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Table 2 Assembly of the patterns discovered in Gamma-proteobacteria.

From: Evaluation of phylogenetic footprint discovery for predicting bacterial cis-regulatory elements and revealing their evolution

Alignment

Reverse complement

Sig

act...........cag.

.ctg...........agt

24.76

act..........aca..

..tgt..........agt

24.01

actgta............

............tacagt

12.28

.ctg..........cag.

.ctg..........cag.

39.62

.ctg.........aca..

..tgt.........cag.

32.08

.ctg........tac...

...gta........cag.

24.98

.ctg...........agt

act...........cag.

24.76

.ctg.ata..........

..........tat.cag.

24.58

.ctgtat...........

...........atacag.

22.41

.ctg......tat.....

.....ata......cag.

22.01

.ctg.......ata....

....tat.......cag.

15.71

.ctg..tat.........

.........ata..cag.

13.90

.ctg...ata........

........tat...cag.

12.79

..tgt.........cag.

.ctg.........aca..

32.08

..tgt..........agt

act..........aca..

24.01

..tgt........aca..

..tgt........aca..

22.22

..tgtata..........

..........tataca..

19.79

..tgt.......tac...

...gta.......aca..

15.66

..tgt.tat.........

.........ata.aca..

15.32

..tgt..ata........

........tat..aca..

11.04

..tgt......ata....

....tat......aca..

10.97

...gta........cag.

.ctg........tac...

24.98

...gta.......aca..

..tgt.......tac...

15.66

...gtatat.........

.........atatac...

12.67

....tat.......cag.

.ctg.......ata....

15.71

....tat......aca..

..tgt......ata....

10.97

actg tatatatatacag t

actg tatatatatacag t

best consensus

  1. The selected dyads (sig ≥ 10) can be aligned on the most significant one (CTGn10CAG). The "best" consensus of the alignment, obtained by retaining the highest scoring letter at each position, is ACTGTATATATATACAGT.