BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524813.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 = 1,284,541 number of mapped reads = 1,171,528 (91.2%) number of supplementary alignments = 4,495 (0.35%) number of secondary alignments = 0 number of mapped bases = 67,063,167 bp number of sequenced bases = 67,041,324 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 35,725 duplication rate = 2.38% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.6176 >>>>>>> ACTG content number of A's = 17,169,322 bp (25.61%) number of C's = 12,506,645 bp (18.66%) number of T's = 20,466,127 bp (30.53%) number of G's = 16,890,934 bp (25.19%) number of N's = 8,296 bp (0.01%) GC percentage = 43.85% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 335,056 number of insertions = 5,500 mapped reads with insertion percentage = 0.47% number of deletions = 13,356 mapped reads with deletion percentage = 1.13% homopolymer indels = 41.29% >>>>>>> Coverage mean coverageData = 0.0217X std coverageData = 0.1941X There is a 1.97% of reference with a coverageData >= 1X There is a 0.15% of reference with a coverageData >= 2X There is a 0.02% of reference with a coverageData >= 3X There is a 0.01% 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 5667504 0.022738174040497175 0.23072776154479718 chr2 243199373 5724358 0.023537716933176467 0.30199858458210355 chr3 198022430 4298656 0.0217079247032773 0.16105230804469642 chr4 191154276 3901770 0.020411628144797557 0.169685684203235 chr5 180915260 3837410 0.021211090761497953 0.1575501163212422 chr6 171115067 3795022 0.02217818726623296 0.173396556381631 chr7 159138663 3597669 0.02260713350344033 0.21880444057839096 chr8 146364022 3220828 0.022005599162887173 0.18002175388320707 chr9 141213431 2795158 0.0197938537446909 0.1728777543934753 chr10 135534747 3186568 0.0235110779378221 0.22743149475325167 chr11 135006516 3037925 0.022502062048619934 0.18061226415819126 chr12 133851895 3175674 0.023725282335375228 0.16733532313092517 chr13 115169878 1949093 0.016923635188707938 0.14079048393496255 chr14 107349540 2112887 0.019682310702030022 0.1548708827770795 chr15 102531392 2026072 0.019760504178076507 0.15329685418284286 chr16 90354753 2160592 0.02391232257588043 0.17905443673580065 chr17 81195210 2345505 0.02888723361883047 0.18686048685326145 chr18 78077248 1649945 0.02113221254929477 0.23054118756422762 chr19 59128983 1723236 0.029143677306271275 0.2229274640207251 chr20 63025520 1489912 0.023639820821787744 0.17182573783877234 chr21 48129895 832291 0.017292599537148377 0.15226405279350322 chr22 51304566 989978 0.019296099298452305 0.15171195849133287 chrMT 16571 22776 1.3744493392070485 1.3831006766695269 chrX 155270560 3313133 0.02133780544103145 0.16517944651019995 chrY 59373566 209205 0.0035235377305786217 0.10247387949998497