X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=examples%2FestrogenReceptorProtein_aln.fa;fp=examples%2FestrogenReceptorProtein_aln.fa;h=353c68ced32aeac9653c2d5e445891350121e69f;hb=f417c6f24712def4fab766afa021ef56fcd13f4b;hp=0000000000000000000000000000000000000000;hpb=39405b7fbf13ec2133461b057ded4c21bfb9cd1c;p=jalview.git

diff --git a/examples/estrogenReceptorProtein_aln.fa b/examples/estrogenReceptorProtein_aln.fa
new file mode 100644
index 0000000..353c68c
--- /dev/null
+++ b/examples/estrogenReceptorProtein_aln.fa
@@ -0,0 +1,112 @@
+>UNIPROT|Q7LCB3/1-530 estrogen nuclear receptor beta variant a
+------------------------------------------------------------------------
+------------------------------------------------------------------------
+--------------------------MDIKNSPSSLNSPSSYNCSQSI------LPLEHGSIYIPSSYVDSH
+HEYPAMTFYSPAVMNYSIPSNVTNLEGGPGRQT-------TSP----------NVLWPTPGHLSPLVVHRQL
+SHLY--------------------------------------------AEPQKSPWCEARSLEHTLPVNRET
+LK----------RKVSGN---------------RCASPVTGP------------------------------
+-------------------GSKRDAHF---------------------------------CAVCSDYASGYH
+YGVWSCEGCKAFFKRSIQGHNDYICPATNQCTIDKNRRKSCQACRLRKCYEVGMVKCGSRRERC-GYRLVRR
+QRSADEQLHCAGKAKRSGGH-------------APRVRELLLDALSPEQLVLTLLEA-EPPHVLIS------
+----------------------R-PSAPFTEASMMMSLTKLADKELVHMISWAKKIPGFVELSLFDQVRLLE
+SCWMEVLMMGLMWRSID--HPGKLIFAPDLVLDRDEGKCVEGILEIFDMLLAT---TSRFRELKLQHKEYLC
+VKAMILLNSSMYPLVTAT-QDADSSRKLAHLLNAVTDALVWVIAKSGISSQQQSMRLANLLMLLSHVRHASN
+KGMEHLLN--MKCKNV---VPVYDLLLEMLNAHVLRGCKSSITGSECSPAEDSKSKEGSQNPQSQ---
+>UNIPROT|Q9VSE9/1-484 GH28308p
+------------------------------------------------------------------------
+------------------------------------------------------------------------
+-----------------------------------------------------------MSDGVSILHIKQE
+VDTPSASCFSPSSKSTATQSGTNGLK--------------SSP----------SVSPERQLCSSTTSLSCDL
+HNVS---------------------------------------LSNDGDSLKGSGTSGGNGGGGGGGTSGGN
+AT--------------------------------NASAGAGS------------------------------
+-------------------GSVRDELRRL-------------------------------CLVCGDVASGFH
+YGVASCEACKAFFKRTIQGNIEYTCPANNECEINKRRRKACQACRFQKCLLMGMLKEGVRLDRVRGGRQKYR
+RNPVSNSYQTMQLLYQSNTTSL-----------CDVKILEVLNSYEPDALSVQT----PPPQVHTTSITNDE
+ASSSSGSIKLESSVVTPNGTCIFQNNNNNDPNEILSVLSDIYDKELVSVIGWAKQIPGFIDLPLNDQMKLLQ
+VSWAEILTLQLTFRSLP--FNGKLCFATDVWMDEHLAKEC-GYTEFYYHCVQI---AQRMERISPRREEYYL
+LKALLLANCDILL------DDQSSLRAFRDTILNSLNDVVYLLRHSSAVSHQQ-----QLLLLLPSLRQADD
+ILRRFWRG--IARDEV---ITMKKLFLEMLE------------------------------PLAR---
+>UNIPROT|Q9IBD5/1-710 progesterone receptor
+--------------------------------------------MDNNHQDKMESLYTPARASPTPDAESIK
+RARNLIKTYSESFGSYVEEIVRDDSNNIQSLSSVPLLMRNFGNMDTLTCAPGSGSDSEIWKDFVVPGNSVVS
+KDTCGHVEISTKAENLSWAAAPLSREETLAKGTVTVPATVPKESFTAT-----SNTSSASGISIKDEQQSLL
+KMEPQSSDFCPYTANIPKLNPSYLTNTASTKQLGYG----EQP----------DTSAHSSPPAQKIVLDTAR
+YSAD----------------------------------LCSDNPLPQATNIKTDPCSSFSSFVGEGILTRAS
+MGYSQQAIQTLPVHKSEP---------------FRLSASSAPADSPFWCQS---------------------
+------------------TGPSEDHHLQIDYLSPAGLHSTCKYSSTNAYSSYLGVLPQRVCVICGDEASGCH
+YGVLTCGSCKVFFKRAVEGHHNYLCAGRNDCIVDKIRRKNCPACRLRKCYQAGMILGGRKLKKL-GALKAAG
+LTQALVAHSLTPRRLSGDSQAL-----------MPLGCLPGVRELHLSPQIISVLESIEPEVVYSG------
+----------------------YDNSQPDMPNMLLNSLNRLCERQLLRIVKWSKSLPGFRSLHINDQMALIQ
+YSWMSLMVFSLGWRSFQNVTSDYLYFAPDLILNEEYMRRS----PIFDLCMAMQFIPQEFANLQVTKEEFLC
+MKVLLLLN--TVPL-----EGLKSQPQFDEMRQNYIHELTKAIHLRENGVVACSQRFYHLTKLMDHMHDIVK
+KLHLYCLSTFIQADAMR--VEFPEMMSEVIASQL------------------PRVLAGMVKPLLFHTK
+>UNIPROT|Q7LCB3/1-530 estrogen receptor 2 isoform A
+------------------------------------------------------------------------
+------------------------------------------------------------------------
+--------------------------MDIKNSPSSLNSPSSYNCSQSI------LPLEHGSIYIPSSYVDSH
+HEYPAMTFYSPAVMNYSIPSNVTNLEGGPGRQT-------TSP----------NVLWPTPGHLSPLVVHRQL
+SHLY--------------------------------------------AEPQKSPWCEARSLEHTLPVNRET
+LK----------RKVSGN---------------RCASPVTGP------------------------------
+-------------------GSKRDAHF---------------------------------CAVCSDYASGYH
+YGVWSCEGCKAFFKRSIQGHNDYICPATNQCTIDKNRRKSCQACRLRKCYEVGMVKCGSRRERC-GYRLVRR
+QRSADEQLHCAGKAKRSGGH-------------APRVRELLLDALSPEQLVLTLLEA-EPPHVLIS------
+----------------------R-PSAPFTEASMMMSLTKLADKELVHMISWAKKIPGFVELSLFDQVRLLE
+SCWMEVLMMGLMWRSID--HPGKLIFAPDLVLDRDEGKCVEGILEIFDMLLAT---TSRFRELKLQHKEYLC
+VKAMILLNSSMYPLVTAT-QDADSSRKLAHLLNAVTDALVWVIAKSGISSQQQSMRLANLLMLLSHVRHASN
+KGMEHLLN--MKCKNV---VPVYDLLLEMLNAHVLRGCKSSITGSECSPAEDSKSKEGSQNPQSQ---
+>UNIPROT|Q9YGV9/1-848 androgen receptor alpha
+MEIPVGLGGVSDATNAVFRGPYQNVFHSLQVAFQSHGAVSRSLDFPNTKYGFLQNRHFCEMRQENKQPPCKG
+LGLFYGNHRNSDTGTNEDDIACFSRQSDAEARPGIFSESSLDTGDEITCKLQSDNQGVRASGPLLPGSSGCN
+SGQKSSLACTSQQRETTSQSDTCAGESCSEHQATTISETARELCNAVSVSLGLNLDLNDMNDLSSNQISSTE
+SDTSQAIYLFESSPGYTGVGLNALVRDCKCQSAREGTSTQQYDRGAMFKINRVNDLPLQPAPPRHTSISDAK
+WDMEAGLCAQMEHKDSEKCANMDGAHSTSVFSQFDQLLPVNASHYSQNVSVRVEPQSDFSPILYKSPGIQKN
+AEKYNVQYDATIKSEDGKTTSEREWGFQYRYNESCSTPSAPPRHCAHQNRAGPYNQFFFNPFEYAKRGVVSR
+EGYSLEHGFPNNLARTPYSGSLKNELGDRLSGPYPDVSYRYEGERENVFPVEFFFPPQRTCLICGDEASGCH
+YGALTCGSCKVFFKRAAEGKQKYLCASINDCTIDKLRRKNCPSCRLKRCFAAGMTL---------GARKLKK
+IGQMRAPEDGQGQGPAEAELSV-----------SPKYDL----GFHTQSMFLNILEAIEPEVVNAG------
+----------------------HDYGQPDSAASLLTSLNELGERQLVKVVKWAKGMPGFRSLYVDDQMTVIQ
+HSWMAVMVFALGWRSFKNVKSRMLYFAPDLVFNEHRMQVS----TMYEHCIRMKNFSQEFAMLQVSQEEFLC
+MKALLLFS--TIPV-----EGLKGQNFFDELRRSYINELDRLVSFRSKSS--CSERFQQLTRLLDSLQPVLK
+KLHQFTFDLFVQSQNLSNQVCFPEMISEIISVHV------------------PKILAGTVKPILFHK-
+>UNIPROT|Q91445/1-344 androgen receptor
+------------------------------------------------------------------------
+------------------------------------------------------------------------
+------------------------------------------------------------------------
+------------------------------------------------------------------------
+------------------------------------------------------------------------
+------------------------------------------------------------------------
+------------------------------------------------------------------EASGCH
+YGALTCGSCKVFFKRAAEGKQKYLCASRNDCTIDKFRRKNCPSCRLRKCYEAGMTL---------GARKLKK
+LGNLKAQDDIEGASSSSPTEEQ-----------APKLVMTRIDGYECQPIFLNVLEAIEPGVVCAG------
+----------------------HDNSQPDSFSNLLTSLNELGERQLVYVVKWAKALPGFRNLHVDDQMSIIQ
+YSWMGLMVFAMGWRSFTNVNSRMLYFAPDLVFNEYRMHKS----RMYSQCIRMRHLSQEFGWLQITPQGFLC
+MKALLFFS--IIPV-----DGLKNQKLFDELRMNYIKELDRIIACKRKNPTSCSRRFYQLTKVLDSVTPIAK
+DLHQFTFDLLIKAHMVS--VDYPEMMAEIISVQV------------------PKILS-----------
+>UNIPROT|Q9VSE9/1-484 estrogen-related receptor
+------------------------------------------------------------------------
+------------------------------------------------------------------------
+-----------------------------------------------------------MSDGVSILHIKQE
+VDTPSASCFSPSSKSTATQSGTNGLK--------------SSP----------SVSPERQLCSSTTSLSCDL
+HNVS---------------------------------------LSNDGDSLKGSGTSGGNGGGGGGGTSGGN
+AT--------------------------------NASAGAGS------------------------------
+-------------------GSVRDELRRL-------------------------------CLVCGDVASGFH
+YGVASCEACKAFFKRTIQGNIEYTCPANNECEINKRRRKACQACRFQKCLLMGMLKEGVRLDRVRGGRQKYR
+RNPVSNSYQTMQLLYQSNTTSL-----------CDVKILEVLNSYEPDALSVQT----PPPQVHTTSITNDE
+ASSSSGSIKLESSVVTPNGTCIFQNNNNNDPNEILSVLSDIYDKELVSVIGWAKQIPGFIDLPLNDQMKLLQ
+VSWAEILTLQLTFRSLP--FNGKLCFATDVWMDEHLAKEC-GYTEFYYHCVQI---AQRMERISPRREEYYL
+LKALLLANCDILL------DDQSSLRAFRDTILNSLNDVVYLLRHSSAVSHQQ-----QLLLLLPSLRQADD
+ILRRFWRG--IARDEV---ITMKKLFLEMLE------------------------------PLAR---
+>UNIPROT|Q90ZM8/1-554 estrogen receptor
+------------------------------------------------------------------------
+------------------------------------------------------------------------
+-------------------ARGFSEAHGYEYSGASLYQPLPPSCTEFS-----------IGAHQQQQHQHQH
+HQHQHQQHHHQQQQQQPQPQQNGVLGEGQSSHLSYLPPSTELP----------QYVPSSPSAPYSMELGAGR
+PHGYD---------------------------------PGPQSLYRGGVESSAPPYSEQQQVVGGGGAMSAM
+GL-------------TEP---------------RHVSSGSLP------------------------------
+-------------------SSTRPERSTQF------------------------------CAVCSDYASGYH
+YGVWSCEGCKAFFKRSTQGHNDYMCPATNQCTIDRNRRKSCQACRLRKCYEVGMVK-GVRKDRK-GFRGVKH
+KRKRPIPQKNGGEGGAGGGQDVSETRPQGERPSGPRDRESAVSSLEADQVISALLEA-EPPTVLSS------
+----------------------YDPDKPVTEASLMAALTSLADRELVHMITWAKKIPGFTAIGLSDQVQLLE
+CCWLEILIVGLIWRSID--RPGQLHFAPNLILGREDARNVEGMLDMFDMLLVT---VSRFRELHLRREEYVC
+LKAMILLNSGVFFCLSNSAGEQTNVQLIQQILEKVMDALGSTIGHIEASPPQHSRRLSQLLLLLSQIRHISN
+KGIEHLNS--MKRKNV---IPLYDLLLELLDAHSLQ-------NTGLRTSPPPQDFRATLVP------