TABLE 2

Polymorphism statistics of the second chromosome loci

LocusSpeciesnaLbScSyndRepdEmbedded ImageeπfDgZnShDiff.i
2M05pseudoobscura8886.013300.005660.00427−1.24030.1690.02765
bogotana6886.04100.001980.00150−1.29501.0**0.02897
persimilis8884.313300.005670.00404−1.45670.3030.01695
miranda2886.02000.002260.00226
2M06pseudoobscura8840.4320.014690.01232−0.85430.1770.01657
bogotana6841.140.002080.002852.0058*1.0**0.01519
persimilis8816.9240.011330.00861−1.26010.1730.01328
miranda2841.030.003570.00357
2M07pseudoobscura6849.5531710.027330.02551−0.42690.2110.03461
bogotana6835.416610.008390.00734−0.77130.4120.03140
persimilis6803.420210.010900.01087−0.01840.2520.03419
miranda1798
2M12pseudoobscura8840.6790.036250.03246−0.56670.1480.05332
bogotana6830.7310.016340.019661.28740.942**0.05454
persimilis7843.0150.007260.00576−1.14240.1690.04470
miranda2821.0160.019490.01949
2M13pseudoobscura6908.011640.005310.005950.73120.3580.01780
bogotana6908.05210.002410.002500.19650.3700.01836
persimilis8908.010420.004250.00334−1.05390.1620.01666
miranda2908.02110.002200.00220
2M14pseudoobscura7900.526200.011780.01089−0.42940.1850.01593
bogotana6900.85000.002430.003181.73000.7000.01407
persimilis8891.06000.002600.00200−1.06430.1280.01145
miranda2905.01000.001100.00110
2M15pseudoobscura8883.0100.004370.00392−0.50380.2190.01047
bogotana5866.030.001660.00162−0.17470.4440.01156
persimilis8878.330.001320.00085−1.44750.0200.01415
miranda2878.010.001140.00114
2M16pseudoobscura6876.9210.010490.00988−0.36100.2770.03225
bogotana6882.350.002480.00189−1.33700.2320.02951
persimilis6861.9160.008130.00665−1.12440.2430.03220
miranda1865.0
2M17pseudoobscura8813.0370.017550.01375−1.15640.1440.03293
bogotana6818.00000.02550
persimilis71306.4240.007500.00733−0.12970.2300.03718
miranda11294.0
2M17.3pseudoobscura6814.129060.015600.01458−0.41560.3010.03940
bogotana6770.420140.011370.01064−0.39880.2670.03806
persimilis7808.722020.011100.00930−0.91420.2390.03205
miranda2849.09040.010600.01060
2M18pseudoobscura8800.5350.016860.01245−1.39520.1550.03035
bogotana6806.080.004350.005291.28391.0**0.03322
persimilis8802.5220.010570.00783−1.35590.2080.03499
miranda1809.0
2M20pseudoobscura8872.0211520.009290.00782−0.82340.2170.01690
bogotana6872.08600.004020.00306−1.40831.0**0.01716
persimilis8872.0111000.004870.00426−0.62170.1370.01659
miranda1806.0
bcdjpseudoobscura201367.94725110.00970.0074−0.96330.0760.0192
bogotana141370.814840.00320.0030−0.24880.2880.0191
persimilis141375.4301870.00680.0058−0.66200.1040.0176
miranda21369.000000
rh1jpseudoobscura171443.0521400.01060.0071−1.39030.0910.0151
bogotana111200.03300.00080.0007−0.74940.0280.0148
persimilis141443.1411200.00890.0069−1.01020.0900.0155
miranda21443.01100.00070.0007
2003jpseudoobscura18512.8180.01020.0068−1.27210.0970.0195
bogotana14528.370.00420.0027−1.27670.2020.0143
persimilis14532.3110.00650.0038−1.63740.0940.0176
miranda3507.010.00130.0013
2002jpseudoobscura19924.8660.02040.0152−1.03960.0760.0193
bogotana13922.8170.00590.00710.83720.4340.0162
persimilis13905.2160.00570.0038−1.38070.1240.0171
miranda3918.3210.01520.0152
2001jpseudoobscura17678.1380.01660.0108−1.44820.0690.0210
bogotana13694.450.00230.0018−0.84190.1020.0222
persimilis14677.2200.00930.0073−0.90790.1040.0175
miranda1690.0
Bkptkpseudoobscura12541.1570.03490.0258−1.20090.1080.0599
bogotana5571.060.00500.00560.76370.5280.0623
persimilis6569.640.00300.00371.18060.600k
miranda1922.0
  • —, values could not be obtained for small samples or for groups of sequences with few informative sites. *, significant at P < 0.05; **, significant at P < 0.01.

  • a Number of lines sequenced.

  • b Average length (base pairs) of the sequences from each species.

  • c Number of polymorphic sites.

  • d Number of synonymous (syn) and replacement (rep) polymorphisms in the coding regions.

  • e Estimate of 4Nμ/bp using the number of polymorphic sites (Watterson 1975).

  • f Estimate of 4Nμ using the average number of nucleotide differences per site (Tajima 1983).

  • g Tajima's (1989) statistic. Significance was determined using 10,000 coalescent simulations with no recombination.

  • h Average intralocus linkage disequilibium (Kelly 1997). Significance was determined using 1000 coalescent simulations with no recombination.

  • i Average pairwise difference per base pair between alleles from each taxon and the alleles of D. miranda.

  • j Data from Machado et al. (2002).

  • k Distal breakpoint sequence of the fixed inversion separating D. pseudoobscura and D. persimilis. Divergence between D. miranda and D. persimilis is not presented because D. miranda has a similar arrangement to D. pseudoobscura and therefore partially nonhomologous regions were compared.