<s>
Probalign	B-Algorithm
is	O
a	O
sequence	O
alignment	O
tool	O
that	O
calculates	O
a	O
maximum	O
expected	O
accuracy	O
alignment	O
using	O
partition	O
function	O
posterior	O
probabilities	O
.	O
</s>
<s>
The	O
partition	O
function	O
is	O
calculated	O
using	O
a	O
dynamic	B-Algorithm
programming	I-Algorithm
approach	O
.	O
</s>
<s>
The	O
following	O
describes	O
the	O
algorithm	O
used	O
by	O
probalign	B-Algorithm
to	O
determine	O
the	O
base	O
pair	O
probabilities	O
.	O
</s>
