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Figure 2 | BMC Bioinformatics

Figure 2

From: Bayesian modeling of recombination events in bacterial populations

Figure 2

Coalescent strain #27. The results for strain #27 in the coalescent simulation. The results obtained from a recombination analysis with BRAT are shown in two colored plots in the upper part of the figure, a narrow plot below a wider plot. In these plots, the different colors correspond to the clusters obtained in the unsupervised mixture classification analysis. The x-axis position specifies a site in the analyzed gene. The narrow plot (optimal model profile) displays the detected optimal model, where each base is assigned to an origin specified by the optimal model. The wider plot (marginal probability profile) shows graphically for each site j in the sequence the marginal posterior probability distribution for X j , j = 1, ..., n g , the origin of the j th base in the gene. The true breakpoint locations are shown by vertical black lines in the marginal probability profile. The plot in the lower part of the figure reflects the correct solution and shows fragmentwise molecular distances from this strain to the identified clusters. Horizontal lines correspond linearly to the different fragments, such that the lowest horizontal line corresponds to the first fragment, etc. The clusters are represented by cluster-specific colored markers. The distance of the marker from the Y-axis shows the average distance between the corresponding cluster and the strain in the corresponding fragment. The distances are normalized according to the lengths of the gene fragments.

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