org.biojava.bio.seq.io
Interfaces 
AlignmentFormat
SeqFileFormer
SeqIOListener
SequenceBuilder
SequenceBuilderFactory
SequenceFormat
StreamParser
SymbolReader
SymbolTokenization
Classes 
AlignIOConstants
CharacterTokenization
ChunkedSymbolListBuilder
ChunkedSymbolListFactory
CrossProductTokenization
DoubleTokenization
EmblFileFormer
EmblLikeFormat
EmblLikeLocationParser
EmblProcessor
EmblProcessor.Factory
FastaAlignmentFormat
FastaDescriptionLineParser
FastaDescriptionLineParser.Factory
FastaFormat
FeatureTableParser
GAMEFormat
GenbankFileFormer
GenbankFormat
GenbankProcessor
GenbankProcessor.Factory
IntegerTokenization
MSFAlignmentFormat
NameTokenization
OrganismParser
OrganismParser.Factory
ProteinRefSeqFileFormer
ProteinRefSeqProcessor
ProteinRefSeqProcessor.Factory
SeqAlignReadWrite
SeqIOAdapter
SeqIOConstants
SeqIOFilter
SeqIOTools
SequenceBuilderBase
SequenceBuilderFilter
SequenceDBSequenceBuilder
SimpleAssemblyBuilder
SimpleSequenceBuilder
SmartSequenceBuilder
StreamReader
StreamWriter
SwissprotFileFormer
SwissprotProcessor
SwissprotProcessor.Factory
SymbolListCharSequence
SymbolTokenization.TokenType
WordTokenization
Exceptions 
ParseException