Figure 6

The positions found by Consensus/Patser. If Consensus is run to find an alignment within the 400+50 regions, the resulting matrix finds sites within each region (indicated here by the sites labeled 'matrix') that do not always match the binding sites for the relevant regulatory protein (AraC in the case illustrated here), but are very specific to the gene family. The sequence found does not correspond to known binding sites for other regulatory proteins (for example CRP) within the regions nor to the promoter.