     28    375

TRXB_STAAW_4gcm                 M--------- -TEIDFDIAI IGAGPAGMTA AVYASRANLK -TVMIERG-- ---IPGGQMA NTEEVENFPG F-EMITGPDL STKMFEHA-K KFGAVYQYGD IKSVED-KGE ----YKVI-- --NFGNKELT AKAVIIATGA EYKKIGVP-- GEQELGGRGV SYCAVCDGA- -FFKNKRLFV IGGGDSAVEE GTFLTKFADK VTIVHRRDEL RAQR-ILQDR AF---KNDKI DFIWSHTLKS -INEKD---- --GKVGSVTL --TSTKDGSE -ETHEADGVF IYIGMKPLTA PFKD-----L GITNDVGYIV TKD-----DM TTSVPGIFAA GDVRDK--GL RQIVTATGDG SIAAQSAAEY IEHLNDQA-- -----
TRXB_BACSU_7_288                ---------- ------DVII IGAGPAGMTA AVYTSRANLS -TLMIERG-- ---IPGGQMA NTEDVENYPG F-ESILGPEL SNKMFEHA-K KFGAEYAYGD IKEVID-GKE ----YKVV-- --KAGSKEYK ARAVIIAAGA EYKKIGVP-- GEKELGGRGV SYCAVCDGA- -FFKGKELVV VGGGDSAVEE GVYLTRFASK VTIVHRRDKL RAQS-ILQAR AF---DNEKV DFLWNKTVKE -IHEEN---- --GKVGNVTL --VDTVTGEE -SEFKTDGVF IYIGMLPLSK PFEN-----L GITNEEGYIE TND-----RM ETKVEGIFAA GDIREK--SL RQIVT----- ---------- ---------- -----
TRXB_LISMO_9_290                ---------- ------DVII IGAGPAGMTA ALYTSRADLD -TLMIERG-- ---VPGGQMV NTAEVENYPG F-DSILGPDL SDKMLSGA-K QFGAEYAYGD IKEVVD--KE ----FKTV-- --TAGSKTYK ARAIIIATGA EHRKLGAA-- GEEELSGRGV SYCAVCDGA- -FFKNRELIV VGGGDSAVEE GTYLTRYADK VTIVHRRDKL RAQQ-ILQDR AF---KDEKV DFIWNSTVEE -IVGDG---- --KKVTGAKL --VSTVDGSE -SIMPVDGVF IYVGLVPLTK AFLN-----L GITDDEGYIV TDE-----EM RTNLPGIFAA GDVRAK--SL RQIVT----- ---------- ---------- -----
Q9RSY7_DEIRA                    MT-------A PTAHDYDVVI IGGGPAGLTA AIYTGRAQLS -TLILEKG-- ---MPGGQIA WSEEVENFPG FPEPIAGMEL AQRMHQQA-E KFGAKVEMDE VQGVQH-DAT SHPYPFTV-- --RGYNGEYR AKAVILATGA DPRKLGIP-- GEDNFWGKGV STCATCDGF- -FYKGKKVVV IGGGDAAVEE GMFLTKFADE VTVIHRRDTL RANK-VAQAR AF---ANPKM KFIWDTAVEE -IQGAD---- ---SVSGVKL --RNLKTGEV -SELATDGVF IFIGHVPNTA FVKD-----T VSLRDDGYVD VRD-----EI YTNIPMLFAA GDVSDY--IY RQLATSVGAG TRAAMMTERQ LAALEVEGEE VTAAD
C4LW95_ENTHI_4a5l               M--------- --SNIHDVVI IGSGPAAHTA AIYLGRSSLK -PVMYEGFMA GGVAAGGQLT TTTIIENFPG FPNGIDGNEL MMNMRTQS-E KYGTTIITET IDHVDF-STQ ----PFKL-- -FTEEGKEVL TKSVIIATGA TAKRMHVP-- GEDKYWQNGV SACAICDGAV PIFRNKVLMV VGGGDAAMEE ALHLTKYGSK VIILHRRDAF RASK-TMQER VL---NHPKI EVIWNSELVE -LEGDG---- --DLLNGAKI --HNLVSGEY -KVVPVAGLF YAIGHSPNSK FLGG-----Q VKTADDGYIL TE------GP KTSVDGVFAC GDVCDR--VY RQAIVAAGSG CMAALSCEKW LQTH------ -----
TRXB1_YEAST_3d8x_3itj           MV-------- ----HNKVTI IGSGPAAHTA AIYLARAEIK -PILYEGMMA NGIAAGGQLT TTTEIENFPG FPDGLTGSEL MDRMREQS-T KFGTEIITET VSKVDL-SSK ----PFKLWT EFNEDAEPVT TDAIILATGA SAKRMHLP-- GEETYWQKGI SACAVCDGAV PIFRNKPLAV IGGGDSACEE AQFLTKYGSK VFMLVRKDHL RAST-IMQKR AE---KNEKI EILYNTVALE -AKGDG---- --KLLNALRI --KNTKKNEE -TDLPVSGLF YAIGHTPATK IVAG-----Q VDTDEAGYIK TVPG----SS LTSVPGFFAA GDVQDS--KY RQAITSAGSG CMAALDAEKY LTSLE----- -----
TRXB_CHLTR_5_294                ---------- ------KLVI IGSGPAGYTA AIYASRALLT -PVLFEGFFS G--IAGGQLM TTTEVENFPG FPEGVLGHQL MDLMKTQA-Q RFGTQVLSKD ITAVDF-SVR ----PFVL-- --KSGKETFT CDACIIATGA SAKRLSIPGA GDNEFWQKGV TACAVCDGAS PIFRDKDLFV VGGGDSALEE AMFLTRYGKR VFVVHRRDTL RASK-VMVNK AQ---ANEKI FFLWNSEIVK -ISGDT---- ---LVRSIDI --YNNVDETT -TTMEAAGVF FAIGHQPNTA FLGG-----Q VALDENGYII TEKG----SS RTSVPGVFAA GDVQDK--YY RQAIT----- ---------- ---------- -----
TRXB_CHLPN_5_294                ---------- ------RLII IGSGPSGYTA AIYASRALLH -PLLFEGFFS G--ISGGQLM TTTEVENFPG FPEGILGPKL MNNMKEQA-V RFGTKTLAQD IISVDF-SVR ----PFIL-- --KSKEETYS CDACIIATGA SAKRLEIPGA GNDEFWQKGV TACAVCDGAS PIFKNKDLYV IGGGDSALEE ALYLTRYGSH VYVVHRRDKL RASK-AMEAR AQ---NNEKI TFLWNSEIVK -ISGDS---- ---IVRSVDI --KNVQTQEI -TTREAAGVF FAIGHKPNTD FLGG-----Q LTLDESGYIV TEKG----TS KTSVPGVFAA GDVQDK--YY RQAVT----- ---------- ---------- -----
TRXB_ECOLI_7_297                G--------- -TTKHSKLLI LGSGPAGYTA AVYAARANLQ -PVLITGM-- ---EKGGQLT TTTEVENWPG DPNDLTGPLL MERMHEHA-T KFETEIIFDH INKVDL-QNR ----PFRL-- --NGDNGEYT CDALIIATGA SARYLGLP-- SEEAFKGRGV SACATCDGF- -FYRNQKVAV IGGGNTAVEE ALYLSNIASE VHLIHRRDGF RAEK-ILIKR LMDKVENGNI ILHTNRTLEE -VTGDQ---- --MGVTGVRL --RDTQNSDN IESLDVAGLF VAIGHSPNTA IFEG-----Q LELEN-GYIK VQSGIHGNAT QTSIPGVFAA GDVMDH--IY RQAITSAGTG CMAALDAERY LDGL------ -----
TRXB_HAEIN_8_297                ---------- ------KLLI LGSGPAGYTA AIYAARANLK -PVLVTGL-- ---QQGGQLT TTDEIENWPG DFEMTTGSGL MQRMLQHA-E KFETEIVFDH INRVDL-SSR ----PFKL-- --FGDVQNFT CDALIIATGA SARYIGLP-- SEENYKGRGV SACATCDGF- -FYRNKPVGV IGGGNTAVEE ALYLANIAST VHLIHRRDSF RAEK-ILIDR LYKKVEEGKI VLHTDRTLDE -VLGDN---- --MGVTGLRL --ANTKTGEK -EELKLDGLF VAIGHSPNTE IFQG-----Q LELNN-GYIV VKSGLDGNAT ATSVEGVFAA GDVMDH--NY RQAIT----- ---------- ---------- -----
Q9I0M2_PSEAE_8_316              ---------- ------RLII LGSGPAGYTA AVYAARANLK -PVVITGI-- ---QPGGQLT TTTEVDNWPG DVEGLTGPAL MTRMQQHA-E RFDTEIVYDH IHTAEL-QQR ----PFTL-- --KGDSGTYT CDALIIATGA SAQYLGMS-- SEEAFMGKGV SACATCDGF- -FYRNQVVCV VGGGNTAVEE ALYLANIAKE VHLIHRRDKL RSEK-ILQDK LFDKAENGNV HLHWNTTLDE -VLGDA---- --SGVTGVRL --KSTIDGST -SELSLAGVF IAIGHKPNTD LFQG-----Q LEMRD-GYLR IHGGSEGNAT QTSIEGVFAA GDVADH--VY RQAIT----- ---------- ---------- -----
Q9JU23_NEIMA_6_316              ---------- ------KLII LGSGPAGYTA AVYAARANLN -PVIITGI-- ---AQGGQLM TTTEVDNWPA DADGVQGTEL MARFLAHA-E RFGTEIIFDQ INAVDL-QKR ----PFTL-- --KGDMGEYT CDALIVATGA SAKYLGLP-- SEEAFAGKGV SACATCDGF- -FYKNQDVAV VGGGNTAVEE ALYLANIAKT VTLIHRRSEF RAEK-IMIDK LMKRVEEGKI ILKLESNLQE -VLGDD---- --RGVNGALL --KNN-DGSE -QQIAVSGIF IAIGHKPNTD IFKG-----Q LEMDEAGYLK TKGGTADNVG ATNIEGVWAA GDVKDH--TY RQAIT----- ---------- ---------- -----
TRXB_BUCAP_8_299                ---------- ------KIII LGSGPAGYTA AIYSSRANLN -PLLITGI-- ---NKGGQLM NTNEIENWPG DFKKITGPEL MNRMHEHS-L KFKTEIVYDN IISVEF-KKK ----PFFL-- --LGEYNKYT CDAVIIATGA NPRYLGLS-- SENKFKGKGI STCAVCDGF- -FYKNKEIAV VGGGNTAIEE TLYLSNFVKK IYLIHRRNNF KAEK-ILIDR LLKIVKTKKV ILHLNSTIED -ILGNN---- --KGVTHLLI KNKNLKEKKK -LKIAVSGLF VAIGYIPNTD IFTD-----Q LKMKD-GYIK IKKGTHGNYT QTNIPGVFAA GDVIDH--VY RQAIT----- ---------- ---------- -----
TRXB_BUCAI_8_299                ---------- ------KIII LGSGPAGYTA AIYAARANLD -PFLITGT-- ---NKGGQLM NTNEIENWPG DYNKISGSEL MNRMYKHA-I ELKTKVICDT VISVNF-KKN ----PFFL-- --IGENNKYT ADSVIIATGA NPRYLGLQ-- SESLFKGKGV STCAVCDGF- -FYKNKEVAV VGGGNTAIEE TLYLSNFVKK VHLIHRGINF RAEK-ILLDR LEKKIKSQKI IIYLNSIVKN -ILGNS---- --SGVTALLI EQKNSKEKTE -SKIQVSGLF VAIGYTPNTN IFVN-----K LKMKD-GYIQ VTRQEHGNYT QTSIPGIFAA GDVIDH--VY RQAIT----- ---------- ---------- -----
TRXB_COXBU_8_299                ---------- ------SLII LGSGPAGYTD AIYVARANLK -PIMITGM-- ---EQGGQLM TTTDVANWPG EAPGLQGPKL LERMQKHAGG ALNTQFIFDH INKPDL-NPR ----PFLL-- --QGDNATYS CDALIIATGA SARYLGLP-- SEKPYMGKGV SACATCDGF- -FYRAKKVAV VGGGNTSVEE ALYLSHIASH VTLIHRRDKL RAEK-MLSAQ LIKKVEEGKV AIVWSHVIEE -VLGDD---- --QGVTGVHL --KHVKEEKT -QDLTIDGLF IAIGHDPNTK IFKE-----Q LEMDEAGYLR AKSGLQGNAT ATNIPGVFPA VVVRGQ--LY RQTIA----- ---------- ---------- -----
Q8YID2_BRUME                    M--------- -TQRHAPVIV IGSGPAGYTA AIYAARAMLK -PVVIAGL-- ---QQGGQLM ITTDVENYPG YAEPVQGPWM MEQMARQA-E NVGAQIVHDI ITEVET-TVR ----PFRL-- -KGDSGTIYT CDALIIATGA QAKWLGLE-- SEQTFMGGGV SACATCDGF- -FYRGKDVVV VGGGNTAVEE ALYLSHIAKS VTIVHRRDGF RAEK-IMQDR LL---SRENV SVVWNSVIDE -ILGTEARPP MGATVTGVRL --KNIVTGET -QERATHGVF IAIGHAPAVS LFEG-----K LKQKPNGYLW TAPD----ST ATDVPGIFAA GDVTDD--IY RQAVTAAGMG CMAALEAERW LAAQEPLHE- --AAE
Q9X5F7_ZYMMO_9_294              ---------- ------RVFI LGSGPAGLTA AIYAARAGLN -PIVAQGL-- ---QPGGQLT ITTEVENFPG FREPIQGPWL MEEMQAQA-E NVGAKLVWDI ITSVDF-SQR ----PYRL-- -MGDGGQVYL ADSLIISTGA QARWLGLE-- SETALRGKGI SACATCDGF- -FFRGKKVVV IGGGNTAVEE ALYLTNHSPE VTLIHRRDSL RAEK-IMQKR LL---ANPKI KIRWNSEVAE FIAGED---- --SALSAVKL --KDTKTGEE -SLLETEGAF IAIGHKPATE LFQG-----H LKLDDEGYIE VTPG----TT QTSIKGIFAC GDVMDK--HY RQAVT----- ---------- ---------- -----
TRXB_RICPR_6_292                ---------- ------KVLI IGSGPAGLSA AIYTARSALK -PILINGM-- ---QPGGQLT MTTDVENYPG FAETIQGPWL MEQMSMQA-K NVGTEIISDY VERVDL-SKR ----PFKI-- -FTGTGNEYE ADSIIICTGA ESKWLGIA-- SEQEFRGFGV SSCAICDGF- -FFKNQEIVV VGGGNSALEE ALYLTNHANK VTVVHRRNSF RAEK-ILQDR LF---KNPKI SVIWDHIIDE -IVGSNK--- -PKAVTGVKI --QNVYTNEI -NLVNCSGVF IAIGHAPNTA LFKG-----Q IAIDDDNYIV TQSG----ST RTNVEGVFAA GDVQDK--IY RQAVT----- ---------- ---------- -----
TRXB_MYCTU_16_299               ---------- ------DVIV IGSGPAGYTA ALYAARAQLA -PLVFEGT-- ---SFGGALM TTTDVENYPG FRNGITGPEL MDEMREQA-L RFGADLRMED VESVSL-HGP ----LKSV-- -VTADGQTHR ARAVILAMGA AARYLQVP-- GEQELLGRGV SSCATCDGF- -FFRDQDIAV IGGGDSAMEE ATFLTRFARS VTLVHRRDEF RASK-IMLDR AR---NNDKI RFLTNHTVVA -VDGDT---- ---TVTGLRV --RDTNTGAE -TTLPVTGVF VAIGHEPRSG LVRE-----A IDVDPDGYVL VQGR----TT STSLPGVFAA GDLVDR--TY RQAVT----- ---------- ---------- -----
TRXB_MYCLE_13_296               ---------- ------EVIV IGSGPAGYTA ALYAARAQLT -PLVFEGT-- ---SFGGALM TTTEVENYPG FRNGITGPEL MDDMREQA-L RFGAELRTED VESVSL-RGP ----IKSV-- -VTAEGQTYQ ARAVILAMGT SVRYLQIP-- GEQELLGRGV SACATCDGS- -FFRGQDIAV IGGGDSAMEE ALFLTRFARS VTLVHRRDEF RASK-IMLGR AR---NNDKI KFITNHTVVA -VNGYT---- ---TVTGLRL --RNTTTGEE -TTLVVTGVF VAIGHEPRSS LVSD-----V VDIDPDGYVL VKGR----TT STSMDGVFAA GDLVDR--TY RQAIT----- ---------- ---------- -----
Q9RIS2_STRCO_9_294              ---------- ------DVIV IGSGPAGYTA ALYTARASLN -PLVFGGAI- ---FVGGSLT TTTEVENFPG FPDGVQGPEL MENMRAQA-E RFGAEMVDDD IVAVDL-TGD ----VKTV-- -TDTAGTVHR ARTVIVATGS GYRKLGVP-- KEDELSGRGV SWCATCDGF- -FFRDRDIVV VGGGDTAMEE ATFLTRFARS VTVVHRRSAL RASQ-VMQNR AF---SEDKI SLAFDSEVAT -LHEEN---- --GMLSGMTL --RDTLTGET -RELATTGLF IAIGHDPRTE LFKG-----Q LHLDSEGYLM VESP----ST RTNVPGVFGA GDVVDH--TY RQAIT----- ---------- ---------- -----
TRXB_STRCO_5_289                ---------- ------NVII IGSGPAGYTA ALYTARASLK -PLVFEGAV- ---TAGGALM NTTEVENFPG FQDGIMGPEL MDNMRAQA-E RFGAELIPDD VVAVDL-SGE ----IKTV-- -TDTAGTVHR AKAVIVTTGS QHRKLGLP-- NEDALSGRGV SWCATCDGF- -FFKDQDIAV IGGGDTAMEE ATFLSRFAKS VTIVHRRDTL RASK-AMQER AF---ADPKI SFVWDSEVAE -VQGDQ---- ---KLAGLKL --RNVKTGEL -SDLPVTGLF IAIGHDPRTE LFKG-----Q LDLDPEGYLK VDAP----ST RTNLTGVFGA GDVVDH--TY RQAIT----- ---------- ---------- -----
TRXB_TREPA_6_286                ---------- ------DVII VGAGAAGLSA AQYACRANLR -TLVIESK-- ---AHGGQAL LIDSLENYPG YATPISGFEY AENMKKQA-V AFGAQIAYEE VTTIGK-RDS ----VFHI-- --TTGTGAYT AMSVILATGA EHRKMGIP-- GESEFLGRGV SYCATCDGP- -FFRNKHVVV IGGGDAACDE SLVLSRLTDR VTMIHRRDTL RAQK-AIAER TL---KNPHI AVQWNTTLEA -VRGET---- ---KVSSVLL --KDVKTGET -RELACDAVF FFIGMVPITG LLPD------ AEKDSTGYIV TDD-----EM RTSVEGIFAA GDVRAK--SF RQVIT----- ---------- ---------- -----
TRXB_MYCPN_17_299               ---------- ------DVAI VGAGPAGIAA GIYGKRANLN -LAIIEGS-- ---TPGGKVV KTNIVENYPG Y-KSITGPDL GLEMYNHL-I DLEPTFFYAN LIKLDK-AAD ----TFIL-- -YLDDKTVVF AKTVIYATGM LERKLGVA-- KEDHFYGKGI SYCAICDGS- -LYKDQVVGV VGGGNSAIQE ALYLASMAKT VHLIHRREGF RADE-TALNK LR---NLPNV VFHLNYTVKE -LLGNN---- ---TLNGIVL --QNTLDHST -KQIDLNCVF PYIGFESITK PVEH----LN LKLDPQGFLI TNE-----QM ETSLKGLFAA GDCRSK--HF RQIGT----- ---------- ---------- -----
TRXB_MYCGE_17_299               ---------- ------DLVI VGAGPAGIAS AIYGKRANLN -LAIIEGN-- ---TPGGKIV KTNIVENYPG F-KTITGPEL GLEMYNHL-L AFEPVVFYNN LIKIDH-LND ----TFIL-- -YLDNKTTVF SKTVIYATGM EERKLGIE-- KEDYFYGKGI SYCAICDAA- -LYKGKTVGV VGGGNSAIQE AIYLSSIAKT VHLIHRREVF RSDA-LLVEK LK---KISNV VFHLNATVKQ -LIGQE---- ---KLQTVKL --ASTVDKSE -SEIAIDCLF PYIGFESNNK PVLD----LK LNLDQNGFIL GDE-----NM QTNIKGFYVA GDCRSK--SF RQIAT----- ---------- ---------- -----
Q0PBZ1_CAMJE                    M--------- -----LDVAI IGGGPAGLSA GLYATRGGLK NVVMFEKG-- ---MPGGQIT SSSEIENYPG VAQVMDGISF MAPWSEQC-M RFGLKHEMVG VEQILKNSDG ----SFTI-- -KLEGGKTEL AKAVIVCTGS APKKAGFK-- GEDEFFGKGV STCATCDGF- -FYKNKEVAV LGGGDTALEE ALYLANICSK IYLIHRRDEF RAAP-STVEK VK---KNEKI ELITSASVDE -VYGDK---- --MGVAGVKV --K-LKDGSI -RDLNVPGIF TFVGLNVRNE ILKQDDSKFL CNMEEGGQVS VDL-----KM QTSVAGLFAA GDLRKD--AP KQVICAAGDG AVAALSAMAY IESLH----- -----
TRXB_HELPY_3_292                ---------- ------DCAI IGGGPAGLSA GLYATRGGVK NAVLFEKG-- ---MPGGQIT GSSEIENYPG VKEVVSGLDF MQPWQEQC-F RFGLKHEMTA VQRVSK-KDS ----HFVI-- -LAEDGKTFE AKSVIIATGG SPKRTGIK-- GESEYWGKGV STCATCDGF- -FYKNKEVAV LGGGDTAVEE AIYLANICKK VYLIHRRDGF RCAP-ITLEH AK---NNDKI EFLTPYVVEE -IKGDA---- --SGVSSLSI --KNTATNEK -RELVVPGFF IFVGYDVNNA VLKQEDNSML CKCDEYGSIV VDF-----SM KTNVQGLFAA GDIRIF--AP KQVVC----- ---------- ---------- -----
Q8X236_SULSF                    MSLLPRTTSV KPGEKFDVII VGLGPAAYGA ALYSARYMLK -TLVI-GE-- ---TPGGQLT EAGIVDDYLG LIE-IQASDM IKVFNKHI-E KYEVPVLLDI VEKIEN-RGD ----EFVV-- -KTKRKGEFK ADSVILGIGV KRRKLGVP-- GEQEFAGRGI SYCSVCDAP- -LFKNRVVAV IGGGDSALEG AEILSSYSTK VYLIHRRDTF KGQQPIYVET VK---KKPNV EFVLNSVVKE -IKGDK---- ---VVKQVVV --ENLKTGEI -KELNVNGVF IEIGFDPPTD FAKS----NG IETDTNGYIK VDE-----WM RTSVPGVFAA GDCTSAWLGF RQVITAVAQG AVAATSAYRY VTEKKGKK-- -----



Printing out site pattern counts


        28        357  P

TRXB_STAAW_4gcm                 ---------- ---------- ---------- ---------- ---------- --------AA AAAAAAAAAA AAAAAAAAAA AAAAAAACDD DDDDDDDDDD DDDDDDDDDD DEEEEEEEEE EEEEEEEEEE EEEFFFFFFF FFFFFFFFFG GGGGGGGGGG GGGGGGGGGG GGGGGHHHHH IIIIIIIIII IIIIIIIIII IIIIIIKKKK KKKKKKKKKK KKKKKKKKKK KLLLLLLLLL LLLLLMMMMM MMMNNNNNNN NNNPPPPPPP PQQQQQQQQR RRRRRRRRRS SSSSSSSSSS SSTTTTTTTT TTTTTTTTTT TTTTTVVVVV VVVVVVVVVV VVVVVVVWYY YYYYYYY
TRXB_BACSU_7_288                ---------- ---------- ---------- ---------- ---------- ---------- ---AAAAAAA AAAAAAAAAA AAAIKTTC-- -ADDDDDDDD DDEEEENNRS T---DEEEEE EEEEEEEEEI KKS-AFFFFF FFFFFFVYY- -GGGGGGGGG GGGGGGGGGG GGGKS-FHHK ---IIIIIII IIIIIIIIII ILVVVVDEEG KKKKKKKKKK KKKKKLNRRS V-LLLLLLLL LLLVY-MMMM MMS-GHKNNN NNSEPPPPPP P--AKQQQQE RRRRRRRRS- -DEEEKNNSS SS--AEEKLN STTTTTTTTT TTTVVEEEIL VVVVVVVVVV VVVVVVVW-Y YYYYYYY
TRXB_LISMO_9_290                ---------- ---------- ---------- ---------- ---------- ---------- ---AAAAAAA AAAAAAAAAA AAVIKTVC-- -DDDDDDDDD DEADDEGNED D---EADEEE EEEEEEGSTV KPS-AFFFFF FFFFLYIYY- -GGGGGGGGG GGGGGGGGGG KSTKS-MGHS ---IIIIIII IIIIIIIILV VIVVVVKDL- EKKKKKKKKK KKQRRVDRRD V-LLLLLLLL LLLVY-LMMM MMS-NVTDDD NNSPAAPPPP P--AEQQQQE RRRRRRRRQ- -SEESNGNSS SS--TIRKLD TKTTTTTTTT TTTTVEEVVL AAILLTVVVV VVVVVVVW-F HYYYYYY
Q9RSY7_DEIRA                    ---------- ---------- ---------- ---------- ----AADEEH PPPSTTVYAE GSTAAAAAAA AAAAAAAAAA FGAVATTCAD VADDDDDDEH KDDDEPDDED TAAREEEDEE EEENTVGQEQ TASYGFFFFF FFVYHFVFFG GDGGGGGGGG GGGGGGGMVY -WSAIALQHT HLRIIIIIIL LLLSVVVVLI MIIMVVAAKD EEEFGKKKQR SYKKRVRKKS KLAFLLLLLN TVYVYMHIII LMPEGQRNQR NWNPFPMPPP PEMEDNQQQK KKRRRRRSKM TNEGENGDAA GSTVTEYRAQ TKALLSTTTT TTVMRDKDVL IVVIITAITV VVVVVVVWQP PFMTVYY
C4LW95_ENTHI_4a5l               ---------- ---------- ---------- ------AFGG MPVV------ --P-----AE -ACAAAAAAA AACGSSSTTV ASTVKLVCSI -EADDDDDTF E-DDEPGGGS SQSKITNTEE EEEKQYGTED APKHEFFFIL VYLFRYMFHG GEAAFGGGGG GGGGGHQGVE DWNTVTVQHS NLMIIIILYA IVYKIIITMI AIVILVNDGS VEKFKKRRDN LRKKKSEKKK VHMYFILLLN QLYLVMHLMP HMG-NETHSA NTGDFPNAPP P-LIDSQQQV GNRRRRRCKS CNEHESGNAM GS-ATVKLDM SKELTTIPTT TVTLHDTLVV VAVIVKILII LLMVVVVWWP AATAIYY
TRXB1_YEAST_3d8x_3itj           ---------- ---------- ---------- --EGTWAFGN MPIV------ --P--V--AE -SAAAAAAAA AAAGAASTTA ASTTKLVCSH -KSDDDDKTL EPDEEEGGSS KT-KETDSEE EEETKEGEPD HPTNEFFFIE IFVFRYAFFG GEAAMGGGGG GGGGNHQGVD KWNSKSLQVT -LMIIILAYA LFYDIMVIMI ALIILVKDAS LTKFEKRRSR LSKKKTVDKK KLMYLIILLA QLYAVMHLLS HMGENKNNED NTAPIPSAPP P-LIESQQQP GKKRRRRQTD CNEKESANSM AS-ATDLTTD TRVTTTFPTT TTTQKAEKVI LLIIVKILVI LLCIVVVYYP AATAIYY
TRXB_CHLTR_5_294                ---------- ---------- ---------- AG-G--S--G FP-S------ --P------- ---AAAAAAA AAAGAAACTA ASMVAAAC-- -NADDDDKDF FKDEQETGSK D---ETESDE EEEERTGTTD TET-SFFFIQ FFLFKYFFF- -KAGFGGGGG GGGGESQGVG -WRVY-MQHS ---IIIVIFA IVFAIVIVLI ILVILLADGS VQRFEKRRTL LKRKKQEDRT V-MFLILLLN QLYIF-HLLS YMG-DSKNLD NTKPFPHAPP P--LNSQQVD GKRKRRRQK- -NKATSSNSM ST--TTRTLD TDENLTFPTT TTTMYNQIVV IICIVVIVVV VVLVVVVW-P AASAVYY
TRXB_CHLPN_5_294                ---------- ---------- ---------- AG-G--S--G FP-S------ --P------- ---AAAAAAA ASAGAAACTA ASMIDAAC-- -AADDDDRDF TKDEKESGTS T---ETESNE EEEERIGETD KET-SFFFIQ FFLFKYYFY- -QAGFGGGGG GGGGQEQGLK -WRVY-RQHS ---IIIIIFA IVFTIVIALI ILIILLNDGS VVHFEKKRIN IKRKKKEDRH Q-MFLILLLN QLYIY-HLLS YMG-NSKNLD NTEPFPPSPP P--LDSQQED GKRRRRRQK- -NKSESSNSM ST--TTKSLN TDEVLTYPTT TTTLKSKVVL IVCIVIVVVV VVLVVVVW-P AAAATYY
TRXB_ECOLI_7_297                ---------- ---------- --DGHIIKNV ---G------ ---------- --P-----AE -SAAAAAAAA AAAAAAACTL FSTLAAVCTH -KADDDNKHL ISDNLGQGAS NDTRETNSEE EETARNGEED GDESGDFFFM LFFYHIAWYG GDAGMEGGGG GGGSSGGGLD MKTNIGLHHR KLMIILLVVA IVIEILIILI EHIILLEDEQ ETEFGNRYNR GHKQRSQDNQ QLLFFLLLLN QVYLYGHLLT YMD-NTNNNE NTNPIPPKPP P-LIEEQQIK GRRRRRRMKD CDEKDSGNTM ASTATSQTTE TRTTLTHPST TTVLR-EKVV LVLVIRIITV LVVVVVVTYP AAFAIYY
TRXB_HAEIN_8_297                ---------- ---------- --KGD-LKNV ---G------ ---------- --F------- ---AAAAAAA AAAAAAACTL FSTLEALC-- -DDDDDNKHL VSDNGGNGAS T---EDESEE EETNRKGQND SKE-GDFFFY LFFYLIGWY- -DAGLEGGGG GGGSGGGGLD MKTSN-LHHR ---IILTVVA IVVEILIIII QHIILLEDQS DETFQKRYNR GHKKRSKDNK K-LYFLLLLN QVYLF-HLLT YMM-NLFENN NTVEIPSQPP P--VEEQQIP GRRRRRRMK- -NERESGDTM AS--TEATTQ TRTTLTHPAT TTVLA-EVVV LLLIVKIITI LVVVVVVT-P AAFAIYY
Q9I0M2_PSEAE_8_316              ---------- ---------- --DGE-SKNA ---G------ ---------- --V------- ---AAAAAAA SAAAAAACTL FSTIDALC-- -DADDDNRHL HGDDAGAGAK D---ETESED EETARTGQTE KSS-GDFFFF LFFYQICWY- -DAGIDGGGG GGGSGGGGLD SMTQV-LHHT ---IILLVIA IVIELLIILI QHVVLLEDQQ DEEFGNRYHR GHRQQKHDNK I-LFLLLLLN QVYLY-HLVT YMG-NLKNNR NTSELSPPPP P--VEEQQQV GKRKRRRAK- -SETSSGNTM AS--TEQTTT TRTTMTHPAT TTILK-ERVV MVLVITIITV VVVVAVVW-P AAYAIYY
Q9JU23_NEIMA_6_316              ---------- ---------- --KDA-TRNV ---G------ ---------- --A------- ---AAAAAAA AAAAAAACTL FSMIDAVC-- -DSDDSNKQL IGDEEGDGVK D---ETDSED EETAREGAED EAQ-GDFWFM LFFYLIAWY- -DAGIGAGGG GGGSGGGGLD RANKT-IHHS ---IILVVIA VVIELLIILI AKVILLEDKQ QETFGKKYNR GHRQKKKDNN --MFFLLLLN QVYLY-HLIG YFG-NLKEND NTMEIPTQPP P--IEEQQID GKRKRRRKK- -NEASNGETM AS--TQATQA TLNNMTTPAT TTTLKAEKVV LALVITIITV IVVVVVVL-P AAFAIYY
TRXB_BUCAP_8_299                ---------- ---------- KNKGH-TINV ---G------ ---------- --F------- ---AAAAAAA AAAVAASCTL FSMIDSVC-- -DSDDNNKNF IKDDEKNDYK E---ENKNEE EETKKKGEKE NAL-GDFFFL LFFYHFAWY- -DTGIKGGGG GGGSKGGGLE KKTKV-IHHS ---IILIIVA IVIKILIILI NHVVLIKNTK ELKFNKKYIR GHKKRIKDNN K-LFFILLLN QIYIY-YLLT YMK-NLLTNK NNYPISPKPP P--VNEQQIE GKRRKRRIK- -NDSKNHNTM SS--TKQTTN TLTLMTYPST TTILK-EKVL LLVIIFIIVI LVIIVIVL-P PAYTIYY
TRXB_BUCAI_8_299                ---------- ---------- EQKGH-EKNI ---Q------ ---------- --Y------- ---AAAAAAA AAAVASAATL FSMINAVC-- -DSDDINKTF IRDDEQSNYK E---ENNNEE EETLNEGKKN NQS-GDFFFE ILFYYFAWY- -DTGTKGGGG GGGSKGGGLE SKTKV-IHHS ---IILIIVA IIIKILVILI NYVILIKNVK KIKFNKKYIR GHEKRTTDND K-LFFILLLN KVYVY-YLLT YMK-NLISNK NNNPIQSKPP P--ISEQQLE GKGRRRRIK- -NNSTSANTM AS--TKQTSN TLISMTHPST TTVLK-KQVF LLVIIFIIVI LVIVVVVL-P PACTVYY
TRXB_COXBU_8_299                ---------- ---------G --KGQ-LKNV ---G------ ---------- --A------- ---AAAADPS AAAAAAACTL FSMIKVIC-- -ADDVDNSHL ASGEKGDEAS E---DTPSEA EETPRTGKTD KTQ-GEFFFI ILFYQIAWY- -DAGMNGGGG GGVSEGGGLD QMTPL-LHHH ---IILLVIT IVIELLIMLI EVVVLLEDKN EGHFAKRYNR GQAKRDKDHK K-LYLLLLLN QVYIY-HLMT YMG-ALQEND NTNPIPPQPP P--IKEQQSK GKRQRRRRK- -HEKKNGSTL AS--TDASQE THVVMTTPST TAALKAQRVI LVLIILIITV LVVVPVVW-P AAFAFYY
Q8YID2_BRUME                    ---------- ----AGMPR- ---------- ---D---K-- -----AE-E- --A-----AE HAAAAAAAAA AAAAAAACAL FSMISATCMH PDHDDDNPIT SPDPWEEGSK TAQRDTEQEE EEATRTGRIE GAQADYFFFL VVFYAIVYYG GDAGLGGGGG GGGSGGGGLS AMTVIARQHS RLMIVIVIIA IIIKLIIILI QVVVLVSTET DESFTNRWTQ TDNKKAADHK VQMFFLLLMA KVYIYMHLVT YMPEGLGRMK NIGPLEPQPP PLLVQEQQQD GGRRRRRTKE CNEEEDGNTM ASTATEATQE VRVIQTTPST TTTLKNQWVV LVLIVRVVTV VVVVVVVWWP AAHAIYY
Q9X5F7_ZYMMO_9_294              ---------- ---F------ ---------- ---G---M-- ---------- --R------- ---AAASAAA AACSASAAAL FSTFEATC-- -KEDDDNRIF KPDDWPDGTP T---ETEQEE EEQAREGAVD SES-DFFFFL IVFFQHVFY- -DAGLGGGGG GGGSGGGGLG SRSQH-LQHS ---IILIIIA IIAKILIILI QRIILVAEQS AEEYQKRWTE AKNKRKTDNN K-MLLLLLLA HVYVY-HLVT LMP-GAGNGD NIGKLEPPPP P--VTEQQQK GKRRRRRMK- -DESESANTM AS--TLQLQE TKETLTTPTT TTVLKEKEVI LVLIIRVITV ALVIVVVW-P AAWALYY
TRXB_RICPR_6_292                ---------- ----KP---- ---------- ---G---F-- ---------- --A------- ---AAACAAA AAAASSAATL FSTLATCC-- -DSDDNNKYL SSDDWPNGSN T---DTEEEE EENERIGMED SNN-GFFFFF VVFFSHVYY- -DAGMGGGGG GNGSNGGGIT KRTKI-VQHH ---IIIIIIA IVIAIVVILI QIVIIVKSKS DKKFNKKWEQ AKNQKAQDNK Y-LFFILLLN QIYIY-HLLT LMT-NVTNAD NMGELAPPPP P--IQEQQQE GFRRRRRQK- -NERENGDSM AS--TLREQE TKIVITTPTS TTTLQDEVVI IVIIVKVVIV VVLVVVVW-P SASSIYY
TRXB_MYCTU_16_299               ---------- ---------- ---------- ---R---V-- ---------- --R------- ---AAAAAAA AAAAAAAAAA FSMIGAVC-- -DTDDDDDDL RGDPEDTETR T---DTNAEE EEEEPEGETS EPT-AFFFFR FFVFRFAYF- -EAGTGGGGG GGGGGQGGID -LTGT-LQHH ---IVIIVVA LVFDVLVILI SLIIVVNDRH VLSKQKRYEE TRRQREQRRA N-MLFVLLLR AIYVH-HLVT YMG-DDTNQD NTGPLPPFPP P--RQSAQLD GRRRRRRVK- -DASASGNSM AS--MTSRTD SRTTVTTPTT TTVTRDDLLL VLVLLSVVTV VVMVVVVT-L AAMSLYY
TRXB_MYCLE_13_296               ---------- ---------- ---------- ---R---V-- ---------- --R------- ---AATAAAA AAAAAAAAAA SSMISAVC-- -GTDDDDEDL KGDPEDTDTR T---ETNSEE EEEEPEGETS EVT-AFFFFR FFVFRFAYF- -EAGTGGGGG GGGGGQGGVE -LTGT-LQHH ---IVIIVVA LVFDVLVILI SIIIVVNYSR VLSKQKRYED TRRQREKRRT T-MLFLLLLR VIYVY-HLVT YMG-GNTNQD NTGDLPPFPP P--RQSAQLD GRRRRRRVK- -NASESGNSM AS--MTSQTD SRTTITTPTT TTVLRDELLL ILVLMSIVTV VVMVVVVT-I VATALYY
Q9RIS2_STRCO_9_294              ---------- ---------- ---------- ---P---T-- I--------- --P------- ---AASAAGA AAAAATAAAA FSTIETTC-- -NTDDSDDDL SSDSEDNGSR T---ETDGEE EEGEDTEAVD AAR-TFFFFF LFFFRFVFF- -DAGAGGGGG GGGKGGGGLA GSSGT-LQHS ---IVIVLIA VVFHLVIVLI FAVIVVSEKT AESKTKRKVN MHRRRDERRN L-MLLLLLLR QIYVH-HLVT YMG-DHDESD NTGPLPPVPP P--VDSSQQD GRRRRRRVQ- -DTAENGDTM AS--TERRQE TTETLTTPTT TTVTREEMVL VMVLVTIVTV LLMVVVVF-V YADWMYY
TRXB_STRCO_5_289                ---------- ---------- ---------- ---P---T-- V--------- --Q------- ---AASTAGA AAAAAAAAAA FSMIETVC-- -ETDDDDNDL SADPEPQGSK T---ETDQEE EEEAELGAVD TPS-TFFFFF FFFFRFAFF- -DAGAGGGGG GGGNGGGGLA -SAGT-LQHS ---IIIIVIA VVFDLIVALI TVIIVVADKS AESKTKKKVN KHRQRDDKRK K-MLLLLLLR QIYVH-HLVT YMG-DQDDSD NNGTLPPAPP P--IDSAQQD GRRRRRRVK- -NEAENGDTM AS--TDRRMD TKEVLTTPST TTVTREEKVL LLVLLTIVTV LLMVVVVW-I HAPWLYY
TRXB_TREPA_6_286                ---------- ---------- ---------- ---------- ---------- --A------- ---AAAAAAA AAATASAAAT PALIGACC-- -EDDDDDDEK ADASEPTDED T---SDTEEE DEEESTGKAG TAR-TYFFFL VFLFKLVYV- -ESGKGGAGG GGGGGGGGAG -LSDS-LQHT ---IIVIVFV LIIEIMVAMI AQIIIVKEPR EVRFGHRKTN KKAKRVDMRR K-IFLLLLYI -VFLY-MAVM LMP-NRTNND NLTELPFHAP P--ASQQQAH SRRRRRRRK- -DATESSNAA CS--TERTSE TLTVKITTSS TTTLKTQVVL IVVQVHIITL VVCVIVVW-V HFYYIYY
TRXB_MYCPN_17_299               ---------- --L------- ---------- -------Y-- ---------- ---------- ---AGMAAAA AAAAATLAPL SAVAKGLC-- -NNDDENDNK VESPDPNHQK D---INKLEE QEEHDTGNVD GDK-DYFFLR FLVYYMGYY- -AAGSEGCGG GGGKHGGGLD -YNAH-IHHY ---IIVILPI YLIKLLLTLI THVVLVNNEA KITFTNKKIE TKDQRENKSN L-AFFLLLLI NVFVV-FVIM IMS-DLLLND NKKKPAPPPP S--FDDKQLV GKRKRRRRE- -NEKSSGNSG KS--TQEFTL TVTTLTHLAA TTTLQQTICA VIVILIGIIV VLIILVVL-T EYYYFFY
TRXB_MYCGE_17_299               ---------- --L------- ---------- -------Y-- ---------- ---------- ---AAMASVA SAAAATLSPL AAVVKGIC-- -EDDDENDNH VESQESEDNK D---INKEEE QEEYDEGNTD VAS-DFFYLK FFVYYIGYY- -NAGNEGCAG GGGKKGGGLN -YQNS-IHHA ---IIVILPI YFINILLLLI THVVLLKQLL KLTFTNKKIE KKAKREDKSN V-LFFLLLLN KVFVV-FIIM IMT-GILIND NKKKPEPPPP S--FDDKQVT GKRKRRRRA- -SQKSNTNSG KS--TEQFTL NKTTLTHLSA TTGIANVLCA IVVIIIAIIV LLIIIVVL-T EYYYVFY
Q0PBZ1_CAMJE                    ------DDKN NSF------- ---------- -------K-- ---------- --A-----AM -AAAGSCAAA AAACGACALV FGTAEAVCD- -EPDDDDDGK ELKESEKQKS DE-AESQAEE EEEEGIGETL ENRLEVFFFK LFLYSIAYYG GVAGGGGGGG GGGGGGGGCG MFADASLQHA -IVIIIMVTV VLFNVLVSAV MILIIVKDKS DMKFKKKKEP GDRKKNDKNK KLTFFVLLFR LVPVEMLIMM LWVHNYLNGE NSGAIKIPPP V-LEDAQQVE KKRKRKRRPS A-EQSSGSTM TS-ATDQLDA NKSLMSYVAS TCVLKGKSLV FVVLVTIITI IVLVIIVTYS PFMTHQY
TRXB_HELPY_3_292                ------DES- NNM------- ---------- -------L-- ---------- --K------- ---AGGAAAA CAACGSCALA FGTAAAVC-- -EPDDDDDAK EFIEDDAQSK T---ESESEE EEEESKGETS GVR-EVFFFK FFLYQIAYY- -TAGGGGGGG GGGGNGGGCD SWSDA-LQHY ---IIIVIIV ILFKILVITV MLLIICNDKK EFKFKKKRQP GFRKKDDKNK A-TYFIVLFN LVPVF-YILM LWV-NKANGD NGGQVKLPPP V--ESAQQLE KKRHRKRRP- -NERENSPTM TS--TEKESQ NSVTCSYAAS TCVIKYKVIV ILVLVVVITI FVVVVVVT-H PFMTHSY
Q8X236_SULSF                    LPRSTW---- --N------- ---------- -------K-- ----V----- -KI--S--AY KAASAVGAAA GAASYSIAVV PLTIDSVCQK GENDDDDDIN EESTDPKSWT TTGRIGEKED EG-EDIGKEE TNKFKLFFLK FYAFNYAYIA GDAAEEGGAA GGGGGGGGIR -AKGGELHHS EVVIIVIIIV LVIEILVILI TVIVVVKDKR KEKFGNKKEV VAKRRDDDSK KKYFFVLLMP GVFVFMFLVM YF-KNKTKMD DEKPFPSPPL PKTLQQQQVV GRRTKRRTQS ANEKESQNSI ASPVIERKQK TVVLTAYTSG TTVEENPKCL VVVLVVIIVV VVLIIVVLYE RELYVYY



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    1    1    1    1    1    1    1    1    1    1   10    1    1    1    1
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    1    1    1    1    1    1    1    1    1    1    1    1    1    1    1
    1    1    1    1    1    1    1    1    1    1    1    1

AAML (in paml version 4.8, March 2014)  trxb_MOD2_MAFFT9.nex
Model: Empirical for branches,  (GlobalMatrixProt_Evol.dat) ns =  28  ls = 375


Frequencies..
                                    A      R      N      D      C      Q      E      G      H      I      L      K      M      F      P      S      T      W      Y      V
TRXB_STAAW_4gcm                0.09646 0.03537 0.03215 0.07395 0.00643 0.02572 0.07074 0.11254 0.01608 0.08360 0.04502 0.08039 0.02572 0.05145 0.02572 0.04180 0.07395 0.00322 0.02894 0.07074
TRXB_BACSU_7_288               0.08511 0.04255 0.03901 0.04610 0.00709 0.01418 0.10638 0.11702 0.01064 0.07447 0.05319 0.08511 0.02128 0.04255 0.02482 0.04255 0.05319 0.00355 0.03901 0.09220
TRXB_LISMO_9_290               0.09609 0.04982 0.02135 0.07829 0.00712 0.02135 0.07117 0.11388 0.00712 0.07117 0.06762 0.06406 0.02135 0.03559 0.02491 0.04626 0.06762 0.00356 0.03559 0.09609
Q9RSY7_DEIRA                   0.12000 0.04615 0.02462 0.06462 0.00615 0.03385 0.07385 0.10769 0.01846 0.05231 0.05231 0.04923 0.03077 0.04615 0.04000 0.03077 0.07077 0.00923 0.03077 0.09231
C4LW95_ENTHI_4a5l              0.08917 0.03185 0.03822 0.04777 0.01911 0.02548 0.06051 0.11146 0.03185 0.07006 0.06688 0.05732 0.03503 0.03503 0.03503 0.05414 0.06688 0.00955 0.02866 0.08599
TRXB1_YEAST_3d8x_3itj          0.11285 0.03135 0.03135 0.04702 0.01254 0.02508 0.07524 0.09091 0.01567 0.06897 0.07524 0.07524 0.02821 0.03448 0.04075 0.05956 0.08777 0.00627 0.02821 0.05329
TRXB_CHLTR_5_294               0.10000 0.04483 0.03103 0.05517 0.01379 0.03793 0.04828 0.10345 0.01034 0.06207 0.06552 0.05172 0.02069 0.06897 0.03103 0.05862 0.07931 0.00690 0.02414 0.08621
TRXB_CHLPN_5_294               0.08966 0.04483 0.03448 0.04828 0.01379 0.03448 0.06207 0.10000 0.01379 0.07586 0.06897 0.06207 0.01379 0.05172 0.03448 0.07241 0.06897 0.00690 0.03448 0.06897
TRXB_ECOLI_7_297               0.09494 0.05063 0.05696 0.05380 0.01266 0.03165 0.06962 0.11076 0.03165 0.06962 0.09177 0.03481 0.02215 0.03165 0.02848 0.04114 0.07911 0.00316 0.02848 0.05696
TRXB_HAEIN_8_297               0.08621 0.04828 0.05172 0.05517 0.01034 0.03103 0.06897 0.11034 0.02414 0.06207 0.10000 0.04828 0.01724 0.04138 0.02414 0.04138 0.07586 0.00345 0.03103 0.06897
Q9I0M2_PSEAE_8_316             0.10000 0.04483 0.03448 0.05862 0.01379 0.04483 0.05862 0.11379 0.03448 0.05862 0.08621 0.03448 0.01724 0.03103 0.02414 0.04828 0.08621 0.00690 0.03103 0.07241
Q9JU23_NEIMA_6_316             0.12414 0.03448 0.04828 0.06207 0.01034 0.03793 0.06552 0.11379 0.01379 0.07586 0.07931 0.06207 0.02069 0.03448 0.02069 0.02759 0.06897 0.00690 0.02759 0.06552
TRXB_BUCAP_8_299               0.05479 0.02397 0.08219 0.03767 0.01027 0.01370 0.04795 0.08904 0.02397 0.11644 0.08904 0.12329 0.01370 0.04452 0.02740 0.03767 0.06507 0.00342 0.04452 0.05137
TRXB_BUCAI_8_299               0.06507 0.02740 0.08219 0.03082 0.01027 0.03082 0.05137 0.08904 0.01712 0.10959 0.07534 0.09589 0.01370 0.04110 0.02397 0.05822 0.06507 0.00342 0.04452 0.06507
TRXB_COXBU_8_299               0.09932 0.03767 0.03425 0.04795 0.01027 0.04452 0.05479 0.10616 0.03082 0.06849 0.09589 0.06507 0.02397 0.02740 0.04452 0.04110 0.06164 0.00685 0.03082 0.06849
Q8YID2_BRUME                   0.12963 0.04938 0.02160 0.04321 0.01235 0.04630 0.06790 0.10494 0.02160 0.06481 0.05864 0.03086 0.03395 0.02469 0.04321 0.03395 0.07716 0.01543 0.02778 0.09259
Q9X5F7_ZYMMO_9_294             0.10140 0.04895 0.02448 0.04196 0.01049 0.04545 0.07692 0.10839 0.01748 0.07343 0.09091 0.05245 0.01748 0.03846 0.03846 0.04895 0.06993 0.01399 0.02098 0.05944
TRXB_RICPR_6_292               0.08014 0.03484 0.06272 0.04530 0.01394 0.04530 0.05923 0.09408 0.01394 0.10105 0.05226 0.05575 0.01742 0.04530 0.03136 0.06272 0.06272 0.01045 0.02787 0.08362
TRXB_MYCTU_16_299              0.10915 0.08803 0.02113 0.07394 0.00704 0.02817 0.05282 0.10563 0.01761 0.03521 0.08099 0.01056 0.02465 0.04577 0.03521 0.04577 0.09507 0.00000 0.02113 0.10211
TRXB_MYCLE_13_296              0.09155 0.08099 0.02465 0.05282 0.00704 0.02817 0.06338 0.10915 0.01056 0.04930 0.07746 0.01761 0.02465 0.04225 0.02817 0.05634 0.10563 0.00000 0.02817 0.10211
Q9RIS2_STRCO_9_294             0.09091 0.06993 0.02098 0.06993 0.00699 0.02098 0.06643 0.11189 0.02098 0.03497 0.07343 0.01748 0.02797 0.05245 0.03147 0.05594 0.10490 0.00350 0.01748 0.10140
TRXB_STRCO_5_289               0.10877 0.05263 0.02456 0.07719 0.00702 0.03158 0.05614 0.10526 0.01754 0.04912 0.08070 0.04561 0.02105 0.04912 0.03860 0.04561 0.08421 0.00702 0.01404 0.08421
TRXB_TREPA_6_286               0.11744 0.06050 0.02135 0.05338 0.01779 0.02491 0.06406 0.09609 0.02135 0.06762 0.06762 0.04626 0.02135 0.03915 0.02491 0.05338 0.08541 0.00356 0.02847 0.08541
TRXB_MYCPN_17_299              0.07774 0.02827 0.06360 0.05300 0.01413 0.02473 0.04947 0.09894 0.02827 0.07420 0.11307 0.07067 0.01413 0.04240 0.03180 0.03534 0.06360 0.00000 0.04594 0.07067
TRXB_MYCGE_17_299              0.07067 0.02473 0.06714 0.04594 0.01413 0.02473 0.06007 0.08834 0.01767 0.09541 0.09894 0.08481 0.01060 0.04594 0.02473 0.04947 0.05654 0.00000 0.04594 0.07420
Q0PBZ1_CAMJE                   0.09615 0.02564 0.03205 0.05449 0.02244 0.02564 0.07051 0.12179 0.00962 0.05769 0.07692 0.08654 0.03526 0.04487 0.02564 0.06410 0.03846 0.00321 0.02244 0.08654
TRXB_HELPY_3_292               0.07586 0.03103 0.04138 0.04828 0.03103 0.02759 0.07241 0.11379 0.01379 0.06552 0.05517 0.08276 0.01724 0.05517 0.03103 0.05862 0.04828 0.00690 0.03103 0.09310
Q8X236_SULSF                   0.07099 0.04012 0.03086 0.04938 0.00926 0.02469 0.07407 0.10185 0.00617 0.07407 0.06481 0.09568 0.01235 0.04012 0.03704 0.04938 0.05556 0.00617 0.03704 0.12037

Homogeneity statistic: X2 = 1.94614 G = 1.94012 

Average                        0.09429 0.04370 0.03912 0.05409 0.01207 0.03042 0.06507 0.10540 0.01847 0.07002 0.07485 0.06036 0.02173 0.04213 0.03127 0.04853 0.07195 0.00555 0.03054 0.08041
(Ambiguity characters are used to calculate freqs.)


# constant sites:     22 (5.87%)
AA distances (raw proportions of different sites)

TRXB_STAAW_4gcm
TRXB_BACSU_7_288  0.2773
TRXB_LISMO_9_290  0.3253  0.2027
Q9RSY7_DEIRA     0.4693  0.4987  0.5093
C4LW95_ENTHI_4a5l  0.5307  0.5467  0.5387  0.5547
TRXB1_YEAST_3d8x_3itj  0.5333  0.5600  0.5440  0.5707  0.3440
TRXB_CHLTR_5_294  0.5067  0.4587  0.4480  0.5573  0.4373  0.4293
TRXB_CHLPN_5_294  0.4987  0.4267  0.4373  0.5520  0.4400  0.4427  0.1680
TRXB_ECOLI_7_297  0.5120  0.5520  0.5467  0.5280  0.5093  0.4533  0.5093  0.4960
TRXB_HAEIN_8_297  0.5253  0.4773  0.4853  0.5600  0.5173  0.4853  0.4453  0.4373  0.2560
Q9I0M2_PSEAE_8_316  0.5253  0.4667  0.4453  0.5573  0.5520  0.5413  0.4373  0.4293  0.2960  0.2453
Q9JU23_NEIMA_6_316  0.5520  0.4960  0.4693  0.5733  0.5413  0.5173  0.4267  0.4320  0.3307  0.2720  0.2453
TRXB_BUCAP_8_299  0.5467  0.4853  0.4667  0.5840  0.5573  0.5387  0.4773  0.4480  0.3840  0.3253  0.3413  0.3253
TRXB_BUCAI_8_299  0.5520  0.4933  0.4747  0.5787  0.5600  0.5387  0.4853  0.4667  0.4027  0.3493  0.3707  0.3547  0.1947
TRXB_COXBU_8_299  0.5813  0.5013  0.4933  0.5867  0.5840  0.5493  0.4773  0.4560  0.3627  0.3093  0.3040  0.3040  0.3893  0.3973
Q8YID2_BRUME     0.5333  0.5307  0.5440  0.5200  0.5227  0.5413  0.5200  0.5200  0.4427  0.4720  0.4453  0.4667  0.5200  0.5280  0.4827
Q9X5F7_ZYMMO_9_294  0.5093  0.4320  0.4373  0.4987  0.5040  0.5040  0.4347  0.4000  0.4373  0.3680  0.3573  0.4027  0.4347  0.4027  0.4187  0.4053
TRXB_RICPR_6_292  0.4987  0.4240  0.4000  0.5280  0.4880  0.5040  0.4213  0.4027  0.4613  0.3867  0.4027  0.4027  0.4187  0.4240  0.4347  0.4347  0.3440
TRXB_MYCTU_16_299  0.4880  0.4133  0.4027  0.5333  0.5120  0.4987  0.4187  0.4027  0.4800  0.4347  0.4400  0.4453  0.4800  0.4667  0.4827  0.5120  0.4080  0.4160
TRXB_MYCLE_13_296  0.4907  0.4187  0.4133  0.5200  0.5013  0.4933  0.4133  0.3973  0.4800  0.4240  0.4347  0.4347  0.4667  0.4613  0.4853  0.5093  0.4027  0.4160  0.1040
Q9RIS2_STRCO_9_294  0.5093  0.4107  0.4133  0.5147  0.5093  0.5307  0.4213  0.4320  0.5040  0.4267  0.4373  0.4133  0.4853  0.5013  0.4667  0.4907  0.3707  0.4080  0.3227  0.3333
TRXB_STRCO_5_289  0.5040  0.4293  0.3787  0.4853  0.4907  0.4907  0.4160  0.4107  0.4880  0.4213  0.4293  0.3947  0.4640  0.4613  0.4453  0.4960  0.3600  0.3947  0.2960  0.2987  0.1947
TRXB_TREPA_6_286  0.4827  0.4053  0.4053  0.5067  0.5600  0.5760  0.4800  0.4667  0.5493  0.4800  0.4773  0.5013  0.5120  0.4987  0.5040  0.5493  0.4427  0.4507  0.4453  0.4347  0.4587  0.4453
TRXB_MYCPN_17_299  0.5627  0.4720  0.4640  0.6107  0.5920  0.6293  0.5360  0.5387  0.5653  0.5040  0.4827  0.4960  0.4960  0.4987  0.5280  0.5893  0.4907  0.5067  0.4933  0.4987  0.5040  0.4987  0.4987
TRXB_MYCGE_17_299  0.5547  0.4667  0.4533  0.5947  0.6133  0.6347  0.5360  0.5413  0.5707  0.5147  0.4933  0.5147  0.4827  0.4987  0.5227  0.6107  0.4987  0.5253  0.5253  0.5200  0.5253  0.5120  0.4907  0.2320
Q0PBZ1_CAMJE     0.5307  0.5733  0.5493  0.5600  0.5600  0.5813  0.6053  0.5920  0.5627  0.5653  0.5707  0.5600  0.5947  0.5893  0.6080  0.6027  0.5707  0.5547  0.5520  0.5573  0.5867  0.5467  0.5440  0.5920  0.5893
TRXB_HELPY_3_292  0.5493  0.4880  0.4853  0.5573  0.5840  0.5787  0.5093  0.4960  0.5840  0.4853  0.5147  0.5173  0.5253  0.5013  0.5493  0.6080  0.4960  0.4773  0.4853  0.4880  0.5200  0.5013  0.4827  0.5280  0.5387  0.3360
Q8X236_SULSF     0.5627  0.5893  0.5760  0.5973  0.6107  0.6213  0.6373  0.6320  0.6080  0.6293  0.6240  0.6320  0.6293  0.6293  0.6560  0.6053  0.6133  0.5920  0.5893  0.5947  0.6133  0.5787  0.5627  0.5840  0.5920  0.5813  0.6107


TREE #  1:  (((((((((1, 2), 3), 23), 4), ((26, 27), (28, (24, 25)))), ((19, 20), (21, 22))), (((16, 17), 18), ((13, 14), ((9, 10), (15, (11, 12)))))), (7, 8)), (5, 6));   MP score: -1
This is a rooted tree.  Please check!
lnL(ntime: 54  np: 54): -12672.677679      +0.000000
  29..30   30..31   31..32   32..33   33..34   34..35   35..36   36..37   37..1    37..2    36..3    35..23   34..4    33..38   38..39   39..26   39..27   38..40   40..28   40..41   41..24   41..25   32..42   42..43   43..19   43..20   42..44   44..21   44..22   31..45   45..46   46..47   47..16   47..17   46..18   45..48   48..49   49..13   49..14   48..50   50..51   51..9    51..10   50..52   52..15   52..53   53..11   53..12   30..54   54..7    54..8    29..55   55..5    55..6  
 0.118956 0.130013 0.088172 0.144299 0.071207 0.058853 0.244293 0.090738 0.212055 0.117734 0.129257 0.460709 0.398653 0.080754 0.408504 0.272584 0.196778 0.170408 0.567686 0.507124 0.184598 0.183619 0.149308 0.254996 0.048598 0.083226 0.147995 0.177244 0.094417 0.103002 0.074216 0.099818 0.254956 0.272589 0.274734 0.149347 0.271971 0.071007 0.196323 0.047653 0.071898 0.108331 0.175384 0.044103 0.315107 0.053246 0.174629 0.202913 0.237229 0.117683 0.121433 0.020709 0.275421 0.233890

tree length =   9.76037

(((((((((1: 0.212055, 2: 0.117734): 0.090738, 3: 0.129257): 0.244293, 23: 0.460709): 0.058853, 4: 0.398653): 0.071207, ((26: 0.272584, 27: 0.196778): 0.408504, (28: 0.567686, (24: 0.184598, 25: 0.183619): 0.507124): 0.170408): 0.080754): 0.144299, ((19: 0.048598, 20: 0.083226): 0.254996, (21: 0.177244, 22: 0.094417): 0.147995): 0.149308): 0.088172, (((16: 0.254956, 17: 0.272589): 0.099818, 18: 0.274734): 0.074216, ((13: 0.071007, 14: 0.196323): 0.271971, ((9: 0.108331, 10: 0.175384): 0.071898, (15: 0.315107, (11: 0.174629, 12: 0.202913): 0.053246): 0.044103): 0.047653): 0.149347): 0.103002): 0.130013, (7: 0.117683, 8: 0.121433): 0.237229): 0.118956, (5: 0.275421, 6: 0.233890): 0.020709);

(((((((((TRXB_STAAW_4gcm: 0.212055, TRXB_BACSU_7_288: 0.117734): 0.090738, TRXB_LISMO_9_290: 0.129257): 0.244293, TRXB_TREPA_6_286: 0.460709): 0.058853, Q9RSY7_DEIRA: 0.398653): 0.071207, ((Q0PBZ1_CAMJE: 0.272584, TRXB_HELPY_3_292: 0.196778): 0.408504, (Q8X236_SULSF: 0.567686, (TRXB_MYCPN_17_299: 0.184598, TRXB_MYCGE_17_299: 0.183619): 0.507124): 0.170408): 0.080754): 0.144299, ((TRXB_MYCTU_16_299: 0.048598, TRXB_MYCLE_13_296: 0.083226): 0.254996, (Q9RIS2_STRCO_9_294: 0.177244, TRXB_STRCO_5_289: 0.094417): 0.147995): 0.149308): 0.088172, (((Q8YID2_BRUME: 0.254956, Q9X5F7_ZYMMO_9_294: 0.272589): 0.099818, TRXB_RICPR_6_292: 0.274734): 0.074216, ((TRXB_BUCAP_8_299: 0.071007, TRXB_BUCAI_8_299: 0.196323): 0.271971, ((TRXB_ECOLI_7_297: 0.108331, TRXB_HAEIN_8_297: 0.175384): 0.071898, (TRXB_COXBU_8_299: 0.315107, (Q9I0M2_PSEAE_8_316: 0.174629, Q9JU23_NEIMA_6_316: 0.202913): 0.053246): 0.044103): 0.047653): 0.149347): 0.103002): 0.130013, (TRXB_CHLTR_5_294: 0.117683, TRXB_CHLPN_5_294: 0.121433): 0.237229): 0.118956, (C4LW95_ENTHI_4a5l: 0.275421, TRXB1_YEAST_3d8x_3itj: 0.233890): 0.020709);

Time used:  0:10
