Table 4. The 37 SNPs significant for TMAX rate in at least one of the nine MTMM models.

SNP	Dark/Low	Dark/ High	Full-Light/Low	Full-Light/High	Full	Genotype Only	G×E	G×L	G×N
Chr1:2757164	0.010	0.052	4.66E−05	3.35E−06a	2.51E−05	2.86E−04	0.004	0.011	0.069
Chr1:2763016	0.191	0.112	8.86E−05	7.26E−06a	4.43E−05	4.40E−04	0.005	0.002	0.607
Chr1:2765047	0.021	0.010	4.17E−08b	6.62E−09b	1.76E−07b	2.38E−06	0.002	0.001	0.443
Chr1:2770350	0.009	0.003	5.56E−06a	1.03E−04	1.76E−04	5.04E−05	0.171	0.274	0.161
Chr1:4058155	0.013	0.009	4.68E−06a	0.013	0.001	0.003	0.024	0.395	0.012
Chr1:10419017	3.63E−05	0.001	1.17E−04	3.63E−06a	1.50E−04	2.84E−05	0.249	0.344	0.206
Chr1:18526664	1.28E−06a	4.89E−05	0.002	2.38E−04	1.50E−04	2.70E−05	0.262	0.247	0.202
Chr1:21713582	0.025	0.017	1.53E−07b	1.03E−05a	1.63E−05	9.06E−05	0.008	0.011	0.133
Chr1:21916027	2.13E−04	0.001	3.60E−04	3.10E−06a	2.85E−04	2.00E−05	0.680	0.415	0.817
Chr1:23494937	1.77E−06a	5.49E−05	0.002	7.55E−04	1.13E−04	6.22E−05	0.088	0.247	0.047
Chr1:27668561	1.43E−06a	2.19E−05	1.55E−06a	1.86E−06a	5.32E−06	6.94E−07	0.267	0.962	0.108
Chr1:29368367	0.009	0.005	0.002	9.67E−06a	2.74E−04	4.01E−05	0.337	0.278	0.267
Chr2:6351897	0.017	0.032	1.40E−04	3.84E−06a	2.93E−04	3.99E−04	0.042	0.012	0.779
Chr2:8960447	2.37E−05	3.81E−05	7.38E−05	4.44E−06a	3.24E−05	1.73E−06	0.724	0.943	0.431
Chr2:10297188	0.028	0.019	1.27E−06a	7.48E−04	6.29E−04	0.001	0.030	0.054	0.104
Chr2:17620611	0.149	0.102	5.33E−06a	7.99E−06a	6.74E−05	5.09E−04	0.007	0.002	0.980
Chr3:4786505	0.084	0.024	5.79E−06a	2.05E−04	8.96E−04	7.93E−04	0.072	0.024	0.859
Chr3:5586649	0.016	0.011	9.14E−06a	3.90E−04	0.002	0.002	0.097	0.046	0.552
Chr3:12162371	0.017	0.013	5.28E−06a	2.27E−04	7.42E−04	5.80E−04	0.079	0.071	0.249
Chr3:12163116	0.003	0.002	2.36E−07b	2.14E−05	1.05E−04	3.11E−05	0.157	0.150	0.263
Chr3:13530762	0.364	0.211	0.004	1.02E−05a	8.30E−05	0.001	0.004	0.003	0.063
Chr3:17718905	0.025	0.020	0.001	3.54E−06a	2.54E−04	2.34E−04	0.059	0.028	0.258
Chr3:21818882	0.001	0.007	0.002	4.30E−08b	7.48E−05	1.75E−05	0.190	0.088	0.414
Chr4:7287800	0.596	0.379	1.45E−05	7.79E−06a	8.51E−06	0.002	2.21E−04	4.20E−05	0.523
Chr4:7657583	0.066	0.187	7.61E−05	2.77E−07b	1.97E−05	4.04E−04	0.002	5.92E−04	0.956
Chr4:8841131	0.076	0.016	2.38E−06a	3.91E−05	1.23E−04	3.84E−04	0.018	0.005	0.890
Chr4:8843014	0.006	0.005	1.24E−05	1.01E−05a	1.05E−04	3.85E−05	0.128	0.098	0.326
Chr4:8843150	0.198	0.026	5.17E−06a	1.92E−04	3.15E−04	3.51E−04	0.051	0.018	0.720
Chr4:12776709	0.009	0.048	0.001	2.45E−06a	3.22E−04	1.75E−04	0.100	0.072	0.316
Chr5:4690632	0.011	0.002	6.20E−06a	0.001	0.003	0.001	0.303	0.207	0.453
Chr5:10723903	1.07E−07b	7.86E−06	0.006	0.008	5.83E−05	1.90E−04	0.016	0.022	0.045
Chr5:16425024	0.008	0.001	3.13E−06a	0.001	0.001	3.54E−04	0.161	0.220	0.186
Chr5:22442725	0.001	0.005	7.81E−05	7.61E−06a	2.94E−04	7.22E−05	0.209	0.197	0.283
Chr5:26393336	0.002	0.004	9.82E−05	3.14E−06a	2.21E−04	5.27E−05	0.208	0.088	0.771
Chr5:26499148	0.056	0.047	2.52E−06a	0.002	0.001	0.003	0.018	0.058	0.056
Chr5:26627873	0.005	0.008	9.43E−05	3.71E−06a	3.05E−04	7.91E−05	0.200	0.083	0.767
Chr5:26628368	0.051	0.012	3.05E−06a	2.20E−05	1.36E−04	7.86E−05	0.086	0.033	0.725

Raw P values are shown for each SNP in each model. SNPs in bold are also significant F-SNPs at the 0.1 level.

^a0.05 < P ≤ 0.1 after a B-H FDR correction.

^bP ≤ 0.05.