BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525186.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 = 936,719 number of mapped reads = 855,411 (91.32%) number of supplementary alignments = 2,629 (0.28%) number of secondary alignments = 0 number of mapped bases = 50,823,272 bp number of sequenced bases = 50,806,407 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 20,303 duplication rate = 1.67% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.2719 >>>>>>> ACTG content number of A's = 13,309,884 bp (26.2%) number of C's = 9,242,469 bp (18.19%) number of T's = 15,653,362 bp (30.81%) number of G's = 12,599,444 bp (24.8%) number of N's = 1,248 bp (0%) GC percentage = 42.99% >>>>>>> Mismatches and indels general error rate = 0.005 number of mismatches = 249,339 number of insertions = 2,966 mapped reads with insertion percentage = 0.35% number of deletions = 10,372 mapped reads with deletion percentage = 1.2% homopolymer indels = 44.53% >>>>>>> Coverage mean coverageData = 0.0164X std coverageData = 0.1873X There is a 1.53% of reference with a coverageData >= 1X There is a 0.07% 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 5198399 0.0208561125310095 0.3269891729616627 chr2 243199373 3190092 0.013117188423014561 0.20682456679242073 chr3 198022430 4032881 0.020365778765567114 0.15146208262969416 chr4 191154276 2666488 0.01394940283731869 0.12815260876224027 chr5 180915260 2354442 0.013014059731611363 0.1189436917316943 chr6 171115067 3352493 0.0195920386134086 0.15539478400127757 chr7 159138663 3976884 0.02499005537076807 0.31275293045071645 chr8 146364022 2731716 0.018663848961461307 0.1694105025447314 chr9 141213431 1795529 0.012715001592164417 0.13526300241679118 chr10 135534747 2572297 0.018978874841593205 0.19924712733676062 chr11 135006516 2429159 0.01799290191297137 0.15876191452769334 chr12 133851895 2442317 0.018246413321230903 0.14249842405265323 chr13 115169878 1240225 0.010768657756153913 0.10970795182761788 chr14 107349540 2427851 0.022616314890590124 0.15913664700095814 chr15 102531392 1019443 0.009942740268268278 0.10492530391825967 chr16 90354753 1337190 0.014799332139173687 0.1365702628151205 chr17 81195210 869893 0.010713599977141509 0.11170951477481456 chr18 78077248 1142062 0.014627334201123483 0.23566521716543842 chr19 59128983 880750 0.014895402479694264 0.2360870231334426 chr20 63025520 932172 0.01479038967072386 0.12818127564605822 chr21 48129895 691640 0.014370278597117238 0.12963382956467634 chr22 51304566 428658 0.008355162774401015 0.09552595417827416 chrMT 16571 141882 8.56206626033432 4.767946667538329 chrX 155270560 2823831 0.018186519067104542 0.14868231912506305 chrY 59373566 144978 0.002441793710015666 0.0778482306632078