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The above primers and nucleic acid sequences were analyzed by BLAST searches against GenBank (http://www.ncbi.nlm.nih.gov/).nih.gov/
Performing searches against the entire protein space is time consuming.
Blast searches against the Emoy2 genome identified homologues of the Waco9 HaCRs (Table 2).
The resulting DNA sequences were used to perform homology searches against the GenBank databases.
Foldback sequences were subjected to FASTA searches against the Arabidopsis gene and transcript databases [22].
BLAST searches against the A. flavus genome were performed on http://gaplabg5.cfr.ncsu.edu/blast/blast.html.html
The BLAST searches against PDB did not yield useful template for homology based structure modeling.
For those uncharacterized transcriptional probes or ESTs, BLAST searches against NCBI non-redundant databases were conducted.
For these domains, we performed HMMER2 searches against Pfam10, which generated 1520 possible, overlapping hits.
BLAST searches against EST databases were performed on the website of NCBI (http://www.ncbi.nlm.nih.gov/).nih.gov/
Functional assignment of the ORFs was carried out by BLASTP searches against four Brucella genomes.
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