Part I

Write a Python function JCdistance that takes a list of aligned DNA 
sequences in FASTA format called data and outputs a 2-dimensional 
matrix D containing the Jukes Cantor evolutionary distance for each 
pair of sequences. For sequences i and j the distance is defined to 
be

Dij = -3/4 ln(1 - (4/3)*pij)

where pij is the number of mistmatches divided by alignment length 
between sequences i and j. Since the sequences are aligned they are 
all of the same length. Do not count gaps as mismatches, ignore the 
gaps instead.

----------------------

Part II

Write a Python function called BLASTdist like above except that it 
computes the evolutionary distance between two sequences using the 
formula:

            (           Unique common kmers between x and y        )
d(x,y) = -ln(                 ----------------------               )
            (                   Min(len(x), len(y))                )

You will have to find the unique common kmers of length 9 between 
x and y. 

----------------------

Submit hardcopies in class on Apr 20th.