Table 3. a and b: The comparison of SO and RMSD scores of Rclick against CLICK, ARTS and SARA on the NR95-HR dataset of 1275 pair-wise alignments of RNA structures (14).

	Rclick	SARA	ARTS	CLICK
Average SO	63.4%	48.7%	47.3%	60.6%
RMSD	1.92 Å	—	—	1.78 Å
	Number of alignment with better Rclick SO values	Statistical significance of difference (P-value)
SARA	1008	Yes (<10−4)
ARTS	1061	Yes (<10−4)
CLICK	659	Yes (<10−4)