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Figure 9 | BMC Evolutionary Biology

Figure 9

From: Modelling the ancestral sequence distribution and model frequencies in context-dependent models for primate non-coding sequences

Figure 9

Pseudogenes: Influence of root sequence distributions on model fit (against independence throughout the entire tree) using context-dependent model frequencies. Various orders of Markov chains for the ancestral root sequence are tested against the assumption of site-independent evolution throughout the entire tree using the context-dependent model with context-dependent model frequencies, revealing once again that a second-order Markov chain yields the largest increase in model fit vis-à-vis the independent GTR model. Both annealing and melting schemes are shown for each model comparison as well as 95% confidence intervals for both schemes.

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