- sqnum[j] = ((Integer) jalview.schemes.ResidueProperties.aaHash.get(new String(\r
- sq.substring(j - 1, j)))).intValue(); // yuk\r
+ sqnum[j] = ((Integer) jalview.schemes.ResidueProperties.aaHash.get(Character.toString(\r
+ sq.charAt(j - 1)))).intValue(); // yuk - JBPNote - case taken care of in aaHash\r