Table 2. a and b: The comparison of SO and RMSD scores of Rclick against R3D Align, SETTER and CLICK on the dataset of 3D structures of 5S, 16S and 23S ribosomal subunits (19).

	Rclick	CLICK	SETTER	R3D Align
Average SO	78.8%	38.6%	61.7%	66.0%
RMSD	1.92Å	2.63Å	1.65Å	2.04Å
	Number of alignment with better Rclick SO values	Statistical significance of difference (P-value)
CLICK	29	YES(<10−4)
SETTER	29	YES(<10−4)
R3D Align	35	YES(<10−4)