diff --git a/java/src/org/broadinstitute/sting/gatk/walkers/varianteval/IndelStatistics.java b/java/src/org/broadinstitute/sting/gatk/walkers/varianteval/IndelStatistics.java index 34f0732da..12142bf96 100755 --- a/java/src/org/broadinstitute/sting/gatk/walkers/varianteval/IndelStatistics.java +++ b/java/src/org/broadinstitute/sting/gatk/walkers/varianteval/IndelStatistics.java @@ -337,7 +337,7 @@ public class IndelStatistics extends VariantEvaluator { // See first if indel is a repetition of bases before current - int indStart = refBases.length/2-eventLength; + int indStart = refBases.length/2-eventLength+1; boolean done = false; int numRepetitions = 0; @@ -359,7 +359,7 @@ public class IndelStatistics extends VariantEvaluator { // now do it forward done = false; - indStart = refBases.length/2; + indStart = refBases.length/2+1; while (!done) { if (indStart + eventLength >= refBases.length) break;