code: public int getCoverage1(){
  		if ( myResultsSimilarity1 < 0 ) {
  			int distance = ca1Length + ca2Length - 2 * getNrEQR();
  
  			int similarity = (ca1Length + ca2Length - distance ) / 2;
  
  			myResultsSimilarity1 = Math.round(similarity /(float) ca1Length * 100);
  		}
  		return myResultsSimilarity1;
  	}
docs: Get the coverage of protein 1 with the alignment
  
  @return percentage of coverage, between 0 and 100.