ur_rna.StructureEditor.models

Class Motif.Domain

java.lang.Object

ur_rna.StructureEditor.models.Motif.Segment

ur_rna.StructureEditor.models.Motif.Domain

All Implemented Interfaces:

java.lang.Iterable<Nuc>, IMotif, INucGroup

Enclosing class:

Motif

public static class Motif.Domain
extends Motif.Segment
implements IMotif

Represents a segment of an RNA strand that extends from a nucleotide to its pair.

Field Summary

Fields inherited from class ur_rna.StructureEditor.models.Motif.Segment

end, start

Constructor Summary

Constructors

Constructor and Description
Domain()
Domain(Bond b)
Domain(Nuc n)

Method Summary

Modifier and Type	Method and Description
static Motif.Domain	getDomain(Nuc nuc) Gets the domain that starts at the specified nucleotide (and ends with its paired nucleotide) or null if the nucleotide is unpaired or is paired with a nucleotide on a different strand.
private static Nuc	validatePair(Nuc n)

Methods inherited from class ur_rna.StructureEditor.models.Motif.Segment

getBases, getNuc3, getNuc5, getNucAt, orderNucs, size, swapNucs

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Methods inherited from interface ur_rna.StructureEditor.models.INucGroup

getBases, iterator, transformAll

Methods inherited from interface java.lang.Iterable

forEach, spliterator

Constructor Detail

Domain

public Domain()

Domain

public Domain(Bond b)

Domain

public Domain(Nuc n)

Method Detail

getDomain

public static Motif.Domain getDomain(Nuc nuc)

Gets the domain that starts at the specified nucleotide (and ends with its paired nucleotide) or null if the nucleotide is unpaired or is paired with a nucleotide on a different strand.

validatePair

private static Nuc validatePair(Nuc n)