Viral sequences containing internal stop codons are not viable since the entire HCV genome consists of a single coding region for a large polyprotein. So the number of reconstructed viable sequences can serve as an accuracy measure for quasispecies assembly. Out of 10 most frequent sequences reconstructed by ViSpA, only 3 are not viable while ShoRAH is able to reconstruct only one viable sequence. This sequence has 99.94% similarity with the ViSpA's fourth most frequent assemblies. Both methods returned similar frequency estimations for this sequence: 0.017% (ShoRAH) and 0.019% (ViSpA).