Pecora	ANCESTRAL SPECIES	18	ENSGT00390000001214	ENSGT00940000159075.A #10	ENSGT00390000001610 #11	ENSGT00940000157035 #13	ENSGT00390000002089.b #12	ENSGT00390000016760.c.a.b ##14	ENSGT00940000153463.a #15	ENSGT00940000159639 #16	ENSGT00930000151053 #17	ENSGT00940000155555 #18	ENSGT00940000169764	ENSGT00390000008212 #19	ENSGT00940000158888 #20	ENSGT00940000154239.a #21	ENSGT01030000235753	ENSGT00950000182772.A.a.b #22	ENSGT00940000154862 #23	ENSGT00950000185142	ENSGT00390000016478.i.a #24	ENSGT00940000164852 #26	ENSGT01030000234613.b.a.a #27	ENSGT01030000234613.b.a.b ##27	ENSGT00610000087423 #28	ENSGT01030000234517.H.a #29	ENSGT00390000007463 #30	ENSGT00940000160538 #31	ENSGT00940000155654 #32	ENSGT00390000018116 #33	ENSGT00940000157283 #34	ENSGT00390000015784 #35	ENSGT00390000002751
Percora_a	ANCESTRAL SPECIES	20	ENSGT00390000001214	ENSGT00940000159075.A #10	ENSGT00390000001610 #11	ENSGT00940000157035 #13	ENSGT00390000002089.b #12	ENSGT00390000016760.c.a.b ##14	ENSGT00940000153463.a #15	ENSGT00940000159639 #16	ENSGT00930000151053 #17	ENSGT00940000155555 #18	ENSGT00940000169764	ENSGT00390000008212 #19	ENSGT00940000158888 #20	ENSGT00940000154239.a #21	ENSGT01030000235753	ENSGT00950000182772.A.a.b #22	ENSGT00940000154862 #23	ENSGT00950000185142	ENSGT00390000016478.i.a #24	ENSGT00940000164852 #26	ENSGT01030000234613.b.a.a #27	ENSGT01030000234613.b.a.b ##27	ENSGT00610000087423 #28	ENSGT01030000234517.H.a #29	ENSGT00390000007463 #30	ENSGT00940000160538 #31	ENSGT00940000155654 #32	ENSGT00390000018116 #33	ENSGT00940000157283 #34	ENSGT00390000015784 #35	ENSGT00390000002751
Bovidae	ANCESTRAL SPECIES	20	ENSGT00390000001214	ENSGT00940000159075.A #10	ENSGT00390000001610 #11	ENSGT00940000157035 #13	ENSGT00390000002089.b #12	ENSGT00390000016760.c.a.b ##14	ENSGT00940000153463.a #15	ENSGT00940000159639 #16	ENSGT00930000151053 #17	ENSGT00940000155555 #18	ENSGT00940000169764	ENSGT00390000008212 #19	ENSGT00940000158888 #20	ENSGT00940000154239.a #21	ENSGT01030000235753	ENSGT00950000182772.A.a.b #22	ENSGT00940000154862 #23	ENSGT00950000185142	ENSGT00390000016478.i.a #24	ENSGT00940000164852 #26	ENSGT01030000234613.b.a.a #27	ENSGT01030000234613.b.a.b ##27	ENSGT00610000087423 #28	ENSGT01030000234517.H.a #29	ENSGT00390000007463 #30	ENSGT00940000160538 #31	ENSGT00940000155654 #32	ENSGT00390000018116 #33	ENSGT00940000157283 #34	ENSGT00390000015784 #35	ENSGT00390000002751
Caprinae	ANCESTRAL SPECIES	36	ENSGT00510000048283.d #9	ENSGT00390000001214	ENSGT00940000159075.A #10	ENSGT00390000001610 #11	ENSGT00940000157035 #13	ENSGT00390000002089.b #12	ENSGT00390000016760.c.b.a #14	ENSGT00390000016760.c.a.b ##14	ENSGT00940000153463.a #15	ENSGT00940000159639 #16	ENSGT00930000151053 #17	ENSGT00940000155555 #18	ENSGT00390000008212 #19	ENSGT00940000158888 #20	ENSGT00940000154239.a #21	ENSGT00950000182772.A.a.b #22	ENSGT00940000154862 #23	ENSGT00390000016478.i.a #24	ENSGT00940000164852 #26	ENSGT01030000234613.b.a.a #27	ENSGT01030000234613.b.a.b ##27	ENSGT00610000087423 #28	ENSGT01030000234517.H.a #29	ENSGT00390000007463 #30	ENSGT00940000160538 #31	ENSGT00940000155654 #32	ENSGT00390000018116 #33	ENSGT00940000157283 #34	ENSGT00390000015784 #35	ENSGT00390000002751	ENSGT00940000159582.d #36
Rambouillet Sheep	MODERN SPECIES	9	ENSOARG00020019462 #7	ENSOARG00020019411 #8	TMEM179 (ENSOARG00020019369) #9	KIF26A (ENSOARG00020018926) #10	ASPG (ENSOARG00020018531) #11	RD3L (ENSOARG00020018479) #12	TDRD9 (ENSOARG00020017845) #13	ENSOARG00020017719 #14	PPP1R13B (ENSOARG00020017481) #15	ZFYVE21 (ENSOARG00020017435) #16	ENSOARG00020017370 #17	KLC1 (ENSOARG00020016907) #18	COA8 (ENSOARG00020016820) #19	BAG5 (ENSOARG00020016804) #20	TRMT61A (ENSOARG00020016758) #21	CKB (ENSOARG00020016713) #22	MARK3 (ENSOARG00020015010) #23	EIF5 (ENSOARG00020014840) #24	ENSOARG00020014771 #25	ENSOARG00020014751 #26	TNFAIP2 (ENSOARG00020014380) #27	LBHD2 (ENSOARG00020014332) #28	CDC42BPB (ENSOARG00020014102) #29	AMN (ENSOARG00020014007) #30	TRAF3 (ENSOARG00020013868) #31	RCOR1 (ENSOARG00020013701) #32	ANKRD9 (ENSOARG00020013669) #33	TECPR2 (ENSOARG00020013345) #34	CINP (ENSOARG00020013201) #35	MOK (ENSOARG00020012890) #36	WDR20 (ENSOARG00020012746) #37
Goat	MODERN SPECIES	13	BTBD6 (ENSCHIG00000012041)	ENSCHIG00000013979 #7	TMEM179 (ENSCHIG00000018701) #9	ENSCHIG00000026025	ASPG (ENSCHIG00000025636) #11	RD3L (ENSCHIG00000025061) #12	TDRD9 (ENSCHIG00000011541) #13	ENSCHIG00000015712 ##14	PPP1R13B (ENSCHIG00000018367) #15	ZFYVE21 (ENSCHIG00000012789) #16	XRCC3 (ENSCHIG00000021019) #17	KLC1 (ENSCHIG00000017179) #18	COA8 (ENSCHIG00000024142) #19	BAG5 (ENSCHIG00000011895) #20	TRMT61A (ENSCHIG00000021168) #21	CKB (ENSCHIG00000017850) #22	MARK3 (ENSCHIG00000018506) #23	EIF5 (ENSCHIG00000021283) #24	ENSCHIG00000011000 ##25	ENSCHIG00000009953 #26	ENSCHIG00000006615 #27	ENSCHIG00000015133 #27	EXOC3L4 (ENSCHIG00000012030) ##27	LBHD2 (ENSCHIG00000016749) #28	CDC42BPB (ENSCHIG00000025348) #29	AMN (ENSCHIG00000008517) #30	TRAF3 (ENSCHIG00000026463) #31	RCOR1 (ENSCHIG00000020773) #32	ANKRD9 (ENSCHIG00000024878) #33	TECPR2 (ENSCHIG00000015446) #34	CINP (ENSCHIG00000021794) #35
Bovinae	ANCESTRAL SPECIES	19	ENSGT00390000001214	ENSGT00940000159075.A #10	ENSGT00390000001610 #11	ENSGT00940000157035 #13	ENSGT00390000002089.b #12	ENSGT00390000016760.c.a.b ##14	ENSGT00940000153463.a #15	ENSGT00940000159639 #16	ENSGT00930000151053 #17	ENSGT00940000155555 #18	ENSGT00940000169764	ENSGT00390000008212 #19	ENSGT00940000158888 #20	ENSGT00940000154239.a #21	ENSGT01030000235753	ENSGT00950000182772.A.a.b #22	ENSGT00940000154862 #23	ENSGT00950000185142	ENSGT00390000016478.i.a #24	ENSGT00940000164852 #26	ENSGT01030000234613.b.a.a #27	ENSGT01030000234613.b.a.b ##27	ENSGT00610000087423 #28	ENSGT01030000234517.H.a #29	ENSGT00390000007463 #30	ENSGT00940000160538 #31	ENSGT00940000153096.b.c.b.b.a.a.b.a.b	ENSGT00940000155654 #32	ENSGT00390000018116 #33	ENSGT00940000157283 #34	ENSGT00390000015784 #35
Bos	ANCESTRAL SPECIES	18	ENSGT00510000048283.d #9	ENSGT00390000001214	ENSGT00940000159075.A #10	ENSGT00390000001610 #11	ENSGT00940000157035 #13	ENSGT00390000002089.b #12	ENSGT00390000016760.c.a.b ##14	ENSGT00940000153463.a #15	ENSGT00940000159639 #16	ENSGT00930000151053 #17	ENSGT00940000155555 #18	ENSGT00390000008212 #19	ENSGT00940000158888 #20	ENSGT00940000154239.a #21	ENSGT01030000235753	ENSGT00950000182772.A.a.b #22	ENSGT00940000154862 #23	ENSGT00950000185142	ENSGT00390000016478.i.a #24	ENSGT00940000164852 #26	ENSGT01030000234613.b.a.a.m.a #27	ENSGT01030000234613.b.a.b ##27	ENSGT00610000087423 #28	ENSGT01030000234517.H.a #29	ENSGT00390000007463 #30	ENSGT00940000160538 #31	ENSGT00940000153096.b.c.b.b.a.a.b.a.b	ENSGT00940000155654 #32	ENSGT00390000018116 #33	ENSGT00940000157283 #34	ENSGT00390000015784 #35
Bos_b	ANCESTRAL SPECIES	18	ENSGT00510000048283.d #9	ENSGT00390000001214	ENSGT00940000159075.A #10	ENSGT00390000001610 #11	ENSGT00940000157035 #13	ENSGT00390000002089.b #12	ENSGT00390000016760.c.a.b ##14	ENSGT00940000153463.a #15	ENSGT00940000159639 #16	ENSGT00930000151053 #17	ENSGT00940000155555 #18	ENSGT00390000008212 #19	ENSGT00940000158888 #20	ENSGT00940000154239.a #21	ENSGT01030000235753	ENSGT00950000182772.A.a.b #22	ENSGT00940000154862 #23	ENSGT00950000185142	ENSGT00390000016478.i.a #24	ENSGT00940000164852 #26	ENSGT01030000234613.b.a.a.m.a #27	ENSGT01030000234613.b.a.b ##27	ENSGT00610000087423 #28	ENSGT01030000234517.H.a #29	ENSGT00390000007463 #30	ENSGT00940000160538 #31	ENSGT00940000153096.b.c.b.b.a.a.b.a.b	ENSGT00940000155654 #32	ENSGT00390000018116 #33	ENSGT00940000157283 #34	ENSGT00390000015784.g #35
Hybrid Bos Indicus	MODERN SPECIES	13	TMEM179 (ENSBIXG00005012856) #9	ENSBIXG00005012885	KIF26A (ENSBIXG00005012948) #10	ASPG (ENSBIXG00005013016) #11	RD3L (ENSBIXG00005013046) #12	TDRD9 (ENSBIXG00005013101) #13	ENSBIXG00005013147 ##14	PPP1R13B (ENSBIXG00005013207) #15	ZFYVE21 (ENSBIXG00005013238) #16	ENSBIXG00005005839 #17	KLC1 (ENSBIXG00005013345) #18	BAG5 (ENSBIXG00005013374) #20	COA8 (ENSBIXG00005013417) #19	TRMT61A (ENSBIXG00005013436) #21	ENSBIXG00005013451	CKB (ENSBIXG00005013465) #22	MARK3 (ENSBIXG00005013647) #23	ENSBIXG00005013727 #26	EIF5 (ENSBIXG00005007534) #24	TNFAIP2 (ENSBIXG00005013949) #27	EXOC3L4 (ENSBIXG00005014043) ##27	LBHD2 (ENSBIXG00005014064) #28	CDC42BPB (ENSBIXG00005014455) #29	AMN (ENSBIXG00005014541) #30	TRAF3 (ENSBIXG00005014683) #31	RCOR1 (ENSBIXG00005002063) #32	ANKRD9 (ENSBIXG00005014737) #33	TECPR2 (ENSBIXG00005014758) #34	ENSBIXG00005002093 #35	ENSBIXG00005014886	MOK (ENSBIXG00005002183) #36
Cow	MODERN SPECIES	13	ENSBTAG00000054250 #7	TMEM179 (ENSBTAG00000006673) #9	C21H14orf180 (ENSBTAG00000022775)	KIF26A (ENSBTAG00000021904) #10	ASPG (ENSBTAG00000017194) #11	RD3L (ENSBTAG00000046401) #12	TDRD9 (ENSBTAG00000020402) #13	ATP5MJ (ENSBTAG00000026886) ##14	PPP1R13B (ENSBTAG00000003559) #15	ZFYVE21 (ENSBTAG00000003556) #16	XRCC3 (ENSBTAG00000009966) #17	KLC1 (ENSBTAG00000017299) #18	COA8 (ENSBTAG00000021199) #19	TRMT61A (ENSBTAG00000031327) #21	ENSBTAG00000050863	CKB (ENSBTAG00000035998) #22	MARK3 (ENSBTAG00000013410) #23	ENSBTAG00000052838	EIF5 (ENSBTAG00000016282) #24	ENSBTAG00000048602	ENSBTAG00000047319 #26	TNFAIP2 (ENSBTAG00000035995) #27	ENSBTAG00000049333 #27	EXOC3L4 (ENSBTAG00000026893) ##27	CDC42BPB (ENSBTAG00000016456) #29	AMN (ENSBTAG00000015750) #30	TRAF3 (ENSBTAG00000013475) #31	ENSBTAG00000046633	RCOR1 (ENSBTAG00000002336) #32	ANKRD9 (ENSBTAG00000010882) #33	TECPR2 (ENSBTAG00000012143) #34
Bos_a	ANCESTRAL SPECIES	10	ENSGT00940000158752	ENSGT00390000004842	ENSGT00390000015553.a.b	ENSGT00940000155691.d #7	ENSGT00510000048283.d #9	ENSGT00390000001214	ENSGT00940000159075.A #10	ENSGT00390000001610 #11	ENSGT00940000159639 #16	ENSGT00930000151053 #17	ENSGT00940000155555 #18	ENSGT00390000008212 #19	ENSGT00940000158888 #20	ENSGT00940000154239.a #21	ENSGT01030000235753	ENSGT00950000182772.A.a.b #22	ENSGT00940000154862 #23	ENSGT00390000016478.i.a #24	ENSGT00940000164852 #26	ENSGT01030000234613.b.a.a.m.a #27	ENSGT01030000234613.b.a.b ##27	ENSGT00610000087423 #28	ENSGT01030000234517.H.a #29	ENSGT00390000007463 #30	ENSGT00940000160538 #31	ENSGT00940000153096.b.c.b.b.a.a.b.a.b	ENSGT00940000155654 #32	ENSGT00390000018116 #33	ENSGT00940000157283 #34	ENSGT00390000015784 #35	ENSGT00940000159582 #36
Wild yak	MODERN SPECIES	1592									ENSBMUG00000021691 #17	ENSBMUG00000021631 #17	KLC1 (ENSBMUG00000021318) #18	COA8 (ENSBMUG00000020927) #19	BAG5 (ENSBMUG00000020916) #20	TRMT61A (ENSBMUG00000020902) #21	ENSBMUG00000020887	CKB (ENSBMUG00000020883) #22	MARK3 (ENSBMUG00000020761) #23	EIF5 (ENSBMUG00000020600) #24	ENSBMUG00000020589
Domestic yak	MODERN SPECIES	8	ENSBGRG00000005143 #9	ENSBGRG00000005088 #9	ENSBGRG00000005062	KIF26A (ENSBGRG00000004995) #10	ASPG (ENSBGRG00000004910) #11	RD3L (ENSBGRG00000004882) #12	TDRD9 (ENSBGRG00000004595) #13	ENSBGRG00000004548 ##14	ZFYVE21 (ENSBGRG00000004348) #16	ENSBGRG00000004194 #17	KLC1 (ENSBGRG00000003931) #18	COA8 (ENSBGRG00000003846) #19	BAG5 (ENSBGRG00000003800) #20	TRMT61A (ENSBGRG00000024382) #21	ENSBGRG00000024357	CKB (ENSBGRG00000024311) #22	MARK3 (ENSBGRG00000023429) #23	EIF5 (ENSBGRG00000023240) #24	ENSBGRG00000023228 #26	ENSBGRG00000023041 #27	ENSBGRG00000022967 #27	EXOC3L4 (ENSBGRG00000022807) ##27	LBHD2 (ENSBGRG00000022778) #28	AMN (ENSBGRG00000017746) #30	TRAF3 (ENSBGRG00000017554) #31	ENSBGRG00000017508	ENSBGRG00000017492	RCOR1 (ENSBGRG00000017037) #32	ANKRD9 (ENSBGRG00000016991) #33	TECPR2 (ENSBGRG00000016292) #34	CINP (ENSBGRG00000016013) #35
American bison	MODERN SPECIES	3216				ASPG (ENSBBBG00000011673) #11	TDRD9 (ENSBBBG00000011627) #13	RD3L (ENSBBBG00000011601) #12	ENSBBBG00000025488 ##14	PPP1R13B (ENSBBBG00000025430) #15	ENSBBBG00000025291	KLC1 (ENSBBBG00000025259) #18	ENSBBBG00000008050 #17	ENSBBBG00000024861	ENSBBBG00000024856 #19	BAG5 (ENSBBBG00000006546) #20	TRMT61A (ENSBBBG00000006541) #21	CKB (ENSBBBG00000024829) #22	ENSBBBG00000006806	MARK3 (ENSBBBG00000007721) #23	EIF5 (ENSBBBG00000024526) #24	ENSBBBG00000024496 ##25	ENSBBBG00000006381 #26	LBHD2 (ENSBBBG00000024466) #28	CDC42BPB (ENSBBBG00000024454) #29	TRAF3 (ENSBBBG00000008712) #31	ENSBBBG00000024266	RCOR1 (ENSBBBG00000000286) #32	ENSBBBG00000024185	TECPR2 (ENSBBBG00000006291) #34	CINP (ENSBBBG00000024144) #35	ENSBBBG00000024008	WDR20 (ENSBBBG00000023985) #37
Siberian musk deer	MODERN SPECIES	217	ENSMMSG00000011279 #7	TMEM179 (ENSMMSG00000011218) #9	ENSMMSG00000011200	KIF26A (ENSMMSG00000011156) #10	ENSMMSG00000010971	TDRD9 (ENSMMSG00000010943) #13	RD3L (ENSMMSG00000010920) #12	ATP5MJ (ENSMMSG00000010881) #14	PPP1R13B (ENSMMSG00000010805) #15	ZFYVE21 (ENSMMSG00000010743) #16	XRCC3 (ENSMMSG00000010698) #17	KLC1 (ENSMMSG00000010580) #18	COA8 (ENSMMSG00000010481) #19	BAG5 (ENSMMSG00000010459) #20	TRMT61A (ENSMMSG00000010423) #21	CKB (ENSMMSG00000010378) #22	MARK3 (ENSMMSG00000010148) #23	ENSMMSG00000010055 #24	ENSMMSG00000010036	ENSMMSG00000010019 #26	TNFAIP2 (ENSMMSG00000009966) #27	EXOC3L4 (ENSMMSG00000009913) ##27	LBHD2 (ENSMMSG00000009887) #28	CDC42BPB (ENSMMSG00000009763) #29	AMN (ENSMMSG00000009731) #30	TRAF3 (ENSMMSG00000009622) #31	RCOR1 (ENSMMSG00000009566) #32	ANKRD9 (ENSMMSG00000009547) #33	ENSMMSG00000009523 #34
Yarkand deer	DUPLICATION
Yarkand deer	MODERN SPECIES	4	ENSCHYG00000006388 #9	ENSCHYG00000006381	KIF26A (ENSCHYG00000006246) #10	ASPG (ENSCHYG00000006023) #11	TDRD9 (ENSCHYG00000005960) #13	RD3L (ENSCHYG00000005926) #12	ATP5MJ (ENSCHYG00000005881) #14	PPP1R13B (ENSCHYG00000005719) #15	ZFYVE21 (ENSCHYG00000005622) #16	XRCC3 (ENSCHYG00000005585) #17	KLC1 (ENSCHYG00000005243) #18	ENSCHYG00000005153 #19	BAG5 (ENSCHYG00000005133) #20	TRMT61A (ENSCHYG00000005120) #21	ENSCHYG00000005109	ENSCHYG00000005021 #22	MARK3 (ENSCHYG00000004852) #23	EIF5 (ENSCHYG00000004810) #24	ENSCHYG00000004803	ENSCHYG00000004798	ENSCHYG00000004788 #26	ENSCHYG00000004783	TNFAIP2 (ENSCHYG00000004766) #27	EXOC3L4 (ENSCHYG00000004724) ##27	LBHD2 (ENSCHYG00000004703) #28	CDC42BPB (ENSCHYG00000004562) #29	ENSCHYG00000004509 #30	TRAF3 (ENSCHYG00000016275) #31	RCOR1 (ENSCHYG00000016056) #32	ANKRD9 (ENSCHYG00000015938) #33	ENSCHYG00000015918
Yarkand deer	MODERN SPECIES	14	GNPTAB (ENSCHYG00000026007)	SYCP3 (ENSCHYG00000025959)	CHPT1 (ENSCHYG00000025883)	MYBPC1 (ENSCHYG00000024823)	SPIC (ENSCHYG00000024724)	ARL1 (ENSCHYG00000024652)	UTP20 (ENSCHYG00000024333)	SLC5A8 (ENSCHYG00000024213)	ANO4 (ENSCHYG00000023758)	GAS2L3 (ENSCHYG00000023599)	NR1H4 (ENSCHYG00000023219)	SLC17A8 (ENSCHYG00000023010)	SCYL2 (ENSCHYG00000022642)	ACTR6 (ENSCHYG00000022511)	BLTP3B (ENSCHYG00000022150)	ENSCHYG00000022096 #22	ANKS1B (ENSCHYG00000020900)	APAF1 (ENSCHYG00000019906)	IKBIP (ENSCHYG00000019783)	ENSCHYG00000019744	ENSCHYG00000019480	ENSCHYG00000019270	ENSCHYG00000019199	NEDD1 (ENSCHYG00000018895)	CFAP54 (ENSCHYG00000018187)	ENSCHYG00000018145	CDK17 (ENSCHYG00000017640)	ELK3 (ENSCHYG00000017527)	LTA4H (ENSCHYG00000017296)	HAL (ENSCHYG00000016993)	AMDHD1 (ENSCHYG00000016862)