I am attempting to generate a phylogentic tree of an alignment of 55 sequences (1040 AA long) using PhyML (version 20111205). I am using Phylip format.
I get the following message:
. Unknown character state : �
. Init failed (check the data type)
. Type enter to exit.
I have checked the sequences for any strange characters, but I can only find amino acid symbols or gaps (-).
Does anyone have an idea what may be causing this?