BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524300.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 = 760,720 number of mapped reads = 686,853 (90.29%) number of supplementary alignments = 2,592 (0.34%) number of secondary alignments = 0 number of mapped bases = 40,081,437 bp number of sequenced bases = 40,067,554 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 17,662 duplication rate = 1.94% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.7537 >>>>>>> ACTG content number of A's = 10,418,145 bp (26%) number of C's = 7,681,061 bp (19.17%) number of T's = 12,682,816 bp (31.65%) number of G's = 9,284,714 bp (23.17%) number of N's = 818 bp (0%) GC percentage = 42.34% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 203,071 number of insertions = 2,565 mapped reads with insertion percentage = 0.37% number of deletions = 8,461 mapped reads with deletion percentage = 1.22% homopolymer indels = 43.83% >>>>>>> Coverage mean coverageData = 0.0129X std coverageData = 0.1533X There is a 1.22% of reference with a coverageData >= 1X There is a 0.05% 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 3230739 0.012961809230557545 0.24522557430286712 chr2 243199373 3412492 0.014031664464858633 0.19834401082510195 chr3 198022430 2683363 0.013550803310513865 0.12217606529593876 chr4 191154276 2619676 0.013704511637500591 0.12628683734614388 chr5 180915260 2413518 0.013340599350215122 0.1204609377140178 chr6 171115067 2288894 0.013376344001314624 0.12753244050145368 chr7 159138663 2247772 0.01412461282271801 0.19389199796542575 chr8 146364022 2064994 0.01410861748524511 0.1683467205574348 chr9 141213431 1693039 0.011989220770367091 0.13105663413710453 chr10 135534747 1946517 0.014361756251332361 0.15199850335290957 chr11 135006516 1826089 0.013525932333517888 0.13495323858536712 chr12 133851895 1790415 0.013376090043402076 0.121084546916715 chr13 115169878 1261455 0.010952994150084973 0.1101642758876109 chr14 107349540 1210113 0.011272642621477464 0.11315473828097611 chr15 102531392 1119567 0.010919260707979075 0.10911975940055045 chr16 90354753 1156256 0.01279684755488181 0.12380420527814934 chr17 81195210 1079162 0.013290956449278227 0.12278253182031497 chr18 78077248 1064041 0.013628054615859411 0.2031599347497498 chr19 59128983 796851 0.01347648749514261 0.17692705757424518 chr20 63025520 823926 0.013072894916218065 0.12011628413940213 chr21 48129895 517975 0.010762022231712744 0.11270494942898326 chr22 51304566 451887 0.008807929493059155 0.09781796152679262 chrMT 16571 11034 0.6658620481564178 0.9436226071316989 chrX 155270560 2243873 0.01445137442667818 0.13064276099692462 chrY 59373566 127789 0.0021522877706216938 0.07357550976227682