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Which of the following is true about the RNAalifold?

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Which of the following is true about the RNAalifold?

(a) Dynamic programming is not involved

(b) Minimum free energy method is not used

(c) Only minimum free energy is used

(d) Covariation information is taken into consideration

I had been asked this question during an internship interview.

I'd like to ask this question from Comparative Approach topic in chapter RNA Structure Prediction of Bioinformatics

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The correct option is (d) Covariation information is taken into consideration

Easy explanation: It is a program in the Vienna package. It uses a multiple sequence alignment as input to analyze covariation patterns on the sequences. A scoring matrix is created that combines minimum free energy and covariation information. Dynamic programming is used to select the structure that has the minimum energy for the whole set of aligned RNA sequences.

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