Fig. 3: Comparisons of SNP and the heterozygous SNP (hSNP) mutation spectra in Rhizoctonia spp.
From: Evolutionary and genomic comparisons of hybrid uninucleate and nonhybrid Rhizoctonia fungi
a SNP rates of JN or its subgenomes were estimated in relation to LY sequences and divided into four genomic regions with the ratios presented in the figure. The numbers in bold on the tops of the columns are the total SNP ratios. b SNP mutation patterns and ratios of transition (Ti) to transversion (Tv) in the data sets. A:T → G:C for A-to-G and T-to-C mutations, A:T → G:C/C:G for A and T-to-G or C mutations, and parity of reasoning for the others. Syn for synonymous variants and Non for nonsynonymous variants. c Distribution of hSNP rates in Rhizoctonia spp.. The hSNP rates were divided into four genomic regions as described in a, and obtained by using SOAPaligner and SOAPsnp software. d Distribution of GC contents calculated from 500 bp non-overlapping windows. e, f The RIP indices of TpA/ApT and (CpA + TpG)/(ApC + GpC) from repeat family of each Rhizoctonia data set, respectively. The positive control of Parastagonospora nodorum (Pn) showed a bimodal GC distribution and had a strong RIP7.
