463 23.04115205760288 25.961298064903243 150-151 23.65752910251596 26.736763049192643 23.67004631368131 25.935661534610087 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 1.0 1 0.5 2 0.5 3 0.5 4 0.0 5 0.0 6 0.0 7 0.5 8 0.5 9 0.5 10 1.5 11 1.5 12 1.0 13 0.5 14 0.0 15 0.0 16 1.5 17 1.5 18 0.0 19 0.5 20 1.0 21 1.0 22 1.5 23 2.5 24 1.5 25 1.0 26 3.0 27 4.5 28 6.5 29 14.5 30 26.0 31 45.0 32 52.5 33 62.0 34 74.0 35 92.0 36 119.5 37 144.5 38 158.5 39 141.0 40 134.0 41 122.5 42 112.0 43 122.5 44 113.5 45 113.0 46 132.0 47 136.5 48 148.5 49 154.5 50 141.5 51 143.0 52 151.5 53 148.0 54 125.0 55 114.0 56 104.5 57 85.5 58 78.5 59 85.0 60 80.0 61 59.5 62 57.5 63 54.5 64 45.0 65 37.5 66 32.5 67 28.5 68 26.5 69 28.5 70 21.5 71 13.5 72 16.0 73 16.5 74 12.5 75 11.0 76 9.0 77 5.5 78 5.5 79 3.0 80 1.5 81 2.5 82 2.0 83 1.0 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 1.9 2 0.0 3 0.075 4 0.0 5 0.27499999999999997 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 0.02 125-129 0.03 130-134 0.025 135-139 0.025 140-144 0.005 145-149 0.005 150-151 0.13749999999999998 >>END_MODULE >>Sequence Length Distribution pass #Length Count 151 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 81.125 #Duplication Level Percentage of deduplicated Percentage of total 1 89.86132511556241 72.89999999999999 2 5.978428351309708 9.700000000000001 3 1.8798151001540833 4.575 4 0.8012326656394453 2.6 5 0.40061633281972264 1.625 6 0.30816640986132515 1.5 7 0.2465331278890601 1.4000000000000001 8 0.21571648690292758 1.4000000000000001 9 0.09244992295839753 0.675 >10 0.21571648690292758 3.6249999999999996 >50 0.0 0.0 >100 0.0 0.0 >500 0.0 0.0 >1k 0.0 0.0 >5k 0.0 0.0 >10k+ 0.0 0.0 >>END_MODULE >>Overrepresented sequences fail #Sequence Count Percentage Possible Source GATCGGAAGAGCACACGTCTGAACTCCAGTCACGCCAATATCTCGTATGC 46 1.15 TruSeq Adapter, Index 6 (100% over 50bp) GCCTTATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGA 24 0.6 No Hit GCCTCACTTAGTTACAGTTTTATGGATAATTGGGATATTCTTTGGTATAG 21 0.525 No Hit ATCGGAAGAGCACACGTCTGAACTCCAGTCACGCCAATATCTCGTATGCC 17 0.42500000000000004 TruSeq Adapter, Index 6 (100% over 50bp) GGAAGCTATACTATATAGGTGGCTATCTATCCCTACCAAGGCTTATATTG 17 0.42500000000000004 No Hit GGATAATTGGGATATTCTTTGGTATAGTTGGGATTTTAATATCATTAATA 10 0.25 No Hit GCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGTAGGGATGAGCATAA 10 0.25 No Hit GGGAAGCTATACTATATAGGTGGCTATCTATCCCTACCAAGGCTTATATT 9 0.22499999999999998 No Hit GTAGTTTATAAGGAATATATCCCATTTTTAGTTATAATGATGCCTTATGT 9 0.22499999999999998 No Hit CATAACAATAGGAAATATCAGAAATCCAATAAGAATCAGCAATTCAGGAA 9 0.22499999999999998 No Hit GTAAAACGCAAGCACCGGCTGTCGAGTTGTACGGCCGTTCAGCCACGAGT 8 0.2 No Hit GGCTATTGATATTTAACAAATATCCAGCAAAGGTTTTTCCAGGAGATGTT 8 0.2 No Hit GGGATTTTAATATCATTAATAGCATGATGGTGATTGTTTTGAAAACCATA 8 0.2 No Hit CTTATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGT 8 0.2 No Hit GCCATTCGGACCTACCGTAAGCCTATATTTCGTTTTTCTGAGACCTATCC 8 0.2 No Hit GGATATTCTTTGGTATAGTTGGGATTTTAATATCATTAATAGCATGATGG 8 0.2 No Hit AGGAGATGTTGGAACTCTACCAATTGGAGCTTTCTTAGCTGTCTTAGCAG 8 0.2 No Hit AGATCGGAAGAGCACACGTCTGAACTCCAGTCACGCCAATATCTCGTATG 7 0.17500000000000002 TruSeq Adapter, Index 6 (100% over 49bp) CTTTAAAATATCTAAGTGCTGGGGTTATGAGTAGGGATGAGCATAAACCA 7 0.17500000000000002 No Hit CCCATTTTTAGTTATAATGATGCCTTATGTGATAGATGCCTCTTTAAAAT 7 0.17500000000000002 No Hit GGGCTATTGATATTTAACAAATATCCAGCAAAGGTTTTTCCAGGAGATGT 7 0.17500000000000002 No Hit GTGGCTATCTATCCCTACCAAGGCTTATATTGAAGTATAAACCAATGAGA 7 0.17500000000000002 No Hit GGACAACTGATGGACCCACGTTGCGAGTCCAGTAAATCAGGACGGGGATA 7 0.17500000000000002 No Hit GTTATGAGTAGGGATGAGCATAAACCAACAACTCTCAAAGAAGATGGGAA 7 0.17500000000000002 No Hit TGGGAAGCTATACTATATAGGTGGCTATCTATCCCTACCAAGGCTTATAT 7 0.17500000000000002 No Hit CAGTAGTTTATAAGGAATATATCCCATTTTTAGTTATAATGATGCCTTAT 6 0.15 No Hit CCGCTTTGATATTCTCTGCATCCTATTTAGGGCTATTGATATTTAACAAA 6 0.15 No Hit TGGCTATCTATCCCTACCAAGGCTTATATTGAAGTATAAACCAATGAGAG 6 0.15 No Hit GGCGGGACCTCTGAGAATTGGGATACAGGACCCAAAAGGCTGAAAGGGGG 6 0.15 No Hit GGGATAATTGCGCGGTTTTGACTGCGGAAGGAAGCCAAGGCCCACCTAAA 6 0.15 No Hit CGGGGAACAGTCGCATGACGAGGCAGTTTCCAGAAACGTGTATCACATCT 6 0.15 No Hit GCAGTTTCCAGAAACGTGTATCACATCTAGGCATGGAATCTTATGCCAGC 6 0.15 No Hit GGCAGTTTCCAGAAACGTGTATCACATCTAGGCATGGAATCTTATGCCAG 6 0.15 No Hit GGGGTTATGAGTAGGGATGAGCATAAACCAACAACTCTCAAAGAAGATGG 6 0.15 No Hit GGGATATTCTTTGGTATAGTTGGGATTTTAATATCATTAATAGCATGATG 6 0.15 No Hit CAGGAGATGTTGGAACTCTACCAATTGGAGCTTTCTTAGCTGTCTTAGCA 5 0.125 No Hit GCAGTAGTTTATAAGGAATATATCCCATTTTTAGTTATAATGATGCCTTA 5 0.125 No Hit GTGTACACCGCCCTTAGACGTCTTGGTATACGGACAACTGATGGACCCAC 5 0.125 No Hit CCTCACTTAGTTACAGTTTTATGGATAATTGGGATATTCTTTGGTATAGT 5 0.125 No Hit ATAACAATAGGAAATATCAGAAATCCAATAAGAATCAGCAATTCAGGAAG 5 0.125 No Hit GTGCCATTCGGACCTACCGTAAGCCTATATTTCGTTTTTCTGAGACCTAT 5 0.125 No Hit GATGCCTTATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTA 5 0.125 No Hit GCGGTTTTGACTGCGGAAGGAAGCCAAGGCCCACCTAAAGTATGCTGCAA 5 0.125 No Hit CCCGTTTCAGGTGGTCCTCAGCGTACGGCGGGACCTCTGAGAATTGGGAT 5 0.125 No Hit GTTTTTTTCTTGGTACCTATTCCTCCAGGAATTACTGACCATAGTGCTCG 5 0.125 No Hit CCCTGACCCCGGGGAACAGTCGCATGACGAGGCAGTTTCCAGAAACGTGT 5 0.125 No Hit TCTGCATCCTATTTAGGGCTATTGATATTTAACAAATATCCAGCAAAGGT 5 0.125 No Hit GCGGGACCTCTGAGAATTGGGATACAGGACCCAAAAGGCTGAAAGGGGGC 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 0.175 0.0 0.0 0.0 0.0 2 0.175 0.0 0.0 0.0 0.0 3 0.175 0.0 0.0 0.0 0.0 4 0.175 0.0 0.0 0.0 0.0 5 0.175 0.0 0.0 0.0 0.0 6 0.175 0.0 0.0 0.0 0.0 7 0.175 0.0 0.0 0.0 0.0 8 0.175 0.0 0.0 0.0 0.0 9 0.175 0.0 0.0 0.0 0.0 10-11 0.175 0.0 0.0 0.0 0.0 12-13 0.175 0.0 0.0 0.0 0.0 14-15 0.175 0.0 0.0 0.0 0.0 16-17 0.175 0.0 0.0 0.0 0.0 18-19 0.175 0.0 0.0 0.0 0.0 20-21 0.175 0.0 0.0 0.0 0.0 22-23 0.175 0.0 0.0 0.0 0.0 24-25 0.175 0.0 0.0 0.0 0.0 26-27 0.175 0.0 0.0 0.0 0.0 28-29 0.175 0.0 0.0 0.0 0.0 30-31 0.175 0.0 0.0 0.0 0.0 32-33 0.175 0.0 0.0 0.0 0.0 34-35 0.175 0.0 0.0 0.0 0.0 36-37 0.175 0.0 0.0 0.0 0.0 38-39 0.175 0.0 0.0 0.0 0.0 40-41 0.1875 0.0 0.0 0.0 0.0 42-43 0.2 0.0 0.0 0.0 0.0 44-45 0.2 0.0 0.0 0.0 0.0 46-47 0.2 0.0 0.0 0.0 0.0 48-49 0.2 0.0 0.0 0.0 0.0 50-51 0.2 0.0 0.0 0.0 0.0 52-53 0.225 0.0 0.0 0.0 0.0 54-55 0.225 0.0 0.0 0.0 0.0 56-57 0.225 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 0.2375 0.0 0.0 0.0 0.0 70-71 0.275 0.0 0.0 0.0 0.0 72-73 0.3375 0.0 0.0 0.0 0.0 74-75 0.3875 0.0 0.0 0.0 0.0 76-77 0.44999999999999996 0.0 0.0 0.0 0.0 78-79 0.55 0.0 0.0 0.0 0.0 80-81 0.625 0.0 0.0 0.0 0.0 82-83 0.7125 0.0 0.0 0.0 0.0 84-85 0.8625 0.0 0.0 0.0 0.0 86-87 1.0 0.0 0.0 0.0 0.0 88-89 1.2125 0.0 0.0 0.0 0.0 90-91 1.5 0.0 0.0 0.0 0.0 92-93 1.6875 0.0 0.0 0.0 0.0 94-95 1.9 0.0 0.0 0.0 0.0 96-97 2.3375000000000004 0.0 0.0 0.0 0.0 98-99 2.775 0.0 0.0 0.0 0.0 100-101 3.075 0.0 0.0 0.0 0.0 102-103 3.6125 0.0 0.0 0.0 0.0 104-105 4.1 0.0 0.0 0.0 0.0 106-107 4.8125 0.0 0.0 0.0 0.0 108-109 5.4375 0.0 0.0 0.0 0.0 110-111 6.0875 0.0 0.0 0.0 0.0 112-113 6.9625 0.0 0.0 0.0 0.0 114-115 7.8125 0.0 0.0 0.0 0.0 116-117 8.575 0.0 0.0 0.0 0.0 118-119 9.25 0.0 0.0 0.0 0.0 120-121 9.9875 0.0 0.0 0.0 0.0 122-123 10.6125 0.0 0.0 0.0 0.0 124-125 11.425 0.0 0.0 0.0 0.0 126-127 12.375 0.0 0.0 0.0 0.0 128-129 13.1375 0.0 0.0 0.0 0.0 130-131 13.8125 0.0 0.0 0.0 0.0 132-133 14.6 0.0 0.0 0.0 0.0 134-135 15.7875 0.0 0.0 0.0 0.0 136-137 16.6 0.0 0.0 0.0 0.0 138-139 17.4375 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position CTTAGAG 10 0.006832588 144.9875 7 AAAAAAA 205 0.004591374 7.072561 65-69 >>END_MODULE SRR5578441 read2 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5578441_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 48 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 32.89775 33.0 33.0 34.0 32.0 34.0 2 32.976 34.0 33.0 34.0 32.0 34.0 3 32.9225 34.0 33.0 34.0 32.0 34.0 4 32.89025 34.0 33.0 34.0 32.0 34.0 5 32.95675 34.0 33.0 34.0 33.0 34.0 6 36.985 38.0 38.0 38.0 37.0 38.0 7 37.08675 38.0 38.0 38.0 37.0 38.0 8 37.0235 38.0 38.0 38.0 37.0 38.0 9 36.91225 38.0 38.0 38.0 37.0 38.0 10-14 36.991150000000005 38.0 38.0 38.0 37.0 38.0 15-19 36.929449999999996 38.0 38.0 38.0 36.6 38.0 20-24 36.991400000000006 38.0 38.0 38.0 36.8 38.0 25-29 36.879149999999996 38.0 38.0 38.0 36.4 38.0 30-34 36.8313 38.0 38.0 38.0 36.4 38.0 35-39 36.7812 38.0 38.0 38.0 36.2 38.0 40-44 36.839800000000004 38.0 38.0 38.0 36.4 38.0 45-49 36.749 38.0 38.0 38.0 36.0 38.0 50-54 36.6913 38.0 38.0 38.0 36.0 38.0 55-59 36.670249999999996 38.0 38.0 38.0 35.8 38.0 60-64 36.6653 38.0 38.0 38.0 35.8 38.0 65-69 36.3698 38.0 38.0 38.0 34.8 38.0 70-74 35.8174 38.0 38.0 38.0 34.0 38.0 75-79 35.767199999999995 38.0 38.0 38.0 33.8 38.0 80-84 35.68750000000001 38.0 38.0 38.0 33.4 38.0 85-89 35.570800000000006 38.0 38.0 38.0 33.0 38.0 90-94 35.3913 38.0 38.0 38.0 31.6 38.0 95-99 35.26915 38.0 38.0 38.0 31.4 38.0 100-104 35.04879999999999 38.0 37.2 38.0 30.0 38.0 105-109 34.8685 38.0 36.8 38.0 28.6 38.0 110-114 34.6435 38.0 36.2 38.0 27.4 38.0 115-119 34.21945 38.0 35.8 38.0 23.4 38.0 120-124 33.918600000000005 38.0 35.0 38.0 22.6 38.0 125-129 33.5659 38.0 34.6 38.0 17.8 38.0 130-134 32.972950000000004 38.0 34.0 38.0 14.4 38.0 135-139 31.949850000000005 38.0 31.8 38.0 13.0 38.0 140-144 31.069499999999998 38.0 31.0 38.0 8.6 38.0 145-149 29.6887 36.4 29.8 38.0 2.0 38.0 150-151 24.035249999999998 31.0 11.5 36.5 2.0 38.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 2 22.0 3 1.0 4 2.0 5 3.0 6 3.0 7 1.0 8 3.0 9 1.0 10 5.0 11 6.0 12 12.0 13 10.0 14 7.0 15 7.0 16 22.0 17 43.0 18 9.0 19 6.0 20 8.0 21 15.0 22 11.0 23 7.0 24 20.0 25 15.0 26 13.0 27 26.0 28 33.0 29 46.0 30 50.0 31 77.0 32 83.0 33 120.0 34 185.0 35 325.0 36 772.0 37 2031.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 38.6 18.75 14.524999999999999 28.125 2 27.87090317738304 25.143857893420062 24.34325744308231 22.641981486114584 3 25.05 24.775 26.900000000000002 23.275000000000002 4 26.144608456342254 29.82236677508131 21.09081811358519 22.942206654991242 5 28.271203402551915 32.27420565424068 19.664748561421067 19.78984238178634 6 24.325 33.324999999999996 21.6 20.75 7 22.05 20.95 33.15 23.849999999999998 8 25.05 24.375 24.025 26.55 9 24.025 25.775 25.25 24.95 10-14 26.075 25.205 23.02 25.7 15-19 25.77 24.955 24.895 24.38 20-24 26.05 26.005 23.84 24.104999999999997 25-29 26.974999999999998 25.435000000000002 23.51 24.08 30-34 26.685 24.985 24.705 23.625 35-39 25.590000000000003 24.3 25.09 25.019999999999996 40-44 27.439999999999998 24.215 24.62 23.724999999999998 45-49 26.51 23.44 25.674999999999997 24.375 50-54 24.375 24.08 27.47 24.075 55-59 24.175 25.21 26.87 23.745 60-64 23.635 26.605 26.375 23.385 65-69 23.855 27.51 25.480000000000004 23.155 70-74 23.400000000000002 26.88 25.45 24.27 75-79 23.064999999999998 27.3 25.195 24.44 80-84 24.5 26.75 25.465 23.285 85-89 23.925 27.384999999999998 25.615 23.075000000000003 90-94 24.69 26.875 25.4 23.035 95-99 24.4 27.334999999999997 25.64 22.625 100-104 25.064999999999998 26.900000000000002 25.21 22.825 105-109 24.834999999999997 28.025 24.65 22.49 110-114 24.315 27.725 24.125 23.835 115-119 25.035 28.565 23.990000000000002 22.41 120-124 26.125 28.115000000000002 24.099999999999998 21.66 125-129 25.874999999999996 28.59 23.64 21.895 130-134 26.400000000000002 27.52 24.84 21.240000000000002 135-139 26.32 27.889999999999997 24.125 21.665 140-144 27.589999999999996 27.575 24.645 20.19 145-149 27.33 27.450000000000003 24.03 21.19 150-151 28.135550831561833 26.42240840315118 23.908965862198325 21.533074903088657 >>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 0.5 9 0.5 10 0.0 11 0.0 12 0.5 13 0.5 14 0.0 15 0.5 16 0.5 17 0.0 18 0.0 19 0.0 20 0.5 21 2.0 22 3.5 23 2.5 24 0.5 25 0.5 26 1.5 27 3.5 28 8.0 29 12.0 30 13.5 31 24.5 32 33.5 33 25.5 34 37.0 35 61.0 36 89.5 37 126.5 38 148.5 39 154.5 40 196.5 41 166.0 42 93.0 43 97.5 44 106.0 45 118.5 46 127.0 47 129.0 48 143.5 49 135.5 50 111.0 51 117.0 52 135.0 53 147.5 54 150.5 55 149.0 56 129.0 57 107.0 58 104.5 59 95.5 60 78.5 61 68.5 62 63.5 63 60.0 64 56.0 65 43.5 66 45.0 67 51.0 68 40.0 69 33.5 70 32.5 71 29.5 72 24.0 73 16.5 74 11.0 75 9.0 76 8.5 77 8.0 78 4.5 79 2.5 80 2.5 81 1.0 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 0.5 100 0.5 >>END_MODULE >>Per base N content pass #Base N-Count 1 0.0 2 0.075 3 0.0 4 0.075 5 0.075 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 0.0375 >>END_MODULE >>Sequence Length Distribution pass #Length Count 151 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 78.425 #Duplication Level Percentage of deduplicated Percentage of total 1 89.86292636276697 70.475 2 5.833598979917118 9.15 3 1.8489002231431302 4.35 4 0.7650621613006057 2.4 5 0.5100414408670704 2.0 6 0.2868983104877271 1.35 7 0.19126554032515142 1.05 8 0.0637551801083838 0.4 9 0.0318775900541919 0.22499999999999998 >10 0.6056742110296461 8.6 >50 0.0 0.0 >100 0.0 0.0 >500 0.0 0.0 >1k 0.0 0.0 >5k 0.0 0.0 >10k+ 0.0 0.0 >>END_MODULE >>Overrepresented sequences fail #Sequence Count Percentage Possible Source GATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCG 48 1.2 Illumina Single End PCR Primer 1 (100% over 50bp) GCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCC 27 0.675 No Hit CATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAAT 25 0.625 No Hit GGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTC 22 0.5499999999999999 No Hit TAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGT 21 0.525 No Hit CCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGT 19 0.475 No Hit GAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCC 17 0.42500000000000004 No Hit GGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTT 17 0.42500000000000004 No Hit CTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTT 16 0.4 No Hit GCTGCTCACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGATCGTGG 15 0.375 No Hit GCCACAGGCGTCATACTTCCCAAGAAGCGGCCATAGCCCAGATGCGAGGT 15 0.375 No Hit ATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGT 15 0.375 Illumina Single End PCR Primer 1 (100% over 50bp) AATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGA 14 0.35000000000000003 No Hit ATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATA 14 0.35000000000000003 No Hit CCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGG 14 0.35000000000000003 No Hit GCCCAAGCTGCTCACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGA 12 0.3 No Hit AGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTT 12 0.3 No Hit CTTCAATATAAGCCTTGGTAGGGATAGATAGCCACCTATATAGTATAGCT 11 0.27499999999999997 No Hit CTTCCATTTCCGCCCAAGCTGCTCACAGTATACGGGCGTCGGCATCCAGA 10 0.25 No Hit TGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATGGTTTTT 9 0.22499999999999998 No Hit AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCC 8 0.2 Illumina Single End PCR Primer 1 (100% over 50bp) GTAGGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGAT 8 0.2 No Hit GTTTTACTAGGCTAGACTAGCGTACGAGCACTATGGTCAGTAATTCCTGG 7 0.17500000000000002 No Hit ATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAG 7 0.17500000000000002 No Hit ATTACTTCCATTTCCGCCCAAGCTGCTCACAGTATACGGGCGTCGGCATC 7 0.17500000000000002 No Hit CTCTCATTGGTTTATACTTCAATATAAGCCTTGGTAGGGATAGATAGCCA 7 0.17500000000000002 No Hit GGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTCAAAACAATCAC 7 0.17500000000000002 No Hit TAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGG 7 0.17500000000000002 No Hit GTCAAAACCGCGCAATTATCCCCGTCCTGATTTACTGGACTCGCAACGTG 6 0.15 No Hit GTCTCGTACGGTTAAGAGCCTCCGCCCGTCTCTGGGACTATGGACGGGCA 6 0.15 No Hit GTGAGGCTCTCTCATTGGTTTATACTTCAATATAAGCCTTGGTAGGGATA 6 0.15 No Hit TGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTC 6 0.15 No Hit AAAGAATATCCCAATTATCCATAAAACTGTAACTAAGTGAGGCTCTCTCA 6 0.15 No Hit GGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATGGT 6 0.15 No Hit CTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCT 6 0.15 No Hit CTGAGGACCACCTGAAACGGGCATCGTCGCTCTTCGTTGTTCGTCGACTT 6 0.15 No Hit AAAACGAATAGCTCGTAACCAAACATGCACAGCGGTCAAACAGTATGTCC 6 0.15 No Hit TGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTCAAAACA 5 0.125 No Hit GCAGCGTCTGAGGAAGTTTGCTGCGGTTTCGCCTTGACCGCGGGAAGGAG 5 0.125 No Hit GGACATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCC 5 0.125 No Hit GACATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCA 5 0.125 No Hit GGTAGGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGA 5 0.125 No Hit CCCAAGCTGCTCACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGAT 5 0.125 No Hit CGGGCGTCGGCATCCAGACCGTCGGCTGATCGTGGTTTTACTAGGCTAGA 5 0.125 No Hit AGAATATCCCAATTATCCATAAAACTGTAACTAAGTGAGGCTCTCTCATT 5 0.125 No Hit CGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTCAAAACAATCA 5 0.125 No Hit GGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATGGTTTTTA 5 0.125 No Hit CAATTATCCATAAAACTGTAACTAAGTGAGGCTCTCTCATTGGTTTATAC 5 0.125 No Hit CCACAGGCGTCATACTTCCCAAGAAGCGGCCATAGCCCAGATGCGAGGTG 5 0.125 No Hit CACAGGCGTCATACTTCCCAAGAAGCGGCCATAGCCCAGATGCGAGGTGG 5 0.125 No Hit GGATAGATAGCCACCTATATAGTATAGCTTCCCATCTTCTTTGAGAGTTG 5 0.125 No Hit CTGGACATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATC 5 0.125 No Hit GGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATGGTTTTTAC 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 0.21250000000000002 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 0.225 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 0.25 0.0 0.0 0.0 0.0 62-63 0.25 0.0 0.0 0.0 0.0 64-65 0.25 0.0 0.0 0.0 0.0 66-67 0.25 0.0 0.0 0.0 0.0 68-69 0.2625 0.0 0.0 0.0 0.0 70-71 0.3 0.0 0.0 0.0 0.0 72-73 0.36250000000000004 0.0 0.0 0.0 0.0 74-75 0.4125 0.0 0.0 0.0 0.0 76-77 0.4625 0.0 0.0 0.0 0.0 78-79 0.5625 0.0 0.0 0.0 0.0125 80-81 0.65 0.0 0.0 0.0 0.025 82-83 0.7 0.0 0.0 0.0 0.025 84-85 0.8375 0.0 0.0 0.0 0.025 86-87 1.0 0.0 0.0 0.0 0.025 88-89 1.2 0.0 0.0 0.0 0.025 90-91 1.5 0.0 0.0 0.0 0.025 92-93 1.7374999999999998 0.0 0.0 0.0 0.025 94-95 2.0375 0.0 0.0 0.0 0.025 96-97 2.4875 0.0 0.0 0.0 0.025 98-99 2.9625000000000004 0.0 0.0 0.0 0.025 100-101 3.325 0.0 0.0 0.0 0.025 102-103 3.8375000000000004 0.0 0.0 0.0 0.025 104-105 4.35 0.0 0.0 0.0 0.025 106-107 5.05 0.0 0.0 0.0 0.025 108-109 5.699999999999999 0.0 0.0 0.0 0.025 110-111 6.3125 0.0 0.0 0.0 0.025 112-113 7.175 0.0 0.0 0.0 0.025 114-115 8.075 0.0 0.0 0.0 0.025 116-117 8.8125 0.0 0.0 0.0 0.025 118-119 9.4875 0.0 0.0 0.0 0.025 120-121 10.2 0.0 0.0 0.0 0.025 122-123 10.8 0.0 0.0 0.0 0.025 124-125 11.625 0.0 0.0 0.0 0.025 126-127 12.575 0.0 0.0 0.0 0.025 128-129 13.412500000000001 0.0 0.0 0.0 0.025 130-131 14.1875 0.0 0.0 0.0 0.025 132-133 15.025 0.0 0.0 0.0 0.025 134-135 16.2875 0.0 0.0 0.0 0.025 136-137 17.125 0.0 0.0 0.0 0.025 138-139 17.987499999999997 0.0 0.0 0.0 0.025 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position GGCGCAC 10 0.006830828 145.0 145 CACAGGC 10 0.006830828 145.0 3 AAAAAAA 175 9.6679485E-4 8.285714 60-64 >>END_MODULE Read 798721 spots for SRR5578441.sra Written 798721 spots for SRR5578441.sra Read 798721 spots for SRR5578441.sra Written 798721 spots for SRR5578441.sra Read 798721 spots for SRR5578441.sra Written 798721 spots for SRR5578441.sra Read 798721 spots for SRR5578441.sra Written 798721 spots for SRR5578441.sra Read 798721 spots for SRR5578441.sra Written 798721 spots for SRR5578441.sra Read 798721 spots for SRR5578441.sra Written 798721 spots for SRR5578441.sra Read 798722 spots for SRR5578441.sra Written 798722 spots for SRR5578441.sra Read 798721 spots for SRR5578441.sra Written 798721 spots for SRR5578441.sra Read 798721 spots for SRR5578441.sra Written 798721 spots for SRR5578441.sra Read 798721 spots for SRR5578441.sra Written 798721 spots for SRR5578441.sra Read 798721 spots for SRR5578441.sra Written 798721 spots for SRR5578441.sra Read 798721 spots for SRR5578441.sra Written 798721 spots for SRR5578441.sra Read 798721 spots for SRR5578441.sra Written 798721 spots for SRR5578441.sra Read 798721 spots for SRR5578441.sra Written 798721 spots for SRR5578441.sra Read 798721 spots for SRR5578441.sra Written 798721 spots for SRR5578441.sra Read 798721 spots for SRR5578441.sra Written 798721 spots for SRR5578441.sra Read 798721 spots for SRR5578441.sra Written 798721 spots for SRR5578441.sra Read 798721 spots for SRR5578441.sra Written 798721 spots for SRR5578441.sra Read 798721 spots for SRR5578441.sra Written 798721 spots for SRR5578441.sra Read 798721 spots for SRR5578441.sra Written 798721 spots for SRR5578441.sra SRR ids: ['SRR5578441.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_1mqlduaq SRR5578441.sra spots: 15974421 blocks: [[1, 798721], [798722, 1597442], [1597443, 2396163], [2396164, 3194884], [3194885, 3993605], [3993606, 4792326], [4792327, 5591047], [5591048, 6389768], [6389769, 7188489], [7188490, 7987210], [7987211, 8785931], [8785932, 9584652], [9584653, 10383373], [10383374, 11182094], [11182095, 11980815], [11980816, 12779536], [12779537, 13578257], [13578258, 14376978], [14376979, 15175699], [15175700, 15974421]] SRR5578441 file size 5391506 SRR5578441 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 SRR5578441 SRR5578441_1.fastq SRR5578441_2.fastq Input file: SRR5578441_1.fastq Paired file: SRR5578441_2.fastq trimmed: SRR5578441-trimmed-pair1.fastq, SRR5578441-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 17:41:02 2024 >> started Mon Dec 9 17:41:20 2024 >> done (18.071s) 15974421 read pairs processed; of these: 50856 ( 0.32%) short read pairs filtered out after trimming by size control 318189 ( 1.99%) empty read pairs filtered out after trimming by size control 15605376 (97.69%) read pairs available; of these: 9196628 (58.93%) trimmed read pairs available after processing 6408748 (41.07%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 18 12 0.00% 19 11 0.00% 20 12 0.00% 21 30 0.00% 22 36 0.00% 23 23 0.00% 24 41 0.00% 25 29 0.00% 26 35 0.00% 27 40 0.00% 28 40 0.00% 29 21 0.00% 30 47 0.00% 31 36 0.00% 32 34 0.00% 33 49 0.00% 34 54 0.00% 35 80 0.00% 36 54 0.00% 37 83 0.00% 38 66 0.00% 39 72 0.00% 40 84 0.00% 41 105 0.00% 42 113 0.00% 43 134 0.00% 44 156 0.00% 45 202 0.00% 46 265 0.00% 47 312 0.00% 48 331 0.00% 49 364 0.00% 50 457 0.00% 51 515 0.00% 52 591 0.00% 53 590 0.00% 54 602 0.00% 55 720 0.00% 56 743 0.00% 57 913 0.01% 58 1050 0.01% 59 929 0.01% 60 1045 0.01% 61 1364 0.01% 62 1481 0.01% 63 1644 0.01% 64 1964 0.01% 65 2615 0.02% 66 4431 0.03% 67 8855 0.06% 68 13675 0.09% 69 24445 0.16% 70 30757 0.20% 71 18611 0.12% 72 10416 0.07% 73 7712 0.05% 74 7397 0.05% 75 7473 0.05% 76 7743 0.05% 77 8174 0.05% 78 9106 0.06% 79 10169 0.07% 80 10977 0.07% 81 12028 0.08% 82 14073 0.09% 83 15674 0.10% 84 18878 0.12% 85 20845 0.13% 86 22168 0.14% 87 24213 0.16% 88 25589 0.16% 89 26630 0.17% 90 28578 0.18% 91 29406 0.19% 92 31016 0.20% 93 33793 0.22% 94 35173 0.23% 95 37196 0.24% 96 39337 0.25% 97 39117 0.25% 98 40913 0.26% 99 42213 0.27% 100 45184 0.29% 101 46711 0.30% 102 48850 0.31% 103 52055 0.33% 104 54361 0.35% 105 56552 0.36% 106 58391 0.37% 107 60149 0.39% 108 60921 0.39% 109 60226 0.39% 110 61752 0.40% 111 64664 0.41% 112 68476 0.44% 113 74406 0.48% 114 78041 0.50% 115 80328 0.51% 116 79057 0.51% 117 77908 0.50% 118 76774 0.49% 119 77757 0.50% 120 80843 0.52% 121 79580 0.51% 122 83013 0.53% 123 85864 0.55% 124 89189 0.57% 125 90168 0.58% 126 91921 0.59% 127 91007 0.58% 128 88732 0.57% 129 92512 0.59% 130 91185 0.58% 131 92644 0.59% 132 96076 0.62% 133 99476 0.64% 134 100675 0.65% 135 101176 0.65% 136 102407 0.66% 137 103439 0.66% 138 107521 0.69% 139 109955 0.70% 140 112107 0.72% 141 113731 0.73% 142 127436 0.82% 143 131814 0.84% 144 142295 0.91% 145 159603 1.02% 146 187133 1.20% 147 230859 1.48% 148 328729 2.11% 149 641596 4.11% 150 3124404 20.02% 151 6408748 41.07% 15605376 reads passed initial QC criterion=sequence-density sequence-density=0.72 sequence-density-rank=1 fanout-score=2.02 fanout-score-rank=31 prefix-density=0.73 prefix-fanout=2.0 sequence=ACCCGAACATGG criterion=fanout-score sequence-density=0.02 sequence-density-rank=35 fanout-score=36.85 fanout-score-rank=1 prefix-density=0.45 prefix-fanout=1.3 sequence=TTTTTTTTCTCGTTCTTTGGTCGCAATCCTGCGTAATCAACGCCGCAACTTTACGTCGGATTAGCTCTTCTTTGATTAGCATGAAACTCCAAGGTCCGGGGGGGTCACTTATCCTGGGCTTCATCCAATGGTGGGTGCTAACTCTTTAATAGCCTTCAGTGACTGTGAGATGCCGTCTACGAGTGGCACGAATCGCACGGATGTTTGGTTAAAGAACAGTCGCAGTTTTCCTCAAATCCCGCCACGAAACTAAGCGATTGAACTCTTGCCTGGTTACTGTATGCCCCTGTGTTATTGCAGCGTCTCGATTAGGGGGAAACCTTGTCACCGTCAGCTTATTCCCGAGGCATATGGCCCTACTTAACTGATCTGAAGTATTACGGTAACCGCGACGATAATAACCCGGACCAAATATAGCCTGATATGAGCGTGCCCGTCCATAGTCCCAGAGACGGGCGGAGGCTCTTAACCGTACGAGACAATCTCC criterion=sequence-density sequence-density=0.89 sequence-density-rank=1 fanout-score=4.72 fanout-score-rank=13 prefix-density=4.19 prefix-fanout=1.0 sequence=CAAGAAAAAAAACGAA criterion=fanout-score sequence-density=0.01 sequence-density-rank=38 fanout-score=37.10 fanout-score-rank=1 prefix-density=0.06 prefix-fanout=3.7 sequence=CAGCAGCGATTAAGGCAGAGGCGTTTGTATCTGCCATTATAAAGAAGTTTCCTCCAGCAACTCCTTTCTTAATTCCAAACTTAGCTTCAGTTATAAATTCCCCTCCCATGATTGGGATTTTATAAACTTTTCTTCCATATAATTCATCTTTCTTCTCATAACCGTCTCCGAAAAACTTCAACTTAAATCCAACCTTTAACTGCTCATCAGCCATGTCTCCCACAGCATCAAAAATAGCAGTTGTTGGACATGTTAAGACACACTGCCCCAATCTCTCTAACATTTGATGCTCTAACTCTGACTTTTTAGGGTGGCATATCTGTATTATAAATCCTGGTCTTCCATCTGGTGTTTTTGATGGAGGGACATATTTCTCAATTCCTGCTTCTGCTGGACACATTATAACTGAACAACCAAAACCTGTTGCCTCTGTAGCTGCAATCTTAGCCCACTTCTTTGTAGCTGCTGTTATTAAAACTCTTGAAACCCATATTGGGAATGCTTCTGCAAA SRR5578441 testing PE reads STAR mapping to Ensembl genome Started job on | Dec 09 17:43:03 Started mapping on | Dec 09 17:43:03 Finished on | Dec 09 18:10:12 Mapping speed, Million of reads per hour | 34.49 Number of input reads | 15605376 Average input read length | 282 UNIQUE READS: Uniquely mapped reads number | 7320262 Uniquely mapped reads % | 46.91% Average mapped length | 280.27 Number of splices: Total | 4523184 Number of splices: Annotated (sjdb) | 4248060 Number of splices: GT/AG | 4469192 Number of splices: GC/AG | 46143 Number of splices: AT/AC | 2974 Number of splices: Non-canonical | 4875 Mismatch rate per base, % | 0.09% Deletion rate per base | 0.00% Deletion average length | 1.38 Insertion rate per base | 0.00% Insertion average length | 1.18 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 111197 % of reads mapped to multiple loci | 0.71% Number of reads mapped to too many loci | 20010 % of reads mapped to too many loci | 0.13% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 51.79% % of reads unmapped: other | 0.46% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 8186465 8186465 8186465 N_multimapping 111197 111197 111197 N_noFeature 170779 7046379 263492 N_ambiguous 215637 580 35196 UnstrandedReadsAssigned:6933846 PositiveStrandReadsAssigned:273303 NegativeStrandReadsAssigned:7021574 Dataset is classified negative stranded MeadianReadLen=151 20thPercentileLength=133 echo kmer=129 SRR5578441 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: SRR5578441-trimmed-pair1.fastq SRR5578441-trimmed-pair2.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 15,605,376 reads, 7,065,304 reads pseudoaligned [quant] estimated average fragment length: 193.131 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,060 rounds 52973 SRR5578441.ke.tsv 35125 SRR5578441.se.tsv 88098 total ==> SRR5578441.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 743.967 0 0 PNS24247 1044 851.869 0 0 PNS24249 1928 1735.87 3.7984 0.33495 PNS24246 1044 851.869 0 0 PNS24248 1044 851.869 0 0 PNS24244 1471 1278.87 40.2016 4.81187 PNS24243 293 123.593 0 0 KQK14069 1603 1410.87 75 8.13712 KQK14071 474 286.341 0 0 ==> SRR5578441.se.tsv <== BRADI_1g14170v3 77 BRADI_1g53295v3 20 BRADI_1g59795v3 81 BRADI_1g07683v3 0 BRADI_1g00485v3 1 BRADI_1g20270v3 169 BRADI_1g74790v3 281 BRADI_1g09890v3 11 BRADI_1g77505v3 120 BRADI_1g48960v3 0 SRR5578441 completed mapping pipeline successfully