Structure of detected Tandem Arrays. An abstract representation of the structure of a Tandem Array with two Tandem Units that could be detected by Red Tandem. Every Tandem Unit has a minimum length ℓ and is separated from other Tandem Units in the array by less than T bases. Alignable units are reconstructed as a sequence of short similar segments (anchors) separated by less than L bases. In the Arabidopsis thaliana evaluation, we used ℓ = 500bp, T = 150kb and L = 40kb.