Question

The GCG alignment programs have a RANDOMIZATION option, which shuffles the second sequence and calculates similarity scores between the unshuffled sequence and each of the shuffled copies.

(a) True

(b) False

I have been asked this question by my school principal while I was bunking the class.

This interesting question is from Assessing the Significance of Sequence Alignments topic in portion Sequence Alignment of Bioinformatics

Answer 1

Right option is (a) True

The best explanation: If the new similarity scores are significantly smaller than the real alignment score, the alignment is considered significant. This analysis is only useful for providing a rough approximation of the significance of an alignment score and can easily be misleading.