Figure 3.

The curves of the best gap costs. A) The entire range of the curves and B) a magnification of the beginning of the curves. The best gap costs were decided for each scheme based on highest average alignment identity. Log-Affine: G (k) = 2 + k/4 + (ln k)/2 (solid) , affine GA (x) = 4 + k/4 (dashed), and logarithmic GL (k) = 1/8 + 8 ln k (dotted).

Cartwright BMC Bioinformatics 2006 7:527   doi:10.1186/1471-2105-7-527
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