Figure 1.

cis-Decoder methodology for identification of conserved sequence elements shared among different enhancers. The cis-Decoder methodology allows one to discover short 6 to 14 bp sequence elements within conserved enhancer sequences that are shared by other functionally related enhancers or are common to many enhancers with divergent regulatory behaviors. These shared sequence elements or cDTs can be used to identify and differentiate between cis-regulatory enhancer regions that regulate different tissue-specific expression patterns. cis-Decoder analysis involves the sequential use of the following web-accessed computer algorithms: EvoPrinter → EvoPrint-parser → CSB-aligner → cDT-scanner → Full-enhancer scanner → cDT-cataloger.