Cichlidae	ANCESTRAL SPECIES	23	ENSGT00940000163547	ENSGT00940000166051	ENSGT00730000111080.b	ENSGT00940000165733 #7	ENSGT00940000155017 #8	ENSGT00940000156598.c.b #9	ENSGT00390000017845 #10	ENSGT00730000112145	ENSGT00940000165706 #13	ENSGT00940000157715 #14	ENSGT00950000182844.a.b #15	ENSGT00390000016613.c.e.a #16	ENSGT00940000157118.c.a #17	ENSGT00730000113981 #18	ENSGT00390000004923.A.c.b #20	ENSGT00940000166262 #22	ENSGT00390000009361 #23	ENSGT00940000165880.b #24	ENSGT01030000234513.A.a.a.a.b.d.b #25	ENSGT00940000154383.b #26	ENSGT00940000153463.a.c.a #27	ENSGT00940000160713 #28	ENSGT00940000159420 #29	ENSGT00530000063876.a #30	ENSGT00390000006845 #31	ENSGT00940000174492 #32	ENSGT00940000167312 #33	ENSGT00940000160421.i.c.l #34	ENSGT00940000160421.i.c.k #36	ENSGT00940000160421.i.d #37	ENSGT00950000182957.b.a.b.a.b
Pseudocrenilabrinae	ANCESTRAL SPECIES	8	ENSGT00730000111080.b	ENSGT00940000165733 #7	ENSGT00940000155017 #8	ENSGT00940000156598.c.b #9	ENSGT00390000017845 #10	ENSGT00730000112145	ENSGT00940000165706 #13	ENSGT00940000157715 #14	ENSGT00950000182844.a.b #15	ENSGT00390000016613.c.e.a #16	ENSGT00940000157118.c.a #17	ENSGT00730000113981.b #18	ENSGT00730000113981.a #19	ENSGT00390000004923.A.c.b #20	ENSGT00940000158686 #21	ENSGT00940000166262 #22	ENSGT00390000009361 #23	ENSGT00940000165880.b #24	ENSGT01030000234513.A.a.a.a.b.d.b #25	ENSGT00940000154383.b #26	ENSGT00940000153463.a.c.a #27	ENSGT00940000160713 #28	ENSGT00940000159420 #29	ENSGT00530000063876.a #30	ENSGT00390000006845 #31	ENSGT00940000174492 #32	ENSGT00940000167312 #33	ENSGT00940000160421.i.c.l #34	ENSGT00940000160421.i.c.k #36	ENSGT00940000160421.i.d #37	ENSGT00950000182957.b.a.b.a.b
Nile tilapia	MODERN SPECIES	10	srrm1 (ENSONIG00000008206) #7	clic4 (ENSONIG00000008208) #8	runx3 (ENSONIG00000008210) #9	syf2 (ENSONIG00000008213) #10	ENSONIG00000008215 #11	ENSONIG00000034288 #12	mgst3b (ENSONIG00000008216) #13	tmem50a (ENSONIG00000008217) #14	rhd (ENSONIG00000008219) #15	maco1b (ENSONIG00000008222) #16	ldlrap1b (ENSONIG00000008227) #17	ENSONIG00000038255 #18	ENSONIG00000034845 #19	FNDC5 (ENSONIG00000008229) #20	ENSONIG00000008230 #21	olig4 (ENSONIG00000008239) #22	bsdc1 (ENSONIG00000008240) #23	marcksl1a (ENSONIG00000036121) #24	gjb9a (ENSONIG00000008247) #25	ptp4a2a (ENSONIG00000027166) #26	ppp1r13ba (ENSONIG00000008251) #27	sdsl (ENSONIG00000008258) #28	SYT14 (ENSONIG00000008262) #29	ENSONIG00000035312 #30	gnmt (ENSONIG00000008264) #31	ENSONIG00000039998 #32	ENSONIG00000008266 #33	ENSONIG00000034793 #34	ENSONIG00000034252 #35	ENSONIG00000033326 #36	ENSONIG00000027569 #37
Pseudocrenilabrinae_A	ANCESTRAL SPECIES	6	ENSGT00730000111080.b	ENSGT00940000165733 #7	ENSGT00940000155017 #8	ENSGT00940000156598.c.b #9	ENSGT00390000017845 #10	ENSGT00730000112145	ENSGT00940000165706 #13	ENSGT00940000157715 #14	ENSGT00950000182844.a.b #15	ENSGT00390000016613.c.e.a #16	ENSGT00940000157118.c.a #17	ENSGT00730000113981.b #18	ENSGT00730000113981.a #19	ENSGT00390000004923.A.c.b #20	ENSGT00940000158686 #21	ENSGT00940000166262 #22	ENSGT00390000009361 #23	ENSGT00940000165880.b #24	ENSGT01030000234513.A.a.a.a.b.d.b #25	ENSGT00940000154383.b #26	ENSGT00940000153463.a.c.a #27	ENSGT00940000160713 #28	ENSGT00940000159420 #29	ENSGT00530000063876.a #30	ENSGT00390000006845 #31	ENSGT00940000174492 #32	ENSGT00940000167312 #33	ENSGT00940000160421.i.c.l #34	ENSGT00940000160421.i.c.k #36	ENSGT00940000160421.i.d #37	ENSGT00950000182957.b.a.b.a.b
Haplochromini	ANCESTRAL SPECIES	7	ENSGT00730000111080.b	ENSGT00940000165733 #7	ENSGT00940000155017 #8	ENSGT00940000156598.c.b #9	ENSGT00390000017845 #10	ENSGT00730000112145	ENSGT00940000165706 #13	ENSGT00940000157715.f #14	ENSGT00950000182844.a.b #15	ENSGT00390000016613.c.e.a #16	ENSGT00940000157118.c.a #17	ENSGT00730000113981.b #18	ENSGT00730000113981.a #19	ENSGT00390000004923.A.c.b #20	ENSGT00940000158686 #21	ENSGT00940000166262 #22	ENSGT00390000009361 #23	ENSGT00940000165880.b #24	ENSGT01030000234513.A.a.a.a.b.d.b #25	ENSGT00940000154383.b #26	ENSGT00940000153463.a.c.a #27	ENSGT00940000160713 #28	ENSGT00940000159420 #29	ENSGT00530000063876.a #30	ENSGT00390000006845 #31	ENSGT00940000174492 #32	ENSGT00940000167312 #33	ENSGT00940000160421.i.c.l.a.a #34	ENSGT00940000160421.i.c.k #36	ENSGT00940000160421.i.d #37	ENSGT00950000182957.b.a.b.a.b
Haplochromini_A	ANCESTRAL SPECIES	7	ENSGT00940000166051	ENSGT00730000111080.b	ENSGT00940000155017 #8	ENSGT00940000156598.c.b #9	ENSGT00390000017845 #10	ENSGT00730000112145	ENSGT00940000165706 #13	ENSGT00940000157715.f #14	ENSGT00950000182844.a.b #15	ENSGT00390000016613.c.e.a #16	ENSGT00940000157118.c.a #17	ENSGT00730000113981.b #18	ENSGT00730000113981.a #19	ENSGT00390000004923.A.c.b #20	ENSGT00940000158686 #21	ENSGT00940000166262 #22	ENSGT00390000009361 #23	ENSGT00940000165880.b #24	ENSGT01030000234513.A.a.a.a.b.d.b #25	ENSGT00940000154383.b #26	ENSGT00940000153463.a.c.a #27	ENSGT00940000160713 #28	ENSGT00940000159420 #29	ENSGT00530000063876.a #30	ENSGT00390000006845 #31	ENSGT00940000174492 #32	ENSGT00940000167312 #33	ENSGT00940000160421.i.c.l.b #34	ENSGT00940000160421.i.c.l.a.a.a #34	ENSGT00940000160421.i.c.k #36	ENSGT00940000160421.i.d #37
P. nyererei	MODERN SPECIES	383	lck (ENSPNYG00000005252)	FAM167B (ENSPNYG00000005162)	zgc:154055 (ENSPNYG00000005136)	tdh2 (ENSPNYG00000005096)	ENSPNYG00000005058	clic4 (ENSPNYG00000005035) #8	runx3 (ENSPNYG00000005007) #9	syf2 (ENSPNYG00000004979) #10	rsrp1 (ENSPNYG00000004959)	mgst3b (ENSPNYG00000004945) #13	TMEM50A (ENSPNYG00000004626) #14	rhd (ENSPNYG00000004554) #15	maco1b (ENSPNYG00000004542) #16	ldlrap1b (ENSPNYG00000004529) #17	FNDC5 (ENSPNYG00000004490) #20	olig4 (ENSPNYG00000004472) #22	bsdc1 (ENSPNYG00000004433) #23	marcksl1a (ENSPNYG00000004425) #24	gjb9a (ENSPNYG00000004418) #25	ptp4a2a (ENSPNYG00000004403) #26	ENSPNYG00000004392 #27	ENSPNYG00000004372 #27	sdsl (ENSPNYG00000004361) #28	SYT14 (ENSPNYG00000004338) #29	ENSPNYG00000004319 #30	gnmt (ENSPNYG00000004219) #31	ENSPNYG00000004190 #32	ENSPNYG00000004168 #33	ENSPNYG00000004062 #34	ENSPNYG00000004034 #34	ENSPNYG00000003899 #36
Haplochromini_B	ANCESTRAL SPECIES	37	ENSGT00940000166051	ENSGT00730000111080.b	ENSGT00940000155017 #8	ENSGT00940000156598.c.b #9	ENSGT00390000017845 #10	ENSGT00730000112145	ENSGT00940000165706 #13	ENSGT00940000157715.f #14	ENSGT00950000182844.a.b #15	ENSGT00390000016613.c.e.a #16	ENSGT00940000157118.c.a #17	ENSGT00730000113981.b #18	ENSGT00730000113981.a #19	ENSGT00390000004923.A.c.b #20	ENSGT00940000158686 #21	ENSGT00940000166262 #22	ENSGT00390000009361 #23	ENSGT00940000165880.b #24	ENSGT01030000234513.A.a.a.a.b.d.b #25	ENSGT00940000154383.b #26	ENSGT00940000153463.a.c.a #27	ENSGT00940000160713 #28	ENSGT00940000159420 #29	ENSGT00530000063876.a #30	ENSGT00390000006845 #31	ENSGT00940000174492 #32	ENSGT00940000167312 #33	ENSGT00940000160421.i.c.l.b #34	ENSGT00940000160421.i.c.l.a.a.a #34	ENSGT00940000160421.i.c.k #36	ENSGT00940000160421.i.d #37
Zebra mbuna	MODERN SPECIES	1101	tdh2 (ENSMZEG00005006315)	ENSMZEG00005006344	clic4 (ENSMZEG00005006374) #8	runx3 (ENSMZEG00005006397) #9	syf2 (ENSMZEG00005006429) #10	rsrp1 (ENSMZEG00005006460)	mgst3b (ENSMZEG00005006473) #13	tmem50a (ENSMZEG00005006487) #14	rhd (ENSMZEG00005006508) #15	maco1b (ENSMZEG00005006525) #16	ldlrap1b (ENSMZEG00005006558) #17	ENSMZEG00005006576 #18	ENSMZEG00005006593 #19	FNDC5 (ENSMZEG00005006601) #20	ENSMZEG00005006630 #21	olig4 (ENSMZEG00005006739) #22	bsdc1 (ENSMZEG00005006747) #23	ENSMZEG00005006781	ENSMZEG00005006796	ENSMZEG00005006810 #34	ENSMZEG00005006865	ENSMZEG00005006875 #33	ENSMZEG00005006897 #32	gnmt (ENSMZEG00005006910) #31	ENSMZEG00005006935 #30	SYT14 (ENSMZEG00005006943) #29	sdsl (ENSMZEG00005006960) #28	ppp1r13ba (ENSMZEG00005006993) #27	ptp4a2a (ENSMZEG00005007091) #26	gjb9a (ENSMZEG00005007108) #25	marcksl1a (ENSMZEG00005007115) #24
Eastern happy	MODERN SPECIES	10	tdh2 (ENSACLG00000019747)	ENSACLG00000019786	clic4 (ENSACLG00000019820) #8	runx3 (ENSACLG00000019835) #9	syf2 (ENSACLG00000019916) #10	rsrp1 (ENSACLG00000019962)	mgst3b (ENSACLG00000019979) #13	tmem50a (ENSACLG00000019995) #14	rhd (ENSACLG00000020023) #15	maco1b (ENSACLG00000020042) #16	ldlrap1b (ENSACLG00000020096) #17	ENSACLG00000020118 #18	ENSACLG00000020130 #19	FNDC5 (ENSACLG00000020153) #20	ENSACLG00000020176 #21	olig4 (ENSACLG00000020327) #22	bsdc1 (ENSACLG00000020348) #23	marcksl1a (ENSACLG00000020392) #24	gjb9a (ENSACLG00000020396) #25	ptp4a2a (ENSACLG00000020408) #26	ppp1r13ba (ENSACLG00000020433) #27	sdsl (ENSACLG00000020536) #28	SYT14 (ENSACLG00000020566) #29	ENSACLG00000020582 #30	gnmt (ENSACLG00000020588) #31	ENSACLG00000020613 #33	ENSACLG00000020632 #32	ENSACLG00000020645 #34	ENSACLG00000020723 #36	ENSACLG00000020801 #37	ENSACLG00000020849
Burton s mouthbrooder	MODERN SPECIES	317	tdh2 (ENSHBUG00000020348)	ENSHBUG00000020354	srrm1 (ENSHBUG00000020364) #7	clic4 (ENSHBUG00000020400) #8	runx3 (ENSHBUG00000020440) #9	syf2 (ENSHBUG00000020477) #10	rsrp1 (ENSHBUG00000020488)	mgst3b (ENSHBUG00000020497) #13	tmem50a (ENSHBUG00000020516) #14	rhd (ENSHBUG00000020540) #15	maco1b (ENSHBUG00000020587) #16	ldlrap1b (ENSHBUG00000020615) #17	ENSHBUG00000020640	ENSHBUG00000020649 #18	FNDC5 (ENSHBUG00000020663) #20	olig4 (ENSHBUG00000000902) #22	bsdc1 (ENSHBUG00000020704) #23	marcksl1a (ENSHBUG00000020710) #24	gjb9a (ENSHBUG00000020725) #25	ptp4a2a (ENSHBUG00000020741) #26	ENSHBUG00000020747 #27	ppp1r13ba (ENSHBUG00000020780) #27	sdsl (ENSHBUG00000020792) #28	SYT14 (ENSHBUG00000020823) #29	ENSHBUG00000020831 #30	gnmt (ENSHBUG00000020847) #31	ENSHBUG00000020856 #32	ENSHBUG00000020873 #33	ENSHBUG00000020974 #34	ENSHBUG00000021067 #34	ENSHBUG00000021133 #36
Lyretail cichlid	MODERN SPECIES	481								syf2 (ENSNBRG00000010720) #10	ENSNBRG00000010685 #11	mgst3b (ENSNBRG00000010677) #13	tmem50a (ENSNBRG00000010654) #14	rhd (ENSNBRG00000010444) #15	maco1b (ENSNBRG00000010390) #16	ldlrap1b (ENSNBRG00000010235) #17	FNDC5 (ENSNBRG00000010200) #20	olig4 (ENSNBRG00000010192) #22	bsdc1 (ENSNBRG00000010169) #23	marcksl1a (ENSNBRG00000010164) #24	gjb9a (ENSNBRG00000010132) #25	ptp4a2a (ENSNBRG00000010118) #26	ENSNBRG00000010115 #27	ENSNBRG00000010103 #27	sdsl (ENSNBRG00000010093) #28	SYT14 (ENSNBRG00000010076) #29	ENSNBRG00000010069 #30	gnmt (ENSNBRG00000010043) #31	ENSNBRG00000010022 #33	ENSNBRG00000009992 #34	ENSNBRG00000009913 #36	ENSNBRG00000009865 #37	ENSNBRG00000009830
Midas cichlid	MODERN SPECIES	1020	FAM167B (ENSACIG00000023377)	zgc:154055 (ENSACIG00000023380)	tdh2 (ENSACIG00000023390)	ENSACIG00000023398	clic4 (ENSACIG00000023438) #8	runx3 (ENSACIG00000023683) #9	syf2 (ENSACIG00000023688) #10	ENSACIG00000023692 #11	mgst3b (ENSACIG00000023697) #13	tmem50a (ENSACIG00000023700) #14	rhd (ENSACIG00000023704) #15	maco1b (ENSACIG00000023707) #16	ldlrap1b (ENSACIG00000023714) #17	ENSACIG00000023724	FNDC5 (ENSACIG00000023735) #20	olig4 (ENSACIG00000023738) #22	bsdc1 (ENSACIG00000023741) #23	marcksl1a (ENSACIG00000023744) #24	gjb9a (ENSACIG00000023748) #25	ptp4a2a (ENSACIG00000023751) #26	ppp1r13ba (ENSACIG00000023754) #27	ENSACIG00000023758 #27	sdsl (ENSACIG00000023761) #28	SYT14 (ENSACIG00000023766) #29	ENSACIG00000023768 #30	ENSACIG00000023774	krr1 (ENSACIG00000023780)	ENSACIG00000023786	NXPE3 (ENSACIG00000023787)