BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524795.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 = 1,069,258 number of mapped reads = 977,866 (91.45%) number of supplementary alignments = 3,587 (0.34%) number of secondary alignments = 0 number of mapped bases = 56,092,280 bp number of sequenced bases = 56,073,855 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 29,928 duplication rate = 2.33% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.5005 >>>>>>> ACTG content number of A's = 13,088,246 bp (23.34%) number of C's = 9,880,210 bp (17.62%) number of T's = 18,623,592 bp (33.21%) number of G's = 14,475,262 bp (25.81%) number of N's = 6,545 bp (0.01%) GC percentage = 43.43% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 285,369 number of insertions = 3,376 mapped reads with insertion percentage = 0.34% number of deletions = 11,308 mapped reads with deletion percentage = 1.15% homopolymer indels = 44.17% >>>>>>> Coverage mean coverageData = 0.0181X std coverageData = 0.1804X There is a 1.66% of reference with a coverageData >= 1X There is a 0.11% of reference with a coverageData >= 2X There is a 0.01% of reference with a coverageData >= 3X There is a 0% 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 4493896 0.0180296280986999 0.2372021901064303 chr2 243199373 4700400 0.01932735245990951 0.26651446872451134 chr3 198022430 3716712 0.018769146505272154 0.1486433964729554 chr4 191154276 3535084 0.01849335559723498 0.1614293717434941 chr5 180915260 3263310 0.018037781887498047 0.14354222898682076 chr6 171115067 3232800 0.018892550239307682 0.15669515023260902 chr7 159138663 3144261 0.019757995578987615 0.21830137608195976 chr8 146364022 2769076 0.01891910294730764 0.16912566983036137 chr9 141213431 2388115 0.016911387132857073 0.15709344765042432 chr10 135534747 2759221 0.02035803409143487 0.21129414594376086 chr11 135006516 2564432 0.01899487577325527 0.1627790747745782 chr12 133851895 2531471 0.018912477854721443 0.14910350643203651 chr13 115169878 1751123 0.015204696144594335 0.13238208108433014 chr14 107349540 1670534 0.015561631656735558 0.13573912554899414 chr15 102531392 1614272 0.015744173257688728 0.13384915989663035 chr16 90354753 1668396 0.018464950039761605 0.15921039240891707 chr17 81195210 1616559 0.01990953653546804 0.15609579098828444 chr18 78077248 1483182 0.018996340649711424 0.22384519427188257 chr19 59128983 1232346 0.020841657296896177 0.20219808280269788 chr20 63025520 1220333 0.019362521721359854 0.15503077332229467 chr21 48129895 744319 0.015464795840506198 0.1451165383860315 chr22 51304566 702238 0.013687631623275012 0.1260020748408887 chrMT 16571 11355 0.6852332387906583 0.9733928621171993 chrX 155270560 3089188 0.019895516574423382 0.15907172934500718 chrY 59373566 189657 0.0031943003052907416 0.10033590785652985