The FASTA Family of Programs
FastA : uses
the method of Pearson and Lipman (Proc. Natl. Acad. Sci. USA 85; 2444-2448
(1988)) to search for similarities between one sequence (the
query) and any group of sequences of the same type
(nucleic acid or protein) as the query sequence.
TFastA : treats each of the six reading frames of a query nucleotide sequence as a separate sequence,
resulting in three separate alignments for each strand.
TFastX :
compares the protein query sequence to
only one translated protein per strand of the nucleotide sequence, resulting
in one alignment per strand.