diff --git a/java/src/org/broadinstitute/sting/gatk/refdata/SimpleIndelROD.java b/java/src/org/broadinstitute/sting/gatk/refdata/SimpleIndelROD.java index 6cb8c7cda..020c9f39b 100755 --- a/java/src/org/broadinstitute/sting/gatk/refdata/SimpleIndelROD.java +++ b/java/src/org/broadinstitute/sting/gatk/refdata/SimpleIndelROD.java @@ -37,7 +37,9 @@ public class SimpleIndelROD extends TabularROD implements Genotype { public String toString() { StringBuffer sb = new StringBuffer(); - sb.append(getLocation() + "\t" + getFWDAlleles().get(0)); + sb.append(getLocation().getContig() + "\t" + getLocation().getStart() + "\t"); + String indel = getFWDAlleles().get(0); + sb.append((indel.length()-1) + "\t" + (isInsertion() ? "I" : "D") + "\t" + indel.substring(1)); return sb.toString(); } } \ No newline at end of file