Rodentia_A	ANCESTRAL SPECIES	17	ENSGT00940000154755.c.b #11	ENSGT00940000154755.c.a #12	ENSGT00940000161877.d #13	ENSGT00940000164098	ENSGT00940000161877.c.b ##13	ENSGT00940000161877.c.a ##13	ENSGT00940000163249 #14	ENSGT00940000162294 #15	ENSGT00940000162636.A #16	ENSGT00940000162636.B ##16	ENSGT00910000144356 #17	ENSGT00900000141212 #18	ENSGT00390000005826.a.b #19	ENSGT00870000136554 #20	ENSGT00940000162041 #21	ENSGT00940000156996 #22	ENSGT00940000163276 #23	ENSGT00940000156819.a.a	ENSGT00940000155999 #24	ENSGT00940000159137 #25	ENSGT00940000159727 #26	ENSGT00940000162247	ENSGT00670000098098 #27	ENSGT00390000010121 #28	ENSGT00950000183139.A #29	ENSGT00940000162552	ENSGT00940000167996 #30	ENSGT00390000004987 #32	ENSGT00550000074931 #33	ENSGT00550000075046 #34	ENSGT00940000154866.B #35
Hystricomorpha	ANCESTRAL SPECIES	10	ENSGT00940000158550	ENSGT00440000039984.a #7	ENSGT00940000160277 #8	ENSGT00950000183147.B #9	ENSGT00940000154755.c.b #11	ENSGT00940000154755.c.a #12	ENSGT00940000161877.d #13	ENSGT00940000163249 #14	ENSGT00940000162294 #15	ENSGT00940000162636.A #16	ENSGT00910000144356 #17	ENSGT00900000141212 #18	ENSGT00390000005826.a.b #19	ENSGT00870000136554 #20	ENSGT00940000162041 #21	ENSGT00940000156996 #22	ENSGT00940000163276 #23	ENSGT00940000155999 #24	ENSGT00940000159137 #25	ENSGT00940000159727 #26	ENSGT00940000162247	ENSGT00670000098098 #27	ENSGT00390000010121 #28	ENSGT00950000183139.A #29	ENSGT00940000162552	ENSGT00940000167996 #30	ENSGT00390000004987.n.a ##32	ENSGT00550000074931 #33	ENSGT00550000075046 #34	ENSGT00940000154866.B #35	ENSGT01030000234532.A.a.a.b #36
Hystricomorpha_a	ANCESTRAL SPECIES	8	ENSGT00440000039984.a #7	ENSGT00940000160277 #8	ENSGT00950000183147.B #9	ENSGT00940000154755.c.b.c #10	ENSGT00940000154755.c.b.d #11	ENSGT00940000154755.c.a #12	ENSGT00940000161877.d #13	ENSGT00940000163249 #14	ENSGT00940000162294 #15	ENSGT00940000162636.A #16	ENSGT00910000144356 #17	ENSGT00900000141212 #18	ENSGT00390000005826.a.b #19	ENSGT00870000136554 #20	ENSGT00940000162041 #21	ENSGT00940000156996 #22	ENSGT00940000163276 #23	ENSGT00940000155999 #24	ENSGT00940000159137 #25	ENSGT00940000159727 #26	ENSGT00940000162247	ENSGT00670000098098 #27	ENSGT00390000010121 #28	ENSGT00950000183139.A #29	ENSGT00940000162552	ENSGT00940000167996 #30	ENSGT00390000004987.n.a ##32	ENSGT00550000074931 #33	ENSGT00550000075046 #34	ENSGT00940000154866.B #35	ENSGT01030000234532.A.a.a.b #36
Guinea pig	MODERN SPECIES	8	APMAP (ENSCPOG00000008131) #7	CST7 (ENSCPOG00000008022) #8	SYNDIG1 (ENSCPOG00000004943) #9	ENSCPOG00000026799 #10	ENSCPOG00000030984 #11	ENSCPOG00000030716 #12	ENSCPOG00000025294 #13	ENSCPOG00000021926 #14	CST8 (ENSCPOG00000005550) #15	ENSCPOG00000025993 #16	ENSCPOG00000003822 #17	CSTL1 (ENSCPOG00000008734) #18	NAPB (ENSCPOG00000039063) #19	GZF1 (ENSCPOG00000010790) #20	NXT1 (ENSCPOG00000008817) #21	CD93 (ENSCPOG00000010252) #22	THBD (ENSCPOG00000030575) #23	FOXA2 (ENSCPOG00000033370) #24	PAX1 (ENSCPOG00000002886) #25	NKX2-2 (ENSCPOG00000000408) #26	XRN2 (ENSCPOG00000009407) #27	KIZ (ENSCPOG00000005683) #28	RALGAPA2 (ENSCPOG00000001602) #29	ENSCPOG00000038064 #30	ENSCPOG00000039658 #31	ENSCPOG00000001594 #32	CRNKL1 (ENSCPOG00000004418) #33	NAA20 (ENSCPOG00000001593) #34	RIN2 (ENSCPOG00000013179) #35	SLC24A3 (ENSCPOG00000011970) #36	DTD1 (ENSCPOG00000002416) #37
Hystricomorpha_b	ANCESTRAL SPECIES	31	ENSGT00940000158550	ENSGT00440000039984.a #7	ENSGT00940000160277 #8	ENSGT00950000183147.B #9	ENSGT00940000154755.c.b.c #10	ENSGT00940000154755.c.b.d #11	ENSGT00940000154755.c.a #12	ENSGT00940000163249 #14	ENSGT00940000162294 #15	ENSGT00940000162636.A #16	ENSGT00910000144356 #17	ENSGT00900000141212 #18	ENSGT00390000005826.a.b #19	ENSGT00870000136554 #20	ENSGT00940000162041 #21	ENSGT00940000156996 #22	ENSGT00940000163276 #23	ENSGT00940000155999 #24	ENSGT00940000159137 #25	ENSGT00940000159727 #26	ENSGT00940000162247	ENSGT00670000098098 #27	ENSGT00390000010121 #28	ENSGT00950000183139.A #29	ENSGT00940000162552	ENSGT00940000167996 #30	ENSGT00390000004987.n.a ##32	ENSGT00550000074931 #33	ENSGT00550000075046 #34	ENSGT00940000154866.B #35	ENSGT01030000234532.A.a.a.b #36
Long-tailed chinchilla	MODERN SPECIES	122	VSX1 (ENSCLAG00000015160)	ACSS1 (ENSCLAG00000012190)	APMAP (ENSCLAG00000013445) #7	CST7 (ENSCLAG00000015428) #8	SYNDIG1 (ENSCLAG00000012586) #9	ENSCLAG00000012454 #10	ENSCLAG00000015899 #11	ENSCLAG00000017066 #14	ENSCLAG00000015212 #15	ENSCLAG00000015474 #16	ENSCLAG00000011384 #17	CSTL1 (ENSCLAG00000012446) #18	NAPB (ENSCLAG00000011540) #19	GZF1 (ENSCLAG00000014714) #20	NXT1 (ENSCLAG00000012493) #21	CD93 (ENSCLAG00000012062) #22	THBD (ENSCLAG00000011994) #23	FOXA2 (ENSCLAG00000014548) #24	PAX1 (ENSCLAG00000016362) #25	NKX2-2 (ENSCLAG00000016430) #26	XRN2 (ENSCLAG00000013419) #27	KIZ (ENSCLAG00000012565) #28	RALGAPA2 (ENSCLAG00000012502) #29	CFAP61 (ENSCLAG00000014155) ##32	CRNKL1 (ENSCLAG00000013859) #33	NAA20 (ENSCLAG00000014313) #34	RIN2 (ENSCLAG00000015234) #35	SLC24A3 (ENSCLAG00000015547) #36	DTD1 (ENSCLAG00000015302) #37	SEC23B (ENSCLAG00000014924)	RBBP9 (ENSCLAG00000014851)
Degu	MODERN SPECIES	114	VSX1 (ENSODEG00000010102)	ACSS1 (ENSODEG00000010733)	APMAP (ENSODEG00000010678) #7	CST7 (ENSODEG00000011264) #8	SYNDIG1 (ENSODEG00000012369) #9	ENSODEG00000019797	CST3 (ENSODEG00000012334) #12	ENSODEG00000010611 #14	ENSODEG00000010448 #15	ENSODEG00000012595 #16	CST11 (ENSODEG00000013274) #17	CSTL1 (ENSODEG00000010719) #18	NAPB (ENSODEG00000011065) #19	GZF1 (ENSODEG00000013020) #20	NXT1 (ENSODEG00000019900) #21	CD93 (ENSODEG00000012518) #22	THBD (ENSODEG00000010709) #23	FOXA2 (ENSODEG00000011162) #24	PAX1 (ENSODEG00000012427) #25	ENSODEG00000019878	ENSODEG00000019885	NKX2-2 (ENSODEG00000012371) #26	ENSODEG00000012687	NKX2-4 (ENSODEG00000010842)	ENSODEG00000010745 #27	ENSODEG00000011188	KIZ (ENSODEG00000011491) #28	RALGAPA2 (ENSODEG00000011023) #29	INSM1 (ENSODEG00000020028)	ENSODEG00000011346 #30	ENSODEG00000012124 ##32
Sciuridae	ANCESTRAL SPECIES	13	ENSGT00940000154755.c.b.e #11	ENSGT00940000154755.c.a #12	ENSGT00940000164098	ENSGT00940000161877.c.b ##13	ENSGT00940000161877.d #13	ENSGT00940000161877.c.a ##13	ENSGT00940000163249 #14	ENSGT00940000162294 #15	ENSGT00940000162636.A #16	ENSGT00940000162636.B ##16	ENSGT00910000144356 #17	ENSGT00900000141212 #18	ENSGT00390000005826.a.b #19	ENSGT00870000136554 #20	ENSGT00940000162041 #21	ENSGT00940000156996 #22	ENSGT00940000163276 #23	ENSGT00940000156819.a.a	ENSGT00940000155999 #24	ENSGT00940000159137 #25	ENSGT00940000159727 #26	ENSGT00940000162247	ENSGT00670000098098 #27	ENSGT00390000010121 #28	ENSGT00950000183139.A #29	ENSGT00940000162552	ENSGT00940000167996 #30	ENSGT00390000004987 #32	ENSGT00550000074931 #33	ENSGT00550000075046 #34	ENSGT00940000154866.B #35
Marmotini	ANCESTRAL SPECIES	5	ENSGT00940000154755.c.b.f #11	ENSGT00940000154755.c.b.e #11	ENSGT00940000154755.c.a #12	ENSGT00940000161877.c.b ##13	ENSGT00940000161877.d #13	ENSGT00940000161877.c.a ##13	ENSGT00940000163249 #14	ENSGT00940000162294 #15	ENSGT00940000162636.A #16	ENSGT00940000162636.B ##16	ENSGT00910000144356 #17	ENSGT00900000141212 #18	ENSGT00390000005826.a.b #19	ENSGT00870000136554 #20	ENSGT00940000162041 #21	ENSGT00940000156996 #22	ENSGT00940000163276 #23	ENSGT00940000156819.a.a	ENSGT00940000155999 #24	ENSGT00940000159137 #25	ENSGT00940000159727 #26	ENSGT00940000162247	ENSGT00670000098098 #27	ENSGT00390000010121 #28	ENSGT00390000007696.e.a.a.a	ENSGT00950000183139.A #29	ENSGT00940000162552	ENSGT00940000167996 #30	ENSGT00390000004987 #32	ENSGT00550000074931 #33	ENSGT00550000075046 #34
Marmotini_b	ANCESTRAL SPECIES	140	ENSGT00940000154755.c.b.f #11	ENSGT00940000154755.c.b.e #11	ENSGT00940000154755.c.a #12	ENSGT00940000161877.c.b ##13	ENSGT00940000161877.d #13	ENSGT00940000161877.c.a ##13	ENSGT00940000163249 #14	ENSGT00940000162294 #15	ENSGT00940000162636.A #16	ENSGT00940000162636.B ##16	ENSGT00910000144356 #17	ENSGT00900000141212 #18	ENSGT00390000005826.a.b #19	ENSGT00870000136554 #20	ENSGT00940000162041 #21	ENSGT00940000156996 #22	ENSGT00940000163276 #23	ENSGT00940000156819.a.a	ENSGT00940000155999 #24	ENSGT00940000159137 #25	ENSGT00940000159727 #26	ENSGT00940000162247	ENSGT00670000098098 #27	ENSGT00390000010121 #28	ENSGT00390000007696.e.a.a.a
Squirrel	MODERN SPECIES	220	ENSSTOG00000023496	ENSSTOG00000026963 #12	ENSSTOG00000015564 ##13	ENSSTOG00000028869 #13	ENSSTOG00000004129 #14	ENSSTOG00000020102	CST8 (ENSSTOG00000004122) #15	ENSSTOG00000024532 #16	ENSSTOG00000021841 ##16	CST11 (ENSSTOG00000004847) #17	CSTL1 (ENSSTOG00000024563) #18	NAPB (ENSSTOG00000022350) #19	ENSSTOG00000030626	GZF1 (ENSSTOG00000009820) #20	NXT1 (ENSSTOG00000026331) #21	CD93 (ENSSTOG00000024530) #22	SSTR4 (ENSSTOG00000021697)	FOXA2 (ENSSTOG00000020150) #24	PAX1 (ENSSTOG00000003000) #25	NKX2-2 (ENSSTOG00000021450) #26	XRN2 (ENSSTOG00000000589) #27	KIZ (ENSSTOG00000007449) #28
Arctic ground squirrel	MODERN SPECIES	114	ENSUPAG00010009918 ##13	ENSUPAG00010009902 ##13	ENSUPAG00010009895 #14	CST8 (ENSUPAG00010009884) #15	ENSUPAG00010009878 #16	ENSUPAG00010009872 ##16	CST11 (ENSUPAG00010009858) #17	CSTL1 (ENSUPAG00010009856) #18	ENSUPAG00010009855	ENSUPAG00010009850	NAPB (ENSUPAG00010009788) #19	GZF1 (ENSUPAG00010009780) #20	NXT1 (ENSUPAG00010009776) #21	ENSUPAG00010009772	ENSUPAG00010009759	CD93 (ENSUPAG00010009758) #22	THBD (ENSUPAG00010009753) #23	SSTR4 (ENSUPAG00010009751)	FOXA2 (ENSUPAG00010009738) #24	ENSUPAG00010009726	PAX1 (ENSUPAG00010009718) #25	NKX2-2 (ENSUPAG00010009710) #26	NKX2-4 (ENSUPAG00010009706)	XRN2 (ENSUPAG00010009667) #27	KIZ (ENSUPAG00010009237) #28	ENSUPAG00010009220
Alpin marmot	MODERN SPECIES		SYNDIG1 (ENSMMMG00000004598) #9	ENSMMMG00000004547 #11	ENSMMMG00000004528 #12	ENSMMMG00000004523 ##13	ENSMMMG00000004513 #14	CST8 (ENSMMMG00000004504) #15	ENSMMMG00000004491 #16	ENSMMMG00000004483 ##16	CST11 (ENSMMMG00000004467) #17	CSTL1 (ENSMMMG00000004456) #18	ENSMMMG00000004433	NAPB (ENSMMMG00000004419) #19	GZF1 (ENSMMMG00000004407) #20	NXT1 (ENSMMMG00000004405) #21	ENSMMMG00000004398	CD93 (ENSMMMG00000004395) #22	THBD (ENSMMMG00000004391) #23	SSTR4 (ENSMMMG00000004385)	FOXA2 (ENSMMMG00000004350) #24	PAX1 (ENSMMMG00000004326) #25	NKX2-2 (ENSMMMG00000004284) #26	XRN2 (ENSMMMG00000004161) #27	KIZ (ENSMMMG00000003881) #28	ENSMMMG00000003871	RALGAPA2 (ENSMMMG00000003453) #29	ENSMMMG00000003417 #30	ENSMMMG00000003408 #32	ENSMMMG00000003290 #32	CRNKL1 (ENSMMMG00000003244) #33	NAA20 (ENSMMMG00000003240) #34	RIN2 (ENSMMMG00000003172) #35
Eurasian red squirrel	MODERN SPECIES	11	ENSSVLG00005012618	ENSSVLG00005012635 #12	ENSSVLG00005012678	ENSSVLG00005012749 ##13	ENSSVLG00005012823 #13	ENSSVLG00005012871 #14	CST8 (ENSSVLG00005000126) #15	ENSSVLG00005000133 #16	ENSSVLG00005000139 ##16	CST11 (ENSSVLG00005000162) #17	CSTL1 (ENSSVLG00005000168) #18	NAPB (ENSSVLG00005000227) #19	GZF1 (ENSSVLG00005000288) #20	ENSSVLG00005000304 #21	ENSSVLG00005000317 #21	CD93 (ENSSVLG00005000330) #22	THBD (ENSSVLG00005000349) #23	SSTR4 (ENSSVLG00005000359)	ENSSVLG00005000368	FOXA2 (ENSSVLG00005000389) #24	ENSSVLG00005000403	PAX1 (ENSSVLG00005000421) #25	NKX2-2 (ENSSVLG00005000441) #26	NKX2-4 (ENSSVLG00005000455)	XRN2 (ENSSVLG00005000470) #27	KIZ (ENSSVLG00005000513) #28	ENSSVLG00005000546	RALGAPA2 (ENSSVLG00005000611) #29	INSM1 (ENSSVLG00005000689)	CFAP61 (ENSSVLG00005000731) #32	ENSSVLG00005000777