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Estimating the power of sequence covariation for detecting conserved RNA structure

View ORCID ProfileElena Rivas, Jody Clements, Sean R. Eddy
doi: https://doi.org/10.1101/789404
Elena Rivas
1Department of Molecular and Cellular Biology, Harvard University, Cambridge, Massachusetts, USA
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  • For correspondence: elenarivas@g.harvard.edu
Jody Clements
2Janelia Research Campus, Howard Hughes Medical Institute, Ashburn, Virginia, USA
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Sean R. Eddy
1Department of Molecular and Cellular Biology, Harvard University, Cambridge, Massachusetts, USA
3Howard Hughes Medical Institute, Harvard University, Cambridge, Massachusetts 02138, USA
4John A. Paulson School of Engineering and Applied Sciences, Harvard University, Cambridge, Massachusetts 02138, USA
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Abstract

Pairwise sequence covariations are a signal of conserved RNA secondary structure. We describe a method for distinguishing when lack of covariation signal can be taken as evidence against a conserved RNA structure, as opposed to when a sequence alignment merely has insufficient variation to detect covariations. We find that alignments for several long noncoding RNAs previously shown to lack covariation support do have adequate covariation detection power, providing additional evidence against their proposed conserved structures.

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  • http://rivaslab.org

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The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY 4.0 International license.
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Posted October 01, 2019.
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Estimating the power of sequence covariation for detecting conserved RNA structure
Elena Rivas, Jody Clements, Sean R. Eddy
bioRxiv 789404; doi: https://doi.org/10.1101/789404
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Estimating the power of sequence covariation for detecting conserved RNA structure
Elena Rivas, Jody Clements, Sean R. Eddy
bioRxiv 789404; doi: https://doi.org/10.1101/789404

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