Base-By-Base version 2: single nucleotide-level analysis of whole viral genome alignments.

ABSTRACT:

Background

Base-By-Base is a Java-based multiple sequence alignment editor. It is capable of working with protein and DNA molecules, but many of its unique features relate to the manipulation of the genomes of large DNA viruses such as poxviruses, herpesviruses, baculoviruses and asfarviruses (1-400 kb). The tool was built to serve as a platform for comparative genomics at the level of individual nucleotides.

Results

In version 2, BBB-v2, of Base-By-Base we have added a series of new features aimed at providing the bench virologist with a better platform to view, annotate and analyze these complex genomes. Although a poxvirus genome, for example, may be less than 200 kb, it probably encodes close to 200 proteins using multiple classes of promoters with frequent overlapping o

SUBMITTER: Hillary W 

PROVIDER: S-EPMC3348662 | biostudies-literature | 2011 Jun

REPOSITORIES: biostudies-literature