Gets or sets number of bases to be extended before stopping alignment

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

Gets or sets maximum fixed diagonal difference

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 or sets minimum length of Match that can be considered as MUM.

Gets or sets maximum separation between the adjacent matches in clusters

Gets or sets minimum output score

Gets or sets the method to use while calculating score of a cluster. Default is MatchLength.

Gets or sets separation factor. Fraction equal to (diagonal difference / match separation) where higher values increase the insertion or deletion (indel) tolerance

Gets or sets similarity matrix for use in alignment algorithms.