The FASTA Family, Local Sequence Alignment, BLAST Mode, Analogous, DNA Database, FASTA Algorithm

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The FASTA Family

FASTA is a package used for local sequence alignment. Which predates BLAST . It contains search programs that are analogous to the main BLAST modes. The FASTA programs listed below compile easily on Linux system, but can operate on Windows and can be freely downloaded from ftp:/Iftp.virginia.edu/pub/fasta. All these programs are available in the FASTA3.3 package. However, FASTA is now used only for an appropriate format, for data exploration and transaction, rather than as a sequence alignment tool. (i.e. as a software). (i) [fastaa] and [search]. Each of these programs compares a protein sequence against a protein database or a DNA sequence against a DNA database; fastaa uses the FAST A algorithm, and search uses Smith-Waterman algorithm.

This package programme is still flourishing at Univerohy of Virginia and its services are available at EBI homepage in the paternity of Dr, W.R. Pearson. (ii) [fastxlfasty]. It translates a DNA sequence into amino acid sequence of a protein and compares such a protein against a protein database, thus permitting search of unknown nucleic acid sequence against a protein database. (iii) [tfastxltfasty]. It is just the reverse of [fastxlfasty] discuss d in the previous para, because it compares a 'protein sequence against a DNA sequence translated in three forward and three reverse frames.

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