Aug. 20, 2012, midnight by tvinar
Topics: Alignment, Dynamic Programming
Adjusting Alignment Parameters
As we change the parameters contributing to alignment score, the nature of alignments achieving the maximum score may change. One feature of maximum-score alignments worthy of consideration is the number and size of their gaps. In this problem, we would like to determine the maximum number of possible gaps in any optimal alignment based solely on the parameter values chosen.
For the computation of an alignment score generalizing the edit alignment score,
Given: Two DNA strings
Return: The maximum number of gap symbols that can appear in any maximum score alignment of
>Rosalind_92 AACGTA >Rosalind_47 ACACCTA