diff --git a/public/java/test/org/broadinstitute/sting/gatk/walkers/genotyper/UnifiedGenotyperIntegrationTest.java b/public/java/test/org/broadinstitute/sting/gatk/walkers/genotyper/UnifiedGenotyperIntegrationTest.java
index cfb0d11a1..65dc594ff 100755
--- a/public/java/test/org/broadinstitute/sting/gatk/walkers/genotyper/UnifiedGenotyperIntegrationTest.java
+++ b/public/java/test/org/broadinstitute/sting/gatk/walkers/genotyper/UnifiedGenotyperIntegrationTest.java
@@ -313,6 +313,16 @@ public class UnifiedGenotyperIntegrationTest extends WalkerTest {
         executeTest("test MultiSample Phase1 indels with complicated records", spec4);
     }
 
+    @Test
+    public void testWithIndelAllelesPassedIn5() {
+        final String vcf = "small.indel.test.vcf";
+        WalkerTest.WalkerTestSpec spec4 = new WalkerTest.WalkerTestSpec(
+                baseCommandIndelsb37 + " --genotyping_mode GENOTYPE_GIVEN_ALLELES -out_mode EMIT_ALL_SITES -alleles " + validationDataLocation + vcf + " -I " + validationDataLocation +
+                        "NA12878.HiSeq.WGS.bwa.cleaned.recal.hg19.20.bam -o %s -L " + validationDataLocation + vcf, 1,
+                Arrays.asList("7d069596597aee5e0d562964036141eb"));
+        executeTest("test GENOTYPE_GIVEN_ALLELES with no evidence in reads", spec4);
+    }
+
     @Test
     public void testSnpEffAnnotationRequestedWithoutRodBinding() {
         WalkerTest.WalkerTestSpec spec = new WalkerTest.WalkerTestSpec(