BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524330.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 = 1,070,989 number of mapped reads = 976,929 (91.22%) number of supplementary alignments = 3,928 (0.37%) number of secondary alignments = 0 number of mapped bases = 56,600,972 bp number of sequenced bases = 56,585,885 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 25,780 duplication rate = 1.87% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.0305 >>>>>>> ACTG content number of A's = 14,126,623 bp (24.96%) number of C's = 11,204,265 bp (19.8%) number of T's = 17,624,817 bp (31.15%) number of G's = 13,622,259 bp (24.07%) number of N's = 7,921 bp (0.01%) GC percentage = 43.87% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 287,150 number of insertions = 3,794 mapped reads with insertion percentage = 0.39% number of deletions = 9,287 mapped reads with deletion percentage = 0.94% homopolymer indels = 41.82% >>>>>>> Coverage mean coverageData = 0.0183X std coverageData = 0.1937X There is a 1.69% of reference with a coverageData >= 1X There is a 0.09% 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 4802192 0.01926651970106827 0.32070370410150933 chr2 243199373 3692299 0.015182189635003705 0.26824876779962936 chr3 198022430 3899956 0.019694516424225275 0.14783718879509888 chr4 191154276 2914442 0.015246543582420306 0.14515329260367427 chr5 180915260 3278162 0.018119875570474266 0.14212800499602254 chr6 171115067 3546713 0.020727064320992843 0.16060040927657637 chr7 159138663 2598630 0.016329344177033835 0.2229556129874969 chr8 146364022 5782255 0.03950598597242702 0.24786106498108862 chr9 141213431 2338018 0.01655662626028823 0.15687581603237438 chr10 135534747 2880542 0.021253162482385422 0.19323582891165583 chr11 135006516 2716795 0.0201234361162242 0.17533740387516814 chr12 133851895 2205983 0.01648077526283808 0.13690324769434606 chr13 115169878 1423239 0.012357736456054941 0.11744297300098495 chr14 107349540 1357539 0.01264596941915168 0.12144846416798857 chr15 102531392 1745114 0.017020289746968422 0.13820051046278034 chr16 90354753 1807526 0.020004769422589202 0.15357668700799795 chr17 81195210 1774568 0.021855574977883548 0.1641051614900846 chr18 78077248 1299371 0.01664212089032646 0.24514931772201717 chr19 59128983 1058946 0.01790908529578464 0.2256372322680699 chr20 63025520 1324386 0.02101348786967565 0.15771214485621712 chr21 48129895 809104 0.016810840746691844 0.1442660269863875 chr22 51304566 431934 0.008419016740147455 0.09820575177200677 chrMT 16571 42262 2.5503590610101985 2.324253873828404 chrX 155270560 2702113 0.017402609998959238 0.14962657225512968 chrY 59373566 168883 0.0028444139602462146 0.09497313090742543