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Figure 3 | BMC Bioinformatics

Figure 3

From: Bayesian coestimation of phylogeny and sequence alignment

Figure 3

Generating the proposal alignment. This figure illustrates the stochastic sequence aligner. In the deterministic fill-in process, the three scores are s1, s2 and s3, hence the value in this cell is max{s1, s2, s3}. In the stochastic traceback phase, the three neighbor cells are choosen with probabilities proportional to exp(αs i ), where α > 0 is a scaling parameter. The chosen traceback path corresponds to the proposed alignment in the usual way.

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