FIG 4 .
Nucleotide alignments of the predicted oriT regions from cst-like loci of the clostridia. Multiple-sequence alignments performed using Clustal Omega. The motifs associated with the oriT regions of MobMG relaxase-encoding plasmids are annotated on the alignment with lines/arrows above and highlighting of individual sequences with different colors as follows: gray, highly conserved core (predicted to contain the relaxase nick site [35]); yellow, inverted repeat 1 (IR1); red, IR2; blue, IR3. (A) The predicted oriT regions from unique pCS1 family plasmids, as well as those of pCLL and pCP13, were compared to the oriT of well-characterized MobMG relaxase-encoding plasmid pWBG745. (B) The predicted oriT regions of cst-like loci identified within the genome sequence of C. difficile (Cd) strains 20110869, P49, and 133 compared with that of pCS1-1. An additional IR, IR4, is annotated above the alignment with inverse arrows and highlighting of individual sequences in green.