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Published on: March 13, 2011
StemLoop-Finder: a Tool for the Detection of DNA Hairpins with Conserved Motifs
Alyssa A Pratt1,2,3, Ellis L Torrance1,4, George W Kasun1
1Department of Biology, Center for Life in Extreme Environments, Portland State University, Portland, Oregon, USA.
Abstract:
Nucleic acid secondary structures play important roles in regulating biological processes. StemLoop-Finder is a computational tool to recognize and annotate conserved structural motifs in large data sets. The program is optimized for the detection of stem-loop structures that may serve as origins of replication in circular replication-associated protein (Rep)-encoding single-stranded (CRESS) DNA viruses.
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