BamQC report ----------------------------------- >>>>>>> Input bam file = SRR8751202.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 = 3,753,504 number of mapped reads = 3,654,322 (97.36%) number of supplementary alignments = 30,137 (0.8%) number of secondary alignments = 0 number of mapped bases = 529,076,739 bp number of sequenced bases = 528,851,882 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 444,463 duplication rate = 9.28% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 52.2605 >>>>>>> ACTG content number of A's = 152,792,848 bp (28.89%) number of C's = 111,674,986 bp (21.12%) number of T's = 154,170,438 bp (29.15%) number of G's = 110,197,636 bp (20.84%) number of N's = 15,974 bp (0%) GC percentage = 41.95% >>>>>>> Mismatches and indels general error rate = 0.0077 number of mismatches = 3,796,062 number of insertions = 73,918 mapped reads with insertion percentage = 1.88% number of deletions = 75,617 mapped reads with deletion percentage = 1.96% homopolymer indels = 41.15% >>>>>>> Coverage mean coverageData = 0.1709X std coverageData = 2.6818X There is a 13.47% of reference with a coverageData >= 1X There is a 2.33% of reference with a coverageData >= 2X There is a 0.39% of reference with a coverageData >= 3X There is a 0.08% of reference with a coverageData >= 4X There is a 0.03% of reference with a coverageData >= 5X There is a 0.02% 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 0.01% of reference with a coverageData >= 11X There is a 0.01% of reference with a coverageData >= 12X There is a 0.01% of reference with a coverageData >= 13X There is a 0.01% of reference with a coverageData >= 14X There is a 0.01% of reference with a coverageData >= 15X There is a 0.01% of reference with a coverageData >= 16X There is a 0.01% of reference with a coverageData >= 17X There is a 0.01% of reference with a coverageData >= 18X There is a 0.01% of reference with a coverageData >= 19X There is a 0.01% of reference with a coverageData >= 20X There is a 0.01% of reference with a coverageData >= 21X There is a 0.01% of reference with a coverageData >= 22X There is a 0.01% of reference with a coverageData >= 23X There is a 0.01% of reference with a coverageData >= 24X There is a 0.01% of reference with a coverageData >= 25X There is a 0.01% of reference with a coverageData >= 26X There is a 0.01% of reference with a coverageData >= 27X There is a 0.01% of reference with a coverageData >= 28X There is a 0.01% 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 61445230 0.2465198672463889 6.2906027744280175 chr2 243199373 39443007 0.16218383507098927 1.0913948030835647 chr3 198022430 33246744 0.16789382899704847 0.6858288440395565 chr4 191154276 24400713 0.1276493181873682 1.7055259147394828 chr5 180915260 40463532 0.22366013790102615 0.5404288982283187 chr6 171115067 28382288 0.16586667964195112 1.1148361423335547 chr7 159138663 29197517 0.18347217734259838 1.3380486808288803 chr8 146364022 25088423 0.1714111340832107 0.6262534063018979 chr9 141213431 22902327 0.16218235643605317 1.382414652334455 chr10 135534747 30649145 0.22613496301431837 7.619883503040972 chr11 135006516 23527820 0.1742717366323267 1.084507622079673 chr12 133851895 26920466 0.20112129155885317 0.5563089543207744 chr13 115169878 14369162 0.12476493202502133 0.3935605718751668 chr14 107349540 11062808 0.10305407922567716 0.37422185688635884 chr15 102531392 13132081 0.12807863761373686 0.4303162215823152 chr16 90354753 18133822 0.20069582836444697 2.591839208430553 chr17 81195210 15976870 0.1967710903143178 0.9612822645100181 chr18 78077248 10965761 0.14044758595999696 2.1480546274210157 chr19 59128983 11539815 0.1951634277220699 3.9889745335163225 chr20 63025520 10237310 0.16243118660504507 0.8201307540221066 chr21 48129895 6929178 0.14396827585017585 1.1789393197727687 chr22 51304566 7011955 0.13667311794431708 0.41785431185216027 chrMT 16571 941500 56.81612455494539 12.576338549452288 chrX 155270560 21262777 0.13694017075741854 0.5161929462736164 chrY 59373566 1846488 0.03109949636509958 2.0908353085518754