BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524716.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 = 832,031 number of mapped reads = 761,260 (91.49%) number of supplementary alignments = 2,645 (0.32%) number of secondary alignments = 0 number of mapped bases = 44,599,120 bp number of sequenced bases = 44,585,369 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 21,845 duplication rate = 2.13% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.5292 >>>>>>> ACTG content number of A's = 11,870,852 bp (26.62%) number of C's = 7,919,576 bp (17.76%) number of T's = 13,981,943 bp (31.36%) number of G's = 10,806,870 bp (24.24%) number of N's = 6,128 bp (0.01%) GC percentage = 42% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 227,932 number of insertions = 3,219 mapped reads with insertion percentage = 0.42% number of deletions = 8,545 mapped reads with deletion percentage = 1.12% homopolymer indels = 43% >>>>>>> Coverage mean coverageData = 0.0144X std coverageData = 0.1644X There is a 1.34% of reference with a coverageData >= 1X There is a 0.07% of reference with a coverageData >= 2X There is a 0.01% 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 3576218 0.014347879999865677 0.25172867242700114 chr2 243199373 3773058 0.015514258747698333 0.22787656942666512 chr3 198022430 2932505 0.014808953712970798 0.12795606407407206 chr4 191154276 2888520 0.015110935839070637 0.13910910618804453 chr5 180915260 2675248 0.014787298760756832 0.12785529856736538 chr6 171115067 2581390 0.015085696690870594 0.1410351432869268 chr7 159138663 2463798 0.01548208306865064 0.18722943625282146 chr8 146364022 2269493 0.015505811940587422 0.16786597263845046 chr9 141213431 1876998 0.013291922635885817 0.14582076996675417 chr10 135534747 2180765 0.016090080575426168 0.1749512423075058 chr11 135006516 2012795 0.014908872990989561 0.149630466649543 chr12 133851895 1995504 0.014908298459278444 0.1293169105326892 chr13 115169878 1361767 0.011823985782115702 0.11503353921597614 chr14 107349540 1357786 0.012648270313966878 0.12051967225740223 chr15 102531392 1293168 0.012612410450840265 0.12000494455991333 chr16 90354753 1306846 0.014463500331853046 0.13223657007385 chr17 81195210 1233071 0.015186499302114005 0.13238732159000988 chr18 78077248 1175764 0.015058983636308493 0.2136345701393465 chr19 59128983 942227 0.015935112565693882 0.20614486812088273 chr20 63025520 936231 0.014854792154035382 0.1293502155847355 chr21 48129895 597679 0.012418040803953551 0.1303326246782971 chr22 51304566 535048 0.01042885734575749 0.10732972744317167 chrMT 16571 10168 0.6136020759157564 0.8582081785086172 chrX 155270560 2474229 0.015934952511280954 0.1411892330064407 chrY 59373566 148844 0.0025069068615484543 0.098384771465738