BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524844.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 = 909,944 number of mapped reads = 821,944 (90.33%) number of supplementary alignments = 3,584 (0.39%) number of secondary alignments = 0 number of mapped bases = 47,563,734 bp number of sequenced bases = 47,547,396 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 20,044 duplication rate = 1.77% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.9773 >>>>>>> ACTG content number of A's = 12,363,553 bp (26%) number of C's = 8,936,140 bp (18.79%) number of T's = 15,230,811 bp (32.03%) number of G's = 11,015,916 bp (23.17%) number of N's = 976 bp (0%) GC percentage = 41.96% >>>>>>> Mismatches and indels general error rate = 0.0053 number of mismatches = 245,715 number of insertions = 3,577 mapped reads with insertion percentage = 0.43% number of deletions = 10,200 mapped reads with deletion percentage = 1.23% homopolymer indels = 42.24% >>>>>>> Coverage mean coverageData = 0.0154X std coverageData = 0.1727X There is a 1.44% of reference with a coverageData >= 1X There is a 0.06% 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 4847949 0.019450097979896306 0.2675633202159164 chr2 243199373 3843495 0.015803885316760254 0.22321655892270284 chr3 198022430 4535663 0.022904794169024186 0.15862930791219287 chr4 191154276 2624573 0.013730129688545393 0.12684597610277776 chr5 180915260 2097608 0.011594422714811344 0.11257712900044578 chr6 171115067 3033733 0.0177291985632101 0.14913541734639105 chr7 159138663 3419818 0.02148954839466007 0.28514851562331417 chr8 146364022 2699313 0.018442462588244536 0.17679050015399786 chr9 141213431 1443327 0.010220890391084684 0.12345920147731455 chr10 135534747 2469173 0.018218007224376196 0.18933597325968668 chr11 135006516 2074228 0.015363910287115328 0.14888016170523063 chr12 133851895 2039616 0.015237856737104843 0.1302321988525341 chr13 115169878 1453378 0.012619428145960178 0.11749285949473133 chr14 107349540 1696867 0.01580693312705392 0.13252244249873235 chr15 102531392 1234584 0.012041034222962661 0.11652764077915814 chr16 90354753 1261914 0.013966216032929668 0.13198181453515848 chr17 81195210 882864 0.010873350780175333 0.11166205227433217 chr18 78077248 977246 0.012516399143576372 0.20396147259914643 chr19 59128983 649692 0.0109877080077633 0.19694989913973646 chr20 63025520 790117 0.01253646142070704 0.11831946305074918 chr21 48129895 577038 0.011989180529066187 0.11687718813594539 chr22 51304566 380000 0.0074067481635065385 0.08947961398720577 chrMT 16571 51696 3.119666887936757 2.3538536046273277 chrX 155270560 2348136 0.015122866820342504 0.1353021266589506 chrY 59373566 131706 0.0022182598902683393 0.07079606262263782