1 - - - - -[G C C C - A - - C C C G G U]C - A C - A[G U - G A - G C G]G G C - A A C[A C - C c G G]A C SULFOLOBUS ACIDOCALDARIUS+ 1 - - - - -[G C C C - A - - C C C G G C]C - A C - A[G T - G A - G C G]G G C - A A C[A C - C C G G]A C SULFOLOBUS B12 1 - - - - - - -[C C - A - - C C C G G C]G - A U - A[G U - G<A>- G<C>G]G G C - A A C[A C - C C G G]A C SULFUROCOCCUS MIRABILIS 1 A C[G G T G C C C G A - - C C C G G C]C - A T - A[G T - G G - C C G]G G C - A A C[A C - C C G G]T C DESULFUROCOCCUS MOBILIS 1 - - -[U G G C C C G A - - C C C G G C]C - A U - A[G C - G G - C C G]G G C - A A C[A C - C C G G]A C PYRODICTIUM OCCULTUM 1 - - - - G[C C C C - U[A A]C C C G G C]A - A U - A[G G C G C - C G G]U G C - U A C[G C - C C G G]U C OCTOPUS SPRING SPECIES 1 1 - - - - -[G G - U[A]C - - G G C G G U]C - A U - A[G C - G G - C G G]G G U - C A C[A C - C C G G]U C THERMOCOCCUS CELER [XTR] 1 - - - - -[G G - U[A]C - - G G C G G U]C - A U - A[G C - G G - G G G]G G C - C A C[A C - C C G G]U C PYROCOCCUS WOESEI 1 - - - - -[G G - - -<C>- - A A C G G U]C - A U - A[G C - A G - C A G]G G A - A A C[A C - C<A>G A]U C THERMOPLASMA ACIDOPHILUM 1 - - - -[G G G - T[A]C - - G G C G A C]C - A T - A[G C - G G - G G G]G G C - C A C[A C - C T G A]A C METHANOTHERMUS FERVIDUS 1 - - - -[A S G - U - U - - G G C G G C]C - A U - A[G C - G G - A G G]G G C - C A U[A C - C U G G]U C METHANOBACT. FORMICICUM 1 - - - U[A G G - U[U]U - - G G C G G U]C - A U - A[G C - G A -<U>G G]G G U - U A C[A C - C U G G]U C METHANOBREVIBACTER RUMINANTIUM 1 - - - G G[G G - C[A]U - - G G C G G U]C - A U - G[G C - G C - A G G]G G U - U A U[A C - C U G A]U C MBACT. THERMOAUTOTROPHICUM A1 1 - - - - G[G G U U[U]U - - G G C G G U]C - A U - G[G C - G U - G G G]G G U U U A U[A C - C U G A]U C MBACT. THERMOAUTOTROPHICUM A2 1 - - - - - -[G - U - U - - G G C G G U]C - A U - G[G C - G U - G G G]G U U - U A U[A C - C U G A]U C MBACT. THERMOAUTOTROPHICUM B 1 - - - - - -[G - U - U - - G G C G G U]C - A U - G[G C - G U - G G G]G U U - A A U[A C - C U G A]U C METHANOBACT. THERMOFORMICICUM 1 - - - -[U G A - U[A]U - - A A C G G U]C - A U - A[G C - G G - A G G]A G C - C A C[A U - C C G A]U C MCOCCUS THERMOLITHOTROPHICUS 1 - - - -[T G A - C[A]T - - A A C G G T]C - A A - A[G C - G G - A G G]T G T - A A C[A T - C C G A]T C METHANOCOCCUS VANNIELII [LNK] 1 - - - -[T G A - C[A]T - - A A C G G T]C - A T - A[G C - G G - A G G]T G T - A A C[A T - C C G A]T C METHANOCOCCUS VOLTAE [LNK] 1 - - - -[T G A - T[A]C - - G G C G G T]C - A T - A[G C - G G - G G G]T G T - A A C[A T - C C G A]T C METHANOCOCCUS VANNIELII [XTR] 1 - - - -[T G A - T[A]C - - G G C G G T]C - A T - A[G C - G G - A G G]T G T - C C C[A T - C C G A]T C METHANOCOCCUS VOLTAE [XTR] 1 - - - - U[C A - A - U - - A G C G G C]C - A C - A[G<C>- A G - G U G]U G U - C A C[A C - C C G U]U C METHANOSPIRILLUM HUNGATII 1 - - - -[G G A G<U[U]U - - G G C G G C]C - A U - A[G C - G G - C G G]G G C - A A U[U C - C U G U]A C METHANOLOBUS TINDARIUS A 1 - - - - X[G - G - - U - - G G C G G C]C - A U - A[G C - G G - C G G]G G C - A A U[U C - C U G U]A C METHANOLOBUS TINDARIUS B 1 - - - - -[G A - U<C>U - - G G C A[G]C]C - A U - A[G C - G G - C A G]G U G - U A A[U C - C U G U]A C METHANOSARCINA VACUOLATA 1 - - - - G[G A G U<U>U - - G G C G - C]C - A U - A[G C - G G - C A G]U G U - A A C[U C - C U G U]A C METHANOSARCINA BARKERI 1 - - - - - - X X[U - U - - G G C G G U]C - A U - G[A C - G G - C A G]G G U - A A C[U C - C U G U]A C METHANOSARCINA ACETIVORANS 1 - - - - - - A[G C - U - - A G U G G C]C - A U - A[G U - G G - C A G]G G A - C C C[U C - C U G U]U C METHANOCOCCOIDES METHYLUTENS 1 - - - - - - X X[U - U - - G G C G G C]C - A U - G[G C - G G - C G G]G G U - A A C[U C - C U G U]A C 'METHANOCOCCUS' HALOPHILUS 1 - - - - - - X X[U - U - - A G C G G C]C - A U - G[G C - G G - C A G]G U U - A A C[U C - C U G U]A C METHANOHALOBIUM EVESTIGATUS 1 - - - - - - -[G A - A - - G G C G G C]C - A G - A[G C - G G - U A G]G G A - A A C[A C - C C G U]A C HALOBACT.DISTRIBUTUS BKM 4 1 - - - - - - -[G U - A - - G G C G G C]C - A A - A[G C - G G - C A G]G G A - A A G[A C - C C G U]A C HALOBACT.DISTRIBUTUS BKM13 [U] 1 - - - - - - - X U -[A - - G G C G G C]C - G U - A[G C - G G - C G G]G U G - U C C[U C - C C G U]A C HALOBACT.DISTRIBUTUS BKM13 [M] 1 - - - - - - U U A - A - -[G G C G G C]C - A G - A[G C - G G - U G A]G G U - U C C[A C - C C G U]A C HALOFERAX VOLCANII 1 - - - - - A A U A -[G - - G G C G G C]C - A G - A[G C - G G - U G A]G G U - U C C[A C - C C G U]A C HALOFERAX MEDITERRANEI 1 - - - - - - - X[U - - - - G G C G G C]U - A U - A[G C - G G - C G G]G G A - A A C[A C - C C G U]A C HALOCOCCUS TURKMENICUS 1 - - - - - - U U A -[A - - G G C G G C]C - A C - A[G C - G G - C G G]G G C - G A C[U C - C C G U]A C HALOCOCCUS MORRHUAE 1 - - - - - - T T A - - - -[G G C G G C]C - A C - A[G C - G G - T G G]G G T T G C C[T C - C C G T]A C HALOARCULA MARIS-MORTUI 1 - - - - - - U U A -[A - - G G C G G C]C - A U - A[G C - G G - U G G]G G U - U A C[U C - C C G U]A C HALOBACTERIUM SALINARIUM 1 - - - - - - -[U A - A - - G G C G G C]C - A U - A[G C - G G - C G G]G G U - U C C[U C - C C G U]A C NATRONOCOCCUS OCCULTUS 1 - - - - - - - -[A - A - - G G C G G C]C - A U - A[G C - G G - C G G]G G U - C C C[U C - C C G U]A C NATRONOBACT. PHARAONIS BKM 6 1 - - - - - - - -[A - A - - G G C G G C]C - A U - A[G C - G G - C G G]G G U - C C C[U C - C C G U]A C NATRONOBACT. PHARAONIS BKM 12
37 - - U C A U U U C G A A C[C C G G[A - A - - - -]G U]U A A G C[C G C U C - - A C]G -[U U A G U G G - SULFOLOBUS ACIDOCALDARIUS + 37 - - T C A T T T C G A A C[C C G G[A - A - - - -]G T]T A A G C[C G C T C - - A C]G -[T T G G T G G - SULFOLOBUS B12 35 - - U C A U C U C G A A C[C C G G[A - A - - - -]G U]A A A G U[C<C>C<C>U - - A C]G -[U U G G U A A - SULFUROCOCCUS MIRABILIS 43 - - T C G T T T C G A A C[C C G G[A - A - - - -]G T]T A A G C[C G G C C - - A C]G -[T C A G A A C - DESULFUROCOCCUS MOBILIS 40 - - U C A U G U C G A A C[C C G G[A - A - - - -]G U]U A A G C[C G G C C - - G C]G -[U U G G G G G[A PYRODICTIUM OCCULTUM 41 - - U C U U - C A G A A C[C C G G[A - A - - - -]G C]U A A G G[C C G G C[- G]C C]G -[C G G[A]C G G]G OCTOPUS SPRING SPECIES 1 37 - - U C G U U U C G A C C[C C G G[A - A - - - -]G U]U A A G C[C C G C C[- A]G C]G - A[U C C C G G]U THERMOCOCCUS CELER [XTR] 37 - - U C A U U U C G A A C[C C G G[A - A - - - -]G U]U A A G C[C C C C C[- A]G C]G - A[U C C C G G]C PYROCOCCUS WOESEI 35 - - C C A U U C C G A A C[U C[G A]C>- G - - - - G U]U A A G C[C U G C U - - G C]G -[U A U U G C G]U THERMOPLASMA ACIDOPHILUM 38 - - C C G T T C C G A T C[T C A G[A - A - - - -]G T]T A A G C[C C C C C[- T]G C]G -[T T G G A G G]T METHANOTHERMUS FERVIDUS 37 - - U C G U U U C G A U C[C C A G[A - A - - - -]G U]G A A G U[C C U C C[- U]G C]G - U U U[U G]U U G METHANOBACT. FORMICICUM 39 - - U C G U U U C G A U C[C C A G[A - A - - - -]G U]U A A G U[C U<U>U U[- C]G C]G - U U U[U G]U U U METHANOBREVIBACTER RUMINANTIUM 39 - - U C G U U U C G A U C[U C A G[U - A - - - -]G U]U A A G U[C C U G C[- U]G C]G - U U[G U G G G]U MBACT. THERMOAUTOTROPHICUM A1 40 - - U C G U U U C G A U C[U C A G[U - A - - - -]G U]U A A G U[C C U G C[- U]G C]G - U U[G U G G G]U MBACT. THERMOAUTOTROPHICUM A2 35 - - U C G U U U C G A U C[U C A G[U - A - - - -]G U]U A A G U[C C U G C[- U]G C]G - U U[G U G G G]U MBACT. THERMOAUTOTROPHICUM B 35 - - U C G U U U C G A U C[U C A G[U - A - - - -]G U]U A A G U[C C U G C[- U]G C]G - U U[G U G G G]U METHANOBACT. THERMOFORMICICUM 38 - - C C G U C C C G A U C[U C G G[A - A - - - -]A U]U A A G C[C C U C C[- A]G C]G - A[U A C C C U]A MCOCCUS THERMOLITHOTROPHICUS 38 - - C C A T C C C G A T C[T C G G[A - A - - - -]A T]T A A G C[C C T C C[- A]G C]G - A T T[C T T T]A METHANOCOCCUS VANNIELII [LNK] 38 - - C C A T T C C G A T C[T C G G[A - A - - - -]A T]T A A G C[C C T C C[- A]G C]G - A T T[T C T T]A METHANOCOCCUS VOLTAE [LNK] 38 - - C C A T C C C G A T C[T C G G[A - A - - - -]A T]T A A G C[C C T C C[- A]G C]G - A T T[C C T T]A METHANOCOCCUS VANNIELII [XTR] 38 - - C C A T T C C G A T C[T C G G[A - A - - - -]A T]T A A G C[C C T C C[- A]G C]G - A T T[T C T T]A METHANOCOCCUS VOLTAE [XTR] 37 - - C C A U U C C G A A C[A C G G[A - A - - - -]G U]U A A G A[C A C C U[- C]A>C]G - U[G G A U G A]C METHANOSPIRILLUM HUNGATII 39 - - C C A U C C C G A A C[A C A G[A - A - - - -]G A]U A A G C[C C G C C[- U]G C]G -[U U C U A U A]C METHANOLOBUS TINDARIUS A 36 - - C C A U C C C G A A C[A C A G[A - A - - - -]G A]U A A G C[C C G C C[- U]G C]G -[U U C U A U A]C METHANOLOBUS TINDARIUS B 37 - - C C A U C C C G A A C[A C A G[U - A - - - -]G A]U A A G C[C U G C C[- C]G C]G - U[U C C]U U G C METHANOSARCINA VACUOLATA 38 - - C C A U C C C G A A C[A C A G[U - A - - - -]G A]U A A G C[C U G C C[- C]G C]G - U[U C C]U U A C METHANOSARCINA BARKERI 36 - - C C A U U C C G A A C[A C A G[C - A - - - -]G A]U A A G C[C U G C C[- C]G U]G - U[U C C]U U A C METHANOSARCINA ACETIVORANS 36 - - A C C U U C C G A A C[A C A G[A - A - - - -]G A]U A A G C[C U G C C[- C]A C]G - U[U G C]U U A C METHANOCOCCOIDES METHYLUTENS 36 - - C C A U C C C G A A C[A C A G[C - A - - - -]G A]U A A A C[C C G C C[- C]G C]G - U[U C C G U A]C 'METHANOCOCCUS' HALOPHILUS 36 - - C C A U C C C G A A C[A C A G[A - A - - - -]G A]U A A G C[C U G C C[- A]G C]G - U U[G U A U A]C METHANOHALOBIUM EVESTIGATUS 35 - - C C A U U C C G A A C[A C G G[A - A - - - -]G U]U A A G C[C U A C C[- A]G C]G - U A[U C G U G]A HALOBACT.DISTRIBUTUS BKM 4 35 - - C C A U U C C G A A C[A C G G[A - A - - - -]G U]G A A G C[C U G C C[- A]G C]G - U[A C C A G C]U HALOBACT.DISTRIBUTUS BKM13 [U] 35 - - C C A U C C C G A A C[A C G G[A - A - - - -]G A]U A A G C[U C G C C[- U]G C]G - U C[C>C G G C]A HALOBACT.DISTRIBUTUS BKM13 [M] 36 - - C C A U C C C G A A C[A C G G[A - A - - - -]G U]U A A G C[U C A C C[- U]G C]G - U U[C U G G]U C HALOFERAX VOLCANII 37 - - C C A U C C C G A A C[A C G G[A - A - - - -]G U]U A A G C[U C G C C[- U]G C]G - U U[C U G G<U]C HALOFERAX MEDITERRANEI 34 - - U C A U C C C G A A C[A C G G[A - C - - - -]G U]U A A G C[C C G C C[- U]G C]G - U U[U C G G C]G HALOCOCCUS TURKMENICUS 36 - - C C A U C C C G A A C[A C G G[C - A - - - -]G A]U A A G C[C C G C C[- A]G C]G - U U[C C A G<C]G HALOCOCCUS MORRHUAE 36 - - C C A T C C C G A A C[A C G G[A - A - - - -]G A]T A A G C[C C A C C[- A]G C]G - T T[C C<A>G G]G HALOARCULA MARIS-MORTUI 36 - - C C A U C C C G A A C[A C G G[A - A - - - -]G A]U A A G C[C C G C C[- U]G C]G - U U[C C G G]U C HALOBACTERIUM SALINARIUM 35 - - C C A U C C C G A A C[A C G G[A - A - - - -]G A]U A A G C[C C G C C[- U]G C]G - U[A U U G G U]G NATRONOCOCCUS OCCULTUS 34 - - C C A U C C C G A A C[A C G G[A - A - - - -]G A]U A A G C[C C G C C[- U]G C]G - U[A U U G G U]G NATRONOBACT. PHARAONIS BKM 6 34 - - C C A U C C C G A A C[A C G G[A - A - - - -]G A]U A A G C[C C G C C[- U]G C]G - U[A U U G G U]G NATRONOBACT. PHARAONIS BKM 12
76 - G G C]- C[G U G G A U[A]C C]- G U G A -[G G A U C C G C]A -[G C C C C A - - - - C - - - U - A A!G SULFOLOBUS ACIDOCALDARIUS + 76 - G G C]- C[G T G G A T[A]C C]- G T G A -[G G A T C C G C]A -[G C C C C A - - - - C - - - T - A A!G SULFOLOBUS B12 74 - G G C]- A[G U G G G<A[U]C C]- G C A A -[G G<G>C C U G C]A -[G C C U U G - - - - C - - - C - A A!G SULFUROCOCCUS MIRABILIS 82 - G G C]- C[G T G A G G[T]C C]- G A G A -[G G C C T C G C]A -[G C C G T T - - - - C - - - T - G A!G DESULFUROCOCCUS MOBILIS 80 ]- U G C]- U[G U G G G G[U]C C]- G C G A -[G G C C C C G C]A -[G C G C C C - - - - C - - - C - A A!G PYRODICTIUM OCCULTUM 81 - A G U - A[C U G G G G[U]C C]- G C G A -[G G C C C C G G]G - A A A[C C G - - - - C - - - C - G]U[G OCTOPUS SPRING SPECIES 1 78 - U G U - A[C U G C C C[U]C C]- G G G A -[G G G G G C G G]G - A A G[C C G - G - - G - - - G]- A C[G THERMOCOCCUS CELER [XTR] 78 - U G U - A[C U G C C C[U]C C]- G A G A -[G G G G G C G G]G - A A -[C C G - G - - G - - - G]- A C[G PYROCOCCUS WOESEI 75 - U G U - A[C U G U A U[G]C C]- G C G A -[G G G U A C G G]G - A A G[C G C - A - - A - - - U - A]U[G THERMOPLASMA ACIDOPHILUM 79 - G G T - A[C T G C A A - C]- - G T T A - -[G T T G C G G]G - A A G[C C T - C - - C - - - A - A]C[G METHANOTHERMUS FERVIDUS 78 U U G U - A[C U G U G G - A C]- G A G A -[G U C U A U G G]G - A A G C U[C - A]- - U - - - A - A C[G METHANOBACT. FORMICICUM 80 G U G U - A[C U A U G G - G U]- U C C G -[G U C U A U G G]G - A A U U U[C - A]- - U - - - U - U A[G METHANOBREVIBACTER RUMINANTIUM 80 G U G U - A[C U G C G G - U]U - U U U - - U[G C U G U G G]G - A A G[C C C - A - - C]- - - U - U C[A MBACT. THERMOAUTOTROPHICUM A1 81 G U G U - A[C U G C G G - U]U - U U U - - U[G C U G U G G]G - A A G[C C C - A - - C]- - - U - U C[A MBACT. THERMOAUTOTROPHICUM A2 76 G U G U - A[C U G C G G - U]U - U U U - - U[G C U G U G G]G - A A G[C C C - A - - C]- - - U - U C[A MBACT. THERMOAUTOTROPHICUM B 76 G U G U - A[C U G C G G - U]U - U U U - - U[G C U G U G G]G - A A G[C C C - A - - C]- - - U - U C[A METHANOBACT. THERMOFORMICICUM 79 - A G U - A[C U G C C]- - - - - A U U U - - - -[G G U G G]G - A A C[A G G - G - - U - - - G]- A C[G MCOCCUS THERMOLITHOTROPHICUS 79 - A G T - A[C T G C T]- - - - - A T C T - - - -[A G T G G]G - A A C[A A A - G]- - T - - - G - A C[G METHANOCOCCUS VANNIELII [LNK] 79 - A G T - A[C T G C C]- - - - - A T A C - - - -[G G T G G]G - A A C[A A G - A]- - T - - - G - A C[G METHANOCOCCUS VOLTAE [LNK] 79 - A G T - A[C T G C T]- - - - - A T C T - - - -[A G T G G]G - A A C[A A G - G]- - T - - - G - A C[G METHANOCOCCUS VANNIELII [XTR] 79 - A G T - A[C T G C C]- - - - - A T A T - - - -[G G T G G]G - A A C[A A G - A]- - T - - - G - A C[G METHANOCOCCUS VOLTAE [XTR] 78 - G G U - A[C U G A G G[U]A C]- G C G A -[G U C C U C G G]G - A A A[U C A - U - - C - - - C]- U C[G METHANOSPIRILLUM HUNGATII 80 - U G U - A[C U A A A G[U]A U]- G A G A -[G U C U U U G G]G - A A A[U A U - G - - G - - - A - A]C[G METHANOLOBUS TINDARIUS A 77 - U G U - A[C U A A A G[U]A U]- G A G A -[G U C U U U G G]G - A A A[U A U - G - - G - - - A - A]C[G METHANOLOBUS TINDARIUS B 78 C U G U - A[C U G A A G[U G]U]- G C G A -[G - C U U C G G]G - A A C U C U -[G - - G - - - A]- U C[G METHANOSARCINA VACUOLATA 79 - U G U - A[C U G A A G[U]G U]- G C G A -[G C C U U C G G]G - A A C U C U -[G - - G - - - A]- U C[G METHANOSARCINA BARKERI 77 - U G U - A[C U G A A G[U]G U]- G C G A -[G C C U U C G G]G - A A C U C U -[G - - G - - - A]- U C[G METHANOSARCINA ACETIVORANS 77 - U G U - A[C U G A G G[U]A C]- - A G A -[G U C C U C G G]G - A A A U C U -[G - - C - - - G]- U C[G METHANOCOCCOIDES METHYLUTENS 77 - G G U - A[C U A A A G[U]G C]- G C G A -[G C C U U U G G]G - A A C[U G C - G - - G - - - A]- U A[G 'METHANOCOCCUS' HALOPHILUS 77 - G G U - A[C U A A A G[U]G C]- G A G A -[G C C U U U G G]G - A A C[U A U - A - - C]- - - U - C C[G METHANOHALOBIUM EVESTIGATUS 76 - A G U - A[C U G G A G[U]G A]- G C G A -[U C C U C U G G]G - A A C[C A C - G - - A]- - - G - U C[G HALOBACT.DISTRIBUTUS BKM 4 76 - A G U - A[C U G G A G[U]G G]- G A G A -[C C C U C U G G]G - A G C[G C U - G - - G - - - U]- U C[G HALOBACT.DISTRIBUTUS BKM13 [U] 76 - A G U - A[C U G G A G[U]G G]- G C G A -[C C C U C U G G]G - A A C[G U C - G - -<A]- - - U - U C[G HALOBACT.DISTRIBUTUS BKM13 [M] 77 - A G U - A[C U G G A G[U]G A]- G C G A -[U C C U C U G G]G - A A A U[C C - A - - G]- - - U - U C[G HALOFERAX VOLCANII 78 - A G U - A[C U G G A G[U]G A]- G C G A -[U C C U C U G G]G - A A A[U>C C - A - - G]- - - U - U C[G HALOFERAX MEDITERRANEI 75 - A G U - A[C U G G A G[U]G C]- G C G A -[G C C U C U G G]G - A G A[G C U - G - - A]- - - U - U C[G HALOCOCCUS TURKMENICUS 77 - A G U - A[C U G G A G[U]G U]- G C G A -[A C C U C U G G]G - A A A[A>C U ^ G - - G]- - - U - U C[G HALOCOCCUS MORRHUAE 77 - A G T - A[C T G G A G[T]G C]- G C G A -[G C C T C T G G]G - A A A[T C<C>- G - - G]- - - T - T C[G HALOARCULA MARIS-MORTUI 77 - A G U - A[C U G G A G[U]G C]- G C G A -[G C C U C U G G]G - A A A U[C C - G - - G]- - - U - U C[G HALOBACTERIUM SALINARIUM 76 - A G U - A[C U G G A G[U]G G]- G A G A -[C C C U C U G G]G - A G A[G C U - G - - A - - - U]- U C[G NATRONOCOCCUS OCCULTUS 75 - A G U - A[C U G G A G[U]G G]- G A G A -[C C C U C U G G]G - A G A[G C U - G - - A - - - U]- U C[G NATRONOBACT. PHARAONIS BKM 6 75 - A G U - A[C U G G A G[U]G G]- G A G A -[C C C U C U G G]G - A G A[G C C - G - - A - - - U]- U C[G NATRONOBACT. PHARAONIS BKM 12
113 C U G G G[A]U - G G G u]u u u - SULFOLOBUS ACIDOCALDARIUS + (SULFOLOBALES, SULFOLOBACEAE) 113 C T G G G[A]T - G G G C]T T T - SULFOLOBUS B12 (SULFOLOBALES, SULFOLOBACEAE) 111 C U G G G[A]U - G G]A C A U U - SULFUROCOCCUS MIRABILIS (SULFOLOBALES, SULFOLOBACEAE) 119 C T G G G[A]T C G G G C A C C]- DESULFUROCOCCUS MOBILIS (TH.PROTEALES, DESULFUROCOCC.) 117 C C G G G[A]U C G G G C C G]- - PYRODICTIUM OCCULTUM (SULFOLOBALES, PYRODICTIACEAE) 118 C U G G G - A - G G G G]G C U U OCTOPUS SPRING SPECIES 1 (TH.PROTEALES, TH.PROTEACEAE ?) 116 C C G C C - G - G - C C]A C u - THERMOCOCCUS CELER [XTR] (THERMOCOCCALES) 115 C C G C C - G - G - C C]A - - - PYROCOCCUS WOESEI (THERMOCOCCALES) 113 C U G U U -<A>- - - C C]A C u - THERMOPLASMA ACIDOPHILUM (THERMOPLASMATALES) 114 T C G C C - G - G - C C C]A - - METHANOTHERMUS FERVIDUS (METHBACTERIALES, -THERMACEAE) 116 C U G C C - G - G - C C U]C - - METHANOBACT. FORMICICUM (METHBACTERIALES, -BACTERIACEAE) 118 C U G C C - A - G - C U U]U U U METHANOBREVIBACTER RUMINANTIUM (METHBACTERIALES, -BACTERIACEAE) 117 C U G C C - A - G - C C]A C u - MBACT. THERMOAUTOTROPHICUM A1 (METHBACTERIALES, -BACTERIACEAE) 118 C U G C C - A - G A C C]A C c c MBACT. THERMOAUTOTROPHICUM A2 (METHBACTERIALES, -BACTERIACEAE) 113 C U G C C - A - G[A]C]A A - - - MBACT. THERMOAUTOTROPHICUM B (METHBACTERIALES, -BACTERIACEAE) 113 C U G C C - A - G - - C]A C C C METHANOBACT. THERMOFORMICICUM (METHBACTERIALES, -BACTERIACEAE) 110 C U G U U - G - A - U C A]C - - MCOCCUS THERMOLITHOTROPHICUS (METHANOCOCCALES) 110 C C G T T - A - G - T C A]C - - METHANOCOCCUS VANNIELII [LNK] (METHANOCOCCALES) 110 C T G T T - A - G - T C A]C - - METHANOCOCCUS VOLTAE [LNK] (METHANOCOCCALES) 110 C T G C C - G - A - T C A]C - - METHANOCOCCUS VANNIELII [XTR] (METHANOCOCCALES) 110 C T G C C - G - A - T C A]C - - METHANOCOCCUS VOLTAE [XTR] (METHANOCOCCALES) 116 C U G C U - A - U U G]U U - - - METHANOSPIRILLUM HUNGATII (METHMICROBIALES, -MICROBIACEAE) 118 C U G C C - A -<U>C U C C]- - - METHANOLOBUS TINDARIUS A (METHMICROBIALES, -SARCINACEAE) 115 C U G C C - A - - C - C]A A C - METHANOLOBUS TINDARIUS B (METHMICROBIALES, -SARCINACEAE) 116 - U G C C - A<U>A - U C]A G U - METHANOSARCINA VACUOLATA (METHMICROBIALES, -SARCINACEAE) 117 C U G C C - A<U>A C U C]A C C - METHANOSARCINA BARKERI (METHMICROBIALES, -SARCINACEAE) 115 C U G C C - A - A]C U U C - - - METHANOSARCINA ACETIVORANS (METHMICROBIALES, -SARCINACEAE) 114 C U G C U - A - G C]G G X - - - METHANOCOCCOIDES METHYLUTENS (METHMICROBIALES, -SARCINACEAE) 115 C U G C C - A - G]C U C C - - - 'METHANOCOCCUS' HALOPHILUS (METHMICROBIALES, -SARCINACEAE) 115 C U G C U - - - G A]U C A A U - METHANOHALOBIUM EVESTIGATUS (METHMICROBIALES, -SARCINACEAE) 114 C C G C C - U - U C]C C - - - - HALOBACT.DISTRIBUTUS BKM 4 (HALOBACTERIALES) 114 C C G C C - U - A C]U C - - - - HALOBACT.DISTRIBUTUS BKM13 [U] (HALOBACTERIALES) 114 C C G C C - U]- X - - - - - - - HALOBACT.DISTRIBUTUS BKM13 [M] (HALOBACTERIALES) 115 C C G C C]- - - C C U - - - - - HALOFERAX VOLCANII (HALOBACTERIALES) 116 C C G C C - C]- C U - - - - - - HALOFERAX MEDITERRANEI (HALOBACTERIALES) 113 C C G U C - - - A]C U - - - - - HALOCOCCUS TURKMENICUS (HALOBACTERIALES) 115 C C G C C - U]- C C C - - - - - HALOCOCCUS MORRHUAE (HALOBACTERIALES) 115 C C G C C]- - - A C C - - - - - HALOARCULA MARIS-MORTUI (HALOBACTERIALES) 115 C C G C C - U]- A C U - - - - - HALOBACTERIUM SALINARIUM (HALOBACTERIALES) 114 C U G C U - U - U A]- - - - - - NATRONOCOCCUS OCCULTUS (HALOBACTERIALES) 113 C C G C C - U - U]- - - - - - - NATRONOBACT. PHARAONIS BKM 6 (HALOBACTERIALES) 113 C C G C C - U - U]- - - - - - - NATRONOBACT. PHARAONIS BKM 12 (HALOBACTERIALES)
Alignment gaps are indicated by hyphen: -. Sequence heterogeneity deduced from the autoradiogram without sequencing distinct bands separately is indicated as recommended by the IUB-IUPAC joint comission in biochemical nomenclature (Cornish-Bowden, 1985): R=AG, Y=CU, K=GU, M=AC, S=GC, W=AU, B=notA, D=notC, H=notG, V=notU; incomplete sequence analysis by X. DNA sequences are indicated by T instead of U, pseudouridine by F, length heterogeneity by lower case letters. The numeration is according to the E. coli sequence (2).
Helix boundaries of the secondary structure and bulge boundaries within helices are indicated by square brackets: [], helix end and start of a new helix at the same position by acclamation mark: !. Odd base-pairs are parenthesized by less/greater symbols: <>.