I used MEGA5.0 for computing MER for my dataset. the rates were computed based on JTT with an account of invariant sites model using 2 gamma categories for all positions in the alignment. these are scaled to 1 and sites showing rates >1 are suggested to be fast evolving. I wanted to understand the mathematical basis of this calculation and to infer if these are statistically significant. is there P value or standard deviation computed for this analyses? if yes how to i get this information.
Dhritikesh Chakrabarty
What do you mean by "the significance of mean evolutionary rate (MER) ?.
This term is is a vague one. Significance is a concept which is based on our level of acceptance. Thus it is to be defined first.
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