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Fig. 4 | BMC Bioinformatics

Fig. 4

From: General continuous-time Markov model of sequence evolution via insertions/deletions: local alignment probability computation

Fig. 4

Gap configurations of local MSAs examined in perturbation analyses. a The 3-OTU tree used in the perturbation analyses. A node (open circle) is labeled n i (i = 1,2 or 3) (external) or n Root (root). A branch is labeled b i (i = 1,2 or 3). In the following, ∆L Di denotes the number of sites that the sequence at node n i has between the PASs. b Local gap configuration in case (I). c Case (II) with ΔL D1 = ΔL D2 = 5. d Case (III) with ΔL D1 = 5. e Case (IV) with ΔL D1 = 5 and ΔL D2 = 3. The figure is a modified version of Figure 4 of [43]

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