| India | Indonesia | Japan | Misc.* | China | murghi | gallus | spadiceus | Bankiva | G. jabouillei | G. Varius | G. lafayettei | G. sonneratii |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Group→ | G. gallus domesticus (Domestic chicken) | G. gallus (RJF) | Other species of Gallus | ||||||||||
Sample size | 43 | 12 | 104 | 4 | 551 | 56 | 21 | 41 | 6 | 3 | 4 | 3 | 6 |
Haplotypes | 23 | 6 | 26 | - | 82 | 42 | 15 | 12 | 6 | - | - | - | 5 |
Haplotype diversity (Hd) | 0.932 | 0.836 | 0.925 | - | 0.934 | 0.948 | 0.971 | 0.789 | 1.000 | - | - | - | 0.933 |
Sum of square freqs. | 0.023 | 0.083 | 0.010 | 0 | 0.002 | 0.018 | 0.048 | 0.024 | 0.167 | 0 | 0.250 | 0.333 | 0.167 |
Number of observed transitions | 30 | 16 | 30 | 17 | 49 | 45 | 31 | 23 | 8 | 14 | 7 | 4 | 33 |
Number of observed transversions | 20 | 0 | 3 | 0 | 9 | 47 | 3 | 4 | 0 | 1 | 3 | 1 | 2 |
Number of substitutions | 50 | 16 | 33 | 17 | 58 | 92 | 34 | 27 | 8 | 15 | 10 | 5 | 35 |
Number of polymorphic sites | 55 | 16 | 37 | 17 | 55 | 113 | 36 | 29 | 10 | 15 | 75 | 5 | 39 |
Nucleotide diversity Standard deviation (±) | 0.018 0.009 | 0.015 0.008 | 0.021 0.011 | 0.024 0.016 | 0.018 0.009 | 0.029 0.015 | 0.022 0.011 | 0.023 0.011 | 0.012 0.008 | 0.025 0.019 | 0.082 0.054 | 0.007 0.006 | 0.034 0.020 |
Mismatch observed mean | 7.409 | 6.000 | 8.670 | 9.500 | 7.354 | 12.436 | 8.800 | 9.229 | 5.000 | 10.000 | 38.000 | 3.333 | 16.000 |
Harpending's Raggedness index | 0.021 | 0.236 | 0.012 | 0.167 | 0.009 | 0.001 | 0.029 | 0.136 | Â | Â | 0.750 | 1.000 | 0.289 |
P (Sim. Rag. > = Obs. Rag.) | 0.310 | 0.000 | 0.230 | 0.960 | 0.310 | 1.000 | 0.300 | 0.000 | Â | Â | 0.120 | 0.860 | 0.160 |
Tajima's D | -1.406 | 0.571 | 0.835 | 0.250 | -0.148 | -1.923 | -0.352 | 1.518 | 0.947 | 0 | -0.222 | 0 | -0.357 |
P(D random < D obs) | 0.075 | -0.293 | -0.204 | -0.321 | 0.470 | 0.015 | 0.383 | -0.073 | -0.204 | 0 | 0.540 | 0 | 0.420 |
Fs | -24.995 | -7.215 | -24.627 | 0.273 | NC | -24.401 | -14.732 | -24.738 | -2.160 | 1.139 | 1.798 | -0.077 | -0.284 |
Prob(sim_Fs < = obs_Fs) | 0 | 0.001 | 0 | 0.319 | - | 0 | 0 | 0 | 0.049 | 0.46 | 0.496 | 0.239 | 0.233 |