Examples of recombination within trmD and wsp. Only polymorphic sites are shown (position in alignment is given on top). Sequences are named by their sample code (Additional file 1) and abbreviated host species name (see legend Figure 2). Each sequence may have been found in different populations or host species, see phylogenies of trmD and wsp in Additional file 3. Different shadings indicate possible recombinant regions (see results). Differences and identities (dots) compared to the middle sequence are shown. * = also detected in BspI, BK-A, BK-C, and BP. ^ = also detected in BR.