Nulceotide diversity (pi) and sequence diversity (theta) are same value
I have a project where I am comparing conservation of a gene between two species. I have only one sequence of the gene for each species. I ran DNA Polymorphism tests on DnaSP and got the same value for pi and theta. Why would this be?
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Old thread, but at a guess, I would imagine this is just insufficient data. I don't know the maths offhand to say why exactly but intuitively, if you only have
1 x 2 = 2sequences, one per genome, then it's impossible to say much if anything about the diversity, since your options are for a given nucleotide/amino acid:Or, to think of it just in terms of the sequences, if you only have 2, they either are, or aren't identical. There is no 'diversity' to be had here.