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## Hierarchy For Package uk.ac.man.bioinf.sequence.alignment

Package Hierarchies:
  All Packages

## Class Hierarchy

- class java.lang.Object
  - class uk.ac.man.bioinf.sequence.AbstractSequence (implements uk.ac.man.bioinf.sequence.Sequence)
    - class uk.ac.man.bioinf.sequence.AbstractMutableSequence (implements uk.ac.man.bioinf.sequence.MutableSequence)
      - class uk.ac.man.bioinf.sequence.alignment.AbstractGappedSequence (implements uk.ac.man.bioinf.sequence.alignment.GappedSequence)
        - class uk.ac.man.bioinf.sequence.alignment.DefaultGappedSequence
  - class uk.ac.man.bioinf.sequence.alignment.AbstractSequenceAlignment (implements uk.ac.man.bioinf.sequence.alignment.SequenceAlignment, uk.ac.man.bioinf.sequence.event.VetoableSequenceListener)
    - class uk.ac.man.bioinf.sequence.alignment.DefaultSequenceAlignment
      - class uk.ac.man.bioinf.sequence.alignment.SingleSequenceAlignment
  - class uk.ac.man.bioinf.sequence.alignment.AlignmentColumn
  - class uk.ac.man.bioinf.sequence.alignment.EmptyGappedSequence (implements uk.ac.man.bioinf.sequence.alignment.GappedSequence)
  - class uk.ac.man.bioinf.sequence.alignment.EmptySequenceAlignment (implements uk.ac.man.bioinf.sequence.alignment.SequenceAlignment)
  - class uk.ac.man.bioinf.sequence.alignment.Gap (implements uk.ac.man.bioinf.sequence.Element)
  - class java.lang.Throwable (implements java.io.Serializable)
    - class java.lang.Exception
      - class java.lang.RuntimeException
        - class uk.ac.man.bioinf.sequence.alignment.NoGapAtThisPositionException
        - class uk.ac.man.bioinf.sequence.alignment.NoSuchSequenceException

## Interface Hierarchy

- interface uk.ac.man.bioinf.sequence.alignment.event.AlignmentEventProvider
  - interface uk.ac.man.bioinf.sequence.alignment.SequenceAlignment (also extends uk.ac.man.bioinf.sequence.identifier.Identifiable, uk.ac.man.bioinf.sequence.event.SequenceEventProvider, uk.ac.man.bioinf.sequence.event.VetoableSequenceListener)
- interface java.util.EventListener
  - interface uk.ac.man.bioinf.sequence.event.SequenceListener
    - interface uk.ac.man.bioinf.sequence.event.VetoableSequenceListener
      - interface uk.ac.man.bioinf.sequence.alignment.SequenceAlignment (also extends uk.ac.man.bioinf.sequence.alignment.event.AlignmentEventProvider, uk.ac.man.bioinf.sequence.identifier.Identifiable, uk.ac.man.bioinf.sequence.event.SequenceEventProvider)
- interface uk.ac.man.bioinf.sequence.identifier.Identifiable
  - interface uk.ac.man.bioinf.sequence.Sequence
    - interface uk.ac.man.bioinf.sequence.MutableSequence (also extends uk.ac.man.bioinf.sequence.event.SequenceEventProvider)
      - interface uk.ac.man.bioinf.sequence.alignment.GappedSequence
  - interface uk.ac.man.bioinf.sequence.alignment.SequenceAlignment (also extends uk.ac.man.bioinf.sequence.alignment.event.AlignmentEventProvider, uk.ac.man.bioinf.sequence.event.SequenceEventProvider, uk.ac.man.bioinf.sequence.event.VetoableSequenceListener)
- interface uk.ac.man.bioinf.sequence.event.SequenceEventProvider
  - interface uk.ac.man.bioinf.sequence.MutableSequence (also extends uk.ac.man.bioinf.sequence.Sequence)
    - interface uk.ac.man.bioinf.sequence.alignment.GappedSequence
  - interface uk.ac.man.bioinf.sequence.alignment.SequenceAlignment (also extends uk.ac.man.bioinf.sequence.alignment.event.AlignmentEventProvider, uk.ac.man.bioinf.sequence.identifier.Identifiable, uk.ac.man.bioinf.sequence.event.VetoableSequenceListener)

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