Write a Perl program that prints the score of a sequence alignment given in
dna.txt (in FASTA format) but using match, mimatch, and gap scores provided in a
file called matrix.txt. This file contains five rows and columns where the
first row (and column) represents A, the second C, third G, the fourth T,
and the last gap (-).

For example if the file matrix.txt is

10  -1   2  1 -5
-1   9   1  2 -5
2   1  11  -1 -5 
1   2  -1  12 -5 
-5 -5  -5  -5  0
                                   
then the score of aligning A with A is 10 (the number in the
the first row and first column) and C with A is -1 (the number in the 
second row and first column).

If dna.txt contains the alignment

>human
ACC--A
>mouse
ACGTAC

then its score according to matrix.txt is 10+9+1-5-5-1=9. 

Your program should work for any set of numbers in matrix.txt and any pair of
aligned sequences in dna.txt.

Submit your solution as a file called <firstname>HW12.pl to Hareesh
hc44@njit.edu by Nov 10th and submit a hardcopy in class.