Multiple RNA structure alignment.

Abstract

RNA structures can be viewed as a kind of special strings with some characters bonded with each other. The question of aligning two RNA structures has been studied for a while, and there are several successful algorithms that are based upon different models. In this paper, by adopting the model introduced in [18], we propose two algorithms to attack the question of aligning multiple RNA structures. We reduce the multiple RNA structure alignment problem to the problem of aligning two RNA structure alignments.