The A, C, G, and T of Genome Assembly

Figure 3

Reference assisted assembly: reads align relative to a reference sequence setting up the layout. The layout, in turn, constructs a consensus sequence, simply by basing itself on the majority base call. Please note that the reads do not need to match perfectly with the reference. The example shows a shaded region where the consensus sequence differs from the reference. This working scheme is called “Alignment-Layout-Consensus.”