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diff --git a/examples/mck3test.mupa b/examples/mck3test.mupa
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+# name of anaylsis directory and stem for associated files
+ANA_NAME mck3test
+
+# if APPEND vars true, a _wXX and/or _tYY added to analysis name
+# where XX = WINDOW and YY = THRESHOLD
+# Highly recommeded with use of command line override of WINDOW or THRESHOLD
+APPEND_WIN true
+APPEND_THRES true
+  
+# how many sequences are being analyzed
+SEQUENCE_NUM 3
+
+# first sequence info
+SEQUENCE seq/mouse_mck_pro.fa
+# ANNOTATION test.annot
+SEQ_START 600
+
+# the second sequence info
+SEQUENCE seq/human_mck_pro.fa
+# ANNOTATION test.annot
+SEQ_START 600
+# SEQ_END 2400
+
+# third sequence info
+SEQUENCE seq/rabbit_mck_pro.fa
+# ANNOTATION test.annot
+
+# analyses parameters: command line args -w -t will override these
+WINDOW 30
+THRESHOLD 20