By the way, if you are trying to write your own FASTA parser, please reconsider.
A good FASTA parser has been written by the folks at BioPython.org.
Use that one unless you really know what you're doing.
See:
http://biopython.org/DIST/docs/tutorial/Tutorial.html#sec12
for example usage. If you are using your own home-grown FASTA parser,
consider switching to the biopython one.
(As Lincoln Stein of Bioperl fame has observed, reimplementing a FASTA
parser should not be a rite of passage. Reference: the talk
"Bioinformatics: Building a Nation from a Land of City States",
mentioned in http://www.oreillynet.com/pub/a/network/2002/01/29/bioday2.html.
Sadly, the audio to his keynote speech does not appear to be on Dr.
Dobbs Technetcast anymore, as that web site appears to have fallen on
hard times.)
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