ProblemA2-3 - Computational Biology 03-310/311/510/710...

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Computational Biology 03-310/311/510/710 & 42-334/534/734 Spring 2006 Problem A2 Robert F. Murphy Page 1 of 2 Problem A2 BLAST Due: February 9, 2006 In this assignment, you are given a sequence of a mouse cDNA in the file ProbA2.txt on the homeworks web page. Your goal is perform initial sequence analysis and comparison to find similar genes and proteins. Hand in requested printouts and written answers to the questions. Include justification for your answers (i.e., show basis of calculations). Label your answers clearly. Questions (Total of 40 points) 1. a) Which dinucleotide(s) is(are) the least frequent in the cDNA? (b) What is the predicted frequency of the tetranucleotide CCAT using the observed mononucleotide frequencies (show your calculations)? (c) What is the predicted frequency of CCAT using the observed dinucleotide frequencies (show your calculations)? 2. (a) What locations in the sequence match the consensus sequence "TRGCYA"? (b) Using the observed mononucleotide frequencies, what is the expected number of occurrences of this
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This note was uploaded on 03/04/2012 for the course BIO 510 taught by Professor Miller during the Fall '06 term at Carnegie Mellon.

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ProblemA2-3 - Computational Biology 03-310/311/510/710...

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