Examples of cell cycle control. Transcription factors (ellipses) are linked by (red) edges if they appear in the same combination at p-value threshold 0.000195. The corresponding sequence motifs (rectangles) occurring in cis-regulatory descriptors with these transcription factors are also shown, and black edges indicate with which factors they belong. Green indicate known phase-specific factors, while blue indicate known phase-specific motifs. Motifs named P# are putative motifs (see Additional file 4). Thus, for instance, one sees that the forkhead proteins FKH1 and FKH2 bind to genes that have the SFF and SFF' motifs and tend to bind simultaneously.