Gets or sets the object that will be used to compute the alignment's consensus.

Gets the description of the Aligner. Intended to be filled in by classes deriving from DynamicProgrammingPairwiseAligner class with the exact details of the Alignment algorithm.

Gets or sets gap extension penalty for use in alignment algorithms. Not used for alignments using a linear gap penalty. For alignments using an affine gap, this is the penalty to extend an existing gap. This is a negative number, for example GapExtensionCost = -2, not +2.

Gets or sets gap open penalty for use in alignment algorithms. For alignments using a linear gap penalty, this is the gap penalty. For alignments using an affine gap, this is the penalty to open a new gap. This is a negative number, for example GapOpenCost = -8, not +8.

Gets the name of the Aligner. Intended to be filled in by classes deriving from DynamicProgrammingPairwiseAligner class with the exact name of the Alignment algorithm.

Gets or sets similarity matrix for use in alignment algorithms.