+ * Returns the colour used for hidden regions
+ *
+ * @return
+ */
+ public Color getHiddenColour()
+ {
+ return hiddenColour;
+ }
+
+ /**
+ * Returns the colour used for gaps, if not overridden by the alignment colour
+ * scheme
+ *
+ * @return
+ */
+ public Color getGapColour()
+ {
+ return gapColour;
+ }
+
+ /**
+ * Returns the colour used for residues (before applying any feature
+ * colouring) if there is no alignment colour scheme