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Eric Coissac
1ab512ab5c
Corrects the indexing strategy for seed searching, improving performance and introducing a new seed index structure for efficient pattern lookup. This commit updates the core matching logic by shifting the indexing strategy to use two halves of k/2 bases, resulting in significant speed improvements for sequence matching. It also introduces a new `seedIndex` structure for fast pattern retrieval and implements comprehensive performance testing logic for matching functions. Future features, such as bit-parallel search, are deferred.