ALICAO Options:
		-g global alignment (default local)
		-l <lift-value [float]> add constant to CAO matrix values (default 2.80)
		-m <lift-value [float]> add constant to PAM matrix values (default 0.00)
		-v <cao distance> (default 120)
		-w <weight [float]> weight of CAO scores versus PAM scores (default 0.10)
		-p <gap opening penalty [float]>(default 14.00)
		-q <gap extension penalty [float]> (default 1.00)

	Default PAM-type matrix is Blosum62