This folder contains C codes related to the paper "Comparison of 
Online Searching Algorithms for IUPAC Nucleotide Sequences" by J. 
Tarhio. The testing framework is a modification of the 
Hume-Sunday environment.

ALGORITHMS

bndm, sbndm6, ssb2, ssb6i, n32i

INSTRUCTIONS
 
Compile sbndm6: 

   sh mk sbndm6

Test sbndm6 with 3% Fruitfly DNA for m=55 with 3 repeats:

   sh test sbndm6 3 55 
