Question

In comparative approach to RNA structure prediction, the Foldalign program doesn’t use the covariation information.

(a) True

(b) False

The question was posed to me in final exam.

My enquiry is from Performance Evaluation topic in portion RNA Structure Prediction of Bioinformatics

Answer 1

The correct choice is (b) False

Easiest explanation: The program uses a combination of clustal and dynamic programming with a scoring scheme that includes covariation information to construct the alignment. A commonly conserved structure for both sequences is subsequently derived based on the alignment. To reduce computational complexity, the program ignores multi-branch loops and is only suitable for handling short RNA sequences.