G192150 Pages:2

PART C
Answer any two full questions, each carries 9 marks.

14 Using the Needleman and Wunsch dynamic programming method, construct the

partial alignment score matrix and trace back matrix for the following two

sequences, using the following scoring parameters match score=+1,mismatch

score=0,gap penalty =-1.

ACAGTCGAACG
ACCGTCCG

What is the optimal global alignment and score between sequences?

15 Use UPGMA to reconstruct a phylogenetic tree using the following distance matrix:

16 a)

b)
०)

17 ४)
b)
18 a)
b)
19

Draw the phylogenetic tree that corresponds to standard Newick format as
((A,B)C)(D,E)).

Draw all possible unrooted trees for the species having taxa A,B,C and D.

What is the importance of BLOSUM matrix?

PART D
Answer any two full questions, each carries 12 marks.

What is GC content? How it differ in eukaryotic and prokaryotic genomes.

How protein folding is done?

Elaborate Chou-Fasman and GOR methods for predicting secondary structure.
Explain the gene structure of eukaryotic and prokaryotic genome.

Explain Nussinov algorithm for RNA secondary structure prediction with an

example.

ok ok

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