Alignment Name Major Phylogenetic Group Organism AccNum
Tet.t.ref ===== Tetrahymena thermophila (Reference) J01235, V01416
mask ===== (Mask Sequence) =====
IC1 ===== Group I, C1 Subgroup =====
C1-S-40 ===== C1 @ SSU rRNA position 40 =====
Pse.p.1.1 Chlorophyta Pseudodidymocystis planctonica AB037087
C1-S-156 ===== C1 @ SSU rRNA position 156 =====
Am.sp.1.1 Chlorophyta Amphikrikos sp. Hegewald 1995-26 AF228690
Chl.t.1.1 Chlorophyta Chlorella trebouxioides AB006048
C1-S-170 ===== C1 @ SSU rRNA position 170 =====
Sel.c.1.2 Chlorophyta Selenastrum capricornutum AF169628
C1-S-323 ===== C1 @ SSU rRNA position 323 =====
Chl.so.1.1 Chlorophyta Chlorella sorokiniana X73993
Sce.p.1.1 Chlorophyta Scenedesmus pupukensis X91267
Neo.d.1.1 Chlorophyta Neodesmus danubialis AB037086
C1-S-516 ===== C1 @ SSU rRNA position 516 =====
Aca.g.1.1 Acanthamoebidae Acanthamoeba griffini U02540, U07412
Aca.g.2.1 Acanthamoebidae Acanthamoeba griffini S81337
Aur.l.1.1 stramenopiles Aureoumbra lagunensis U40258
Ban.f.1.1 Rhodophyta Bangia fuscopurpurea AF342745
Ban.a.1.1 Rhodophyta Bangia atropurpurea D88387
Por.sp.5.1 Rhodophyta Porphyra sp. AF136418, AF136419
Por.li.1.1 Rhodophyta Porphyra lilliputiana AF136424
Por.sp.4.1 Rhodophyta Porphyra sp. GRB108 AF136420
Por.sp.6.1 Rhodophyta Porphyra sp. AF136425
Por.te.1.1 Rhodophyta Porphyra tenera D86237
Por.te.2.1 Rhodophyta Porphyra tenera D86236
Por.te.3.1 Rhodophyta Porphyra tenera strain T8 AB000964
Por.te.4.1 Rhodophyta Porphyra tenera AB013176
Por.te.5.1 Rhodophyta Porphyra tenera AB013175
Por.te.6.1 Rhodophyta Porphyra tenera AB029879
Por.te.7.1 Rhodophyta Porphyra tenera AB029880
Por.te11.1 Rhodophyta Porphyra tenera AB029881
Por.te10.1 Rhodophyta Porphyra tenera AB029884
Por.te.9.1 Rhodophyta Porphyra tenera AB029883
Por.y.1.1 Rhodophyta Porphyra yezoensis D79976
Por.y.2.1 Rhodophyta Porphyra yezoensis AB013177
Por.y.3.1 Rhodophyta Porphyra yezoensis AB013178
Por.su.1.1 Rhodophyta Porphyra suborbiculata AB013180
Por.su.2.1 Rhodophyta Porphyra suborbiculata AB015796
Por.c.1.1 Rhodophyta Porphyra carolinensis AF133792
Por.sp.2.1 Rhodophyta Porphyra sp. AB013182
Por.l.2.1 Rhodophyta Porphyra leucosticta (Baltic) AF342746
Por.ps.1.1 Rhodophyta Porphyra pseudolinearis AB013185
Por.d.1.1 Rhodophyta Porphyra dentata AB013183
Por.h.1.1 Rhodophyta Porphyra haitanensis AB015795
Por.o.1.1 Rhodophyta Porphyra onoi AB015794
Por.k.2.1 Rhodophyta Porphyra katadae AB013184
Por.tu.1.1 Rhodophyta Porphyra tenuipedalis AB015797
Nae.sp.3.1 Heterolobosea Naegleria sp. X79069
Nae.sp.4.1 Heterolobosea Naegleria sp. X79070
Nae.sp.5.1 Heterolobosea Naegleria sp. X79071
C1-S-651-VR ===== C1 @ SSU rRNA position (651 Variable Region) =====
Amp.sp.1.3 Chlorophyta Amphikrikos sp. Hegewald 1995-26 AF228690
C1-S-788 ===== C1 @ SSU rRNA position 788 =====
My.ca.1.1S Fungi/Ascomycota Myriosclerotinia caricis-ampullacea AJ226069
My.cu.1.1S Fungi/Ascomycota Myriosclerotinia curreyana AJ226070
My.cu.2.1S Fungi/Ascomycota Myriosclerotinia curreyana AJ226071
Myr.d.1.1 Fungi/Ascomycota Myriosclerotinia dennisii AJ226072
Myr.s.1.1 Fungi/Ascomycota Myriosclerotinia scirpicola AJ226073
Myr.s.2.1 Fungi/Ascomycota Myriosclerotinia scirpicola AJ226074
Myr.s.3.1 Fungi/Ascomycota Myriosclerotinia scirpicola AJ226075
Myr.s.4.1 Fungi/Ascomycota Myriosclerotinia scirpicola AJ226076
C1-S-943 ===== C1 @ SSU rRNA position 943 =====
Dun.b.1.1 Chlorophyta Dunaliella bardawil AF150905
Dun.p.1.1 Chlorophyta Dunaliella parva M62998
Sco.t.1.1 Chlorophyta Scotiellopsis terrestris AB012847
Coe.m.2.2 Chlorophyta Coelastrella multistriata var. corcontica AB037082
Pse.p.1.3 Chlorophyta Pseudodidymocystis planctonica AB037087
Sce.w.1.1 Chlorophyta Scenedesmus wisconsinensis AB037097
Sch.a.1.1 Chlorophyta Schroederiella apiculata AB037098
Dun.s.1.1 Chlorophyta Dunaliella salina M84320
Glo.p.1.1 Chlorophyta Gloeotilopsis planctonica Z28970
Ple.p.1.1 Chlorophyta Pleurastrum paucicellulare Z47997
Pro.s.1.1 Chlorophyta Protoderma sarcinoidea UTEX 1710 Z47998
Aca.l.2.1 Acanthamoebidae Acanthamoeba lenticulata strain E18-2 U94735
Aca.l.3.1 Acanthamoebidae Acanthamoeba lenticulata strain PD2S U94741
Aca.l.4.1 Acanthamoebidae Acanthamoeba lenticulata strain 53-2 U94737
Aca.l.9.1 Acanthamoebidae Acanthamoeba lenticulata strain 118 U94736
Aca.l.5.1 Acanthamoebidae Acanthamoeba lenticulata strain NJSP-3-2 U94738
Aca.l.6.1 Acanthamoebidae Acanthamoeba lenticulata U02539
Sel.c.1.3 Chlorophyta Selenastrum capricornutum AF169628
Sce.p.1.2 Chlorophyta Scenedesmus pupukensis X91267
Ooc.h.1.1 Chlorophyta Oocystis heteromucosa AF228689
Sce.pr.1.1 Chlorophyta Scenedesmus producto-capitatus X91266
Sch.s.1.1 Chlorophyta Schroederia setigera AF277650
Pla.b.E.2 Plasmodiophorida Plasmodiophora brassicae U18981
Cep.s.1.1 Fungi/Ascomycota Cephalotheca sulfurea AF096173
Con.r.1.1 Fungi/Ascomycota Connersia rilstonii AF096174
Spo.r.1.1 Fungi/Basidiomycota Sporobolomyces ruber AB021686
Spo.s.1.1 Fungi/Basidiomycota Sporobolomyces sasicola AB021688
Nig.g.1.1 Fungi/Ascomycota Nigrosabulum globosum AF096180
Isa.j.1.1 Fungi/Ascomycota Isaria japonica AB016607
Xyl.p.1.1 Fungi/Ascomycota Xylaria polymorpha AB014043
Myc.i.1.2 Fungi/Ascomycota Mycoarachis inversa AB013736
Myc.i.2.2 Fungi/Ascomycota Mycoarachis inversa AB012953
Bio.o.2.1 Fungi/Ascomycota Bionectria ochroleuca AB013739
Bio.o.1.1 Fungi/Ascomycota Bionectria ochroleuca AB012952
Bio.a.1.1 Fungi/Ascomycota Bionectria aureofulva AB013010
Ros.n.1.1 Fungi/Ascomycota Rosellinia necatrix AB014044
Cla.p.1.1 Fungi/Basidiomycota Clavicorona pyxidata U59066
Len.m.1.1 Fungi/Basidiomycota Lentinellus montanus U59076
Len.m.2.1 Fungi/Basidiomycota Lentinellus montanus U59077
Len.o.1.1 Fungi/Basidiomycota Lentinellus omphalodes U59078
Pan.s.1.1 Fungi/Basidiomycota Panellus stipticus U59090
Pro.p.1.1 Fungi/Ascomycota Protomyces pachydermus D85142
Pro.m.1.1 Fungi/Ascomycota Protomyces macrosporus D85143
Pro.i.1.1 Fungi/Ascomycota Protomyces inouyei D11377
Pro.l.1.1 Fungi/Ascomycota Protomyces lactucae D14164
Ben.y.1.1 Fungi/Basidiomycota Bensingtonia yamatoana D38239
Ben.y.2.1 Fungi/Basidiomycota Bensingtonia yamatoana AF101826
Ben.c.1.1 Fungi/Basidiomycota Bensingtonia ciliata D38233
Mon.f.1.1 Fungi/Ascomycota Monilinia fructicola AF010505
Mon.f.2.1 Fungi/Ascomycota Monilinia fructicola Y14211
Mon.c.1.1 Fungi/Ascomycota Monodictys castaneae Y11715
Exo.c.1.1 Fungi/Ascomycota Exophiala calicioides AB007685
Exo.c.2.1 Fungi/Ascomycota Exophiala calicioides AB007686
Pyx.a.1.1 Fungi/Ascomycota Pyxidiophora arvernensis U43339
Bar.o.1.3 Fungi/Ascomycota Barrmaelia oxyacanthae AF064048
Cor.pa.1.2 Fungi/Ascomycota Cordyceps paradoxa AB027323
Cor.sp.1.2 Fungi/Ascomycota Cordyceps sp. 97003 AB027329
Cor.ch.1.2 Fungi/Ascomycota Cordyceps cochlidiicola AB027331
Cor.sp.2.1 Fungi/Ascomycota Cordyceps sp. 97009 AB027332
Cor.m.1.1 Fungi/Ascomycota Cordyceps militaris AB027333
Pae.t.1.1 Fungi/Ascomycota Paecilomyces tenuipes AB027334
Cor.b.1.1 Fungi/Ascomycota Cordyceps brongniartii AB027335
Cor.cc.1.2 Fungi/Ascomycota Cordyceps coccidiicola AB031195
Geo.p.1.1 Fungi/Ascomycota Geomyces pannorum var. pannorum AB015785
Geo.a.1.1 Fungi/Ascomycota Geosmithia argillacea AB012951
Geo.a.2.1 Fungi/Ascomycota Geosmithia argillacea AB013734
Fus.sp.1.1 Fungi/Ascomycota Fusarium solani f. sp. phaseoli AF150481
Fus.sp.2.1 Fungi/Ascomycota Fusarium solani f. sp. phaseoli AF150482
Fus.f.1.1 Fungi/Ascomycota Fusarium solani f. piperis AF150487
Pae.v.1.1 Fungi/Ascomycota Paecilomyces variotii Z69593
Pen.c.1.1 Fungi/Ascomycota Penicilliopsis clavariiformis AB003945
Ste.c.1.1 Fungi/Ascomycota Stephanoascus ciferrii AB019362
Dac.cy.1.1 Fungi/Ascomycota Dactylella cylindrospora AF106538
Ust.m.1.1 Fungi/Basidiomycota Ustilago maydis X62396
Aje.c.5.1 Fungi/Ascomycota Ajellomyces capsulatus Z75305
Exo.d.2.2 Fungi/Ascomycota Exophiala dermatitidis Z75304
Pul.p.1.2 Fungi/Ascomycota Pullularia prototropha X91900
Exo.d.1.2 Fungi/Ascomycota Exophiala dermatitidis X78481
Gra.b.1.1 Fungi/Ascomycota Graphium basitruncatum AB038421
Gra.p.1.1 Fungi/Ascomycota Graphium penicillioides AB007681
Gra.e.1.1 Fungi/Ascomycota Graphium eumorphum AB007684
Gra.pu.1.1 Fungi/Ascomycota Graphium putredinis AB007683
Mon.a.1.1 Fungi/Ascomycota Monacrosporium arcuatum AF106527
C1-S-1046 ===== C1 @ SSU rRNA position 1046 =====
Ank.s.1.1 Chlorophyta Ankistrodesmus stipitatus X56100
Chl.so.1.2 Chlorophyta Chlorella sorokiniana X73993
Cho.sp.1.1 Chlorophyta Choricystis sp. X81965
Cho.m.1.1 Chlorophyta Choricystis minor X89012
Ple.p.1.2 Chlorophyta Pleurastrum paucicellulare SAG 463-1 Z47997
Neo.d.1.2 Chlorophyta Neodesmus danubialis AB037086
C1-S-1052 ===== C1 @ SSU rRNA position 1052 =====
Chl.l.2.2 Chlorophyta Chlorella luteoviridis (B) X73998
C1-S-1062 ===== C1 @ SSU rRNA position 1062 =====
Mac.h.1.1 Heterolobosea Macropharyngomonas halophila AF011465
C1-S-1139-VR ===== C1 @ SSU rRNA position (1139 Variable Region) =====
Amp.sp.1.4 Chlorophyta Amphikrikos sp. Hegewald 1995-26 AF228690
Sel.c.1.5 Chlorophyta Selenastrum capricornutum AF169628
C1-S-1199 ===== C1 @ SSU rRNA position 1199 =====
Mac.h.1.2 Heterolobosea Macropharyngomonas halophila AF011465
C1-S-1506 ===== C1 @ SSU rRNA position 1506 =====
Chl.e.1.1S Chlorophyta Chlorella ellipsoidea X63520
Chl.e.2.1 Chlorophyta Chlorella ellipsoidea D13324
Chl.m.1.1 Chlorophyta Chlorella mirabilis X74000
Cos.b.1.1 Streptophyta Cosmarium botrytis X77453
Cos.s.1.1 Streptophyta Cosmocladium saxonicum X79497
Gen.s.1.1 Streptophyta Genicularia spirotaenia X74753
Gon.a.1.1 Streptophyta Gonatozygon aculeatum X91346
Mes.c.1.1 Streptophyta Mesotaenium caldariorum X75763
Mou.s.1.1 Streptophyta Mougeotia scalaris X70705
Sph.g.1.1 Streptophyta Sphaerozosma granulatum X79496
Sta.sp.1.1 Streptophyta Staurastrum sp. M752 X74752
Sta.sp.2.1 Streptophyta Staurastrum sp. M753 X77452
Sta.p.1.1 Streptophyta Staurastrum punctulatum AF115442
Pen.m.1.1 Streptophyta Penium margaritaceum AF115440
Cyl.b.1.1 Streptophyta Cylindrocystis brebissonii AF115439
Clo.l.1.1 Streptophyta Closterium littorale AF115438
Clo.e.1.1 Streptophyta Closterium ehrenbergii AF115437
Zyg.c.1.1 Streptophyta Zygnemopsis circumcarinata X79495
Pla.b.1.3 Plasmodiophorida Plasmodiophora brassicae U18981
Ban.f.1.2 Rhodophyta Bangia fuscopurpurea AF342745
Por.s.1.1 Rhodophyta Porphyra spiralis var. amplifolia L26175
Por.s.2.1 Rhodophyta Porphyra spiralis var. amplifolia L26176
Por.s.3.1 Rhodophyta Porphyra spiralis var. amplifolia L26177
Ban.a.1.2 Rhodophyta Bangia atropurpurea D88387
Ban.a.2.1 Rhodophyta Bangia atropurpurea L36066
Por.h.2.1 Rhodophyta Porphyra haitanensis AB013181
Por.y.3.2 Rhodophyta Porphyra yezoensis AB013178
Por.y.4.1 Rhodophyta Porphyra yezoensis AB017081
Por.y.5.1 Rhodophyta Porphyra yezoensis OG-1 AB017078
Por.y.6.1 Rhodophyta Porphyra yezoensis narawaensis cv. F6-1 AB017083
Por.y.7.1 Rhodophyta Porphyra yezoensis NA-2 AB017075
Por.y.8.1 Rhodophyta Porphyra yezoensis NA-4 AB017076
Por.ps.1.2 Rhodophyta Porphyra pseudolinearis AB013185
Por.k.1.2 Rhodophyta Porphyra katadae AB013184
Por.te.4.2 Rhodophyta Porphyra tenera AB013176
Por.te.5.2 Rhodophyta Porphyra tenera AB013175
Por.te.6.2 Rhodophyta Porphyra tenera AB029879
Por.te.7.2 Rhodophyta Porphyra tenera AB029880
Por.te.8.2 Rhodophyta Porphyra tenera AB029882
Por.te.9.2 Rhodophyta Porphyra tenera AB029883
Por.te10.2 Rhodophyta Porphyra tenera AB029884
Por.te11.2 Rhodophyta Porphyra tenera AB029881
Por.sp.3.1 Rhodophyta Porphyra sp. AB017077
Por.d.1.2 Rhodophyta Porphyra dentata AB013183
Por.sp.2.2 Rhodophyta Porphyra sp. AB013182
Por.sp.5.2 Rhodophyta Porphyra sp. AF136419
Por.sp.6.2 Rhodophyta Porphyra sp. AF136425
Por.li.1.2 Rhodophyta Porphyra lilliputiana AF136424
Por.sp.7.1 Rhodophyta Porphyra sp. AF136422
Por.sp.4.2 Rhodophyta Porphyra sp. GRB108 AF136420
Por.sp.8.1 Rhodophyta Porphyra sp. AF136421
Hil.r.8.1 Rhodophyta Hildenbrandia rubra L19345
Hil.r.9.1 Rhodophyta Hildenbrandia rubra AF076995
Phi.g.1.1 Fungi/Ascomycota Phialophora gregata f. sp. adzukicola AF056487
Pro.p.1.2 Fungi/Ascomycota Protomyces pachydermus D85142
Pro.m.1.2 Fungi/Ascomycota Protomyces macrosporus D85143
Pne.c.1.1S Fungi/Ascomycota Pneumocystis carinii X13687, X12708
Ben.y.1.2 Fungi/Basidiomycota Bensingtonia yamatoana D38239
Ben.y.2.2 Fungi/Basidiomycota Bensingtonia yamatoana AF101826
Til.f.1.3 Fungi/Basidiomycota Tilletiopsis flava D82819
Ben.c.1.2 Fungi/Basidiomycota Bensingtonia ciliata D38233
Dac.cy.1.2 Fungi/Ascomycota Dactylella cylindrospora AF106538
Pro.i.1.2 Fungi/Ascomycota Protomyces inouyei D11377
Ven.i.1.1 Fungi/Ascomycota Venturia inaequalis U63628
Ven.i.2.1 Fungi/Ascomycota Venturia inaequalis U63627
Ven.i.3.1 Fungi/Ascomycota Venturia inaequalis U63626
Ven.i.4.1 Fungi/Ascomycota Venturia inaequalis U63625
Ven.i.5.1 Fungi/Ascomycota Venturia inaequalis U63624
Ven.i.6.1 Fungi/Ascomycota Venturia inaequalis AF065831
Pez.c.2.1 Fungi/Ascomycota Pezicula cinnamomea AF141185
Pez.c.1.1 Fungi/Ascomycota Pezicula cinnamomea AF141184
Mon.l.1.1 Fungi/Ascomycota Monacrosporium leptosporum AF106529
Cen.g.1.1 Fungi/Ascomycota Cenococcum geophilum Z48521
Cen.g.2.1 Fungi/Ascomycota Cenococcum geophilum Z48526
Cen.g.3.1 Fungi/Ascomycota Cenococcum geophilum Z48527
Cen.g.4.1 Fungi/Ascomycota Cenococcum geophilum Z11998
Cen.g.5.1 Fungi/Ascomycota Cenococcum geophilum Z48529
Cen.g.6.1 Fungi/Ascomycota Cenococcum geophilum Z48533
Cen.g.7.1 Fungi/Ascomycota Cenococcum geophilum Z48534
Cen.g.8.1 Fungi/Ascomycota Cenococcum geophilum Z48536
Cen.g.9.1 Fungi/Ascomycota Cenococcum geophilum Z48537
Cen.g.10.1 Fungi/Ascomycota Cenococcum geophilum Z48525
Art.cl.1.1 Fungi/Ascomycota Arthrobotrys cladodes U51945
Art.s.1.1 Fungi/Ascomycota Arthrobotrys superba U51949
Art.br.1.1 Fungi/Ascomycota Arthrobotrys brochopaga U51950
Art.p.1.1 Fungi/Ascomycota Arthrobotrys polycephala U51951
Art.cl.2.1 Fungi/Ascomycota Arthrobotrys cladodes U51952
Art.cy.1.1 Fungi/Ascomycota Arthrobotrys cylindrospora U51953
Art.bo.1.1 Fungi/Ascomycota Arthrobotrys botryospora U51955
Dac.g.1.1 Fungi/Ascomycota Dactylella gampsospora U51960
Dac.a.1.1 Fungi/Ascomycota Dactylella asthenopaga U51962
Ste.c.1.2 Fungi/Ascomycota Stephanoascus ciferrii AB019362
Dac.co.1.1 Fungi/Ascomycota Dactylella copepodii U51964
Dac.h.1.1 Fungi/Ascomycota Dactylella huisuniana U51965
Gen.c.1.1 Fungi/Ascomycota Geniculifera cystosporia U51966
Ana.f.1.1 Fungi/Ascomycota anamorphic fungus JCM 8069 AB038422
Dac.p.1.1 Fungi/Ascomycota Dactylella polybrocha U51973
Mon.b.1.1 Fungi/Ascomycota Monacrosporium bembicodes U51976
Art.c.1.1 Fungi/Ascomycota Arthrobotrys conoides AF106534
Hym.e.1.1S Fungi/Ascomycota Hymenoscyphus ericae U06868
C1-S-1511 ===== C1 @ SSU rRNA position 1511 =====
Pen.p.1.1 Fungi/Ascomycota Penicillium pulvillorum AF178517
Pen.p.2.1 Fungi/Ascomycota Penicillium pulvillorum AF178526
Pen.p.3.1 Fungi/Ascomycota Penicillium pulvillorum AF178527
Pen.o.1.1 Fungi/Ascomycota Penicillium ochrochloron AF178516
C1-S-1512 ===== C1 @ SSU rRNA position 1512 =====
Geo.a.1.2 Fungi/Ascomycota Geosmithia argillacea AB012951
Geo.a.2.2 Fungi/Ascomycota Geosmithia argillacea AB013733
Cha.s.1.1 Chlorophyta Characium saccatum M84319
Sel.c.1.6 Chlorophyta Selenastrum capricornutum AF169628
Dun.b.1.2 Chlorophyta Dunaliella bardawil AF150905
Dun.p.1.2 Chlorophyta Dunaliella parva M62998
Ple.p.1.3 Chlorophyta Pleaurastrum paucicellulare Z47997
Pro.s.1.2 Chlorophyta Protoderma sarcinoidea Z47998
Cho.m.1.2 Chlorophyta Choricystis minor X89012
Tre.a.5.1 Chlorophyta Trebouxia arboricola AJ249481
Tre.a.1.2 Chlorophyta Trebouxia arboricola Z68705
Tre.a.2.1 Chlorophyta Trebouxia arboricola Z68704
Tre.h.1.1 Chlorophyta Trebouxia higginsiae AJ249574
Tre.u.3.1 Chlorophyta Trebouxia usneae AJ249573
Tre.sp.1.1 Chlorophyta Trebouxia sp. 98.003B2 AJ249572
Tre.j.3.1 Chlorophyta Trebouxia jamesii AJ249571
Tre.i.1.1 Chlorophyta Trebouxia impressa AJ249570
Tre.g.3.1 Chlorophyta Trebouxia gelatinosa AJ249569
Tre.g.2.1 Chlorophyta Trebouxia gelatinosa AJ249568
Tre.ga.1.1 Chlorophyta Trebouxia galapagensis AJ249567
Tre.c.1.1 Chlorophyta Trebouxia corticola AJ249566
Tre.a.4.1 Chlorophyta Trebouxia arboricola AJ249564
Tre.a.3.1 Chlorophyta Trebouxia arboricola AJ249482
Tre.g.1.1 Chlorophyta Trebouxia gelatinosa Z68698
Tre.j.1.1 Chlorophyta Trebouxia jamesii Z68699
Tre.j.2.1 Chlorophyta Trebouxia jamesii Z68700
Tre.u.1.2 Chlorophyta Trebouxia usneae Z68702
C1-S-TBD ===== C1 @ SSU rRNA position TBD =====
Raf.t.1.1 Fungi/Ascomycota Raffaelea tritirachium U81484
Aje.c.1.1 Fungi/Ascomycota Ajellomyces capsulatus Z67752
Aje.c.2.1 Fungi/Ascomycota Ajellomyces capsulatus U57101
Aje.c.3.1 Fungi/Ascomycota Ajellomyces capsulatus U57102
Aje.c.4.1 Fungi/Ascomycota Ajellomyces capsulatus U57103
Grp.p.1.1 Fungi/Basidomycota Graphiola phoenicis AB000961
Grp.p.1.3 Fungi/Basidomycota Graphiola phoenicis AB000963
C1-L-798 ===== C1 @ LSU rRNA position 798 =====
Chl.e.1.1L Chlorophyta Chlorella ellipsoidea S67606
Hym.e.1.1L Fungi/Ascomycota Hymenoscyphus ericae U06869
Dum.u.1.1 Fungi/Ascomycota Dumontinia ulmariae AJ226079
Enc.f.1.1 Fungi/Ascomycota Encoelia fascicularis AJ226080
Gro.p.1.1 Fungi/Ascomycota Grovesinia pyramidalis AJ226081
My.cu.1.1L Fungi/Ascomycota Myriosclerotinia curreyana AJ226085
My.cu.2.1L Fungi/Ascomycota Myriosclerotinia curreyana AJ226086
My.ci.1.1L Fungi/Ascomycota Myriosclerotinia ciborium AJ226083
My.ci.2.1L Fungi/Ascomycota Myriosclerotinia ciborium AJ226084
Myr.l.1.1 Fungi/Ascomycota Myriosclerotinia luzulae AJ226087
My.ca.1.1L Fungi/Ascomycota Myriosclerotinia caricisampullacae AJ226082
Bot.t.1.1 Fungi/Ascomycota Botrytis tulipae AJ226078
Bot.p.2.1 Fungi/Ascomycota Botrytis porri AJ226077
Scl.s.2.1 Fungi/Ascomycota Sclerotinia sclerotiorum AJ226088
Scl.s.1.1 Fungi/Ascomycota Sclerotinia sclerotiorum AJ226089
Scl.t.2.1 Fungi/Ascomycota Sclerotinia tetraspora AJ226092
Scl.t.1.1 Fungi/Ascomycota Sclerotinia tetraspora AJ226091
Scl.t.3.1 Fungi/Ascomycota Sclerotinia tetraspora AJ226090
C1-L-1921 ===== C1 @ LSU rRNA position 1921 =====
Gae.g.1.1 Fungi/Ascomycota Gaeumannomyces graminis var. avenae U17161
Pne.c.1.1L Fungi/Ascomycota Pneumocystis carinii L13614
Pne.c.4.1 Fungi/Ascomycota Pneumocystis carinii AF236872
Pne.c.2.1 Fungi/Ascomycota Pneumocystis carinii L13615
Pne.c.3.1 Fungi/Ascomycota Pneumocystis carinii M86760
C1-L-1925 ===== C1 @ LSU rRNA position 1925 =====
Tet.c.1.1 Ciliophora Tetrahymena cosmopolitanis X03107
Tet.t.1.1 Ciliophora Tetrahymena thermophila J01235, V01416
Tet.h.1.1 Ciliophora Tetrahymena hyperangularis X03106
Tet.p.1.1 Ciliophora Tetrahymena pigmentosa J01210
Tet.ma.1.1 Ciliophora Tetrahymena malaccensis X03105
Tet.so.1.1 Ciliophora Tetrahymena sonneborni X03108
Phy.p.1.1 Mycetozoa Physarum polycephalum M38131, L03183
C1-L-1949 ===== C1 @ LSU rRNA position 1949 =====
Nae.sp.2.1 Heterolobosea Naegleria sp. AJ001314
C1-L-2449 ===== C1 @ LSU rRNA position 2449 =====
Did.i.1.2 Mycetozoa Didymium iridis X60210
Gae.g.1.2 Fungi/Ascomycota Gaeumannomyces graminis var. avenae U17161
Gae.g.2.1 Fungi/Ascomycota Gaeumannomyces graminis var. tritici U17160
Arx.a.1.1 Fungi/Ascomycota Arxula adeninivorans Z50840
C1-L-2563 ===== C1 @ LSU rRNA position 2563 =====
Nae.sp.2.2 Heterolobosea Naegleria sp. AJ001315
IE ===== Group I, E Subgroup =====
E-S-516 ===== E @ SSU rRNA position 516 =====
Chl.l.1.1 Chlorophyta Chlorella luteoviridis (A) X73997
Chl.l.2.1 Chlorophyta Chlorella luteoviridis X73998
Chl.sa.1.1 Chlorophyta Chlorella saccharophila X73991
Kle.n.1.1 Streptophyta Klebsormidium nitens AJ250112
Kle.f.1.1 Streptophyta Klebsormidium flaccidum X75520
Mur.a.1.1 Chlorophyta Muriella aurantica X91268
Myc.a.1.1 Fungi/Ascomycota Mycocalicium albonigrum L37736
Roc.c.1.4 Fungi/Ascomycota Roccella canariensis AF110342
Roc.c.2.4 Fungi/Ascomycota Roccella canariensis AF110343
Roc.c.3.3 Fungi/Ascomycota Roccella canariensis AF110344
Roc.c.4.3 Fungi/Ascomycota Roccella canariensis AF110345
Roc.t.4.3 Fungi/Ascomycota Roccella tuberculata AF110350
Roc.t.5.4 Fungi/Ascomycota Roccella tuberculata AF110351
Til.f.1.1 Fungi/Basidiomycota Tilletiopsis flava D82819
Bul.h.1.1 Fungi/Ascomycota Bulbithecium hyalosporum AF096172
Myc.i.1.1 Fungi/Ascomycota Mycoarachis inversa AB013735
Bar.o.1.1 Fungi/Ascomycota Barrmaelia oxyacanthae AF064048
Cor.ca.1.1 Fungi/Ascomycota Cordyceps capitata AB027318
Cor.j.1.1 Fungi/Ascomycota Cordyceps japonica AB027320
Cor.pa.1.1 Fungi/Ascomycota Cordyceps paradoxa AB027323
Cor.pr.1.1 Fungi/Ascomycota Cordyceps prolifica AB027324
Cor.i.1.1 Fungi/Ascomycota Cordyceps inegoensis AB027322
Cor.k.1.1 Fungi/Ascomycota Cordyceps kanzashiana AB027325
Cor.r.1.1 Fungi/Ascomycota Cordyceps ramosopulvinata AB027326
Cor.h.1.1 Fungi/Ascomycota Cordyceps heteropoda AB027327
Cor.s.1.1 Fungi/Ascomycota Cordyceps sobolifera AB027328
Cor.ch.1.1 Fungi/Ascomycota Cordyceps cochlidiicola AB027331
Cor.sp.1.1 Fungi/Ascomycota Cordyceps sp. 97003 AB027329
Cor.cc.1.1 Fungi/Ascomycota Cordyceps coccidiicola AB031195
Sak.d.1.1 Fungi/Basidiomycota Sakaguchia dacryoides D13459
Myc.i.2.1 Fungi/Ascomycota Mycoarachis inversa AB012953
Mur.a.2.1 Chlorophyta Muriella aurantica AB005748
Pla.b.1.1 Plasmodiophorida Plasmodiophora brassicae U18981
Tre.u.1.1 Chlorophyta Trebouxia usneae Z68702
Amp.sp.1.2 Chlorophyta Amphikrikos sp. Hegewald 1995-26 AF228690
Tre.a.1.1 Chlorophyta Trebouxia arboricola (SAG 219-1a) Z68705
Tri.p.1.1 Fungi/Ascomycota Trichocoma paradoxa AB003944
Tri.p.2.1 Fungi/Ascomycota Trichocoma paradoxa AB003943
Coe.m.2.1 Chlorophyta Coelastrella multistriata var. corcontica AB037082
Pse.p.1.2 Chlorophyta Pseudodidymocystis planctonica AB037087
E-S-568 ===== E @ SSU rRNA position 568 =====
Sco.o.1.1 Chlorophyta Scotiellopsis oocystiformis AB012848
Gra.p.1.2 Fungi/Basidiomycota Graphiola phoenicis AB000962
Gra.p.2.1 Fungi/Basidiomycota Graphiola phoenicis D63930
E-S-989 ===== E @ SSU rRNA position 989 =====
Exo.n.1.1 Fungi/Ascomycota Exophiala nigra X80707
Exo.n.2.1 Fungi/Ascomycota Exophiala nigra X91897
Cry.h.1.1 Fungi/Ascomycota Cryptendoxyla hypophloia AF015912
Cor.ca.1.2 Fungi/Ascomycota Cordyceps capitata AB027318
Cor.i.1.2 Fungi/Ascomycota Cordyceps inegoensis AB027322
Cor.pr.1.2 Fungi/Ascomycota Cordyceps prolifica AB027324
Cor.k.1.2 Fungi/Ascomycota Cordyceps kanzashiana AB027325
Cor.r.1.2 Fungi/Ascomycota Cordyceps ramosopulvinata AB027326
Cor.s.1.2 Fungi/Ascomycota Cordyceps sobolifera AB027328
Cor.sp.1.3 Fungi/Ascomycota Cordyceps sp. 97003 AB027329
Cor.ch.1.3 Fungi/Ascomycota Cordyceps cochlidiicola AB027331
Cor.cc.1.3 Fungi/Ascomycota Cordyceps coccidiicola AB031195
Ros.n.1.2 Fungi/Ascomycota Rosellinia necatrix AB014044
Xyl.p.1.2 Fungi/Ascomycota Xylaria polymorpha AB014043
E-S-1199 ===== E @ SSU rRNA position 1199 =====
Arx.t.1.1 Fungi/Ascomycota Arxula terrestris AB000663
Ben.s.1.1 Fungi/Basidiomycota Bensingtonia sakaguchii strain OK255 AB001746
Ben.s.2.1 Fungi/Basidiomycota Bensingtonia sakaguchii strain OK259 AB001747
Xyl.p.1.3 Fungi/Ascomycota Xylaria polymorpha AB014043
Den.a.1.1 Fungi/Ascomycota Dendryphiopsis atra AF053731
Cry.p.1.1 Fungi/Ascomycota Cryphonectria parasitica L42441
Cry.r.1.1 Fungi/Ascomycota Cryphonectria radicalis L42442
Gra.b.1.2 Fungi/Ascomycota Graphium basitruncatum AB038421
Grm.p.2.1 Fungi/Ascomycota Graphium penicillioides AB007682
Cor.j.1.2 Fungi/Ascomycota Cordyceps japonica AB027320
Cor.i.1.3 Fungi/Ascomycota Cordyceps inegoensis AB027322
Cor.pa.1.3 Fungi/Ascomycota Cordyceps paradoxa AB027323
Cor.s.1.3 Fungi/Ascomycota Cordyceps sobolifera AB027328
Cor.pr.1.3 Fungi/Ascomycota Cordyceps prolifica AB027324
Cor.k.1.3 Fungi/Ascomycota Cordyceps kanzashiana AB027325
Cor.r.1.3 Fungi/Ascomycota Cordyceps ramosopulvinata AB027326
Cor.ch.1.4 Fungi/Ascomycota Cordyceps cochlidiicola AB027331
Och.p.1.2 Fungi/Ascomycota Ochrolechia parella AF274109
Cor.cc.1.4 Fungi/Ascomycota Cordyceps coccidiicola AB031195
Cor.sp.2.2 Fungi/Ascomycota Cordyceps sp. 97009 AB027332
Cor.m.1.2 Fungi/Ascomycota Cordyceps militaris AB027333
Cor.b.1.2 Fungi/Ascomycota Cordyceps brongniartii AB027335
Bio.o.1.2 Fungi/Ascomycota Bionectria ochroleuca AB012952
Bio.a.1.2 Fungi/Ascomycota Bionectria aureofulva AB013010
Nec.g.1.1 Fungi/Ascomycota Nectria galligena Y16422
Cla.a.1.1 Fungi/Ascomycota Claviceps africana AF281176
Cla.s.1.1 Fungi/Ascomycota Claviceps sorghicola AF281177
Fus.r.1.1 Fungi/Ascomycota Fusarium solani f. robiniae AF150489
Fus.r.2.1 Fungi/Ascomycota Fusarium solani f. robiniae AF150490
Fus.sp.1.2 Fungi/Ascomycota Fusarium solani f. sp. phaseoli AF150481
Fus.sp.3.1 Fungi/Ascomycota Fusarium solani f. sp. phaseoli AF150483
Fus.b.1.1 Fungi/Ascomycota Fusarium solani f. sp. batatas AF150484
Fus.x.1.1 Fungi/Ascomycota Fusarium solani f. xanthoxyli AF150491
Fus.x.2.1 Fungi/Ascomycota Fusarium solani f. xanthoxyli AF150492
Scy.d.1.1 Fungi/Ascomycota Scytalidium dimidiatum AF258603
Scy.d.2.1 Fungi/Ascomycota Scytalidium dimidiatum AF258604
Scy.d.3.1 Fungi/Ascomycota Scytalidium dimidiatum AF258605
Til.f.1.2 Fungi/Basidiomycota Tilletiopsis flava D82819
Pap.a.1.1 Fungi/Ascomycota Papulosa amerospora AF064050
Spo.t.1.1 Fungi/Basidiomycota Sporobolomyces taupoensis D66886
Exo.c.1.2 Fungi/Ascomycota Exophiala calicioides AB007685
Exo.c.2.2 Fungi/Ascomycota Exophiala calicioides AB007686
Cla.m.1.2 Fungi/Ascomycota Cladonia merochlorophaea Z14025
Tet.t.ref2 ===== Tetrahymena thermophila (Reference) J01235, V01416