Figure 1From: ProbeAlign: incorporating high-throughput sequencing-based structure probing information into ncRNA homology searchTwo alignments with different structure consistency scores. The reactivities with red color are higher than r c , while the reactivites with blue color are less than r c . In Alignment 2, the red letters can not form canonical base pairs. The green letters in Alignment 1 can form canonical base pairs.Back to article page