Table 1.

Table of populations included in STRUCTURE and Admixtools analyses.

Site	Population name	River Basin	Population code	Latitude	Longitude	Sample size	Taxon
1	Tinaroo Creek	Barron	PU16-139	−17.0797	145.5012	5	M. splendida
2	Emu Creek	Barron	PU16-138	−17.0995	145.5259	3	M. sp. “eachamensis-like”
				−17.1063	145.5205	2
3	Lake Euramoo	Barron	PU18-20	−17.1598	145.6275	5	M. sp. “eachamensis-like”
4	Little Mulgrave	Mulgrave	GM14-04, PU21-21a	−17.1277	145.7015	5	M. splendida/M. sp. “eachamensis-like” [<5%]
5	Barney Springs	Barron	KM051	−17.1694	145.4503	5	M. splendida
6	Upper Rocky Creek	Barron	KM071	−17.1931	145.4356	5	M. splendida/M. sp. “eachamensis-like” [<5%]
7	Lake Eacham Australian aquarium lineage	Barron	PU16-AA	−17.2849	145.6259	3	M. sp. “eachamensis-like”/M. sp. “Malanda” [20%]/M. splendida [15%]
7	Lake Eacham European aquarium lineage	Barron	Euro	−17.2849	145.6259	2	M. sp. “eachamensis-like”/M. sp. “Malanda” [25%]
7	Lake Eacham Queensland Museum samples	Barron	EachQM	−17.2849	145.6259	5	M. sp. “eachamensis-like”/M. sp. “Malanda” [25%]
8	Imrie Creek	North Johnstone	KM099	−17.3009	145.6367	5	M. splendida/M. sp. “Malanda”[25%]/M. sp. “eachamensis-like” [<5%]
9	Gowrie Creek	Barron	PU16-124	−17.3486	145.4855	5	M. sp. “eachamensis-like”/M. splendida [<5%]
10	Spider Creek	Barron	PU16-123	−17.3542	145.4920	5	M. sp. “eachamensis-like”/M. splendida [5%]/M. sp. “Malanda” [<5%]
11	Gwynne Creek	Barron	PU15-61	−17.3408	145.5383	3	M. sp. “eachamensis-like”/M. splendida [5%]/M. sp. “Malanda” [<5%]
			PU16-93	−17.3408	145.5383	5
12	Nicholas Creek	Barron	PU16-92	−17.3357	145.5578	5	M. splendida/M. sp. “eachamensis-like” [20%]
13	Cleminson Creek	North Johnstone	PU16-91	−17.3459	145.5774	5	M. splendida
14	Williams Creek East	North Johnstone	MH18-11	−17.3659	145.5942	6	M. sp. “Malanda”/M. splendida [<5%]
			PU16-88	−17.3947	145.5967	20
15	Williams Creek East 2	North Johnstone	PU19-35	−17.3757	145.6026	3	M. sp. “Malanda”/M. splendida [15%]
			PU19-37	−17.3793	145.6082	4
			PU19-36	−17.3809	145.6083	4
			PU19-50	−17.3813	145.6011	4
			PU19-33	−17.3846	145.5993	3
16	Battle Creek		PU16-107	−17.3491	145.6596	5	M. splendida/M. sp. “Malanda [15%]
17	Short Creek	North Johnstone	PU15-63	−17.3819	145.6655	5	M. splendida/M. sp. “Malanda” [5%]
18	Wallace Road	North Johnstone	PU15-64	−17.3955	145.6589	2	M. sp. “Malanda”
			PU16-100	−17.3955	145.6589	8
			PU16-101	−17.3965	145.6579	7
			PU16-111	−17.4013	145.6561	3
19	Wallace Road lower	North Johnstone	PU16-110	−17.4101	145.6551	5	M. splendida/M. sp. “Malanda” [<5%]
20	Molo Creek tributary	North Johnstone	MH18-13	−17.4286	145.5710	10	M. sp. “Malanda”
			PU16-126	−17.4286	145.5710	5
21	Molo Creek and tributary	North Johnstone	PU19-47	−17.4160	145.5839	2	M. sp. “Malanda”/M. splendida [<5%]/M. sp. “eachamensis-like” [<5%]
			PU19-46	−17.4175	145.5814	3
			PU19-49	−17.4251	145.5763	3
			PU19-48	−17.4257	145.5758	4
22	Thiaki Creek	North Johnstone	PU15-67	−17.4136	145.5881	5	M. sp. “Malanda”/M. splendida [45%]
23	Thiaki Creek tributary	North Johnstone	PU16-134	−17.4197	145.5946	5	M. sp. “Malanda”
			MH18-08	−17.4239	145.5888	10
24	Gillies Creek	North Johnstone	PU16-96	−17.4422	145.5940	5	M. splendida/M. sp. “Malanda” [<5%]
25	Dirran Creek	North Johnstone	PU15-66	−17.4511	145.6000	5	M. sp. “eachamensis-like”/M. sp. “Malanda” [25%]
26	Victoria Creek	North Johnstone	PU16-129	−17.4546	145.7313	5	M. splendida
27	Beatrice River	North Johnstone	PU15-71	−17.5522	145.6093	5	M. splendida
28	Middle Brook	North Johnstone	PU16-119	−17.5699	145.6090	5	M. splendida
29	South Johnstone	South Johnstone	MH18-15	−17.6536	145.7173	5	M. sp. “eachamensis-like”
30	Charappa Creek	South Johnstone	MH18-14	−17.7017	145.6731	5	M. sp. “eachamensis-like”

Notes: Site numbers correspond to numbers in Supplementary File S5. Latitude and longitude show sampling localities included in each population. The taxon column shows the lineage to which the population belongs. Where the population has more than a trace introgression signal, approximate contributions are given for the minor parental lineage(s) in square brackets.