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Figure 2 | BMC Bioinformatics

Figure 2

From: RECOVIR: An application package to automatically identify some single stranded RNA viruses using capsid protein residues that uniquely distinguish among these viruses

Figure 2

a, b, c: Illustrating recombination detection using RECOVIR: (2a) & (2b): Phylogenetic trees corresponding to genomic regions 1 and 2 of sequences s1–s12. The different nodes (A-T), partitions (1–10) and the hypothetical node-distinguishing residues (X1, X2, ...., Y1, Y2, ... etc.), are shown. Sequences s1 and s10 have been interchanged to create incongruous trees that depict a simple hypothetical recombination event. (2c): Schematic representation of genomic regions 1 and 2 of sequences s1–s10. Rectangular boxes denote the two regions. Different symbols are used to compare the two genomic regions in sequences s1, s2, s9 and s10 that may cause incongruity between the two trees of figs. (a) and (b). Region 1 is similar in sequence pairs (s1, s9) and (s2, s10) while region 2 is similar in sequence pairs (s1, s2) and (s9, s10). Interchange of region 1 between sequences s2 and s9 would remove the incongruity between the two trees as similar symbols will be brought together in a similar way in both the trees. Blank boxes indicate that those sequences do not cause incongruities between the trees.

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BMC Bioinformatics

ISSN: 1471-2105

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