Separate SNP and microsatellite framework maps. Linkage maps built via the conventional method show that (A) marker order of microsatellites maps does not always correspond to the physical order on the zebra finch genome assembly (centre). However, for all four chromosomes the order of maps built with only the SNP markers (B) does agree with the zebra finch assembly order. Framework maps with marker order supported by LOD ≥ 3 are presented. Microsatellites are highlighted in red and linkage map positions are given in cM (A and B). The predicted genome assembly positions for the markers (centre) are given in Mb.