Table 3

Analysis of cre boxes with apparent high affinity to CcpA
Gene Cre sequencea Scoreb
1 2 3 4 5 6 7 8 9 10 11 12 13 14
acoR T G A A A G C G C T T T A T 5
acsA T G A A A G C G T T A C C A 4
acuA T G A A A A C G C T T T A T 4
amyE T G T A A G C G T T A A C A 5
bglP T G A A A G C G T T G A C A 4
cccA T G T A A G C G T A T A C A 5
citM T G T A A G C G G A T T C A 4
cstA T G A A T G C G G T T A C A 4
dctP T G A A A A C G C T A T C A 5
glpF T G A C A C C G C T T T C A 5
gmuB T G T A A G C G T T T T A A 4
iolA-1 T G A A A G C G T T T A A T 3
iolA-2 T G A A A A C G T T G T C A 6
manR T G T A A A C G G T T T C T 4
msmX A G A A A G C G T T T A C A 4
rbsR T G T A A A C G G T T A C A 6
rocG T T A A A G C G C T T A C A 5
sacP C G A A A A C G C T A T C A 4
sucC T G A A A G C G C A G T C T 4
treP T G A A A A C G C T T G C A 5
uxaC T G A A A G C G T T A T C A 5
xsa T A A A A G C G C T T A C A 5
xylA T G G A A G C G C A A A C A 4
xynP T G A A A G C G C T T T T A 6
yisS A G A A A A C G C T T T C T 6
yjmD T G A A A G C G G T T C A A 4
ykoM T G C A A G G G C T T T C A 5
yrpD T G A T A G C G T T T T C T 4
ytkA T G T A A G C G T T T G C T 4
yulD T G A A A G C G C T A T C T 5
yvfK T T A A A G C G C T T T C A 6
palindrome %c 68 71 52 61 84 32 97 97 32 84 61 52 71 68 Average score = 4.6

a In bold – palindromic residues.

b Score - a number of palindromic pairs.

c Occurrence of palindromic residue at each position.

Cre boxes of repressed genes are aligned.

Marciniak et al.

Marciniak et al. BMC Genomics 2012 13:401   doi:10.1186/1471-2164-13-401

Open Data