BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524464.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 = 1,138,028 number of mapped reads = 1,052,804 (92.51%) number of supplementary alignments = 2,409 (0.21%) number of secondary alignments = 0 number of mapped bases = 61,013,575 bp number of sequenced bases = 60,994,081 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 37,842 duplication rate = 2.78% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.3313 >>>>>>> ACTG content number of A's = 15,579,157 bp (25.54%) number of C's = 11,773,739 bp (19.3%) number of T's = 19,128,413 bp (31.36%) number of G's = 14,511,456 bp (23.79%) number of N's = 1,316 bp (0%) GC percentage = 43.09% >>>>>>> Mismatches and indels general error rate = 0.0048 number of mismatches = 284,650 number of insertions = 4,728 mapped reads with insertion percentage = 0.45% number of deletions = 11,420 mapped reads with deletion percentage = 1.08% homopolymer indels = 41.44% >>>>>>> Coverage mean coverageData = 0.0197X std coverageData = 0.1998X There is a 1.79% of reference with a coverageData >= 1X There is a 0.13% 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 6016809 0.0241395948217116 0.34534266377637274 chr2 243199373 4854029 0.019959052279300078 0.22045198703948674 chr3 198022430 3327706 0.01680469227652645 0.1405837900936994 chr4 191154276 3481801 0.01821461215965684 0.15738581060609455 chr5 180915260 3344889 0.018488705706749115 0.1470988949431241 chr6 171115067 2655538 0.015519019140494507 0.16217441832503432 chr7 159138663 2990268 0.01879033004066397 0.2456630379205617 chr8 146364022 5723907 0.039107336091105775 0.23651800428053665 chr9 141213431 2543669 0.018012939576547787 0.17658754448446318 chr10 135534747 3177061 0.023440933563700826 0.206763075306913 chr11 135006516 2037857 0.015094508475427957 0.1834260708836944 chr12 133851895 2823109 0.02109128899519876 0.15673605541007382 chr13 115169878 1384548 0.012021789239023072 0.11950186126022058 chr14 107349540 1445469 0.013465069342635283 0.12599412530040863 chr15 102531392 1615733 0.015758422552187724 0.13800037084075847 chr16 90354753 1910386 0.02114317107368995 0.16409084466713605 chr17 81195210 2104756 0.025922169546701092 0.17941550132396064 chr18 78077248 1403568 0.017976658193690435 0.2674182127158748 chr19 59128983 1224465 0.020708372406811056 0.25465944122432305 chr20 63025520 1720608 0.027300179355918046 0.17995858756497793 chr21 48129895 827355 0.01719004373477233 0.1477214953974824 chr22 51304566 503011 0.009804410001246282 0.10626976373762013 chrMT 16571 9285 0.5603162150745278 0.8752555796453223 chrX 155270560 3702415 0.023844925915125187 0.18120632621673102 chrY 59373566 185333 0.0031214732832452745 0.08706788296116941