ProgramThe FASTA program to be used for the Sequence Similarity SearchCOMMANDFASTAfastafalsedefaultValueContextsgenomes,nucleotide,protein,proteomes,wgsdescriptionScan a protein or DNA sequence library for similar sequences.FASTXfastxfalsecontextsprotein,proteomesdescriptionCompare a DNA sequence to a protein sequence database, comparing the translated DNA sequence in forward and reverse frames.FASTYfastyfalsecontextsprotein,proteomesdescriptionCompare a DNA sequence to a protein sequence database, comparing the translated DNA sequence in forward and reverse frames.SSEARCHssearchfalsecontextsgenomes,nucleotide,protein,proteomes,wgsdescriptionCompare a protein or DNA sequence to a sequence database using the Smith-Waterman algorithm.GGSEARCHggsearchfalsecontextsgenomes,nucleotide,protein,wgsdescriptionCompare a protein or DNA sequence to a sequence database using a global alignment (Needleman-Wunsch)GLSEARCHglsearchfalsecontextsgenomes,nucleotide,protein,wgsdescriptionCompare a protein or DNA sequence to a sequence database with alignments that are global in the query and local in the database sequence (global-local).TFASTXtfastxfalsecontextsgenomes,nucleotide,wgsdescriptionCompare a protein sequence to a DNA sequence database, calculating similarities with frameshifts to the forward and reverse orientations.TFASTYtfastyfalsecontextsgenomes,nucleotide,wgsdescriptionCompare a protein sequence to a DNA sequence database, calculating similarities with frameshifts to the forward and reverse orientations.