code: public static LinearGapAlignmentScoring<AminoAcidSequence> getAminoAcidBLASTScoring(BLASTMatrix matrix, int gapPenalty) {
          return new LinearGapAlignmentScoring<>(AminoAcidSequence.ALPHABET,
                  matrix.getMatrix(),
                  gapPenalty);
      }
docs: Returns standard amino acid BLAST scoring
  
  @param matrix     BLAST substitution matrix
  @param gapPenalty penalty for gap, must be < 0
  @return standard amino acid BLAST scoring