AAFrequency AlignSeq AlignmentAnnotationUtils AlignmentGenerator AlignmentSorter AlignmentUtils AnnotationSorter AnnotationSorter.SequenceAnnotationOrder AverageDistanceEngine CodingUtils CodonComparator Conservation CrossRef Dna FeatureDistanceModel Finder GeneticCodes Grouping PCA PIDModel ParseProperties Rna ScoreMatrix ScoreModels SecStrConsensus.SimpleBP SecondaryStructureDistanceModel SeqsetUtils SequenceIdMatcher SequenceIdMatcher.SeqIdName SimilarityParams SimilarityScoreModel StructureFrequency TreeEngine TreeModel WUSSParseException

AAFrequency AlignSeq AlignmentAnnotationUtils AlignmentGenerator AlignmentSorter AlignmentUtils AnnotationSorter AnnotationSorter.SequenceAnnotationOrder AverageDistanceEngine CodingUtils CodonComparator Conservation CrossRef Dna Finder GeneticCodes Grouping PCA ParseProperties Rna SecStrConsensus.SimpleBP SeqsetUtils SequenceIdMatcher SequenceIdMatcher.SeqIdName StructureFrequency TreeEngine TreeModel WUSSParseException