LD decay plot in all subpopulations summarizing STRUCTURE and Nested STRUCTURE result. The correlation between the X and Y axis indicates the decay trend of the LD coefficient (r2) with physical distance within intrachromosome At the top, A, B and C show the LD in the large ‘Oriental’ , ‘Hakuho’ and ‘Yu Lu’ subpopulations, respectively. In the middle, D, E and F show the LD in the large ‘Occidental’ , ‘Nectarine’ and ‘Peach’ subpopulations, respectively. G shows the LD level in the ‘landrace’ subpopulation. The horizontal line in each plot indicates r2 = 0.1.