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Table 2 PAML results

From: A large new subset of TRIM genes highly diversified by duplication and positive selection in teleost fish

Region1 n 2 c 3 Parameters in ω distribution under M2a4 Parameters in ω distribution under M85
B30.2 38 145 ω>1 = 2.98787 p >1 = 0.15644 ω>1 = 2.64795 p 1 = 0.17627
complete 1–435    ω1 = 1.000 p 1 = 0.25983   p 0 = 0.82373
    ω<1 = 0.18514 p <1 = 0.58373 p= 0.64985 q = 1.07859
B30.2 38 95 ω>1 = 2.79395 p >1 = 0.15969 ω>1 = 2.38329 p 1 = 0.20431
fragment 1–285    ω1 = 1.000 p 1 = 0.28631   p 0 = 0.79569
    ω<1 = 0.17036 p <1 = 0.554 p= 0.62590 q = 1.00411
B30.2 38 50 ω>1 = 3.28071 p >1 = 0.09143 ω>1 = 2.84563 p 1 = 0.09925
fragment 286–435    ω1 = 1.000 p 1 = 0.28492   p 0 = 0.90075
    ω<1 = 0.17611 p <1 = 0.62365 p = 0.70827 q = 1.26680
RBB 55 155 ω>1 = 2.1211 p >1 = 0.06286 ω>1 = 1.58831 p 1 = 0.07109
complete 1–465    ω1 = 1.000 p 1 = 0.44597   p 0 = 0.92891
    ω<1 = 0.11812 p <1 = 0.49117 p= 0.47665 q = 0.86554
RBB 55 78 ω>1 = 2.53603 p >1 = 0.06002 ω>1 = 1.98626 p 1 = 0.06121
fragment    ω1 = 1.000 p 1 = 0.43598   p 0 = 0.93879
1 – 234    ω<1 = 011843 p <1 = 0.50400 p= 0.93879 q = 1.04448
RBB 55 76 ω>1 = 2.05674 p >1 = 0.02961 ω>1 = 1.49995 p 1 = 0.02779
fragment 238–465    ω1 = 1.000 p 1 = 0.46960   p 0 = 0.97221
    ω<1 = 0.12722 p <1 = 0.50079 p= 0.47756 q = 0.81657
  1. 1 For sequence fragments, the numbers correspond with the position of first and last nucleotides in the alignment with excluded gaps.
  2. 2 n, the number of sequences in the alignment and tree.
  3. 3 c, the number of codons.
  4. 4 Parameters determined under M2a with ω the ratio of non-synonymous rates (dN) and synonymous rates (dS) and p the corresponding proportion of sites for each ω-class.
  5. 5 Parameters determined under M8 with ω the ratio dN/dS, the corresponding proportion (p 1 = 1-p 0) of sites and p- and q-estimates in the β (p, q)-distribution.