Rodentia_A	ANCESTRAL SPECIES	2	ENSGT00530000063675.a	ENSGT00940000156346 #8	ENSGT00510000048144 #9	ENSGT00690000102225 #10	ENSGT00390000008502 #11	ENSGT01030000234623.a.b.b #12	ENSGT00910000144347.x #13	ENSGT00940000161615 #14	ENSGT00940000155425 #15	ENSGT00910000144338 #16	ENSGT00950000182957.a.a.b #17	ENSGT00950000182772.B.a.b #18	ENSGT00390000009048.a.a #20	ENSGT00950000183254 #19	ENSGT00940000158701 #21	ENSGT00390000011891 #22	ENSGT00940000156677 #23	ENSGT00940000161523 #24	ENSGT00900000143426	ENSGT00950000183113.b.a #25	ENSGT00940000162599	ENSGT01050000244866.A.a.b.b #27	ENSGT01050000244866.A.a.b.a #28	ENSGT01050000244866.A.b #29	ENSGT00390000018016 #30	ENSGT00390000016216 #31	ENSGT00950000183075.a.a.a.b #32	ENSGT00940000160367 #36	ENSGT00390000000491 #37	ENSGT00940000164290	ENSGT00960000187136
Sciuridae	ANCESTRAL SPECIES	11	ENSGT00530000063675.a	ENSGT00940000156346 #8	ENSGT00510000048144 #9	ENSGT00690000102225 #10	ENSGT00390000008502 #11	ENSGT01030000234623.a.b.b #12	ENSGT00910000144347.x #13	ENSGT00940000161615 #14	ENSGT00940000155425 #15	ENSGT00910000144338 #16	ENSGT00950000182957.a.a.b #17	ENSGT00950000182772.B.a.b #18	ENSGT00390000009048.a.a #20	ENSGT00950000183254 #19	ENSGT00940000158701 #21	ENSGT00390000011891 #22	ENSGT00940000156677 #23	ENSGT00940000161523 #24	ENSGT00900000143426	ENSGT00950000183113.b.a #25	ENSGT00940000162599	ENSGT01050000244866.A.a.b.b #27	ENSGT01050000244866.A.a.b.a #28	ENSGT01050000244866.A.b #29	ENSGT00390000018016 #30	ENSGT00390000016216 #31	ENSGT00950000183075.a.a.a.b #32	ENSGT00940000160367 #36	ENSGT00390000000491 #37	ENSGT00940000164290	ENSGT00960000187136
Eurasian red squirrel	MODERN SPECIES	11	ENSSVLG00005005085 #7	FRMD5 (ENSSVLG00005004959) #8	WDR76 (ENSSVLG00005004907) #9	MFAP1 (ENSSVLG00005004879) #10	HYPK (ENSSVLG00005004857) #11	SERINC4 (ENSSVLG00005004821) #12	ENSSVLG00005004775 #13	ELL3 (ENSSVLG00005004750) #14	PDIA3 (ENSSVLG00005004732) #15	CATSPER2 (ENSSVLG00005004713) #16	STRC (ENSSVLG00005004652) #17	ENSSVLG00005004607 #18	ENSSVLG00005004584 #19	PPIP5K1 (ENSSVLG00005004405) #20	MAP1A (ENSSVLG00005004338) #21	TP53BP1 (ENSSVLG00005004287) #22	TUBGCP4 (ENSSVLG00005004238) #23	ZSCAN29 (ENSSVLG00005004207) #24	ADAL (ENSSVLG00005004166) #25	ENSSVLG00005004147 #26	TGM7 (ENSSVLG00005004123) #27	TGM5 (ENSSVLG00005004088) #28	EPB42 (ENSSVLG00005003990) #29	CCNDBP1 (ENSSVLG00005003934) #30	TMEM62 (ENSSVLG00005003864) #31	UBR1 (ENSSVLG00005003806) #32	ENSSVLG00005003756 #33	ENSSVLG00005003741 #34	ENSSVLG00005003728 #35	TTBK2 (ENSSVLG00005003710) #36	CDAN1 (ENSSVLG00005003669) #37
Marmotini	ANCESTRAL SPECIES	9	ENSGT00530000063675.a	ENSGT00940000156346 #8	ENSGT00510000048144 #9	ENSGT00690000102225 #10	ENSGT00390000008502 #11	ENSGT01030000234623.a.b.b #12	ENSGT00910000144347.x #13	ENSGT00940000161615 #14	ENSGT00940000155425 #15	ENSGT00910000144338 #16	ENSGT00950000182957.a.a.b #17	ENSGT00950000182772.B.a.b #18	ENSGT00390000009048.a.a #20	ENSGT00950000183254 #19	ENSGT00940000158701 #21	ENSGT00390000011891 #22	ENSGT00940000156677 #23	ENSGT00940000161523 #24	ENSGT00900000143426	ENSGT00950000183113.b.a #25	ENSGT00940000162599	ENSGT01050000244866.A.a.b.b #27	ENSGT01050000244866.A.a.b.a #28	ENSGT01050000244866.A.b #29	ENSGT00390000018016 #30	ENSGT00390000016216 #31	ENSGT00950000183075.a.a.a.b #32	ENSGT00940000160367 #36	ENSGT00390000000491 #37	ENSGT00940000164290	ENSGT00960000187136
Marmotini_b	ANCESTRAL SPECIES	4	ENSGT01040000240503.A.a.a	ENSGT00530000063675.a	ENSGT00940000156346 #8	ENSGT00510000048144 #9	ENSGT00690000102225 #10	ENSGT00390000008502 #11	ENSGT01030000234623.a.b.b #12	ENSGT00910000144347.x #13	ENSGT00940000161615 #14	ENSGT00940000155425 #15	ENSGT00910000144338 #16	ENSGT00950000182957.a.a.b #17	ENSGT00950000182772.B.a.b #18	ENSGT00390000009048.a.a #20	ENSGT00940000158701 #21	ENSGT00390000011891 #22	ENSGT00940000156677 #23	ENSGT00940000161523 #24	ENSGT00900000143426	ENSGT00950000183113.b.a #25	ENSGT00940000162599	ENSGT01050000244866.A.a.b.b #27	ENSGT01050000244866.A.a.b.a #28	ENSGT01050000244866.A.b #29	ENSGT00390000018016 #30	ENSGT00390000016216 #31	ENSGT00950000183075.a.a.a.b #32	ENSGT00940000160367 #36	ENSGT00390000000491 #37	ENSGT00940000164290	ENSGT00940000164484
Arctic ground squirrel	MODERN SPECIES	4	FRMD5 (ENSUPAG00010010188) #8	WDR76 (ENSUPAG00010010229) #9	MFAP1 (ENSUPAG00010010275) #10	HYPK (ENSUPAG00010010283) #11	SERINC4 (ENSUPAG00010010300) #12	ENSUPAG00010010342 ##13	ELL3 (ENSUPAG00010010367) #14	PDIA3 (ENSUPAG00010010414) #15	ENSUPAG00010010432	CATSPER2 (ENSUPAG00010010437) #16	STRC (ENSUPAG00010010463) #17	ENSUPAG00010010501 #18	PPIP5K1 (ENSUPAG00010010520) #20	MAP1A (ENSUPAG00010011785) #21	ENSUPAG00010011798	TP53BP1 (ENSUPAG00010011808) #22	TUBGCP4 (ENSUPAG00010011916) #23	ZSCAN29 (ENSUPAG00010011982) #24	ENSUPAG00010012006	ADAL (ENSUPAG00010012022) #25	LCMT2 (ENSUPAG00010012148)	TGM7 (ENSUPAG00010012150) #27	TGM5 (ENSUPAG00010012161) #28	EPB42 (ENSUPAG00010012173) #29	CCNDBP1 (ENSUPAG00010012188) #30	TMEM62 (ENSUPAG00010012249) #31	UBR1 (ENSUPAG00010012265) #32	TTBK2 (ENSUPAG00010012404) #36	CDAN1 (ENSUPAG00010012442) #37	STARD9 (ENSUPAG00010012572)	ENSUPAG00010012822
Squirrel	MODERN SPECIES	71	CTDSPL2 (ENSSTOG00000002215)	GOLM2 (ENSSTOG00000009014)	FRMD5 (ENSSTOG00000007019) #8	WDR76 (ENSSTOG00000006985) #9	HYPK (ENSSTOG00000006916) #11	MFAP1 (ENSSTOG00000006967) #10	SERINC4 (ENSSTOG00000006939) #12	ENSSTOG00000021211 #13	ELL3 (ENSSTOG00000012181) #14	PDIA3 (ENSSTOG00000006893) #15	CATSPER2 (ENSSTOG00000025459) #16	STRC (ENSSTOG00000006829) #17	ENSSTOG00000006810 #18	PPIP5K1 (ENSSTOG00000007074) #20	MAP1A (ENSSTOG00000026949) #21	TP53BP1 (ENSSTOG00000006966) #22	TUBGCP4 (ENSSTOG00000006918) #23	ZSCAN29 (ENSSTOG00000006892) #24	ADAL (ENSSTOG00000006870) #25	LCMT2 (ENSSTOG00000027246)	TGM7 (ENSSTOG00000001064) #27	TGM5 (ENSSTOG00000001050) #28	EPB42 (ENSSTOG00000001041) #29	CCNDBP1 (ENSSTOG00000001030) #30	TMEM62 (ENSSTOG00000012992) #31	UBR1 (ENSSTOG00000008907) #32	TTBK2 (ENSSTOG00000027361) #36	CDAN1 (ENSSTOG00000006305) #37	ENSSTOG00000034368	ENSSTOG00000024994	HAUS2 (ENSSTOG00000006207)
Alpin marmot	MODERN SPECIES	7	GOLM2 (ENSMMMG00000018044)	FRMD5 (ENSMMMG00000018137) #8	ENSMMMG00000018185 #9	MFAP1 (ENSMMMG00000018199) #10	HYPK (ENSMMMG00000018203) #11	SERINC4 (ENSMMMG00000018211) #12	ENSMMMG00000018255 #13	ELL3 (ENSMMMG00000018287) #14	PDIA3 (ENSMMMG00000018324) #15	CATSPER2 (ENSMMMG00000018345) #16	STRC (ENSMMMG00000018372) #17	ENSMMMG00000018415 #18	PPIP5K1 (ENSMMMG00000018436) #20	ENSMMMG00000018606 #19	MAP1A (ENSMMMG00000018613) #21	TP53BP1 (ENSMMMG00000018697) #22	TUBGCP4 (ENSMMMG00000018766) #23	ZSCAN29 (ENSMMMG00000018814) #24	ENSMMMG00000018826	ADAL (ENSMMMG00000018830) #25	LCMT2 (ENSMMMG00000018863)	TGM7 (ENSMMMG00000018868) #27	TGM5 (ENSMMMG00000018903) #28	EPB42 (ENSMMMG00000018914) #29	CCNDBP1 (ENSMMMG00000018926) #30	TMEM62 (ENSMMMG00000018944) #31	UBR1 (ENSMMMG00000018995) #32	TTBK2 (ENSMMMG00000019017) #36	CDAN1 (ENSMMMG00000019058) #37	ENSMMMG00000019240	ENSMMMG00000019261
Hystricomorpha	ANCESTRAL SPECIES	43	ENSGT00520000055649.b	ENSGT00390000016791	ENSGT00390000018400	ENSGT01040000240503.A.a.a	ENSGT00530000063675.a.h	ENSGT00940000156346 #8	ENSGT00510000048144 #9	ENSGT00690000102225 #10	ENSGT00390000008502 #11	ENSGT00910000144347.x #13	ENSGT00940000161615 #14	ENSGT00940000155425 #15	ENSGT00950000182772.B.a.b #18	ENSGT00390000009048.a.a #20	ENSGT00940000158701 #21	ENSGT00390000011891 #22	ENSGT00940000156677 #23	ENSGT00900000143426	ENSGT00940000161523 #24	ENSGT00950000183113.b.a.n #25	ENSGT00940000162599	ENSGT01050000244866.A.a.b.b #27	ENSGT01050000244866.A.a.b.a #28	ENSGT01050000244866.A.b #29	ENSGT00390000018016 #30	ENSGT00390000016216 #31	ENSGT00950000183075.a.a.a.b #32	ENSGT00940000160367 #36	ENSGT00390000000491 #37	ENSGT00940000163117	ENSGT00390000004927.f
Hystricomorpha_a	DUPLICATION
Hystricomorpha_a	ANCESTRAL SPECIES	25	ENSGT00520000055649.b	ENSGT00390000016791	ENSGT00390000018400	ENSGT01040000240503.A.a.a	ENSGT00530000063675.a.h	ENSGT00940000156346 #8	ENSGT00510000048144 #9	ENSGT00690000102225 #10	ENSGT00390000008502 #11	ENSGT00910000144347.x #13	ENSGT00940000161615 #14	ENSGT00940000155425 #15	ENSGT00950000182772.B.a.b #18	ENSGT00390000009048.a.a #20	ENSGT00940000158701 #21	ENSGT00390000011891.c #22	ENSGT00940000156677 #23	ENSGT00940000161523 #24	ENSGT00950000183113.b.a.n #25	ENSGT00940000162599	ENSGT01050000244866.A.a.b.b #27	ENSGT01050000244866.A.a.b.a #28	ENSGT01050000244866.A.b #29	ENSGT00390000018016 #30	ENSGT00390000016216 #31	ENSGT00950000183075.a.a.a.b #32	ENSGT00940000160367 #36	ENSGT00390000000491 #37	ENSGT00940000163117	ENSGT00390000004927.f	ENSGT00940000157393
Guinea pig	MODERN SPECIES	10	PATL2 (ENSCPOG00000002922)	ENSCPOG00000002915	EIF3J (ENSCPOG00000012396)	CTDSPL2 (ENSCPOG00000024099)	GOLM2 (ENSCPOG00000032860)	FRMD5 (ENSCPOG00000006363) #8	WDR76 (ENSCPOG00000002178) #9	MFAP1 (ENSCPOG00000033061) #10	HYPK (ENSCPOG00000002173) #11	ENSCPOG00000031483 #13	ELL3 (ENSCPOG00000008194) #14	PDIA3 (ENSCPOG00000008187) #15	ENSCPOG00000001794 #18	PPIP5K1 (ENSCPOG00000001790) #20	MAP1A (ENSCPOG00000000886) #21	ENSCPOG00000024235 #22	ENSCPOG00000001787 #22	TUBGCP4 (ENSCPOG00000001784) #23	ZSCAN29 (ENSCPOG00000001782) #24	ADAL (ENSCPOG00000002337) #25	LCMT2 (ENSCPOG00000000059)	TGM7 (ENSCPOG00000013440) #27	TGM5 (ENSCPOG00000013438) #28	ENSCPOG00000003390 #29	CCNDBP1 (ENSCPOG00000003385) #30	TMEM62 (ENSCPOG00000033349) #31	UBR1 (ENSCPOG00000009629) #32	TTBK2 (ENSCPOG00000013213) #36	CDAN1 (ENSCPOG00000013195) #37	ENSCPOG00000013181	HAUS2 (ENSCPOG00000030527)
Hystricomorpha_b	ANCESTRAL SPECIES	20	ENSGT00390000016791	ENSGT00390000018400	ENSGT01040000240503.A.a.a	ENSGT00530000063675.a.h	ENSGT00940000156346 #8	ENSGT00510000048144 #9	ENSGT00690000102225 #10	ENSGT00390000008502 #11	ENSGT00910000144347.x #13	ENSGT00940000164082	ENSGT00940000161615 #14	ENSGT00940000155425 #15	ENSGT00950000182772.B.a.b #18	ENSGT00390000009048.a.a #20	ENSGT00940000158701 #21	ENSGT00390000011891.c #22	ENSGT00940000156677 #23	ENSGT00940000161523 #24	ENSGT00950000183113.b.a.n #25	ENSGT00940000162599	ENSGT01050000244866.A.a.b.b #27	ENSGT01050000244866.A.a.b.a #28	ENSGT01050000244866.A.b #29	ENSGT00390000018016 #30	ENSGT00390000016216 #31	ENSGT00950000183075.a.a.a.b #32	ENSGT00940000160367 #36	ENSGT00390000000491 #37	ENSGT00940000163117	ENSGT00390000004927.f	ENSGT00940000157393
Long-tailed chinchilla	MODERN SPECIES	123	PATL2 (ENSCLAG00000014407)	SPG11 (ENSCLAG00000016540)	EIF3J (ENSCLAG00000017286)	ENSCLAG00000013359	GOLM2 (ENSCLAG00000010634)	FRMD5 (ENSCLAG00000013639) #8	WDR76 (ENSCLAG00000010272) #9	MFAP1 (ENSCLAG00000010732) #10	HYPK (ENSCLAG00000007549) #11	ENSCLAG00000006897	ELL3 (ENSCLAG00000008218) #14	PDIA3 (ENSCLAG00000007127) #15	ENSCLAG00000016160 #18	PPIP5K1 (ENSCLAG00000008772) #20	MAP1A (ENSCLAG00000007250) #21	TP53BP1 (ENSCLAG00000008582) #22	TUBGCP4 (ENSCLAG00000007062) #23	ZSCAN29 (ENSCLAG00000009248) #24	ADAL (ENSCLAG00000012788) #25	LCMT2 (ENSCLAG00000011823)	TGM7 (ENSCLAG00000008796) #27	TGM5 (ENSCLAG00000006699) #28	EPB42 (ENSCLAG00000011681) #29	CCNDBP1 (ENSCLAG00000010434) #30	TMEM62 (ENSCLAG00000011063) #31	UBR1 (ENSCLAG00000008399) #32	TTBK2 (ENSCLAG00000013416) #36	CDAN1 (ENSCLAG00000012859) #37	ENSCLAG00000008839	HAUS2 (ENSCLAG00000011815)	LRRC57 (ENSCLAG00000015206)
Degu	MODERN SPECIES	43	ENSODEG00000016386	CTDSPL2 (ENSODEG00000016569)	ENSODEG00000016525	GOLM2 (ENSODEG00000016663)	ENSODEG00000016724	ENSODEG00000020502	FRMD5 (ENSODEG00000016269) #8	ENSODEG00000016060	MFAP1 (ENSODEG00000016397) #10	HYPK (ENSODEG00000016700) #11	ENSODEG00000016295 #13	PDIA3 (ENSODEG00000016212) #15	ENSODEG00000016390 #18	PPIP5K1 (ENSODEG00000016403) #20	MAP1A (ENSODEG00000016751) #21	TP53BP1 (ENSODEG00000016364) #22	TUBGCP4 (ENSODEG00000016217) #23	ZSCAN29 (ENSODEG00000016691) #24	ADAL (ENSODEG00000016433) #25	TGM7 (ENSODEG00000016365) #27	TGM5 (ENSODEG00000016333) #28	ENSODEG00000017025 #30	TMEM62 (ENSODEG00000016864) #31	UBR1 (ENSODEG00000016879) #32	ENSODEG00000016839 #36	CDAN1 (ENSODEG00000016883) #37	ENSODEG00000016844	ENSODEG00000016919	ENSODEG00000016623	ENSODEG00000016643	ENSODEG00000020344
Hystricomorpha_a	ANCESTRAL SPECIES																	ENSGT00390000011891.d #22
Guinea pig	MODERN SPECIES	10	ENSCPOG00000002915	EIF3J (ENSCPOG00000012396)	CTDSPL2 (ENSCPOG00000024099)	GOLM2 (ENSCPOG00000032860)	FRMD5 (ENSCPOG00000006363) #8	WDR76 (ENSCPOG00000002178) #9	MFAP1 (ENSCPOG00000033061) #10	HYPK (ENSCPOG00000002173) #11	ENSCPOG00000031483 #13	ELL3 (ENSCPOG00000008194) #14	PDIA3 (ENSCPOG00000008187) #15	ENSCPOG00000001794 #18	PPIP5K1 (ENSCPOG00000001790) #20	MAP1A (ENSCPOG00000000886) #21	ENSCPOG00000024235 #22	ENSCPOG00000001787 #22	TUBGCP4 (ENSCPOG00000001784) #23	ZSCAN29 (ENSCPOG00000001782) #24	ADAL (ENSCPOG00000002337) #25	LCMT2 (ENSCPOG00000000059)	TGM7 (ENSCPOG00000013440) #27	TGM5 (ENSCPOG00000013438) #28	ENSCPOG00000003390 #29	CCNDBP1 (ENSCPOG00000003385) #30	TMEM62 (ENSCPOG00000033349) #31	UBR1 (ENSCPOG00000009629) #32	TTBK2 (ENSCPOG00000013213) #36	CDAN1 (ENSCPOG00000013195) #37	ENSCPOG00000013181	HAUS2 (ENSCPOG00000030527)	LRRC57 (ENSCPOG00000003642)
Naked mole-rat female	MODERN SPECIES	30	ENSHGLG00000034268	ENSHGLG00000047086	ENSHGLG00000034821	ENSHGLG00000037354 #8	ENSHGLG00000046216 #8	WDR76 (ENSHGLG00000006513) #9	MFAP1 (ENSHGLG00000007753) #10	ENSHGLG00000049634 #11	ENSHGLG00000005915 ##13	ENSHGLG00000048162	ELL3 (ENSHGLG00000008994) #14	ENSHGLG00000007015 #15	ENSHGLG00000018662 #18	PPIP5K1 (ENSHGLG00000013903) #20	MAP1A (ENSHGLG00000010510) #21	TP53BP1 (ENSHGLG00000010943) #22	ENSHGLG00000014547 #23	ENSHGLG00000039206	ZSCAN29 (ENSHGLG00000012145) #24	ADAL (ENSHGLG00000015821) #25	LCMT2 (ENSHGLG00000021255)	ENSHGLG00000046245	ENSHGLG00000013743 #27	ENSHGLG00000016329 #28	ENSHGLG00000042047	ENSHGLG00000043278	ENSHGLG00000047107	ENSHGLG00000050529	ENSHGLG00000033351	ENSHGLG00000045866	ENSHGLG00000045254