Figure 2

Varying the unitigger rate affects assembly of the region of 7096 that contains three D1 genes. The sequences assembled using various unitigger rates in the Celera WGS assembler are shown with oriented and ordered scaffolds (see Table 3 for details). The assembly generated by Baylor (Genbank:AC204781.3) is shown at the bottom (B). Sequence differences and scaffold fragmentation among the assemblies is shown for the D1 gene region, which is represented by the "D1 region" box on the consensus assembly and is illustrated in the enlarged regions of the various assemblies. The multi-colored D1-g/y gene and gene fragments indicate hybrid genes in which a mix of sequencing reads from D1-g and D1-y are incorrectly assigned to a single region. The gene fragments marked D1 and shown in gray do not contain enough sequence to identify them as D1-g or D1-y. The primer positions are indicated by number (see Table 2) at the bottom with the forward primers (For) on the top line and the reverse primers (Ref) on the bottom line. Assemblies 3, 6, 11, 12, and 15 have been omitted because of assembly errors based on incorrect positioning of primers.