Figure 1
From: Local structural alignment of RNA with affine gap model
Long gap may exist in conserved local region. Multiple sequence alignment of some seed members of the family RF01051 from Rfam 9.1 database. The red and blue highlighted are the base-pair regions. All sequences are aligned according to their structures. If the two circled sequences are selected as query and target, the circled region is the conserved local region between them, in which there exists long gap inside.