Table 1.

Annotation of the D. virilis contigs

Contig	BACPAC	Genes	Size (bp)	Repeat analysis
D. virilis dot chromosome fosmids
30	15E14, 12E24	pan (4), CG32005 (4), Caps (4)	61,074	Yes
103	44I5	CG5367 (2L), CG11093 (4), CG32016 (4), Glu-RA (4)	39,850	Yes
106	39O6	toy (4), plexA (4)	40,734	Yes
67	23A13, 15G13	Ephrin (4), CG1970 (4), Pur-alpha (4), Thd1 (4), zfh2 (4)	54,154	Yes
72	3G18	sv (4), lgs (4), onecut (4), CG1909 (4), Ephrin (4)	43,948	No
91	42I6	predicted gene, CG31992 (4), Eph (4), CaMKI (4)	39,292	No
50	38M22, 34I22	bt (4), Arc70 (4), CG11148 (4), C G11152 (4)	56,333	Yes
113	47B4	CG2052 (4)	37,265	Yes
D. virilis fosmids from major chromosomes
11	43O10	CG32521 (X), Tim13 (3L)	40,809	No
13	26E5	pseudogene, CG31337 (3R)	40,479	Yes
80	22L1, 42E12	CG14129 (3L), CG5917 (3L), CG1732 (4), CG14130 (3L), CG9384 (3L), Trl (3L), CG9343 (3L), ome (3L)	68,774	No
112	10J19	CG10440 (2R), Egfr (2R)	34,783	Yes
121	18G4	CG17267 (3R), cdc2c (3R), Oamb (3R)	47,154	Yes
122	36E24	Syn (3R), CG12814 (3R), Best1 (3R), CG6995 (3R)	41,111	Yes

The table lists contigs sequenced from D. virilis. The top section lists contigs from the dot chromosome of D. virilis in approximate order on the chromosome from centromere to telomere (as determined by in situ hybridization). The bottom section lists contigs from major chromosomes of D. virilis in an arbitrary order. The contig name is followed by the number(s) of the fosmid clone(s) sequenced (BACPAC Center at CHORI [69]). Genes are listed in the order in which they occur in the contig, with the number in parentheses representing the chromosome in which the homologous gene is found in the D. melanogaster genome. The total size of the contig is given; the final column indicates whether the contig was used in the repeat analysis (see Materials and methods).