XRATE is a program for prototyping phylogenetic hidden Markov models and stochastic context-free grammars. It is used to discover patterns of evolutionary conservation in sequence alignments. The program can be used to estimate parameters for such models from "training" alignment data, or to apply the parameterized model so as to annotate new alignments.
We present user-friendly web interface to XRATE. All You need is to upload FASTA FORMATs of DNA sequences You interested in and their Amino Acid multiple alignment. Preparation of codon alignment is made by build-in service RevTrans.
by Peter S. Klosterman et al.
by Rasmus Wernersson and Anders Gorm Pedersen.