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Table 3 Summary of nucleotide diversity and neutrality tests

From: Population genetics of foxtail millet and its wild ancestor

Loci Lengtha Silent Accessionsb S π πsilent Θ θslient D D* F* ρ Rm Hap Hdiv
Setaria italica ssp. viridis             
DACP 1014 944.833 29 27 0.0062 0.0067 0.0068 0.0073 -0.3118 -0.4487 -0.4763 0.0002 0 13 0.877
SIGT 732 681.833 29 10 0.0014 0.0015 0.0035 0.0037 -1.9503* -2.8589* -3.0169* 0.0052 0 8 0.643
ADTY 997 892.011 31 41 0.01 0.0111 0.0105 0.0112 -0.1808 -0.5215 -0.5215 0.0076 0 17 0.931
PP2C 815 815 33 8 0.0021 0.0021 0.0024 0.0024 -0.3792 -0.6279 -0.6449 0.1034 1 8 0.799
SPS1 716 716 31 10 0.0018 0.0018 0.0035 0.0035 -1.5505 -1.3113 -1.6212 0 0 7 0.452
UPL 656 636.667 32 9 0.0024 0.0025 0.0034 0.0035 -0.8911 -1.0025 -1.1326 0.0027 0 6 0.609
TIFIIF 569 521 29 9 0.0025 0.0027 0.004 0.0044 -1.1863 -0.9376 -1.1834 0.0253 0 9 0.717
TRAN 440 195.187 32 14 0.0062 0.0063 0.0085 0.0085 -0.8844 -0.4649 -0.7027 1.1713 0 12 0.891
MDEH 525 525 31 19 0.0042 0.0042 0.0091 0.0091 -1.8459* -2.6617* -2.8235* 0.0315 0 14 0.819
Average 718 658.614 30.8 16.3 0.004 0.0043 0.0057 0.0059 -1.02 -1.2039 -1.347 0.1497 0.1 10.4 0.748
Setaria italica ssp. italica             
DACP 964 896 46 19 0.0035 0.0038 0.0045 0.0048 -0.6808 0.9081 0.4346 0 0 7 0.633
SIGT 767 715.667 48 7 0.0012 0.0013 0.0021 0.0022 -1.0991 -0.3006 -0.6509 0 0 4 0.264
ADTY 1005 900 50 6 0.0002 0.0003 0.0013 0.0015 -2.0897* -3.9817* -3.9678* 0 0 3 0.079
PP2C 760 760 47 2 0.0007 0.0007 0.0006 0.0006 0.3793 -0.8753 -0.5879 Na 0 3 0.528
SPS1 695 695 46 4 0.0016 0.0016 0.0013 0.0013 0.476 1.0127 0.9907 0.0041 0 3 0.518
UPL 761 734.333 48 6 0.0012 0.0012 0.0018 0.0018 -0.8501 -0.5283 -0.7377 0.0077 0 7 0.54
TIFIIF 624 556.833 44 6 0.0019 0.002 0.0022 0.0017 -0.3342 -2.1726 -1.8723 0.0093 0 5 0.577
TRAN 435 188.543 49 10 0.0042 0.0056 0.0052 0.0036 -0.5283 -0.4341 -0.5478 0.0219 1 9 0.743
MDEH 549 549 43 15 0.0039 0.0039 0.0067 0.0067 -1.3336 0.7496 0.0648 0.2204 1 14 0.886
Average 729 666.153 46.8 8.3 0.0021 0.0023 0.0029 0.0027 -0.6734 -0.6247 -0.7638 0.0329 0.2 6.1 0.529
  1. Note: Length, alignment length; Silent, alignment length on silent site; Aceessions, number of accessions sequenced for each locus; S, the number of segregating sites; π, average number of nucleatide difference per site between 2 sequence; π silent, π on silent sites; θ, the watterson estimator of population mutation rate θ; θ silent, θ on silent sites; D, Tajima's D; D* and F*, D* and F* of Fu and li; ρ, the population recombination rate; R M , the minimum number of recombination events; Hap, number of haplotype; Hdiv, haplotype diversity.