SARA-Coffee web server, a tool for the computation of RNA sequence and structure multiple alignments (2014)
BibTeX
@MISC{Tommaso14sara-coffeeweb,
author = {Paolo Di Tommaso and Giovanni Bussotti and Carsten Kemena and Emidio Capriotti and Maria Chatzou and Pablo Prieto and Cedric Notredame},
title = {SARA-Coffee web server, a tool for the computation of RNA sequence and structure multiple alignments},
year = {2014}
}
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Abstract
ABSTRACT This article introduces the SARA-Coffee web server; a service allowing the online computation of 3D structure based multiple RNA sequence alignments. The server makes it possible to combine sequences with and without known 3D structures. Given a set of sequences SARA-Coffee outputs a multiple sequence alignment along with a reliability index for every sequence, column and aligned residue. SARA-Coffee combines SARA, a pairwise structural RNA aligner with the R-Coffee multiple RNA aligner in a way that has been shown to improve alignment accuracy over most sequence aligners when enough structural data is available. The server can be accessed from http://tcoffee.crg.cat/apps/tcoffee/do: saracoffee.
