Multiple choice

Which of the following algorithms requires the user to provide a pairwise or multiple alignment as input?

  1. RNAalifold
  2. Foldalign
  3. Dynalign

  1. Only 1

  2. Only 2

  3. Only 3

  4. 1 and 2

  5. 2 and 3
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A Correct answer
Explanation

Algorithms That Use Prealignment This type of algorithm requires the user to provide a pairwise or multiple alignment as input. The sequence alignment can be obtained using standard alignment programs such as T-Coffee, PRRN, or Clustal. RNAalifold is a program in the Vienna package. It uses a multiple sequence alignment as input to analyze covariation patterns on the sequences.

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