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Oxford University Press (OUP), Bioinformatics, 10(25), p. 1236-1243

DOI: 10.1093/bioinformatics/btp154

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Local RNA structure alignment with incomplete sequence

Journal article published in 2009 by Diana L. Kolbe, Sean R. Eddy ORCID
This paper is made freely available by the publisher.
This paper is made freely available by the publisher.

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Abstract

Motivation: Accuracy of automated structural RNA alignment is improved by using models that consider not only primary sequence but also secondary structure information. However, current RNA structural alignment approaches tend to perform poorly on incomplete sequence fragments, such as single reads from metagenomic environmental surveys, because nucleotides that are expected to be base paired are missing.