diff --git a/protected/java/src/org/broadinstitute/sting/gatk/walkers/diagnostics/targets/CallableStatus.java b/protected/java/src/org/broadinstitute/sting/gatk/walkers/diagnostics/targets/CallableStatus.java
index 4bc318b02..959c002ad 100644
--- a/protected/java/src/org/broadinstitute/sting/gatk/walkers/diagnostics/targets/CallableStatus.java
+++ b/protected/java/src/org/broadinstitute/sting/gatk/walkers/diagnostics/targets/CallableStatus.java
@@ -54,8 +54,6 @@ package org.broadinstitute.sting.gatk.walkers.diagnostics.targets;
  */
 public enum CallableStatus {
 
-    REF_N("the reference base was an N, which is not considered callable the GATK"),
-
     PASS("the base satisfied the min. depth for calling but had less than maxDepth to avoid having EXCESSIVE_COVERAGE"),
 
     COVERAGE_GAPS("absolutely no coverage was observed at a locus, regardless of the filtering parameters"),
diff --git a/protected/java/src/org/broadinstitute/sting/gatk/walkers/diagnostics/targets/IntervalStatistics.java b/protected/java/src/org/broadinstitute/sting/gatk/walkers/diagnostics/targets/IntervalStatistics.java
index 0a6b73dae..4fd9a20ef 100644
--- a/protected/java/src/org/broadinstitute/sting/gatk/walkers/diagnostics/targets/IntervalStatistics.java
+++ b/protected/java/src/org/broadinstitute/sting/gatk/walkers/diagnostics/targets/IntervalStatistics.java
@@ -154,9 +154,6 @@ class IntervalStatistics {
                 output.add(status);
         }
 
-        if (hasNref)
-            output.add(CallableStatus.REF_N);
-
         // get median DP of each sample
         final double minMedianDepth = thresholds.getLowMedianDepthThreshold() * samples.size();
         final int nSamples = samples.size();
diff --git a/protected/java/src/org/broadinstitute/sting/gatk/walkers/diagnostics/targets/SampleStatistics.java b/protected/java/src/org/broadinstitute/sting/gatk/walkers/diagnostics/targets/SampleStatistics.java
index 9efdbefe1..051369b94 100644
--- a/protected/java/src/org/broadinstitute/sting/gatk/walkers/diagnostics/targets/SampleStatistics.java
+++ b/protected/java/src/org/broadinstitute/sting/gatk/walkers/diagnostics/targets/SampleStatistics.java
@@ -139,10 +139,6 @@ class SampleStatistics {
         if ((totals.get(CallableStatus.POOR_QUALITY) / intervalSize) >= thresholds.getQualityStatusThreshold())
             output.add(CallableStatus.POOR_QUALITY);
 
-        if (totals.get(CallableStatus.REF_N) > 0)
-            output.add(CallableStatus.REF_N);
-
-
         if (output.isEmpty()) {
             output.add(CallableStatus.PASS);
         }
diff --git a/protected/java/test/org/broadinstitute/sting/gatk/walkers/diagnostics/targets/DiagnoseTargetsIntegrationTest.java b/protected/java/test/org/broadinstitute/sting/gatk/walkers/diagnostics/targets/DiagnoseTargetsIntegrationTest.java
index a9330f2dd..a435a33ad 100644
--- a/protected/java/test/org/broadinstitute/sting/gatk/walkers/diagnostics/targets/DiagnoseTargetsIntegrationTest.java
+++ b/protected/java/test/org/broadinstitute/sting/gatk/walkers/diagnostics/targets/DiagnoseTargetsIntegrationTest.java
@@ -66,11 +66,11 @@ public class DiagnoseTargetsIntegrationTest extends WalkerTest {
 
     @Test(enabled = true)
     public void testSingleSample() {
-        DTTest("testSingleSample ", "-I " + singleSample + " -max 75", "bd614643284a849724bf8ee6bc4df8bf");
+        DTTest("testSingleSample ", "-I " + singleSample + " -max 75", "3d558ec8828c269774ee45e5df086a5f");
     }
 
     @Test(enabled = true)
     public void testMultiSample() {
-        DTTest("testMultiSample ", "-I " + multiSample, "145f5d4641abfdeadbc59ee74ce1560f");
+        DTTest("testMultiSample ", "-I " + multiSample, "d40cf1f1daf68f2740cd411e2cf361fc");
     }
 }