A fundamental task in the development of organisms is the regulation of the differential expression of thousands of genes. A network is established by interconnected cis-regulatory modules that regulate gene expression . Time series data of gene expression following cell perturbations can be used to reconstruct gene regulatory networks . Gene regulatory networks consist of an overrepresentation of subgraphs, commonly known as network motifs. The ubiquitous parameter of gene copy number can substantially influence the dynamic function of network motifs. The nonlinear nature of transcriptional feedback, which involves the interaction of repeated motifs through a common pool of transcription factors, is the cause of all qualitative variations in expression . The copy number threshold that results in a qualitative change in the system's behavior can be implicitly determined .