title: Comparative ncRNA gene and structure prediction using Foldalign and FoldalignM.
abstract: This unit describes how to use Foldalign and FoldalignM to make structural alignments of non-protein-coding-RNA (ncRNA). These tools can be used to find new ncRNAs, to find the structure of novel ncRNAs, and to improve alignments for known ncRNAs.
authors.affiliation: Center for Non-Coding RNA in Technology and Health, Department of Veterinary Clinical and Animal Sciences, University of Copenhagen, Copenhagen, Denmark.
authors.forename: Jakob
authors.initials: J
authors.lastname: Havgaard
authors.affiliation: Center for Non-Coding RNA in Technology and Health, Department of Veterinary Clinical and Animal Sciences, University of Copenhagen, Copenhagen, Denmark.
authors.forename: Simranjeet
authors.initials: S
authors.lastname: Kaur
authors.affiliation: Center for Non-Coding RNA in Technology and Health, Department of Veterinary Clinical and Animal Sciences, University of Copenhagen, Copenhagen, Denmark.
authors.forename: Jan
authors.initials: J
authors.lastname: Gorodkin
mesh_terms: D000465:Algorithms; D009690:Nucleic Acid Conformation; D022661:RNA, Untranslated; D016415:Sequence Alignment / Q000379:methods*; D017423:Sequence Analysis, RNA
chemical_list: D022661:RNA, Untranslated