Mus_A	ANCESTRAL SPECIES	7	ENSGT00940000158360	ENSGT00940000155427 #7	ENSGT00940000156923 #8	ENSGT00940000154268.f #9	ENSGT00950000182883.a.b.a #10	ENSGT00390000005530.a.b #11	ENSGT00950000183046.b.n #12	ENSGT00390000003051.c #14	ENSGT00390000008029 #15	ENSGT00390000015038 #16	ENSGT00940000161647 #17	ENSGT00940000155000 #18	ENSGT00390000001994 #19	ENSGT00390000002457 #20	ENSGT00390000010029 #21	ENSGT00940000159188 #22	ENSGT00910000147039	ENSGT00940000157683 #23	ENSGT00940000162732 #24	ENSGT00940000159344 #25	ENSGT00940000156032 #26	ENSGT01030000234646.B.a.a.a.b #27	ENSGT00940000158874 #28	ENSGT00390000008932.c.a.a #29	ENSGT00390000008932.c.b #30	ENSGT00390000008932.c.a.b #31	ENSGT00940000155538 #32	ENSGT00950000183173.P #33	ENSGT00390000005672.a.b #34	ENSGT00390000004037 #35	ENSGT00940000155639 #36
Ryukyu mouse	MODERN SPECIES	15	MGP_CAROLIEiJ_G0028104 #7	MGP_CAROLIEiJ_G0028103 #8	Ndufa4 (MGP_CAROLIEiJ_G0028102) #9	Nxph1 (MGP_CAROLIEiJ_G0028101) #10	Ica1 (MGP_CAROLIEiJ_G0028100) #11	Glcci1 (MGP_CAROLIEiJ_G0028099) #12	MGP_CAROLIEiJ_G0028098 #13	Umad1 (MGP_CAROLIEiJ_G0028097) #14	Rpa3 (MGP_CAROLIEiJ_G0028096) #15	Mios (MGP_CAROLIEiJ_G0028095) #16	Col28a1 (MGP_CAROLIEiJ_G0028094) #17	C1galt1 (MGP_CAROLIEiJ_G0028093) #18	Asns (MGP_CAROLIEiJ_G0028092) #19	Tac1 (MGP_CAROLIEiJ_G0028091) #20	Sdhaf3 (MGP_CAROLIEiJ_G0028090) #21	Dlx5 (MGP_CAROLIEiJ_G0028089) #22	Dlx6 (MGP_CAROLIEiJ_G0028088) #23	Sem1 (MGP_CAROLIEiJ_G0028087) #24	MGP_CAROLIEiJ_G0028086 #25	Dync1i1 (MGP_CAROLIEiJ_G0028085) #26	Pdk4 (MGP_CAROLIEiJ_G0028084) #27	Asb4 (MGP_CAROLIEiJ_G0028083) #28	Pon2 (MGP_CAROLIEiJ_G0028082) #29	Pon3 (MGP_CAROLIEiJ_G0028081) #30	Pon1 (MGP_CAROLIEiJ_G0028080) #31	Ppp1r9a (MGP_CAROLIEiJ_G0028079) #32	MGP_CAROLIEiJ_G0028078 #33	Sgce (MGP_CAROLIEiJ_G0028077) #34	Casd1 (MGP_CAROLIEiJ_G0028076) #35	Col1a2 (MGP_CAROLIEiJ_G0028075) #36	Bet1 (MGP_CAROLIEiJ_G0028074) #37
Mus_B	ANCESTRAL SPECIES	20	ENSGT00940000158360	ENSGT00940000155427 #7	ENSGT00940000156923 #8	ENSGT00940000154268.f #9	ENSGT00950000182883.a.b.a #10	ENSGT00390000005530.a.b #11	ENSGT00950000183046.b.n #12	ENSGT00390000003051.c #14	ENSGT00390000008029.k #15	ENSGT00390000015038 #16	ENSGT00940000161647 #17	ENSGT00940000155000 #18	ENSGT00390000001994 #19	ENSGT00390000002457 #20	ENSGT00390000010029 #21	ENSGT00940000159188 #22	ENSGT00910000147039	ENSGT00940000157683 #23	ENSGT00940000162732 #24	ENSGT00940000159344 #25	ENSGT00940000156032 #26	ENSGT01030000234646.B.a.a.a.b #27	ENSGT00940000158874 #28	ENSGT00390000008932.c.a.a #29	ENSGT00390000008932.c.b #30	ENSGT00390000008932.c.a.b #31	ENSGT00940000155538 #32	ENSGT00950000183173.P #33	ENSGT00390000005672.a.b #34	ENSGT00390000004037 #35	ENSGT00940000155639 #36
Mus_C	ANCESTRAL SPECIES	19	ENSGT00940000158360	ENSGT00940000155427 #7	ENSGT00940000156923 #8	ENSGT00940000154268.f #9	ENSGT00950000182883.a.b.a #10	ENSGT00390000005530.a.b #11	ENSGT00950000183046.b.n #12	ENSGT00390000003051.c #14	ENSGT00390000008029.k #15	ENSGT00390000015038 #16	ENSGT00940000161647 #17	ENSGT00940000155000 #18	ENSGT00390000001994 #19	ENSGT00390000002457 #20	ENSGT00390000010029 #21	ENSGT00940000159188 #22	ENSGT00910000147039	ENSGT00940000157683 #23	ENSGT00940000162732 #24	ENSGT00940000159344 #25	ENSGT00940000156032 #26	ENSGT01030000234646.B.a.a.a.b #27	ENSGT00940000158874 #28	ENSGT00390000008932.c.a.a #29	ENSGT00390000008932.c.b #30	ENSGT00390000008932.c.a.b #31	ENSGT00940000155538 #32	ENSGT00390000005672.a.b #34	ENSGT00390000004037 #35	ENSGT00940000155639 #36	ENSGT00940000163414 #37
spretus	MODERN SPECIES	15	Thsd7a (MGP_SPRETEiJ_G0029104) #7	MGP_SPRETEiJ_G0029103 #8	Ndufa4 (MGP_SPRETEiJ_G0029102) #9	Nxph1 (MGP_SPRETEiJ_G0029101) #10	Ica1 (MGP_SPRETEiJ_G0029100) #11	Glcci1 (MGP_SPRETEiJ_G0029099) #12	MGP_SPRETEiJ_G0029098 #13	Umad1 (MGP_SPRETEiJ_G0029097) #14	Rpa3 (MGP_SPRETEiJ_G0029096) #15	Mios (MGP_SPRETEiJ_G0029095) #16	Col28a1 (MGP_SPRETEiJ_G0029094) #17	C1galt1 (MGP_SPRETEiJ_G0029093) #18	Asns (MGP_SPRETEiJ_G0029092) #19	Tac1 (MGP_SPRETEiJ_G0029091) #20	Sdhaf3 (MGP_SPRETEiJ_G0029090) #21	Dlx5 (MGP_SPRETEiJ_G0029089) #22	Dlx6 (MGP_SPRETEiJ_G0029088) #23	Sem1 (MGP_SPRETEiJ_G0029087) #24	Slc25a13 (MGP_SPRETEiJ_G0029086) #25	Dync1i1 (MGP_SPRETEiJ_G0029085) #26	Pdk4 (MGP_SPRETEiJ_G0029084) #27	Asb4 (MGP_SPRETEiJ_G0029083) #28	Pon2 (MGP_SPRETEiJ_G0029082) #29	MGP_SPRETEiJ_G0029081 #30	Pon1 (MGP_SPRETEiJ_G0029080) #31	Ppp1r9a (MGP_SPRETEiJ_G0029079) #32	MGP_SPRETEiJ_G0029078 ##33	Sgce (MGP_SPRETEiJ_G0029077) #34	Casd1 (MGP_SPRETEiJ_G0029076) #35	Col1a2 (MGP_SPRETEiJ_G0029075) #36	Bet1 (MGP_SPRETEiJ_G0029074) #37
Steppe mouse	MODERN SPECIES	3097															ENSMSIG00000007764 #21	Dlx5 (ENSMSIG00000007781) #22	ENSMSIG00000007792	Dlx6 (ENSMSIG00000007812) #23	Sem1 (ENSMSIG00000007847) #24	Slc25a13 (ENSMSIG00000007876) #25	Dync1i1 (ENSMSIG00000007953) #26	ENSMSIG00000008217	Pdk4 (ENSMSIG00000008220) #27	Asb4 (ENSMSIG00000008239) #28	Pon2 (ENSMSIG00000008259) #29	Pon3 (ENSMSIG00000008274) #30	Pon1 (ENSMSIG00000008292) #31	Ppp1r9a (ENSMSIG00000008364) #32
Mouse	MODERN SPECIES	15	Tmem106b (ENSMUSG00000029571)	Thsd7a (ENSMUSG00000032625) #7	Phf14 (ENSMUSG00000029629) #8	Ndufa4 (ENSMUSG00000029632) #9	Nxph1 (ENSMUSG00000046178) #10	Ica1 (ENSMUSG00000062995) #11	Glcci1 (ENSMUSG00000029638) #12	Umad1 (ENSMUSG00000089862) #14	Rpa3 (ENSMUSG00000012483) #15	Mios (ENSMUSG00000042447) #16	Col28a1 (ENSMUSG00000068794) #17	C1galt1 (ENSMUSG00000042460) #18	Asns (ENSMUSG00000029752) #19	Tac1 (ENSMUSG00000061762) #20	Sdhaf3 (ENSMUSG00000042505) #21	Dlx5 (ENSMUSG00000029755) #22	Dlx6 (ENSMUSG00000029754) #23	Sem1 (ENSMUSG00000042541) #24	Slc25a13 (ENSMUSG00000015112) #25	Dync1i1 (ENSMUSG00000029757) #26	Pdk4 (ENSMUSG00000019577) #27	Asb4 (ENSMUSG00000042607) #28	Pon2 (ENSMUSG00000032667) #29	Pon3 (ENSMUSG00000029759) #30	Pon1 (ENSMUSG00000002588) #31	Ppp1r9a (ENSMUSG00000032827) #32	Peg10 (ENSMUSG00000092035) #33	Sgce (ENSMUSG00000004631) #34	Casd1 (ENSMUSG00000015189) #35	Col1a2 (ENSMUSG00000029661) #36	Bet1 (ENSMUSG00000032757) #37