[K] (RpoA) COG0202 DNA-directed RNA polymerase, alpha subunit/40 kD subunit 9 genomes BUD0338 9 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 VNG1136 rrnAC0062 HVO_2781 Hbo2517 Hmu1269 Hut0178 hla1420 NP2834A HQ2941A

Pairwise sequence scores
Consensus score	1902	Hut0178	VNG1136	rrnAC0062	Hmu1269	NP2834A	hla1420	HQ2941A	HVO_2781	Hbo2517
1397	Hut0178	1853	1268	1297	1332	1258	1192	1241	1184	1249
1510	VNG1136	1268	1867	1332	1340	1402	1327	1278	1293	1343
1639	rrnAC0062	1297	1332	1917	1584	1321	1399	1398	1403	1438
1627	Hmu1269	1332	1340	1584	1920	1402	1381	1371	1400	1447
1488	NP2834A	1258	1402	1321	1402	1825	1302	1301	1356	1387
1560	hla1420	1192	1327	1399	1381	1302	1860	1362	1380	1433
1550	HQ2941A	1241	1278	1398	1371	1301	1362	1948	1428	1541
1530	HVO_2781	1184	1293	1403	1400	1356	1380	1428	1925	1595
1624	Hbo2517	1249	1343	1438	1447	1387	1433	1541	1595	1931

263 symbols
consensus       -MTQDFDVEFIER--DDREARFLVRGITPAFANGIRRAMIADVPTFSIDTVRFVENSSVM
#oth            135411212111.1131.3..212.131..2...2...121.1..1.1121.11..1...
Hut0178         :-MAEY::T::::::GE:::::::::V:::::::V::::::::::::::N::VI::::::
VNG1136         MSS:::::::VD::::::::::V::N::::::::::::ILV::::L::::::::::::::
rrnAC0062       :::::YE:::V::::GE::::I:::::::::::::::::V::::::::::::VI::T:::
Hmu1269         :::::YE:::V::::S:::::::::::S:::::::::::::::::::V::::VI::::::
NP2834A         ::SEEYE:T::D::::E:S:::::::V:::::::L::::::::::L::::L:V:::::::
hla1420         MTED::::QYV:::::::S::V:I::L:::::::::::::::::::::::::::::::::
HQ2941A         :::D:::I:::::DT:::S:::::::V:::V::::::::V::I:::::ED::::::::::
HVO_2781        ::VN::Q::::::::E::R:::VA::L:::L::::::::V::::::::::::::::T:::
Hbo2517         ::AE::E:::::::::::K:::::::M:::V:::::::::::::::::::::::::::::

consensus       FDEQIGLRLGLVPLTTPLDDFEIGDEVTLALDVEGPATAYSGDLVSSDPLVEPADDNIPI
#oth            .1.111.....1..1.1221124.12..111214..5....1.1122.43.42.1211..
Hut0178         :::::::::::::::::VGE:::::::::::::Q::D::::::::GN:EM::::EPDV::
VNG1136         ::::L::::::::::::-E:YAA:EA::::::::::G:::::::::N::E::A::E::::
rrnAC0062       :N::::::::::::::D::::::::::::S:S:D::S::::S:::::::M::A:::::::
Hmu1269         ::::::::::::::::D:::::V::::::SI::S::E:::::::::::S::G::::::::
NP2834A         ::::LA:::::::::::-::Y:P:ET::::I:::::::::::::::::DK:Q:::E::::
hla1420         :::M:::::::I::K:::::::V::::::::::::::::::::IE:A:::::V:::::::
HQ2941A         :::M:::::::::::::V:::D:::T:::S::IT::Q::::::I::::R::::::E::::
HVO_2781        :::M::::::::::::::::::P::T::V::E:D:::::::::IE:A:DM:V:::E::::
Hbo2517         :::M::::::::::::::::::Q::T:::::::::::::::::IET::E::K::E::V::

consensus       IELKDGQRLELEADAVLDTGKEHAKHQGGVAVGYRHLQRVEVVGDAGEFEDDEPNILRGV
#oth            .1..2211..2....1114.12...2....1.1....111213.144.121212411...
Hut0178         :::::D::::::::::::K:R:::::::::::S::::::::PQ:ERE::A::DAE:V:::
VNG1136         :::::D::::::::::MGH:RD::::::::::::::::::H::::SP:YA::D:QM::::
rrnAC0062       :D::E:::::V:::::::::R:::::::::::::::::Q::::::L::::::D:::::::
Hmu1269         :D::::::::V:::::::R:R::::::::::::::::::::::::K:::::::TH:::::
NP2834A         :::::D:Q:::::::T:GR::D::::::::::::::::::::::EK::::::::E:::::
hla1420         ::::E:::::F:::::::::::::::::::S:::::::::S:E::L:::D::::R:::::
HQ2941A         ::::ENH::::::::::::::S:::Q:::::::::::::I::I:::D::A:ED:H:::::
HVO_2781        ::::E:::::F::::::GH::D:::N:::::::::::::::::::::::DEQ::::::::
Hbo2517         ::::Q::::::::::::GD::S:::::::::::::::H::::::::N:::EQ::::::::

consensus       IEE-AAEHA----AEDGELVPTDEFDNDLTNRYPGKEVEVEDVPNAFVFHVETDGSFSVE
#oth            ..1311212422223111123.42.12..24.1.11212121.32.1..21.1...2312
Hut0178         ::-:-----::::-D:::::::ED::H:::::::DTQ::I:::TD::::::::::::D:D
VNG1136         ::-:-----::::-::D::::::D::::::T::::::::I:::DG:::::::S:::MP::
rrnAC0062       :::Q:::::AGD::TN::::A::::::::R::::::D:::S::::::::::::::::TT:
Hmu1269         :::Q::::VDGD::D::D::L:E:::S:::K::::::L::H::E::::::::::::L:::
NP2834A         ::-:-----::::-:::D:IE:G::::::SQ::::::::::E:::::::D::::::MP::
hla1420         ::-:-----::::TP:::IEL::::::::SE:F:::::S:::::G:::::I:::::::::
HQ2941A         :::G::T::VDET:TN:D:I::T::::::::::::::LT:S:::::V::::::::::::P
HVO_2781        :::A:::::EGD:::::D::A:ET:G::::E:::::::::H:::G::::S:::::::D:D
Hbo2517         :::Q:::::ADES:::::::::S:::::::K:::::::::H:::G::::::::::::T:P

consensus       ELVLRAVDSLRDRADELEEAVAL
#oth            1.2421241154..3..432112
Hut0178         T::KAG:GT::G::E::T:TIQ:
VNG1136         ::::::::T:V:::::::Q::Q:
rrnAC0062       :::::::ET:::::T::KD::Q:
Hmu1269         ::T::::::I:S:::::RD::Q:
NP2834A         ::::K:AE:IAA:::::::::::
hla1420         ::L:::I::IEE:::::QTK::V
HQ2941A         :::E::AR::G:::A:::TK::I
HVO_2781        :::T:::A::G:::A::::K:::
Hbo2517         :::R:::E:IS:::A::::K::I