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Fig. 3 | BMC Bioinformatics

Fig. 3

From: KnotAli: informed energy minimization through the use of evolutionary information

Fig. 3

Creating 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 structure

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