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A length and distance that gives the highest overall probability may then be determined. Such alignments are initially found using ________

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A length and distance that gives the highest overall probability may then be determined. Such alignments are initially found using ________

(a) a particular scoring matrix only

(b) an alignment algorithm only

(c) an alignment algorithm and a particular scoring matrix

(d) dot method

The question was asked during an interview for a job.

I want to ask this question from Bayesian Statistics in division Sequence Alignment of Bioinformatics

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The correct answer is (c) an alignment algorithm and a particular scoring matrix

Explanation: Analysis of the yeast and C. elegans genomes for such repeats has underscored the importance of using a range of DNA scoring matrices such as PAM1 to

PAM120 if most repeats are to be found. The application of the above Bayesian analysis allows a determination of the probability distributions as a function of both length of the repeated region and evolutionary distance.

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