+(MTPairwiseSequenceAlignment*)alignmentBetweenChain:(MTChain*)p_chain1 andChain:(MTChain*)p_chain2 - [MTPairwiseSequenceAlignment]
-(NSArray*)alignmentPositions - [MTPairwiseSequenceAlignment]
-(MTChain*)chain1 - [MTPairwiseSequenceAlignment]
-(MTChain*)chain2 - [MTPairwiseSequenceAlignment]
-(void)computeGlobalAlignment - [MTPairwiseSequenceAlignment]
-(void)computeLocalAlignment - [MTPairwiseSequenceAlignment]
-(int)countIdenticalPairs - [MTPairwiseSequenceAlignment]
-(int)countPairs - [MTPairwiseSequenceAlignment]
-(int)countUngappedPairs - [MTPairwiseSequenceAlignment]
-(NSString*)description - [MTPairwiseSequenceAlignment]
-(int)gep - [MTPairwiseSequenceAlignment]
-(MTSelection*)getSelection1 - [MTPairwiseSequenceAlignment]
-(MTSelection*)getSelection2 - [MTPairwiseSequenceAlignment]
-(NSString*)getSequence1 - [MTPairwiseSequenceAlignment]
-(NSString*)getSequence2 - [MTPairwiseSequenceAlignment]
-(int)gop - [MTPairwiseSequenceAlignment]
-(void)setGep:(int)p_gep - [MTPairwiseSequenceAlignment]
-(void)setGop:(int)p_gop - [MTPairwiseSequenceAlignment]
-(void)setSubstitutionMatrix: (Class)p_substm - [MTPairwiseSequenceAlignment]
-(id)writeFastaToStream: (MTStream*)str - [MTPairwiseSequenceAlignment]
generated 07-Jun-2006 by ObjcDoc 3.0.0