\relax 
\@writefile{lof}{\contentsline {figure}{\numberline {1}{\ignorespaces Comparison of candidate 2scpA-t74-hand.a2m (lines) to reference 2scpA-t74-GL.a2m (letters). Reference alignment has 89 matching columns, Candidate alignment has 87 matching columns. 173 were used (for template shift+target shift) to compute shift score. The shift score is 0.768182, with a min shift of 0, max shift of 3, and mean of 0.710973. Optimal subalignment has 67 matching columns, with 65 paired matches. 130 were used (for template shift+target shift) to compute shift score. Optimum shift score is 0.844156, with a min shift of 0, max shift of 0, and mean of 0.000000. Optimum achieved by removing the 22 columns indicated with dotted lines from the candidate alignment. }}{1}}