BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524791.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 = 1,246,774 number of mapped reads = 1,145,572 (91.88%) number of supplementary alignments = 4,817 (0.39%) number of secondary alignments = 0 number of mapped bases = 65,914,211 bp number of sequenced bases = 65,893,143 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 42,397 duplication rate = 2.88% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.6242 >>>>>>> ACTG content number of A's = 16,519,772 bp (25.07%) number of C's = 13,380,696 bp (20.31%) number of T's = 20,173,211 bp (30.62%) number of G's = 15,811,685 bp (24%) number of N's = 7,779 bp (0.01%) GC percentage = 44.3% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 328,709 number of insertions = 4,959 mapped reads with insertion percentage = 0.43% number of deletions = 13,239 mapped reads with deletion percentage = 1.15% homopolymer indels = 41.66% >>>>>>> Coverage mean coverageData = 0.0213X std coverageData = 0.2026X There is a 1.92% of reference with a coverageData >= 1X There is a 0.15% 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 5275223 0.021164332425073477 0.2713908907098765 chr2 243199373 5593502 0.022999656335462675 0.30098594508490284 chr3 198022430 4312062 0.021775624104804693 0.16195249759223723 chr4 191154276 4225653 0.02210598208119603 0.1821745597688413 chr5 180915260 3928825 0.02171638257601929 0.15950464493110528 chr6 171115067 3735833 0.021832285522817227 0.17047235624542167 chr7 159138663 3638520 0.022863834164548687 0.24006396818898157 chr8 146364022 3295526 0.022515956824416865 0.1870746244797724 chr9 141213431 2766112 0.019588165094579425 0.17619785348405118 chr10 135534747 3196690 0.023585759893734112 0.23956820406939935 chr11 135006516 3003096 0.022244081907868803 0.18270600531259568 chr12 133851895 2990956 0.022345264517921095 0.16429570264969587 chr13 115169878 2023867 0.017572884812815378 0.14415744684388032 chr14 107349540 1972328 0.01837295250636379 0.15104991548992747 chr15 102531392 1894882 0.01848099360632888 0.1472604525694844 chr16 90354753 1959282 0.0216843268887028 0.1719276091842998 chr17 81195210 1884198 0.0232057777792557 0.17168583436511953 chr18 78077248 1718341 0.022008216785509654 0.27802110928580814 chr19 59128983 1474273 0.024933170252564633 0.22998704239292922 chr20 63025520 1422144 0.02256457384246889 0.17272572987784365 chr21 48129895 858906 0.01784558225194549 0.1565607881663642 chr22 51304566 849001 0.016548254204118987 0.14112815472605192 chrMT 16571 17854 1.0774244161486934 1.1875656715871725 chrX 155270560 3649374 0.023503322200937513 0.17562184051869711 chrY 59373566 227763 0.0038361010689504484 0.11200167282866896