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The FOLDALIGN web server for pairwise structural RNA alignment and mutual motif search.

ABSTRACT: Foldalign is a Sankoff-based algorithm for making structural alignments of RNA sequences. Here, we present a web server for making pairwise alignments between two RNA sequences, using the recently updated version of foldalign. The server can be used to scan two sequences for a common structural RNA motif of limited size, or the entire sequences can be aligned locally or globally. The web server offers a graphical interface, which makes it simple to make alignments and manually browse the results. The web server can be accessed at http://foldalign.kvl.dk.

SUBMITTER: Havgaard JH 

PROVIDER: S-EPMC1160234 | biostudies-literature | 2005 Jul

REPOSITORIES: biostudies-literature

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The FOLDALIGN web server for pairwise structural RNA alignment and mutual motif search.

Havgaard Jakob H JH   Lyngsø Rune B RB   Gorodkin Jan J  

Nucleic acids research 20050701 Web Server issue

Foldalign is a Sankoff-based algorithm for making structural alignments of RNA sequences. Here, we present a web server for making pairwise alignments between two RNA sequences, using the recently updated version of foldalign. The server can be used to scan two sequences for a common structural RNA motif of limited size, or the entire sequences can be aligned locally or globally. The web server offers a graphical interface, which makes it simple to make alignments and manually browse the results  ...[more]

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