Rodentia_A	ANCESTRAL SPECIES	18	ENSGT00940000153886.a.b.f	ENSGT00940000158863 #7	ENSGT00940000159497 #8	ENSGT00940000155059 #9	ENSGT00940000154502 #10	ENSGT00940000153141.B.a #11	ENSGT00520000055567.a.a.b #12	ENSGT00950000183056.B.b #13	ENSGT00940000160216 #14	ENSGT00950000183149.A #15	ENSGT00940000163618 #16	ENSGT00940000156731 #17	ENSGT00390000001029 #19	ENSGT00940000159246 #20	ENSGT00940000160233 #21	ENSGT00390000003248.a.a.a.b.cb.a.a #22	ENSGT00940000158011 #23	ENSGT00390000018056 #24	ENSGT00390000011782 #26	ENSGT01070000253766.A.b #27	ENSGT00940000154242.b #28	ENSGT00940000156694 #29	ENSGT00390000009040 #30	ENSGT00940000154185 #31	ENSGT00940000155121 #33	ENSGT00940000159123 #34	ENSGT00390000003289 #36	ENSGT00940000157341	ENSGT00940000161936	ENSGT00390000015871	ENSGT00940000159969.a
Sciuridae	ANCESTRAL SPECIES	17	ENSGT00940000158863 #7	ENSGT00940000159497 #8	ENSGT00940000155059 #9	ENSGT00940000154502 #10	ENSGT00940000153141.B.a #11	ENSGT00520000055567.a.a.b #12	ENSGT00950000183056.B.b #13	ENSGT00940000160216 #14	ENSGT00950000183149.A #15	ENSGT00940000163618 #16	ENSGT00940000156731 #17	ENSGT00390000001029 #19	ENSGT00940000159246 #20	ENSGT00940000160233 #21	ENSGT00390000003248.a.a.a.b.db ##22	ENSGT00390000003248.a.a.a.b.cb.a.a #22	ENSGT00940000158011 #23	ENSGT00390000018056 #24	ENSGT00390000011782 #26	ENSGT01070000253766.A.b #27	ENSGT00940000154242.b #28	ENSGT00940000156694 #29	ENSGT00390000009040 #30	ENSGT00940000154185 #31	ENSGT00940000155121 #33	ENSGT00940000159123 #34	ENSGT00390000003289 #36	ENSGT00940000157341	ENSGT00940000161936	ENSGT00390000015871	ENSGT00940000159969.a
Eurasian red squirrel	MODERN SPECIES		CA8 (ENSSVLG00005012006) #7	TOX (ENSSVLG00005011958) #8	NSMAF (ENSSVLG00005011910) #9	SDCBP (ENSSVLG00005011445) #10	CYP7A1 (ENSSVLG00005011337) #11	UBXN2B (ENSSVLG00005011261) #12	FAM110B (ENSSVLG00005011236) #13	BPNT2 (ENSSVLG00005011167) #14	PENK (ENSSVLG00005011127) #15	ENSSVLG00005010971 #16	SDR16C5 (ENSSVLG00005010895) #17	ENSSVLG00005010860 #18	CHCHD7 (ENSSVLG00005010790) #19	PLAG1 (ENSSVLG00005010731) #20	MOS (ENSSVLG00005010710) #21	RPS20 (ENSSVLG00005010588) #22	LYN (ENSSVLG00005010475) #23	TGS1 (ENSSVLG00005010446) #24	ENSSVLG00005010412 #25	ENSSVLG00005010285 #26	XKR4 (ENSSVLG00005010234) #27	RP1 (ENSSVLG00005009858) #28	SOX17 (ENSSVLG00005009789) #29	MRPL15 (ENSSVLG00005009764) #30	ENSSVLG00005009666 #31	ENSSVLG00005009646 #32	TCEA1 (ENSSVLG00005009501) #33	RGS20 (ENSSVLG00005009394) #34	ENSSVLG00005009360 #35	ATP6V1H (ENSSVLG00005009299) #36	ENSSVLG00005009270 #37
Marmotini	ANCESTRAL SPECIES																	ENSGT00390000003248.a.a.a.b.cb.a.a #22
Marmotini_b	ANCESTRAL SPECIES	52	ENSGT00940000157108	ENSGT00940000159307	ENSGT00940000155894	ENSGT00390000005870	ENSGT00940000157544	ENSGT00940000153141.B.a #11	ENSGT00520000055567.a.a.b #12	ENSGT00950000183056.B.b #13	ENSGT00940000160216 #14	ENSGT00950000183149.A #15	ENSGT00940000163618 #16	ENSGT00940000156731 #17	ENSGT00390000001029 #19	ENSGT00940000159246 #20	ENSGT00940000160233 #21	ENSGT00390000003248.a.a.a.b.cb.a.a #22	ENSGT00940000158011 #23	ENSGT00390000018056 #24	ENSGT00390000011782 #26	ENSGT01070000253766.A.b #27	ENSGT00940000154242.b #28	ENSGT00940000156694 #29	ENSGT00390000009040 #30	ENSGT00940000154185 #31	ENSGT00940000155121 #33	ENSGT00940000159123 #34	ENSGT00390000003289 #36	ENSGT00940000157341	ENSGT00940000161936	ENSGT00390000015871	ENSGT00940000159969.a
Arctic ground squirrel	MODERN SPECIES	137																RPS20 (ENSUPAG00010002625) #22	LYN (ENSUPAG00010002635) #23	TMEM68 (ENSUPAG00010002929) #26	XKR4 (ENSUPAG00010002936) #27	RP1 (ENSUPAG00010002942) #28	ENSUPAG00010002961	SOX17 (ENSUPAG00010002964) #29	MRPL15 (ENSUPAG00010002973) #30	LYPLA1 (ENSUPAG00010002986) #31	TCEA1 (ENSUPAG00010003008) #33	ENSUPAG00010003023	RGS20 (ENSUPAG00010003027) #34	ATP6V1H (ENSUPAG00010003037) #36	OPRK1 (ENSUPAG00010003107)	ENSUPAG00010003124	NPBWR1 (ENSUPAG00010003128)
Hystricomorpha	ANCESTRAL SPECIES	12	ENSGT00940000153886.a.b.f	ENSGT00940000158863 #7	ENSGT00940000159497 #8	ENSGT00940000155059 #9	ENSGT00940000154502 #10	ENSGT00940000153141.B.a #11	ENSGT00520000055567.a.a.b #12	ENSGT00950000183056.B.b #13	ENSGT00940000160216 #14	ENSGT00950000183149.A #15	ENSGT00940000163618 #16	ENSGT00940000156731 #17	ENSGT00390000001029 #19	ENSGT00940000159246 #20	ENSGT00940000160233 #21	ENSGT00390000003248.a.a.a.b.cb.a.a #22	ENSGT00390000003248.a.b.b ##22	ENSGT00390000003248.a.a.a.b.cb.b.b ##22	ENSGT00940000158011 #23	ENSGT00390000018056 #24	ENSGT00390000011782 #26	ENSGT01070000253766.A.b #27	ENSGT00940000154242.b #28	ENSGT00940000156694 #29	ENSGT00390000009040 #30	ENSGT00940000154185.cb #31	ENSGT00940000155121 #33	ENSGT00940000159123 #34	ENSGT00390000003289 #36	ENSGT00940000157341	ENSGT00940000161936
Hystricomorpha_a	ANCESTRAL SPECIES	9	ENSGT00940000153886.a.b.f	ENSGT00940000158863 #7	ENSGT00940000159497 #8	ENSGT00940000155059 #9	ENSGT00940000154502 #10	ENSGT00940000153141.B.a #11	ENSGT00520000055567.a.a.b #12	ENSGT00950000183056.B.b #13	ENSGT00940000160216 #14	ENSGT00950000183149.A #15	ENSGT00940000163618 #16	ENSGT00940000156731 #17	ENSGT00390000001029 #19	ENSGT00940000159246 #20	ENSGT00940000160233 #21	ENSGT00390000003248.a.a.a.b.cb.a.a #22	ENSGT00390000003248.a.a.a.b.cb.b.b ##22	ENSGT00940000158011 #23	ENSGT00390000018056 #24	ENSGT00390000011782 #26	ENSGT01070000253766.A.b #27	ENSGT00940000154242.b #28	ENSGT00940000156694 #29	ENSGT00390000009040 #30	ENSGT00940000154185.cb #31	ENSGT00940000155121 #33	ENSGT00940000159123 #34	ENSGT00390000003289 #36	ENSGT00940000157341	ENSGT00940000161936	ENSGT00390000015871.v
Guinea pig	MODERN SPECIES	64								FAM110B (ENSCPOG00000033617) #13	BPNT2 (ENSCPOG00000023705) #14	PENK (ENSCPOG00000031786) #15	ENSCPOG00000020018 #16	SDR16C5 (ENSCPOG00000000571) #17	CHCHD7 (ENSCPOG00000030280) #19	PLAG1 (ENSCPOG00000039131) #20	MOS (ENSCPOG00000020476) #21	ENSCPOG00000011697 #22	ENSCPOG00000030320	LYN (ENSCPOG00000011693) #23	TGS1 (ENSCPOG00000009713) #24	TMEM68 (ENSCPOG00000019826) #26	XKR4 (ENSCPOG00000003676) #27	ENSCPOG00000039324 #28	SOX17 (ENSCPOG00000000892) #29	MRPL15 (ENSCPOG00000035946) #30	LYPLA1 (ENSCPOG00000022715) #31	TCEA1 (ENSCPOG00000005886) #33	ENSCPOG00000038533 #34	ENSCPOG00000022816	ATP6V1H (ENSCPOG00000012174) #36	ENSCPOG00000023180	OPRK1 (ENSCPOG00000006607)
Hystricomorpha_b	ANCESTRAL SPECIES																	ENSGT00390000003248.a.a.a.b.cb.a.a #22
Degu	MODERN SPECIES	126																ENSODEG00000019073 #22	ENSODEG00000004554	ENSODEG00000005181	HMMR (ENSODEG00000004387)	ENSODEG00000004867	ENSODEG00000005448	TENM2 (ENSODEG00000005069)	WWC1 (ENSODEG00000004850)	RARS1 (ENSODEG00000005980)	ENSODEG00000005759	FBLL1 (ENSODEG00000019199)	PANK3 (ENSODEG00000005503)	SLIT3 (ENSODEG00000005145)	ENSODEG00000006240	INSYN2B (ENSODEG00000006097)	DOCK2 (ENSODEG00000004282)