Jalview is a free program for multiple sequence alignment editing, visualisation, analysis and figure generation. Use it to view and edit sequence alignments, analyse them with phylogenetic trees and principal components analysis (PCA) plots and explore molecular structures and annotation. It is also able to import and annotate DNA and Protein products from VCF files and retrieve data and annotation from 3D-Beacons, Uniprot, Ensembl, ENA, Rfam, Pfam and the PDBe.