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Enhance alignment functionality with region-specific improvements#48

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ThijsMaas wants to merge 7 commits into
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fr-partial-alignment-optimization
Draft

Enhance alignment functionality with region-specific improvements#48
ThijsMaas wants to merge 7 commits into
mainfrom
fr-partial-alignment-optimization

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@ThijsMaas
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  • Improve alignment functionality by introducing region-specific alignment and scoring enhancements.
  • Refactor alignment functions to leverage the NW implementation for better code reuse and efficiency.

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