BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524809.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 = 1,352,708 number of mapped reads = 1,240,375 (91.7%) number of supplementary alignments = 4,827 (0.36%) number of secondary alignments = 0 number of mapped bases = 71,694,618 bp number of sequenced bases = 71,670,811 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 40,470 duplication rate = 2.48% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.9052 >>>>>>> ACTG content number of A's = 18,100,491 bp (25.26%) number of C's = 13,415,262 bp (18.72%) number of T's = 21,849,519 bp (30.49%) number of G's = 18,296,311 bp (25.53%) number of N's = 9,228 bp (0.01%) GC percentage = 44.25% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 360,053 number of insertions = 5,442 mapped reads with insertion percentage = 0.44% number of deletions = 14,662 mapped reads with deletion percentage = 1.17% homopolymer indels = 40.84% >>>>>>> Coverage mean coverageData = 0.0232X std coverageData = 0.2112X There is a 2.09% of reference with a coverageData >= 1X There is a 0.16% of reference with a coverageData >= 2X There is a 0.02% of reference with a coverageData >= 3X There is a 0.01% 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 5720345 0.022950173512305914 0.2810399545092615 chr2 243199373 6045991 0.02486022445460828 0.30457622787588046 chr3 198022430 4678526 0.023626242744319417 0.16727726148134933 chr4 191154276 4611963 0.024126915162494194 0.19381620064509286 chr5 180915260 4250873 0.023496486697694823 0.1652064959939648 chr6 171115067 4107993 0.024007196280383655 0.1792507202078365 chr7 159138663 3950124 0.024821900131208215 0.25254587289215386 chr8 146364022 3528605 0.024108417846019563 0.1970836302986429 chr9 141213431 3030912 0.021463340834768047 0.18582882191352132 chr10 135534747 3544489 0.02615188413639788 0.26585013337423263 chr11 135006516 3252233 0.024089452097260253 0.19513699291037745 chr12 133851895 3269730 0.0244279694359202 0.17121899365254933 chr13 115169878 2206978 0.019162805746829045 0.14970130016711586 chr14 107349540 2142074 0.019954198220132103 0.15573249379405635 chr15 102531392 2075286 0.02024049376019395 0.15492328506409248 chr16 90354753 2185817 0.02419149992031963 0.1843802454021 chr17 81195210 2048689 0.025231648517197013 0.18106024360845363 chr18 78077248 1863661 0.023869450419154118 0.28244797476849104 chr19 59128983 1546854 0.02616067318458699 0.23083612803869008 chr20 63025520 1549323 0.024582470719797314 0.17536683277472 chr21 48129895 958561 0.019916124894932764 0.1688264516235054 chr22 51304566 896001 0.01746435200328953 0.1440139018197338 chrMT 16571 12650 0.7633818115985759 0.9915222097944761 chrX 155270560 3976092 0.025607507308532923 0.18246405538027277 chrY 59373566 240848 0.004056485338946965 0.1240374235642206