In order to perform cross-validation on the assembly method, we simulate reads data from 1739-bp long fragment from the E1E2 region of 44 HCV sequences [32] when sequence frequencies are generated according to some specific distribution. In our simulation experiments, we use geometric distribution (i-th sequence is constant factor more frequent than the (i + 1)-th sequence) to create sample quasispecies populations with different number of randomly selected above-mentioned quasispecies sequences. We first simulate reads without sequencing errors: the length of a read follows normal distribution with a particular mean value and variance 400, and a starting position follows the uniform distribution. This simplified model of reads generation has two parameters: number of the reads that varies from 20K up to 100K and the average read length that varies from 200bp up to 600bp.