BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524846.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 = 2,959,264 number of mapped reads = 2,694,202 (91.04%) number of supplementary alignments = 13,081 (0.44%) number of secondary alignments = 0 number of mapped bases = 154,557,377 bp number of sequenced bases = 154,513,063 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 119,458 duplication rate = 3.03% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.2926 >>>>>>> ACTG content number of A's = 37,361,790 bp (24.18%) number of C's = 27,794,645 bp (17.99%) number of T's = 50,743,712 bp (32.84%) number of G's = 38,593,436 bp (24.98%) number of N's = 19,480 bp (0.01%) GC percentage = 42.97% >>>>>>> Mismatches and indels general error rate = 0.005 number of mismatches = 760,114 number of insertions = 9,986 mapped reads with insertion percentage = 0.37% number of deletions = 28,199 mapped reads with deletion percentage = 1.04% homopolymer indels = 45% >>>>>>> Coverage mean coverageData = 0.0499X std coverageData = 0.4639X There is a 4.33% of reference with a coverageData >= 1X There is a 0.46% of reference with a coverageData >= 2X There is a 0.07% of reference with a coverageData >= 3X There is a 0.02% of reference with a coverageData >= 4X There is a 0.01% of reference with a coverageData >= 5X There is a 0.01% of reference with a coverageData >= 6X There is a 0.01% 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 12890334 0.05171635660638936 0.9500086228364588 chr2 243199373 10094913 0.0415087953372314 0.4943298106798513 chr3 198022430 11142015 0.056266429010087396 0.26672011105442345 chr4 191154276 8475761 0.04433989747631908 0.2673438075745604 chr5 180915260 9345325 0.05165581388767316 0.259448545782183 chr6 171115067 10132993 0.05921742122217677 0.31883175977300443 chr7 159138663 7123113 0.044760417523427354 0.6603129167707732 chr8 146364022 16496166 0.11270642726666803 0.6092379533113229 chr9 141213431 6386044 0.045222638914566134 0.39026805768584666 chr10 135534747 7662895 0.05653823222173426 0.43063722982731384 chr11 135006516 7409878 0.05488533605296503 0.4045440877353051 chr12 133851895 6109760 0.04564567427304634 0.254030919504194 chr13 115169878 4089912 0.03551199385658809 0.21971475325726206 chr14 107349540 3274646 0.03050451823081869 0.22357764654882237 chr15 102531392 4579153 0.04466098538874806 0.242643779338176 chr16 90354753 4441441 0.049155587863761854 0.28580317912067527 chr17 81195210 4166530 0.05131497289064219 0.29787565155168605 chr18 78077248 3745841 0.04797608901379311 0.7137678824361461 chr19 59128983 2306616 0.03900990483803857 0.6493475285348083 chr20 63025520 3219292 0.051079181893302905 0.25867943237640795 chr21 48129895 2204090 0.04579461476074278 0.2659225834635045 chr22 51304566 940650 0.018334625421059014 0.15014655431810975 chrMT 16571 2489 0.15020216040070003 0.4413010935477213 chrX 155270560 7915974 0.05098180878590249 0.3213922255365656 chrY 59373566 401546 0.006763043338175107 0.15998697208241533