Table 1

Representation of an example TFBS. Two sequence-based representations of the same TFBS, a consensus sequence and a position specific scoring matrix (PSSM). The example used here is the binding site of the early growth response protein 1 (EGR-1, Zif268), which is a zinc finger protein.
CONSENSUS
 T
 G
 C
 G
 T
 G
 G
 G
 C
 G
POSITION
 1
 2
 3
 4
 5
 6
 7
 8
 9
 10
SCORING MATRIX
 A
 5
 7
 0
 2
 0
 31
 0
 0
 13
 0

C
 3
 0
 98
 0
 2
 0
 0
 0
 76
 0

G
 5
 93
 0
 98
 14
 69
 100
 100
 0
 100

T
 87
 0
 2
 0
 84
 0
 0
 0
 11
 0

Höglund and Kohlbacher Proteome Science 2004 2:3   doi:10.1186/1477-5956-2-3