org.utgenome.util.aligner
Class SmithWatermanAligner.Alignment

java.lang.Object
  org.utgenome.util.aligner.SmithWatermanAligner.Alignment

Enclosing class:

SmithWatermanAligner

public static class SmithWatermanAligner.Alignment
extends Object

Field Summary

String	cigar
int	pos
String	qseq
String	rseq
int	score

Constructor Summary

SmithWatermanAligner.Alignment(String cigar, int score, String rseq, int pos, String qseq)

Method Summary

Methods inherited from class java.lang.Object

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

Field Detail

cigar

public final String cigar

score

public final int score

pos

public final int pos

rseq

public final String rseq

qseq

public final String qseq

Constructor Detail

SmithWatermanAligner.Alignment

public SmithWatermanAligner.Alignment(String cigar,
                                      int score,
                                      String rseq,
                                      int pos,
                                      String qseq)