Additional file 4.
Figure S1. Nucleotide sequences of the predicted ctRNA coding strands. The counter-transcripts were first identified by analogy with those of pMV158 or its derivative pLS1. These ctRNA overlap the rep gene start and have a length of only a few tens of nucleotides. Using the consensus sequence TTGACA – (N17) –TG-N-TATAAT for the promoter, putative promoters were identified in the aligned sequences. Putative Pct promoters are indicated with the -35 and -10 regions in bold and underlined letters. Arrows indicate inverted repeats of the putative rho independent terminators. The ctRNA of pLS1 (rnaII) is shown as proposed by del Solar et al.  with an arrowhead indicating the possible transcriptional initiation site. The box CAT indicates the initiation codon of the rep gene that is encoded on the complementary DNA strand.
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Breton et al. BMC Microbiology 2012 12:257 doi:10.1186/1471-2180-12-257