
Fluctuating population size HMMC ML method method, version 1.4


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Locus 1
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Assumed relative Ne = 1.000000
Assumed relative mu = 1.000000

  49 Sequences,  420 Sites


Empirical Base Frequencies:

   A       0.33683
   C       0.18707
   G       0.12041
  T(U)     0.35569
Transition/transversion ratio =   2.000000
(Transition/transversion parameter =   1.842189)
Watterson estimate of theta is   0.02776747
Single chain point estimate of theta (from final chain)=  0.10067298

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Combined likelihood over all loci

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Point estimate using 1 loci =  0.100672982,   with lnL =  0.352867960
 There were 1 loci examined

   Theta       LnL
   -----       ---
  0.00100000  -3049.34428063
  0.00200000  -1435.00675008
  0.00500000  -490.24259903
  0.01000000  -193.78787600
  0.02000000  -62.01093283
  0.05000000   -6.18279385
  0.10000000    0.34872887
  0.10067298    0.35286796
  0.20000000   -5.05512676
  0.50000000  -29.53206206
  1.00000000  -55.96746711
  2.00000000  -85.78083677
  5.00000000  -127.67823343
 10.00000000  -160.25299092

confidence limits on theta:  lower   0.06795339, upper   0.15047940
