BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524380.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 = 2,319,201 number of mapped reads = 2,135,607 (92.08%) number of supplementary alignments = 7,883 (0.34%) number of secondary alignments = 0 number of mapped bases = 126,048,063 bp number of sequenced bases = 126,013,309 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 89,102 duplication rate = 3% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 46.0052 >>>>>>> ACTG content number of A's = 31,873,586 bp (25.29%) number of C's = 23,792,244 bp (18.88%) number of T's = 37,762,700 bp (29.97%) number of G's = 32,569,292 bp (25.85%) number of N's = 15,487 bp (0.01%) GC percentage = 44.73% >>>>>>> Mismatches and indels general error rate = 0.005 number of mismatches = 619,850 number of insertions = 7,554 mapped reads with insertion percentage = 0.35% number of deletions = 21,952 mapped reads with deletion percentage = 1.02% homopolymer indels = 45.61% >>>>>>> Coverage mean coverageData = 0.0407X std coverageData = 0.3843X There is a 3.58% of reference with a coverageData >= 1X There is a 0.35% of reference with a coverageData >= 2X There is a 0.05% of reference with a coverageData >= 3X There is a 0.01% of reference with a coverageData >= 4X There is a 0.01% 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 10216178 0.04098757290558566 0.8178790681096109 chr2 243199373 10737408 0.044150640141658586 0.41643019609234105 chr3 198022430 8435120 0.04259679067669253 0.227016919687073 chr4 191154276 8074531 0.04224091225665284 0.26090176652948366 chr5 180915260 7639264 0.04222564752138653 0.22792059209062412 chr6 171115067 7134754 0.04169565033101381 0.2641381249606593 chr7 159138663 6991501 0.04393339034147849 0.5456480894179894 chr8 146364022 6423852 0.04388955641024951 0.3250482897747008 chr9 141213431 5210318 0.03689675948741731 0.3011621684207456 chr10 135534747 6052152 0.04465387757723855 0.33879326009131405 chr11 135006516 5749757 0.04258873697622121 0.34321626997120286 chr12 133851895 5633417 0.04208694243738574 0.2362937596502886 chr13 115169878 3983671 0.03458952174977558 0.20584373759888516 chr14 107349540 3786511 0.035272726832364626 0.2216296940215103 chr15 102531392 3706289 0.03614784631032806 0.21014423581534336 chr16 90354753 3588074 0.03971096019708006 0.24137131009964116 chr17 81195210 3414918 0.04205812140888607 0.25199175715715433 chr18 78077248 3410090 0.043675847796274786 0.5771907928549913 chr19 59128983 2549860 0.043123691134684325 0.5285111224346195 chr20 63025520 2684275 0.04259028723602756 0.23531740225066694 chr21 48129895 1678341 0.034871071295709245 0.24239096264409143 chr22 51304566 1506693 0.029367620028205678 0.190531620961746 chrMT 16571 14346 0.8657292861022268 1.0961200321589963 chrX 155270560 7042133 0.04535394861717508 0.2732448003249617 chrY 59373566 384610 0.006477798554326348 0.16933108957391987