CoVDB: a comprehensive database for comparative analysis of coronavirus genes and genomes

Huang, Yi; Lau, Susanna K. P.; Woo, Patrick C. Y.; Yuen, Kwok-yung

This problem has been overcome by the annotated sequences in CoVDB. The blast search page of CoVDB is an interface for facilitating coronavirus similarity search. The background support program, blastall, is from the NCBI Blast package. The blast search page can be entered by clicking 'Tools' in the top menu bar in any page of CoVDB. Since all sequences in CoVDB are annotated, they can be grouped into different datasets for blast search. Users can choose one of the three nucleotide and two protein sequence datasets as the database for comparison (Figure 4) . The three nucleotide sequence datasets are: CoV genes (nsp + genes after 1ab), CoV genes (1ab + genes after 1ab) and CoV GenBank strains, which are the original sequences retrieved from GenBank. The two protein sequence datasets are the translated sequences of the first two nucleotide datasets: CoV proteins (nsp + aa after 1ab) and CoV proteins (1ab + aa after 1ab).