BLAST
From Wiki CEINGE
(Difference between revisions)
Revision as of 13:42, 11 June 2007 (edit) Mauro (Talk | contribs) (New page: ==BLAST== BLAST (Basic Local Alignment Search Tool) is a set of similarity search programs. At CEINGE the NCBI BLAST is installed. The NCBI BLAST family of programs includes: {| border=...) ← Previous diff |
Revision as of 15:18, 11 June 2007 (edit) (undo) Mauro (Talk | contribs) (→BLAST) Next diff → |
||
Line 2: | Line 2: | ||
BLAST (Basic Local Alignment Search Tool) is a set of similarity search programs. | BLAST (Basic Local Alignment Search Tool) is a set of similarity search programs. | ||
+ | There are aminly two different implementation of BLAST: NCBI BLAST an WU-BLAST, developed at NCBI and Washington University, respectively. | ||
At CEINGE the NCBI BLAST is installed. The NCBI BLAST family of programs includes: | At CEINGE the NCBI BLAST is installed. The NCBI BLAST family of programs includes: | ||
- | {| border="1" cellspacing="0" | + | {| border="1" cellspacing="0" cellpadding="5" align="left" |
- | cellpadding="5" align=" | + | |
! Program | ! Program | ||
! description | ! description | ||
+ | |- | ||
| '''blastp''' | | '''blastp''' | ||
| compares an amino acid query sequence against a protein sequence database | | compares an amino acid query sequence against a protein sequence database | ||
+ | |- | ||
|'''blastn''' | |'''blastn''' | ||
|compares a nucleotide query sequence against a nucleotide sequence database | |compares a nucleotide query sequence against a nucleotide sequence database | ||
+ | |- | ||
|'''blastx''' | |'''blastx''' | ||
|compares a nucleotide query sequence translated in all reading frames against a protein sequence database | |compares a nucleotide query sequence translated in all reading frames against a protein sequence database | ||
+ | |- | ||
|'''tblastn''' | |'''tblastn''' | ||
|compares a protein query sequence against a nucleotide sequence database dynamically translated in all reading frames | |compares a protein query sequence against a nucleotide sequence database dynamically translated in all reading frames | ||
+ | |- | ||
|'''tblastx''' | |'''tblastx''' | ||
|compares the six-frame translations of a nucleotide query sequence against the six-frame translations of a nucleotide sequence database. | |compares the six-frame translations of a nucleotide query sequence against the six-frame translations of a nucleotide sequence database. | ||
|- | |- | ||
|} | |} |
Revision as of 15:18, 11 June 2007
BLAST
BLAST (Basic Local Alignment Search Tool) is a set of similarity search programs. There are aminly two different implementation of BLAST: NCBI BLAST an WU-BLAST, developed at NCBI and Washington University, respectively.
At CEINGE the NCBI BLAST is installed. The NCBI BLAST family of programs includes:
Program | description |
---|---|
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. |