Fig. 3From: KnotAli: informed energy minimization through the use of evolutionary informationCreating the guide structure in KnotAli. Five sequences are shown from the full alignment of tRNA sequences. Arcs between columns of the alignment represent the \(\mathtt{MIp}\) values for the two columns at the two ends of the arcs. Arcs extending the same column represent change of \(\mathtt{MIp}\) with a shared column. Here, we only represent a subset of the \(\mathtt{MIp}\) values. The bottom line represents the determined guide structure for the alignment. As shown in the guide structure, only non-conflicting base pairs with high adjusted mutual information are selected as the intermediary base pairs, and later included in the guide structureBack to article page