Pecora	ANCESTRAL SPECIES	13	ENSGT00940000163435.f #7	ENSGT01100000264273	ENSGT00390000010641 #8	ENSGT00940000162875 #9	ENSGT00940000162775	ENSGT00940000154816.a.a #11	ENSGT00940000155904.e.b #12	ENSGT00960000191071 #13	ENSGT00530000063359.B #14	ENSGT00940000155904.e.a #15	ENSGT00390000003049 #16	ENSGT00950000182881.a.b.a.b #18	ENSGT00950000182939.a.b.b #19	ENSGT00940000156431 #20	ENSGT00940000153377.B #21	ENSGT00940000156574.C #22	ENSGT00390000009899.a.d #23	ENSGT00390000009663 #24	ENSGT00940000161379 #25	ENSGT01060000248595.b.a.b.a #26	ENSGT00390000005535 #28	ENSGT00930000151035.a #29	ENSGT01030000234639.A.b.a.b.b.d ##31	ENSGT01030000234639.A.b.a.b.b.c #30	ENSGT01030000234639.A.b.a.a #31	ENSGT00940000159763	ENSGT00940000157816 #33	ENSGT00390000009426 #34	ENSGT00940000160601 #35	ENSGT00940000158825 #36	ENSGT00940000161128 #37
Percora_a	ANCESTRAL SPECIES	16	ENSGT00940000163435.f #7	ENSGT01100000264273	ENSGT00390000010641 #8	ENSGT00940000162875 #9	ENSGT00940000162775	ENSGT00940000154816.a.a #11	ENSGT00940000155904.e.b #12	ENSGT00960000191071 #13	ENSGT00530000063359.B #14	ENSGT00940000155904.e.a #15	ENSGT00390000003049 #16	ENSGT00950000182881.a.b.a.b #18	ENSGT00950000182939.a.b.b #19	ENSGT00940000156431 #20	ENSGT00940000153377.B #21	ENSGT00940000156574.C #22	ENSGT00390000009899.a.d #23	ENSGT00390000009663 #24	ENSGT00940000161379 #25	ENSGT01060000248595.b.a.b.a #26	ENSGT00390000005535 #28	ENSGT00930000151035.a #29	ENSGT01030000234639.A.b.a.b.b.d ##31	ENSGT01030000234639.A.b.a.b.b.c #30	ENSGT01030000234639.A.b.a.a #31	ENSGT00940000159763	ENSGT00940000157816 #33	ENSGT00390000009426 #34	ENSGT00940000160601 #35	ENSGT00940000158825 #36	ENSGT00940000161128 #37
Bovidae	ANCESTRAL SPECIES	16	ENSGT00940000163435.f #7	ENSGT01100000264273	ENSGT00390000010641 #8	ENSGT00940000162875 #9	ENSGT00940000162775	ENSGT00940000154816.a.a #11	ENSGT00940000155904.e.b #12	ENSGT00960000191071 #13	ENSGT00530000063359.B #14	ENSGT00940000155904.e.a #15	ENSGT00390000003049 #16	ENSGT00950000182881.a.b.a.b #18	ENSGT00950000182939.a.b.b #19	ENSGT00940000156431 #20	ENSGT00940000153377.B #21	ENSGT00940000156574.C #22	ENSGT00390000009899.a.d #23	ENSGT00390000009663 #24	ENSGT00940000161379 #25	ENSGT01060000248595.b.a.b.a #26	ENSGT00390000005535 #28	ENSGT00930000151035.a #29	ENSGT01030000234639.A.b.a.b.b.d ##31	ENSGT01030000234639.A.b.a.b.b.c #30	ENSGT01030000234639.A.b.a.a #31	ENSGT00940000159763	ENSGT00940000157816 #33	ENSGT00390000009426 #34	ENSGT00940000160601 #35	ENSGT00940000158825 #36	ENSGT00940000161128 #37
Caprinae	ANCESTRAL SPECIES	20	ENSGT00390000010641 #8	ENSGT00940000162875 #9	ENSGT00940000162775	ENSGT00940000163374.g	ENSGT00940000163889 #10	ENSGT00940000154816.a.a #11	ENSGT00940000155904.e.b #12	ENSGT00960000191071 #13	ENSGT00530000063359.B #14	ENSGT00940000155904.e.a #15	ENSGT00390000003049 #16	ENSGT00950000182881.a.b.a.b #18	ENSGT00950000182939.a.b.b #19	ENSGT00940000156431 #20	ENSGT00940000153377.B #21	ENSGT00940000156574.C #22	ENSGT00390000009899.a.d #23	ENSGT00390000009663 #24	ENSGT00940000161379 #25	ENSGT01060000248595.b.a.b.a #26	ENSGT00390000005535 #28	ENSGT00930000151035.a #29	ENSGT01030000234639.A.b.a.b.b.c #30	ENSGT01030000234639.A.b.a.a #31	ENSGT00940000159763	ENSGT00940000157816 #33	ENSGT00390000009426 #34	ENSGT00940000160601 #35	ENSGT00940000158825 #36	ENSGT00940000161128 #37	ENSGT00940000157182
Rambouillet Sheep	MODERN SPECIES	13	ENSOARG00020013487 #7	NDUFV1 (ENSOARG00020013585) #8	ENSOARG00020013607 #9	NUDT8 (ENSOARG00020013703) #10	TBX10 (ENSOARG00020013801) #11	ALDH3B2 (ENSOARG00020013912) #12	ENSOARG00020014001 #13	UNC93B1 (ENSOARG00020014035) #14	ENSOARG00020014110 #15	NDUFS8 (ENSOARG00020014383) #16	ENSOARG00020014473 #17	ENSOARG00020014508 #18	CHKA (ENSOARG00020014607) #19	KMT5B (ENSOARG00020014904) #20	ENSOARG00020015122 #21	LRP5 (ENSOARG00020015176) #22	PPP6R3 (ENSOARG00020015496) #23	GAL (ENSOARG00020016179) #24	TESMIN (ENSOARG00020016224) #25	CPT1A (ENSOARG00020016497) #26	ENSOARG00020016650 #27	ENSOARG00020016715 #28	IGHMBP2 (ENSOARG00020016777) #29	ENSOARG00020016943 #30	MRGPRF (ENSOARG00020017039) #31	SMIM38 (ENSOARG00020017868) #32	CCND1 (ENSOARG00020018440) #33	LTO1 (ENSOARG00020018493) #34	FGF19 (ENSOARG00020018648) #35	FGF4 (ENSOARG00020018705) #36	FGF3 (ENSOARG00020018755) #37
Goat	MODERN SPECIES	21	CABP2 (ENSCHIG00000009106)	ENSCHIG00000015669	ENSCHIG00000014133 #7	NDUFV1 (ENSCHIG00000022888) #8	ENSCHIG00000020228 #9	ENSCHIG00000019709	ENSCHIG00000026949	ALDH3B2 (ENSCHIG00000016769) #12	UNC93B1 (ENSCHIG00000026943) #14	ENSCHIG00000026059 #15	ENSCHIG00000013308 #16	TCIRG1 (ENSCHIG00000021975) #18	CHKA (ENSCHIG00000014786) #19	KMT5B (ENSCHIG00000025585) #20	ENSCHIG00000016165 #21	LRP5 (ENSCHIG00000019530) #22	PPP6R3 (ENSCHIG00000020367) #23	GAL (ENSCHIG00000024788) #24	TESMIN (ENSCHIG00000026439) #25	ENSCHIG00000019619	CPT1A (ENSCHIG00000015344) #26	MRPL21 (ENSCHIG00000020757) #28	IGHMBP2 (ENSCHIG00000011703) #29	ENSCHIG00000008487 ##31	MRGPRF (ENSCHIG00000024512) #31	TPCN2 (ENSCHIG00000024724)	CCND1 (ENSCHIG00000010534) #33	LTO1 (ENSCHIG00000016576) #34	FGF19 (ENSCHIG00000012980) #35	FGF4 (ENSCHIG00000010447) #36	FGF3 (ENSCHIG00000001606) #37
Bovinae	ANCESTRAL SPECIES	24	ENSGT00940000163435.f #7	ENSGT01100000264273	ENSGT00390000010641 #8	ENSGT00940000162875 #9	ENSGT00940000162775	ENSGT00940000154816.a.a #11	ENSGT00940000155904.e.b #12	ENSGT00960000191071 #13	ENSGT00530000063359.B #14	ENSGT00940000155904.e.a #15	ENSGT00390000003049 #16	ENSGT00950000182881.a.b.a.b #18	ENSGT00950000182939.a.b.b #19	ENSGT00940000156431 #20	ENSGT00940000153377.B #21	ENSGT00940000156574.C #22	ENSGT00390000009899.a.d #23	ENSGT00390000009663 #24	ENSGT00940000161379 #25	ENSGT01060000248595.b.a.b.a #26	ENSGT00390000005535 #28	ENSGT00930000151035.a #29	ENSGT01030000234639.A.b.a.b.b.d ##31	ENSGT01030000234639.A.b.a.b.b.c #30	ENSGT01030000234639.A.b.a.a #31	ENSGT00940000159763	ENSGT00940000157816 #33	ENSGT00390000009426 #34	ENSGT00940000160601 #35	ENSGT00940000158825 #36	ENSGT00940000161128 #37
American bison	MODERN SPECIES	3011	CDK2AP2 (ENSBBBG00000011578)	CABP2 (ENSBBBG00000002134)	ENSBBBG00000011647	ENSBBBG00000011688 #7	NDUFV1 (ENSBBBG00000006837) #8	ENSBBBG00000002170	TBX10 (ENSBBBG00000011733) #11	ALDH3B2 (ENSBBBG00000011745) #12	UNC93B1 (ENSBBBG00000011762) #14	ENSBBBG00000008099 #15	NDUFS8 (ENSBBBG00000011803) #16	TCIRG1 (ENSBBBG00000011829) #18	CHKA (ENSBBBG00000002204) #19	KMT5B (ENSBBBG00000011927) #20	ENSBBBG00000008495 #21	LRP5 (ENSBBBG00000007211) #22	PPP6R3 (ENSBBBG00000002323) #23	GAL (ENSBBBG00000007883) #24	TESMIN (ENSBBBG00000012323) #25	CPT1A (ENSBBBG00000012354) #26	MRPL21 (ENSBBBG00000002340) #28	ENSBBBG00000012361	MRGPRD (ENSBBBG00000002343) #30	MRGPRF (ENSBBBG00000012368) #31	TPCN2 (ENSBBBG00000012427)	ENSBBBG00000002380 #33	ENSBBBG00000002382 #33	LTO1 (ENSBBBG00000012464) #34	FGF19 (ENSBBBG00000012472) #35	FGF4 (ENSBBBG00000012474) #36	ANO1 (ENSBBBG00000012506)
Bos	ANCESTRAL SPECIES	11	ENSGT01100000264273	ENSGT00390000010641 #8	ENSGT00940000162875 #9	ENSGT00940000162775	ENSGT00940000154816.a.a #11	ENSGT00940000155904.e.b #12	ENSGT00960000191071 #13	ENSGT00530000063359.B #14	ENSGT00940000155904.e.a #15	ENSGT00390000003049 #16	ENSGT00950000182881.a.b.a.b #18	ENSGT00950000182939.a.b.b #19	ENSGT00940000156431 #20	ENSGT00940000153377.B #21	ENSGT00950000182901.a.a.b.b.a.b.a.b.a.a.a	ENSGT00940000156574.C #22	ENSGT00390000009899.a.d #23	ENSGT00390000009663 #24	ENSGT00940000161379 #25	ENSGT01060000248595.b.a.b.a #26	ENSGT00390000005535 #28	ENSGT00930000151035.a #29	ENSGT01030000234639.A.b.a.b.b.d ##31	ENSGT01030000234639.A.b.a.b.b.c #30	ENSGT01030000234639.A.b.a.a #31	ENSGT00940000159763	ENSGT00940000157816 #33	ENSGT00390000009426 #34	ENSGT00940000160601 #35	ENSGT00940000158825 #36	ENSGT00940000161128 #37
Bos_b	ANCESTRAL SPECIES	10	ENSGT00940000164125	ENSGT00940000163435.f #7	ENSGT01100000264273	ENSGT00390000010641 #8	ENSGT00940000162875 #9	ENSGT00940000154816.a.a #11	ENSGT00940000155904.e.b #12	ENSGT00530000063359.B #14	ENSGT00940000155904.e.a #15	ENSGT00390000003049 #16	ENSGT00950000182881.a.b.a.b #18	ENSGT00950000182939.a.b.b #19	ENSGT00940000156431 #20	ENSGT00940000153377.B #21	ENSGT00950000182901.a.a.b.b.a.b.a.b.a.a.a	ENSGT00940000156574.C #22	ENSGT00390000009899.a.d #23	ENSGT00390000009663 #24	ENSGT00940000161379 #25	ENSGT01060000248595.b.a.b.a #26	ENSGT00390000005535 #28	ENSGT00930000151035.a #29	ENSGT01030000234639.A.b.a.b.b.d ##31	ENSGT01030000234639.A.b.a.b.b.c #30	ENSGT01030000234639.A.b.a.a #31	ENSGT00940000159763	ENSGT00940000157816 #33	ENSGT00390000009426 #34	ENSGT00940000160601 #35	ENSGT00940000158825 #36	ENSGT00940000161128 #37
Hybrid Bos Indicus	MODERN SPECIES	21	CABP2 (ENSBIXG00005021047)	ENSBIXG00005021109 #7	ENSBIXG00005021129	NDUFV1 (ENSBIXG00005021193) #8	ENSBIXG00005007675 #9	TBX10 (ENSBIXG00005021245) #11	ENSBIXG00005021275 #12	UNC93B1 (ENSBIXG00005021297) #14	ENSBIXG00005021420 #15	NDUFS8 (ENSBIXG00005006662) #16	TCIRG1 (ENSBIXG00005021556) #18	ENSBIXG00005006157 #19	KMT5B (ENSBIXG00005021706) #20	ENSBIXG00005021733 #21	ENSBIXG00005021753	LRP5 (ENSBIXG00005005995) #22	PPP6R3 (ENSBIXG00005003728) #23	ENSBIXG00005022087 #24	TESMIN (ENSBIXG00005022165) #25	CPT1A (ENSBIXG00005022352) #26	ENSBIXG00005022450 #28	IGHMBP2 (ENSBIXG00005022495) #29	ENSBIXG00005022523 ##31	ENSBIXG00005022549 #30	MRGPRF (ENSBIXG00005022567) #31	TPCN2 (ENSBIXG00005005450)	CCND1 (ENSBIXG00005003878) #33	LTO1 (ENSBIXG00005022702) #34	FGF19 (ENSBIXG00005022715) #35	FGF4 (ENSBIXG00005022740) #36	FGF3 (ENSBIXG00005003897) #37
Cow	MODERN SPECIES	21	CDK2AP2 (ENSBTAG00000002121)	CABP2 (ENSBTAG00000022209)	GSTP1 (ENSBTAG00000003548)	GSTP1 (ENSBTAG00000051210) #7	NDUFV1 (ENSBTAG00000021776) #8	DOC2G (ENSBTAG00000021777) #9	TBX10 (ENSBTAG00000011816) #11	ENSBTAG00000012054 #12	UNC93B1 (ENSBTAG00000001193) #14	ALDH3B1 (ENSBTAG00000013093) #15	NDUFS8 (ENSBTAG00000012072) #16	TCIRG1 (ENSBTAG00000000292) #18	CHKA (ENSBTAG00000010304) #19	KMT5B (ENSBTAG00000001185) #20	C29H11orf24 (ENSBTAG00000004392) #21	LRP5 (ENSBTAG00000005903) #22	ENSBTAG00000011830	PPP6R3 (ENSBTAG00000009584) #23	GAL (ENSBTAG00000009393) #24	TESMIN (ENSBTAG00000053218) #25	CPT1A (ENSBTAG00000021999) #26	MRPL21 (ENSBTAG00000004348) #28	IGHMBP2 (ENSBTAG00000022185) #29	ENSBTAG00000046090 ##31	ENSBTAG00000016774 #30	MRGPRF (ENSBTAG00000015185) #31	TPCN2 (ENSBTAG00000015183)	LTO1 (ENSBTAG00000011898)	CCND1 (ENSBTAG00000017514) #33	FGF19 (ENSBTAG00000017285) #35	FGF4 (ENSBTAG00000012563) #36
Bos_a	ANCESTRAL SPECIES	34	ENSGT00390000010641 #8	ENSGT00940000162875 #9	ENSGT00940000162775	ENSGT00940000154816.a.a #11	ENSGT00940000155904.e.b #12	ENSGT00960000191071 #13	ENSGT00530000063359.B #14	ENSGT00940000155904.e.a #15	ENSGT00940000155904.f ##15	ENSGT00390000003049 #16	ENSGT00950000182881.a.b.a.b #18	ENSGT00950000182939.a.b.b #19	ENSGT00940000156431 #20	ENSGT00940000153377.B #21	ENSGT00950000182901.a.a.b.b.a.b.a.b.a.a.a	ENSGT00940000156574.C #22	ENSGT00390000009899.a.d #23	ENSGT00390000009663 #24	ENSGT00940000161379 #25	ENSGT01060000248595.b.a.b.a #26	ENSGT00390000005535 #28	ENSGT00930000151035.a #29	ENSGT01030000234639.A.b.a.b.b.d ##31	ENSGT01030000234639.A.b.a.b.b.c #30	ENSGT01030000234639.A.b.a.a #31	ENSGT00940000159763	ENSGT00940000157816 #33	ENSGT00390000009426 #34	ENSGT00990000205605	ENSGT00940000160601 #35	ENSGT00940000158825 #36
Wild yak	DUPLICATION
Wild yak	MODERN SPECIES	2316									ENSBMUG00000004387 ##15	NDUFS8 (ENSBMUG00000004400) #16	TCIRG1 (ENSBMUG00000004675) #18	CHKA (ENSBMUG00000005017) #19	KMT5B (ENSBMUG00000005099) #20	ENSBMUG00000005121 #21	ENSBMUG00000005125	ENSBMUG00000005142 #22	ENSBMUG00000005168 #22	PPP6R3 (ENSBMUG00000005493) #23	GAL (ENSBMUG00000005636) #24	TESMIN (ENSBMUG00000005656) #25	CPT1A (ENSBMUG00000005671) #26	MRPL21 (ENSBMUG00000005686) #28	IGHMBP2 (ENSBMUG00000005704) #29	ENSBMUG00000005724 ##31	ENSBMUG00000005759 #30	MRGPRF (ENSBMUG00000005775) #31	TPCN2 (ENSBMUG00000005793)	ENSBMUG00000005824 #33	ENSBMUG00000005837 #33	LTO1 (ENSBMUG00000005875) #34	ENSBMUG00000005895 #36
Wild yak	MODERN SPECIES	2316								ENSBMUG00000004387 ##15	NDUFS8 (ENSBMUG00000004400) #16	TCIRG1 (ENSBMUG00000004675) #18	CHKA (ENSBMUG00000005017) #19	KMT5B (ENSBMUG00000005099) #20	ENSBMUG00000005121 #21	ENSBMUG00000005125	ENSBMUG00000005142 #22	ENSBMUG00000005168 #22	PPP6R3 (ENSBMUG00000005493) #23	GAL (ENSBMUG00000005636) #24	TESMIN (ENSBMUG00000005656) #25	CPT1A (ENSBMUG00000005671) #26	MRPL21 (ENSBMUG00000005686) #28	IGHMBP2 (ENSBMUG00000005704) #29	ENSBMUG00000005724 ##31	ENSBMUG00000005759 #30	MRGPRF (ENSBMUG00000005775) #31	TPCN2 (ENSBMUG00000005793)	ENSBMUG00000005824 #33	ENSBMUG00000005837 #33	LTO1 (ENSBMUG00000005875) #34	ENSBMUG00000005895 #36	ANO1 (ENSBMUG00000005970)
Siberian musk deer	MODERN SPECIES	1226	ENSMMSG00000023744	ENSMMSG00000023730 #7	NDUFV1 (ENSMMSG00000023713) #8	ENSMMSG00000023708 #9	ENSMMSG00000023706	ENSMMSG00000023700	TBX10 (ENSMMSG00000023697) #11	ALDH3B2 (ENSMMSG00000023685) #12	UNC93B1 (ENSMMSG00000023668) #14	ENSMMSG00000023640 #15	NDUFS8 (ENSMMSG00000023617) #16	TCIRG1 (ENSMMSG00000023600) #18	CHKA (ENSMMSG00000023562) #19	KMT5B (ENSMMSG00000023533) #20	ENSMMSG00000023522 #21	LRP5 (ENSMMSG00000023500) #22	PPP6R3 (ENSMMSG00000023347) #23	GAL (ENSMMSG00000023307) #24	TESMIN (ENSMMSG00000023272) #25	CPT1A (ENSMMSG00000023241) #26	MRPL21 (ENSMMSG00000023225) #28	IGHMBP2 (ENSMMSG00000023204) #29	ENSMMSG00000023188 #30	MRGPRF (ENSMMSG00000023179) #31	TPCN2 (ENSMMSG00000023131)	CCND1 (ENSMMSG00000023111) #33	LTO1 (ENSMMSG00000023097) #34	FGF19 (ENSMMSG00000023088) #35	FGF4 (ENSMMSG00000023082) #36	FGF3 (ENSMMSG00000023074) #37
Yarkand deer	MODERN SPECIES	11	ENSCHYG00000003387	ENSCHYG00000003427	NDUFV1 (ENSCHYG00000003440) #8	ENSCHYG00000003458 #9	ENSCHYG00000003477	TBX10 (ENSCHYG00000003486) #11	ALDH3B2 (ENSCHYG00000003514) #12	ENSCHYG00000003548	UNC93B1 (ENSCHYG00000003557) #14	ALDH3B1 (ENSCHYG00000003612)	NDUFS8 (ENSCHYG00000003690) #16	TCIRG1 (ENSCHYG00000003734) #18	CHKA (ENSCHYG00000003799) #19	KMT5B (ENSCHYG00000003849) #20	ENSCHYG00000003880	LRP5 (ENSCHYG00000003897) #22	PPP6R3 (ENSCHYG00000003967) #23	GAL (ENSCHYG00000004104) #24	TESMIN (ENSCHYG00000004115) #25	CPT1A (ENSCHYG00000004136) #26	ENSCHYG00000004181 #28	IGHMBP2 (ENSCHYG00000004233) #29	ENSCHYG00000004308 ##31	ENSCHYG00000004314 #30	MRGPRF (ENSCHYG00000000036) #31	TPCN2 (ENSCHYG00000000093)	CCND1 (ENSCHYG00000000255) #33	LTO1 (ENSCHYG00000000282) #34	FGF19 (ENSCHYG00000000308) #35	FGF4 (ENSCHYG00000000320) #36	FGF3 (ENSCHYG00000000327) #37