The command-line interface requires a special input file called a <a href="MEGA_Analysis_Options_File.htm">MEGA 
 Analysis Options</a> (.mao) file which specifies the analysis to run as 
 well as the analysis options to use. This .mao file can only be created 
 by using the GUI interface. This example will show how to generate a .mao 
 file with the graphical interface and then use that file to analyze a 
 data set with MEGA-CC.</p>
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