diff --git a/src/main/groovy/com/milaboratory/migec/Assemble.groovy b/src/main/groovy/com/milaboratory/migec/Assemble.groovy
index 661482d..1e13505 100644
--- a/src/main/groovy/com/milaboratory/migec/Assemble.groovy
+++ b/src/main/groovy/com/milaboratory/migec/Assemble.groovy
@@ -503,17 +503,17 @@ GParsPool.withPool THREADS, {
             }
         } else {
             if (noCollision) {
-                counts.eachWithIndex { int count, int i ->
-                    nCollisionMigs[i].incrementAndGet()
-                    nCollisionReads[i].addAndGet(count)
-                }
-            } else {
                 counts.eachWithIndex { int count, int i ->
                     if (count < minMigSize) {
                         nOverseqMigs[i].incrementAndGet()
                         nOverseqReads[i].addAndGet(count)
                     }
                 }
+            } else {
+                counts.eachWithIndex { int count, int i ->
+                    nCollisionMigs[i].incrementAndGet()
+                    nCollisionReads[i].addAndGet(count)
+                }
             }
         }