BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524685.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP215441/SRP215441.result/quality.files/genome_results.txt >>>>>>> Reference number of bases = 3,095,693,983 bp number of contigs = 25 >>>>>>> Globals number of windows = 424 number of reads = 746,109 number of mapped reads = 692,423 (92.8%) number of supplementary alignments = 2,733 (0.37%) number of secondary alignments = 0 number of mapped bases = 41,235,950 bp number of sequenced bases = 41,223,251 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 14,245 duplication rate = 1.47% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.8159 >>>>>>> ACTG content number of A's = 10,195,507 bp (24.73%) number of C's = 8,093,128 bp (19.63%) number of T's = 13,469,235 bp (32.67%) number of G's = 9,459,124 bp (22.95%) number of N's = 6,257 bp (0.02%) GC percentage = 42.58% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 204,869 number of insertions = 3,355 mapped reads with insertion percentage = 0.48% number of deletions = 7,968 mapped reads with deletion percentage = 1.14% homopolymer indels = 42.93% >>>>>>> Coverage mean coverageData = 0.0133X std coverageData = 0.1515X There is a 1.26% of reference with a coverageData >= 1X There is a 0.05% of reference with a coverageData >= 2X There is a 0.01% of reference with a coverageData >= 3X There is a 0% of reference with a coverageData >= 4X There is a 0% of reference with a coverageData >= 5X There is a 0% of reference with a coverageData >= 6X There is a 0% of reference with a coverageData >= 7X There is a 0% of reference with a coverageData >= 8X There is a 0% of reference with a coverageData >= 9X There is a 0% of reference with a coverageData >= 10X There is a 0% of reference with a coverageData >= 11X There is a 0% of reference with a coverageData >= 12X There is a 0% of reference with a coverageData >= 13X There is a 0% of reference with a coverageData >= 14X There is a 0% of reference with a coverageData >= 15X There is a 0% of reference with a coverageData >= 16X There is a 0% of reference with a coverageData >= 17X There is a 0% of reference with a coverageData >= 18X There is a 0% of reference with a coverageData >= 19X There is a 0% of reference with a coverageData >= 20X There is a 0% of reference with a coverageData >= 21X There is a 0% of reference with a coverageData >= 22X There is a 0% of reference with a coverageData >= 23X There is a 0% of reference with a coverageData >= 24X There is a 0% of reference with a coverageData >= 25X There is a 0% of reference with a coverageData >= 26X There is a 0% of reference with a coverageData >= 27X There is a 0% of reference with a coverageData >= 28X There is a 0% of reference with a coverageData >= 29X There is a 0% of reference with a coverageData >= 30X There is a 0% of reference with a coverageData >= 31X There is a 0% of reference with a coverageData >= 32X There is a 0% of reference with a coverageData >= 33X There is a 0% of reference with a coverageData >= 34X There is a 0% of reference with a coverageData >= 35X There is a 0% of reference with a coverageData >= 36X There is a 0% of reference with a coverageData >= 37X There is a 0% of reference with a coverageData >= 38X There is a 0% of reference with a coverageData >= 39X There is a 0% of reference with a coverageData >= 40X There is a 0% of reference with a coverageData >= 41X There is a 0% of reference with a coverageData >= 42X There is a 0% of reference with a coverageData >= 43X There is a 0% of reference with a coverageData >= 44X There is a 0% of reference with a coverageData >= 45X There is a 0% of reference with a coverageData >= 46X There is a 0% of reference with a coverageData >= 47X There is a 0% of reference with a coverageData >= 48X There is a 0% of reference with a coverageData >= 49X There is a 0% of reference with a coverageData >= 50X There is a 0% of reference with a coverageData >= 51X >>>>>>> Coverage per contig chr1 249250621 3299627 0.013238189685393 0.22723103252682572 chr2 243199373 3523963 0.014490016797864031 0.19298998461511027 chr3 198022430 2741524 0.013844512462552853 0.12254361581495793 chr4 191154276 2676484 0.01400169567747467 0.13157857375967058 chr5 180915260 2459131 0.01359272291347894 0.12142918136191659 chr6 171115067 2375508 0.01388251801344881 0.131668931009956 chr7 159138663 2232040 0.0140257556392817 0.17059158302964106 chr8 146364022 2101706 0.014359444153563914 0.16221511125751098 chr9 141213431 1781571 0.012616158302959157 0.13703509054812543 chr10 135534747 2003115 0.014779346583352533 0.16046700168556322 chr11 135006516 1881917 0.01393945311498891 0.14118185477248987 chr12 133851895 1867653 0.01395313080924256 0.12299974627991438 chr13 115169878 1299101 0.011279867814047698 0.11061821832055474 chr14 107349540 1220117 0.011365833519174837 0.11356677781493009 chr15 102531392 1186896 0.011575927887529314 0.1117766778205673 chr16 90354753 1178692 0.013045157679751502 0.12474046331950643 chr17 81195210 1120843 0.013804299539344747 0.12661566827329487 chr18 78077248 1090634 0.013968653198432403 0.21818307357598898 chr19 59128983 856300 0.014481899680229575 0.18694508065831072 chr20 63025520 886376 0.014063763377120887 0.12436773438140163 chr21 48129895 536437 0.0111456091894653 0.11641809674950404 chr22 51304566 483332 0.009420837903589321 0.10059990141530661 chrMT 16571 1040 0.0627602437994086 0.2541941165161754 chrX 155270560 2302372 0.014828129685369847 0.1328966136974108 chrY 59373566 129571 0.002182301127070589 0.08407152716495563