Page Help::Blast Programs
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Linkout to NCBI Blast+
BLAST Index
Blast Formats
Databases
Parameters
Blast Programs
Advanced Parameters
Linkout to NCBI Blast+
Programs available for the BLAST search
The NCBI BLAST family of programs includes:
BLASTP
Compares an amino acid query sequence against a protein sequence database
BLASTN
Compares a nucleotide query sequence against a nucleotide sequence database
BLASTX
Compares a nucleotide query sequence translated in all reading frames against a protein sequence database
TBLASTN
Compares a protein query sequence against a nucleotide sequence database dynamically translated in all reading frames
TBLASTX
Compares the six-frame translations of a nucleotide query sequence against the six-frame translations of a nucleotide sequence database. Please note that tblastx program cannot be used with the nr database on the BLAST Web page
Not Available on HOMD:
MegaBLAST
Compares a query to closely related sequences and works best if the target percent identity is 95% or more but is very fast
Discontiguous MegaBLAST
Uses an initial seed that ignores some bases (allowing mismatches) and is intended for cross-species comparisons
PSI-BLAST
Allows the user to build a PSSM (position-specific scoring matrix) using the results of the first BlastP run
PHI-BLAST
Performs the search but limits alignments to those that match a pattern in the query
DELTA-BLAST
Constructs a PSSM using the results of a Conserved Domain Database search and searches a sequence database