Sequence Data Explorer Window

The Sequence Data Explorer is used to display the 46-species alignment for a given gene A gene is a collection of domains. The domains included in a gene need not be consecutive or of the same type. Genes and domains can be defined in the input data, and can be defined and edited in the Setup Genes and Domains dialog. Genes can be selected or unselected from an analysis. When a gene is unselected, all its domains are automatically unselected. However, a gene can be selected, with some of its domains unselected. and provides a graphical interface for specifying amino acid position and mutant allele for nsSNVs of interest. With an alignment activated, the amino acid position is specified by selecting the site of interest (which will be highlighted). With the site of interest selected, the mutant allele (or all alleles) can be specified from the Diagnose Variant drop down list. When an allele is selected from the list, MEGA-MD will query the MEGA-MDW server and append the returned predictions and related data to the Mutation ExplorerMutation_Explorer Predictions tab.

The Sequence Data Explorer window also provides much other functionality such as alignment export and composition based exploration.