\relax 
\@writefile{lof}{\contentsline {figure}{\numberline {1}{\ignorespaces Comparison of candidate T0108-1b9mA-local.pw.a2m (lines) to reference T0108-1b9mA-2track-local.pw.a2m (letters). Reference alignment has 126 matching columns, Candidate alignment has 16 matching columns. 58 were used (for template shift+target shift) to compute shift score. The shift score is 9999.000000, with a min shift of 0, max shift of 58, and mean of 0.000000. Optimal subalignment has 0 matching columns, with 190 paired matches. 0 were used (for template shift+target shift) to compute shift score. Optimum shift score is -0.018978, with a min shift of 15, max shift of 999999, and mean of 5028.500000. Optimum achieved by removing the 206 columns indicated with dotted lines from the candidate alignment. }}{1}}