Alignment of the CP region. The alignment of the intergenic regions upstream of the lkt genes showed significant sequence and positional conservation over a 225-bp stretch immediately proximal to the transcriptional start site of the lktC gene among all Mannheimia strains (CP region), with the notable exception of the region corresponding to the repeat tract in M. haemolytica serotype A1 , which accommodated many sequence variations. Capital letters denote aligned residues. Lower-case letters are not considered to be aligned. Numbers (0–9) below the alignment reflect the relative degree of local similarity among the sequences. Previous works [18, 22, 23] allowed us to infer cis-regulatory sequences. The footprinted palindromic motifs are indicated by an over line. The repeat sequences are enclosed by a rectangle. The core promoter including the -10 hexamer, the extended TG motifs, and the transcription start site (+1) is highlighted. Mh, M. haemolytica: Mgl; M. glucosida; Mr, M. ruminalis; Mgr, M. granulomatis; Mv, M. varigena.