TABLE 2.

The most significant SNP at each of the 23 identified GWA putative QTLs for hyphal colonization across all populations plus three from subpopulation analysis.

QTL	Analysis	Most significant SNP id	Chromosome	Position (bp)	P-value	MAF (%)	Effect
1.1	All	mlid0092747457	1	5069003	4.60E-05	7.3	4.6
1.2	All	mlid0001644797	1	8119524	7.58E-05	20	4.0
1.3	All	mlid0002847008	1	13328067	3.37E-05	21	$-4.6$
1.4	All	mlid0004161541	1	18083827	2.15E-05	39	$-5.0$
2.1a	Aus	mlid0014401085	2	22623115	7.49E-06	44	$-12.7$
2.2	All	mlid0014856649	2	24494645	6.07E-05	31	2.7
3.1	All	mlid0017818601	3	4455505	7.02E-05	31	$-5.1$
3.2	All	mlid0020494652	3	17569164	6.83E-06	45	5.4
3.3	All	mlid0023902122	3	32806262	8.53E-05	11	$-7.0$
4.1	All	mlid0024944825	4	1252233	3.92E-05	14	8.6
4.2	All	mlid0029088874	4	16530764	6.25E-06	10	5.3
4.3	All	mlid0031764657	4	29353046	2.87E-06	42	3.7
5.1	All	mlid0033051374	5	774066	6.90E-05	19	$-4.8$
6.1	All	mlid0043758793	6	17006825	7.81E-05	11	6.2
6.2	All	mlid0046376100	6	28107199	5.11E-05	24	$-4.8$
7.1	All	mlid0048451088	7	7182668	3.04E-05	31	$-4.8$
7.2	All	mlid0052022846	7	20886439	4.41E-05	14	9.1
8.1	All	mlid0056191014	8	9715485	4.38E-05	22	3.6
9.1	All	mlid0062250420	9	5765734	4.16E-05	41	5.7
10.1	All	mlid0067485302	10	4753692	4.47E-05	7.3	$-5.1$
11.1	All	mlid0076234181	11	17686395	1.29E-05	20	$-5.1$
11.2tr	Trj	mlid0077311363	11	21793808	1.81E-05	12	$-8.1$
11.2a	Aus	mlid0094185850	11	22027960	6.21E-05	10	$-10.8$
12.1	All	mlid0081838150	12	10779534	5.12E-05	19	4.3
12.2	All	mlid0082869441	12	14246478	6.38E-05	23	5.2
12.3	All	mlid0083460931	12	16261109	9.29E-05	38	4.5