Question

Which of the following is untrue about the PRSS program?

(a) It stands for Probability of Random Shuffles

(b) It is a web-based program that can be used to evaluate the statistical significance of DNA or protein sequence alignment

(c) It first aligns two sequences using the Needleman-Wunsch algorithm and calculates the score

(d) It holds one sequence in its original form and randomizes the order of residues in the other sequence.

Answer 1

Right option is (c) It first aligns two sequences using the Needleman-Wunsch algorithm and calculates the score

To explain: It first aligns two sequences using the Smith–Waterman algorithm and calculates the score. The shuffled sequence is realigned with the unshuffled sequence. The resulting alignment score is recorded. This process is iterated many (normally 1,000) times to help generate data for fitting the Gumble distribution.