diff --git a/src/ecoprimer.c b/src/ecoprimer.c
index 98e4f76..e8d7ff3 100644
--- a/src/ecoprimer.c
+++ b/src/ecoprimer.c
@@ -160,6 +160,10 @@ void printapair(int32_t index,ppair_t pair, poptions_t options)
 	bool_t good1=pair->p1->good;
 	bool_t good2=pair->p2->good;
 	bool_t goodtmp;
+	bool_t strand;
+	uint32_t i;
+
+	char *c;
 
 	if (!asdirect1)
 		w1=ecoComplementWord(w1,options->primer_length);
@@ -211,9 +215,9 @@ void printapair(int32_t index,ppair_t pair, poptions_t options)
 	if (options->refseq && pair->refsequence >=0)
 	{
 		printf("\t%s:",options->reference);
+		strand = pair->pcr.amplifias[pair->refsequence].strand;
 
-
-		if (pair->pcr.amplifias[pair->refsequence].strand)
+		if (strand)
 			printf("join(");
 		else
 			printf("complement(");
@@ -226,6 +230,14 @@ void printapair(int32_t index,ppair_t pair, poptions_t options)
 		printf(")");
 		printf("\t");
 
+		for (c=pair->pcr.amplifias[pair->refsequence].amplifia,
+		     i=pair->pcr.amplifias[pair->refsequence].begin;
+			 i<=pair->pcr.amplifias[pair->refsequence].end;
+			 i++,
+			 c+=(strand)? 1:-1)
+			printf("%c","acgt"[(strand)? (*c):(~*c)&3]);
+
+
 	}
 
 	printf("\n");