Figure 7
Impact of different model architectures on transition caused bit‐scores. The family is translated into CMs of the \(\mathcal {G}_{1}\) type (left) and \(\mathcal {G}_{5}\) (right). Aligning the same sequence results in different scores even if the alignment have the same semantic meaning, e. g. the outer bases U and A match the pair, a is an insertion relative to the model and the second to last A matches the unpaired position.