Table 4

Estimates of pairwise sequence conservation in coding and non-coding regions between D. melanogaster and D. erecta, D. pseudoobscura, D. willistoni or D. littoralis

Species

Number of bp surveyed

Number of bp conserved

% conserved (bp)

Median length of conserved segment

Average % identity of conserved segment

Coding

D. erecta

63,655

60,327

94%

39

93%

D. pseudoobscura

46,626

26,978

61%

20

91%

D. willistoni

42,224

18,774

45%

17

91%

D. littoralis

19,717

10,997

63%

17

92%

Non-coding

D. erecta

272,366

186,895

69%

24

94%

D. pseudoobscura

276,731

77,391

28%

17

95%

D. willistoni

174,421

19,700

13%

14

95%

D. littoralis

138,866

24,633

18%

15

95%

D. virilis

114,015

30,564

27%

16

95%

D. virilis [44]

114,015

29,915

26%

19

93%

Microsyntenic regions were globally aligned using AVID and conserved sequences greater than or equal to 10 bp and 90% identity were identified using VISTA. Sequences were classified as coding or non-coding using Release 3 annotations [14] exported from GadFly in VISTA format. Shown for comparison are a re-analysis of conservation between D. melanogaster and D. virilis using the current methods, as well as previous results, for a sample of non-coding regions published in [44].

Bergman et al. Genome Biology 2002 3:research0086.1   doi:10.1186/gb-2002-3-12-research0086