Problem Set 2 Phylogenetics

1.    Construct a phylogenetic tree using UPGMA with the following distance matrix.  Give the distance measure for each branch (Problem taken from Li and Graur, 1991).

     
     
     
    OTU A B C D
    B 3
    C 8 7
    D 7 6 3
    E 11 12 13 12
2.    Given the following sequence data for 5 species, which of the following trees is the most parsimonious tree?  Why? (Show your work) (Adapted from Ridley, 1996).
 
 
Site => 1 2 3 4 5
Species:          
1 G C A T T
2 G C T T T
3 A A C G T
4 A A T G T
5 A A T T A