Pecora	ANCESTRAL SPECIES	5	ENSGT00950000183015.A #7	ENSGT00940000154544.a #8	ENSGT00390000010591 #9	ENSGT00390000012248 #10	ENSGT00940000157885 #11	ENSGT00390000004284 #12	ENSGT00940000156530.c	ENSGT00390000018052 #13	ENSGT00950000183091.A.b #14	ENSGT00390000015405 #15	ENSGT00390000009597 #17	ENSGT00940000156327 #19	ENSGT00940000156841 #20	ENSGT00910000147214	ENSGT00940000154556 #21	ENSGT00940000154958 #22	ENSGT00810000125473.A #23	ENSGT00940000157081 #24	ENSGT00530000063867.b #25	ENSGT00940000154186.a #26	ENSGT00940000155337 #27	ENSGT00950000183050.b.b.a #28	ENSGT00390000000583 #29	ENSGT00940000153464.B #30	ENSGT00530000063410.a #32	ENSGT00390000016551 #34	ENSGT00940000161234 #35	ENSGT00940000157597	ENSGT00940000153899.b.b #37	ENSGT00940000155345	ENSGT00390000012029
Percora_a	ANCESTRAL SPECIES	13	ENSGT00950000183015.A #7	ENSGT00940000154544.a #8	ENSGT00390000010591 #9	ENSGT00390000012248 #10	ENSGT00940000157885 #11	ENSGT00390000004284 #12	ENSGT00940000156530.c	ENSGT00390000018052 #13	ENSGT00950000183091.A.b #14	ENSGT00390000015405 #15	ENSGT00390000009597 #17	ENSGT00940000156327 #19	ENSGT00940000156841 #20	ENSGT00910000147214	ENSGT00940000154556 #21	ENSGT00940000154958 #22	ENSGT00810000125473.A #23	ENSGT00940000157081 #24	ENSGT00530000063867.b #25	ENSGT00940000154186.a #26	ENSGT00940000155337 #27	ENSGT00950000183050.b.b.a #28	ENSGT00390000000583 #29	ENSGT00940000153464.B #30	ENSGT00530000063410.a #32	ENSGT00390000016551 #34	ENSGT00940000161234 #35	ENSGT00940000157597	ENSGT00940000153899.b.b #37	ENSGT00940000155345	ENSGT00390000012029
Bovidae	ANCESTRAL SPECIES	5	ENSGT00950000183015.A #7	ENSGT00940000154544.a #8	ENSGT00390000010591 #9	ENSGT00390000012248 #10	ENSGT00940000157885 #11	ENSGT00390000004284 #12	ENSGT00940000156530.c	ENSGT00390000018052 #13	ENSGT00950000183091.A.b #14	ENSGT00390000015405 #15	ENSGT00390000009597 #17	ENSGT00940000156327 #19	ENSGT00940000156841 #20	ENSGT00910000147214	ENSGT00940000154556 #21	ENSGT00940000154958 #22	ENSGT00810000125473.A #23	ENSGT00940000157081 #24	ENSGT00530000063867.b #25	ENSGT00940000154186.a #26	ENSGT00940000155337 #27	ENSGT00950000183050.b.b.a #28	ENSGT00390000000583 #29	ENSGT00940000153464.B #30	ENSGT00530000063410.a #32	ENSGT00390000016551 #34	ENSGT00940000161234 #35	ENSGT00940000157597	ENSGT00940000153899.b.b #37	ENSGT00940000155345	ENSGT00390000012029
Bovinae	ANCESTRAL SPECIES	4	ENSGT00940000156279	ENSGT00950000183015.A #7	ENSGT00940000154544.a #8	ENSGT00390000010591 #9	ENSGT00390000012248 #10	ENSGT00940000157885 #11	ENSGT00390000004284 #12	ENSGT00940000156530.c	ENSGT00390000018052 #13	ENSGT00950000183091.A.b #14	ENSGT00390000015405 #15	ENSGT00390000009597 #17	ENSGT00940000156327 #19	ENSGT00940000156841 #20	ENSGT00940000154556 #21	ENSGT00940000154958 #22	ENSGT00810000125473.A #23	ENSGT00940000157081 #24	ENSGT00530000063867.b #25	ENSGT00940000154186.a #26	ENSGT00940000155337 #27	ENSGT00950000183050.b.b.a #28	ENSGT00390000000583 #29	ENSGT00940000153464.B #30	ENSGT00530000063410.a #32	ENSGT00390000016551 #34	ENSGT00940000161234 #35	ENSGT00940000157597	ENSGT00940000153899.b.b #37	ENSGT00940000155345	ENSGT00390000012029
Bos	ANCESTRAL SPECIES	5	ENSGT00940000156279	ENSGT00950000183015.A #7	ENSGT00940000154544.a #8	ENSGT00390000010591 #9	ENSGT00390000012248 #10	ENSGT00940000157885 #11	ENSGT00390000004284 #12	ENSGT00940000156530.c	ENSGT00390000018052 #13	ENSGT00950000183091.A.b #14	ENSGT00390000015405 #15	ENSGT00390000009597 #17	ENSGT00940000156327 #19	ENSGT00940000156841 #20	ENSGT00940000154556.ib ##21	ENSGT00940000154958 #22	ENSGT00810000125473.A #23	ENSGT00940000157081 #24	ENSGT00530000063867.b #25	ENSGT00940000154186.a #26	ENSGT00940000155337 #27	ENSGT00950000183050.b.b.a #28	ENSGT00390000000583 #29	ENSGT00940000153464.B #30	ENSGT00530000063410.a #32	ENSGT00390000011179.o.a #33	ENSGT00390000016551 #34	ENSGT00940000161234 #35	ENSGT00940000157597	ENSGT00940000153899.b.b #37	ENSGT00940000155345
Bos_a	ANCESTRAL SPECIES	6	ENSGT00940000156279	ENSGT00950000183015.A #7	ENSGT00940000154544.a #8	ENSGT00390000010591 #9	ENSGT00390000012248 #10	ENSGT00940000157885 #11	ENSGT00390000004284 #12	ENSGT00940000156530.c	ENSGT00390000018052 #13	ENSGT00950000183091.A.b #14	ENSGT00390000015405 #15	ENSGT00390000009597 #17	ENSGT00940000156327 #19	ENSGT00940000156841 #20	ENSGT00940000154556.ib ##21	ENSGT00940000154958 #22	ENSGT00810000125473.A #23	ENSGT00940000157081 #24	ENSGT00530000063867.b #25	ENSGT00940000154186.a #26	ENSGT00940000155337 #27	ENSGT00950000183050.b.b.a #28	ENSGT00390000000583 #29	ENSGT00940000153464.B #30	ENSGT00530000063410.a #32	ENSGT00390000011179.o.a #33	ENSGT00390000016551 #34	ENSGT00940000161234 #35	ENSGT00940000157597	ENSGT00940000153899.b.b #37	ENSGT00940000155345
Domestic yak	DUPLICATION
Domestic yak	MODERN SPECIES	28	ARHGAP25 (ENSBGRG00000003917) #7	PROKR1 (ENSBGRG00000003888) #8	APLF (ENSBGRG00000003735) #9	FBXO48 (ENSBGRG00000003679) #10	PLEK (ENSBGRG00000003648) #11	CNRIP1 (ENSBGRG00000003591) #12	PNO1 (ENSBGRG00000003558) #13	DNAAF10 (ENSBGRG00000013337) #14	C1D (ENSBGRG00000013288) #15	ENSBGRG00000013266 #16	ETAA1 (ENSBGRG00000013146) #17	ENSBGRG00000013128 #18	MEIS1 (ENSBGRG00000012913) #19	SPRED2 (ENSBGRG00000012585) #20	ACTR2 (ENSBGRG00000012280) #21	RAB1A (ENSBGRG00000012081) #22	CEP68 (ENSBGRG00000011823) #23	SLC1A4 (ENSBGRG00000011713) #24	SERTAD2 (ENSBGRG00000011678) #25	AFTPH (ENSBGRG00000011500) #26	ENSBGRG00000011374 #27	PELI1 (ENSBGRG00000011236) #28	VPS54 (ENSBGRG00000010687) #29	UGP2 (ENSBGRG00000010367) #30	ENSBGRG00000010353 #31	MDH1 (ENSBGRG00000010198) #32	MRPS24 (ENSBGRG00000010129) #33	WDPCP (ENSBGRG00000009982) #34	OTX1 (ENSBGRG00000009943) #35	ENSBGRG00000009929 #36	TMEM17 (ENSBGRG00000009894) #37
Domestic yak	MODERN SPECIES	21	ENSBGRG00000026218	ENSBGRG00000026212	ENSBGRG00000025956	ZNRD2 (ENSBGRG00000025363)	FAM89B (ENSBGRG00000025353)	RNASEH2C (ENSBGRG00000021602)	ENSBGRG00000021054	MUS81 (ENSBGRG00000020712)	ENSBGRG00000020304	ENSBGRG00000020279	DRAP1 (ENSBGRG00000019562)	EIF1AD (ENSBGRG00000018641)	ENSBGRG00000018549	ENSBGRG00000018507	ENSBGRG00000025729	ENSBGRG00000025717 ##22	ENSBGRG00000025701	CNIH2 (ENSBGRG00000025680)	YIF1A (ENSBGRG00000025666)	ENSBGRG00000025656	ENSBGRG00000023725	CCS (ENSBGRG00000022678)	ENSBGRG00000022563	ENSBGRG00000022387	ENSBGRG00000022112	ENSBGRG00000021808	ENSBGRG00000019717	ENSBGRG00000018673	ENSBGRG00000018373	PPP1CA (ENSBGRG00000017991)	CORO1B (ENSBGRG00000014832)
Wild yak	MODERN SPECIES	577										DNAAF10 (ENSBMUG00000020199) #14	C1D (ENSBMUG00000020190) #15	ETAA1 (ENSBMUG00000020179) #17	MEIS1 (ENSBMUG00000020154) #19	SPRED2 (ENSBMUG00000020108) #20	ENSBMUG00000020074 ##21	RAB1A (ENSBMUG00000020049) #22	CEP68 (ENSBMUG00000020034) #23	SLC1A4 (ENSBMUG00000019988) #24
Bos_b	ANCESTRAL SPECIES	16	ENSGT00940000156279	ENSGT00950000183015.A #7	ENSGT00940000154544.a #8	ENSGT00390000010591 #9	ENSGT00390000012248 #10	ENSGT00940000157885 #11	ENSGT00390000004284 #12	ENSGT00940000156530.c	ENSGT00390000018052 #13	ENSGT00950000183091.A.b #14	ENSGT00390000015405 #15	ENSGT00390000009597 #17	ENSGT00940000156327 #19	ENSGT00940000156841 #20	ENSGT00940000154556.ib ##21	ENSGT00940000154958 #22	ENSGT00810000125473.A #23	ENSGT00940000157081 #24	ENSGT00530000063867.b #25	ENSGT00940000154186.a #26	ENSGT00940000155337 #27	ENSGT00950000183050.b.b.a #28	ENSGT00390000000583 #29	ENSGT00940000153464.B #30	ENSGT00530000063410.a #32	ENSGT00390000011179.o.a #33	ENSGT00390000016551 #34	ENSGT00940000161234 #35	ENSGT00940000157597	ENSGT00940000153899.b.b #37	ENSGT00940000155345
Cow	MODERN SPECIES	2	BMP10 (ENSBTAG00000000992)	ARHGAP25 (ENSBTAG00000023976) #7	PROKR1 (ENSBTAG00000050333) #8	APLF (ENSBTAG00000018401) #9	FBXO48 (ENSBTAG00000047772) #10	PLEK (ENSBTAG00000009658) #11	CNRIP1 (ENSBTAG00000001408) #12	PPP3R1 (ENSBTAG00000010619)	PNO1 (ENSBTAG00000010604) #13	DNAAF10 (ENSBTAG00000010595) #14	C1D (ENSBTAG00000049002) #15	ETAA1 (ENSBTAG00000011727) #17	MEIS1 (ENSBTAG00000008448) #19	SPRED2 (ENSBTAG00000019456) #20	ACTR2 (ENSBTAG00000009761) ##21	RAB1A (ENSBTAG00000016720) #22	CEP68 (ENSBTAG00000016717) #23	SLC1A4 (ENSBTAG00000007763) #24	ENSBTAG00000050435	SERTAD2 (ENSBTAG00000049341) #25	AFTPH (ENSBTAG00000009299) #26	LGALSL (ENSBTAG00000055296) #27	ENSBTAG00000053585	PELI1 (ENSBTAG00000020865) #28	VPS54 (ENSBTAG00000000115) #29	UGP2 (ENSBTAG00000000111) #30	MDH1 (ENSBTAG00000019295) #32	ENSBTAG00000023318 #33	WDPCP (ENSBTAG00000005151) #34	OTX1 (ENSBTAG00000006760) #35	EHBP1 (ENSBTAG00000044173)
Hybrid Bos Indicus	MODERN SPECIES	2	APLF (ENSBIXG00005008315) #9	FBXO48 (ENSBIXG00005008327) #10	PLEK (ENSBIXG00005008346) #11	ENSBIXG00005008358	ENSBIXG00005000174 #12	PNO1 (ENSBIXG00005000175) #13	DNAAF10 (ENSBIXG00005008434) #14	C1D (ENSBIXG00005000197) #15	ETAA1 (ENSBIXG00005008485) #17	MEIS1 (ENSBIXG00005000216) #19	SPRED2 (ENSBIXG00005000234) #20	ACTR2 (ENSBIXG00005008678) ##21	CEP68 (ENSBIXG00005006085) #23	SLC1A4 (ENSBIXG00005008778) #24	ENSBIXG00005008797	RAB1A (ENSBIXG00005000282) #22	SERTAD2 (ENSBIXG00005008870) #25	AFTPH (ENSBIXG00005008912) #26	ENSBIXG00005008944 #27	PELI1 (ENSBIXG00005008978) #28	VPS54 (ENSBIXG00005009062) #29	UGP2 (ENSBIXG00005009159) #30	MDH1 (ENSBIXG00005009206) #32	MRPS24 (ENSBIXG00005000425) #33	WDPCP (ENSBIXG00005009244) #34	OTX1 (ENSBIXG00005009282) #35	ENSBIXG00005005799	EHBP1 (ENSBIXG00005000484)	TMEM17 (ENSBIXG00005000490) #37	B3GNT2 (ENSBIXG00005005908)	COMMD1 (ENSBIXG00005009417)
American bison	MODERN SPECIES	3346													MEIS1 (ENSBBBG00000000788) #19	SPRED2 (ENSBBBG00000003896) #20	ENSBBBG00000003899 #21	RAB1A (ENSBBBG00000015620) #22	CEP68 (ENSBBBG00000015639) #23	SLC1A4 (ENSBBBG00000003906) #24	AFTPH (ENSBBBG00000015672) #26	LGALSL (ENSBBBG00000003917) #27	PELI1 (ENSBBBG00000015700) #28	VPS54 (ENSBBBG00000015810) #29	UGP2 (ENSBBBG00000015846) #30	MDH1 (ENSBBBG00000015910) #32	WDPCP (ENSBBBG00000015935) #34	OTX1 (ENSBBBG00000015949) #35	EHBP1 (ENSBBBG00000016143)	TMEM17 (ENSBBBG00000016175) #37	ENSBBBG00000016179	B3GNT2 (ENSBBBG00000000770)	COMMD1 (ENSBBBG00000016189)
Caprinae	ANCESTRAL SPECIES	9	ENSGT00950000183015.A #7	ENSGT00940000154544.a #8	ENSGT00390000010591 #9	ENSGT00390000012248 #10	ENSGT00940000157885 #11	ENSGT00390000004284 #12	ENSGT00940000156530.c	ENSGT00390000018052 #13	ENSGT00950000183091.A.b #14	ENSGT00390000015405 #15	ENSGT00390000009597 #17	ENSGT00940000156327 #19	ENSGT00940000156841 #20	ENSGT00910000147214	ENSGT00940000154556 #21	ENSGT00940000154958 #22	ENSGT00810000125473.A #23	ENSGT00940000157081 #24	ENSGT00940000154186.a #26	ENSGT00940000155337.h #27	ENSGT00950000183050.b.b.a #28	ENSGT00390000000583 #29	ENSGT00940000153464.B #30	ENSGT00530000063410.a.i #32	ENSGT00390000016551 #34	ENSGT00940000161234 #35	ENSGT00940000157597	ENSGT00940000153899.b.b #37	ENSGT00940000155345	ENSGT00390000012029	ENSGT00550000074956.w
Rambouillet Sheep	MODERN SPECIES	19	APLF (ENSOARG00020007769) #9	PROKR1 (ENSOARG00020007957) #8	FBXO48 (ENSOARG00020007981) #10	PLEK (ENSOARG00020000213) #11	CNRIP1 (ENSOARG00020000300) #12	PPP3R1 (ENSOARG00020000338)	PNO1 (ENSOARG00020000405) #13	DNAAF10 (ENSOARG00020000424) #14	C1D (ENSOARG00020000448) #15	ETAA1 (ENSOARG00020000471) #17	MEIS1 (ENSOARG00020000528) #19	ENSOARG00020000610	SPRED2 (ENSOARG00020000634) #20	ACTR2 (ENSOARG00020000701) #21	ENSOARG00020000747	RAB1A (ENSOARG00020000781) #22	SLC1A4 (ENSOARG00020000870) #24	ENSOARG00020000886	SERTAD2 (ENSOARG00020000894) #25	LGALSL (ENSOARG00020000922) #27	PELI1 (ENSOARG00020000937) #28	ENSOARG00020000952	VPS54 (ENSOARG00020000984) #29	UGP2 (ENSOARG00020001100) #30	MDH1 (ENSOARG00020001156) #32	WDPCP (ENSOARG00020001233) #34	OTX1 (ENSOARG00020001249) #35	EHBP1 (ENSOARG00020001291)	TMEM17 (ENSOARG00020001441) #37	B3GNT2 (ENSOARG00020001451)	COMMD1 (ENSOARG00020001461)
Goat	MODERN SPECIES	2	ARHGAP25 (ENSCHIG00000025694) #7	PROKR1 (ENSCHIG00000015056) #8	APLF (ENSCHIG00000015145) #9	FBXO48 (ENSCHIG00000018110) #10	PLEK (ENSCHIG00000017674) #11	CNRIP1 (ENSCHIG00000017116) #12	PPP3R1 (ENSCHIG00000004688)	PNO1 (ENSCHIG00000012839) #13	DNAAF10 (ENSCHIG00000022762) #14	C1D (ENSCHIG00000025729) #15	ETAA1 (ENSCHIG00000027011) #17	MEIS1 (ENSCHIG00000027207) #19	SPRED2 (ENSCHIG00000013086) #20	ENSCHIG00000027162	ACTR2 (ENSCHIG00000014272) #21	RAB1A (ENSCHIG00000014060) #22	CEP68 (ENSCHIG00000025433) #23	SLC1A4 (ENSCHIG00000025336) #24	ENSCHIG00000007620	AFTPH (ENSCHIG00000009404) #26	LGALSL (ENSCHIG00000026638) #27	PELI1 (ENSCHIG00000022027) #28	ENSCHIG00000003100	VPS54 (ENSCHIG00000010990) #29	UGP2 (ENSCHIG00000021810) #30	ENSCHIG00000015525 #32	WDPCP (ENSCHIG00000018963) #34	OTX1 (ENSCHIG00000017955) #35	EHBP1 (ENSCHIG00000013762)	TMEM17 (ENSCHIG00000012499) #37	B3GNT2 (ENSCHIG00000009561)
Siberian musk deer	MODERN SPECIES	240	FBXO48 (ENSMMSG00000011229) #10	PLEK (ENSMMSG00000011254) #11	CNRIP1 (ENSMMSG00000011305) #12	ENSMMSG00000011356	ENSMMSG00000011434	PNO1 (ENSMMSG00000011455) #13	DNAAF10 (ENSMMSG00000011471) #14	C1D (ENSMMSG00000011514) #15	ENSMMSG00000006279	ENSMMSG00000006311	ETAA1 (ENSMMSG00000006322) #17	MEIS1 (ENSMMSG00000006369) #19	SPRED2 (ENSMMSG00000006652) #20	ACTR2 (ENSMMSG00000006727) #21	ENSMMSG00000006773	RAB1A (ENSMMSG00000006809) #22	CEP68 (ENSMMSG00000006928) #23	SLC1A4 (ENSMMSG00000007010) #24	ENSMMSG00000007124	SERTAD2 (ENSMMSG00000007146) #25	AFTPH (ENSMMSG00000007162) #26	LGALSL (ENSMMSG00000007219) #27	PELI1 (ENSMMSG00000007255) #28	VPS54 (ENSMMSG00000007345) #29	UGP2 (ENSMMSG00000007620) #30	MDH1 (ENSMMSG00000007784) #32	WDPCP (ENSMMSG00000008007) #34	OTX1 (ENSMMSG00000008093) #35	EHBP1 (ENSMMSG00000008127)	TMEM17 (ENSMMSG00000008258) #37	ENSMMSG00000008292
Yarkand deer	MODERN SPECIES	2	BMP10 (ENSCHYG00000010198)	ARHGAP25 (ENSCHYG00000009972) #7	PROKR1 (ENSCHYG00000009894) #8	ENSCHYG00000009477 #9	FBXO48 (ENSCHYG00000009420) #10	PLEK (ENSCHYG00000009350) #11	CNRIP1 (ENSCHYG00000009217) #12	PNO1 (ENSCHYG00000009166) #13	ENSCHYG00000008783 #14	C1D (ENSCHYG00000008709) #15	ETAA1 (ENSCHYG00000008673) #17	MEIS1 (ENSCHYG00000008476) #19	ENSCHYG00000008453	SPRED2 (ENSCHYG00000008346) #20	ACTR2 (ENSCHYG00000008112) #21	RAB1A (ENSCHYG00000007988) #22	CEP68 (ENSCHYG00000007916) #23	SLC1A4 (ENSCHYG00000007819) #24	ENSCHYG00000007790	SERTAD2 (ENSCHYG00000007769) #25	ENSCHYG00000007734	AFTPH (ENSCHYG00000007630) #26	LGALSL (ENSCHYG00000007576) #27	ENSCHYG00000007544	PELI1 (ENSCHYG00000007493) #28	ENSCHYG00000007473	VPS54 (ENSCHYG00000007200) #29	UGP2 (ENSCHYG00000007083) #30	ENSCHYG00000007056	MDH1 (ENSCHYG00000006887) #32	ENSCHYG00000006867