org.biojava.bio.seq
Interfaces 
ComponentFeature
Feature
FeatureFilter
FeatureHolder
FeatureRealizer
FeatureTypes.Repository
FeatureTypes.Type
FilterUtils.FilterTransformer
Frame
FramedFeature
GappedSequence
OptimizableFilter
RealizingFeatureHolder
RemoteFeature
RemoteFeature.Resolver
Sequence
SequenceAnnotator
SequenceFactory
SequenceIterator
StrandedFeature
Classes 
AbstractFeatureHolder
CircularView
ComponentFeature.Template
DNATools
DummySequence
Feature.ByLocationComparator
Feature.Template
FeatureFilter.And
FeatureFilter.AnnotationContains
FeatureFilter.ByAncestor
FeatureFilter.ByAnnotation
FeatureFilter.ByAnnotationType
FeatureFilter.ByChild
FeatureFilter.ByClass
FeatureFilter.ByComponentName
FeatureFilter.ByDescendant
FeatureFilter.ByFeature
FeatureFilter.ByPairwiseScore
FeatureFilter.ByParent
FeatureFilter.BySequenceName
FeatureFilter.BySource
FeatureFilter.ByType
FeatureFilter.ContainedByLocation
FeatureFilter.FrameFilter
FeatureFilter.HasAnnotation
FeatureFilter.Not
FeatureFilter.OnlyChildren
FeatureFilter.OnlyDescendants
FeatureFilter.Or
FeatureFilter.OverlapsLocation
FeatureFilter.ShadowContainedByLocation
FeatureFilter.ShadowOverlapsLocation
FeatureFilter.StrandFilter
FeatureHolder.EmptyFeatureHolder
FeatureTypes
FeatureTypes.RepositoryImpl
FilterUtils
FramedFeature.ReadingFrame
FramedFeature.Template
GeneticCodes
LazyFeatureHolder
MergeFeatureHolder
NucleotideTools
ProjectedFeatureHolder
ProteinTools
RemoteFeature.Region
RemoteFeature.Template
RNATools
SequenceTools
SimpleAssembly
SimpleFeatureHolder
SimpleFeatureRealizer
SimpleGappedSequence
StrandedFeature.Strand
StrandedFeature.Template
StrandParser
SubSequence
ViewSequence