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Variant annotation and effect prediction package.

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package org.snpeff.binseq.comparator;

import org.snpeff.binseq.BinarySequence;

/**
 * Compare two subsequences (actually it compares two sequences from different starting points) 
 * 
 * @author pcingola
 *
 * @param 
 */
public abstract class SubsequenceComparator {

	public abstract int compare(T seq1, int start1, T seq2, int start2);

	public abstract int score(T seq1, int start1, T seq2, int start2);
}