Percora_a	ANCESTRAL SPECIES	12	ENSGT00940000161065	ENSGT00390000015862 #7	ENSGT00940000154025.b #8	ENSGT00940000158352 #9	ENSGT00390000011908 #10	ENSGT00940000155371.m.b #11	ENSGT00940000161821.d.f #12	ENSGT00940000154723.b #13	ENSGT00940000162353 #14	ENSGT00940000160499 #16	ENSGT00940000157293 #17	ENSGT00940000159023 #18	ENSGT00940000159897 #19	ENSGT00940000160381 #20	ENSGT00940000161157 #21	ENSGT00940000153385.b.a.b #22	ENSGT00940000162112 #23	ENSGT00940000159762 #24	ENSGT00940000159208.B #25	ENSGT00940000160076 #26	ENSGT00940000160668 #27	ENSGT00940000161022 #28	ENSGT00390000008815 #29	ENSGT00390000012691.c.b ##30	ENSGT00940000161798 #31	ENSGT00390000007075 #32	ENSGT00390000010512.o.a #33	ENSGT00940000161403 #34	ENSGT00940000159200 #35	ENSGT00940000160991 #36	ENSGT00390000009448 #37
Bovidae	ANCESTRAL SPECIES	13	ENSGT00940000161065	ENSGT00390000015862 #7	ENSGT00940000154025.b #8	ENSGT00940000158352 #9	ENSGT00390000011908 #10	ENSGT00940000155371.m.b #11	ENSGT00940000161821.d.f #12	ENSGT00940000154723.b.nb #13	ENSGT00940000162353 #14	ENSGT00940000160499 #16	ENSGT00940000157293 #17	ENSGT00940000159023 #18	ENSGT00940000159897 #19	ENSGT00940000160381 #20	ENSGT00940000161157 #21	ENSGT00940000153385.b.a.b #22	ENSGT00940000162112 #23	ENSGT00940000159762 #24	ENSGT00940000159208.B #25	ENSGT00940000160076 #26	ENSGT00940000160668 #27	ENSGT00940000161022 #28	ENSGT00390000008815 #29	ENSGT00390000012691.c.b ##30	ENSGT00940000161798 #31	ENSGT00390000007075 #32	ENSGT00390000010512.o.a #33	ENSGT00940000161403 #34	ENSGT00940000159200 #35	ENSGT00940000160991 #36	ENSGT00390000009448 #37
Caprinae	ANCESTRAL SPECIES	16	ENSGT00940000161065	ENSGT00390000015862 #7	ENSGT00940000154025.b #8	ENSGT00940000158352 #9	ENSGT00390000011908 #10	ENSGT00940000155371.m.b #11	ENSGT00940000161821.d.f #12	ENSGT00940000154723.b.nb #13	ENSGT00940000162353 #14	ENSGT00940000160499 #16	ENSGT00940000157293 #17	ENSGT00940000159023 #18	ENSGT00940000159897 #19	ENSGT00940000160381 #20	ENSGT00940000161157 #21	ENSGT00940000153385.b.a.b #22	ENSGT00940000162112 #23	ENSGT00940000159762 #24	ENSGT00940000159208.B #25	ENSGT00940000160076 #26	ENSGT00940000160668 #27	ENSGT00940000161022 #28	ENSGT00390000008815 #29	ENSGT00390000012691.c.b ##30	ENSGT00940000161798 #31	ENSGT00390000007075 #32	ENSGT00390000010512.o.a #33	ENSGT00940000161403 #34	ENSGT00940000159200 #35	ENSGT00940000160991 #36	ENSGT00390000009448 #37
Goat	MODERN SPECIES	15	ENSCHIG00000020109 #7	LRRC1 (ENSCHIG00000021002) #8	KLHL31 (ENSCHIG00000003573) #9	GCLC (ENSCHIG00000013397) #10	ENSCHIG00000009662 #11	ENSCHIG00000022158 #12	ENSCHIG00000013102 #13	HLA-DOB (ENSCHIG00000010527) #14	ENSCHIG00000019853 #15	TAP2 (ENSCHIG00000017732) #16	PSMB8 (ENSCHIG00000012829) #17	TAP1 (ENSCHIG00000021983) #18	PSMB9 (ENSCHIG00000021513) #19	HLA-DMB (ENSCHIG00000026519) #20	HLA-DMA (ENSCHIG00000009464) #21	BRD2 (ENSCHIG00000013946) #22	HLA-DOA (ENSCHIG00000014302) #23	COL11A2 (ENSCHIG00000012269) #24	RXRB (ENSCHIG00000010266) #25	SLC39A7 (ENSCHIG00000024209) #26	HSD17B8 (ENSCHIG00000017839) #27	RING1 (ENSCHIG00000015685) #28	VPS52 (ENSCHIG00000023524) #29	RPS18 (ENSCHIG00000025263) #30	B3GALT4 (ENSCHIG00000013295) #31	WDR46 (ENSCHIG00000017786) #32	ENSCHIG00000021078 #33	RGL2 (ENSCHIG00000009307) #34	TAPBP (ENSCHIG00000010108) #35	ZBTB22 (ENSCHIG00000003375) #36	ENSCHIG00000013938 #37
Rambouillet Sheep	MODERN SPECIES	12	GCLC (ENSOARG00020024970) #10	ENSOARG00020025012 #11	ENSOARG00020025022 #12	ENSOARG00020025038 #12	ENSOARG00020025077 #13	DYA (ENSOARG00020025089) #12	ENSOARG00020025100	ENSOARG00020025111 #13	HLA-DOB (ENSOARG00020025120) #14	TAP2 (ENSOARG00020025129) #16	PSMB8 (ENSOARG00020025156) #17	TAP1 (ENSOARG00020025187) #18	ENSOARG00020025249 #19	HLA-DMB (ENSOARG00020025272) #20	HLA-DMA (ENSOARG00020025286) #21	BRD2 (ENSOARG00020011534) #22	HLA-DOA (ENSOARG00020011582) #23	COL11A2 (ENSOARG00020011636) #24	RXRB (ENSOARG00020011980) #25	SLC39A7 (ENSOARG00020012152) #26	HSD17B8 (ENSOARG00020012212) #27	RING1 (ENSOARG00020012299) #28	VPS52 (ENSOARG00020012385) #29	RPS18 (ENSOARG00020012536) ##30	B3GALT4 (ENSOARG00020012594) #31	WDR46 (ENSOARG00020012626) #32	PFDN6 (ENSOARG00020012726) #33	RGL2 (ENSOARG00020012842) #34	TAPBP (ENSOARG00020013171) #35	ZBTB22 (ENSOARG00020013358) #36	DAXX (ENSOARG00020013385) #37
Bovinae	ANCESTRAL SPECIES	9	ENSGT00390000015862 #7	ENSGT00940000154025.b #8	ENSGT00940000158352 #9	ENSGT00390000011908 #10	ENSGT00940000155371.m.b #11	ENSGT00940000161821.d.f #12	ENSGT00940000154723.b.nb.d #13	ENSGT00940000162353 #14	ENSGT00940000160499 #16	ENSGT00940000157293 #17	ENSGT00940000159023 #18	ENSGT00940000159897 #19	ENSGT01100000263506.a.e.a.a.a.b.b.a.b.a.a.b	ENSGT00940000160381 #20	ENSGT00940000161157 #21	ENSGT00940000153385.b.a.b #22	ENSGT00940000162112 #23	ENSGT00940000159762 #24	ENSGT00940000159208.B #25	ENSGT00940000160076 #26	ENSGT00940000160668 #27	ENSGT00940000161022 #28	ENSGT00390000008815 #29	ENSGT00390000012691.c.b ##30	ENSGT00940000161798 #31	ENSGT00390000007075 #32	ENSGT00390000010512.o.a #33	ENSGT00940000161403 #34	ENSGT00940000159200 #35	ENSGT00940000160991 #36	ENSGT00390000009448 #37
American bison	MODERN SPECIES	3186	MLIP (ENSBBBG00000016140) #7	LRRC1 (ENSBBBG00000016027) #8	KLHL31 (ENSBBBG00000002569) #9	GCLC (ENSBBBG00000015998) #10	ENSBBBG00000015836 #11	ENSBBBG00000015297 #12	ENSBBBG00000015280 #13	HLA-DOB (ENSBBBG00000015275) #14	TAP2 (ENSBBBG00000015257) #16	PSMB8 (ENSBBBG00000015244) #17	TAP1 (ENSBBBG00000015234) #18	PSMB9 (ENSBBBG00000003777) #19	ENSBBBG00000015200	HLA-DMB (ENSBBBG00000008914) #20	HLA-DMA (ENSBBBG00000015169) #21	BRD2 (ENSBBBG00000002785) #22	HLA-DOA (ENSBBBG00000015112) #23	ENSBBBG00000003746 #24	RXRB (ENSBBBG00000015089) #25	SLC39A7 (ENSBBBG00000014969) #26	HSD17B8 (ENSBBBG00000003696) #27	RING1 (ENSBBBG00000003692) #28	VPS52 (ENSBBBG00000003598) #29	RPS18 (ENSBBBG00000003625) ##30	B3GALT4 (ENSBBBG00000003638) #31	WDR46 (ENSBBBG00000014933) #32	PFDN6 (ENSBBBG00000014925) #33	RGL2 (ENSBBBG00000000845) #34	TAPBP (ENSBBBG00000000871) #35	ZBTB22 (ENSBBBG00000000917) #36	DAXX (ENSBBBG00000000938) #37
Bos	ANCESTRAL SPECIES	17	ENSGT00390000015862 #7	ENSGT00940000154025.b #8	ENSGT00940000158352 #9	ENSGT00390000011908 #10	ENSGT00940000155371.m.b #11	ENSGT00940000161821.d.f #12	ENSGT00940000154723.b.nb.d #13	ENSGT00940000162353 #14	ENSGT00940000160499 #16	ENSGT00940000157293 #17	ENSGT00940000159023 #18	ENSGT00940000159897 #19	ENSGT01100000263506.a.e.a.a.a.b.b.a.b.a.a.b	ENSGT00940000160381 #20	ENSGT00940000161157 #21	ENSGT00940000153385.b.a.b #22	ENSGT00940000162112 #23	ENSGT00940000159762 #24	ENSGT00940000159208.B #25	ENSGT00940000160076 #26	ENSGT00940000160668 #27	ENSGT00940000161022 #28	ENSGT00390000008815 #29	ENSGT00390000012691.d #30	ENSGT00390000012691.c.b ##30	ENSGT00940000161798 #31	ENSGT00390000007075 #32	ENSGT00390000010512.o.a #33	ENSGT00940000161403 #34	ENSGT00940000159200 #35	ENSGT00940000160991 #36
Bos_b	ANCESTRAL SPECIES	8	ENSGT00390000015862 #7	ENSGT00940000154025.b #8	ENSGT00940000158352 #9	ENSGT00390000011908 #10	ENSGT00940000155371.m.b #11	ENSGT00940000161821.d.f #12	ENSGT00940000154723.b.nb.d #13	ENSGT00940000162353 #14	ENSGT00940000160499 #16	ENSGT00940000157293 #17	ENSGT00940000159023 #18	ENSGT00940000159897 #19	ENSGT01100000263506.a.e.a.a.a.b.b.a.b.a.a.b	ENSGT00940000160381 #20	ENSGT00940000161157 #21	ENSGT00940000153385.b.a.b #22	ENSGT00940000162112 #23	ENSGT00940000159762 #24	ENSGT00940000159208.B #25	ENSGT00940000160076 #26	ENSGT00940000160668 #27	ENSGT00940000161022 #28	ENSGT00390000008815 #29	ENSGT00390000012691.d #30	ENSGT00940000161798 #31	ENSGT00390000007075 #32	ENSGT00390000010512.o.a #33	ENSGT00940000161403 #34	ENSGT00940000159200 #35	ENSGT00940000160991 #36	ENSGT00390000009448 #37
Hybrid Bos Indicus	MODERN SPECIES	15	ENSBIXG00005015134	LRRC1 (ENSBIXG00005002222) #8	KLHL31 (ENSBIXG00005007502) #9	GCLC (ENSBIXG00005015026) #10	ENSBIXG00005014945 #11	ENSBIXG00005014931 #12	ENSBIXG00005007128 #13	HLA-DOB (ENSBIXG00005014905) #14	TAP2 (ENSBIXG00005014872) #16	PSMB8 (ENSBIXG00005014824) #17	TAP1 (ENSBIXG00005014801) #18	PSMB9 (ENSBIXG00005014787) #19	ENSBIXG00005014770	HLA-DMB (ENSBIXG00005014762) #20	HLA-DMA (ENSBIXG00005014743) #21	BRD2 (ENSBIXG00005014704) #22	HLA-DOA (ENSBIXG00005014640) #23	COL11A2 (ENSBIXG00005014598) #24	RXRB (ENSBIXG00005014520) #25	SLC39A7 (ENSBIXG00005014473) #26	HSD17B8 (ENSBIXG00005001937) #27	RING1 (ENSBIXG00005006128) #28	VPS52 (ENSBIXG00005014413) #29	RPS18 (ENSBIXG00005006736) #30	B3GALT4 (ENSBIXG00005014338) #31	WDR46 (ENSBIXG00005014304) #32	PFDN6 (ENSBIXG00005014270) #33	RGL2 (ENSBIXG00005014224) #34	TAPBP (ENSBIXG00005006125) #35	ZBTB22 (ENSBIXG00005014096) #36	DAXX (ENSBIXG00005001833) #37
Cow	MODERN SPECIES	15	MLIP (ENSBTAG00000014581) #7	LRRC1 (ENSBTAG00000017533) #8	KLHL31 (ENSBTAG00000018167) #9	GCLC (ENSBTAG00000015571) #10	DSB (ENSBTAG00000050757) #11	BOLA-DYA (ENSBTAG00000002581) #12	BOLA-DYB (ENSBTAG00000045923) #13	BOLA-DOB (ENSBTAG00000047707) #14	TAP2 (ENSBTAG00000003038) #16	PSMB8 (ENSBTAG00000003039) #17	TAP1 (ENSBTAG00000008953) #18	PSMB9 (ENSBTAG00000008954) #19	H2B (ENSBTAG00000051545)	BOLA-DMB (ENSBTAG00000012451) #20	BOLA-DMA (ENSBTAG00000015730) #21	BRD2 (ENSBTAG00000011074) #22	BOLA-DOA (ENSBTAG00000006490) #23	COL11A2 (ENSBTAG00000000601) #24	RXRB (ENSBTAG00000000602) #25	SLC39A7 (ENSBTAG00000008191) #26	HSD17B8 (ENSBTAG00000020927) #27	RING1 (ENSBTAG00000018884) #28	VPS52 (ENSBTAG00000002643) #29	RPS18 (ENSBTAG00000002648) #30	B3GALT4 (ENSBTAG00000025669) #31	WDR46 (ENSBTAG00000016824) #32	PFDN6 (ENSBTAG00000010723) #33	RGL2 (ENSBTAG00000016827) #34	TAPBP (ENSBTAG00000016828) #35	ZBTB22 (ENSBTAG00000016829) #36	DAXX (ENSBTAG00000016830) #37
Bos_a	ANCESTRAL SPECIES	11	ENSGT00390000015862 #7	ENSGT00940000154025.b #8	ENSGT00940000158352 #9	ENSGT00390000011908 #10	ENSGT00940000155371.m.b #11	ENSGT00940000161821.d.f #12	ENSGT00940000154723.b.nb.d #13	ENSGT00940000162353 #14	ENSGT00940000160499 #16	ENSGT00940000157293 #17	ENSGT00940000159023 #18	ENSGT00940000159897 #19	ENSGT01100000263506.a.e.a.a.a.b.b.a.b.a.a.b	ENSGT00940000160381 #20	ENSGT00940000161157 #21	ENSGT00940000153385.b.a.b #22	ENSGT00940000162112 #23	ENSGT00940000159762 #24	ENSGT00940000159208.B #25	ENSGT00940000160076 #26	ENSGT00940000160668 #27	ENSGT00940000161022 #28	ENSGT00390000008815 #29	ENSGT00390000012691.c.b ##30	ENSGT00940000161798 #31	ENSGT00390000007075 #32	ENSGT00390000010512.o.a #33	ENSGT00940000161403 #34	ENSGT00940000159200 #35	ENSGT00940000160991 #36	ENSGT00390000009448 #37
Domestic yak	DUPLICATION
Domestic yak	MODERN SPECIES	27	ENSBGRG00000024308	ENSBGRG00000024300	ENSBGRG00000024282	ENSBGRG00000024273	ENSBGRG00000024190	ENSBGRG00000024011	ENSBGRG00000023854	ENSBGRG00000023633	ENSBGRG00000022876	CYP4F22 (ENSBGRG00000022745)	PGLYRP2 (ENSBGRG00000022693)	RASAL3 (ENSBGRG00000022665)	WIZ (ENSBGRG00000022240)	AKAP8L (ENSBGRG00000022043)	AKAP8 (ENSBGRG00000021898)	ENSBGRG00000021854 #22	ENSBGRG00000021799	EPHX3 (ENSBGRG00000021673)	NOTCH3 (ENSBGRG00000018066)	ENSBGRG00000017844	ILVBL (ENSBGRG00000017727)	SYDE1 (ENSBGRG00000017591)	ENSBGRG00000017568	ENSBGRG00000017455	CASP14 (ENSBGRG00000017337)	CCDC105 (ENSBGRG00000017152)	SLC1A6 (ENSBGRG00000016741)	ENSBGRG00000016668	ENSBGRG00000016627	ENSBGRG00000016606	ENSBGRG00000016595
Domestic yak	MODERN SPECIES	16	MLIP (ENSBGRG00000023693) #7	LRRC1 (ENSBGRG00000023507) #8	KLHL31 (ENSBGRG00000023447) #9	GCLC (ENSBGRG00000022619) #10	ENSBGRG00000022571	ENSBGRG00000022508 #11	ENSBGRG00000022452 #12	ENSBGRG00000022408 #13	HLA-DOB (ENSBGRG00000022347) #14	TAP2 (ENSBGRG00000022189) #16	PSMB8 (ENSBGRG00000022108) #17	TAP1 (ENSBGRG00000022060) #18	ENSBGRG00000021991 #19	HLA-DMB (ENSBGRG00000021922) #20	HLA-DMA (ENSBGRG00000021851) #21	BRD2 (ENSBGRG00000021629) #22	HLA-DOA (ENSBGRG00000021588) #23	COL11A2 (ENSBGRG00000019137) #24	RXRB (ENSBGRG00000019018) #25	SLC39A7 (ENSBGRG00000018980) #26	HSD17B8 (ENSBGRG00000018839) #27	RING1 (ENSBGRG00000018754) #28	VPS52 (ENSBGRG00000018459) #29	B3GALT4 (ENSBGRG00000018285) #31	WDR46 (ENSBGRG00000017950) #32	PFDN6 (ENSBGRG00000017800) #33	RGL2 (ENSBGRG00000017715) #34	TAPBP (ENSBGRG00000017312) #35	ZBTB22 (ENSBGRG00000017270) #36	DAXX (ENSBGRG00000017181) #37	SMIM40 (ENSBGRG00000017145)
Wild yak	DUPLICATION
Wild yak	MODERN SPECIES	1619	ENSBMUG00000011458	ENSBMUG00000011482	ENSBMUG00000011515	ENSBMUG00000011552	ENSBMUG00000011627	ENSBMUG00000011731	ENSBMUG00000011774	ENSBMUG00000011822	ENSBMUG00000011875	CYP4F22 (ENSBMUG00000011890)	PGLYRP2 (ENSBMUG00000011932)	RASAL3 (ENSBMUG00000011972)	WIZ (ENSBMUG00000012029)	AKAP8L (ENSBMUG00000012103)	AKAP8 (ENSBMUG00000012119)	ENSBMUG00000012134 #22	ENSBMUG00000012143	EPHX3 (ENSBMUG00000012149)	NOTCH3 (ENSBMUG00000013018)	ENSBMUG00000013201	ILVBL (ENSBMUG00000013223)	ENSBMUG00000013242	ENSBMUG00000013258	ENSBMUG00000013277	ENSBMUG00000013302	CASP14 (ENSBMUG00000013317)	CCDC105 (ENSBMUG00000013339)	ENSBMUG00000013356	ENSBMUG00000013368	ENSBMUG00000013377	ENSBMUG00000013410
Wild yak	MODERN SPECIES	401		LRRC1 (ENSBMUG00000005342) #8	KLHL31 (ENSBMUG00000005354) #9	GCLC (ENSBMUG00000005430) #10	ENSBMUG00000006036 #11	ENSBMUG00000007873 #12	ENSBMUG00000007890 #13	HLA-DOB (ENSBMUG00000007908) #14	TAP2 (ENSBMUG00000007931) #16	PSMB8 (ENSBMUG00000007942) #17	TAP1 (ENSBMUG00000007967) #18	PSMB9 (ENSBMUG00000007982) #19	ENSBMUG00000007993	HLA-DMB (ENSBMUG00000008003) #20	HLA-DMA (ENSBMUG00000008047) #21	BRD2 (ENSBMUG00000008066) #22	HLA-DOA (ENSBMUG00000008090) #23	COL11A2 (ENSBMUG00000008342) #24	RXRB (ENSBMUG00000008461) #25	SLC39A7 (ENSBMUG00000008706) #26	HSD17B8 (ENSBMUG00000008752) #27	RING1 (ENSBMUG00000008786) #28	VPS52 (ENSBMUG00000008802) #29	ENSBMUG00000008818 ##30	B3GALT4 (ENSBMUG00000008835) #31	WDR46 (ENSBMUG00000008867) #32	PFDN6 (ENSBMUG00000008885) #33	RGL2 (ENSBMUG00000008900) #34	TAPBP (ENSBMUG00000008952) #35	ZBTB22 (ENSBMUG00000008980) #36	DAXX (ENSBMUG00000008993) #37
Siberian musk deer	MODERN SPECIES	355	FAM83B (ENSMMSG00000020897)	TINAG (ENSMMSG00000020918)	MLIP (ENSMMSG00000021042) #7	LRRC1 (ENSMMSG00000021202) #8	KLHL31 (ENSMMSG00000021339) #9	GCLC (ENSMMSG00000021373) #10	ENSMMSG00000021536 #11	ENSMMSG00000022087 #12	ENSMMSG00000022107 #13	HLA-DOB (ENSMMSG00000022133) #14	TAP1 (ENSMMSG00000022156) #18	PSMB8 (ENSMMSG00000022217) #17	PSMB9 (ENSMMSG00000022236) #19	HLA-DMB (ENSMMSG00000022257) #20	HLA-DMA (ENSMMSG00000022283) #21	BRD2 (ENSMMSG00000022334) #22	HLA-DOA (ENSMMSG00000022389) #23	COL11A2 (ENSMMSG00000022475) #24	RXRB (ENSMMSG00000023046) #25	SLC39A7 (ENSMMSG00000023058) #26	HSD17B8 (ENSMMSG00000023067) #27	RING1 (ENSMMSG00000023081) #28	VPS52 (ENSMMSG00000023094) #29	RPS18 (ENSMMSG00000023117) ##30	B3GALT4 (ENSMMSG00000023125) #31	WDR46 (ENSMMSG00000023133) #32	ENSMMSG00000023143 #33	RGL2 (ENSMMSG00000023157) #34	TAPBP (ENSMMSG00000023185) #35	ZBTB22 (ENSMMSG00000023203) #36	DAXX (ENSMMSG00000023208) #37