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