diff --git a/src/main/org/openscience/cdk/signature/AtomSignature.java b/src/main/org/openscience/cdk/signature/AtomSignature.java
index eed84f3d2c5..3a43e9a43fa 100644
--- a/src/main/org/openscience/cdk/signature/AtomSignature.java
+++ b/src/main/org/openscience/cdk/signature/AtomSignature.java
@@ -90,9 +90,9 @@ public int[] getConnected(int vertexIndex) {
         IAtom atom  = this.molecule.getAtom(vertexIndex);
         List<IAtom> connected = this.molecule.getConnectedAtomsList(atom);
         int[] connectedIndices = new int[connected.size()];
-        int i = 0;
+        int indexCounter = 0;
         for (IAtom otherAtom : connected) {
-            connectedIndices[i++] = this.molecule.getAtomNumber(otherAtom);
+            connectedIndices[indexCounter++] = this.molecule.getAtomNumber(otherAtom);
         }
         return connectedIndices;
     }
diff --git a/src/main/org/openscience/cdk/signature/Orbit.java b/src/main/org/openscience/cdk/signature/Orbit.java
index 28ec6b37805..227fbeb24b3 100644
--- a/src/main/org/openscience/cdk/signature/Orbit.java
+++ b/src/main/org/openscience/cdk/signature/Orbit.java
@@ -79,11 +79,11 @@ public Iterator<Integer> iterator() {
      */
     @TestMethod("testClone")
     public Object clone() {
-        Orbit o = new Orbit(this.label, this.height);
+        Orbit orbit = new Orbit(this.label, this.height);
         for (Integer i : this.atomIndices) {
-            o.atomIndices.add(new Integer(i));
+            orbit.atomIndices.add(Integer.valueOf(i));
         }
-        return o;
+        return orbit;
     }
     
     /**
diff --git a/src/main/org/openscience/cdk/signature/SignatureQuotientGraph.java b/src/main/org/openscience/cdk/signature/SignatureQuotientGraph.java
index 8dc872f9991..9173d4d833b 100644
--- a/src/main/org/openscience/cdk/signature/SignatureQuotientGraph.java
+++ b/src/main/org/openscience/cdk/signature/SignatureQuotientGraph.java
@@ -77,10 +77,10 @@ public SignatureQuotientGraph(IAtomContainer atomContainer, int height) {
      * @see signature.AbstractQuotientGraph#isConnected(int, int)
      */
     @Override
-    public boolean isConnected(int i, int j) {
-        IAtom a = atomContainer.getAtom(i);
-        IAtom b = atomContainer.getAtom(j);
-        return atomContainer.getBond(a, b) != null;
+    public boolean isConnected(int index1, int index2) {
+        IAtom atom1 = atomContainer.getAtom(index1);
+        IAtom atom2 = atomContainer.getAtom(index2);
+        return atomContainer.getBond(atom1, atom2) != null;
     }
 
 }