BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524410.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 = 1,315,167 number of mapped reads = 1,222,606 (92.96%) number of supplementary alignments = 4,637 (0.35%) number of secondary alignments = 0 number of mapped bases = 71,635,726 bp number of sequenced bases = 71,615,596 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 45,719 duplication rate = 2.81% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.798 >>>>>>> ACTG content number of A's = 17,798,417 bp (24.85%) number of C's = 14,031,786 bp (19.59%) number of T's = 22,290,517 bp (31.13%) number of G's = 17,486,294 bp (24.42%) number of N's = 8,582 bp (0.01%) GC percentage = 44.01% >>>>>>> Mismatches and indels general error rate = 0.0049 number of mismatches = 344,777 number of insertions = 4,345 mapped reads with insertion percentage = 0.35% number of deletions = 12,618 mapped reads with deletion percentage = 1.03% homopolymer indels = 43.39% >>>>>>> Coverage mean coverageData = 0.0231X std coverageData = 0.2459X There is a 2.1% 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 6094207 0.024450117618764127 0.5002977155513104 chr2 243199373 5825862 0.023955086430259835 0.2651209572694366 chr3 198022430 4853069 0.024507673196415173 0.16821122766950217 chr4 191154276 4720241 0.024693358154331845 0.1856030548300432 chr5 180915260 4514027 0.02495105719661238 0.1703487581538304 chr6 171115067 2818176 0.016469478985155644 0.14807981807284276 chr7 159138663 4082798 0.02565560073858356 0.3427624646305587 chr8 146364022 3845157 0.02627118978733722 0.2335681811212032 chr9 141213431 2620249 0.018555239267573635 0.18769982388407352 chr10 135534747 3495869 0.0257931569385672 0.22637854644736946 chr11 135006516 2900559 0.021484585232908315 0.19256345825553497 chr12 133851895 3291380 0.02458971537160531 0.17278850053120445 chr13 115169878 2292653 0.019906706856110415 0.15079198313758296 chr14 107349540 2026395 0.018876606271438143 0.15166654475759225 chr15 102531392 2181709 0.021278449043196448 0.1565405348566942 chr16 90354753 2193350 0.024274871295370593 0.1736478733724915 chr17 81195210 1965791 0.024210676959884703 0.1809429551846506 chr18 78077248 1942073 0.024873737865350992 0.3132865914057776 chr19 59128983 1986827 0.03360157572809937 0.348968118595899 chr20 63025520 2010572 0.03190091886588163 0.1968291580560848 chr21 48129895 992451 0.02062026106643283 0.17057362845977336 chr22 51304566 509706 0.009934905209021747 0.10713843134026141 chrMT 16571 3306 0.19950515961619697 0.4899839181815774 chrX 155270560 4233504 0.027265336068859416 0.1933513566638503 chrY 59373566 235795 0.00397138012562695 0.11656502483055364