A comparison of the relative positions of the unique genes in the two genomes was compiled by database comparison of the genomes using BLAST2. These genes had no significant similarity to genes in the compared genome, using an E-value threshold of 0.001. The blue line indicates the 5' to 3' direction. The purple line is directed 3' to 5'. The C.pneumoniae genome is located above that of C.trachomatis. Genes are represented by small green boxes that are positioned at the start coordinate. This is a static map with no connection to our databases.