FIG 1.
CLANS analysis-based classification of CRESS-DNA virus Rep protein. (A) Representative CRESS-DNA virus Rep protein sequences were clustered using CLANS Toolkit by their pairwise sequence similarity network. A total of 1,160 amino acid sequences of Rep protein (Supplemental Data 1) of CRESS-DNA viruses were used in this analysis. Classification of clusters was carried out by a network-based method using offset values and global average with maximum rounds 10,000 in CLANS Toolkit analysis. The P value of ≤1e−02 was used to show the lines connecting the sequences. (B) Phylogenetic relationship of Rep protein of CRESS-DNA viruses. The maximum-likelihood method inferred the evolutionary history using the Subtree-Pruning-Regrafting algorithm in PhyML 3.3_1. A total of 1,509 amino acid sequences of Rep protein (Supplemental Data 5) of CRESS-DNA viruses were used in this analysis.