<s>
JAligner	B-Application
is	O
an	O
open	O
source	O
Java	B-Language
implementation	O
of	O
the	O
Smith-Waterman	B-Algorithm
algorithm	I-Algorithm
with	O
Gotoh	O
's	O
improvement	O
for	O
biological	O
local	O
pairwise	O
sequence	B-Algorithm
alignment	I-Algorithm
using	O
the	O
affine	O
gap	O
penalty	O
model	O
.	O
</s>
