Result
Table of Contents
Classes
- PairwiseAlignmentResult
- alignedFirst and alignedSecond are the two input sequences with '-' gap symbols inserted so they
share the same length, column by column. first/secondStart and first/secondEnd are zero-based,
inclusive positions in the ORIGINAL, ungapped sequences that the aligned region covers : for a
global alignment (Needleman-Wunsch) this always spans the whole of both sequences, but the same
shape is reused by local alignment (Smith-Waterman), where it identifies the aligned subsequence.