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The focus of this research was on the implementation of a nested family of microsatellite mutation models in the BEAST software package (D rummond and R ambaut 2007).
However, the disease course in mice was more slowly progressive than humans, suggesting substrate turnover differences between mice and humans as has been observed in Gaucher disease point mutation models in mice (38).
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Many of the SSR loci used by us do not appear to mutate in accordance with the stepwise mutation model in our material (not shown).
The SAHH data were compatible with the infinite mutation model in B. azoricus and the single gene tree was reconstructed in Figure 9.
The condition on the site-specific average hydrophobicity, Eq. (5), is independent of the mutation model in our analytic approximation.
We studied a simple mutation model in which transitions occurred twice as frequently as transversions, and CpG mutations occurred at a different frequency to non-CpG mutations.
Homoplasy is common in microsatellites because they often follow a step-wise mutation model in which each mutation is 'one step' or repeat different.
The Infinite Sites model [ 75] was chosen as the mutation model in the IM simulations because the two species are closely related and all genes are nuclear.
The predominant role of the biased mutation model in shaping genomic regions with a moderate G+C%, such as coding sequences, has important implications for understanding protein evolution.
This estimate was simulated using 1000 permutations in BOTTLENECK by choosing the two-phase mutation model (TPM), with a variance for TPM equal to 0.36 and a proportion of the stepwise mutation model in TPM equal to 0.7.
In human patients, there are several mutations found within the N-terminal region of CEP290 that result in LCA, including the mutation modeled in our study (2, 3, 16, 17).
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