BamQC report ----------------------------------- >>>>>>> Input bam file = SRR8751222.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP188831/SRP188831.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 = 4,118,220 number of mapped reads = 3,942,707 (95.74%) number of supplementary alignments = 71,240 (1.73%) number of secondary alignments = 0 number of mapped bases = 390,280,990 bp number of sequenced bases = 390,183,006 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 50,246 duplication rate = 1.14% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 51.7858 >>>>>>> ACTG content number of A's = 114,641,322 bp (29.38%) number of C's = 80,621,560 bp (20.66%) number of T's = 115,372,475 bp (29.57%) number of G's = 79,545,420 bp (20.39%) number of N's = 2,229 bp (0%) GC percentage = 41.05% >>>>>>> Mismatches and indels general error rate = 0.0028 number of mismatches = 1,027,382 number of insertions = 39,876 mapped reads with insertion percentage = 1% number of deletions = 44,616 mapped reads with deletion percentage = 1.11% homopolymer indels = 46.1% >>>>>>> Coverage mean coverageData = 0.1261X std coverageData = 0.4488X There is a 10.23% of reference with a coverageData >= 1X There is a 1.85% of reference with a coverageData >= 2X There is a 0.37% of reference with a coverageData >= 3X There is a 0.08% of reference with a coverageData >= 4X There is a 0.02% of reference with a coverageData >= 5X There is a 0.01% 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 46962522 0.18841486457118997 0.6829063579530819 chr2 243199373 29575041 0.12160821236985672 0.4030781833854362 chr3 198022430 26837527 0.135527712693961 0.4202862885949664 chr4 191154276 18859874 0.09866310288554571 0.35979652604872414 chr5 180915260 33136196 0.18315865671032946 0.4976026225319822 chr6 171115067 22682505 0.13255702959225676 0.46341001275885185 chr7 159138663 22230327 0.13969155314569912 0.43299885234507235 chr8 146364022 19740107 0.13486994092031715 0.4252161760182344 chr9 141213431 17079244 0.12094631423550639 0.405660431303527 chr10 135534747 18484285 0.13638041468436135 0.5242500345551347 chr11 135006516 17811711 0.13193223207093205 0.43625710019379377 chr12 133851895 20800200 0.15539712754907206 0.45412399150502 chr13 115169878 11866059 0.10303092445752178 0.36828196933226726 chr14 107349540 8597757 0.08009123280826355 0.3239896235105898 chr15 102531392 9647829 0.0940963427083873 0.3553598510083511 chr16 90354753 10297117 0.11396320235638295 0.39403285155526413 chr17 81195210 9777447 0.1204190124023326 0.4356232010644952 chr18 78077248 7824696 0.10021736421857491 0.40807603506126505 chr19 59128983 4061548 0.06868963059959952 0.43103053873705993 chr20 63025520 6961950 0.11046239681957404 0.3875330272741294 chr21 48129895 4912923 0.10207632906741226 0.37193788948433704 chr22 51304566 3988526 0.07774212533052126 0.3270702416654218 chrMT 16571 417991 25.224247178806348 14.074281135470294 chrX 155270560 17284623 0.11131938340404002 0.3832588885015567 chrY 59373566 442985 0.007460980194452191 0.15919323855130013