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27 predicted gene-regulatory regions in the  Drosophila melanogaster  genome were analyzed  in vivo , confirming 15 active enhancer regions. A comparison with  Drosophila pseudoobscura  sequences revealed that conservation of binding-site clusters accurately discriminates functional regions from non-functional ones.

genomebiology.com

Computational identification of developmental enhancers: conservation and function of transcription factor binding-site clusters in Drosophila melanogaster and Drosophila pseudoobscura.