Hi, I tried using distmat from emboss on some alignments and am getting scores in excess of 100 (using all default options).
I am not sure how scores can exceed 100. D = uncorrected distance = p-distance = 1-S where S = m/(npos + gaps*gap_penalty) So D is like a percentage and equals number of substitutions per 100 bases or amino acids. Please correct me or point me to an explanation which will help clarify my doubt. Thanks, Sumit _______________________________________________ EMBOSS mailing list [email protected] http://lists.open-bio.org/mailman/listinfo/emboss
