Skip to main page content
U.S. flag

An official website of the United States government

Dot gov

The .gov means it’s official.
Federal government websites often end in .gov or .mil. Before sharing sensitive information, make sure you’re on a federal government site.

Https

The site is secure.
The https:// ensures that you are connecting to the official website and that any information you provide is encrypted and transmitted securely.

Access keys NCBI Homepage MyNCBI Homepage Main Content Main Navigation
. 2006 Mar 1;22(5):614-5.
doi: 10.1093/bioinformatics/btk014. Epub 2005 Dec 20.

Local RNA base pairing probabilities in large sequences

Stephan H Bernhart  1 , Ivo L Hofacker, Peter F Stadler
Affiliations

Local RNA base pairing probabilities in large sequences

Stephan H Bernhart et al. Bioinformatics. .

Abstract

Summary: The genome-wide search for non-coding RNAs requires efficient methods to compute and compare local secondary structures. Since the exact boundaries of such putative transcripts are typically unknown, arbitrary sequence windows have to be used in practice. Here we present a method for robustly computing the probabilities of local base pairs from long RNA sequences independent of the exact positions of the sequence window.

Availability: The program RNAplfold is part of the Vienna RNA Package and can be downloaded from http://www.tbi.univie.ac.at/RNA/.

PubMed Disclaimer

Publication types

LinkOut - more resources