Detailed description of the data files is available from the readme file (updated 22 April 2014). All files listed below are based on Mt4.0v1 reference genome and Mt4.0v1 annotation. Both are available from JCVI's Medicago truncatula download page. A comparison of a small region was also performed and is also available for download. Please contact us if you would like to obtain M. truncatula hapmap data that is not listed below.