Rodentia_A	ANCESTRAL SPECIES	5	ENSGT00940000157240	ENSGT00940000159245	ENSGT00940000155587.a.b	ENSGT00390000012174	ENSGT00390000012196	ENSGT00940000159505.x	ENSGT00510000047027	ENSGT00950000183152.B.c.a	ENSGT00940000160159	ENSGT00940000154989	ENSGT00390000008490	ENSGT00390000011821.a ##21	ENSGT00390000003874 #19	ENSGT00940000154826 #20	ENSGT00390000011821.b #21	ENSGT00950000182836.b.b.b.a #22	ENSGT00390000003873 #23	ENSGT00550000074981 #24	ENSGT00390000003706.a.a #25	ENSGT00940000161590	ENSGT00940000162228 #26	ENSGT00940000161104 #27	ENSGT00940000159292 #28	ENSGT00390000018807 #29	ENSGT00940000156404 #30	ENSGT00940000154360.A.b #31	ENSGT00510000047718 #17	ENSGT00940000155183 #18	ENSGT00940000158193 #12	ENSGT00950000182895.a.b.j #11	ENSGT00390000004977 #10
Hystricomorpha	ANCESTRAL SPECIES	60	ENSGT00940000162185	ENSGT00950000183022.b	ENSGT00940000158212.B	ENSGT00390000007989	ENSGT00940000155992 #7	ENSGT00390000015709 #8	ENSGT01090000259987.a.a.a #9	ENSGT00390000004977 #10	ENSGT00950000182895.a.b.j #11	ENSGT00940000158193 #12	ENSGT00940000155183 #18	ENSGT00510000047718 #17	ENSGT00390000003874 #19	ENSGT00940000154826 #20	ENSGT00390000011821.b #21	ENSGT00950000182836.b.b.b.a #22	ENSGT00390000003873 #23	ENSGT00550000074981 #24	ENSGT00390000003706.a.a #25	ENSGT00940000161590	ENSGT00940000162228 #26	ENSGT00940000161104 #27	ENSGT00940000159292 #28	ENSGT00390000018807 #29	ENSGT00940000156404 #30	ENSGT00940000154360.A.b #31	ENSGT00530000064267 #32	ENSGT00940000154678.a.a #33	ENSGT00940000159548 #34	ENSGT00950000183004.a.b.a.b #36	ENSGT00940000155686.n.b #35
Hystricomorpha_a	ANCESTRAL SPECIES	37	ENSGT00940000162185	ENSGT00950000183022.b	ENSGT00940000158212.B	ENSGT00390000007989	ENSGT00940000155992 #7	ENSGT00390000015709 #8	ENSGT01090000259987.a.a.a #9	ENSGT00390000004977 #10	ENSGT00950000182895.a.b.j #11	ENSGT00940000158193 #12	ENSGT00940000155183 #18	ENSGT00510000047718 #17	ENSGT00390000003874 #19	ENSGT00940000154826 #20	ENSGT00390000011821.b #21	ENSGT00950000182836.b.b.b.a #22	ENSGT00390000003873 #23	ENSGT00550000074981 #24	ENSGT00390000003706.a.a #25	ENSGT00940000161590	ENSGT00940000162228 #26	ENSGT00940000161104 #27	ENSGT00940000159292 #28	ENSGT00390000018807 #29	ENSGT00940000156404 #30	ENSGT00940000154360.A.b #31	ENSGT00530000064267 #32	ENSGT00940000154678.a.a #33	ENSGT00940000159548 #34	ENSGT00950000183004.a.b.a.b #36	ENSGT00940000155686.n.b #35
Guinea pig	MODERN SPECIES	90	ADARB1 (ENSCPOG00000022969) #7	SLX9 (ENSCPOG00000036519) #8	ITGB2 (ENSCPOG00000025922) #9	PTTG1IP (ENSCPOG00000023250) #10	SUMO3 (ENSCPOG00000025203) #11	UBE2G2 (ENSCPOG00000035970) #12	ENSCPOG00000037876 #13	ENSCPOG00000032969 #14	ENSCPOG00000038786 #15	ENSCPOG00000034347 #16	TSPEAR (ENSCPOG00000004362) #17	ENSCPOG00000036402 #18	PDXK (ENSCPOG00000039719) #19	CSTB (ENSCPOG00000031855) #20	RRP1 (ENSCPOG00000038986) #21	AGPAT3 (ENSCPOG00000032718) #22	TRAPPC10 (ENSCPOG00000011117) #23	PWP2 (ENSCPOG00000023616) #24	GATD3 (ENSCPOG00000011419) #25	DNMT3L (ENSCPOG00000004070) #26	AIRE (ENSCPOG00000019868) #27	PFKL (ENSCPOG00000019438) #28	CFAP410 (ENSCPOG00000009611) #29	TRPM2 (ENSCPOG00000023512) #30	LRRC3 (ENSCPOG00000030436) #31	PCP4 (ENSCPOG00000039173) #32	DSCAM (ENSCPOG00000005367) #33	BACE2 (ENSCPOG00000007403) #34	ENSCPOG00000025373 #35	ENSCPOG00000013108 #36	ENSCPOG00000021489 #37
Hystricomorpha_b	ANCESTRAL SPECIES	34	ENSGT00940000162185	ENSGT00950000183022.b	ENSGT00940000158212.B	ENSGT00390000007989	ENSGT00940000155992 #7	ENSGT00390000015709 #8	ENSGT01090000259987.a.a.a #9	ENSGT00390000004977 #10	ENSGT00950000182895.a.a.a.b.f ##11	ENSGT00940000158193 #12	ENSGT00940000155183 #18	ENSGT00510000047718 #17	ENSGT00390000003874 #19	ENSGT00940000154826 #20	ENSGT00390000011821.b #21	ENSGT00950000182836.b.b.b.a #22	ENSGT00390000003873 #23	ENSGT00550000074981 #24	ENSGT00390000003706.a.a #25	ENSGT00940000161590	ENSGT00940000162228 #26	ENSGT00940000161104 #27	ENSGT00940000159292 #28	ENSGT00390000018807 #29	ENSGT00940000156404 #30	ENSGT00940000154360.A.b #31	ENSGT00530000064267 #32	ENSGT00940000154678.a.a #33	ENSGT00940000159548 #34	ENSGT00950000183004.a.b.a.b #36	ENSGT00940000155686.n.b #35
Long-tailed chinchilla	MODERN SPECIES	114	SLX9 (ENSCLAG00000015540) #8	ITGB2 (ENSCLAG00000011530) #9	PTTG1IP (ENSCLAG00000008686) #10	ENSCLAG00000006914 ##11	UBE2G2 (ENSCLAG00000006675) #12	ENSCLAG00000006283	ENSCLAG00000005933	ENSCLAG00000005246	ENSCLAG00000004501 #18	ENSCLAG00000007645	ENSCLAG00000005431 #18	TSPEAR (ENSCLAG00000006788) #17	PDXK (ENSCLAG00000004982) #19	CSTB (ENSCLAG00000009970) #20	RRP1 (ENSCLAG00000011639) #21	AGPAT3 (ENSCLAG00000005641) #22	TRAPPC10 (ENSCLAG00000004935) #23	PWP2 (ENSCLAG00000009503) #24	GATD3 (ENSCLAG00000006863) #25	ICOSLG (ENSCLAG00000004572)	DNMT3L (ENSCLAG00000008128) #26	AIRE (ENSCLAG00000004699) #27	PFKL (ENSCLAG00000006907) #28	CFAP410 (ENSCLAG00000005977) #29	TRPM2 (ENSCLAG00000007001) #30	LRRC3 (ENSCLAG00000006488) #31	TMPRSS2 (ENSCLAG00000006480) #37	FAM3B (ENSCLAG00000005832) #36	ENSCLAG00000006920 #35	BACE2 (ENSCLAG00000006208) #34	DSCAM (ENSCLAG00000016317) #33
Degu	MODERN SPECIES	86	COL6A2 (ENSODEG00000013531)	ENSODEG00000020105	ENSODEG00000013981	PCBP3 (ENSODEG00000012873)	ENSODEG00000013398	ENSODEG00000020203	POFUT2 (ENSODEG00000013451)	ADARB1 (ENSODEG00000014508) #7	ITGB2 (ENSODEG00000013569) #9	PTTG1IP (ENSODEG00000013537) #10	ENSODEG00000013838 ##11	ENSODEG00000014012 #12	ENSODEG00000013439 #18	TSPEAR (ENSODEG00000013818) #17	PDXK (ENSODEG00000013386) #19	AGPAT3 (ENSODEG00000012787) #22	ENSODEG00000013648 #23	PWP2 (ENSODEG00000013073) #24	ENSODEG00000013954 #25	PFKL (ENSODEG00000014418) #28	CFAP410 (ENSODEG00000012840) #29	TRPM2 (ENSODEG00000013043) #30	LRRC3 (ENSODEG00000020091) #31	DSCAM (ENSODEG00000012858) #33	BACE2 (ENSODEG00000013570) #34	ENSODEG00000014232 #36	ENSODEG00000013917 #35	TMPRSS2 (ENSODEG00000013358) #37	RIPK4 (ENSODEG00000013779)	PRDM15 (ENSODEG00000013112)	C2CD2 (ENSODEG00000014616)
Naked mole-rat female	MODERN SPECIES	11	SLX9 (ENSHGLG00000045493) #8	ITGB2 (ENSHGLG00000013472) #9	ENSHGLG00000049629	PTTG1IP (ENSHGLG00000033185) #10	ENSHGLG00000037860 #11	ENSHGLG00000009258 #12	ENSHGLG00000014199 #17	ENSHGLG00000005505 #18	ENSHGLG00000043957	ENSHGLG00000038544 #18	ENSHGLG00000007283	ENSHGLG00000015985	ENSHGLG00000046004 #19	CSTB (ENSHGLG00000047009) #20	RRP1 (ENSHGLG00000050109) #21	AGPAT3 (ENSHGLG00000048529) #22	TRAPPC10 (ENSHGLG00000013176) #23	PWP2 (ENSHGLG00000017401) #24	ENSHGLG00000018104 #25	ENSHGLG00000013877	ENSHGLG00000009448 #26	AIRE (ENSHGLG00000016716) #27	PFKL (ENSHGLG00000017234) #28	ENSHGLG00000016027 #29	TRPM2 (ENSHGLG00000018785) #30	ENSHGLG00000042683 #31	PCP4 (ENSHGLG00000043480) #32	ENSHGLG00000005193 #33	ENSHGLG00000008616	ENSHGLG00000006993 #34	ENSHGLG00000041834 #35
Sciuridae	ANCESTRAL SPECIES	12	ENSGT00940000157240	ENSGT00940000159245	ENSGT00940000155587.a.b	ENSGT00390000012174	ENSGT00390000012196	ENSGT00940000159505.x	ENSGT00510000047027	ENSGT00950000183152.B.c.a	ENSGT00940000160159	ENSGT00940000154989	ENSGT00390000008490	ENSGT00390000011821.a ##21	ENSGT00390000003874 #19	ENSGT00940000154826 #20	ENSGT00390000011821.b #21	ENSGT00950000182836.b.b.b.a #22	ENSGT00390000003873 #23	ENSGT00550000074981 #24	ENSGT00390000003706.a.a #25	ENSGT00940000161590	ENSGT00940000162228 #26	ENSGT00940000161104 #27	ENSGT00940000159292 #28	ENSGT00390000018807 #29	ENSGT00940000156404 #30	ENSGT00940000154360.A.b #31	ENSGT00510000047718 #17	ENSGT00940000158193 #12	ENSGT00950000182895.a.b.j #11	ENSGT00390000004977 #10	ENSGT01090000259987.a.a.a #9
Marmotini	ANCESTRAL SPECIES	13	ENSGT00940000157240	ENSGT00940000159245	ENSGT00940000155587.a.b	ENSGT00390000012174	ENSGT00390000012196	ENSGT00940000159505.x	ENSGT00510000047027	ENSGT00950000183152.B.c.a	ENSGT00940000160159	ENSGT00940000154989	ENSGT00390000008490	ENSGT00390000011821.a ##21	ENSGT00390000003874 #19	ENSGT00940000154826.lb #20	ENSGT00390000011821.b #21	ENSGT00950000182836.b.b.b.a #22	ENSGT00390000003873 #23	ENSGT00550000074981 #24	ENSGT00390000003706.a.a #25	ENSGT00940000161590	ENSGT00940000162228 #26	ENSGT00940000161104 #27	ENSGT00940000159292 #28	ENSGT00390000018807 #29	ENSGT00940000156404 #30	ENSGT00940000154360.A.b #31	ENSGT00510000047718 #17	ENSGT00940000158193 #12	ENSGT00950000182895.a.b.j.o #11	ENSGT00390000004977 #10	ENSGT01090000259987.a.a.a #9
Alpin marmot	MODERN SPECIES	4	SLC37A1 (ENSMMMG00000010809)	PDE9A (ENSMMMG00000010894)	WDR4 (ENSMMMG00000011036)	ENSMMMG00000011055	PKNOX1 (ENSMMMG00000011067)	CBS (ENSMMMG00000011087)	U2AF1 (ENSMMMG00000011117)	CRYAA (ENSMMMG00000011152)	SIK1 (ENSMMMG00000011169)	HSF2BP (ENSMMMG00000011193)	RRP1B (ENSMMMG00000011209) ##21	PDXK (ENSMMMG00000011250) #19	ENSMMMG00000011256 #20	RRP1 (ENSMMMG00000011263) #21	ENSMMMG00000011344	AGPAT3 (ENSMMMG00000011363) #22	TRAPPC10 (ENSMMMG00000011441) #23	PWP2 (ENSMMMG00000011468) #24	GATD3 (ENSMMMG00000012356) #25	ICOSLG (ENSMMMG00000012361)	ENSMMMG00000012363 #26	AIRE (ENSMMMG00000012367) #27	ENSMMMG00000012488 #28	CFAP410 (ENSMMMG00000012554) #29	TRPM2 (ENSMMMG00000012573) #30	LRRC3 (ENSMMMG00000012614) #31	TSPEAR (ENSMMMG00000012623) #17	ENSMMMG00000012640	ENSMMMG00000012650	ENSMMMG00000012657	UBE2G2 (ENSMMMG00000012664) #12
Marmotini_b	ANCESTRAL SPECIES	30	ENSGT00940000157240	ENSGT00940000159245	ENSGT00940000155587.a.b	ENSGT00390000012174	ENSGT00390000012196	ENSGT00940000159505.x	ENSGT00510000047027	ENSGT00950000183152.B.c.a	ENSGT00940000160159	ENSGT00940000154989	ENSGT00390000008490	ENSGT00390000011821.a ##21	ENSGT00390000003874 #19	ENSGT00940000154826.lb #20	ENSGT00390000011821.b #21	ENSGT00950000182836.b.b.b.a #22	ENSGT00390000003873 #23	ENSGT00550000074981 #24	ENSGT00390000003706.a.a.db #25	ENSGT00940000161590	ENSGT00940000162228 #26	ENSGT00940000161104 #27	ENSGT00940000159292 #28	ENSGT00390000018807 #29	ENSGT00940000156404 #30	ENSGT00940000154360.A.b #31
Arctic ground squirrel	MODERN SPECIES	443	RSPH1 (ENSUPAG00010003495)	SLC37A1 (ENSUPAG00010003472)	PDE9A (ENSUPAG00010003388)	WDR4 (ENSUPAG00010003363)	ENSUPAG00010003358	PKNOX1 (ENSUPAG00010003344)	CBS (ENSUPAG00010003327)	U2AF1 (ENSUPAG00010003308)	CRYAA (ENSUPAG00010003295)	SIK1 (ENSUPAG00010003268)	HSF2BP (ENSUPAG00010003260)	RRP1B (ENSUPAG00010003249) ##21	PDXK (ENSUPAG00010003236) #19	ENSUPAG00010003225 #20	RRP1 (ENSUPAG00010003195) #21	AGPAT3 (ENSUPAG00010003091) #22	TRAPPC10 (ENSUPAG00010003060) #23	PWP2 (ENSUPAG00010003026) #24	GATD3 (ENSUPAG00010003022) #25	ICOSLG (ENSUPAG00010003013)	DNMT3L (ENSUPAG00010003002) #26	AIRE (ENSUPAG00010002765) #27	PFKL (ENSUPAG00010002724) #28	CFAP410 (ENSUPAG00010002705) #29	TRPM2 (ENSUPAG00010002652) #30	LRRC3 (ENSUPAG00010002648) #31
Squirrel	MODERN SPECIES	100	RSPH1 (ENSSTOG00000002331)	SLC37A1 (ENSSTOG00000025445)	PDE9A (ENSSTOG00000001452)	WDR4 (ENSSTOG00000000442)	NDUFV3 (ENSSTOG00000000445)	PKNOX1 (ENSSTOG00000000447)	CBS (ENSSTOG00000024905)	U2AF1 (ENSSTOG00000012766)	CRYAA (ENSSTOG00000019571)	SIK1 (ENSSTOG00000003810)	HSF2BP (ENSSTOG00000011783)	RRP1B (ENSSTOG00000011790) ##21	PDXK (ENSSTOG00000007194) #19	CSTB (ENSSTOG00000025748) #20	RRP1 (ENSSTOG00000011116) #21	AGPAT3 (ENSSTOG00000010466) #22	TRAPPC10 (ENSSTOG00000029008) #23	PWP2 (ENSSTOG00000014194) #24	ENSSTOG00000029443 #25	ICOSLG (ENSSTOG00000026567)	DNMT3L (ENSSTOG00000028895) #26	AIRE (ENSSTOG00000023870) #27	PFKL (ENSSTOG00000026523) #28	CFAP410 (ENSSTOG00000008553) #29	TRPM2 (ENSSTOG00000024472) #30	LRRC3 (ENSSTOG00000023533) #31
Eurasian red squirrel	MODERN SPECIES	1	PDE9A (ENSSVLG00005011481)	ENSSVLG00005011248	WDR4 (ENSSVLG00005025158)	ENSSVLG00005025141	PKNOX1 (ENSSVLG00005025120)	CBS (ENSSVLG00005025055)	U2AF1 (ENSSVLG00005024981)	CRYAA (ENSSVLG00005024913)	ENSSVLG00005024890	ENSSVLG00005024861	HSF2BP (ENSSVLG00005024842)	ENSSVLG00005024819 ##21	PDXK (ENSSVLG00005024785) #19	CSTB (ENSSVLG00005024758) #20	RRP1 (ENSSVLG00005024724) #21	AGPAT3 (ENSSVLG00005024678) #22	TRAPPC10 (ENSSVLG00005024638) #23	PWP2 (ENSSVLG00005024557) #24	GATD3 (ENSSVLG00005024474) #25	ICOSLG (ENSSVLG00005024369)	ENSSVLG00005024326 #26	AIRE (ENSSVLG00005023997) #27	PFKL (ENSSVLG00005023925) #28	CFAP410 (ENSSVLG00005023882) #29	TRPM2 (ENSSVLG00005023598) #30	LRRC3 (ENSSVLG00005023556) #31	ENSSVLG00005023369	ENSSVLG00005023080	ENSSVLG00005022707	ENSSVLG00005022624	TSPEAR (ENSSVLG00005022529) #17