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alignment_configuration_align_config_method_local

Local Alignment (better suited to find conserved segments):

tccCAGTTATGTCAGgggacacgagcatgcagagac
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aattgccgccgtcgttttcagCAGTTATGTCAGatc

A local alignment is effectively a global alignment of two partial sequences. For example when two genes from different species are similar in short conserved regions and dissimilar in the remaining regions. A global alignment would not find the local matching because it would try to align the entire sequence. This is solved by the Smith-Waterman algorithm.

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