BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524670.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 = 662,362 number of mapped reads = 613,933 (92.69%) number of supplementary alignments = 2,620 (0.4%) number of secondary alignments = 0 number of mapped bases = 36,375,451 bp number of sequenced bases = 36,364,895 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 13,750 duplication rate = 1.66% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.8413 >>>>>>> ACTG content number of A's = 8,879,354 bp (24.42%) number of C's = 6,876,974 bp (18.91%) number of T's = 11,542,338 bp (31.74%) number of G's = 9,061,540 bp (24.92%) number of N's = 4,689 bp (0.01%) GC percentage = 43.83% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 180,237 number of insertions = 2,150 mapped reads with insertion percentage = 0.35% number of deletions = 6,698 mapped reads with deletion percentage = 1.08% homopolymer indels = 44.53% >>>>>>> Coverage mean coverageData = 0.0118X std coverageData = 0.1396X There is a 1.11% 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 2931935 0.011762999780048692 0.2136968943112184 chr2 243199373 3058398 0.012575682092733027 0.17631091164933047 chr3 198022430 2433569 0.012289360351754092 0.11487961498467843 chr4 191154276 2318747 0.012130238718803235 0.12013601574643118 chr5 180915260 2212823 0.01223126783224367 0.11491407207622858 chr6 171115067 2074199 0.012121661969135658 0.12101930323749771 chr7 159138663 2009039 0.012624455692454824 0.16435297756931033 chr8 146364022 1835338 0.012539543358544765 0.14184441060917782 chr9 141213431 1531777 0.010847247242367478 0.12412033803052758 chr10 135534747 1740240 0.012839807049626912 0.14189616152886184 chr11 135006516 1663719 0.01232324964226171 0.12873012840212497 chr12 133851895 1635805 0.01222100740523696 0.11572846966461232 chr13 115169878 1124930 0.009767571343611217 0.10288536399994229 chr14 107349540 1104443 0.010288288147299 0.10754673271489129 chr15 102531392 1040819 0.010151222759172138 0.10494051344938023 chr16 90354753 1086137 0.01202080647600243 0.11756483255571475 chr17 81195210 990450 0.012198379682742368 0.118382360856231 chr18 78077248 953792 0.012216004334579006 0.17599030120709735 chr19 59128983 785227 0.013279900315552528 0.18020223745278816 chr20 63025520 785424 0.01246199952019436 0.11648134620372574 chr21 48129895 479205 0.009956493775853864 0.10854746368741673 chr22 51304566 447060 0.008713844299940087 0.09696636181270693 chrMT 16571 9349 0.5641783839237222 0.7981518801546528 chrX 155270560 2009401 0.012941287775351619 0.1227254120591506 chrY 59373566 113625 0.0019137304301378832 0.0769783198025448