You're checking an algorithmically generated alignment that you can compare to a structure. You find shifting some sequences will still give a good alignment, but generate a gap in one of the three positions noted by arrows below. Which would you choose? Explain reasoning 1 2 3 Helix Helix Assuming a good choice of substitution matrix, why would you expect a tree built based on maximum likelihood be better than parsimony? You're checking an algorithmically generated alignment that you can compare to a structure. You find shifting some sequences will still give a good alignment, but generate a gap in one of the three positions noted by arrows below. Which would you choose? Explain reasoning 1 2 3 Helix Helix Assuming a good choice of substitution matrix, why would you expect a tree built based on maximum likelihood be better than parsimony