BamQC report ----------------------------------- >>>>>>> Input bam file = SRR8751172.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 = 4,529,175 number of mapped reads = 4,345,387 (95.94%) number of supplementary alignments = 134,067 (2.96%) number of secondary alignments = 0 number of mapped bases = 427,534,428 bp number of sequenced bases = 427,413,721 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 95,078 duplication rate = 1.24% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 51.2962 >>>>>>> ACTG content number of A's = 126,455,582 bp (29.59%) number of C's = 87,126,985 bp (20.38%) number of T's = 127,138,648 bp (29.75%) number of G's = 86,690,244 bp (20.28%) number of N's = 2,262 bp (0%) GC percentage = 40.67% >>>>>>> Mismatches and indels general error rate = 0.0042 number of mismatches = 1,512,748 number of insertions = 198,396 mapped reads with insertion percentage = 4.43% number of deletions = 57,771 mapped reads with deletion percentage = 1.31% homopolymer indels = 52.41% >>>>>>> Coverage mean coverageData = 0.1381X std coverageData = 1.0668X There is a 11.45% of reference with a coverageData >= 1X There is a 1.76% of reference with a coverageData >= 2X There is a 0.3% of reference with a coverageData >= 3X There is a 0.06% 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 0.01% of reference with a coverageData >= 7X There is a 0.01% of reference with a coverageData >= 8X There is a 0.01% of reference with a coverageData >= 9X There is a 0.01% 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 52543557 0.21080612272576846 2.9591702406914706 chr2 243199373 32732181 0.1345899070224988 0.4996815213987626 chr3 198022430 29395820 0.14844692088668945 0.43116240256038874 chr4 191154276 20683628 0.1082038468237038 0.3858895186747747 chr5 180915260 30013293 0.16589696745316013 0.4627781228582202 chr6 171115067 25273975 0.1477016340121586 0.9645302290548732 chr7 159138663 24435588 0.15354903415268734 0.6521893234255959 chr8 146364022 21957405 0.15001914199925442 0.49327096318613123 chr9 141213431 18620077 0.13185769135515163 0.6197663249661964 chr10 135534747 20779104 0.15331200640378959 1.303178779307895 chr11 135006516 19723069 0.1460897561418443 0.5915100513300007 chr12 133851895 23091407 0.17251460653582829 0.46642759951424884 chr13 115169878 13253541 0.11507818910774568 0.37439494273995216 chr14 107349540 9370822 0.0872926143884734 0.3456367239454127 chr15 102531392 10191035 0.09939429087239936 0.34926922246805686 chr16 90354753 11209188 0.12405753574468849 0.6465763456654743 chr17 81195210 10812221 0.13316328635642422 0.6235821096959048 chr18 78077248 9061017 0.11605195152370125 1.1620495634552634 chr19 59128983 7089161 0.11989316643582387 2.068707854567219 chr20 63025520 7236424 0.11481736287142097 0.3854211417725672 chr21 48129895 5462555 0.11349609218968792 0.39393035051379355 chr22 51304566 4178578 0.08144651296728637 0.3202216390248828 chrMT 16571 353940 21.35900066381027 9.239520199616154 chrX 155270560 19241364 0.12392152124652607 0.441130376508487 chrY 59373566 825478 0.013903123150797444 0.5531851687566479