BamQC report ----------------------------------- >>>>>>> Input bam file = SRR9867841.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 = 627,308 number of mapped reads = 577,168 (92.01%) number of supplementary alignments = 2,706 (0.43%) number of secondary alignments = 0 number of mapped bases = 34,320,341 bp number of sequenced bases = 34,310,275 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 12,176 duplication rate = 1.55% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.9398 >>>>>>> ACTG content number of A's = 8,669,555 bp (25.27%) number of C's = 6,504,881 bp (18.96%) number of T's = 10,937,904 bp (31.88%) number of G's = 8,193,555 bp (23.88%) number of N's = 4,380 bp (0.01%) GC percentage = 42.84% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 171,721 number of insertions = 2,025 mapped reads with insertion percentage = 0.35% number of deletions = 6,291 mapped reads with deletion percentage = 1.08% homopolymer indels = 43.84% >>>>>>> Coverage mean coverageData = 0.0111X std coverageData = 0.1359X There is a 1.05% 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 2759470 0.011071065696562497 0.21446068054635467 chr2 243199373 2861787 0.01176724662032743 0.1624319738051444 chr3 198022430 2292330 0.011576112867618078 0.11135841744720625 chr4 191154276 2238634 0.011711137447953296 0.1177497617302671 chr5 180915260 2086241 0.011531592194047091 0.11105672175509833 chr6 171115067 1956122 0.011431617532546097 0.11592495563960044 chr7 159138663 1918284 0.012054166874582828 0.15494329645900407 chr8 146364022 1737893 0.011873771820782569 0.1409277845637149 chr9 141213431 1456430 0.010313679015418867 0.11945334779939429 chr10 135534747 1664044 0.012277619111208435 0.14161956168689963 chr11 135006516 1579018 0.011695865109207025 0.1270798014586163 chr12 133851895 1524850 0.011392068823530664 0.11059577387859396 chr13 115169878 1064788 0.009245368828123617 0.09891220674732978 chr14 107349540 1027842 0.009574721978314951 0.10365712862020218 chr15 102531392 970093 0.009461424263117387 0.10068990847770719 chr16 90354753 996158 0.011024965117219678 0.11254480878494197 chr17 81195210 931268 0.011469494321155151 0.11359740674716866 chr18 78077248 918638 0.011765757932451718 0.19031241927495332 chr19 59128983 703551 0.011898581107001283 0.1699675646553088 chr20 63025520 733369 0.01163606424826007 0.11191806426446498 chr21 48129895 453209 0.009416372090568658 0.1065190982961709 chr22 51304566 407208 0.007937071332013606 0.0923568916946526 chrMT 16571 5945 0.3587592782571963 0.6686229660546226 chrX 155270560 1920904 0.012371334269677394 0.11970679910738863 chrY 59373566 112265 0.0018908246137683562 0.0771620378017017