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9 genomes BUD0039 13 proteins
a Hsa
Halobacterium
sp. NRC-1		 b Hma
Haloarcula
marismortui		 f Hvo
Haloferax
volcanii		 g Hbo
Halogeometricum
borinquense		 h Hmu
Halomicrobium
mukohataei		 i Hut
Halorhabdus
utahensis		 j Hla
Halorubrum
lacusprofundi		 q Nph
Natronomonas
pharaonis		 x Hwa
Haloquadratum
walsbyi

VNG1807

rrnAC1319

rrnAC3355

HVO_2347

Hbo2030

Hmu2229

Hut0751

hla1145

hla1307

NP0228A

NP4514A

NP4966A

HQ3318A

Pairwise sequence scores
Consensus score1070 hla1145 rrnAC1319 NP4966A NP0228A Hut0751 VNG1807 HQ3318A HVO_2347 Hbo2030 hla1307 NP4514A rrnAC3355 Hmu2229
298hla1145 1149 274 273 224 272 253 240 278 252 220 300 279 264
471rrnAC1319 274 2049 934 295 321 368 349 366 424 340 394 399 393
397NP4966A 273 934 1878 193 292 347 327 293 360 342 402 359 361
458NP0228A 224 295 193 1064 363 385 378 416 418 399 412 432 400
734Hut0751 272 321 292 363 1081 619 600 601 591 617 660 750 696
807VNG1807 253 368 347 385 619 1083 664 659 717 658 711 746 736
776HQ3318A 240 349 327 378 600 664 1253 682 787 720 718 726 667
805HVO_2347 278 366 293 416 601 659 682 1022 775 734 716 687 685
849Hbo2030 252 424 360 418 591 717 787 775 1085 810 735 740 707
823hla1307 220 340 342 399 617 658 720 734 810 1214 777 729 720
845NP4514A 300 394 402 412 660 711 718 716 735 777 1060 783 755
905rrnAC3355 279 399 359 432 750 746 726 687 740 729 783 1095 891
874Hmu2229 264 393 361 400 696 736 667 685 707 720 755 891 1066 

286 symbols
consensus       ------------------------------------------------------------
#oth            112211112221222212111121112122111121112212111111111111111111
hla1145         ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
rrnAC1319       MTDEIDLDELDVQDDEETP::NRGDWFWSDEGDPVDEPDTGATGTESVRPDSDAEAGSPA
NP4966A         MTERIDLDDMAVEEKAEDPDGNYGDWLWRGEGDPDDEPSPGWT:::::::::::::::::
NP0228A         ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
Hut0751         ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
VNG1807         ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
HQ3318A         ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
HVO_2347        ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
Hbo2030         ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
hla1307         ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP4514A         ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
rrnAC3355       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
Hmu2229         ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::

consensus       -------------------------------------------------MAGGGSG----
#oth            111111112212122212122222233223232344344434344433446724451111
hla1145         :::::::::::::::::::::::::::::::::::::::::MGIDIDDPDP:DRT:::::
rrnAC1319       AAINTSPDAATDAERNSGETASADPGGQAVPHVPRENKDKPVGIPTDSGG:::AAATDTD
NP4966A         :::::::DGDTEATSESEESTGGGPDRQAAPGVPSTGGGGPVGVPEDRGG::::TS::::
NP0228A         :::::::::::::::::::::::::::::::::::::::::::::::::-MTDDAE::::
Hut0751         ::::::::::::::::::::::::::::::::::::::::::::::::::DADAD:::::
VNG1807         ::::::::::::::::::::::::::::::::::::::::::::::::MSQS:::T::::
HQ3318A         ::::::::::::::::::::::::MTNSIYSIHSKKKSKTAHSRVRTDGG:P::DA::::
HVO_2347        :::::::::::::::::::::::::::::::::::::::::::::::::-------::::
Hbo2030         ::::::::::::::::::::::::::::::::::::::::::::::::::D::::T::::
hla1307         :::::::::::::::::::::::::::::::::MAQKRSCFRPPREHRS:DS:::T::::
NP4514A         ::::::::::::::::::::::::::::::::::::::::::::::::::N::::S::::
rrnAC3355       :::::::::::::::::::::::::::::::::::::::::::::::::-MD::::::::
Hmu2229         :::::::::::::::::::::::::::::::::::::::::::::::::-MV::::::::

consensus       ---------------------------DMTLAFELDALKQLADPNAVFNDARQWTEYVGV
#oth            12122222122122222222212221132.113325.144145.571133115.2422.1
hla1145         ::::::::::::::::::::::::::::V::V:S:G:ARR:S::E:AIAN::K:SRH::I
rrnAC1319       PASNVAEDPAAGEASVEASGPHGGGID:::M:VTY::AR:F:::QL::RE::G:ADW::I
NP4966A         :GSAAENTPGGGIEQAGTAETHDVDID:::M:LTYK:AHHFTE:QR::AE::E:ADW:::
NP0228A         :::::::::::::::::::::::::::RI::::::A::ER::::AG:IR:TMG::SHL:I
Hut0751         :::::::::::::::::::::::::::E:::::DI:::QH::H:DT::S:::::SK:::I
VNG1807         :::::::::::::::::::::::::::::::::::S::::::K:GTA:AG::::::::::
HQ3318A         :::::::::::::::::::::::::::::::::::E::RA:::::S::::::::::::::
HVO_2347        :::::::::::::::::::::::::::-:::::::S:::::G::::A:S:::T::K:I::
Hbo2030         :::::::::::::::::::::::::::::::::::E:::A:::::V::::::::::::::
hla1307         :::::::::::::::::::::::::::::::::::K:::A:::::D:::N::::::::::
NP4514A         :::::::::::::::::::::::::::::::::::E:::E:E::E:::S:::S:S:::::
rrnAC3355       :::::::::::::::::::::::::::::::::D::::::::Y:DS::::::::S:::::
Hmu2229         ::::::::::::::::::::::::::::::::I::A:::E::Q:D:::::::::A:::::

consensus       VSEKPTYVVTNFTRKHRIRQDFFSGP-RGREESLENVKEQ--FDTDRHVFVGTDDEDEAL
#oth            1224324213214.261234.1231324334321541572222413.3131254454253
hla1145         :ANDAD-A:ER:V:ETGVEN:YTLRN:WDKWGT:GDIH:E::SGAP:A::::ASTANRRV
rrnAC1319       :GDVEAF:INK:Q:D:G:DA:::::AGQEPA:R:ADIDKHSM:YAE:M:L::RP:-::PI
NP4966A         :G:VS:PAIRK:Q:EAGVEL:::G:SES:PD:R:ADIDAESM:YAE:M:V::V:G-::WI
NP0228A         I:DE::HL:RKRA:DYGFNP::LP::::S:H:::PK::G:PEH:A::YIL:AAH:DI:DA
Hut0751         :::E::::::::A:::::::::::::::::A::F:TI:D::::E:P:Y:Y::::EVAAEA
VNG1807         ::DE:::::::::::R:::::::::::KS:AD::QS:::::::::E::::::I::::RE:
HQ3318A         :::::::::::::::::V:::::::::::V:A::::::Q::::E:A:::L:SN:QT:ADV
HVO_2347        :::::::::::::::E:::::::::::::V:::::::MR:::::::::::I::S:::R:V
Hbo2030         ::D::::::::::::::V:::::::::::V::::N:::R:::::::::::I::T::HRE:
hla1307         :::::::::::::::::V:::::::::::V::::::IAQ:::::::::::::V:E:::::
NP4514A         I::::::::::::::N:::::::::::::::::::::ES::::Q:E::::::::ED::::
rrnAC3355       I::Q::::::::::::::::::::::::::::::::::::::::::::::::A::::AD:
Hmu2229         I:::::::::::C:::::::::::::::::::::G::::::::::E:::::::S::::::

consensus       AERTGWEYLPVEDAAEAADWELAEEEEPD-APDE-----E-RDDWP
#oth            .35421.133236..23.2.51333585445643711114723322
hla1145         :THV:F::::IDE:::K:G:A:S:P:RSSESGVISRLWRAL:ARLD
rrnAC1319       :::::::FI:LA::::K:::D::D:----:----:::::-:-----
NP4966A         :DAAD::FV:L:H:::K:::::K::FLD-:----:::::-:-----
NP0228A         :::H::::R::AE:::T:G:V::T:TDD::----::::::EHTG::
Hut0751         :RSN:::::D::::::::E:::G:P:V:S::E:TA:::::T:::::
VNG1807         :::VD::::TL:A:::N::::I::AD:::PM:::P:::::::::::
HQ3318A         ::SVD::F::LDN::S::G:::::AT:T::D:F:S::::NE:::::
HVO_2347        ::E:::::::::::::::E:V::GDDDAPAD:F:A:::::G:::::
Hbo2030         ::::E::F::LDQ:::::::D::G:T:DE:D:F:T::::SS:::::
hla1307         ::A::::F:H:::::D::G:I::TDKPDEEEAP:K::::SS:::::
NP4514A         ::SVD:::::ITE:::::G:T:::D:-:E:SEP:P:::::R:::::
rrnAC3355       ::TA:::::::TQ:::::::D:G:P:T::T:T::D:::::Q:::::
Hmu2229         ::TA:::::T::G:::::::::GDP:A::::V::E:::::Q:::::