--- bowtie-0.12.7/alphabet.h	2009-11-24 20:53:52.000000000 +0000
+++ bowtie-0.12.7.new/alphabet.h	2012-01-09 10:53:09.902974406 +0000
@@ -38,6 +38,18 @@
 	return s_rc;
 }
 
+/// Reverse a string in-place
+template <typename TStr>
+static inline void reverseInPlace(TStr& s) {
+	typedef typename Value<TStr>::Type TVal;
+	size_t len = length(s);
+	for(size_t i = 0; i < (len>>1); i++) {
+		TVal tmp = s[i];
+		s[i] = s[len-i-1];
+		s[len-i-1] = tmp;
+	}
+}
+
 /**
  * Reverse-complement s in-place.  Ns go to Ns.
  */
@@ -69,17 +81,6 @@
 	}
 }
 
-/// Reverse a string in-place
-template <typename TStr>
-static inline void reverseInPlace(TStr& s) {
-	typedef typename Value<TStr>::Type TVal;
-	size_t len = length(s);
-	for(size_t i = 0; i < (len>>1); i++) {
-		TVal tmp = s[i];
-		s[i] = s[len-i-1];
-		s[len-i-1] = tmp;
-	}
-}
 
 /**
  * Return the reverse-complement of s.