Figure 3.

Illustrations for mutation degree model and OCW method. (A) Illustration of the mutation degree model. The phylogenetic promoter sequences of Gene#1, Gene#2 and Gene#3 etc. are highlighted in light blue. Mutation degrees between the promoter of species1 and its phylogenetic related promoters are denoted as a₁%, b₁%, etc. The data in the result column is only for demonstration. The co-expressed gene set highlighted in lavender belongs to Species1. (B) Flow chart of OCW. Step 1: All oligo-nucleotides presented in co-expressed genes are enumerated; Step 2: Fisher's exact test of the over-representation significance of the enumerated oligo-nucleotides; Step 3: Calculation of the conservation score of the elements resulted from step 2, the elements with S>1 are reported; Step 4: Reporting functional elements that meet the criteria assigned by user.