BamQC report ----------------------------------- >>>>>>> Input bam file = SRR8751231.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP188831/SRP188831.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 = 4,891,755 number of mapped reads = 4,517,789 (92.36%) number of supplementary alignments = 127,216 (2.6%) number of secondary alignments = 0 number of mapped bases = 446,325,310 bp number of sequenced bases = 446,196,382 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 130,484 duplication rate = 1.58% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 51.2786 >>>>>>> ACTG content number of A's = 130,191,379 bp (29.18%) number of C's = 92,829,561 bp (20.8%) number of T's = 130,672,647 bp (29.29%) number of G's = 92,500,327 bp (20.73%) number of N's = 2,468 bp (0%) GC percentage = 41.54% >>>>>>> Mismatches and indels general error rate = 0.0039 number of mismatches = 1,621,859 number of insertions = 75,551 mapped reads with insertion percentage = 1.65% number of deletions = 59,680 mapped reads with deletion percentage = 1.3% homopolymer indels = 47.4% >>>>>>> Coverage mean coverageData = 0.1442X std coverageData = 1.2983X There is a 11.34% of reference with a coverageData >= 1X There is a 2.15% of reference with a coverageData >= 2X There is a 0.45% of reference with a coverageData >= 3X There is a 0.11% of reference with a coverageData >= 4X There is a 0.03% of reference with a coverageData >= 5X There is a 0.02% of reference with a coverageData >= 6X There is a 0.01% of reference with a coverageData >= 7X There is a 0.01% of reference with a coverageData >= 8X There is a 0.01% of reference with a coverageData >= 9X There is a 0.01% of reference with a coverageData >= 10X There is a 0.01% of reference with a coverageData >= 11X There is a 0.01% of reference with a coverageData >= 12X There is a 0.01% 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 54067969 0.21692210347592272 3.6145114030896996 chr2 243199373 33849444 0.13918392791251152 0.5514251764730872 chr3 198022430 29858701 0.15078443891431895 0.4810464826698439 chr4 191154276 20573740 0.10762898131559454 0.43952711968638203 chr5 180915260 27270290 0.15073515633783463 0.46070991677227185 chr6 171115067 25499890 0.14902188595700927 0.9496339609318554 chr7 159138663 25315914 0.1590808513956159 0.6998593611766744 chr8 146364022 22201833 0.15168914256811009 0.5133262010320582 chr9 141213431 19637256 0.13906082347082127 0.6483855854597262 chr10 135534747 22357743 0.16495949190062678 1.788161401351325 chr11 135006516 20307602 0.15041942123741642 0.7250676155452411 chr12 133851895 23998285 0.1792898412084491 0.4998487673801711 chr13 115169878 13335511 0.11578992034705464 0.39516733531152193 chr14 107349540 9600752 0.08943449594660582 0.3640426212423868 chr15 102531392 10992593 0.10721197465065138 0.3798653582627862 chr16 90354753 12878498 0.14253260146701968 0.8395991729117709 chr17 81195210 12940987 0.1593811630021032 0.7592714314183928 chr18 78077248 9191909 0.11772839380814241 1.1636173916658243 chr19 59128983 11770987 0.1990730501825137 2.6316905094155727 chr20 63025520 8085662 0.12829187287943042 0.4301316185049635 chr21 48129895 5695387 0.11833366767162072 0.44524567606882176 chr22 51304566 5206239 0.10147710829480558 0.3744846050706602 chrMT 16571 1429636 86.27336913885703 34.13951872570345 chrX 155270560 19315204 0.12439707823556506 0.4750041584763817 chrY 59373566 943278 0.015887171068687367 0.5260119547933116