- int c = 0,\r
- max_aa=0,\r
- n=max.length();\r
- do {\r
- c+=ResidueProperties.getBLOSUM62(max.substring(max_aa, max_aa+1), s);\r
- } while (++max_aa<n);\r
+ if (!jalview.util.Comparison.isGap(res))\r
+ {\r
+ String max = (String) consensus[j].get(AAFrequency.MAXRESIDUE);\r
+\r
+ if (max.indexOf(res) > -1)\r
+ {\r
+ currentColour = new Color(154, 154, 255);\r
+ }\r
+ else\r
+ {\r
+ int c = 0;\r
+ int max_aa = 0;\r
+ int n = max.length();\r