Starting /dee2/code/volunteer_pipeline.sh SRR5578500 current disk space = 1521618132992 free memory = 1573511260 SRR5578500 SRAfilesize 3284b5267342e0878408b2b896c6783d SRR5578500.sra SRR5578500.sra file validated SRR5578500 is paired end SRR5578500 is conventional basespace SRR5578500 read1 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5578500_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 49 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 33.3565 34.0 33.0 34.0 33.0 34.0 2 33.41475 34.0 34.0 34.0 33.0 34.0 3 33.43375 34.0 34.0 34.0 33.0 34.0 4 33.4315 34.0 34.0 34.0 33.0 34.0 5 33.3815 34.0 34.0 34.0 33.0 34.0 6 37.13275 38.0 38.0 38.0 36.0 38.0 7 37.31975 38.0 38.0 38.0 37.0 38.0 8 37.442 38.0 38.0 38.0 37.0 38.0 9 37.49875 38.0 38.0 38.0 37.0 38.0 10-14 37.44685 38.0 38.0 38.0 37.0 38.0 15-19 37.43605 38.0 38.0 38.0 37.8 38.0 20-24 37.364 38.0 38.0 38.0 37.6 38.0 25-29 37.286649999999995 38.0 38.0 38.0 37.0 38.0 30-34 37.25600000000001 38.0 38.0 38.0 37.0 38.0 35-39 37.186099999999996 38.0 38.0 38.0 37.0 38.0 40-44 37.10185 38.0 38.0 38.0 37.0 38.0 45-49 37.10029999999999 38.0 38.0 38.0 37.0 38.0 50-54 37.045500000000004 38.0 38.0 38.0 36.0 38.0 55-59 37.00165 38.0 38.0 38.0 36.2 38.0 60-64 36.9905 38.0 38.0 38.0 36.0 38.0 65-69 36.9234 38.0 38.0 38.0 36.0 38.0 70-74 36.8491 38.0 38.0 38.0 35.8 38.0 75-79 36.81025 38.0 38.0 38.0 36.0 38.0 80-84 36.71355 38.0 38.0 38.0 35.4 38.0 85-89 36.66645 38.0 38.0 38.0 35.2 38.0 90-94 36.5253 38.0 38.0 38.0 35.0 38.0 95-99 36.460049999999995 38.0 38.0 38.0 34.6 38.0 100-104 36.3118 38.0 38.0 38.0 34.0 38.0 105-109 36.1829 38.0 38.0 38.0 34.0 38.0 110-114 36.135000000000005 38.0 38.0 38.0 34.0 38.0 115-119 35.9507 38.0 38.0 38.0 33.8 38.0 120-124 35.9276 38.0 38.0 38.0 33.4 38.0 125-129 35.70055 38.0 37.6 38.0 33.0 38.0 130-134 35.520799999999994 38.0 37.0 38.0 32.0 38.0 135-139 35.3282 38.0 36.0 38.0 31.4 38.0 140-144 35.15325000000001 38.0 36.0 38.0 30.8 38.0 145-149 34.607099999999996 38.0 36.0 38.0 28.2 38.0 150-151 31.190624999999997 36.5 31.0 38.0 12.5 38.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 5 6.0 6 2.0 7 3.0 8 2.0 9 2.0 10 3.0 11 4.0 12 1.0 13 1.0 14 2.0 15 3.0 16 1.0 17 9.0 18 6.0 19 10.0 20 7.0 21 2.0 22 9.0 23 8.0 24 13.0 25 12.0 26 12.0 27 12.0 28 20.0 29 31.0 30 38.0 31 34.0 32 54.0 33 53.0 34 97.0 35 204.0 36 462.0 37 2877.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 48.40732380235766 10.960622021570103 8.52771507399047 32.10433910208177 2 25.650000000000002 12.225 30.575000000000003 31.55 3 24.625 17.95 25.624999999999996 31.8 4 27.375 22.475 23.075000000000003 27.075 5 26.3 27.650000000000002 24.85 21.2 6 23.225 30.275000000000002 26.075 20.424999999999997 7 16.6 24.349999999999998 39.375 19.675 8 19.375 23.474999999999998 32.425 24.725 9 20.05 22.0 33.85 24.099999999999998 10-14 23.96 26.125 26.595000000000002 23.32 15-19 22.55 25.75 26.685 25.014999999999997 20-24 23.225 25.09 26.779999999999998 24.905 25-29 23.29 25.474999999999998 26.340000000000003 24.895 30-34 23.115 26.19 25.455 25.240000000000002 35-39 23.674999999999997 25.6 25.319999999999997 25.405 40-44 24.395 25.27 25.465 24.87 45-49 24.425 25.16 26.490000000000002 23.925 50-54 24.915000000000003 25.545 25.169999999999998 24.37 55-59 23.9 25.495 25.995 24.610000000000003 60-64 23.5 26.275 25.374999999999996 24.85 65-69 22.525000000000002 26.56 25.624999999999996 25.290000000000003 70-74 24.05 25.775 24.965 25.21 75-79 23.724999999999998 24.759999999999998 25.755 25.759999999999998 80-84 23.98 26.0 24.990000000000002 25.03 85-89 24.610000000000003 24.525 25.795 25.069999999999997 90-94 24.985 24.455 25.380000000000003 25.180000000000003 95-99 24.43 24.43 26.185000000000002 24.955 100-104 25.174999999999997 24.575 25.490000000000002 24.759999999999998 105-109 24.41 25.174999999999997 25.385 25.03 110-114 24.095 24.59 24.65 26.665 115-119 23.821191059552977 25.27626381319066 25.636281814090705 25.26626331316566 120-124 23.74 24.98 24.79 26.490000000000002 125-129 24.36 25.929999999999996 24.355 25.355 130-134 24.69 25.119999999999997 24.65 25.540000000000003 135-139 24.415 25.509999999999998 25.275 24.8 140-144 24.98 25.674999999999997 24.15 25.195 145-149 24.675 26.119999999999997 23.494999999999997 25.71 150-151 24.0375 25.7375 23.7125 26.5125 >>END_MODULE >>Per sequence GC content pass #GC Content Count 0 0.0 1 0.0 2 0.0 3 0.5 4 0.5 5 1.5 6 2.0 7 1.5 8 2.5 9 2.5 10 1.5 11 0.5 12 0.0 13 0.0 14 0.0 15 0.0 16 2.0 17 3.0 18 1.5 19 1.5 20 1.0 21 1.0 22 2.5 23 2.0 24 0.5 25 0.0 26 1.0 27 2.5 28 5.0 29 13.0 30 20.5 31 29.5 32 32.0 33 33.0 34 53.0 35 65.5 36 79.5 37 110.0 38 128.5 39 110.5 40 120.5 41 131.5 42 118.5 43 121.5 44 122.5 45 143.0 46 155.0 47 150.5 48 163.5 49 169.5 50 152.0 51 143.5 52 143.5 53 137.5 54 126.5 55 112.0 56 103.0 57 100.5 58 88.5 59 83.0 60 73.0 61 66.0 62 70.0 63 64.5 64 56.5 65 46.5 66 50.0 67 46.0 68 33.0 69 33.0 70 32.5 71 26.5 72 18.5 73 16.0 74 16.5 75 13.5 76 12.0 77 11.0 78 7.5 79 5.0 80 3.5 81 1.5 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 0.325 2 0.0 3 0.0 4 0.0 5 0.0 6 0.0 7 0.0 8 0.0 9 0.0 10-14 0.0 15-19 0.0 20-24 0.0 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 0.005 120-124 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 88.0 #Duplication Level Percentage of deduplicated Percentage of total 1 93.1534090909091 81.975 2 4.517045454545455 7.95 3 1.0227272727272727 2.7 4 0.45454545454545453 1.6 5 0.3125 1.375 6 0.17045454545454544 0.8999999999999999 7 0.028409090909090908 0.17500000000000002 8 0.14204545454545456 1.0 9 0.028409090909090908 0.22499999999999998 >10 0.17045454545454544 2.1 >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 warn #Sequence Count Percentage Possible Source GCCTTATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGA 30 0.75 No Hit GATCGGAAGAGCACACGTCTGAACTCCAGTCACCCACGCATCTCGTATGC 12 0.3 TruSeq Adapter, Index 23 (97% over 39bp) GCCTCACTTAGTTACAGTTTTATGGATAATTGGGATATTCTTTGGTATAG 11 0.27499999999999997 No Hit GGAAGCTATACTATATAGGTGGCTATCTATCCCTACCAAGGCTTATATTG 11 0.27499999999999997 No Hit CTTATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGT 10 0.25 No Hit GCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGTAGGGATGAGCATAA 10 0.25 No Hit CAGGAGATGTTGGAACTCTACCAATTGGAGCTTTCTTAGCTGTCTTAGCA 9 0.22499999999999998 No Hit GGGAAGCTATACTATATAGGTGGCTATCTATCCCTACCAAGGCTTATATT 8 0.2 No Hit GATGCCTTATGTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTA 8 0.2 No Hit GGATAATTGGGATATTCTTTGGTATAGTTGGGATTTTAATATCATTAATA 8 0.2 No Hit GGGGTTATGAGTAGGGATGAGCATAAACCAACAACTCTCAAAGAAGATGG 8 0.2 No Hit GCTATCTATCCCTACCAAGGCTTATATTGAAGTATAAACCAATGAGAGAG 8 0.2 No Hit GTGTGCTAGCCCGTCGAGACTGAAAAGCTATAACCCGCAGACCCGAGCGA 7 0.17500000000000002 No Hit GCTGGGGTTATGAGTAGGGATGAGCATAAACCAACAACTCTCAAAGAAGA 6 0.15 No Hit ATCACATCTAGGCATGGAATCTTATGCCAGCTAACGGAACAAGCTTTGTG 6 0.15 No Hit GCTGTCTTAGCAGTAGTTTATAAGGAATATATCCCATTTTTAGTTATAAT 6 0.15 No Hit GTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGTAGGGA 6 0.15 No Hit CCCATTTTTAGTTATAATGATGCCTTATGTGATAGATGCCTCTTTAAAAT 6 0.15 No Hit GTCCTTACAAGTCCGCTCCTCGGGGAGCTTGATTGATAATTCTGTATAAG 6 0.15 No Hit GCAGTAGTTTATAAGGAATATATCCCATTTTTAGTTATAATGATGCCTTA 5 0.125 No Hit GTGTACACCGCCCTTAGACGTCTTGGTATACGGACAACTGATGGACCCAC 5 0.125 No Hit GGGCTATTGATATTTAACAAATATCCAGCAAAGGTTTTTCCAGGAGATGT 5 0.125 No Hit GCCCGTTTCAGGTGGTCCTCAGCGTACGGCGGGACCTCTGAGAATTGGGA 5 0.125 No Hit GTGGCTATCTATCCCTACCAAGGCTTATATTGAAGTATAAACCAATGAGA 5 0.125 No Hit GGGGATAATTGCGCGGTTTTGACTGCGGAAGGAAGCCAAGGCCCACCTAA 5 0.125 No Hit GCCAGCTAACGGAACAAGCTTTGTGCCATTCGGACCTACCGTAAGCCTAT 5 0.125 No Hit CTCGGCAATAGGATTGTAGCCCAGGATGAGTCCCTCAGCGTGACGCAGTA 5 0.125 No Hit GGCAGTTTCCAGAAACGTGTATCACATCTAGGCATGGAATCTTATGCCAG 5 0.125 No Hit GGGATATTCTTTGGTATAGTTGGGATTTTAATATCATTAATAGCATGATG 5 0.125 No Hit GCTTTCTTAGCTGTCTTAGCAGTAGTTTATAAGGAATATATCCCATTTTT 5 0.125 No Hit >>END_MODULE >>Adapter Content warn #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 0.0125 0.0 0.0 0.0 0.0 54-55 0.025 0.0 0.0 0.0 0.0 56-57 0.025 0.0 0.0 0.0 0.0 58-59 0.025 0.0 0.0 0.0 0.0 60-61 0.025 0.0 0.0 0.0 0.0 62-63 0.025 0.0 0.0 0.0 0.0 64-65 0.025 0.0 0.0 0.0 0.0 66-67 0.05 0.0 0.0 0.0 0.0 68-69 0.05 0.0 0.0 0.0 0.0 70-71 0.0625 0.0 0.0 0.0 0.0 72-73 0.075 0.0 0.0 0.0 0.0 74-75 0.075 0.0 0.0 0.0 0.0 76-77 0.1125 0.0 0.0 0.0 0.0 78-79 0.16249999999999998 0.0 0.0 0.0 0.0 80-81 0.1875 0.0 0.0 0.0 0.0 82-83 0.2 0.0 0.0 0.0 0.0 84-85 0.225 0.0 0.0 0.0 0.0 86-87 0.275 0.0 0.0 0.0 0.0 88-89 0.3375 0.0 0.0 0.0 0.0 90-91 0.3875 0.0 0.0 0.0 0.0 92-93 0.45 0.0 0.0 0.0 0.0 94-95 0.5375 0.0 0.0 0.0 0.0 96-97 0.7125 0.0 0.0 0.0 0.0 98-99 0.875 0.0 0.0 0.0 0.0 100-101 1.0 0.0 0.0 0.0 0.0 102-103 1.2125 0.0 0.0 0.0 0.0 104-105 1.3375 0.0 0.0 0.0 0.0 106-107 1.4500000000000002 0.0 0.0 0.0 0.0 108-109 1.75 0.0 0.0 0.0 0.0 110-111 1.95 0.0 0.0 0.0 0.0 112-113 2.2750000000000004 0.0 0.0 0.0 0.0 114-115 2.5875 0.0 0.0 0.0 0.0 116-117 3.1 0.0 0.0 0.0 0.0 118-119 3.4625 0.0 0.0 0.0 0.0 120-121 3.7125 0.0 0.0 0.0 0.0 122-123 4.025 0.0 0.0 0.0 0.0 124-125 4.4125 0.0 0.0 0.0 0.0 126-127 5.050000000000001 0.0 0.0 0.0 0.0 128-129 5.762499999999999 0.0 0.0 0.0 0.0 130-131 6.325 0.0 0.0 0.0 0.0 132-133 7.075 0.0 0.0 0.0 0.0 134-135 7.6875 0.0 0.0 0.0 0.0 136-137 8.287500000000001 0.0 0.0 0.0 0.0 138-139 8.925 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position TACAAAT 10 0.006830828 145.0 7 CTTTGAT 15 1.1411342E-4 145.0 3 TTTGATA 15 1.1411342E-4 145.0 4 CGCTTTG 20 3.5877043E-4 108.75 1 TATTCTC 20 3.5877043E-4 108.75 9 GCTTTGA 20 3.5877043E-4 108.75 2 TTTAGTT 25 8.7132835E-4 87.0 145 GATATTC 30 0.0017973486 72.5 7 ATATTCT 30 0.0017973486 72.5 8 TGATATT 35 0.0033124194 62.14286 6 TTGATAT 35 0.0033124194 62.14286 5 >>END_MODULE SRR5578500 read2 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5578500_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 50 >>END_MODULE >>Per base sequence quality fail #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 31.43725 33.0 32.0 33.0 27.0 34.0 2 31.583 33.0 32.0 34.0 27.0 34.0 3 31.5005 33.0 31.0 34.0 28.0 34.0 4 31.37175 33.0 32.0 34.0 27.0 34.0 5 31.40525 33.0 32.0 34.0 27.0 34.0 6 35.3815 38.0 37.0 38.0 29.0 38.0 7 35.24925 38.0 37.0 38.0 29.0 38.0 8 35.26975 38.0 37.0 38.0 29.0 38.0 9 35.3035 38.0 37.0 38.0 29.0 38.0 10-14 35.1967 38.0 36.6 38.0 28.8 38.0 15-19 35.0294 38.0 36.4 38.0 27.8 38.0 20-24 34.9099 38.0 36.0 38.0 27.4 38.0 25-29 34.76485 38.0 36.0 38.0 27.0 38.0 30-34 34.574650000000005 38.0 36.0 38.0 25.8 38.0 35-39 34.36165 38.0 35.0 38.0 25.0 38.0 40-44 34.2527 38.0 35.0 38.0 24.8 38.0 45-49 34.03855 38.0 34.8 38.0 21.0 38.0 50-54 33.6181 38.0 34.0 38.0 16.0 38.0 55-59 33.40785 38.0 34.0 38.0 16.0 38.0 60-64 33.10665 38.0 33.2 38.0 16.0 38.0 65-69 32.72735 37.6 32.8 38.0 16.0 38.0 70-74 32.35625 37.2 31.8 38.0 15.4 38.0 75-79 31.9269 37.0 29.6 38.0 15.0 38.0 80-84 31.45335 37.0 29.0 38.0 15.0 38.0 85-89 30.8397 36.6 28.0 38.0 14.2 38.0 90-94 30.186850000000003 36.0 26.4 38.0 13.2 38.0 95-99 29.5502 35.6 24.2 38.0 13.0 38.0 100-104 28.736 34.6 22.6 38.0 6.4 38.0 105-109 27.8217 34.0 16.2 38.0 2.0 38.0 110-114 26.931849999999997 34.0 15.0 38.0 2.0 38.0 115-119 25.979899999999997 33.8 14.6 38.0 2.0 38.0 120-124 24.8093 31.6 13.8 37.0 2.0 38.0 125-129 23.705000000000002 30.2 13.0 36.2 2.0 38.0 130-134 22.2194 26.4 4.2 35.8 2.0 38.0 135-139 20.73805 23.0 2.0 35.0 2.0 38.0 140-144 18.820500000000003 17.6 2.0 34.4 2.0 38.0 145-149 16.6566 8.8 2.0 33.4 2.0 38.0 150-151 12.471499999999999 2.0 2.0 28.5 2.0 35.5 >>END_MODULE >>Per sequence quality scores pass #Quality Count 2 53.0 3 10.0 4 12.0 5 9.0 6 11.0 7 9.0 8 16.0 9 10.0 10 11.0 11 14.0 12 20.0 13 18.0 14 29.0 15 27.0 16 35.0 17 50.0 18 37.0 19 55.0 20 59.0 21 73.0 22 75.0 23 84.0 24 101.0 25 96.0 26 116.0 27 132.0 28 137.0 29 170.0 30 217.0 31 249.0 32 299.0 33 351.0 34 412.0 35 451.0 36 417.0 37 135.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 41.15 20.325 11.200000000000001 27.325 2 26.7017017017017 24.54954954954955 25.625625625625624 23.123123123123122 3 24.2992992992993 25.075075075075077 26.401401401401404 24.224224224224226 4 25.5819774718398 31.188986232790988 19.774718397997496 23.454317897371716 5 29.061326658322905 32.99123904881102 18.39799749687109 19.549436795994993 6 24.04904904904905 33.98398398398398 19.81981981981982 22.147147147147148 7 23.74874874874875 20.145145145145147 32.05705705705706 24.04904904904905 8 22.3973973973974 24.74974974974975 25.275275275275277 27.57757757757758 9 25.175175175175173 24.04904904904905 25.2002002002002 25.575575575575577 10-14 25.94854339773751 26.419060967063768 21.86405045550105 25.768345179697665 15-19 26.571185337272773 25.459462166357856 23.531473784365765 24.437878712003606 20-24 26.081947505509916 25.811460629132437 23.577439390903628 24.529152474454015 25-29 26.21743486973948 25.636272545090183 23.16132264529058 24.984969939879758 30-34 26.86140895881351 25.358252329892778 23.268864615692955 24.51147409560076 35-39 26.085649887302782 24.583020285499625 23.646381167042325 25.68494866015527 40-44 25.85878818227341 25.01752628943415 24.231347020530798 24.892338507761643 45-49 25.907565970657455 24.445445896549998 24.440438636022233 25.206549496770318 50-54 26.03775474437935 24.195082870161734 25.031295378298534 24.735867007160383 55-59 25.796274038461537 24.844751602564102 24.97996794871795 24.37900641025641 60-64 24.835979365953822 25.266690038563627 25.24665698402364 24.650673611458906 65-69 25.214167626872403 25.800310605681076 24.172135664545866 24.813386102900655 70-74 25.17654129313367 25.396904893073575 24.144838984324135 25.281714829468623 75-79 24.58794649566655 25.479685386503682 24.152096588347277 25.78027152948249 80-84 24.87350333149642 25.690095686588847 24.808376333851008 24.62802464806372 85-89 24.914829659318638 26.352705410821642 24.34869739478958 24.38376753507014 90-94 24.830971102318827 26.51374768367807 24.305103420644063 24.350177793359045 95-99 24.415285220614013 26.518755947313068 24.68573145690389 24.380227375169028 100-104 25.569632931043117 26.185587660874354 23.601582452801843 24.643196955280686 105-109 25.402074252217044 27.16568966381081 23.31279122200511 24.119444861967033 110-114 24.852189598156126 26.756187994789055 23.624611684537527 24.767010722517284 115-119 24.74454017231016 27.504508114606292 23.89300741334402 23.85794429973953 120-124 25.289372150122762 26.717442501377963 23.47547226537055 24.517713083128726 125-129 25.427040024044484 27.380654210289034 22.86229524620548 24.330010519461005 130-134 26.103291088513753 26.974903571607474 23.37824976205981 23.543555577818964 135-139 25.57370478003808 27.432608477803388 22.9532017236196 24.04048501853893 140-144 26.74948655011772 27.03000551019386 22.717026499023195 23.50348144066523 145-149 26.877252703243894 27.067480977172607 22.63716459751702 23.41810172206648 150-151 27.08046552371418 26.91778250531848 22.66299587035415 23.33875610061319 >>END_MODULE >>Per sequence GC content warn #GC Content Count 0 3.0 1 2.0 2 0.5 3 0.0 4 0.0 5 0.0 6 0.5 7 0.5 8 0.0 9 0.0 10 0.0 11 0.0 12 0.0 13 0.0 14 0.0 15 0.0 16 0.0 17 0.5 18 1.5 19 1.0 20 0.0 21 1.0 22 1.5 23 1.5 24 2.0 25 2.0 26 1.0 27 0.5 28 3.0 29 5.0 30 11.5 31 21.5 32 22.0 33 20.5 34 36.5 35 51.0 36 62.5 37 79.5 38 96.0 39 111.5 40 144.0 41 140.5 42 110.5 43 110.0 44 110.5 45 120.0 46 133.5 47 151.5 48 161.5 49 152.0 50 145.0 51 144.0 52 144.0 53 146.5 54 152.5 55 139.5 56 112.5 57 98.5 58 99.5 59 101.5 60 101.0 61 86.0 62 72.5 63 78.0 64 74.0 65 68.0 66 56.0 67 52.0 68 52.5 69 41.0 70 33.0 71 27.0 72 19.0 73 18.5 74 19.0 75 15.0 76 11.0 77 7.5 78 6.5 79 4.5 80 1.5 81 0.0 82 0.0 83 0.5 84 0.5 85 0.0 86 0.0 87 0.0 88 0.0 89 0.0 90 0.0 91 0.0 92 0.0 93 0.0 94 0.0 95 0.0 96 0.0 97 0.0 98 0.0 99 0.0 100 0.0 >>END_MODULE >>Per base N content pass #Base N-Count 1 0.0 2 0.1 3 0.1 4 0.125 5 0.125 6 0.1 7 0.1 8 0.1 9 0.1 10-14 0.11 15-19 0.155 20-24 0.18 25-29 0.2 30-34 0.21 35-39 0.17500000000000002 40-44 0.15 45-49 0.145 50-54 0.145 55-59 0.16 60-64 0.165 65-69 0.19499999999999998 70-74 0.165 75-79 0.19499999999999998 80-84 0.19499999999999998 85-89 0.2 90-94 0.165 95-99 0.165 100-104 0.155 105-109 0.20500000000000002 110-114 0.21 115-119 0.18 120-124 0.215 125-129 0.185 130-134 0.185 135-139 0.21 140-144 0.185 145-149 0.12 150-151 0.11249999999999999 >>END_MODULE >>Sequence Length Distribution pass #Length Count 151 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 87.25 #Duplication Level Percentage of deduplicated Percentage of total 1 93.46704871060172 81.55 2 4.011461318051576 7.000000000000001 3 1.2607449856733524 3.3000000000000003 4 0.37249283667621774 1.3 5 0.2292263610315186 1.0 6 0.2292263610315186 1.2 7 0.05730659025787965 0.35000000000000003 8 0.028653295128939826 0.2 9 0.0 0.0 >10 0.3438395415472779 4.1000000000000005 >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 warn #Sequence Count Percentage Possible Source GAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCC 19 0.475 No Hit CATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAAT 16 0.4 No Hit GGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTT 16 0.4 No Hit GGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTC 15 0.375 No Hit ATTAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATA 14 0.35000000000000003 No Hit AATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGA 13 0.325 No Hit CCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGG 13 0.325 No Hit CCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGT 13 0.325 No Hit TAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGT 12 0.3 No Hit ATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAG 12 0.3 No Hit GCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCC 11 0.27499999999999997 No Hit GCCACAGGCGTCATACTTCCCAAGAAGCGGCCATAGCCCAGATGCGAGGT 10 0.25 No Hit TAATTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGG 8 0.2 No Hit CTTCAATATAAGCCTTGGTAGGGATAGATAGCCACCTATATAGTATAGCT 7 0.17500000000000002 No Hit AAAGAATATCCCAATTATCCATAAAACTGTAACTAAGTGAGGCTCTCTCA 7 0.17500000000000002 No Hit GTCTCGTACGGTTAAGAGCCTCCGCCCGTCTCTGGGACTATGGACGGGCA 6 0.15 No Hit CTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTT 6 0.15 No Hit GATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCG 6 0.15 Illumina Single End PCR Primer 1 (100% over 50bp) TCCATTTCCGCCCAAGCTGCTCACAGTATACGGGCGTCGGCATCCAGACC 6 0.15 No Hit ACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTCAAAACAATC 6 0.15 No Hit GCCCAAGCTGCTCACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGA 6 0.15 No Hit AGCTGCTCACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGATCGTG 6 0.15 No Hit TTAGGGCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGG 6 0.15 No Hit GCTGCTCACAGTATACGGGCGTCGGCATCCAGACCGTCGGCTGATCGTGG 5 0.125 No Hit GTCGCACTGAACTCGGATAGGTCTCAGAAAAACGAAATATAGGCTTACGG 5 0.125 No Hit GGTAGGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGA 5 0.125 No Hit CCTTGACCGCGGGAAGGAGACATAACGATAGCGACTCTGTCTCAGGGGAT 5 0.125 No Hit AAACAATCACCATCATGCTATTAATGATATTAAAATCCCAACTATACCAA 5 0.125 No Hit GGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTCAAAACAATCAC 5 0.125 No Hit GTAGGAATGGGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGAT 5 0.125 No Hit GCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATG 5 0.125 No Hit >>END_MODULE >>Adapter Content warn #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 0.0125 0.0 0.0 0.0 0.0 54-55 0.025 0.0 0.0 0.0 0.0 56-57 0.025 0.0 0.0 0.0 0.0 58-59 0.025 0.0 0.0 0.0 0.0 60-61 0.025 0.0 0.0 0.0 0.0 62-63 0.025 0.0 0.0 0.0 0.0 64-65 0.025 0.0 0.0 0.0 0.0 66-67 0.05 0.0 0.0 0.0 0.0 68-69 0.05 0.0 0.0 0.0 0.0 70-71 0.05 0.0 0.0 0.0 0.0 72-73 0.05 0.0 0.0 0.0 0.0 74-75 0.05 0.0 0.0 0.0 0.0 76-77 0.0625 0.0 0.0 0.0 0.0 78-79 0.1125 0.0 0.0 0.0 0.0 80-81 0.125 0.0 0.0 0.0 0.0 82-83 0.125 0.0 0.0 0.0 0.0 84-85 0.15 0.0 0.0 0.0 0.0 86-87 0.2 0.0 0.0 0.0 0.0 88-89 0.2625 0.0 0.0 0.0 0.0 90-91 0.3 0.0 0.0 0.0 0.0 92-93 0.3375 0.0 0.0 0.0 0.0 94-95 0.4125 0.0 0.0 0.0 0.0 96-97 0.5375 0.0 0.0 0.0 0.0 98-99 0.7 0.0 0.0 0.0 0.0 100-101 0.8125 0.0 0.0 0.0 0.0 102-103 0.95 0.0 0.0 0.0 0.0 104-105 1.075 0.0 0.0 0.0 0.0 106-107 1.15 0.0 0.0 0.0 0.0 108-109 1.35 0.0 0.0 0.0 0.0 110-111 1.475 0.0 0.0 0.0 0.0 112-113 1.7 0.0 0.0 0.0 0.0 114-115 1.9125 0.0 0.0 0.0 0.0 116-117 2.175 0.0 0.0 0.0 0.0 118-119 2.3375000000000004 0.0 0.0 0.0 0.0 120-121 2.45 0.0 0.0 0.0 0.0 122-123 2.6624999999999996 0.0 0.0 0.0 0.0 124-125 2.925 0.0 0.0 0.0 0.0 126-127 3.2874999999999996 0.0 0.0 0.0 0.0 128-129 3.675 0.0 0.0 0.0 0.0 130-131 3.9625 0.0 0.0 0.0 0.0 132-133 4.3875 0.0 0.0 0.0 0.0 134-135 4.725 0.0 0.0 0.0 0.0 136-137 5.025 0.0 0.0 0.0 0.0 138-139 5.3125 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position CATTGGT 10 0.006830828 145.0 8 ATTGGTT 10 0.006830828 145.0 9 CTCATTG 10 0.006830828 145.0 6 TCATTGG 10 0.006830828 145.0 7 >>END_MODULE Read 777830 spots for SRR5578500.sra Written 777830 spots for SRR5578500.sra Read 777830 spots for SRR5578500.sra Written 777830 spots for SRR5578500.sra Read 777830 spots for SRR5578500.sra Written 777830 spots for SRR5578500.sra Read 777830 spots for SRR5578500.sra Written 777830 spots for SRR5578500.sra Read 777830 spots for SRR5578500.sra Written 777830 spots for SRR5578500.sra Read 777830 spots for SRR5578500.sra Written 777830 spots for SRR5578500.sra Read 777830 spots for SRR5578500.sra Written 777830 spots for SRR5578500.sra Read 777830 spots for SRR5578500.sra Written 777830 spots for SRR5578500.sra Read 777830 spots for SRR5578500.sra Written 777830 spots for SRR5578500.sra Read 777842 spots for SRR5578500.sra Written 777842 spots for SRR5578500.sra Read 777830 spots for SRR5578500.sra Written 777830 spots for SRR5578500.sra Read 777830 spots for SRR5578500.sra Written 777830 spots for SRR5578500.sra Read 777830 spots for SRR5578500.sra Written 777830 spots for SRR5578500.sra Read 777830 spots for SRR5578500.sra Written 777830 spots for SRR5578500.sra Read 777830 spots for SRR5578500.sra Written 777830 spots for SRR5578500.sra Read 777830 spots for SRR5578500.sra Written 777830 spots for SRR5578500.sra Read 777830 spots for SRR5578500.sra Written 777830 spots for SRR5578500.sra Read 777830 spots for SRR5578500.sra Written 777830 spots for SRR5578500.sra Read 777830 spots for SRR5578500.sra Written 777830 spots for SRR5578500.sra Read 777830 spots for SRR5578500.sra Written 777830 spots for SRR5578500.sra SRR ids: ['SRR5578500.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_ln3jgngw SRR5578500.sra spots: 15556612 blocks: [[1, 777830], [777831, 1555660], [1555661, 2333490], [2333491, 3111320], [3111321, 3889150], [3889151, 4666980], [4666981, 5444810], [5444811, 6222640], [6222641, 7000470], [7000471, 7778300], [7778301, 8556130], [8556131, 9333960], [9333961, 10111790], [10111791, 10889620], [10889621, 11667450], [11667451, 12445280], [12445281, 13223110], [13223111, 14000940], [14000941, 14778770], [14778771, 15556612]] SRR5578500 file size 5249924 SRR5578500 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 SRR5578500 SRR5578500_1.fastq SRR5578500_2.fastq Input file: SRR5578500_1.fastq Paired file: SRR5578500_2.fastq trimmed: SRR5578500-trimmed-pair1.fastq, SRR5578500-trimmed-pair2.fastq Parameters used: -- 3' end adapter sequence (-x): AGATCGGAAGAGCACACGTCTGAACTCCAGTCAC -- paired 3' end adapter sequence (-y): AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTA -- maximum error ratio allowed (-r): 0.100 -- maximum indel error ratio allowed (-d): 0.030 -- end quality threshold (-q): 10 -- minimum read length allowed after trimming (-l): 18 -- file format (-f): Sanger/Illumina 1.8+ FASTQ -- number of concurrent threads (-t): 20 Mon Dec 9 21:03:31 2024 >> started Mon Dec 9 21:03:48 2024 >> done (16.921s) 15556612 read pairs processed; of these: 57809 ( 0.37%) short read pairs filtered out after trimming by size control 113324 ( 0.73%) empty read pairs filtered out after trimming by size control 15385479 (98.90%) read pairs available; of these: 8209785 (53.36%) trimmed read pairs available after processing 7175694 (46.64%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 18 7 0.00% 19 17 0.00% 20 17 0.00% 21 13 0.00% 22 24 0.00% 23 21 0.00% 24 31 0.00% 25 29 0.00% 26 20 0.00% 27 43 0.00% 28 36 0.00% 29 27 0.00% 30 36 0.00% 31 63 0.00% 32 37 0.00% 33 23 0.00% 34 33 0.00% 35 38 0.00% 36 44 0.00% 37 44 0.00% 38 47 0.00% 39 56 0.00% 40 67 0.00% 41 59 0.00% 42 84 0.00% 43 100 0.00% 44 94 0.00% 45 113 0.00% 46 109 0.00% 47 150 0.00% 48 161 0.00% 49 169 0.00% 50 202 0.00% 51 239 0.00% 52 245 0.00% 53 272 0.00% 54 249 0.00% 55 284 0.00% 56 317 0.00% 57 324 0.00% 58 399 0.00% 59 429 0.00% 60 513 0.00% 61 524 0.00% 62 578 0.00% 63 693 0.00% 64 847 0.01% 65 983 0.01% 66 1262 0.01% 67 1996 0.01% 68 2633 0.02% 69 4049 0.03% 70 4049 0.03% 71 2392 0.02% 72 2034 0.01% 73 2058 0.01% 74 2348 0.02% 75 2534 0.02% 76 2788 0.02% 77 3172 0.02% 78 3513 0.02% 79 3925 0.03% 80 4115 0.03% 81 4708 0.03% 82 5590 0.04% 83 6436 0.04% 84 9748 0.06% 85 11385 0.07% 86 12276 0.08% 87 13520 0.09% 88 14275 0.09% 89 14337 0.09% 90 14956 0.10% 91 14614 0.09% 92 14806 0.10% 93 15721 0.10% 94 16324 0.11% 95 16906 0.11% 96 17851 0.12% 97 18832 0.12% 98 19587 0.13% 99 21059 0.14% 100 22501 0.15% 101 23498 0.15% 102 24577 0.16% 103 26098 0.17% 104 27412 0.18% 105 29006 0.19% 106 30877 0.20% 107 32304 0.21% 108 34117 0.22% 109 34642 0.23% 110 36286 0.24% 111 37751 0.25% 112 39963 0.26% 113 43294 0.28% 114 46268 0.30% 115 49057 0.32% 116 50609 0.33% 117 51654 0.34% 118 52679 0.34% 119 54800 0.36% 120 57588 0.37% 121 58405 0.38% 122 61559 0.40% 123 64011 0.42% 124 67086 0.44% 125 69975 0.45% 126 72755 0.47% 127 74638 0.49% 128 76292 0.50% 129 79784 0.52% 130 81013 0.53% 131 84327 0.55% 132 88055 0.57% 133 91457 0.59% 134 95060 0.62% 135 98114 0.64% 136 101446 0.66% 137 105392 0.69% 138 111475 0.72% 139 118805 0.77% 140 125982 0.82% 141 133272 0.87% 142 148312 0.96% 143 159806 1.04% 144 176796 1.15% 145 204382 1.33% 146 237865 1.55% 147 303406 1.97% 148 417866 2.72% 149 725072 4.71% 150 2857687 18.57% 151 7175694 46.64% 15385479 reads passed initial QC criterion=sequence-density sequence-density=0.95 sequence-density-rank=1 fanout-score=2.31 fanout-score-rank=23 prefix-density=0.97 prefix-fanout=2.3 sequence=GGTGTTGTCGAAGCCGATGATGCGGACATAGGCGTC criterion=fanout-score sequence-density=0.01 sequence-density-rank=33 fanout-score=49.10 fanout-score-rank=1 prefix-density=0.31 prefix-fanout=1.3 sequence=TTTTTTTTCTCGTTCTTTGGTCGCAATCCTGCGTAATCAACGCCGCAACTTTACGTCGGATTAGCTCTTCTTTGATTAGCATGAAACTCCAAGGTCCGGGGGGGTCACTTATCCTGGGCTTCATCCAATGGTGGGTGCTAACTCTTTAATAGCCTTCAGTGACTGTGAGATGCCGTCTACGAGTGGCACGAATCGCACGGATGTTTGGTTAAAGAACAGTCGCAGTTTTCCTCAAATCCCGCCACGAAACTAAGCGATTGAACTCTTGCCTGGTTACTGTATGCCCCTGTGTTATTGCAGCGTCTCGATTAGGGGGAAACCTTGTCACCGTCAGCTTATTCCCGAGGCATATGGCCCTACTTAACTGATCTGAAGTATTACGGTAACCGCGACGATAATAACCCGGACCAAATATAGCCTGATATGAGCGTGCCCGTCCATAGTCCCAGAGACGGGCGGAGGCTCTTAACCGTACGAGACAAT criterion=sequence-density sequence-density=0.74 sequence-density-rank=1 fanout-score=2.04 fanout-score-rank=26 prefix-density=0.75 prefix-fanout=2.0 sequence=CCCATGTTCGGGTGCACCGACGCCACGCAGGTGCT criterion=fanout-score sequence-density=0.09 sequence-density-rank=26 fanout-score=80.20 fanout-score-rank=1 prefix-density=0.56 prefix-fanout=12.5 sequence=CGCCGCCGCCTTCTCGGCGAAGCGCGTGCAGGTCAAGGACCGGCGGTCGGCGCTCCTCGGCCTGGCGGCCGTTATCGCCGTTACTGCCGGCGCCTCCGGGTCCGCCAGGGCCAGCGTCTTCGACGAGTACCTCGAGAAGAGCAAGCTCAACAAGGAGCTGAACGACAAGAAGAGGGCGGCAACCAGCGGCGCCAACTTCGCCCGGGCATACACCGTGCAGTTCGGCAGCTGCAAGTTCCCCTACAACTTCACCGGCTGCCAGGACCTTGCCAAGCAGAAGAAAGTGCCGTTCATCAGTGACGACCTGGAGATCGAGTGCGAGGGCAAGGAGAAGTACAAGTGCGGATCCAACGTCTTCTGGAAATGGTGAAGATGATACGAATATGCCGGCCGGGTGCTGATATTGTGATGCGTGTGTATGTGGCATGCCAGCGTTTGTACCTAGAAGATGTGAAAAACTGCAGAAATGTTTTGGATGTTAACTTGT SRR5578500 testing PE reads STAR mapping to Ensembl genome Started job on | Dec 09 21:05:16 Started mapping on | Dec 09 21:05:16 Finished on | Dec 09 21:25:03 Mapping speed, Million of reads per hour | 46.66 Number of input reads | 15385479 Average input read length | 289 UNIQUE READS: Uniquely mapped reads number | 9468980 Uniquely mapped reads % | 61.54% Average mapped length | 288.36 Number of splices: Total | 8706823 Number of splices: Annotated (sjdb) | 8258137 Number of splices: GT/AG | 8604806 Number of splices: GC/AG | 93055 Number of splices: AT/AC | 3279 Number of splices: Non-canonical | 5683 Mismatch rate per base, % | 0.16% Deletion rate per base | 0.00% Deletion average length | 1.33 Insertion rate per base | 0.00% Insertion average length | 1.16 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 70018 % of reads mapped to multiple loci | 0.46% Number of reads mapped to too many loci | 12161 % of reads mapped to too many loci | 0.08% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 37.57% % of reads unmapped: other | 0.35% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 5869564 5869564 5869564 N_multimapping 70018 70018 70018 N_noFeature 163117 9164082 232921 N_ambiguous 279911 1072 45116 UnstrandedReadsAssigned:9025952 PositiveStrandReadsAssigned:303826 NegativeStrandReadsAssigned:9190943 Dataset is classified negative stranded MeadianReadLen=151 20thPercentileLength=149 echo kmer=145 SRR5578500 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: SRR5578500-trimmed-pair1.fastq SRR5578500-trimmed-pair2.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 15,385,479 reads, 9,224,491 reads pseudoaligned [quant] estimated average fragment length: 223.524 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,047 rounds 52973 SRR5578500.ke.tsv 35125 SRR5578500.se.tsv 88098 total ==> SRR5578500.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 713.683 0 0 PNS24247 1044 821.476 4.91689 0.704464 PNS24249 1928 1705.48 11.1957 0.772625 PNS24246 1044 821.476 4.91689 0.704464 PNS24248 1044 821.476 4.91689 0.704464 PNS24244 1471 1248.48 59.0537 5.56712 PNS24243 293 103.494 0 0 KQK14069 1603 1380.48 855.099 72.904 KQK14071 474 258.743 7.93893 3.61124 ==> SRR5578500.se.tsv <== BRADI_1g14170v3 882 BRADI_1g53295v3 9 BRADI_1g59795v3 163 BRADI_1g07683v3 0 BRADI_1g00485v3 9 BRADI_1g20270v3 882 BRADI_1g74790v3 103 BRADI_1g09890v3 8 BRADI_1g77505v3 242 BRADI_1g48960v3 0 SRR5578500 completed mapping pipeline successfully