BamQC report ----------------------------------- >>>>>>> Input bam file = SRR3085047.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP064210/SRP064210.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 = 4,121 number of mapped reads = 1,443 (35.02%) number of supplementary alignments = 12 (0.29%) number of secondary alignments = 0 number of mapped bases = 96,157 bp number of sequenced bases = 96,135 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 0 duplication rate = 0% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 42.7928 >>>>>>> ACTG content number of A's = 28,176 bp (29.31%) number of C's = 18,404 bp (19.14%) number of T's = 29,047 bp (30.21%) number of G's = 20,490 bp (21.31%) number of N's = 18 bp (0.02%) GC percentage = 40.46% >>>>>>> Mismatches and indels general error rate = 0.0113 number of mismatches = 1,081 number of insertions = 6 mapped reads with insertion percentage = 0.42% number of deletions = 15 mapped reads with deletion percentage = 1.04% homopolymer indels = 66.67% >>>>>>> Coverage mean coverageData = 0X std coverageData = 0.0056X There is a 0% of reference with a coverageData >= 1X There is a 0% of reference with a coverageData >= 2X There is a 0% 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 8841 3.547032286029891E-5 0.00595525423260824 chr2 243199373 10699 4.399271210292142E-5 0.006663788279147667 chr3 198022430 6413 3.2385220199550125E-5 0.005711967159767868 chr4 191154276 6478 3.388885739600196E-5 0.005819517579092312 chr5 180915260 4317 2.3862000364148388E-5 0.00488311882011452 chr6 171115067 7043 4.115943805229027E-5 0.006415430145590356 chr7 159138663 8022 5.040886889944526E-5 0.007099741392852386 chr8 146364022 4460 3.047196940242596E-5 0.005547836940352805 chr9 141213431 2245 1.5897921211191307E-5 0.00398718804012207 chr10 135534747 5617 4.1443247022108656E-5 0.006435790298690526 chr11 135006516 4606 3.4116871810839113E-5 0.005839597140294085 chr12 133851895 4171 3.116130705508503E-5 0.005580805951779909 chr13 115169878 1953 1.6957558989512864E-5 0.004116866393178379 chr14 107349540 3244 3.021903959718877E-5 0.005497101636938742 chr15 102531392 2012 1.9623258406557086E-5 0.004429771250785597 chr16 90354753 2045 2.2633009687935287E-5 0.004757362445179866 chr17 81195210 1724 2.1232779618403597E-5 0.004607855117890891 chr18 78077248 2692 3.4478674248354656E-5 0.005871753185325209 chr19 59128983 1853 3.1338269423642884E-5 0.005597971716301576 chr20 63025520 1904 3.020998478076817E-5 0.005496278025863294 chr21 48129895 945 1.9634366540795487E-5 0.004431024828687606 chr22 51304566 434 8.45928606042589E-6 0.002908472881239438 chrMT 16571 0 0.0 0.0 chrX 155270560 4176 2.6894988979237273E-5 0.005185968148649303 chrY 59373566 263 4.429580665577675E-6 0.00210465223835027