Figure 1.

The region of interest (ROI) defines the de novo target DNA sequence. Ideally a multiple alignment should have ample space for primers on either side of the ROI, considering desired primer lengths and sequence read length (which depends on the sequencing system used).

Brodin et al. BMC Bioinformatics 2013 14:255   doi:10.1186/1471-2105-14-255
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