Sequence distance graph of TA-PLMs present in A. thaliana promoters. The TATA-box PLM sequence (first column), TATAΔ1-PLM sequences (second column) and TATAΔ2-PLM sequences (third column) are organized in an oriented graph. In red the motifs observed in more than 350 promoters; in orange the motifs observed in more than 200 promoters and in black the motifs observed in up to 200 sequences. Each edge between two PLMs reflects the presence of one substitution leading from one PLM to another one. Numbers of A. thaliana promoters containing a given motif are indicated above the sequences. The TATAWA motifs are seeds (in bold).
Bernard et al. BMC Genomics 2010 11:166 doi:10.1186/1471-2164-11-166