Subsequent lines carry the sequence, optionally broken by white space. There should not be any comments on the sequence data lines. Empty lines are allowed at any point in the data file. It is an error if the end of file occurs before all data is read. Sequence data may be upper or lower case.
Case is irrelevant.
For subsequent taxa it matches the symbol at the corresponding site of the first taxon. User specifies data format in the run control file. The recognized symbols tabulated below. A warning message is given for unrecognized symbols which are treated as gaps. Table of recognized characters.