10 20 30 40 50 60 70 80 90 100 110 120

....|....|....|....|....|....|....|....|....|....|....|....|....|....|....|....|....|....|....|....|....|....|....|....|

I II II TEMPLATE III III V

structure ((((((((((((( ((((((((( ))))))))) CAACCCCA <<<< ((((((>>>> )))))) ((((( ))

Paramecium tetraurelia gacaaucauuauguucauuc-uucuucuccaa-uaggaaaggaagucauacaaccccagaaaccauuacaaacacccu--gaguauugcuacauucaguguagcguuaauccucu--ugg

Paramecium primaurelia gacaaucauuauguucauuc-uuccucuccaa-uaggaaaggaagucauacaaccccagaaaccauuaaacacacccu--gaguauugcuacauucauuguagcguuaauccucu--ugg

Paramecium multimicronucleatum gacaaucuuuaugcucauuc-uuccu-ucuga-uagga-ggggagucauacaaccccagaaaccauuuccacaacccugaguauu--guugcauacugugcaau---guaaauauuc-uu

Paramecium caudatum gacaauugcugu-auucauucuccuuucucga-uaggaauuggagucauacaaccccagaaaccau-ccuuauaccuu--gagua-ugcugaauuccg-uuagcguagcu-c--uug-gc

Paramecium primaurelia(pseudo) gacaauuauuauguucauuc-uuc-uuuucaaauaggaaaggaaaucauacaaccccagaaaccaucacaaacacua---gaguauuguuacauauaguguaacguuaauucucuuaguu

130 140 150 160 170 180 190 200 210 220

....|....|....|....|....|....|....|....|....|....|....|....|....|....|....|....|....|....|....|....|..

V I IV IV

structure ))))) ))))))))))))) ((((((((((((((((((((((( ))))))))))))))))))))))))))

Paramecium tetraurelia cuauu-cu-cguaacgauugucaaauuuagagu-gcuuau-cguc-aaaaaucagcaaa---uca-ugacgag-ucauaagugcucuaaauaguuauuuu-u

Paramecium primaurelia cuauu-cu-cguaacgauugucaaauuuagagu-gcuuau-cguc-aaaaaccagcaaa---uca-ugacgag-ucauaagugcucuaaauaguuauuuu-u

Paramecium multimicronucleatum gguacucu-cauuuagauugucaaauuuagag-ca-uguuccaucauuu---caauauua-uuc-augauggaaugauaa-ugcucuaaau-guuauuuu-u

Paramecium caudatum uauuc--ucauagu-gauug-cauauuuggaguuacuuauucguc-aauu--caauuaaaauuca-ugacgaaccuaaaaguacucugaaugguuauuuuuu

Paramecium primaurelia(pseudo) auucccgu--aa--cgauugucaaauuuagaau-gcuuau-cguc-aaaaaucagcaaa---uca-uaacgaacu-aaaaguacucuaaauaguuauuuuuu