#NEXUS

BEGIN TAXA;
	DIMENSIONS NTAX=16;
	TAXLABELS
		Caenorhabditis_elegans_MyoD Takifugu_rubripes_MyoD2 Sparus_aurata_MyoD2 Oryzias_latipes_MyoD1 Takifugu_rubripes_MyoD1 Mus_musculus_MyoD Homo_sapiens_MyoD Oncorhynchus_mykiss_MyoD1a Salmo_salar_MyoD1a Salmo_salar_MyoD1c Oncorhynchus_mykiss_MyoD1c Salmo_salar_MyoD1b Oncorhynchus_mykiss_MyoD1b Xenopus_laevis_MyoD Gallus_gallus_MyoD Anolis_carolinensis_MyoD 
	;
END;

BEGIN CHARACTERS;
	DIMENSIONS  NCHAR=394;
	FORMAT DATATYPE = Protein GAP = - MISSING = ?;
	MATRIX
	Caenorhabditis_elegans_MyoD  MNTETSTQSAPSDTYDTSIYYNSSPRVTANDI----TTLTSFAAPAPQVLDYANTQYDIYRNQPAYYLPSYAPTAPTTFYSDFANFNVTR-----SQDFASVPAVAN-SSDVKPIIIKQEKSTPNATELIIQSRVDSQHEDTTTSTAGGAGVGG-------PRRTKFVLSVDRRKAATMRERRRLRKVNEAFEVVKQRTCPNPNQRLPKVEILRSAIDYINNLERMLQQAGKMTKIMEQNQHLQMTQQINGAPPHDYVTSSHFASS-SYNPENMFDDDDLTDSDDDRDHHKLG-----NA-------VDLRRRNSLDRLSRIVASIPNEEAMTDEQLLQPAND------VIDGEKKLE---------------------------------ML-
	Takifugu_rubripes_MyoD2      ------------------------------------MDLSELVFPLS-ADD--------LYDDPC------FSSGDLNFFDDLDSRLL-----LKPEGHQHLHHHV--PS------------------AEEELEEE-TVVEEHVRAPGGLHQAGRCLLWACKACKRKTTHADRRKAATMRERRRLSKVNDAFETLKRCTASNPNQRLAKVEILRNAISYIESLQALLRTS----GQDQS--FYP--------PLEPYGADSEASSPQSNCSDGAMDYVSPCVTSNAKNN---RSRRNIQTTGDSS--SKQCLVSSLECLSSIVERISTDPTVVAPVGD--SVVPRGPGSPQS---------------SPAG---I--------------YEPL-
	Sparus_aurata_MyoD2          ------------------------------------MDLSDLPFPLSSADD--------LYDDPC------FSTSDMNFFDDLDARLMHAG-LLKPEDHLHHHHHYHVPI------------------AEE--------EDEHVRAPGGLHQAGHCLLWACKACKRKTTHADRRKAATMRERRRLSRVNDAFETLKRCTASSPNQRLPKVDILRNAISYIESLQALLRT-----GRDES--FYP--------PLEHYSGDSDASSPRSNCSDGMMDFISPCSSTSENSD---GSFSNQTAYESRR--SKRSLVSSLDCLSSIVERISTDPAV-APPGD--SVVPQGPGSPQN---------------SPTG---SSPAGSSHPAEPNSIYEPL-
	Oryzias_latipes_MyoD1        ------------------------------------MELSDIPFPIPAADD--------FYDDPC------FNTSDMHFFEDLDPRLVHGG-LLKPDDSSSSPSSSPCSSSSSPSSV-----------LHVHQRAE-VEDDEHVRAPSGHHQAGRCLLWACKACKRKTTNADRRKAATLRERRRLSKVNDAFETLKRCTSANPNQRLPKVEILRNAISYIESLQALLRAGQ-----EDG--FYP--------VLEHYSGDSDASSPRSNCSDGMTDFNGPRCQTTQKGSYDGGSYFSEALNGGHR-NDRSSVVSSLDCLSSIVERISTDSSCLPATADAPASP-------AA-AALSET-ERG-PRAAP-------TSSPASSQDPNLIYQDL-
	Takifugu_rubripes_MyoD1      ------------------------------------MELSEISFSIPAADD--------FYDDPC------FSTSDMHFFEDMDPRLVHAG-LLKPDDCCSSSSLSPSSSSASPSSL-----------LHIHHHTE-AEDDEHIRAPSGHHHAGRCLLWACKACKRKTTNVDRRKAATLRERRRLSKVNEAFETLKRCKNTNPNQRLPKGEILRNAISYIESLQALLRGGQ-----DEA--FYT--------VLEHYSGDSDASSPRSNCSDGMTDFNGPTCQSNRRGSYYS-SYFSQTPKGSLK-AER---NSSLDCLSSIVERISTATSSGPPPVDGRGSP----------------------GPLQ-------ASSPRSSREPNLIYQVL-
	Mus_musculus_MyoD            -------------------MELLSPPLRDIDLTGPDGSLCSFET----ADD--------FYDDPC------FDSPDLRFFEDLDPRLVHMGALLKPEEHAHFPT-------------------------AVHPGPG-AREDEHVRAPSGHHQAGRCLLWACKACKRKTTNADRRKAATMRERRRLSKVNEAFETLKRCTSSNPNQRLPKVEILRNAIRYIEGLQALLRDQDAAPPGAAA--FYAPGPLPPGRGSEHYSGDSDASSPRSNCSDGMMDYSGPPSGPRRQNGYDT-AYYSEAARESRP--GKSAAVSSLDCLSSIVERISTDSPAAPALLLADAPPESPPG-PPEGASLSD-TEQGTQTPSPDA-----APQCPAGSNPNAIYQVL-
	Homo_sapiens_MyoD            -------------------MELLSPPLRDVDLTAPDGSLCSFAT----TDD--------FYDDPC------FDSPDLRFFEDLDPRLMHVGALLKPEEHSHFPA-------------------------AVHPAPG-AREDEHVRAPSGHHQAGRCLLWACKACKRKTTNADRRKAATMRERRRLSKVNEAFETLKRCTSSNPNQRLPKVEILRNAIRYIEGLQALLRDQDAAPPGAAA--FYAPGPLPPGRGGEHYSGDSDASSPRSNCSDGMMDYSGPPSGARRRNCYEG-AYYNEAPSEPRP--GKSAAVSSLDYLSSIVERISTESPAAPALLLADVPSESPPR-RQEAAAPSEGESSGDPTQSPDA-----APQCPAGANPNPIYQVL-
	Oncorhynchus_mykiss_MyoD1a   -----------------------------MEL--P-----DIPFPITSPDD--------FYDDPC------FNTSDMHFFEDLDPRLVHVG-LLKPDDHHH-------------------------------------KEDEHIRAPSGHHQAGRCLLWACKACKRKTTNADRRKAATMRERRRLSKVNDAFETLKRCTSTNPNQRLPKVDILRNAISYIESLQGLLRGA----GQEGN--YYP--------VMDHYSGDSDASSPRSNCSDGMMDFNGQSCPPRRRNKYDS-TYFNEAPNDSRH--KKNSVISSLDCLSNIVERITTDTSACPAVQ--DGSEGSSPCSPGDGSIAS---ENGAPIPSPIN-CVPALH------DPNTIYQVL-
	Salmo_salar_MyoD1a           -----------------------------MEL--P-----DIPFPITSPDD--------FYDDPC------FNTSDMHFFEDLDPRLVHVG-LLKPDDHHH-------------------------------------KGDEHIRAPSGHHQAGRCLLWACKACKRKTTNADRRKAATMRERRRLSKVNDAFETLKRCTSTNPNQRLPKVDILRNAISYIESLQGLLRGA----GQEGN--YYP--------VMDHYSGDSDASSPRSNCSDGMMDFNDPSCPPRRRNKYDS-IYFNETPNDSRR--KKNSVISSLDCLSNIVERITTDTSACPAVQ--DGSEGSSPCSPGDGSIAS---ENGAPIPSPIN-CVPALH------DPNTIYQVL-
	Salmo_salar_MyoD1c           -----------------------------MEL--S-----DISFPITSADD--------FYDDPC------FNTSDMHFFEDMDPRLVHVG-LLKPDDHHH-------------------------------------NEDEHIRAPSGHHQAGRCLLWACKACKRKTTNTDRRKAATMRERRRLGKVNDAFENLKRCTSNNPNQRLPKVEILRNAISYIESLQSLLRGQ----DG-EN--YYP--------SLEHYNGDSDASSPRSNCSDGMMEYNAPTCTSARRSSYES-SYFAETPNADARSKKN-AVISSLDCLSSIVERISTDTSACTMLSVQ---E-GSPCSPQEGSILS---ETGATVPSPTK-CPQPSH------DP--IYQVL-
	Oncorhynchus_mykiss_MyoD1c   -----------------------------MEL--S-----DISFPITSADD--------FYDDPC------FNTSDMHFFEDMDPRLVHVG-LLKPDDHHH-------------------------------------NEDEHIRAPSGHHQAGRCLLWACKACKRKTTNTDRRKAATMRERRRLGKVNDAFENLKRCTSNNPNQRLPKVEILRNAISYIESLQSLLRGQ----DG-EN--YYP--------SLEHYNGDSDASSPRSNCSDGMMDYNAPTCTSARRSSYES-SYFAETPNADARSKKN-AVISSLDCLSSIVERISTDTSACTMLSVQ---E-GSPCSPQEGSILS---ETGATVPSPTK-CPQPSH------DP--IYQVL-
	Salmo_salar_MyoD1b           -----------------------------MEL--S-----DISFPVTSADD--------FYDDPC------FNTSDMHFFEDLDPRLVHVG-LLKPDDHHY-------------------------------------NEDEHIRAPSGHHQAGRCLLWACKACKRKTTNSDRRKAATMRERRRLGKVNDAFENLKRCTSNNPNQRLPKVEILRNAISYIESLQSLLRGQ----GG-EN--YYP--------MLEHYSGDSDASSPQSNCSDGMMDYNTPTCTSATRSNYYS-SYFAETPNAGARSNKNAAVISSLDCLSNIVERIFTDTSASTVLSGQEGSE-GSPCSPQEGSILS---ETGAPVPSPTN-CPQPSH------DP--IYQVL-
	Oncorhynchus_mykiss_MyoD1b   -----------------------------MEL--S-----DISFPVTSADD--------FYDDPC------FNTSDMHFFEDLDPRLVHVG-LLKPDDHHY-------------------------------------NEDEHIRAPSGHHQAGRCLLWACKACKRKTTNSDRRKAATMRERRRLGKVNDAFENLKRCTSNNPNQRLPKVEILRNAISYIESLQSLLRGQ----DG-EN--YYP--------VLEHYSGDSDASSPQSNCSDGMMDYNAPTCTSARRSNYDS-SYFAETPNADSRSNKNAA-VSSLDCLSNIVERISTDTSACTVLSGQEGSE-GSPCSPQEGSILS---RNGGTVPSPTN-CPQPSH------DP--IYQVL-
	Xenopus_laevis_MyoD          -------------------MELLPPPLRDMEV--TEGSLCSFPT----PDD--------FYDDPC------FNTSDMSFFEDLDPRLVHVA-LLKPEDPHH-------------------------------------NEDEHVRAPSGHHQAGRCLLWACKACKRKTTNADRRKAATMRERRRLSKVNEAFETLKRCTSTNPNQRLPKVEILRNAIRYIESLQSLLRGQEE------S--FYP--------VLEHYSGDSDASSPRSNCSDGMTDYS-PPCGSRRRNSYDS-SFYSDSPNGLRL--GKSSVISSLDCLSSIVERISTESPVCPVIPAADSGSEGSPCSPLQGETLS---ESGIIIPSPSNPCTHLSQD-----PSSTIYQVL-
	Gallus_gallus_MyoD           -------------------MD----LLGPMEM--TEGSLCSFTA----ADD--------FYDDPC------FNTSDMHFFEDLDPRLVHVGGLLKPEEHPHTR----------------------------APPRE-PTEEEHVRAPSGHHQAGRCLLWACKACKRKTTNADRRKAATMRERRRLSKVNEAFETLKRCTSTNPNQRLPKVEILRNAIRYIESLQALLREQED------A--YYP--------VLEHYSGESDASSPRSNCSDGMMEYSGPPCSSRRRNSYDS-SYYTESPNDPKH--GKSSVVSSLDCLSSIVERISTDNSTCPILPPAEAVAEGSPCSPQEGGNLS---DSGAQIPSPTN-CTPLPQESSSSSSSNPIYQVL-
	Anolis_carolinensis_MyoD     -------------------ME----VLGPMEM--PEGSLCSFAAASAAGED--------FYDDPC------FNTSDMHFFEDLDPRLVHVGGLLKPEEPHHHG----------------------------GPG----EADEHIRAPSGHHAAWRCLLWACKACKRKTTNADRRKAATMRERRRLSKVNEAFETLKRCTSSNPNQRLPKVEILRNAIRYIESLQALLREQEDGGGSGGA--YYP--------ALEHYSGDSDASSPRSNCSDGMMDYSGPPCNSRRRNSYDS-SYYSETLSDSKQ--GKSSVVSSLDCLSSIVERISTESTACPSLPVVDSGAEGSPCSLHDGSSLS---DPGTLTASPNS-CTQLPQEATSNAASNPIYQVL-
;
END;

BEGIN TREES;
	Title 'Trees from "myod.nexus"';
	ID 01574d4e23454;
	LINK Taxa = Taxa;
	TRANSLATE
[0] 		1 Caenorhabditis_elegans_MyoD,
[1] 		2 Takifugu_rubripes_MyoD2,
[2] 		3 Sparus_aurata_MyoD2,
[3] 		4 Oryzias_latipes_MyoD1,
[4] 		5 Takifugu_rubripes_MyoD1,
[5] 		6 Mus_musculus_MyoD,
[6] 		7 Homo_sapiens_MyoD,
[7] 		8 Oncorhynchus_mykiss_MyoD1a,
[8] 		9 Salmo_salar_MyoD1a,
[9] 		10 Salmo_salar_MyoD1c,
[10] 		11 Oncorhynchus_mykiss_MyoD1c,
[11] 		12 Salmo_salar_MyoD1b,
[12] 		13 Oncorhynchus_mykiss_MyoD1b,
[13] 		14 Xenopus_laevis_MyoD,
[14] 		15 Gallus_gallus_MyoD,
[15] 		16 Anolis_carolinensis_MyoD;
	TREE tree_1 = (1:1.770142335,((14:0.06642178,((6:0.03668759,7:0.03552801)0.9960:0.11791597,(15:0.0533464,16:0.08229856)0.5600:0.01687776)0.4380:0.02549942)0.6920:0.00000001,((2:0.17592511,3:0.06052291)0.9580:0.24156265,((4:0.08724587,5:0.13256354)0.9360:0.09761898,((8:0.0107353,9:0.00553132)1.0000:0.07062337,((10:0.00504612,11:0.0)0.9900:0.03296652,(12:0.01640702,13:0.00453562)0.8800:0.01102165)0.9820:0.07683011)0.8520:0.03986304)0.6520:0.01326682)0.4520:0.07783721)root:1.770142335);

END;