Whole genome comparison of assembled/concatenated contigs of four genomes.

Two COPD strains (6P18H1 and 7P49H1) and two throat strains (22-1.21, 22-4.21) were sequence using 454FLX pyrosequencing and aligned for comparison using Mauve [38]. Regions with bars colored in mauve indicate shared sequences among four strains and regions with bars in other colors indicate sequences not shared in at least one strain. The height of the bar corresponds to average level of conservation in that region of the genome sequence. Areas that are completely white were not aligned and probably contain sequence elements specific to a particular genome. When bars lie above the center line the aligned region is in the forward orientation relative to the first genome sequence. Bars below the center line indicate regions that align in the reverse complement (inverse) orientation. The vertical red lines across center line indicate the boundary of the contigs. The stars indicated approximate positions of identified COPD specific genetic islands based on 6P18H1 genome.