de.unibi.techfak.InSilicoDicer.OperatingPackage.SearchMethods.SearchBySequence
Interface ILocalAlign

All Known Implementing Classes:

SWalign

public interface ILocalAlign

Author:

Sylvia

Method Summary

int	align(int inDELscore, int rpSCORE, int matchSCORE, java.lang.String searchSeq, java.lang.String dbSeq) Executes a Local Alignment Action where searchSeq is the Nuleotide Sequence to align with all possible Precursor Sequences (dbSeq) in the miRNAdatabase

Method Detail

align

int align(int inDELscore,
          int rpSCORE,
          int matchSCORE,
          java.lang.String searchSeq,
          java.lang.String dbSeq)

Executes a Local Alignment Action where searchSeq is the Nuleotide Sequence to align with all possible Precursor Sequences (dbSeq) in the miRNAdatabase

Parameters:

inDELscore -

rpSCORE -

matchSCORE -

searchSeq -

dbSeq -

Returns:

The similarity of two precursor sequences.