Table 4  Motifs identified with use of phylogenetic information. Listing of motifs and details of their host sequences for phylogenetic motif finding. All datasets tested are from [9]. DNA region details the DNA regions considered (PR signifies promoter region). # Seq. gives the number of input sequences. Motif (id) identifies the consensus sequence of the discovered motif and its correspondence with the motifs of [9] where applicable. All listed motifs have been documented as regulatory elements in TRANSFAC [45]. For datasets other than the insulin dataset, only the best motif is reported and for the insulin dataset multiple motifs are reported in order of discovery.
DNA region  # Seq.   Motif (id)
Growth-horm. 5' UTR + PR (380 bp)  16  TATAAAAA (7)
Histone H1 5' UTR + PR (650 bp)  4  AAACAAAAGT (2)
C-fos 5' UTR + PR (800 bp)  6  CCATATTAGG
C-fos first intron (376 to 758 bp)  7  AGGGATATTT (3)
Interleukin-3 5' UTR + PR (490 bp)  6  TGGAGGTTCC (3)
C-myc second intron (971 to 1376 bp)  6  TTTGCAGCTA (5)
C-myc 5' PR (1000 bp)  7  GCCCCTCCCG
Insulin family 5' PR (500 bp)  8  GCCATCTGCC (2)TAAGACTCTA (1)CTATAAAGCC (3)CAGGGAAATG (4)