BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525276.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 = 694,941 number of mapped reads = 642,565 (92.46%) number of supplementary alignments = 2,866 (0.41%) number of secondary alignments = 0 number of mapped bases = 37,546,079 bp number of sequenced bases = 37,533,185 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 13,607 duplication rate = 1.53% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.4147 >>>>>>> ACTG content number of A's = 9,145,590 bp (24.37%) number of C's = 7,171,311 bp (19.11%) number of T's = 11,950,922 bp (31.84%) number of G's = 9,264,619 bp (24.68%) number of N's = 743 bp (0%) GC percentage = 43.79% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 186,087 number of insertions = 2,286 mapped reads with insertion percentage = 0.35% number of deletions = 8,018 mapped reads with deletion percentage = 1.24% homopolymer indels = 44.55% >>>>>>> Coverage mean coverageData = 0.0121X std coverageData = 0.1474X There is a 1.15% of reference with a coverageData >= 1X There is a 0.04% of reference with a coverageData >= 2X There is a 0% of reference with a coverageData >= 3X There is a 0% 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 4200175 0.01685121177692071 0.24030932560565213 chr2 243199373 3228544 0.013275297383270802 0.17566332652100974 chr3 198022430 2843258 0.014358262344321297 0.1254412498480116 chr4 191154276 1685329 0.00881659063697848 0.0999567197517531 chr5 180915260 1749317 0.009669261730602494 0.1019246907508325 chr6 171115067 2399565 0.014023107620324281 0.12941570039111316 chr7 159138663 2839959 0.01784581412500619 0.2416767179035335 chr8 146364022 1887941 0.012898941790490016 0.13696516587677943 chr9 141213431 1291646 0.009146764517038043 0.11423114920367038 chr10 135534747 2034330 0.015009656527414332 0.16113148885959735 chr11 135006516 1773778 0.013138462146523358 0.13592002112403492 chr12 133851895 1718119 0.012835970682372484 0.11767063116172245 chr13 115169878 856805 0.007439488648238388 0.08971112727348153 chr14 107349540 1447576 0.013484696813791656 0.12156108083274143 chr15 102531392 725177 0.007072731442093364 0.08760583817748867 chr16 90354753 998902 0.01105533429990119 0.11485624426637567 chr17 81195210 668767 0.008236532672309118 0.09529510596286445 chr18 78077248 838235 0.010735970099765811 0.18215835077624198 chr19 59128983 607544 0.010274893447769938 0.16514600788082986 chr20 63025520 645136 0.010236107532313894 0.10584491996061032 chr21 48129895 498738 0.010362333015685989 0.10767359371833525 chr22 51304566 418105 0.008149469581323425 0.09308653911139853 chrMT 16571 4193 0.25303240601050025 0.561231199256929 chrX 155270560 2083299 0.013417218305904224 0.12494413332231044 chrY 59373566 101641 0.0017118897658934618 0.05876071025711522