Rodentia_A	ANCESTRAL SPECIES	9	ENSGT00950000182994.A.n.a #15	ENSGT00390000000141 #16	ENSGT00940000159611 #17	ENSGT00520000059318	ENSGT00950000183121.b.b.b.a	ENSGT00530000063666.a #18	ENSGT00390000008591 #19	ENSGT00940000159242	ENSGT00730000111075.b	ENSGT00940000161429 #20	ENSGT00940000164351	ENSGT00390000011425.A	ENSGT00940000165353	ENSGT00940000156017 #21	ENSGT00730000111570	ENSGT00950000183107.a.b.b #22	ENSGT00940000162488	ENSGT00950000182832.D.b #23	ENSGT00940000161206	ENSGT00950000183115.b.b	ENSGT01030000234518.D #24	ENSGT01100000263536.A.a.a.a ##26	ENSGT01100000263536.A.a.a.b #25	ENSGT01040000240444.A.a.a.a.b	ENSGT00940000163808	ENSGT01050000245003	ENSGT01100000263536.B.c.b #26	ENSGT00940000163592	ENSGT00940000161697 #27	ENSGT00390000008820.e.b #28	ENSGT00940000163576
Hystricomorpha	ANCESTRAL SPECIES	11	ENSGT00940000162668 #11	ENSGT00940000163888 #13	ENSGT00940000159818 #14	ENSGT00390000001134.b	ENSGT00950000182994.A.n.a #15	ENSGT00390000000141 #16	ENSGT00940000159611 #17	ENSGT00520000059318	ENSGT00530000063666.a #18	ENSGT00390000008591 #19	ENSGT00940000159242	ENSGT00730000111075.b	ENSGT00940000161429 #20	ENSGT00390000011425.A	ENSGT00940000156017 #21	ENSGT00950000183107.a.b.b #22	ENSGT00940000162488	ENSGT00950000182832.D.b #23	ENSGT00940000161206	ENSGT00950000183115.b.b	ENSGT01030000234518.D #24	ENSGT01100000263536.A.a.a.a ##26	ENSGT01100000263536.A.a.a.b #25	ENSGT01100000263536.B.c.b #26	ENSGT00940000161697 #27	ENSGT00390000008820.e.b #28	ENSGT00940000159568 #29	ENSGT00390000012178.g.a.a #30	ENSGT00390000012030.b.a #31	ENSGT00940000155902 #32	ENSGT00940000160087 #33
Hystricomorpha_a	ANCESTRAL SPECIES	51	ENSGT00940000162668 #11	ENSGT00940000163888 #13	ENSGT00940000159818 #14	ENSGT00390000001134.b	ENSGT00950000182994.A.n.a #15	ENSGT00390000000141 #16	ENSGT00940000159611 #17	ENSGT00520000059318	ENSGT00530000063666.a #18	ENSGT00390000008591 #19	ENSGT00940000159242	ENSGT00730000111075.b	ENSGT00940000161429 #20	ENSGT00390000011425.A	ENSGT00940000156017 #21	ENSGT00950000183107.a.b.b #22	ENSGT00950000182832.D.b #23	ENSGT00940000161206	ENSGT00950000183115.b.b	ENSGT01030000234518.D #24	ENSGT01100000263536.A.a.a.a ##26	ENSGT01100000263536.A.a.a.b #25	ENSGT01100000263536.B.c.b #26	ENSGT00940000161697 #27	ENSGT00390000008820.e.b #28	ENSGT00940000159568 #29	ENSGT00390000012178.g.a.a #30	ENSGT00390000012030.b.a #31	ENSGT00940000155902 #32	ENSGT00940000160087 #33	ENSGT00940000163182 #34
Guinea pig	MODERN SPECIES	26	ENSCPOG00000022352 #7	ENSCPOG00000019816 #8	ENSCPOG00000038470 #9	ENSCPOG00000034813 #10	PABPC5 (ENSCPOG00000002555) #11	ENSCPOG00000006969 #12	ENSCPOG00000038839 #13	KLHL4 (ENSCPOG00000008909) #14	CHM (ENSCPOG00000039732) #15	POF1B (ENSCPOG00000009472) #16	ZNF711 (ENSCPOG00000009467) #17	APOOL (ENSCPOG00000036938) #18	HDX (ENSCPOG00000014501) #19	POU3F4 (ENSCPOG00000003372) #20	SH3BGRL (ENSCPOG00000012267) #21	BRWD3 (ENSCPOG00000009894) #22	ENSCPOG00000026660 #23	GPR174 (ENSCPOG00000013180) #24	P2RY10 (ENSCPOG00000010882) #25	CYSLTR1 (ENSCPOG00000002100) #26	TAF9B (ENSCPOG00000002098) #27	PGK1 (ENSCPOG00000038840) #28	ATP7A (ENSCPOG00000020377) #29	ENSCPOG00000036844 #30	MAGT1 (ENSCPOG00000027554) #31	ATRX (ENSCPOG00000007873) #32	FGF16 (ENSCPOG00000007870) #33	MAGEE1 (ENSCPOG00000039465) #34	PBDC1 (ENSCPOG00000006794) #35	ZDHHC15 (ENSCPOG00000006742) #36	UPRT (ENSCPOG00000035232) #37
Hystricomorpha_b	ANCESTRAL SPECIES	113	ENSGT00940000162668 #11	ENSGT00940000163888 #13	ENSGT00940000159818 #14	ENSGT00390000001134.b	ENSGT00950000182994.A.n.a #15	ENSGT00390000000141 #16	ENSGT00940000159611 #17	ENSGT00520000059318	ENSGT00530000063666.a #18	ENSGT00390000008591 #19	ENSGT00940000159242	ENSGT00730000111075.b	ENSGT00940000161429 #20	ENSGT00390000011425.A	ENSGT00940000156017 #21	ENSGT00950000183107.a.b.b #22	ENSGT00950000182832.D.b #23	ENSGT00940000161206
Long-tailed chinchilla	MODERN SPECIES	236		POF1B (ENSCLAG00000001445) #16	ZNF711 (ENSCLAG00000006726) #17	ENSCLAG00000005441	APOOL (ENSCLAG00000005248) #18	HDX (ENSCLAG00000004931) #19	ENSCLAG00000004827	RPS6KA6 (ENSCLAG00000008786)	ENSCLAG00000007791	POU3F4 (ENSCLAG00000017671) #20	ENSCLAG00000007431	ENSCLAG00000007047	ENSCLAG00000006755	SH3BGRL (ENSCLAG00000006693) #21	ENSCLAG00000002689	BRWD3 (ENSCLAG00000002311) #22	ENSCLAG00000002120 #23	TBX22 (ENSCLAG00000001961)	ENSCLAG00000001888
Degu	MODERN SPECIES	144	ENSODEG00000018560	CHM (ENSODEG00000001208) #15	ENSODEG00000001180	POF1B (ENSODEG00000001140) #16	ZNF711 (ENSODEG00000001046) #17	ENSODEG00000001004	ENSODEG00000000990	APOOL (ENSODEG00000000970) #18	ENSODEG00000000866	HDX (ENSODEG00000000832) #19	RPS6KA6 (ENSODEG00000003590)	POU3F4 (ENSODEG00000019055) #20	ENSODEG00000003430	ENSODEG00000003422	SH3BGRL (ENSODEG00000003326) #21	BRWD3 (ENSODEG00000003272) #22	ENSODEG00000003179	ENSODEG00000001423 #23	TBX22 (ENSODEG00000001209)	ENSODEG00000001116
Naked mole-rat female	MODERN SPECIES	31	APOOL (ENSHGLG00000003635) #18	ENSHGLG00000035970	ENSHGLG00000045926	HDX (ENSHGLG00000003945) #19	RPS6KA6 (ENSHGLG00000004511)	ENSHGLG00000037398	ENSHGLG00000040597	ENSHGLG00000050316 #20	ENSHGLG00000050061	ENSHGLG00000005940	ENSHGLG00000020202	ENSHGLG00000020488	ENSHGLG00000007062	ENSHGLG00000007722 #21	ENSHGLG00000037295	BRWD3 (ENSHGLG00000002063) #22	ENSHGLG00000041421	TENT5D (ENSHGLG00000020434)	ENSHGLG00000000868 #23	TBX22 (ENSHGLG00000001099)	ENSHGLG00000001147	ITM2A (ENSHGLG00000001163)	ENSHGLG00000001279	P2RY10 (ENSHGLG00000001264) ##26	ENSHGLG00000001881 #25	ENSHGLG00000034411	ENSHGLG00000000659	NOX1 (ENSHGLG00000001560)	XKRX (ENSHGLG00000001130)	ENSHGLG00000032087	ENSHGLG00000044261
Sciuridae	ANCESTRAL SPECIES	35	ENSGT00950000183121.b.b.b.a	ENSGT00530000063666.a #18	ENSGT00940000163888.n #13	ENSGT00390000003732	ENSGT00940000163848	ENSGT01000000216433	ENSGT00390000008591 #19	ENSGT00940000159242	ENSGT00730000111075.b	ENSGT00940000161429 #20	ENSGT00940000164351	ENSGT00390000011425.A	ENSGT00940000165353	ENSGT00940000156017 #21	ENSGT00730000111570	ENSGT00950000183107.a.b.b #22	ENSGT00940000162488	ENSGT00950000182832.D.b #23	ENSGT00940000161206	ENSGT00950000183115.b.b	ENSGT01030000234518.D #24	ENSGT01100000263536.A.a.a.a ##26	ENSGT01100000263536.A.a.a.b #25	ENSGT01040000240444.A.a.a.a.b	ENSGT00940000163808	ENSGT01050000245003	ENSGT01100000263536.B.c.b #26	ENSGT00940000163592	ENSGT00940000161697 #27	ENSGT00390000008820.e.b #28	ENSGT00940000163576
Marmotini	ANCESTRAL SPECIES	78	ENSGT00950000183121.b.b.b.a	ENSGT00530000063666.a #18	ENSGT00530000067269	ENSGT00940000163888.m #13	ENSGT00940000163888.n #13	ENSGT00390000002792.cb	ENSGT00390000008591 #19	ENSGT00940000159242	ENSGT00730000111075.b	ENSGT00940000161429 #20	ENSGT00940000164351	ENSGT00390000011425.A	ENSGT00940000165353	ENSGT00940000156017 #21	ENSGT00730000111570	ENSGT00950000183107.a.b.b #22	ENSGT00940000162488	ENSGT00950000182832.D.b #23	ENSGT00940000161206	ENSGT00950000183115.b.b	ENSGT01030000234518.D #24	ENSGT01100000263536.A.a.a.a ##26	ENSGT01100000263536.A.a.a.b #25	ENSGT01040000240444.A.a.a.a.b	ENSGT00940000163808	ENSGT01050000245003	ENSGT01100000263536.B.c.b #26	ENSGT00940000163592	ENSGT00940000161697 #27	ENSGT00390000008820.e.b #28
Marmotini_b	ANCESTRAL SPECIES	121	ENSGT00940000159611 #17	ENSGT00520000059318	ENSGT00950000183121.b.b.b.a	ENSGT00530000063666.a #18	ENSGT00940000163888.n #13	ENSGT00390000002792.cb	ENSGT01000000216433	ENSGT00390000008591 #19	ENSGT00940000159242	ENSGT00940000161429 #20	ENSGT00940000164351	ENSGT00390000011425.A	ENSGT00940000165353	ENSGT00940000156017 #21	ENSGT00730000111570	ENSGT00950000183107.a.b.b #22	ENSGT00390000015930.e.b	ENSGT00940000162488	ENSGT00940000166733	ENSGT00940000161206	ENSGT00950000183115.b.b	ENSGT01030000234518.D #24	ENSGT01100000263536.A.a.a.a ##26	ENSGT01100000263536.A.a.a.b #25	ENSGT01040000240444.A.a.a.a.b	ENSGT00940000163808	ENSGT01050000245003	ENSGT01100000263536.B.c.b #26	ENSGT00390000016617.j	ENSGT00940000163592	ENSGT00940000161697 #27
Arctic ground squirrel	MODERN SPECIES	623											ENSUPAG00010011017	ENSUPAG00010011011	ENSUPAG00010011003	SH3BGRL (ENSUPAG00010010996) #21	ENSUPAG00010010988	BRWD3 (ENSUPAG00010010937) #22
Squirrel	MODERN SPECIES	147	DACH2 (ENSSTOG00000006685)	CHM (ENSSTOG00000022111) #15	POF1B (ENSSTOG00000011717) #16	ZNF711 (ENSSTOG00000008918) #17	ENSSTOG00000029673	APOOL (ENSSTOG00000005067) #18	ENSSTOG00000023046	ENSSTOG00000027226 #13	ENSSTOG00000033550	HDX (ENSSTOG00000015440) #19	RPS6KA6 (ENSSTOG00000002290)	POU3F4 (ENSSTOG00000026467) #20	ENSSTOG00000026305	SH3BGRL (ENSSTOG00000013216) #21	ENSSTOG00000030741	BRWD3 (ENSSTOG00000004508) #22	ENSSTOG00000032417	TENT5D (ENSSTOG00000000603)	ENSSTOG00000031325	TBX22 (ENSSTOG00000003725)	ENSSTOG00000034456	ITM2A (ENSSTOG00000010140)	GPR174 (ENSSTOG00000010269) #24	P2RY10 (ENSSTOG00000000139) #25	LPAR4 (ENSSTOG00000014696)	RTL3 (ENSSTOG00000027152)	ENSSTOG00000029872	ENSSTOG00000021890	ENSSTOG00000003354	TAF9B (ENSSTOG00000001982) #27	PGK1 (ENSSTOG00000001972) #28
Eurasian red squirrel	MODERN SPECIES	156	ENSSVLG00005024204	APOOL (ENSSVLG00005024251) #18	ENSSVLG00005024287	ENSSVLG00005024295 #13	ENSSVLG00005024315	HDX (ENSSVLG00005024346) #19	RPS6KA6 (ENSSVLG00005024442)	CYLC1 (ENSSVLG00005024602)	POU3F4 (ENSSVLG00005024640) #20	ENSSVLG00005024677	ENSSVLG00005010323	ENSSVLG00005010356	ENSSVLG00005010369	SH3BGRL (ENSSVLG00005010419) #21	ENSSVLG00005010444 #9	BRWD3 (ENSSVLG00005010574) #22	ENSSVLG00005010912	TENT5D (ENSSVLG00005010945)	ENSSVLG00005010961	ENSSVLG00005010993	TBX22 (ENSSVLG00005011035)	ITM2A (ENSSVLG00005011136)	GPR174 (ENSSVLG00005011269) #24	ENSSVLG00005011291 ##26	P2RY10 (ENSSVLG00005011313) #25	ENSSVLG00005011328	LPAR4 (ENSSVLG00005011359)	RTL3 (ENSSVLG00005011379)	ENSSVLG00005011426	ENSSVLG00005011444	CYSLTR1 (ENSSVLG00005011474) #26