Starting /dee2/code/volunteer_pipeline.sh SRR5578463 current disk space = 1522678935552 free memory = 1574068004 SRR5578463 SRAfilesize 92300ccfa1a444369b1ebdb4e96ec4f5 SRR5578463.sra SRR5578463.sra file validated SRR5578463 is paired end SRR5578463 is conventional basespace SRR5578463 read1 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5578463_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 32.601 34.0 34.0 34.0 33.0 34.0 2 33.27075 34.0 34.0 34.0 33.0 34.0 3 33.33275 34.0 34.0 34.0 33.0 34.0 4 33.418 34.0 34.0 34.0 33.0 34.0 5 33.426 34.0 34.0 34.0 33.0 34.0 6 37.20775 38.0 38.0 38.0 36.0 38.0 7 37.47425 38.0 38.0 38.0 37.0 38.0 8 37.47725 38.0 38.0 38.0 37.0 38.0 9 37.523 38.0 38.0 38.0 38.0 38.0 10-14 37.54 38.0 38.0 38.0 38.0 38.0 15-19 37.541199999999996 38.0 38.0 38.0 38.0 38.0 20-24 37.5106 38.0 38.0 38.0 38.0 38.0 25-29 37.45495 38.0 38.0 38.0 38.0 38.0 30-34 37.40005 38.0 38.0 38.0 38.0 38.0 35-39 37.320449999999994 38.0 38.0 38.0 37.4 38.0 40-44 36.935199999999995 38.0 38.0 38.0 36.2 38.0 45-49 37.14205 38.0 38.0 38.0 37.0 38.0 50-54 37.12395 38.0 38.0 38.0 36.4 38.0 55-59 37.0959 38.0 38.0 38.0 36.2 38.0 60-64 37.02499999999999 38.0 38.0 38.0 36.0 38.0 65-69 36.9239 38.0 38.0 38.0 36.0 38.0 70-74 36.44330000000001 38.0 38.0 38.0 35.0 38.0 75-79 35.25215000000001 38.0 38.0 38.0 33.0 38.0 80-84 35.087900000000005 38.0 38.0 38.0 31.6 38.0 85-89 35.05165000000001 38.0 38.0 38.0 31.6 38.0 90-94 34.976 38.0 38.0 38.0 31.6 38.0 95-99 34.863299999999995 38.0 38.0 38.0 30.2 38.0 100-104 34.831 38.0 38.0 38.0 30.6 38.0 105-109 34.56484999999999 38.0 37.4 38.0 28.2 38.0 110-114 34.442750000000004 38.0 37.0 38.0 27.4 38.0 115-119 34.263 38.0 36.6 38.0 25.4 38.0 120-124 34.028000000000006 38.0 36.0 38.0 23.0 38.0 125-129 33.903299999999994 38.0 36.0 38.0 22.2 38.0 130-134 33.5772 38.0 35.2 38.0 17.2 38.0 135-139 33.258050000000004 38.0 35.0 38.0 14.2 38.0 140-144 32.815749999999994 38.0 34.6 38.0 13.4 38.0 145-149 32.10615 38.0 34.0 38.0 8.6 38.0 150-151 28.398 35.0 24.0 38.0 2.0 38.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 6 1.0 7 0.0 8 3.0 9 0.0 10 3.0 11 4.0 12 6.0 13 13.0 14 17.0 15 8.0 16 10.0 17 10.0 18 55.0 19 96.0 20 14.0 21 5.0 22 5.0 23 5.0 24 15.0 25 12.0 26 9.0 27 16.0 28 17.0 29 33.0 30 28.0 31 41.0 32 50.0 33 77.0 34 101.0 35 197.0 36 574.0 37 2575.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 44.88168724279835 12.217078189300413 11.805555555555555 31.095679012345677 2 25.5 17.349999999999998 29.725 27.425 3 22.225 18.099999999999998 26.025 33.650000000000006 4 24.7 25.2 22.25 27.85 5 28.596447335501622 27.070302727045288 24.64348261195897 19.68976732549412 6 25.174999999999997 31.424999999999997 24.8 18.6 7 13.65 28.9 40.75 16.7 8 19.125 27.125 30.55 23.200000000000003 9 22.425 23.825 32.125 21.625 10-14 22.0 29.445 25.52 23.035 15-19 21.834999999999997 26.71 27.125 24.33 20-24 22.28 26.76 27.11 23.849999999999998 25-29 21.83 27.27 27.045 23.855 30-34 21.125 27.500000000000004 26.825 24.55 35-39 22.395 25.945 25.324999999999996 26.334999999999997 40-44 22.955000000000002 25.8 26.33 24.915000000000003 45-49 23.599999999999998 26.784999999999997 27.529999999999998 22.085 50-54 23.11 25.605 26.05 25.235000000000003 55-59 22.355 25.91 27.82 23.915 60-64 22.405 27.439999999999998 25.89 24.265 65-69 20.65 31.264999999999997 24.834999999999997 23.25 70-74 21.845 30.445 23.995 23.715 75-79 22.07 28.115000000000002 24.46 25.355 80-84 22.595000000000002 27.595 25.679999999999996 24.13 85-89 23.315 27.615000000000002 25.180000000000003 23.89 90-94 23.47 27.12 25.235000000000003 24.175 95-99 22.34 27.310000000000002 25.945 24.404999999999998 100-104 22.505 29.035 24.285 24.175 105-109 22.765 30.225 23.669999999999998 23.34 110-114 22.615 29.07 23.315 25.0 115-119 22.065 28.849999999999998 24.02 25.064999999999998 120-124 22.625 28.585 23.330000000000002 25.46 125-129 22.28 28.815 22.81 26.095000000000002 130-134 23.145 27.55 23.035 26.27 135-139 21.995 28.065 24.21 25.729999999999997 140-144 22.875 27.084999999999997 23.665 26.375 145-149 22.23 27.675 23.244999999999997 26.85 150-151 22.14857428714357 26.93846923461731 23.43671835917959 27.47623811905953 >>END_MODULE >>Per sequence GC content warn #GC Content Count 0 5.0 1 3.0 2 1.0 3 1.5 4 2.5 5 2.0 6 1.5 7 1.5 8 1.5 9 1.0 10 0.0 11 0.5 12 1.0 13 1.0 14 0.5 15 0.0 16 0.0 17 0.0 18 0.5 19 0.5 20 0.5 21 1.0 22 0.5 23 0.5 24 0.5 25 0.0 26 0.5 27 3.0 28 6.0 29 11.5 30 20.5 31 32.0 32 38.5 33 48.5 34 57.0 35 75.5 36 104.5 37 144.5 38 151.0 39 132.5 40 150.5 41 152.5 42 147.0 43 149.0 44 152.5 45 157.0 46 165.5 47 174.5 48 168.0 49 168.0 50 165.5 51 156.0 52 163.0 53 148.5 54 120.5 55 105.5 56 97.0 57 96.0 58 80.0 59 59.0 60 45.0 61 38.5 62 37.0 63 35.5 64 34.5 65 24.5 66 18.0 67 21.5 68 17.5 69 12.0 70 14.5 71 13.5 72 11.0 73 11.0 74 8.5 75 7.5 76 7.0 77 5.0 78 4.0 79 2.5 80 1.5 81 1.5 82 1.0 83 0.5 84 0.0 85 0.5 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 2.8000000000000003 2 0.0 3 0.0 4 0.0 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 0.05 >>END_MODULE >>Sequence Length Distribution pass #Length Count 151 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 83.325 #Duplication Level Percentage of deduplicated Percentage of total 1 92.82928292829283 77.35 2 4.41044104410441 7.35 3 1.3201320132013201 3.3000000000000003 4 0.39003900390039004 1.3 5 0.36003600360036003 1.5 6 0.18001800180018002 0.8999999999999999 7 0.15001500150015 0.8750000000000001 8 0.06000600060006001 0.4 9 0.0 0.0 >10 0.27002700270027 3.175 >50 0.0 0.0 >100 0.030003000300030006 3.85 >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 GATCGGAAGAGCACACGTCTGAACTCCAGTCACGTCCGCATCTCGTATGC 154 3.85 TruSeq Adapter, Index 18 (100% over 50bp) GCCTTATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGA 31 0.775 No Hit ATCGGAAGAGCACACGTCTGAACTCCAGTCACGTCCGCATCTCGTATGCC 17 0.42500000000000004 TruSeq Adapter, Index 18 (100% over 50bp) GGAAGCTATACTATATAGGTGGCTATCTATCCCTACCAAGGCTTATATTG 13 0.325 No Hit GCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGTAGGGATGAGCATAA 12 0.3 No Hit GGGATATTCTTTGGTATAGTTGGGATTTTAATATCATTAATAGCATGATG 12 0.3 No Hit GGGAAGCTATACTATATAGGTGGCTATCTATCCCTACCAAGGCTTATATT 11 0.27499999999999997 No Hit CCCATTTTTAGTTATAATGATGCCTTATGTGATAGATGCCTCTTTAAAAT 11 0.27499999999999997 No Hit CTTATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGT 10 0.25 No Hit CTTTGGTATAGTTGGGATTTTAATATCATTAATAGCATGATGGTGATTGT 10 0.25 No Hit GCCTCACTTAGTTACAGTTTTATGGATAATTGGGATATTCTTTGGTATAG 8 0.2 No Hit GGATAATTGGGATATTCTTTGGTATAGTTGGGATTTTAATATCATTAATA 8 0.2 No Hit TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT 7 0.17500000000000002 No Hit CCTCACTTAGTTACAGTTTTATGGATAATTGGGATATTCTTTGGTATAGT 7 0.17500000000000002 No Hit CTCACTTAGTTACAGTTTTATGGATAATTGGGATATTCTTTGGTATAGTT 7 0.17500000000000002 No Hit GGGGTTATGAGTAGGGATGAGCATAAACCAACAACTCTCAAAGAAGATGG 7 0.17500000000000002 No Hit GGATATTCTTTGGTATAGTTGGGATTTTAATATCATTAATAGCATGATGG 7 0.17500000000000002 No Hit ATGCCTTATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTAT 6 0.15 No Hit GATGCCTTATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTA 6 0.15 No Hit GTCCTTACAAGTCCGCTCCTCGGGGAGCTTGATTGATAATTCTGTATAAG 6 0.15 No Hit GGCAGTTTCCAGAAACGTGTATCACATCTAGGCATGGAATCTTATGCCAG 6 0.15 No Hit CCATTTTTAGTTATAATGATGCCTTATGTGATAGATGCCTCTTTAAAATA 6 0.15 No Hit AGGAGATGTTGGAACTCTACCAATTGGAGCTTTCTTAGCTGTCTTAGCAG 6 0.15 No Hit GGCTATTGATATTTAACAAATATCCAGCAAAGGTTTTTCCAGGAGATGTT 5 0.125 No Hit GTGTACACCGCCCTTAGACGTCTTGGTATACGGACAACTGATGGACCCAC 5 0.125 No Hit CTGGGGTTATGAGTAGGGATGAGCATAAACCAACAACTCTCAAAGAAGAT 5 0.125 No Hit GTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGTAGGGA 5 0.125 No Hit GTAGTTTATAAGGAATATATCCCATTTTTAGTTATAATGATGCCTTATGT 5 0.125 No Hit TGGCTATCTATCCCTACCAAGGCTTATATTGAAGTATAAACCAATGAGAG 5 0.125 No Hit GTGTGCTAGCCCGTCGAGACTGAAAAGCTATAACCCGCAGACCCGAGCGA 5 0.125 No Hit GGGATAATTGCGCGGTTTTGACTGCGGAAGGAAGCCAAGGCCCACCTAAA 5 0.125 No Hit GCCCTGACCCCGGGGAACAGTCGCATGACGAGGCAGTTTCCAGAAACGTG 5 0.125 No Hit GTGGCTATCTATCCCTACCAAGGCTTATATTGAAGTATAAACCAATGAGA 5 0.125 No Hit NATCGGAAGAGCACACGTCTGAACTCCAGTCACGTCCGCATCTCGTATGC 5 0.125 TruSeq Adapter, Index 18 (98% over 50bp) TGCCATTCGGACCTACCGTAAGCCTATATTTCGTTTTTCTGAGACCTATC 5 0.125 No Hit >>END_MODULE >>Adapter Content fail #Position Illumina Universal Adapter Illumina Small RNA 3' Adapter Illumina Small RNA 5' Adapter Nextera Transposase Sequence SOLID Small RNA Adapter 1 0.0 0.0 0.0 0.0 0.0 2 0.0 0.0 0.0 0.0 0.0 3 0.0 0.0 0.0 0.0 0.0 4 0.0 0.0 0.0 0.0 0.0 5 0.0 0.0 0.0 0.0 0.0 6 0.0 0.0 0.0 0.0 0.0 7 0.0 0.0 0.0 0.0 0.0 8 0.0 0.0 0.0 0.0 0.0 9 0.0 0.0 0.0 0.0 0.0 10-11 0.0 0.0 0.0 0.0 0.0 12-13 0.0 0.0 0.0 0.0 0.0 14-15 0.0 0.0 0.0 0.0 0.0 16-17 0.0 0.0 0.0 0.0 0.0 18-19 0.0 0.0 0.0 0.0 0.0 20-21 0.0 0.0 0.0 0.0 0.0 22-23 0.0 0.0 0.0 0.0 0.0 24-25 0.0 0.0 0.0 0.0 0.0 26-27 0.0 0.0 0.0 0.0 0.0 28-29 0.0 0.0 0.0 0.0 0.0 30-31 0.0 0.0 0.0 0.0 0.0 32-33 0.0 0.0 0.0 0.0 0.0 34-35 0.0 0.0 0.0 0.0 0.0 36-37 0.0 0.0 0.0 0.0 0.0 38-39 0.0 0.0 0.0 0.0 0.0 40-41 0.0 0.0 0.0 0.0 0.0 42-43 0.0 0.0 0.0 0.0 0.0 44-45 0.0 0.0 0.0 0.0 0.0 46-47 0.0 0.0 0.0 0.0 0.0 48-49 0.0 0.0 0.0 0.0 0.0 50-51 0.0 0.0 0.0 0.0 0.0 52-53 0.0 0.0 0.0 0.0 0.0 54-55 0.0 0.0 0.0 0.0 0.0 56-57 0.037500000000000006 0.0 0.0 0.0 0.0 58-59 0.1 0.0 0.0 0.0 0.0 60-61 0.1 0.0 0.0 0.0 0.0 62-63 0.15 0.0 0.0 0.0 0.0 64-65 0.175 0.0 0.0 0.0 0.0 66-67 0.2375 0.0 0.0 0.0 0.0 68-69 0.275 0.0 0.0 0.0 0.0 70-71 0.3625 0.0 0.0 0.0 0.0 72-73 0.4 0.0 0.0 0.0 0.0 74-75 0.55 0.0 0.0 0.0 0.0 76-77 0.7250000000000001 0.0 0.0 0.0 0.0 78-79 0.8374999999999999 0.0 0.0 0.0 0.0 80-81 1.0499999999999998 0.0 0.0 0.0 0.0 82-83 1.375 0.0 0.0 0.0 0.0 84-85 1.925 0.0 0.0 0.0 0.0 86-87 2.4625000000000004 0.0 0.0 0.0 0.0 88-89 3.0125 0.0 0.0 0.0 0.0 90-91 3.5875 0.0 0.0 0.0 0.0 92-93 4.1375 0.0 0.0 0.0 0.0 94-95 4.85 0.0 0.0 0.0 0.0 96-97 5.7125 0.0 0.0 0.0 0.0 98-99 6.8125 0.0 0.0 0.0 0.0 100-101 7.8625 0.0 0.0 0.0 0.0 102-103 8.975000000000001 0.0 0.0 0.0 0.0 104-105 9.725 0.0 0.0 0.0 0.0 106-107 10.662500000000001 0.0 0.0 0.0 0.0 108-109 11.524999999999999 0.0 0.0 0.0 0.0 110-111 12.4375 0.0 0.0 0.0 0.0 112-113 13.5125 0.0 0.0 0.0 0.0 114-115 14.7 0.0 0.0 0.0 0.0 116-117 15.837499999999999 0.0 0.0 0.0 0.0 118-119 16.950000000000003 0.0 0.0 0.0 0.0 120-121 18.0125 0.0 0.0 0.0 0.0 122-123 19.200000000000003 0.0 0.0 0.0 0.0 124-125 20.4625 0.0 0.0 0.0 0.0 126-127 21.6875 0.0 0.0 0.0 0.0 128-129 23.137500000000003 0.0 0.0 0.0 0.0 130-131 24.45 0.0 0.0 0.0 0.0 132-133 25.6125 0.0 0.0 0.0 0.0 134-135 26.5 0.0 0.0 0.0 0.0 136-137 27.7875 0.0 0.0 0.0 0.0 138-139 28.9125 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position TTTTTTT 10 0.006836113 144.9625 2 AAGAGCA 160 1.3377066E-6 31.710545 7 GAAGAGC 160 1.3377066E-6 31.710545 6 AGAGCAC 160 1.3377066E-6 31.710545 8 TCTCGTA 70 7.3579163E-4 31.063395 145 GAGCACA 165 1.70167E-6 30.749622 9 GATCGGA 180 2.4573128E-6 29.285353 1 GGAAGAG 175 2.6947182E-6 28.992502 5 TCGGAAG 180 3.3573142E-6 28.187153 3 CGGAAGA 180 3.3573142E-6 28.187153 4 ATCGGAA 180 3.3573142E-6 28.187153 2 GAACTCC 140 8.3688705E-4 25.886162 145 CTGCTTG 45 2.492773E-5 22.549723 55-59 TGCTTGA 50 5.6199417E-5 20.29475 55-59 GCTTGAA 50 5.6199417E-5 20.29475 55-59 TCTGCTT 55 1.1691409E-4 18.449772 55-59 CGTATGC 55 1.1691409E-4 18.449772 40-44 TCGTATG 55 1.1691409E-4 18.449772 40-44 TTGAAAA 55 1.1691409E-4 18.449772 60-64 TCTTCTG 55 1.1691409E-4 18.449772 50-54 >>END_MODULE SRR5578463 read2 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5578463_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 47 >>END_MODULE >>Per base sequence quality fail #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 32.9115 33.0 33.0 34.0 32.0 34.0 2 32.973 34.0 33.0 34.0 32.0 34.0 3 32.9005 34.0 33.0 34.0 32.0 34.0 4 32.82575 34.0 33.0 34.0 32.0 34.0 5 32.943 34.0 33.0 34.0 33.0 34.0 6 37.0295 38.0 38.0 38.0 37.0 38.0 7 37.10375 38.0 38.0 38.0 37.0 38.0 8 37.063 38.0 38.0 38.0 37.0 38.0 9 37.08025 38.0 38.0 38.0 37.0 38.0 10-14 37.05705 38.0 38.0 38.0 37.0 38.0 15-19 36.99165000000001 38.0 38.0 38.0 37.0 38.0 20-24 37.0106 38.0 38.0 38.0 37.0 38.0 25-29 37.01195 38.0 38.0 38.0 37.0 38.0 30-34 36.944 38.0 38.0 38.0 36.8 38.0 35-39 36.8817 38.0 38.0 38.0 37.0 38.0 40-44 36.9057 38.0 38.0 38.0 37.0 38.0 45-49 36.79195 38.0 38.0 38.0 36.4 38.0 50-54 36.76825 38.0 38.0 38.0 36.6 38.0 55-59 36.80655 38.0 38.0 38.0 36.6 38.0 60-64 36.872899999999994 38.0 38.0 38.0 36.6 38.0 65-69 36.2756 38.0 38.0 38.0 35.2 38.0 70-74 35.3489 38.0 38.0 38.0 33.4 38.0 75-79 35.25925 38.0 38.0 38.0 33.0 38.0 80-84 35.24974999999999 38.0 38.0 38.0 33.0 38.0 85-89 35.134750000000004 38.0 38.0 38.0 32.6 38.0 90-94 35.0458 38.0 38.0 38.0 31.8 38.0 95-99 34.93205 38.0 38.0 38.0 31.0 38.0 100-104 34.74335 38.0 38.0 38.0 29.0 38.0 105-109 34.605599999999995 38.0 38.0 38.0 28.2 38.0 110-114 34.35015 38.0 37.4 38.0 25.6 38.0 115-119 34.024699999999996 38.0 36.2 38.0 21.8 38.0 120-124 33.69315 38.0 36.0 38.0 16.2 38.0 125-129 33.377500000000005 38.0 35.2 38.0 14.2 38.0 130-134 32.894099999999995 38.0 34.8 38.0 13.4 38.0 135-139 31.92185 38.0 33.0 38.0 6.4 38.0 140-144 31.016949999999998 38.0 31.4 38.0 2.0 38.0 145-149 29.17235 38.0 26.6 38.0 2.0 38.0 150-151 23.8795 31.5 2.0 37.0 2.0 38.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 2 19.0 3 2.0 4 0.0 5 1.0 6 2.0 7 2.0 8 4.0 9 2.0 10 4.0 11 13.0 12 7.0 13 4.0 14 14.0 15 16.0 16 15.0 17 118.0 18 10.0 19 13.0 20 9.0 21 9.0 22 14.0 23 12.0 24 10.0 25 20.0 26 17.0 27 19.0 28 30.0 29 42.0 30 34.0 31 44.0 32 67.0 33 108.0 34 144.0 35 264.0 36 598.0 37 2313.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 42.492492492492495 17.86786786786787 13.413413413413414 26.226226226226224 2 28.032008002000502 27.081770442610654 25.581395348837212 19.30482620655164 3 22.922922922922922 24.174174174174173 31.556556556556558 21.346346346346344 4 25.375375375375377 29.179179179179176 20.945945945945947 24.4994994994995 5 30.430430430430434 30.83083083083083 19.76976976976977 18.96896896896897 6 26.400000000000002 33.5 19.650000000000002 20.45 7 21.975 22.3 34.325 21.4 8 23.425 26.200000000000003 24.7 25.674999999999997 9 26.25 24.375 27.175 22.2 10-14 27.01 26.405 22.725 23.86 15-19 26.905 24.775 25.445 22.875 20-24 27.505000000000003 26.21 24.044999999999998 22.24 25-29 27.185 27.02 23.69 22.105 30-34 26.995 26.029999999999998 24.915000000000003 22.06 35-39 25.105 24.315 26.355 24.224999999999998 40-44 28.475 23.91 25.55 22.065 45-49 25.635 24.26 25.490000000000002 24.615000000000002 50-54 24.985 24.525 27.29 23.200000000000003 55-59 23.68 26.415 27.445000000000004 22.46 60-64 22.86 28.475 25.974999999999998 22.689999999999998 65-69 23.465 29.125 25.755 21.654999999999998 70-74 24.4 27.92 25.365 22.314999999999998 75-79 23.84238423842384 27.87778777877788 25.70757075707571 22.572257225722574 80-84 24.22 27.634999999999998 25.755 22.39 85-89 24.425 27.800000000000004 25.66 22.115000000000002 90-94 25.729999999999997 27.82 25.09 21.36 95-99 24.455 28.4 25.585 21.560000000000002 100-104 25.6 28.18 24.625 21.595 105-109 25.6 29.595 24.224999999999998 20.580000000000002 110-114 25.575 29.185 23.905 21.335 115-119 26.52 28.904999999999998 24.435000000000002 20.14 120-124 27.05 30.125 22.865 19.96 125-129 27.250000000000004 29.875 23.335 19.54 130-134 27.689999999999998 28.335 24.490000000000002 19.485 135-139 28.105000000000004 29.020000000000003 23.365 19.509999999999998 140-144 28.689999999999998 27.845 24.14 19.325 145-149 28.535 28.660000000000004 23.91 18.895 150-151 28.6125 28.3375 23.9 19.15 >>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 0.5 8 0.5 9 0.0 10 0.0 11 0.0 12 0.0 13 0.0 14 0.0 15 0.0 16 0.5 17 1.0 18 1.0 19 0.5 20 0.0 21 0.0 22 0.0 23 0.5 24 0.5 25 0.0 26 0.5 27 1.5 28 4.5 29 7.0 30 14.5 31 20.5 32 21.5 33 26.5 34 36.5 35 60.5 36 95.5 37 119.0 38 128.5 39 141.0 40 193.0 41 174.5 42 133.0 43 143.5 44 137.0 45 141.5 46 149.0 47 163.0 48 167.5 49 167.5 50 149.0 51 140.0 52 156.5 53 158.5 54 159.0 55 141.5 56 114.0 57 101.0 58 96.5 59 74.5 60 50.5 61 44.0 62 42.5 63 44.5 64 36.5 65 28.0 66 24.0 67 20.5 68 25.0 69 26.0 70 19.0 71 19.5 72 13.5 73 10.0 74 11.5 75 10.5 76 9.5 77 9.5 78 8.0 79 2.5 80 0.5 81 0.0 82 0.0 83 1.0 84 1.0 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 0.1 2 0.025 3 0.1 4 0.1 5 0.1 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 0.01 80-84 0.0 85-89 0.0 90-94 0.0 95-99 0.0 100-104 0.0 105-109 0.0 110-114 0.0 115-119 0.0 120-124 0.0 125-129 0.0 130-134 0.0 135-139 0.0 140-144 0.0 145-149 0.0 150-151 0.0 >>END_MODULE >>Sequence Length Distribution pass #Length Count 151 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 81.22500000000001 #Duplication Level Percentage of deduplicated Percentage of total 1 92.05909510618652 74.775 2 4.955370883348722 8.05 3 1.2927054478301014 3.15 4 0.43090181594336713 1.4000000000000001 5 0.43090181594336713 1.7500000000000002 6 0.1538935056940597 0.75 7 0.1538935056940597 0.8750000000000001 8 0.12311480455524776 0.8 9 0.06155740227762388 0.44999999999999996 >10 0.3077870113881194 4.175 >50 0.0 0.0 >100 0.03077870113881194 3.8249999999999997 >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 153 3.8249999999999997 Illumina Single End PCR Primer 1 (100% over 50bp) CATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAAT 36 0.8999999999999999 No Hit ATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAG 20 0.5 No Hit GGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTT 17 0.42500000000000004 No Hit AATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGA 15 0.375 No Hit CCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGT 15 0.375 No Hit CCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGG 14 0.35000000000000003 No Hit CTTCAATATAAGCCTTGGTAGGGATAGATAGCCACCTATATAGTATAGCT 13 0.325 No Hit GCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCC 13 0.325 No Hit GAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCC 12 0.3 No Hit GGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTCAAAACAATCAC 12 0.3 No Hit GGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTC 9 0.22499999999999998 No Hit ATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATA 9 0.22499999999999998 No Hit GCCCAAGCTGCTCACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGA 8 0.2 No Hit GGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATGGT 8 0.2 No Hit AGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTT 8 0.2 No Hit ACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTC 8 0.2 No Hit TAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGT 7 0.17500000000000002 No Hit TAGGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATG 7 0.17500000000000002 No Hit ATTACTTCCATTTCCGCCCAAGCTGCTCACAGTATACGGGCGTCGGCATC 7 0.17500000000000002 No Hit GTAGGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGAT 7 0.17500000000000002 No Hit TAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGG 7 0.17500000000000002 No Hit TGGACATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCC 6 0.15 No Hit CTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTT 6 0.15 No Hit AGAATATCCCAATTATCCATAAAACTGTAACTAAGTGAGGCTCTCTCATT 6 0.15 No Hit CTTCCATTTCCGCCCAAGCTGCTCACAGTATACGGGCGTCGGCATCCAGA 6 0.15 No Hit CAATTATCCATAAAACTGTAACTAAGTGAGGCTCTCTCATTGGTTTATAC 6 0.15 No Hit AAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTA 5 0.125 No Hit GGACATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCC 5 0.125 No Hit GTCTCGTACGGTTAAGAGCCTCCGCCCGTCTCTGGGACTATGGACGGGCA 5 0.125 No Hit GGTAGGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGA 5 0.125 No Hit GAATTATTAACTGCGCAGTTAGGGCAGCGTCTGAGGAAGTTTGCTGCGGT 5 0.125 No Hit TGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTC 5 0.125 No Hit CGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTCAAAACAATCA 5 0.125 No Hit ACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTCAAAACAATC 5 0.125 No Hit CAAACATGCACAGCGGTCAAACAGTATGTCCCAAGGGGACTTAAGCGCGG 5 0.125 No Hit CTCTCATTGGTTTATACTTCAATATAAGCCTTGGTAGGGATAGATAGCCA 5 0.125 No Hit AGCTGCTCACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGATCGTG 5 0.125 No Hit GTTCGATTTCTTAAAGGACTGAATATTCGGTGGCAGTATGGGATTTCTAA 5 0.125 No Hit ATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGT 5 0.125 Illumina Single End PCR Primer 1 (100% over 50bp) GCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATG 5 0.125 No Hit >>END_MODULE >>Adapter Content fail #Position Illumina Universal Adapter Illumina Small RNA 3' Adapter Illumina Small RNA 5' Adapter Nextera Transposase Sequence SOLID Small RNA Adapter 1 0.0 0.0 0.0 0.0 0.0 2 0.0 0.0 0.0 0.0 0.0 3 0.0 0.0 0.0 0.0 0.0 4 0.0 0.0 0.0 0.0 0.0 5 0.0 0.0 0.0 0.0 0.0 6 0.0 0.0 0.0 0.0 0.0 7 0.0 0.0 0.0 0.0 0.0 8 0.0 0.0 0.0 0.0 0.0 9 0.0 0.0 0.0 0.0 0.0 10-11 0.0 0.0 0.0 0.0 0.0 12-13 0.0 0.0 0.0 0.0 0.0 14-15 0.0 0.0 0.0 0.0 0.0 16-17 0.0 0.0 0.0 0.0 0.0 18-19 0.0 0.0 0.0 0.0 0.0 20-21 0.0 0.0 0.0 0.0 0.0 22-23 0.0 0.0 0.0 0.0 0.0 24-25 0.0 0.0 0.0 0.0 0.0 26-27 0.0 0.0 0.0 0.0 0.0 28-29 0.0 0.0 0.0 0.0 0.0 30-31 0.0 0.0 0.0 0.0 0.0 32-33 0.0 0.0 0.0 0.0 0.0 34-35 0.0 0.0 0.0 0.0 0.0 36-37 0.0 0.0 0.0 0.0 0.0 38-39 0.0 0.0 0.0 0.0 0.0 40-41 0.0 0.0 0.0 0.0 0.0 42-43 0.0 0.0 0.0 0.0 0.0 44-45 0.0 0.0 0.0 0.0 0.0 46-47 0.0 0.0 0.0 0.0 0.0 48-49 0.0 0.0 0.0 0.0 0.0 50-51 0.0 0.0 0.0 0.0 0.0 52-53 0.0 0.0 0.0 0.0 0.0 54-55 0.0 0.0 0.0 0.0 0.0 56-57 0.0125 0.0 0.0 0.0 0.0 58-59 0.0875 0.0 0.0 0.0 0.0 60-61 0.1 0.0 0.0 0.0 0.0 62-63 0.15 0.0 0.0 0.0 0.0 64-65 0.175 0.0 0.0 0.0 0.0 66-67 0.25 0.0 0.0 0.0 0.0 68-69 0.30000000000000004 0.0 0.0 0.0 0.0 70-71 0.3875 0.0 0.0 0.0 0.0 72-73 0.42500000000000004 0.0 0.0 0.0 0.0 74-75 0.575 0.0 0.0 0.0 0.0 76-77 0.7250000000000001 0.0 0.0 0.0 0.0 78-79 0.875 0.0 0.0 0.0 0.0 80-81 1.1 0.0 0.0 0.0 0.0 82-83 1.425 0.0 0.0 0.0 0.0 84-85 1.95 0.0 0.0 0.0 0.0 86-87 2.525 0.0 0.0 0.0 0.0 88-89 3.0875000000000004 0.0 0.0 0.0 0.0 90-91 3.75 0.0 0.0 0.0 0.0 92-93 4.300000000000001 0.0 0.0 0.0 0.0 94-95 4.875 0.0 0.0 0.0 0.0 96-97 5.699999999999999 0.0 0.0 0.0 0.0 98-99 6.7375 0.0 0.0 0.0 0.0 100-101 7.775 0.0 0.0 0.0 0.0 102-103 8.95 0.0 0.0 0.0 0.0 104-105 9.7 0.0 0.0 0.0 0.0 106-107 10.7375 0.0 0.0 0.0 0.0 108-109 11.6625 0.0 0.0 0.0 0.0 110-111 12.6125 0.0 0.0 0.0 0.0 112-113 13.65 0.0 0.0 0.0 0.0 114-115 14.837499999999999 0.0 0.0 0.0 0.0 116-117 15.975000000000001 0.0 0.0 0.0 0.0 118-119 17.1 0.0 0.0 0.0 0.0 120-121 18.125 0.0 0.0 0.0 0.0 122-123 19.299999999999997 0.0 0.0 0.0 0.0 124-125 20.6125 0.0 0.0 0.0 0.0 126-127 21.825 0.0 0.0 0.0 0.0 128-129 23.275 0.0 0.0 0.0 0.0 130-131 24.6 0.0 0.0 0.0 0.0 132-133 25.825000000000003 0.0 0.0 0.0 0.0 134-135 26.775 0.0 0.0 0.0 0.0 136-137 28.0375 0.0 0.0 0.0 0.0 138-139 29.0375 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position GTGGTCG 60 0.004491891 36.25 145 GGGAAAG 125 4.303467E-4 29.0 145 GAGCGTC 155 4.27173E-5 28.064516 9 AAGAGCG 160 5.3055614E-5 27.1875 7 AGAGCGT 160 5.3055614E-5 27.1875 8 GATCGGA 165 6.5446795E-5 26.363638 1 TCGGAAG 165 6.5446795E-5 26.363638 3 ATCGGAA 165 6.5446795E-5 26.363638 2 GAAGAGC 170 8.02145E-5 25.588236 6 GGAAGAG 170 8.02145E-5 25.588236 5 CGGAAGA 175 9.7720666E-5 24.857143 4 ATCATTA 40 2.9585467E-4 21.75 50-54 TCATTAA 50 5.60876E-5 20.3 50-54 TGGTCGC 45 6.5511256E-4 19.333332 40-44 GTCGCCG 45 6.5511256E-4 19.333332 40-44 GTATCAT 45 6.5511256E-4 19.333332 50-54 CCGTATC 45 6.5511256E-4 19.333332 45-49 TCGCCGT 45 6.5511256E-4 19.333332 45-49 CGTATCA 45 6.5511256E-4 19.333332 45-49 TATCATT 45 6.5511256E-4 19.333332 50-54 >>END_MODULE Read 779660 spots for SRR5578463.sra Written 779660 spots for SRR5578463.sra Read 779660 spots for SRR5578463.sra Written 779660 spots for SRR5578463.sra Read 779660 spots for SRR5578463.sra Written 779660 spots for SRR5578463.sra Read 779660 spots for SRR5578463.sra Written 779660 spots for SRR5578463.sra Read 779660 spots for SRR5578463.sra Written 779660 spots for SRR5578463.sra Read 779660 spots for SRR5578463.sra Written 779660 spots for SRR5578463.sra Read 779660 spots for SRR5578463.sra Written 779660 spots for SRR5578463.sra Read 779660 spots for SRR5578463.sra Written 779660 spots for SRR5578463.sra Read 779660 spots for SRR5578463.sra Written 779660 spots for SRR5578463.sra Read 779660 spots for SRR5578463.sra Written 779660 spots for SRR5578463.sra Read 779660 spots for SRR5578463.sra Written 779660 spots for SRR5578463.sra Read 779660 spots for SRR5578463.sra Written 779660 spots for SRR5578463.sra Read 779660 spots for SRR5578463.sra Written 779660 spots for SRR5578463.sra Read 779661 spots for SRR5578463.sra Written 779661 spots for SRR5578463.sra Read 779660 spots for SRR5578463.sra Written 779660 spots for SRR5578463.sra Read 779660 spots for SRR5578463.sra Written 779660 spots for SRR5578463.sra Read 779660 spots for SRR5578463.sra Written 779660 spots for SRR5578463.sra Read 779660 spots for SRR5578463.sra Written 779660 spots for SRR5578463.sra Read 779660 spots for SRR5578463.sra Written 779660 spots for SRR5578463.sra Read 779660 spots for SRR5578463.sra Written 779660 spots for SRR5578463.sra SRR ids: ['SRR5578463.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_6zk0my2h SRR5578463.sra spots: 15593201 blocks: [[1, 779660], [779661, 1559320], [1559321, 2338980], [2338981, 3118640], [3118641, 3898300], [3898301, 4677960], [4677961, 5457620], [5457621, 6237280], [6237281, 7016940], [7016941, 7796600], [7796601, 8576260], [8576261, 9355920], [9355921, 10135580], [10135581, 10915240], [10915241, 11694900], [11694901, 12474560], [12474561, 13254220], [13254221, 14033880], [14033881, 14813540], [14813541, 15593201]] SRR5578463 file size 5262323 SRR5578463 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 SRR5578463 SRR5578463_1.fastq SRR5578463_2.fastq Input file: SRR5578463_1.fastq Paired file: SRR5578463_2.fastq trimmed: SRR5578463-trimmed-pair1.fastq, SRR5578463-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 18:51:58 2024 >> started Mon Dec 9 18:52:16 2024 >> done (18.062s) 15593201 read pairs processed; of these: 30219 ( 0.19%) short read pairs filtered out after trimming by size control 638651 ( 4.10%) empty read pairs filtered out after trimming by size control 14924331 (95.71%) read pairs available; of these: 9570839 (64.13%) trimmed read pairs available after processing 5353492 (35.87%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 18 20 0.00% 19 22 0.00% 20 14 0.00% 21 35 0.00% 22 30 0.00% 23 44 0.00% 24 74 0.00% 25 34 0.00% 26 58 0.00% 27 64 0.00% 28 92 0.00% 29 78 0.00% 30 88 0.00% 31 128 0.00% 32 98 0.00% 33 132 0.00% 34 132 0.00% 35 162 0.00% 36 157 0.00% 37 192 0.00% 38 198 0.00% 39 219 0.00% 40 271 0.00% 41 320 0.00% 42 310 0.00% 43 417 0.00% 44 498 0.00% 45 627 0.00% 46 732 0.00% 47 832 0.01% 48 941 0.01% 49 1169 0.01% 50 1437 0.01% 51 2124 0.01% 52 2448 0.02% 53 1820 0.01% 54 1624 0.01% 55 1880 0.01% 56 2020 0.01% 57 2369 0.02% 58 2720 0.02% 59 2711 0.02% 60 3260 0.02% 61 3594 0.02% 62 4384 0.03% 63 4844 0.03% 64 5685 0.04% 65 7314 0.05% 66 11066 0.07% 67 17137 0.11% 68 34804 0.23% 69 68217 0.46% 70 54836 0.37% 71 23401 0.16% 72 17451 0.12% 73 16517 0.11% 74 17090 0.11% 75 17935 0.12% 76 18697 0.13% 77 20268 0.14% 78 21707 0.15% 79 23939 0.16% 80 25723 0.17% 81 27858 0.19% 82 31258 0.21% 83 33743 0.23% 84 38310 0.26% 85 41073 0.28% 86 43731 0.29% 87 46821 0.31% 88 50191 0.34% 89 51601 0.35% 90 54793 0.37% 91 58018 0.39% 92 60288 0.40% 93 63132 0.42% 94 67280 0.45% 95 69323 0.46% 96 71327 0.48% 97 73861 0.49% 98 75585 0.51% 99 77491 0.52% 100 80607 0.54% 101 81298 0.54% 102 83487 0.56% 103 85283 0.57% 104 89018 0.60% 105 90822 0.61% 106 93587 0.63% 107 94900 0.64% 108 95593 0.64% 109 94118 0.63% 110 94514 0.63% 111 95433 0.64% 112 96778 0.65% 113 101434 0.68% 114 105175 0.70% 115 107555 0.72% 116 106077 0.71% 117 103527 0.69% 118 102094 0.68% 119 101068 0.68% 120 103593 0.69% 121 101933 0.68% 122 103820 0.70% 123 105382 0.71% 124 106062 0.71% 125 106048 0.71% 126 108236 0.73% 127 106796 0.72% 128 103815 0.70% 129 107243 0.72% 130 104368 0.70% 131 104009 0.70% 132 105279 0.71% 133 104785 0.70% 134 105344 0.71% 135 103642 0.69% 136 104694 0.70% 137 104249 0.70% 138 107628 0.72% 139 108925 0.73% 140 109266 0.73% 141 109829 0.74% 142 118122 0.79% 143 119621 0.80% 144 124512 0.83% 145 135505 0.91% 146 151129 1.01% 147 178101 1.19% 148 239558 1.61% 149 443662 2.97% 150 2350421 15.75% 151 5353492 35.87% 14924331 reads passed initial QC criterion=sequence-density sequence-density=0.40 sequence-density-rank=1 fanout-score=21.70 fanout-score-rank=3 prefix-density=4.42 prefix-fanout=2.0 sequence=TTCGTTTTTTTTCTTG criterion=fanout-score sequence-density=0.01 sequence-density-rank=38 fanout-score=62.36 fanout-score-rank=1 prefix-density=0.38 prefix-fanout=1.4 sequence=TTTTTTTTCTCGTTCTTTGGTCGCAATCCTGCGTAATCAACGCCGCAACTTTACGTCGGATTAGCTCTTCTTTGATTAGCATGAAACTCCAAGGTCCGGGGGGGTCACTTATCCTGGGCTTCATCCAATGGTGGGTGCTAACTCTTTAATAGCCTTCAGTGACTGTGAGATGCCGTCTACGAGTGGCACGAATCGCACGGATGTTTGGTTAAAGAACAGTCGCAGTTTTCCTCAAATCCCGCCACGAAACTAAGCGATTGAACTCTTGCCTGGTTACTGTATGCCCCTGTGTTATTGCAGCGTCTCGATTAGGGGGAAACCTTGTCACCGTCAGCTTATTCCCGAGGCATATGGCCCTACTTAACTGATCTGAAGTATTACGGTAACCGCGACGATAATAACCCGGACCAAATATAGCCTGATATGAGCGTGCCCGTCCATAGTCCCAGAGACGGGCGGAGGCTCTTAACCGTACGAGACAATCTCCA criterion=sequence-density sequence-density=0.67 sequence-density-rank=1 fanout-score=4.85 fanout-score-rank=11 prefix-density=3.20 prefix-fanout=1.0 sequence=CAAGAAAAAAAACGAA criterion=fanout-score sequence-density=0.14 sequence-density-rank=20 fanout-score=25.83 fanout-score-rank=1 prefix-density=0.50 prefix-fanout=7.4 sequence=GGAGAAGAAGGACCCAACCGGCGCCAAGGTCACCAAGGC SRR5578463 testing PE reads STAR mapping to Ensembl genome Started job on | Dec 09 18:53:41 Started mapping on | Dec 09 18:53:41 Finished on | Dec 09 19:13:38 Mapping speed, Million of reads per hour | 44.89 Number of input reads | 14924331 Average input read length | 271 UNIQUE READS: Uniquely mapped reads number | 7430355 Uniquely mapped reads % | 49.79% Average mapped length | 269.16 Number of splices: Total | 4330078 Number of splices: Annotated (sjdb) | 4024512 Number of splices: GT/AG | 4265649 Number of splices: GC/AG | 55650 Number of splices: AT/AC | 2606 Number of splices: Non-canonical | 6173 Mismatch rate per base, % | 0.09% Deletion rate per base | 0.01% Deletion average length | 1.49 Insertion rate per base | 0.00% Insertion average length | 1.10 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 418951 % of reads mapped to multiple loci | 2.81% Number of reads mapped to too many loci | 193149 % of reads mapped to too many loci | 1.29% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 41.57% % of reads unmapped: other | 4.55% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 7083773 7083773 7083773 N_multimapping 418951 418951 418951 N_noFeature 317130 7173464 384537 N_ambiguous 208935 689 21050 UnstrandedReadsAssigned:6904290 PositiveStrandReadsAssigned:256202 NegativeStrandReadsAssigned:7024768 Dataset is classified negative stranded MeadianReadLen=150 20thPercentileLength=117 echo kmer=113 SRR5578463 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: SRR5578463-trimmed-pair1.fastq SRR5578463-trimmed-pair2.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 14,924,331 reads, 7,150,938 reads pseudoaligned [quant] estimated average fragment length: 170.772 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,065 rounds 52973 SRR5578463.ke.tsv 35125 SRR5578463.se.tsv 88098 total ==> SRR5578463.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 766.327 0 0 PNS24247 1044 874.228 0 0 PNS24249 1928 1758.23 15.3893 1.56433 PNS24246 1044 874.228 0 0 PNS24248 1044 874.228 0 0 PNS24244 1471 1301.23 176.611 24.2576 PNS24243 293 138.462 0 0 KQK14069 1603 1433.23 376.781 46.9849 KQK14071 474 307.27 0 0 ==> SRR5578463.se.tsv <== BRADI_1g14170v3 382 BRADI_1g53295v3 11 BRADI_1g59795v3 115 BRADI_1g07683v3 0 BRADI_1g00485v3 10 BRADI_1g20270v3 562 BRADI_1g74790v3 11 BRADI_1g09890v3 3 BRADI_1g77505v3 142 BRADI_1g48960v3 0 SRR5578463 completed mapping pipeline successfully