Fig. 4.

Paralogous regions associated with novel genes. Parallel solid lines indicate homology among flanking regions of focal genes. Filled rectangular box indicates gene region. Distances between focal gene and paralogous copy are indicated. CG15323 seems to be part of a larger, noncoding “family” of copies (only most closely related sequence is shown). CG32712 returned no significant nonself blast hits. Homologous sequence for all other genes as well as the paralogous copies was found in D. simulans, suggesting that most duplications occurred along the lineage leading to D. melanogaster and D. simulans. D. simulans contains a region homologous to the D. melanogaster gene CG32690 but has no homologous ORF. This D. simulans sequence, using blat, points to chromosome X_random, making unclear the distance between two D. simulans copies. Extensive indel variation among paralogous copies of the CG32690 gene and CG32582 region disallowed calculation of percentage identity. D. simulans sequence homologous to the CG32582 gene region occurs in a currently unassembled region in D. simulans genome.