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| AlignmentException | |||
| AbstractAligner Base class of objects that can perform an alignment | |||
| BasicAligner Aligns sequences by simply adding gaps to the ends of sequences to make them the same length | |||
| RescodeAligner Aligns sequences by rescode | |||
| ConstrainedPairwiseAlignment | |||
| ClustalAligner Aligns sequences using the Clustal alignment algorithm. | |||
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