+ /**
+ * this is a temporary value - designed to store the position in sequence that
+ * this atom corresponds to after aligning the chain to a SequenceI object. Do
+ * not rely on its value being correct when visualizing sequence colourings on
+ * the structure - use the StructureSelectionManager's mapping instead.
+ */
+ public int alignmentMapping = -1;
+
+ public int atomIndex;
+
+ public float occupancy = 0;
+
+ public float tfactor = 0;
+
+ // need these if we ever want to export Atom data
+ // public boolean tfacset=true,occset=true;