Figure 1.
Typical alignments of the two assembled variants to finished clones from the same individual (A) and from a different individual (B). Finished sequence from the same individual aligns very well to one of the two assembled variants but differs significantly from the second variant. In contrast, finished sequence from another individual represents a third variant, and the three pairwise distances are similar. These observations indicate that the two assembled variants are haplotypes, not paralogs. BLASTN alignments are shown as parallelograms, nucleotide mismatches are shown as small dots.
