Alignments of Japanese quail microsatellite and AFLP maps and links to the assembled chicken sequence. Left: AFLP linkage groups from ; center: integrated microsatellite and gene map (this study); right: chicken February 2004 sequence assembly . AFLP and microsatellite genetic maps are in cM and the sequence assembly is in Mb. New quail linkage groups have blue titles and new microsatellite and gene markers are in green. Genes are in boldface italic. Microsatellite markers informative in both species are in red boxes. Chicken markers have a yellow background. Quail microsatellites or genes with similarity to chicken sequence of unknown location (chrun) have a blue background. Dotted lines linking the microsatellite and the AFLP maps indicate positive results of two-point linkage between the markers, with supporting LOD scores of 3 to 6 (green), 6 to 10 (orange) or more than 10 (red).