diff --git a/align.c b/align.c
index b84e361..fadca83 100644
--- a/align.c
+++ b/align.c
@@ -308,7 +308,7 @@ mm_reg1_t *mm_align_skeleton(void *km, const mm_mapopt_t *opt, const mm_idx_t *m
 		else if (i < r) regs[i++] = regs[r]; // NB: this also move the regs[r].p pointer
 		else ++i;
 	}
-	*n_regs_ = n_regs;
+	*n_regs_ = i;
 	mm_sync_regs(km, n_regs, regs);
 	return regs;
 }
diff --git a/main.c b/main.c
index 0eb49a7..5ec694c 100644
--- a/main.c
+++ b/main.c
@@ -10,7 +10,7 @@
 #include "minimap.h"
 #include "mmpriv.h"
 
-#define MM_VERSION "2.0-r109-pre"
+#define MM_VERSION "2.0-r110-pre"
 
 void liftrlimit()
 {