#NEXUS [ Title CDKsel4_MUSCLEed1_annotated.txt] begin taxa; dimensions ntax= 60; taxlabels Phaeodactylum_tricornutum_CDKC2 Thalassiosira_pseudonana_CDKC2 Homo_sapiens_CDK10 Phaeodactylum_tricornutum_CDKC1 Thalassiosira_pseudonana_CDKC1 Ostreococcus_tauri_CDKC Arabidopsis_thaliana_CDKC1 Arabidopsis_thaliana_CDKC2 Arabidopsis_thaliana_CDKE1 Phaeodactylum_tricornutum_CDKD1 Thalassiosira_pseudonana_CDKD1 Arabidopsis_thaliana_CDK7 Xenopus_laevis_CDK7 Homo_sapiens_CDK7 Ostreococcus_tauri_CDKD 'Arabidopsis thaliana CDKD1;1' 'Arabidopsis thaliana CDKD1;2' Drosophila_melanogaster_CDK4 Homo_sapiens_CDK6 Xenopus_laevis_CDK4 Homo_sapiens_CDK4 Cyanidioschyzon_merolae_CDKB 'Arabidopsis thaliana CDKB2;1' 'Arabidopsis thaliana CDKB2;2' Chlamydomonas_reinhardtii_CDKB 'Arabidopsis thaliana CDKB1;1' 'Arabidopsis thaliana CDKB1;2' Micromonas_sp._CDKB Micromonas_pusilla_CDKB Ostreococcus_lucimarinus_CDKB Ostreococcus_tauri_CDKB Cyanidioschyzon_merolae_CDKA Phytophthora_sojae_CDKA2 Ectocarpus_siliculosus_CDKBlike Nannochloropsis_gaditana_CDKA2 Ectocarpus_siliculosus_CDKB Phaeodactylum_tricornutum_CDKA2 Thalassiosira_pseudonana_CDKA2 Fragilariopsis_cylindrus_CDKA2 Nannochloropsis_gaditana_CDKA1b 'Phytophthora sojae CDKA1;2' Saccharomyces_cerevisiae_CDC28 Ectocarpus_siliculosus_CDKA 'Nannochloropsis gaditana CDKA1;1' 'Phytophthora sojae CDKA1;1' Thalassiosira_pseudonana_CDKA1 Phaeodactylum_tricornutum_CDKA1 Fragilariopsis_cylindrus_CDKA1 Drosophila_melanogaster_CDK2 Xenopus_laevis_CDK1 Homo_sapiens_CDK1 Schizosaccharomyces_pombe_CDC2 Xenopus_laevis_CDK2 Homo_sapiens_CDK2 Ostreococcus_tauri_CDKA Ostreococcus_lucimarinus_CDKA Micromonas_sp._CDKA Micromonas_pusilla_CDKA Chlamydomonas_reinhardtii_CDKA Arabidopsis_thaliana_CDKA1 ; end; begin characters; dimensions nchar= 226; format missing=? gap=- matchchar=. datatype=protein interleave=yes; matrix [!Domain=Data;] Phaeodactylum_tricornutum_CDKC2 FTKKHQVGQGTYGSVFVGQDKTIVALKRINTKEENGFPITALREVKILKVLHPNIVTLKEIVVFMVFEYLEDLTGVLEVK Thalassiosira_pseudonana_CDKC2 .Q......E.........A...V........E.........I.......A..D...Q..................II.I. Homo_sapiens_CDK10 .E.LNRI.E....I.YRAR.T......KVRMD.KD.I..SS...ITL.LR......E...V.I.L.MG.C...ASL.... Phaeodactylum_tricornutum_CDKC1 YERQE.I.E....Q.YRARC..V....KMRMHGGY.M.LQFI..I....K....LLQMI.V.L.L.L..VS....LMD.. Thalassiosira_pseudonana_CDKC1 YCRLE.I.E....Q.YRAKCL.M....K.RLQSGH.I.P.V...I....K..KAM.KMY.V.L.LSL..IS....L.D.. Ostreococcus_tauri_CDKC YE.LE.I.E....Q.YMARC.......K.RMD.KE......I..I....K..R.V.D.....IYL....MD....LA.I. Arabidopsis_thaliana_CDKC1 .E.LE.I.E....Q.YMAKEI......K.RMD.RE......I..I....K..E.VIQ.....IY.....MD....LADI. Arabidopsis_thaliana_CDKC2 .E.LE.I.E....Q.YMAKEI......K.RMD.RE......I..I....K..E.VIH.....IY.....MD....LADI. Arabidopsis_thaliana_CDKE1 YNLVGKI.E....L..LART.PPI.I.KFKQSDGD.VSP..I..IML.REI.E.V.K.VNVILYLA.D.A...YEIIR.. Phaeodactylum_tricornutum_CDKD1 YKVLSAL....W.V.HKAEQ.SV..I.K.KSEP.E.VNF..V..I.L.REF.E...E.VDCF.CL.Y.CAF..EKI.GT. Thalassiosira_pseudonana_CDKD1 YEVIKAL....W.V.HMAKQR......K.KSEP.E.VNF..I..I.L.REF.E..IE.VDVF.CL.Y.CAD..EKI.KT. Arabidopsis_thaliana_CDK7 YA.LSFL.E.QFAT.YKAR.T....V.K.KKGARD.INR.....I...QE..E..IG.VDVF.SL..DFMD..EVIIKI. Xenopus_laevis_CDK7 YE.LDFL.E.QFAT.YKAR......I.K.KLGAND.INR.....I.L.QE.....IG.LDAFISL..DFM...EVIIKI. Homo_sapiens_CDK7 YE.LDFL.E.QFAT.YKAR......I.K.KLGAKD.INR.....I.L.QE.....IG.LDAFISL..DFM...EVIIKI. Ostreococcus_tauri_CDKD YERGRTL.E....V.HEARV..V..I.K.RLGLKE.VNF..I..I.L.QEI.EHVIE.VDVFLNL....CG..EM.IK.. 'Arabidopsis thaliana CDKD1;1' YL.REVL......V..KAT.TNT..I.K.RLG.KE.VNV.....I.L..E...H.IE.IDAFLHI...FM...EA.IR.. 'Arabidopsis thaliana CDKD1;2' YLRRQIL.E....V.YKAT.T.T..V.K.RLGQKE.VNF.....I.L..E...H..E.IDAFLHL....MQ..EA.IRI. Drosophila_melanogaster_CDK4 YQELNII.E.A..T.YRAR.V......KVRISN...V.MST...ISL..Q..A...K.Y.VCILL...HV...SDLIDIQ Homo_sapiens_CDK6 YECVAEI.E.A..K..KAR.LNF.....VRVQG.E.M.LSTI...AV.RH....V.R.FDVCLTL...HVD...TY.DI. Xenopus_laevis_CDK4 YEPVAEI.V.A..T.YKAR.LSF....NVRVQN...L.LSTV...TL..R......K.MDVC.TL...HVD..KTY.SI. Homo_sapiens_CDK4 YEPVAEI.V.A..T.YKAR.PSF....SVRVPGGG.L..STV...AL.RR....V.R.MDVC.TL...HVD..RTY.DI. Cyanidioschyzon_merolae_CDKB .RRLEVL......T.YKAL.L......KTTLSDDE.I.A.T....S..RA.CE...K.IDVILYL....A...KQYMNA. 'Arabidopsis thaliana CDKB2;1' .E.LEK..E....K.YRARE.......KTRLHD.E.V.S.T...IS..RM.D.HV.R.MDVQLYL....MD.VKKFIRI. 'Arabidopsis thaliana CDKB2;2' .E.LEK..E....K.YRARE.......KTRLHD.E.V.P.T...IS..RM.D.H..R.MDVQLYL....VD..KKFIR.. Chlamydomonas_reinhardtii_CDKB YE.IEKI.E....K.YKAR.I.L....KCRLE..E.V.S.T...ISL.QM.SNH..K.LCVELYL.....N.MKKWMDI. 'Arabidopsis thaliana CDKB1;1' YE.LEK..E....K.YKAME..L....KTRLED.E.I.P.....ISL.QM.TSYV.R.LCVELYL.....D..KKFIDIQ 'Arabidopsis thaliana CDKB1;2' YE.LEK..E....K.YKAME..L....KTRLED.E.I.P.....ISL.QM.QSY..R.LCVELYL.....D..KKFID.Q Micromonas_sp._CDKB YE.LEKI......K.YKARER.L....KTRLE..E.V.S......SL.QM.SAFV.R.LKVELYL.....D..K.FMD.Q Micromonas_pusilla_CDKB YE.LEKI......K.YKAR.R.L....KTRLE..E.V.S......SL.QM.SAF..R.LKVELYL.....D..KNFMD.Q Ostreococcus_lucimarinus_CDKB YE.LEKI......K.YKARERNL....KTRLE..E.V.S......SL.QM.S.Y..R.LRVELYL...F.D..KQYMD.Q Ostreococcus_tauri_CDKB YE.LEKI......K.YKAR.R.L....KTRLE..E.V.S......SL.QM.S.Y..R.LRVELYL...F.D..KQFMD.Q Cyanidioschyzon_merolae_CDKA YQRLERI.E....V.YRAR.R.L....K.RLE..E.V.S.....IA..RE.Q..V.R.LDV.LYL...H.D..KRYMDA. Phytophthora_sojae_CDKA2 YQRIEKI.E....V.YKSL.L.V......RLE.DD.I.S.....ISV.RE......S.LDCLL.L...FMD..KRFM.I. Ectocarpus_siliculosus_CDKBlike Y..QEKA......V.YKSW.N.F....K.KVE.DD.I.G.....ISL..E......E..NC.LWLI..WVD..KRYMNI. Nannochloropsis_gaditana_CDKA2 YQ.IEKL.E....V.YKAR..........RLE.DE.I.S.....ISL.QE...C..E.LDC.LYL...FVD..KKYM... Ectocarpus_siliculosus_CDKB YQ.IEKL.E....V.YKAK.R........RLE.DE.I.S.....ISL.RE......E..DC.LYLI..FVD..KKYM... Phaeodactylum_tricornutum_CDKA2 YH.IEKL.E....V.YKAL.R........RLE.DE.I.S.....ISL.RE......D..DC.LYL...F.D..KKYM.I. Thalassiosira_pseudonana_CDKA2 YQ.IEKL.E....V.YKAR.R.T......RLE.DE.I.S.....ISL.RE..E...D..DC.LYL...F.D..KKA.... Fragilariopsis_cylindrus_CDKA2 YQ.IEKL.E....V.YKAL.R........RLE.DE.I.S.....ISL.RE..E.V.E.MDC.LYL...F.D..KKYM... 'Nannochloropsis gaditana CDKA1;2' ..NIQ.I.E....I.YKATTSNLI...Q.RLA.DE.V.S..I..ISL..E....V....DVILYL.....D..KRYMD.. 'Phytophthora sojae CDKA1;2' YQ.VEK..E....I.YKAR.L......K.RLED.E.I.S..M..ISL..E....V.Y.YDA.LYL...FV...KRC.... Saccharomyces_cerevisiae_CDC28 YKRLEK..E....V.YKAL.LPV....K.RLE.DE.V.S..I..ISL..E.DD...R.YD..LYL...F.D..KRYM... Ectocarpus_siliculosus_CDKA YQ.LEKI.E....V.YKAK.R..I...K.RLE.DE.I.S..I..ISL..Q......R.---------------------- 'Nannochloropsis gaditana CDKA1;1' YQ.LEKI.E....V..KAK.R..L...K.RLE.DE.I.S..I..ISL..E......R.YDV.LTL.....D..KKY.DLQ 'Phytophthora sojae CDKA1;1' YQ.LEKI.E....V.YKAK.R.VI...K.RLE.DE.I.S..I..ISL..E..C...R.YN..LTL.....D..KKY.DL. Thalassiosira_pseudonana_CDKA1 YQ.MEKI.E....V.YKAK.RS.I...K.RLE.DE.I.S..I..ISL..E......R.YDV.LTL...F.D..KKY.DL. Phaeodactylum_tricornutum_CDKA1 YQRMEKI.E....V.YKAK.R..I...K.RLE.DE.I.S..I..ISL..E......R.YDV.LTL...F.D..KKY.DL. Fragilariopsis_cylindrus_CDKA1 YQ.MEKI.E....I.YKAK.R..I...K.RLE.DE.I.S..I..ISL..E......R.YDV.LTL...F.D..KKY.DL. Drosophila_melanogaster_CDK2 .E.IEKI.E....V.YK.RNR....M.K.RLEDDE.V.S..I..ISL..E..E...C.EDVLIYLI..F.S..KKYMD.R Xenopus_laevis_CDK1 Y..IEKI.E....V.YK.RH..V..M.K.RLE..E.V.S..I..ISL..E......C.LDVLLYLI..F.S..KKY.D.. Homo_sapiens_CDK1 Y..IEKI.E....V.YK.RH..V..M.K.RLE..E.V.S..I..ISL..E......S.QDVLLYLI..F.S..KKY.D.. Schizosaccharomyces_pombe_CDC2 YQ.VEKI.E....V.YKARH.S...M.K.RLE.SE.V.S..I..ISL..EVDE.C.R.LD.LLYL...F.D..KKYMD.Q Xenopus_laevis_CDK2 .Q.VEKI.E....V.YKARNR......K.RLD.TE.V.S..I..ISL..E......K.LDVILYL...F.N..KKFMD.. Homo_sapiens_CDK2 .Q.VEKI.E....V.YKARN..V....K.RXD.TE.V.S..I..ISL..E......K.LDVILYL...F.H..KKFMDI. Ostreococcus_tauri_CDKA YE.VAKI.E....V.YKAKSLDM......RLDDDE.V.S..I..ISL..E..E.V.S.L.VILYL.....D..KKHMDI. Ostreococcus_lucimarinus_CDKA YE.VLKI.E....V.YKAKNLDM......RLDD.E.V.S..I..ISL..E..E.V.S.L.VILYL.....D..KKHMD.. Micromonas_sp._CDKA .E.VEKI.E....V.YKAR.RDV......RLD..E.V.S..I..ISL..E..E...S.MDVILYL...F.D..KKH.DI. Micromonas_pusilla_CDKA .E.VEKI.E....V.YKARNRNV......RLE..E.V.S..I..ISL..E..E...S.MDVILYL...H.D..KKH.DI. Chlamydomonas_reinhardtii_CDKA YE.LERA.E....V..KAR.R......K.RLE.DE.V.S..I..ISF..E..D.V.R.YDVLLYL...F.D..KKQMDI. Arabidopsis_thaliana_CDKA1 YE.VEKI.E....V.YKAR...TI...K.RLE.DE.V.S..I..ISL..EM.S...K.QDV.LYL.....D..KKHMDI. Phaeodactylum_tricornutum_CDKC2 SWSQQLLGVHYMHVIHRDLKASNLLILKIADWGLARSWNSEMLTNKVITLWYRPPELLLGYTDKIDMWSVGCIIAEMFRS Thalassiosira_pseudonana_CDKC2 ...K.........I......S........................R...............ST................G Homo_sapiens_CDK10 CIVL.V..LQ.L.I......V....MV.T..F....AYGVPVM.P..V.....A......Q.TS....A....L..LLHR Phaeodactylum_tricornutum_CDKC1 CIFR...ACA...YV...I.S..I.LV.L..F....NIEPPFF.............I.T..GPAV.V..A...L..LLGK Thalassiosira_pseudonana_CDKC1 .VV....VLEF..YV.....S..I..V.L..F....CLEG--F..................GTAV.I..A...L..VIGR Ostreococcus_tauri_CDKC CYMK....L..C.IL...I.G.......L..F...KPITN.N...R...............GPSV....A...F..LIGK Arabidopsis_thaliana_CDKC1 CYMK....L..C..L...I.G.......L..F.....YSHDH...R...............GPA.........F..LLAK Arabidopsis_thaliana_CDKC2 CYMK....L..C..L...I.G.......L..F.....YSHDH...R...............GPA.........F..LLGK Arabidopsis_thaliana_CDKE1 .LLW....LN.L.I......P..I.VV....F....IYQAPL.SDN.V.I...A........SAV...A....F..LLLK Phaeodactylum_tricornutum_CDKD1 QHLLS..AISAC.IL.....PD.M.FM.L..F....MHGTPK.SPQA.....K........SSSA........F..LL.R Thalassiosira_pseudonana_CDKD1 QHLLT..AISAC.IL.....PD.C.FM.L..F....MYGTPK.SPQA.....K........SSAA.I......F..LL.R Arabidopsis_thaliana_CDK7 AYAIMT..LE.L.IL.....PN...V...G.F...K.FG.PNY.HH.V.R...S....F..GTGV...A....L..LM.V Xenopus_laevis_CDK7 .YMLMT..LE.L.IL.....PN...L..L..F...K.FG.PNY.HQ.V.R...S....F..GVGV...A....L..LL.V Homo_sapiens_CDK7 AYMLMT..LE.L.IL.....PN...L..L..F...K.FG.PNY.HQ.V.R...A....F..GVGV...A....L..LL.V Ostreococcus_tauri_CDKD .YARMT.A.AHC..L.....PN......L..F....IFG.PDF.HQ.FAR...A.......GPGV.V.A....L..LM.K 'Arabidopsis thaliana CDKD1;1' .YL.MI..LE.C..L...M.PN......L..F....IFG.PGF.HQ.FAR...A....F..DGAV.V.AA...F..LL.R 'Arabidopsis thaliana CDKD1;2' .YMLMT..LA.C..L...M.PN......L..F....LFG.PNF.HQ.FAT...A....F..GAGV.V.AA...F..LL.R Drosophila_melanogaster_CDK4 RL.RE....DFL.I......PQ...V.....F...KTYG.....SV.V.....A..V..-.NSTV.I..AA...F....R Homo_sapiens_CDK6 DMMF....LDFL..V.....PQ.I.VI.L..F....IYSFQ...SV.V.....A..V..Q.ATPV.L......F.....K Xenopus_laevis_CDK4 DLMK.F..LEFL.IV.....PE.I.VV.L..F....IYSCQ...PV.V.....A..V..Q.ATPV.V..A...F.....K Homo_sapiens_CDK4 DLMR.F..LDFL.IV.....PE.I.VV.L..F....IYSYQ...PV.V.....A..V..Q.ATPV........F.....K Cyanidioschyzon_merolae_CDKB CFAY.M..LQFC.IM.....PQ.I.VI.L..F..G.AFCIPVY.HE.V.....A..I....STPV.I......L...IGR 'Arabidopsis thaliana CDKB2;1' .LMY..C.MAFC.IL.....PH...M.....L....AFTLP.Y.HEIL.....A..V....STAV........F..LVNQ 'Arabidopsis thaliana CDKB2;2' CLMY..C.MAFC..L.....PH...M.....L....AFTLP.Y.HEIL.....A..V....STGV........F..LVKQ Chlamydomonas_reinhardtii_CDKB .MVY..I..A.C..L.....PQ...V..V..L..G.HFSVPLY.HEIV.....A..V....ATPV........F..LVKA 'Arabidopsis thaliana CDKB1;1' KLMF..C..AHC..L.....PQ...L.....L..G.AFTVPLY.HEIV.....A..V....STGV........F...V.Q 'Arabidopsis thaliana CDKB1;2' RFMF..F..AHC..L.....PQ...L.....L..S.AFTVPLY.HEIV.....A..V....STAV.I......F...I.Q Micromonas_sp._CDKB DFMY..C.CAHI..M.....PQ...VI.V..L..G.AFSVPVY.HEIV.....A..V....STPV.I......F..LAKQ Micromonas_pusilla_CDKB DFMY..C.CAHL..M.....PQ...VI.V..L..G.AFSVPVY.HEIV.....A..V....STPV.I......F..LAKQ Ostreococcus_lucimarinus_CDKB NYMY..C.CAHL..M.....PQ.M.V.....L..G.AFSVPVY.HEIV.....A..V....STPV.......MF...AKQ Ostreococcus_tauri_CDKB NYMY..C.CAHL..M.....PQ.M.V.....L..G.AFSVPVY.HEIV.....A..V....STPV.......MF...AKQ Cyanidioschyzon_merolae_CDKA .FLY..I..A.L.IL.....PQ......L..F....AFGIPVM.SE.......A..I....AAPV........F...M.K Phytophthora_sojae_CDKA2 .LLY....LAFS.IM.....PQ...V.....F....AFSLPIY.HE.V.....A..I....CPPV.I....V.F...VKK Ectocarpus_siliculosus_CDKBlike .YMF.MMALEFC.IM.....PQ...V.....F....AFCPPV..HE.V.I...A..I....APPL.L....T.L...VKT Nannochloropsis_gaditana_CDKA2 .FLF.IF.LAFC.IM.....PQ...V.....F....AFVPPI..HE.V........I....APPV.V.AC.A.FV.LLKR Ectocarpus_siliculosus_CDKB .YLF.MV.LEFC..M.....PQ...V..L..F....AFCPPI..HE.V.....A..I....APPV.L.A..T.LV..VKR Phaeodactylum_tricornutum_CDKA2 .YTF.C..LAFC..M.....PQ...V.....F....AFCPPI..HE.V........I....APPM.V.AI.A.LV..IKR Thalassiosira_pseudonana_CDKA2 .YLF.MC.LAFC..M.....PQ...V..L..F....AFCPPI..HE.V........I....APPV.V.AI.T.FV..VKR Fragilariopsis_cylindrus_CDKA2 .YLF.IC.LAFC..M.....PQ...V..L..F....AFCPPI..HE.V........I....APPV.V.AI.A.FV..VKR 'Nannochloropsis gaditana CDKA1;2' .YLH.MI..AFC..L.....PQ......L..F....AF.VPLY.RE.V.....A..I....STPV.T..I...F...LKE 'Phytophthora sojae CDKA1;2' .YLY....IAFC..L.....PQ......LG.F....EYGVPLY.HE.V.....A..V....STPV.S..I...F...VKQ Saccharomyces_cerevisiae_CDC28 KFMM..C.IA.C.IL.....PQ......LG.F....AFGVPLY.HEIV.....A..V....STGV.T..I...F...C.K Ectocarpus_siliculosus_CDKA ---------------.....PQ......L..F....AFGIPVY.HE.V.....A.DV.M..STPV.I..I...F...AGR 'Nannochloropsis gaditana CDKA1;1' .FLY.....AFC..L.....PQ......L..F....AFGIPVY.HE.V.....A.DV.M..STPV.I..I...F...AGR 'Phytophthora sojae CDKA1;1' .FLY....IA.C..L.....PQ......LG.F....AFGIPVY.HE.V.....A.DV.M..STPV.I......F...AGG Thalassiosira_pseudonana_CDKA1 .FLY.....A.C..L.....PP......L..F....AFGIPVY.HE.V.....A.DV.M..STPV.I......F...VGR Phaeodactylum_tricornutum_CDKA1 .FLY.....A.C..L.....PP......L..F....AFGIPVY.HE.V.....S.DV.M..STPV.I......F...AGR Fragilariopsis_cylindrus_CDKA1 .FLY.....A.C..L.....PP......L..F....AFGIPVY.HE.V.....A.DV....STPV.I......F...AGR Drosophila_melanogaster_CDK2 .YLY.ITAILFC..L.....PQ....I.V..F..G..FGIPVY.HEIV.....A..V....SCPV.I..I...F...A.K Xenopus_laevis_CDK1 .YLY.I..IVFC..L.....PQ....I.L..F....AFGIPVY.HE.V.....A..V....STPV.V..I.T.F..IAKK Homo_sapiens_CDK1 .YLY.I..IVFC..L.....PQ....I.L..F....AFGIPIY.HE.V.....S..V....STPV.I..I.T.F..LAKK Schizosaccharomyces_pombe_CDC2 KFTY..V..NFC.I......PQ......L..F.....FGVPLY.HEIV.....A..V....STGV.I......F...I.. Xenopus_laevis_CDK2 .YLF....LAFC..L.....PQ....I.L..F....AFGVPVF.HE.V.....A..I....STAV.I..L...F...I.R Homo_sapiens_CDK2 .YLF....LAFC..L.....PQ....I.L..F....AFGVPVY.HE.V.....A..I....STAV.I..L...F...V.R Ostreococcus_tauri_CDKA GYVY.IC.IAFC..L.....PQ......L..F....AFGIPVY.HE.V.....A..I....STPV.V..I...M...VHA Ostreococcus_lucimarinus_CDKA GYVY.IC.IAFC..L.....PQ......L..F....AFGIPVY.HE.V.....A..I....STPV.V..I...F...IGK Micromonas_sp._CDKA GYLY.MC.IA.C..L.....PQ...V..L..F....AFGIPLY.HE.V.....S..I....STPV.V..I...F...IHA Micromonas_pusilla_CDKA GYLY.MC..A.C..L.....PQ...V..L..F....AFGIPVY.HE.V.....S..I....STPV.V..I...F...IHA Chlamydomonas_reinhardtii_CDKA MYMW.M..IAFC.IL.....PQ......L..F....AFGIPVY.HE.V.....A..I....STPV.I..I...F...VHR Arabidopsis_thaliana_CDKA1 TYLY.I..IA.C..L.....PQ......L..F....AFGIPVF.HE.V.....A..I....STPV.I......F...IQK Phaeodactylum_tricornutum_CDKC2 GFLKGSNEATQLLIFRTCGHPTKEWPSLGDKRLWFPLKLPPAIELIKLMALNPRWSAEHALDAEYF Thalassiosira_pseudonana_CDKC2 .L....S..S......VM....T...NINKMP..L..R..A.MDM.N.L.Y......AQ..T..W. Homo_sapiens_CDK10 PL.P.TS.IH.I..VQLL.T.SEN..GFSKLP.VYS..F.LGLR.LF.FMYD..AT.GDC.ESS.. Phaeodactylum_tricornutum_CDKC1 PL.P.KSDLE....ADML.T.APD.DY.SSMKRVLD.YAAI.MN.L..L.WD..LT.TG..QNK.. Thalassiosira_pseudonana_CDKC1 PMFT.KTDMD.....DLI.T..DK.EGFRQLK.IID..YSK.LN.L..LE.D..I..RG..THR.. Ostreococcus_tauri_CDKC PI.P.KS.ME.MI..KL..S..P...DADKLPYA.T.VFSF.KD.L.FLT.D..I..KD..MHDW. Arabidopsis_thaliana_CDKC1 PI.P.K..QE..K..EL..S.DEK..GVSKMPWF.KVFFRF.L..L.MLV.D..I..KD....... Arabidopsis_thaliana_CDKC2 PI.P.KT.NE..K.YEL..S.DES..GVSKMPWYMKVIYRF.L..L.MLV.D..IC.KD....... Arabidopsis_thaliana_CDKE1 PLFQ.EAQLD..K..KIL....MD..T.VNLPH.IQ.VHLQ.YD.L.MLEYD..IT.SQ..EH... Phaeodactylum_tricornutum_CDKD1 P..Q.QTDLS..T..TVF.T.NET.ADFQTLP.CWDFIFTA..S.LSILV.D..FT.TQC.SHP.. Thalassiosira_pseudonana_CDKD1 P..Q.QSDVS..T..QVF.T..ET..DHNTLP.CWDFIFTACLS.LSMLV.D..IT.NA..LHP.. Arabidopsis_thaliana_CDK7 P.MP.DSDLD..R..S.L.T..EA..H.SKLHDY.R.IFTAL.H.MR.F.M...V.CRE..SMP.. Xenopus_laevis_CDK7 P..P.DSDLD..R..E.L.T..E...GMSSLPDY.K.IFIALL..LG.FTF...CT.SQ..RKR.. Homo_sapiens_CDK7 P..P.DSDLD..R..E.L.T..E...DMCSLPDY.K.IFSALLD..G.FLF...IT.TQ..KMK.. Ostreococcus_tauri_CDKD P.FA..SDID..KVYAAL.T..ET..GVSALPDF.I.TF.ESLD.LRMLEYD..IT.AQ..EHP.. 'Arabidopsis thaliana CDKD1;1' P..Q.NSDID..K..AAF.T.KAD..DMICLPDYYQ.L..V.LD.L.MFTYD..I.IQQ..KHR.. 'Arabidopsis thaliana CDKD1;2' P..P..T.ID..K..QAF.T.VPS.SDMIYLPDY.S.IF.A.LD.L.MFIYD..ITIQQ...HR.. Drosophila_melanogaster_CDK4 ALFP.TS.KN..R..ELT.R..EQ..QTISVA.E..PFC.L.DD.L.MLSYDL.P..LAC.EHD.. Homo_sapiens_CDK6 PLFR..SDVD..K.LDVI.L.GE...RDVALPRQ.HIFVTIGKD.L.CLTF...I..YS..SHP.. Xenopus_laevis_CDK4 PLFC.NS..D..K..DII.L.SE...VDVTLPRS.SVFV.IGAD.LAMLTFS..I..SD..LHPF. Homo_sapiens_CDK4 PLFC.NS..D..K..DLI.L.PED..RDVSLPRG..VVV.MGAQ.LEMLTF...I..FR..QHS.L Cyanidioschyzon_merolae_CDKB SLFC.ES.IE..A...VL.T.NEQ...VVEL.D....I..LGCK.LEMLQ.D..IT.AD..RHPF. 'Arabidopsis thaliana CDKB2;1' AIFQ.DS.LQ..H..KLF.T.NE...GVSTLKN.Y..AV.LGVD.L.MLQYE..I..KM.MEHP.. 'Arabidopsis thaliana CDKB2;2' AIFA.DS.LQ..R...LL.T.NE...GVSKLKD.Y..AV.LGLD.L.MLEYE..I..KK.MEHP.. Chlamydomonas_reinhardtii_CDKB PLFP.DS.YQ..H..KLL.T.SED..GVTKL.D.W..IF.LG.D.MRCF.YD..I..KE.INHP.. 'Arabidopsis thaliana CDKB1;1' ALFP.DS.FQ..H...LL.T..EQ..GVSTL.D.Y..AV.LGVD.L.MLKY...I..KT...HP.. 'Arabidopsis thaliana CDKB1;2' ALFP.DS.FQ..H...LL.T..EQ..GVMAL.D.Y..AV.LG.D.LQMLKY...I..KA...HP.. Micromonas_sp._CDKB PLFP.DS.LQ..H..KLL.T.SED..GVTRL.D....VI.LG.D.L.MLVYD..IH.TE..EHP.. Micromonas_pusilla_CDKB PLFP.DS.LQ..HV.KLL.T.SE...GVTRL.D....VI.LG.D.M.MLVYD..IH.TE..EHP.. Ostreococcus_lucimarinus_CDKB PLFP.DS.LQ..H..KLL.T.SEQ..GVSNL.D....VI.LG.D.L..LVYD..IH.TD..EHP.. Ostreococcus_tauri_CDKB PLFP.DS.LQ..H..KLL.T.SEQ..GVSNL.D....LI.LG.D.L..LVFD..IH.TD..EHP.. Cyanidioschyzon_merolae_CDKA ALFP.DS.ID..K...AL.T.SE...GVSQLPDY..IV.AG.LD.LR.LVYD..IT.RQ..MHP.. Phytophthora_sojae_CDKA2 PLFT.DS.ID..R....L.T.NES..GVTKL.DY...LF.LGLH.LSMLRYD..I..KE..RHP.. Ectocarpus_siliculosus_CDKBlike PMFP.DS.IDEIK...VL.T..ES..NVT.LDD....EYALG.NMLQ.L.YD..L..KR..KHPF. Nannochloropsis_gaditana_CDKA2 AMFQ.DS.VD..K...SL.T.SE...GVTALQD....YC.IGLD.L..VV.D..I..KT..YHR.. Ectocarpus_siliculosus_CDKB PLFP.DS.IDEIK..QLL.T.NE...NVT.LQD....RSQMGLD.L..LYYD..I..KR..EHAF. Phaeodactylum_tricornutum_CDKA2 PLFP.DS.ID..K...QL.T.RED..GVTQLQD...FV.DLGL..LTIL.YD..IT.KES..HA.. Thalassiosira_pseudonana_CDKA2 PLFP.DS.IDE.K...QL.T.NE...GVTALQD...FF.DT.VD.LR.L.YS..IT.KDT.NHP.. Fragilariopsis_cylindrus_CDKA2 PLFP.DS.ID..K...LL.T.NE...GVTHLPD...YVTELGMD.LRFLFYD..IT.KDS.NHP.. 'Nannochloropsis gaditana CDKA1;2' PLFP.DS.IDE.R...VL.T.ND...KVTELPNY...NVSLGLD.LR.LTYE..ITCRE.Q.HA.. 'Phytophthora sojae CDKA1;2' PLFP.DS.IDE.R...VL.T.NEA..GVSTLPDY...VV.LGLD.LR.LVYD..I..RA.MSHPW. Saccharomyces_cerevisiae_CDC28 PIFS.DS.ID.IK...VL.T.NEA..DIVYLPDF...VV.LG.D.L..L.YD..I..RR.AIHP.. Ectocarpus_siliculosus_CDKA PL.T.TS.SD..R...QM.T..PIY.G.QELPDY--VGG.AYTK.MRRIRWGEDSNSDEEVSKPAL 'Nannochloropsis gaditana CDKA1;1' PLFA..S.SD..R...AL.T..EGY.GIVELPEF..WLV.LG.D.L.MLTFD..V..RD..SHPF. 'Phytophthora sojae CDKA1;1' PLFA.TS..D..R...LL.T..M.Y.AII.LPEY...LV.LGVD.LQMLQYD..IT.AD.MAHP.. Thalassiosira_pseudonana_CDKA1 PLIA.TS.GD..R...LL.T.SPAF.GIV.LPEYL.FLV.LGVD.L.MLQYD..IT.ND..KHPF. Phaeodactylum_tricornutum_CDKA1 PLVA.TS..D..R...LL.T.KL.Y.TINELPEYM..LV.LG.D.LRMLQYD..IT.QA..EH... Fragilariopsis_cylindrus_CDKA1 PLVA.TS.DD..R...LL.T.KPSF.GIV.LPD.Y..LV.LG...LLMLQYD..IT.QD..QHRF. Drosophila_melanogaster_CDK2 PLFQ.DS.ID..RM..ILKT..ED..GVTSLPDY...Q.KLG.D...MLIYD..I..KDI.EHP.. Xenopus_laevis_CDK1 PLFH.DS.ID..R...AL.T.NN...EVESLQDY...NVKIGLD.L.MLIYD..I..RK..LHP.. Homo_sapiens_CDK1 PLFH.DS.ID..R...AL.T.NN...EVESLQDY...HVKLGLD.L.MLIYD..I.GKM..NHP.. Schizosaccharomyces_pombe_CDC2 PLFP.DS.IDEIK..QVL.T.NE...GVTLLQDY...VV.G....LAMLVYD..I..KR..QQN.L Xenopus_laevis_CDK2 ALFP.DS.ID..R....L.T.DEV..GVTTMPDY..FVV.LGRD.LQMLQYDS.I..KV..THPF. Homo_sapiens_CDK2 ALFP.DS.ID..R....L.T.DEV..GVTSMPDY..FVV.LGRS.LQMLHYD..I..KA..AHPF. Ostreococcus_tauri_CDKA PLFP.DS.IDE.K..K.L.T.GET..EAKQLPDY..WLC.LGVD.LS.LQYS..I..KY.TQHRW. Ostreococcus_lucimarinus_CDKA PLFP.DS.IDE.K..KIL.T.NET..EAQELPDY..WLC.LGVD.LQMLQYT..I..K..MQHKW. Micromonas_sp._CDKA PLFP.DS.IDE.R...VL.T.DDG.QGVEQLPDY..WIC.LGLD.LQMLQYA..I..RD.CNHRF. Micromonas_pusilla_CDKA PLFP.DS.ID..R...VL.T.DDD..AVSSLPDY..WVC.LG.D.LS.LHYA..V..RE.CEHRF. Chlamydomonas_reinhardtii_CDKA PLFP.DS.ID..K..QLL.T.DEA.AGCSALPDF...AV.LGVD.LRMLVYT..IT.SA.MEHA.. Arabidopsis_thaliana_CDKA1 PLFP.DS.ID..K...IM.T.YED.RGVTSLPDY...FV.LGVD.L.MLLMD..IN.RA..EH... ; end; BEGIN TREES; TITLE 'Trees from "1_1424862532_nexus.txt"'; LINK TAXA = Untitled_Block_of_Taxa; TRANSLATE 1 Phaeodactylum_tricornutum_CDKC2, 2 Thalassiosira_pseudonana_CDKC2, 3 Homo_sapiens_CDK10, 4 Phaeodactylum_tricornutum_CDKC1, 5 Thalassiosira_pseudonana_CDKC1, 6 Ostreococcus_tauri_CDKC, 7 Arabidopsis_thaliana_CDKC1, 8 Arabidopsis_thaliana_CDKC2, 9 Arabidopsis_thaliana_CDKE1, 10 Phaeodactylum_tricornutum_CDKD1, 11 Thalassiosira_pseudonana_CDKD1, 12 Arabidopsis_thaliana_CDK7, 13 Xenopus_laevis_CDK7, 14 Homo_sapiens_CDK7, 15 Ostreococcus_tauri_CDKD, 16 'Arabidopsis thaliana CDKD1;1', 17 'Arabidopsis thaliana CDKD1;2', 18 Drosophila_melanogaster_CDK4, 19 Homo_sapiens_CDK6, 20 Xenopus_laevis_CDK4, 21 Homo_sapiens_CDK4, 22 Cyanidioschyzon_merolae_CDKB, 23 'Arabidopsis thaliana CDKB2;1', 24 'Arabidopsis thaliana CDKB2;2', 25 Chlamydomonas_reinhardtii_CDKB, 26 'Arabidopsis thaliana CDKB1;1', 27 'Arabidopsis thaliana CDKB1;2', 28 Micromonas_sp._CDKB, 29 Micromonas_pusilla_CDKB, 30 Ostreococcus_lucimarinus_CDKB, 31 Ostreococcus_tauri_CDKB, 32 Cyanidioschyzon_merolae_CDKA, 33 Phytophthora_sojae_CDKA2, 34 Ectocarpus_siliculosus_CDKBlike, 35 Nannochloropsis_gaditana_CDKA2, 36 Ectocarpus_siliculosus_CDKB, 37 Phaeodactylum_tricornutum_CDKA2, 38 Thalassiosira_pseudonana_CDKA2, 39 Fragilariopsis_cylindrus_CDKA2, 40 'Nannochloropsis gaditana CDKA1;2', 41 'Phytophthora sojae CDKA1;2', 42 Saccharomyces_cerevisiae_CDC28, 43 Ectocarpus_siliculosus_CDKA, 44 'Nannochloropsis gaditana CDKA1;1', 45 'Phytophthora sojae CDKA1;1', 46 Thalassiosira_pseudonana_CDKA1, 47 Phaeodactylum_tricornutum_CDKA1, 48 Fragilariopsis_cylindrus_CDKA1, 49 Drosophila_melanogaster_CDK2, 50 Xenopus_laevis_CDK1, 51 Homo_sapiens_CDK1, 52 Schizosaccharomyces_pombe_CDC2, 53 Xenopus_laevis_CDK2, 54 Homo_sapiens_CDK2, 55 Ostreococcus_tauri_CDKA, 56 Ostreococcus_lucimarinus_CDKA, 57 Micromonas_sp._CDKA, 58 Micromonas_pusilla_CDKA, 59 Chlamydomonas_reinhardtii_CDKA, 60 Arabidopsis_thaliana_CDKA1; TREE treeML = [&R] (((((((((((((((55:0.07212593,56:0.03917284)1.0000:0.16778241,(57:0.05204861,58:0.07252504)0.9970:0.06974391)0.9710:0.11753478,40:0.32688762)0.3100:0.05847273,(59:0.21327929,60:0.1780285)0.4600:0.01992904)0.0980:0.05017599,((53:0.03234434,54:0.03774025)1.0000:0.17971947,(49:0.17752674,(50:0.02293436,51:0.05087458)1.0000:0.11848053)0.9950:0.10138431)0.2860:0.01617769)0.1050:0.00569228,(43:0.39088551,(44:0.08403564,(45:0.10377612,(47:0.06511942,(46:0.05885445,48:0.0640483)0.5860:0.03444603)0.8710:0.03651583)0.8450:0.04534518)0.7470:0.0)1.0000:0.20554055)0.1480:0.0,(41:0.23410952,(42:0.21284603,52:0.22991298)0.6970:0.10254713)0.2680:0.01956748)0.5130:0.04539995,(33:0.24550486,((34:0.35000979,36:0.03530067)0.4800:0.12875035,(35:0.20474342,(37:0.11957316,(38:0.08851065,39:0.08211213)0.6410:0.02130761)0.9000:0.05629797)0.3600:0.0132974)0.8950:0.11864678)0.9180:0.11555651)0.2070:0.03870788,32:0.28010012)0.4260:0.00936794,(((23:0.07231397,24:0.03914329)1.0000:0.21693465,(26:0.02150663,27:0.07506075)1.0000:0.10908754)0.7550:0.11667803,(25:0.23544559,((28:0.02822139,29:0.01233252)1.0000:0.05435555,(30:0.01723337,31:0.01168053)1.0000:0.05928218)1.0000:0.10148259)0.7610:0.0)1.0000:0.24155131)0.4440:0.0,22:0.60250685)0.9770:0.10241894,(18:0.59906985,(19:0.1616302,(20:0.12855734,21:0.11031127)0.9920:0.12832348)0.9990:0.28593381)0.8110:0.4251145)0.5040:0.16342575,(9:0.84630405,((10:0.17221617,11:0.04528244)1.0000:0.62076595,(((13:0.06146781,14:0.030581)1.0000:0.03434723,12:0.26676848)1.0000:0.33757604,(15:0.35408331,(16:0.19172337,17:0.10229649)1.0000:0.15278817)0.8660:0.07608824)0.9150:0.17556287)0.6050:0.15367614)0.5960:0.04979781)0.7520:0.17892229,((4:0.3743866,5:0.3473165)0.9990:0.49399174,((1:0.21968494,2:0.08254193)1.0000:0.63791515,(6:0.22219998,(7:0.01955511,8:0.04791993)1.0000:0.15624962)1.0000:0.14745377)0.5330:0.11182075)0.8160:0.14209787)0.0000:0.14710248,3:0.47186804); END;