code: public static String getMaxMatchFragment(String seq1, String seq2) throws NotationException {
  		return getMaxMatchFragment(seq1, seq2, MINUMUM_MATCH_FRAGMENT_LENGTH);
  	}
docs: method to get the largest matched fragment between two sequences, replace
  T with U before Match
  
  @param seq1
  single letter, all upper case nucleotide sequence
  @param seq2
  single letter, all upper case nucleotide sequence
  @return maximal match fragment of seq1 and seq2
  @throws NotationException
  if the notation is not valid