Figure 12.

The pair-HMM that is used to realign sequences of the selected subtree. In all runs, p was set to 0.99 and q was set to 0.6. Emission probabilities followed the corresponding substitution model.

Mikl√≥s et al. BMC Bioinformatics 2008 9:137   doi:10.1186/1471-2105-9-137
Download authors' original image