diff --git a/src/ecopcr2new.py b/src/ecopcr2new.py
index 6320178..2a030f5 100644
--- a/src/ecopcr2new.py
+++ b/src/ecopcr2new.py
@@ -35,6 +35,8 @@ if __name__ == '__main__':
         print line.strip()
         line = entries.next()
         
+    primer1=primer1.replace("#","")
+    primer2=primer2.replace("#","")
 
     print "# optimal Tm for primers 1 : %5.2f" % calcSelfTM(primer1)
     print "# optimal Tm for primers 2 : %5.2f" % calcSelfTM(primer2)