BamQC report ----------------------------------- >>>>>>> Input bam file = SRR8751180.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 = 4,758,699 number of mapped reads = 4,731,686 (99.43%) number of supplementary alignments = 34,992 (0.74%) number of secondary alignments = 0 number of mapped bases = 458,118,849 bp number of sequenced bases = 458,013,513 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 1,178,422 duplication rate = 14.18% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 50.4704 >>>>>>> ACTG content number of A's = 140,914,659 bp (30.77%) number of C's = 88,598,874 bp (19.34%) number of T's = 141,607,914 bp (30.92%) number of G's = 86,888,642 bp (18.97%) number of N's = 3,424 bp (0%) GC percentage = 38.31% >>>>>>> Mismatches and indels general error rate = 0.0025 number of mismatches = 1,032,656 number of insertions = 47,970 mapped reads with insertion percentage = 0.97% number of deletions = 49,526 mapped reads with deletion percentage = 1.03% homopolymer indels = 44.29% >>>>>>> Coverage mean coverageData = 0.148X std coverageData = 3.1565X There is a 4.19% of reference with a coverageData >= 1X There is a 1.58% of reference with a coverageData >= 2X There is a 0.95% of reference with a coverageData >= 3X There is a 0.68% of reference with a coverageData >= 4X There is a 0.53% of reference with a coverageData >= 5X There is a 0.43% of reference with a coverageData >= 6X There is a 0.36% of reference with a coverageData >= 7X There is a 0.31% of reference with a coverageData >= 8X There is a 0.27% of reference with a coverageData >= 9X There is a 0.24% of reference with a coverageData >= 10X There is a 0.22% of reference with a coverageData >= 11X There is a 0.19% of reference with a coverageData >= 12X There is a 0.18% of reference with a coverageData >= 13X There is a 0.16% of reference with a coverageData >= 14X There is a 0.15% of reference with a coverageData >= 15X There is a 0.14% of reference with a coverageData >= 16X There is a 0.13% of reference with a coverageData >= 17X There is a 0.12% of reference with a coverageData >= 18X There is a 0.11% of reference with a coverageData >= 19X There is a 0.1% of reference with a coverageData >= 20X There is a 0.1% of reference with a coverageData >= 21X There is a 0.09% of reference with a coverageData >= 22X There is a 0.09% of reference with a coverageData >= 23X There is a 0.08% of reference with a coverageData >= 24X There is a 0.08% of reference with a coverageData >= 25X There is a 0.07% of reference with a coverageData >= 26X There is a 0.07% of reference with a coverageData >= 27X There is a 0.07% of reference with a coverageData >= 28X There is a 0.06% of reference with a coverageData >= 29X There is a 0.06% of reference with a coverageData >= 30X There is a 0.06% of reference with a coverageData >= 31X There is a 0.05% of reference with a coverageData >= 32X There is a 0.05% of reference with a coverageData >= 33X There is a 0.05% of reference with a coverageData >= 34X There is a 0.05% of reference with a coverageData >= 35X There is a 0.05% of reference with a coverageData >= 36X There is a 0.04% of reference with a coverageData >= 37X There is a 0.04% of reference with a coverageData >= 38X There is a 0.04% of reference with a coverageData >= 39X There is a 0.04% of reference with a coverageData >= 40X There is a 0.04% of reference with a coverageData >= 41X There is a 0.04% of reference with a coverageData >= 42X There is a 0.03% of reference with a coverageData >= 43X There is a 0.03% of reference with a coverageData >= 44X There is a 0.03% of reference with a coverageData >= 45X There is a 0.03% of reference with a coverageData >= 46X There is a 0.03% of reference with a coverageData >= 47X There is a 0.03% of reference with a coverageData >= 48X There is a 0.03% of reference with a coverageData >= 49X There is a 0.03% of reference with a coverageData >= 50X There is a 0.03% of reference with a coverageData >= 51X >>>>>>> Coverage per contig chr1 249250621 48232956 0.19351187895335273 2.4525853508224436 chr2 243199373 38023593 0.1563474137739656 2.3755536628232625 chr3 198022430 31354609 0.15833867405828725 2.848213933826333 chr4 191154276 28777161 0.15054416569786805 3.043105867527425 chr5 180915260 44143950 0.24400346327888536 2.5393345055813787 chr6 171115067 29719632 0.17368214571075732 5.41475234332194 chr7 159138663 22705311 0.14267627094491803 1.4621453397809376 chr8 146364022 20648935 0.14107930841091534 1.4909806587216414 chr9 141213431 26011639 0.18420088525432118 4.354330295214612 chr10 135534747 24109022 0.17788074669885207 5.017960682408623 chr11 135006516 28471523 0.2108899914134515 4.218842545015691 chr12 133851895 33032571 0.2467844851953721 7.4831206268537045 chr13 115169878 11140277 0.09672908570763616 1.4635763684671723 chr14 107349540 8414590 0.07838496559929367 1.0173787308260092 chr15 102531392 11157395 0.10881930677387078 1.7341132175024563 chr16 90354753 6306461 0.06979667134943084 1.26179307942474 chr17 81195210 3929024 0.04838984959827064 0.6611574620760415 chr18 78077248 8639434 0.11065238877271903 1.2260499679089631 chr19 59128983 2325630 0.0393314730273646 1.1478999714123985 chr20 63025520 3445652 0.05467074289906692 0.7394110512162559 chr21 48129895 7296120 0.15159226921230556 2.5331824363053426 chr22 51304566 3082601 0.060084340251509 1.8607466994058508 chrMT 16571 15475 0.9338603584575463 1.062837215124417 chrX 155270560 16859645 0.10858236744943793 1.0909687441979152 chrY 59373566 275643 0.004642520545254095 0.1786488666605367