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Table 3 Codon-based tests of positive selection. A summary of P-values and posterior probabilities obtained for selection tests are shown for those codons where at least one test resulted with significant value after FDR correction (global α = 0.05). The codon location in domains (Cyto, trans or extr) is indicated for each codon under positive selection. Biochemical properties significantly associated with amino acid sites under selection are indicated for PRIME test (See Methods for abbreviations)

From: Positive selection at sites of chemosensory genes is associated with the recent divergence and local ecological adaptation in cactophilic Drosophila

Gene/Codon Domain codeml BEB SLAC FEL IFEL REL MEME FUBAR PRIME
Gr63a
 73 Cyto 0.571 0.471 0.369 > 0.050 0.980 0.227 0.732 > 0.050
 93 Cyto < 0.500 0.748 0.642 > 0.050 0.955 0.487 0.650 > 0.050
 482 Extr 0.977 0.189 0.184 > 0.050 0.990 0.078 0.941 V
 485 Extr 0.906 0.428 0.434 > 0.050 0.986 0.139 0.906 H
Or67c
 100 Trans < 0.500 0.132 0.092 > 0.050 0.933 0.141 0.648 > 0.050
 116 Cyto < 0.500 0.982 0.815 > 0.050 0.807 0.583 0.401 > 0.050
 125 Cyto < 0.500 0.752 0.529 > 0.050 0.866 0.449 0.467 > 0.050
 236 Cyto < 0.500 0.199 0.348 > 0.050 0.901 0.023 0.653 S
 253 Cyto 0.998 0.237 0.029 > 0.050 0.976 0.058 0.906 C, VR
 274 Cyto < 0.500 0.434 0.424 > 0.050 0.885 0.388 0.623 > 0.050
 335 Cyto < 0.500 0.850 0.965 > 0.050 0.778 0.664 0.451 > 0.050
 391 Trans 1.000 0.025 0.000 > 0.050 1.000 0.000 1.000 S
 404 Extr 1.000 0.434 0.268 > 0.050 0.911 0.271 0.621 > 0.050
Or83c1
 9 Cyto 0.764 0.411 0.155 > 0.050 0.975 0.133 0.712 > 0.050
 99 Cyto 1.000 0.075 0.004 0.026 1.000 0.001 0.999 > 0.050
 230 Cyto 1.000 0.088 0.145 > 0.050 0.999 0.121 0.973 P, R, I
 236 Cyto 1.000 0.136 0.105 > 0.050 1.000 0.131 0.972 H
 362 Trans 0.536 0.451 0.136 > 0.050 0.976 0.151 0.727 > 0.050
 386 Extr 0.999 0.330 0.051 > 0.050 0.996 0.033 0.971 H
 387 Extr 1.000 0.089 0.024 > 0.050 1.000 0.036 0.992 > 0.050
 391 Extr 0.965 0.386 0.070 > 0.050 0.986 0.066 0.926 > 0.050
Or83c2
 7 Cyto 0.712 0.459 0.203 > 0.050 0.972 0.229 0.828 > 0.050
 21 Cyto < 0.500 0.459 0.285 > 0.050 0.959 0.064 0.794 > 0.050
 43 Trans 1.000 0.007 0.003 0.018 1.000 0.005 0.999 C
 92 Cyto 0.773 0.572 0.518 > 0.050 0.855 0.000 0.644 C, RP
 178 Extr < 0.500 0.478 0.271 > 0.050 0.720 0.029 0.701 > 0.050
 187 Trans 0.957 0.228 0.064 0.019 0.998 0.085 0.947 > 0.050
 238 Cyto 1.000 0.496 0.205 > 0.050 0.986 0.047 0.930 > 0.050
 284 Trans 0.845 0.176 0.063 > 0.050 0.992 0.07 0.984 > 0.050
  1. Significant and marginally significant values after FDR correction are in bold