Otophysi	ANCESTRAL SPECIES	313							ENSGT00940000156883 #15	ENSGT00510000047589 #16	ENSGT00940000155710.a #17	ENSGT00740000116794 #18	ENSGT00740000115593 #19	ENSGT00860000134673	ENSGT00530000068411 #20	ENSGT00940000167270 #21	ENSGT00940000154865	ENSGT00940000158120 #22	ENSGT00940000156925.v #23	ENSGT00940000154518.b #24	ENSGT00940000155139 #25	ENSGT00390000004582 #28	ENSGT00660000095541.a.a #27	ENSGT00390000013968 #26
Characiphysae	ANCESTRAL SPECIES	13	ENSGT00940000162535	ENSGT00390000004632	ENSGT00940000154704.d.b #7	ENSGT00940000165723.b #8	ENSGT00940000156675.c #9	ENSGT00940000155309.o #10	ENSGT00940000154445.a #14	ENSGT00940000156883 #15	ENSGT00510000047589 #16	ENSGT00940000155710.a #17	ENSGT00740000116794 #18	ENSGT00740000115593 #19	ENSGT00860000134673	ENSGT00530000068411 #20	ENSGT00940000167270 #21	ENSGT00940000158120 #22	ENSGT00940000156925.v #23	ENSGT00940000154518.b #24	ENSGT00940000155139 #25	ENSGT00390000013968 #26	ENSGT00660000095541.a.a #27	ENSGT00390000004582 #28	ENSGT00940000160366	ENSGT00940000165073.a.b.b.b.a.b	ENSGT00940000168728	ENSGT00940000164834.a	ENSGT01030000234613.b.a.b.h #30	ENSGT01030000234613.b.a.b.g #31	ENSGT01030000234613.b.a.a.c.a #32	ENSGT00390000016478.c.b #33	ENSGT00940000154862.x.b #34
Channel catfish	MODERN SPECIES	22	PRKG1 (ENSIPUG00000000923) #7	dkk1a (ENSIPUG00000001048) #8	pcdh15a (ENSIPUG00000001088) #9	ENSIPUG00000002311 #10	ckba (ENSIPUG00000002321) #11	ENSIPUG00000002368 #12	ENSIPUG00000002379 #13	Cisd1 (ENSIPUG00000002387) #14	DHX57 (ENSIPUG00000002412) #15	galm (ENSIPUG00000002550) #16	atl2 (ENSIPUG00000002603) #17	ENSIPUG00000002624 #18	HELLS (ENSIPUG00000002634) #19	ENSIPUG00000002680 #20	ENSIPUG00000002709 #21	H2afy2 (ENSIPUG00000002757) #22	gbf1 (ENSIPUG00000002803) #23	pitx3 (ENSIPUG00000002981) #24	PNLIPRP2 (ENSIPUG00000002993) #25	gins1 (ENSIPUG00000003089) #26	ninl (ENSIPUG00000003152) #27	AIFM2 (ENSIPUG00000003201) #28	ENSIPUG00000003245 #29	ENSIPUG00000003257 #30	exoc3l4 (ENSIPUG00000003285) #31	ENSIPUG00000003305 #32	eif5 (ENSIPUG00000003331) #33	mark3 (ENSIPUG00000003398) #34	ckba (ENSIPUG00000003503) #35	trmt61a (ENSIPUG00000003613) #36	bag5 (ENSIPUG00000003641) #37
Characiphysae_b	ANCESTRAL SPECIES	10	ENSGT00940000162535	ENSGT00390000004632	ENSGT00940000154704.d.b #7	ENSGT00940000165723.b #8	ENSGT00940000156675.c #9	ENSGT00940000155309.o #10	ENSGT00940000154445.a #14	ENSGT00940000156883 #15	ENSGT00510000047589 #16	ENSGT00940000155710.a #17	ENSGT00740000116794 #18	ENSGT00740000115593 #19	ENSGT00860000134673	ENSGT00530000068411 #20	ENSGT00940000167270 #21	ENSGT00940000158120 #22	ENSGT00940000156925.v #23	ENSGT00940000154518.b #24	ENSGT00940000155139 #25	ENSGT00390000013968 #26	ENSGT00660000095541.a.a #27	ENSGT00390000004582 #28	ENSGT00940000165073.a.b.b.b.a.b	ENSGT00940000168728	ENSGT00940000164834.a	ENSGT01030000234613.b.a.b.h #30	ENSGT01030000234613.b.a.b.g #31	ENSGT01030000234613.b.a.a.c.a #32	ENSGT00390000016478.c.b #33	ENSGT00940000154862.x.b #34	ENSGT00950000182772.A.a.b.`b.a #35
Electric eel	MODERN SPECIES	1	HPSE2 (ENSEEEG00000003368)	hps1 (ENSEEEG00000003372)	st3gal7 (ENSEEEG00000003373)	morn4 (ENSEEEG00000003374)	nkx1.2la (ENSEEEG00000003375)	prkg1a (ENSEEEG00000003379) #7	dkk1a (ENSEEEG00000003389) #8	pcdh15a (ENSEEEG00000003396) #9	ENSEEEG00000003400 #10	cisd1 (ENSEEEG00000003401) #14	DHX57 (ENSEEEG00000003403) #15	galm (ENSEEEG00000003433) #16	atl2 (ENSEEEG00000003481) #17	hells (ENSEEEG00000004554) #19	ENSEEEG00000004611 #21	macroh2a2 (ENSEEEG00000004618) #22	ENSEEEG00000004622	pitx3 (ENSEEEG00000004623) #24	PNLIPRP2 (ENSEEEG00000004628) #25	gins1 (ENSEEEG00000004750) #26	ninl (ENSEEEG00000004759) #27	AIFM2 (ENSEEEG00000004763) #28	ENSEEEG00000004768	ENSEEEG00000004773	ENSEEEG00000004775 #32	EIF5 (ENSEEEG00000004780) #33	mark3a (ENSEEEG00000004785) #34	ckba (ENSEEEG00000004850) #35	ENSEEEG00000004949	trmt61a (ENSEEEG00000004950) #36	bag5 (ENSEEEG00000004951) #37
Characoidei	ANCESTRAL SPECIES	5	ENSGT00940000162535	ENSGT00390000004632	ENSGT00940000154704.d.b #7	ENSGT00940000165723.b #8	ENSGT00940000156675.c #9	ENSGT00940000155309.o #10	ENSGT00940000154445.a #14	ENSGT00940000156883 #15	ENSGT00510000047589 #16	ENSGT00940000155710.a #17	ENSGT00740000116794 #18	ENSGT00740000115593 #19	ENSGT00860000134673	ENSGT00530000068411 #20	ENSGT00940000167270 #21	ENSGT00940000158120 #22	ENSGT00940000156925.v #23	ENSGT00940000154518.b #24	ENSGT00940000155139 #25	ENSGT00390000013968 #26	ENSGT00660000095541.a.a #27	ENSGT00390000004582 #28	ENSGT00940000160366	ENSGT00940000165073.a.b.b.b.a.b	ENSGT00940000156837	ENSGT00940000164834.a	ENSGT01030000234613.b.a.b.h #30	ENSGT01030000234613.b.a.b.g #31	ENSGT01030000234613.b.a.a.c.a #32	ENSGT00390000016478.c.b #33	ENSGT00940000154862.x.b #34
Red-bellied piranha	MODERN SPECIES	10	ENSPNAG00000030093	morn4 (ENSPNAG00000030091)	nkx1.2la (ENSPNAG00000030090)	prkg1a (ENSPNAG00000030089) #7	dkk1a (ENSPNAG00000030084) #8	pcdh15a (ENSPNAG00000030069) #9	ENSPNAG00000030016 #10	cisd1 (ENSPNAG00000030012) #14	DHX57 (ENSPNAG00000030009) #15	galm (ENSPNAG00000030001) #16	atl2 (ENSPNAG00000029989) #17	ENSPNAG00000029973 #18	hells (ENSPNAG00000029968) #19	ENSPNAG00000006895 #20	ENSPNAG00000029953 #21	macroh2a2 (ENSPNAG00000029946) #22	GBF1 (ENSPNAG00000029938) #23	pitx3 (ENSPNAG00000029928) #24	PNLIPRP2 (ENSPNAG00000029920) #25	gins1 (ENSPNAG00000029876) #26	ninl (ENSPNAG00000029902) #27	AIFM2 (ENSPNAG00000029863) #28	ENSPNAG00000029857	ENSPNAG00000004680	ENSPNAG00000029833	ENSPNAG00000029830	ENSPNAG00000029823	ENSPNAG00000029810 #30	ENSPNAG00000029805 #30	exoc3l4 (ENSPNAG00000004678) #31	ENSPNAG00000029768 #32
Mexicana tetra	MODERN SPECIES	17	dkk1a (ENSAMXG00000036955) #8	pcdh15a (ENSAMXG00000002174) #9	ENSAMXG00000043287	ENSAMXG00000037132	ENSAMXG00000035834	ENSAMXG00000002153 #10	cisd1 (ENSAMXG00000029084) #14	DHX57 (ENSAMXG00000002141) #15	galm (ENSAMXG00000002135) #16	atl2 (ENSAMXG00000002117) #17	ENSAMXG00000002107 #18	hells (ENSAMXG00000002088) #19	ENSAMXG00000042009	ENSAMXG00000040001 #20	ENSAMXG00000002073 #21	macroh2a2 (ENSAMXG00000002015) #22	GBF1 (ENSAMXG00000002009) #23	pitx3 (ENSAMXG00000029072) #24	PNLIPRP2 (ENSAMXG00000002005) #25	gins1 (ENSAMXG00000041281) #26	ninl (ENSAMXG00000001987) #27	AIFM2 (ENSAMXG00000001966) #28	ENSAMXG00000034311	ENSAMXG00000029877	ENSAMXG00000035908	ENSAMXG00000038628	ENSAMXG00000033759	exoc3l4 (ENSAMXG00000001925) #31	ENSAMXG00000001905 #32	EIF5 (ENSAMXG00000001895) #33	mark3a (ENSAMXG00000001870) #34
Cyprinoidei	ANCESTRAL SPECIES	5	ENSGT00940000167263	ENSGT00940000158638	ENSGT00940000154141.B	ENSGT00940000165391	ENSGT00940000164285.a.f	ENSGT00940000154711.a.a	ENSGT00940000155930.g.a	ENSGT00940000156883 #15	ENSGT00510000047589 #16	ENSGT00940000155710.a #17	ENSGT00740000116794 #18	ENSGT00740000115593 #19	ENSGT00530000068411 #20	ENSGT00940000167270 #21	ENSGT00940000154865	ENSGT00940000158120 #22	ENSGT00940000156925.v #23	ENSGT00940000154518.b #24	ENSGT00390000013968.c #26	ENSGT00660000095541.a.a #27	ENSGT00390000004582 #28	ENSGT00940000160366	ENSGT00940000165073.a.b.b.b.a.b	ENSGT00940000164834.a	ENSGT01030000234613.b.a.b.h #30	ENSGT01030000234613.b.a.b.g #31	ENSGT01030000234613.b.a.a.c.a #32	ENSGT00390000016478.c.b #33	ENSGT00940000154862.x.b #34	ENSGT00950000182772.A.a.b.`b.a #35	ENSGT01030000234848
Cyprininae	DUPLICATION
Cyprininae	ANCESTRAL SPECIES	87	ENSGT00730000110943.B.c.b	ENSGT00950000182980.a.b.b.b.gc.b	ENSGT00940000158638.l	ENSGT00940000154141.B.eb	ENSGT00940000165391.b	ENSGT00940000164285.a.f.a	ENSGT00940000154711.a.a.d	ENSGT00940000155930.g.a.b	ENSGT00940000156883.h #15	ENSGT00510000047589 #16	ENSGT00940000155710.a.l #17	ENSGT00740000116794 #18	ENSGT00740000115593.a #19	ENSGT00530000068411 #20	ENSGT00940000154865.kc.b	ENSGT00940000158120.g #22	ENSGT00940000156925.v.a #23	ENSGT00940000154518.b.j #24	ENSGT00390000013968.c #26	ENSGT00660000095541.a.a.i #27	ENSGT00390000004582.e #28	ENSGT00940000160366.i	ENSGT00940000165073.a.b.b.b.a.b	ENSGT00940000164834.a	ENSGT01030000234613.b.a.b.g.b #31	ENSGT01030000234613.b.a.a.c.a.a #32	ENSGT00390000016478.c.b #33	ENSGT00940000154862.x.b.l #34	ENSGT01100000266056	ENSGT00950000182772.A.a.b.`b.a.n #35	ENSGT00940000154239.a.e.b #36
Cyprininae_a	ANCESTRAL SPECIES	53	ENSGT00940000167711.a.a.b	ENSGT00730000110943.B.c.b	ENSGT00950000182980.a.b.b.b.gc.b	ENSGT00940000158638.l	ENSGT00940000154141.B.eb	ENSGT00940000165391.b	ENSGT00940000164285.a.f.a	ENSGT00940000154711.a.a.d	ENSGT00940000155930.g.a.b	ENSGT00940000156883.h #15	ENSGT00510000047589 #16	ENSGT00940000155710.a.l #17	ENSGT00740000115593.a #19	ENSGT00530000068411 #20	ENSGT00940000154865.kc.b	ENSGT00940000158120.g #22	ENSGT00940000156925.v.a #23	ENSGT00940000154518.b.j #24	ENSGT00390000013968.c #26	ENSGT00660000095541.a.a.i #27	ENSGT00390000004582.e #28	ENSGT00940000160366.i	ENSGT00940000165073.a.b.b.b.a.b	ENSGT00940000164834.a	ENSGT01030000234613.b.a.b.h #30	ENSGT01030000234613.b.a.b.g.a #31	ENSGT01030000234613.b.a.a.c.a.b #32	ENSGT00390000016478.c.a.b ##33	ENSGT00940000154862.x.b.k #34	ENSGT00950000182772.A.a.b.`b.a.m #35	ENSGT00940000154239.a.f #36
Common carp reference	MODERN SPECIES	48	ENSCCRG00000001182	ENSCCRG00000001175	calm2a (ENSCCRG00000080623)	TTC7A (ENSCCRG00000021494)	mcfd2 (ENSCCRG00000025548)	ENSCCRG00000079722	socs5b (ENSCCRG00000055545)	ENSCCRG00000067455	epas1b (ENSCCRG00000027310)	atl2 (ENSCCRG00000029458) #17	galm (ENSCCRG00000058321) #16	hells (ENSCCRG00000029434) #19	ENSCCRG00000052977 #20	ENSCCRG00000025131 #21	ENSCCRG00000072851	macroh2a2 (ENSCCRG00000027439) #22	ENSCCRG00000027640 #23	pitx3 (ENSCCRG00000047836) #24	ENSCCRG00000031584	gins1 (ENSCCRG00000018976) #26	ninl (ENSCCRG00000018970) #27	ENSCCRG00000018965 #28	ENSCCRG00000055451	ENSCCRG00000018951	ENSCCRG00000018947 #30	exoc3l4 (ENSCCRG00000075093) #31	ENSCCRG00000018917 #32	ENSCCRG00000067235 ##33	MARK3 (ENSCCRG00000018569) #34	bag5 (ENSCCRG00000020801) #37	ENSCCRG00000018566
Goldfish	MODERN SPECIES	31	PLEKHH2 (ENSCARG00000058871)	epcam (ENSCARG00000058790)	calm2a (ENSCARG00000058664)	TTC7A (ENSCARG00000058641)	mcfd2 (ENSCARG00000058626)	ENSCARG00000058618	socs5b (ENSCARG00000058600)	ENSCARG00000058592	PRKCE (ENSCARG00000058387)	epas1b (ENSCARG00000056927)	galm (ENSCARG00000056791) #16	atl2 (ENSCARG00000052292) #17	ENSCARG00000052052 #18	hells (ENSCARG00000051495) #19	ENSCARG00000051148 #21	macroh2a2 (ENSCARG00000051088) #22	GBF1 (ENSCARG00000050901) #23	pitx3 (ENSCARG00000050860) #24	gins1 (ENSCARG00000050815) #26	ninl (ENSCARG00000050765) #27	AIFM2 (ENSCARG00000050745) #28	ENSCARG00000050720	ENSCARG00000050710	ENSCARG00000050690 #30	exoc3l4 (ENSCARG00000050658) #31	ENSCARG00000050635 #32	ENSCARG00000050625	EIF5 (ENSCARG00000050598) #33	mark3a (ENSCARG00000046908) #34	ENSCARG00000046809	ckba (ENSCARG00000046562) #35
Cyprininae	ANCESTRAL SPECIES	802										ENSGT00940000155930.g.a.a	ENSGT00940000156883.g #15	ENSGT00940000155710.a.k #17	ENSGT00740000115593.b #19	ENSGT00940000167270 #21	ENSGT00940000154865.kc.a	ENSGT00940000158120.h #22	ENSGT00940000156925.v.b #23	ENSGT00940000154518.b.i #24
Goldfish	MODERN SPECIES	4	tial1 (ENSCARG00000063712)	ENSCARG00000063696	ENSCARG00000063676	rgs17 (ENSCARG00000063664)	ENSCARG00000063550	il22ra2 (ENSCARG00000063530)	rab1ab (ENSCARG00000063350)	tbp (ENSCARG00000063161)	rhoua (ENSCARG00000063145)	rab4a (ENSCARG00000063134)	epas1b (ENSCARG00000062718)	DHX57 (ENSCARG00000062466) #15	atl2 (ENSCARG00000056846) #17	hells (ENSCARG00000056179) #19	ENSCARG00000055916	macroh2a2 (ENSCARG00000055870) #22	GBF1 (ENSCARG00000055550) #23	pitx3 (ENSCARG00000055479) #24	ENSCARG00000055448	ENSCARG00000055436	exoc3l4 (ENSCARG00000055416) #31	ENSCARG00000055390 #32	EIF5 (ENSCARG00000055286) #33	mark3a (ENSCARG00000054962) #34	ENSCARG00000054937	ckba (ENSCARG00000054814) #35	trmt61a (ENSCARG00000054803) #36	bag5 (ENSCARG00000054747) #37	coa8 (ENSCARG00000054688)	klc1a (ENSCARG00000054267)	ttl (ENSCARG00000054215)
Cyprininae_a	ANCESTRAL SPECIES	216	ENSGT00940000157675.b	ENSGT00940000164251.d	ENSGT00950000182980.a.b.b.b.gc.a	ENSGT00940000167263	ENSGT00940000158638.k	ENSGT00940000154141.B.db	ENSGT00940000165391.a	ENSGT00940000164285.a.f.b	ENSGT00940000154711.a.a.c	ENSGT00940000155930.g.a.a	ENSGT00940000156883.g #15	ENSGT00940000155710.a.k #17	ENSGT00740000115593.b #19	ENSGT00940000167270 #21	ENSGT00940000154865.kc.a	ENSGT00940000158120.h #22	ENSGT00940000156925.v.b #23	ENSGT00940000154518.b.i #24	ENSGT01030000234613.b.a.b.g.b #31	ENSGT01030000234613.b.a.a.c.a.a #32	ENSGT00390000016478.c.b #33	ENSGT00940000154862.x.b.l #34
Common carp reference	MODERN SPECIES	18	ENSCCRG00000081416	ENSCCRG00000061863	calm2a (ENSCCRG00000077289)	si:ch211-93n23.7 (ENSCCRG00000027992)	TTC7A (ENSCCRG00000027985)	mcfd2 (ENSCCRG00000063255)	ENSCCRG00000082634	socs5b (ENSCCRG00000067878)	ENSCCRG00000075770	epas1b (ENSCCRG00000024181)	ENSCCRG00000024186 #15	atl2 (ENSCCRG00000060545) #17	hells (ENSCCRG00000027223) #19	ENSCCRG00000056281 #21	ENSCCRG00000073729	macroh2a2 (ENSCCRG00000018156) #22	ENSCCRG00000038554 #23	pitx3 (ENSCCRG00000038544) #24	ENSCCRG00000078542	ENSCCRG00000041921	ENSCCRG00000018934 #31	ENSCCRG00000018498 #32	EIF5 (ENSCCRG00000018349) #33	mark3a (ENSCCRG00000074047) #34	ckba (ENSCCRG00000018553) #35	trmt61a (ENSCCRG00000055745) #36	bag5 (ENSCCRG00000031680) #37	coa8 (ENSCCRG00000020794)	klc1a (ENSCCRG00000061513)	ttl (ENSCCRG00000023529)	fignl1 (ENSCCRG00000063996)
Golden-line barbel	MODERN SPECIES	116									ENSSGRG00000024169	epas1b (ENSSGRG00000023515)	galm (ENSSGRG00000023513) #16	DHX57 (ENSSGRG00000023512) #15	atl2 (ENSSGRG00000023176) #17	hells (ENSSGRG00000022846) #19	ENSSGRG00000022842 #21	macroh2a2 (ENSSGRG00000022749) #22	GBF1 (ENSSGRG00000022584) #23	pitx3 (ENSSGRG00000022571) #24	gins1 (ENSSGRG00000022567) #26	ninl (ENSSGRG00000022553) #27	ENSSGRG00000022547 #28	ENSSGRG00000022546	ENSSGRG00000022544	ENSSGRG00000022543	ENSSGRG00000022540	ENSSGRG00000022536 #32	ENSSGRG00000022422 #33	mark3a (ENSSGRG00000020219) #34	ENSSGRG00000020175	ckba (ENSSGRG00000020174) #35	trmt61a (ENSSGRG00000020170) #36
Zebrafish	MODERN SPECIES	4	ENSDARG00000087190	calm2a (ENSDARG00000031427)	si:ch211-93n23.7 (ENSDARG00000089552)	TTC7A (ENSDARG00000074760)	mcfd2 (ENSDARG00000039757)	prop1 (ENSDARG00000039756)	socs5b (ENSDARG00000062745)	PRKCE (ENSDARG00000069928)	epas1b (ENSDARG00000057671)	DHX57 (ENSDARG00000057660) #15	galm (ENSDARG00000057630) #16	atl2 (ENSDARG00000057719) #17	ENSDARG00000075943 #18	hells (ENSDARG00000057738) #19	ENSDARG00000092199 #20	macroh2a2 (ENSDARG00000087897) #22	GBF1 (ENSDARG00000027016) #23	pitx3 (ENSDARG00000070069) #24	ENSDARG00000093267	ENSDARG00000102319	ENSDARG00000058160 #32	exoc3l4 (ENSDARG00000058180) #31	ENSDARG00000061714 #30	ENSDARG00000108535	AIFM2 (ENSDARG00000077549) #28	ninl (ENSDARG00000098414) #27	gins1 (ENSDARG00000007624) #26	RPS6KA2 (ENSDARG00000028469)	rnaset2 (ENSDARG00000036282)	ENSDARG00000110698	csmd1a (ENSDARG00000044414)