reseq data curation question

Question

[irritable_phd_syndrome]

I am working with virus data and I was wondering what the difference is between viral.1.protein.faa, viral.2.protein.faa and viral.nonredundant_protein.1.protein.faa? See ftp.ncbi.nlm.nih.gov/refseq/release/viral/ . If I am making a database to blast against all the viruses, should I use all three files or just viral.1.protein.faa + viral.2.protein.faa. Thanks.

Answer 1

[GenoMax]

From NCBI RefSeq FAQ:

RefSeq transcript and protein records that are not yet annotated on the corresponding genome, and autonomous non-redundant proteins (WP_ accession prefix) that are not yet directly annotated on a genome.

You will have to decide.