Multiple sequence alignments of the 5' end and upstream regions of selected Cpn 1054 family members. Three genes have been left out of this figure (Cpn 007, 124, 126) because they lack significant sequence identity at the 5' end. All data were obtained from the CWL029 genome sequence . The designation for each sequence includes the gene number of the 1054 family member and the gene directly upstream. The position in the genomic contig is also indicated for each sequence. Where appropriate, the predicted stop codon of upstream genes (Cpn 009, 042, 044, 1054; red boxes) is indicated. Two regions encompassing candidate start codons for each gene are indicated with green boxes. In some cases this includes the codon GTG as a candidate translational start site, as predicted through the Chlamydia Genome Website. PolyC tracts, boxed in blue, are upstream of the predicted start site or are within the gene near the 5' end of coding region.