Cyprininae	ANCESTRAL SPECIES	4	ENSGT01100000263505.a	ENSGT00390000003245.x	ENSGT00940000154641.B.a.c.b #8	ENSGT00940000155718.a.a #9	ENSGT00940000154629.B.b #10	ENSGT00940000156598.c.b.a #11	ENSGT00390000017845.p #12	ENSGT00940000175194.a #13	ENSGT00940000165706.c #14	ENSGT00940000157715.i.b	ENSGT00950000182844.a.b.e #15	ENSGT00390000016613.c.e.a.b #17	ENSGT00940000157118.c.a.f #18	ENSGT01060000248724.b #19	ENSGT00390000004923.A.c.b #21	ENSGT00940000166262.a #22	ENSGT00390000009361.c #23	ENSGT00940000165880.b.b #24	ENSGT01100000263516.a.b.b.b.b.a.a.b.a.a.a.a.a.b.a	ENSGT00940000155447.o.a ##26	ENSGT00500000044926.f #27	ENSGT00940000157084.e.b.a.b #28	ENSGT00390000010094.b.d #29	ENSGT00940000177437 #30	ENSGT00950000182898.a.a.a.a.b.h.b #31	ENSGT00530000063692.b.j	ENSGT00950000183154.a.b.e #33	ENSGT00390000016757.u.b	ENSGT00390000003178.c.a.a ##34	ENSGT00940000161693 #35	ENSGT00940000157364.A.b ##36
Cyprininae_a	ANCESTRAL SPECIES	242	ENSGT00390000003245.x	ENSGT00940000154641.B.a.c.b #8	ENSGT00940000155718.a.a #9	ENSGT00940000154629.B.b #10	ENSGT00940000156598.c.b.a #11	ENSGT00390000017845.p #12	ENSGT00940000175194.a #13	ENSGT00940000165706.c #14	ENSGT00940000157715.i.b	ENSGT00950000182844.a.b.e #15	ENSGT00390000016613.c.e.a.b #17	ENSGT00940000157118.c.a.f #18	ENSGT01060000248724.b #19	ENSGT00940000155619.j.b.a.a.b #20	ENSGT00390000004923.A.c.b #21	ENSGT00940000166262.a #22	ENSGT00390000009361.c #23	ENSGT00940000165880.b.b #24	ENSGT01100000263516.a.b.b.b.b.a.a.b.a.a.a.a.a.b.a	ENSGT00940000155447.o.a ##26	ENSGT00500000044926.f #27	ENSGT00940000157084.e.b.a.b #28	ENSGT00390000010094.b.d #29	ENSGT00940000177437 #30	ENSGT00950000182898.a.a.a.a.b.h.b #31	ENSGT00940000155683.d #32	ENSGT00530000063692.b.j	ENSGT00950000183154.a.b.e #33	ENSGT00390000016757.u.b	ENSGT00390000003178.c.a.a ##34	ENSGT00940000157364.A.a #36
Golden-line barbel	MODERN SPECIES	233	ENSSGRG00000015830 #7	ENSSGRG00000015829 #8	khdrbs1a (ENSSGRG00000015827) #9	chp1 (ENSSGRG00000015711) #10	runx3 (ENSSGRG00000015702) #11	syf2 (ENSSGRG00000015694) #12	ENSSGRG00000015693 #13	mgst3b (ENSSGRG00000015685) #14	rhd (ENSSGRG00000015680) #15	ENSSGRG00000015678 #16	ENSSGRG00000015677 #17	ldlrap1b (ENSSGRG00000015676) #18	ENSSGRG00000015675 #19	ENSSGRG00000015674 #20	FNDC5 (ENSSGRG00000015673) #21	olig4 (ENSSGRG00000015672) #22	bsdc1 (ENSSGRG00000015671) #23	marcksl1a (ENSSGRG00000015670) #24	ENSSGRG00000015669 #25	fgfr2 (ENSSGRG00000010598) #26	ATE1 (ENSSGRG00000010424) #27	TMEM63B (ENSSGRG00000010070) #28	ENSSGRG00000010066 #29	ENSSGRG00000010064 #30	slc29a1a (ENSSGRG00000010063) #31	ENSSGRG00000010062 #32	vip (ENSSGRG00000010060) #33	bcl2l11 (ENSSGRG00000009942) #34	ACOXL (ENSSGRG00000009935) #35	lhcgr (ENSSGRG00000009867) #36	ENSSGRG00000009856 #37
Common carp reference	MODERN SPECIES	48	zbtb8os (ENSCCRG00000074760)	ENSCCRG00000033111 #8	khdrbs1a (ENSCCRG00000007262) #9	chp1 (ENSCCRG00000033145) #10	runx3 (ENSCCRG00000064485) #11	ENSCCRG00000059393	syf2 (ENSCCRG00000070331) #12	ENSCCRG00000074798 #13	tmem50a (ENSCCRG00000074210)	rhd (ENSCCRG00000041733) #15	MACO1 (ENSCCRG00000041764) #17	ldlrap1b (ENSCCRG00000042817) #18	ENSCCRG00000042864 #19	ENSCCRG00000082171 #20	ENSCCRG00000042651 #21	olig4 (ENSCCRG00000000358) #22	bsdc1 (ENSCCRG00000000372) #23	ENSCCRG00000053067	ENSCCRG00000073093	fgfr2 (ENSCCRG00000009600) ##26	ENSCCRG00000047389 #27	ENSCCRG00000047413 #28	slc29a1a (ENSCCRG00000047472) #31	ENSCCRG00000047466 #29	ENSCCRG00000073248	fbxo5 (ENSCCRG00000026773)	vip (ENSCCRG00000026783) #33	ENSCCRG00000059986	bcl2l11 (ENSCCRG00000024680) ##34	ENSCCRG00000048885 #37	ENSCCRG00000048882 #36
Goldfish	DUPLICATION
Goldfish	MODERN SPECIES	2775																olig4 (ENSCARG00000056739) #22	bsdc1 (ENSCARG00000056433) #23
Goldfish	MODERN SPECIES	31	glo1 (ENSCARG00000012536)	zbtb8os (ENSCARG00000012550)	ENSCARG00000012562 #8	khdrbs1a (ENSCARG00000012573) #9	chp1 (ENSCARG00000012589) #10	runx3 (ENSCARG00000012622) #11	ENSCARG00000012745	ENSCARG00000012751	ENSCARG00000012755 #13	mgst3b (ENSCARG00000012765) #14	tmem50a (ENSCARG00000012773)	MACO1 (ENSCARG00000012777) #17	ldlrap1b (ENSCARG00000012796) #18	ENSCARG00000016888 #19	FNDC5 (ENSCARG00000016893) #21	olig4 (ENSCARG00000016897) #22	bsdc1 (ENSCARG00000016907) #23	marcksl1a (ENSCARG00000016966) ##24	ENSCARG00000016981	ENSCARG00000016984	ENSCARG00000017005 #37	lhcgr (ENSCARG00000017091) #36	ENSCARG00000017176 ##34	ENSCARG00000017301	vip (ENSCARG00000018077) #33	fbxo5 (ENSCARG00000018093)	slc29a1a (ENSCARG00000018115) #31	ENSCARG00000018254 #29	TMEM63B (ENSCARG00000018299) #28	ATE1 (ENSCARG00000018426) #27	fgfr2 (ENSCARG00000018959) ##26