BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524592.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 = 1,660,432 number of mapped reads = 1,541,814 (92.86%) number of supplementary alignments = 3,163 (0.19%) number of secondary alignments = 0 number of mapped bases = 90,168,732 bp number of sequenced bases = 90,139,997 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 66,020 duplication rate = 3.3% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.5017 >>>>>>> ACTG content number of A's = 23,376,890 bp (25.93%) number of C's = 15,076,233 bp (16.73%) number of T's = 29,023,052 bp (32.2%) number of G's = 22,663,219 bp (25.14%) number of N's = 603 bp (0%) GC percentage = 41.87% >>>>>>> Mismatches and indels general error rate = 0.0048 number of mismatches = 418,331 number of insertions = 6,238 mapped reads with insertion percentage = 0.4% number of deletions = 16,845 mapped reads with deletion percentage = 1.08% homopolymer indels = 44.42% >>>>>>> Coverage mean coverageData = 0.0291X std coverageData = 0.2595X There is a 2.57% of reference with a coverageData >= 1X There is a 0.25% of reference with a coverageData >= 2X There is a 0.04% 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 8869819 0.03558594544083403 0.43471545806566403 chr2 243199373 7868468 0.032353981438924186 0.29888725446546854 chr3 198022430 5583141 0.028194487866854277 0.1868083061515542 chr4 191154276 4222619 0.022090110084694102 0.1873550833226138 chr5 180915260 5654064 0.0312525543726936 0.1965124074378971 chr6 171115067 5956318 0.03480884590951889 0.2218776029128918 chr7 159138663 5479445 0.03443189038228881 0.3488473782835321 chr8 146364022 7904157 0.05400341485559887 0.3482018950172219 chr9 141213431 3275790 0.023197439342720876 0.2312984637916393 chr10 135534747 3850070 0.02840651630094532 0.27252580497802126 chr11 135006516 5625247 0.041666485193944267 0.26907766722981263 chr12 133851895 2986316 0.02231059933817149 0.171242084957554 chr13 115169878 2223247 0.0193040666414529 0.15453145422356293 chr14 107349540 1616951 0.015062486527655359 0.14310729514525064 chr15 102531392 2236877 0.02181650864546928 0.16835919624243567 chr16 90354753 2609358 0.02887903417764863 0.2019958506724813 chr17 81195210 1955063 0.024078550939150227 0.17671576315506857 chr18 78077248 2393157 0.030651144364104637 0.35458710008877 chr19 59128983 1680535 0.028421510310772637 0.3114925337808146 chr20 63025520 1601682 0.025413229434679795 0.1797178604793973 chr21 48129895 791988 0.016455219775567763 0.16140055603086748 chr22 51304566 1516205 0.029553022629603767 0.1912267167241815 chrMT 16571 8566 0.5169271619093597 0.8786761679044411 chrX 155270560 4033889 0.02597974142683584 0.20310817745345902 chrY 59373566 225760 0.003802365517341505 0.10779977517457084