Multiple sequence alignments of a representative Chlamydiales-specific protein CT429 (A), and a Chlamydiaceae-specific protein CT712 (B). Both of these proteins are of unknown function and they are uniquely found in the indicated groups of species. The sequence alignments for all available homologs for these proteins are shown. Dashes (-) in the alignments indicate identity with the amino acid on the top line (i.e. Chl. trachomatis sequence). Both these proteins contain many highly conserved regions suitable for PCR primer design that can be used for diagnostic purposes.