For maximum unification, the multiple alignments must reach into the twiligth zone of sequence similarity. Families unified through a short conserved sequence motif are associated with multiple full-length alignments describing different subfamilies. Domains that are mobile modules are identified based on their association with different sets of neighbours. In principle, you can do complex SQL queries. You can search for a sequence, protein description, or cluster.
Clusters have attributes derived from the descriptions of members.
Bioinformatics , accepted. A set of clusters which form a closed neighbourhood. Cluster A set of sequences which are aligned to a common seed sequence in multiple alignment. Prototype release described in the Bioinformatics paper. Higher versions will be continuously updated.