As explained in the documentation the standard deviation is presented in the output file in parentheses next to the estimate of posterior mean migration proportion. A 95% credibility interval is approximately as mean +/- 2*sdev.
I have compiled BPP for use with large SNP or microsatellite datasets. The filres for Mac and Windows are available here.
BayesAss should be suitable. I suggest that you try it.
Please send me your input file brannala@ucdavis.edu and I can have a look. Bruce
if you post your map file as well I will try running it.
Your newick tree is incorrect. Try this: species&tree= 7 A B C D E F G 3 3 3 3 3...
You can use gene sequences by coding each distinct sequence as a different allele....
I would not recommend using mtDNA sequences. The current program is designed for...