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Table 3 Information weight matrix used to search for metboxes

From: The MetJ regulon in gammaproteobacteria determined by comparative genomics methods

  Count1 Riw (bits per base)2
  1 (8) 2 (7) 3 (6) 4 (5) 1 (8) 2 (7) 3 (6) 4 (5)
A 634 156 721 37 1.61 -0.42 1.79 -2.49
C 6 25 84 573 -5.12 -3.06 -1.31 1.46
G 135 560 27 4 -0.62 1.43 -2.95 -5.70
T 57 91 0 > 13 218 -1.87 -1.19 -7.70 0.07
  1. 1 This refers to the number of times each base occurred at each position in the (symmetrized) metbox. The frequency used in Equation 1 is the count divided by the total number of half-metboxes: 832. The consensus sequence is highlighted in bold.
  2. 2 Riw is the information content for each base at each position calculated using Equation 1. The consensus sequence is highlighted in bold.
  3. 3 The occurrence of T (A) at position 3 (6) was zero, so this was changed to 1 to allow the log to be taken.