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diff --git a/dundee-conf/settings/MusclePresets.xml b/dundee-conf/settings/MusclePresets.xml
deleted file mode 100644
index 190adad..0000000
--- a/dundee-conf/settings/MusclePresets.xml
+++ /dev/null
@@ -1,31 +0,0 @@
-<?xml version="1.0" encoding="US-ASCII" standalone="yes"?>
-<presets>
-	<runnerClassName>compbio.runner.muscle.Muscle</runnerClassName>
-	<preset>
-		<name>Protein alignment(Fastest speed)</name>
-		<description>Fastest possible speed for protein sequences. Gives acceptable quality alignments for closely related sequences</description>
-		<optlist>
-			<option>-maxiters 1</option>
-			<option>-diags</option>
-			<option>-sv</option>
-			<option>-distance1 kbit20_3</option>
-		</optlist>
-	</preset>
-	<preset>
-		<name>Nucleotide alignment(Fastest speed)</name>
-		<description>Fastest possible speed for nucleotide sequences. Gives acceptable quality alignments for closely related sequences</description>
-		<optlist>
-			<option>-maxiters 1</option>
-			<option>-diags</option>
-		</optlist>
-	</preset>
-	<preset>
-		<name>Huge alignments (speed-oriented)</name>
-		<description>Very large number of sequences (several thousand), or they are very long, </description>
-		<optlist>
-			<option>-maxiters 1</option>
-			<option>-diags1</option>
-			<option>-sv</option>
-		</optlist>
-	</preset>
-</presets>