Other Proteobacterial tmRNA Alignment 15-Feb-2006 by Kelly Williams for The tmRNA Website, with base-pairing color-coded as in home page diagram. Underline marks the predicted reading frame for the proteolysis-inducing peptide tag. Lowercase marks segments not homologous to tmRNA, intervening segments that are absent in the mature tmRNA, and portions of the expected 3-prime CCA tail that are not encoded in the genome. unclassified Proteobacteria Magcocc_MC1 GGGGGUG-----AACUGGC--UUCGACGGGGUGUGG-----AACGGUUAGCAAGGCGACU--CGGAA---UGGUAC---CUACGUACAGG----------ACCAA-----ACUUUACAAUUGCCAAUGACGAGCAC------------------------------------------------UACGCUCCGGCUUUUGCAGCUGCAUAA---------------------AGUAGUUGUACAAAGCGGGGU------------------CUGAACCCGGGCCCGGCAACAGAAGCUUUUAGCGGGGUUAAGCCGGAACUGUGUAGGCCGGUGUAAAUCCAGGGACACCCAGUUCUCCGAGGUAACGGGG--------------------------------------------------------------------------------------------------------GCUAUGUGGUCAGCCAGCCUGAGACGCCACAAAGC--------AGUA-----GGGUUGGCAAAAUGGU-CGUGA----------------------UUCCUUCUAGCUU--AAUACAUAUUUCGGAC-CGGGGUUCGACUCCCCG-CACCUCCACCA Magcocc_MC1 Uncult_HF10 GGGGGUG-----AACUGGC--UUCGACUUUGAAGCG-----AGCCUCUCA-GUAGCGAGC--UGAGG--GUCCUAGGG-CCUCAUUAAAAA--------CGUAGGA-AAAAAAAGAUAACUGCCAAACCUAAAUUG------------------------------------------------------------GCCGUAGCAGCUUAA-----------------------UUGUUGCU------------------CGUCGACUAUCGGGG-------------------UUCCCACCUCGGAUAGUAUCGGCG---------------------------------------------------------------UCGAAAUG--UGGGAUGCUAAGUUAG---------UUUACCGGCUAGCUUUCA-AGAUUUAA----GGUAAA-A----ACUAUUGAGAAUUUGUUUCUGGUGA----CUCUCUCAAUAGU--------AUU--------UCACCAGAUGCGCU-CGGAG-----------------------AAGCUGUUAGGU-----AGCUUAAAAGGAC-CGGGGUUCGACUCCCCG-CACCUCCACCA Uncult_HF10 Prbr_SAR1_1 GGGGGCG----ACU-UGGC--UUCGACAGCAGAUAC-----AAACCCUCA-AGUGCAUGU--CGAGA-AGGUAGUAAU-UCUCGUAAAUAA-------AUUGCUGC--AAACUUGUUAGUUGGCGAAAACGCAGAC---------------------------------------------------------UACGCUUUAGCCGCUUAA-----------------------UUGGCUAA-----------------------------CUGUCCUUGGUAACGUG-----------------CUCGUGCGCCUCCA---------------------------------------------------------AAGACAGACGA-CUACACGAGAUG-CUGGAAUUGUUCUU------------CUCAUUGACAAUUUCUU--AAGAAUU-AAAUUGAGA-UC------GUUUUU--UGAUCCCUGUUUAUCGGGUGUA--AAAGAU---UAAAU---UAAUA---GAUAAAACUAAACA-UGUAG----------------------AUCUUGUGGCAG------AGUACUGAUGGAC-GCGGGUUCAAUUCCCGC-CGCCUCCACCA Prbr_SAR1_1 Prbr_SAR1_2 GGGGGCG----UAUUAGGC--UUUGACGUCUACCAC-----GGAACCU-AAAGUGCAUAU--CGAGC--AUGAACAU-AACUCGUUAAAUAC-------UGUUUAAA----ACAAAUAGUUGCAAAUAAUUACAAC---------------------------------------------------------UAUAGUUUGGCAGCUUAA-------------------------UGCCAAC----------------------------CUGUUAUCAUUUGU------------------GGCCUACAACAUUUGAUAACGG---------------------------------------------------------UCAUUUUAGUAGGAUAUA--CUCUACCAG-----------------CGCCCACUU-GUAGAGU--GAAUUUAA---GGGCU-UA-------GCUUAAU-GUGUCUUGAUCAUCAGGCUACAUUAAAGU------GAAUUAAAUU---GAUGAAUCUAAGUA-UGUAG----------------------AUACUAAGGGAA------AGUGAUGACGGAC-GUGGGUUCAAAUCCCGC-CGCCUCCACCA Prbr_SAR1_2 Prbr_SAR1_3 GGGGGCG-----AU-CGGU--UUCGACGAAAUAUGC-----AUCUUUCUAAAUGGCAUGC--CGAGU-CCCAGA-AU---CUCGUAAAUAA---------UCUGGA---AAAACCAUAAAUGCCGAUAACGGC------------------------------------------------------------UACAUGGCCGCUGCUUAA-----------------------GUAAGUGGUC---------------------------CGUCCUUAGUUUAGUGC----------------GUCUAUGGCUUAGCU--------------------------------------------------------AAAGGGCGUCAAAU-ACAUAGACUG--GUUCUGGUUGU--------------GUCUGUGAUAUCAGGAU----GAGAAUUAAACAGAC-UGU-----GUUUAUA-AUAGUUUUGUCAUCAGGACAGU-UAUAAGC---AAGAU----UAAUC--UGAUUGACUAAGCG-UGUAG----------------------AUAUUUUUUUAG-----GUUCUAUCUCGGAC-GGGAGUUCGAUUCUCCC-CGCCUCCACaa Prbr_SAR1_3 Uncul_phako GGGGGCG-----ACCUGGC--UUCGACGGGGAGAGA------GAAUUCGAGAGCGCGUGC--CGAGGU-CCCCGACA-ACCUCGCUAAU----------CCUCGGGAA--AAAAAUCAAACGCCAACGAUAAC---------------------------------------------------------UCGUAUGCGUUGGCCGCCUAA---------------------AGAGAUUUAGGUAGCC-----------------------CGUUGGCGUCCGUG---------------GGGCCUACAACGCGGACGCCGACG-------------------------------------------------------CCAUCUACAGCAGGCUAGCCGAUCACUCUUGUUCAGGGG--------CGGCCGGCGAAACUCUCUGAA-----------CUGGUCCA-----AUCCGGA-----UCCUGUCA-GUC-GGAGCUGGUGAGGAU-GAGAAAGCCGUAGCAUAGAC-UGACUACGCA-CGUAG----------------------UGGUCUCGUAGGA-----CCUAUUCUCGGAC-GCGGGUUCGAUUCCCGC-CGCCUCCACCA Uncul_phako Deltaproteobacteria Lawso_intra GGGGACG-----CACUGGU--UUCGACGGGGAUGUG------GAAACCAAAGUGGCAGGU--CGAGG--CGCCGCUG-GCCUCGUAAAA-----------AGCGGCA---ACAAUGUAAUUGCAAACAACAAUUAC------------------------------------------------------GACUACGCUCUUGCUGCAUAA-----------------------GUAAUAGCGUACCUGGCUAUUUAAAUAGCCA------CGUCAAUCCUGCUGA---------------UGUCUGAUAAGCUGGUGCGGCG----------------------------------------------------------ACA------AUCAUCAGG---CUAGCAGCCUAUUGU-------GUUUA-CUGGAUAGUCUGCGAAAUUAU---UACAGUAAACUU-----GUUUUGAUCU--GCCUGGCU-AAG-GGCUAGAAUCAAAAU-----AAGAUGUAAA---CUU-AGCCUAAACC-UGUAG----------------------AUACUUUGUGUGG-----AACUUUCUCGGAC-GCGGGUUCGAUUCCCGC-CGUCUCCACCA Lawso_intra Desvb_desu1 NNNNNNN-----NNNNNNN--NNNNNNGGGGACGUG------GAAGCCGUAGCGGCAGGU--CGAGG--CGCCGCUG-GCCUCGUAAAA-----------AGCGGCA---CAAAAGUAAUUGCCAACAACGAUUAC------------------------------------------------------GACUACGCUUACGCUGCCUAA----------------------UAACAGCGAGGCAAUGACCGUUUA-ACGGUCG------CGCCGAUCAGGGCCA---------------UGCCUGAUAACCCUGAUUGGCG----------------------------------------------------------ACAC-----UU-AUCAGG---CUGGCGAAAACCGGC-------UCUCGCCGGGGUUUUUCGCGAGGAGUUUA--CCGGCGGGAUU-----GCUGCGUUGU--GCCUGGUC-AGG-GGCCAACAGCGCGGU-----GAAAUACAUA---CUU-GACCUAAACC-UGUAG----------------------AUGCUUCGUGUGG-----AAUGUUCUCGGAC-GGGGNNNNNNNNNNNNN-NNNNNNNNNNN Desvb_desu1 Desvb_desu2 GGGGGCG-----CACUGGU--UUCGACGGGGAUAAA------GAAGCCGGAGUGGCAGGU--CGAGG--CGCCGCUG-GCCUCGUUAAA-----------AGCGGCA---CAAAUGUAAUUGCCAACAACGAUUAC------------------------------------------------------GAAUACGCAAUGGCAGCCUAA---------------------UUAGGCUUGCCG---------------------------CACUGAUUGGCUGAC----------------GUCAGAUACGCCGACCAGUG-----------------------------------------------------------ACAA----ACUUAUCCGA---CUGGCACCCAAAGCC---------GUCUGUCGCAGCGGGUGUAAGAUUUUUUAA-GACAGACUU-----GCCGCCGGUA--GCCCGAUC-AGG-GGCAUCACCGGAUGGC----GAGCUUGAAUA--CCU-GAUCUAAACC-UGUAG----------------------AAGCUUCGAGUGG-----ACUGUUCUCGGAC-GCGGGUUCGAUUCCCGC-CGCCUCCACCA Desvb_desu2 Desvb_vulga GGGGGCG-----CACUGGU--UUCGACGGGGACGUA------GAAGCCGGAGUUGCAGGC--CGAGG--CGCCGCUG-GCCUCGUAAAA-----------AGCGGCA---CAAAAGUAAUUGCCAACAAU---UAC------------------------------------------------------GACUACGCUCUGGCUGCUUAA---------------------UUGACGGCCA-----------------------------CGUCGAACCGGUUCA---------------CGCCUGAUAGACCGGUGAGACG----------------------------------------------------------UAAC-----UUCAUCAGG---CUGGCAUCUGACGGC-------GCUCGCCGCGAAGGG-UGCGAGAAAAA----CAGGUGAGCUG-----GUCGAAGGUU--GCCUGGUC-GGG-GGCGAAACCUGAGAU-----GACGAUUGUA---CUC-GACCUAAGCC-UGUAG----------------------ACGCUUCGUGUGG-----AACAUUCUCGGAC-GCGGGUUCGAUUCCCGC-CGCCUCCACCA Desvb_vulga Destl_pschr GGGGGCG-----AAACGGC--UUCGACGGGGAUGUA-----UAAGCUCUACGUUGCAUGU--CGAGC--AACUGCC--AGCUCGUAAAAAA---------GGCGGAAA--CUAAUAUAAUCGCAGACGAU---UAU------------------------------------------------------AACUACGCAGUAGCAGCUUAA---------------------UAACUGUCAUACUGC------------------------CGUCUCUCCAGUCCUC---------------CGCUCAUGAGGGUUGGGUCCGAGGCG-----------------------------------------------------UCGACCAAA---AUGAGC---UAGCAAUCGGGUGGUG----------UUCUGGUCGCCCCGGCGCGAAAAUAUA----CAGAAUA-----GCGUUAUAGUAUCCCUGUUCCGAC-GGAAGCUAAAUCGC------GAAAACUAA----GUGGGAACUAAACA-UGUAG-----------------------AUACGAGAGGGG-----AGCAUUUGCGGAC-GCGGGUUCGACUCCCGC-CGCCUCCACCA Destl_pschr Uncul_cion1 GGGGGUG-----AUUCGGA--UUCGACGACGGUAUC------GAACCCUUAGGUGCAUGC--CGAGGG-CGUAGUGG-UUCUCGUUAAUCAAAA------CACUACAA--ACCUAUUAGUUGCCACAUUGACAACU---------------------------ACUGGAAGUGCAAACGACGAGUUCUUUGACGCUCGUCUUCGUGCUUAA---------------------UCGUAGCUAAACCCUACGAGCUUCC--------------CAGUCCGUCCGGCUC------------------GUCUGCUGGCUGGUUUUUCGGACUG----------------------------------------------------UCAUCGUA-AGCGG-------ACUCGCCACGUUCAGCAGG------UCUCUGGCUGA---CGGGUUAAAACUUGUGG-GA--AUC-----GCGCUGCAGA-ACCCCGACC-ACU-GGGUCGCUGUGGUGU-----UAAAUUUAAA---CGUGGAUCUAAGCA-UGUAA-----------------------AGCCGAAGGCUG-----AGAGCUGGCGGAC-GCGGGUUCGACUCCCGC-CGCCUCCACCA Uncul_cion1 Syntr_acidi GGGGGCG-----UUACGGU--UUCGACGGGGAUAGU-----UGAAGCUGUAGAAGCGUAC--CGAGG-UUCCUACAG-GCCUCGUUAAACAG--------GUAGGAA----AACAAUACUCGCAAACGAC---UAC------------------------------------------------------GAGUACGCAUUAGCCGCUUAG---------------------UCGGCUAA-------------------------------CGUUCUUUCUGAUUU-----------------UUCCUGUCGGAUCAGAGGGGGCG-------------------------------------------------------UAAUUUCA---GGCAGGA---UAGUCCUAACCUUU----------UCCUGUGGGGAACAGGGCGAAAUUCA-----CAUGGGAUA-----GCAAUCAGUAAAGCCUGCCU-UUG-GGCGUUACAGAGUGC-----GAAUGACAAAA--CAA-AGGAUACGUA-CGUAG-----------------------AAACUGCAGUGG-----AAUAUUUUCGGAC-GCGGGUUCGACUCCCGC-CGCCUCCACCA Syntr_acidi Geobr_sulfu GGGGGUG-----UACAGGU--UUCGACGGGGAUAGG------AAGCUGAUGGUUGCAUGC--CGAGG-UCCGGGCUG-GCCUCGUUAAAA----------AGCCCGGG--GCGAAUUACACGCCGAUAAU---UAC------------------------------------------------------GACUACGCUGUAGCAGCUUAA---------------------UAACCUGCUAC----------------------------CGAUCCGCUGAGCCU------------------CUCCCACGGGUGAAGAUGGAUCG------------------------------------------------------UCAUUUUA-GUGGGAUA----GUUGCGGGGAGGG-------------UCCAC--GGCCCCAAGGCGAAACCUUAGUGGA---AUC-----GCUUCCCGGAAAUCCCUGCCAGGGGAGAG--UCGGGCGGC-----UAAAUCAAA----UCCUGGUAUAAGCA-UGUAG----------------------ACGCCUUCGGUGU-----AUGAUCUUCGGAC-GCGGGUUCGACUCCCGC-CACCUCCACCA Geobr_sulfu Geobr_metal GGGGGUG-----UACAGGU--UUCGACGGGGAUAGG------AAACUAAAGGUUGCAUGC--CGAGG-UCCGGGCUG-GCCUCGUUAAAA----------AGCCCGGG--GCGAAUUACACGCCGAUAAU---UAC------------------------------------------------------GACUACGCCGUAGCAGCUUAA---------------------UACCCUGCUAC----------------------------CGAUCCGCCGAGCCU------------------CUCCCACGGGUGAAGAUGGAUCG------------------------------------------------------UUAUUUCA-GUGGGAUA----GUCAAGGGGAGUG-------------CCCGC--GGCCCCAAGGCGAAACUUUAGCAGG---AUC-----GCUUCCCGGAAAUCCCUGCCAGGGGAGAG--UCGGGCGGC-----UAAAUCAAA----UCCUGGCAUAAGCA-UGUAG----------------------ACGCCUUCUGUGU-----AUGAUCUUCGGAC-GCGGGUUCGACUCCCGC-CACCUCCACCA Geobr_metal Desfm_aceto GGGGGCG-----CCAAGGU--UUCGACGGGGAUUG-------GAAGCUAAGGUUGCAUGU--CGGAG---UGGGCAG-GCUCCGUUAAAA----------AGCCCAU---CUUAUACAAACGCCGAUACUGACGUU------------------------------------------------------UCGUACGCACUGGCAGCUUAA---------------------GUCUGCCA-------------------------------CGUCUCUAGUCUCUU---------------CGCCUGCGGGUUUCUAGCGACG----------------------------------------------------------UCAA-----UUUAGUAGG---CUGGUUGUUGUUCAA-------GUCCGUGGUUCAACA--GCGAGAUCUAA------ACGGAAUC----GCCACAUGUAAGAGCCUGUCU-GUG-GGGGCUGCAUGCGGU-----UAAAUUUAAAA--CAC-AGACUACACA-UGUAG----------------------ACGCCUUAAGUGA-----AAGAUUUUCGGAC-GCGGGUUCGAUUCCCGC-CGCCUCCACCA Desfm_aceto Bvora_marin GGGGGUG-----CCCUGGU--UUCGACGGGUUGCUA------GAAGUUUUGUGGGCGUGU-CCAGGCUGGUGUCCAAGGUCCUGGUUAAAA---------GGAGACC---AAACCAUAAUUGCAGAAUCUAAUUUU------------------------------------------------------GCUCCAGCUAUGGCCGCUUAA---------------------UUUAAUUAACGCCG-------------------------CCGCUUUAAGUAGCU------------------UGAGGGGUUAGCAUCCAAUAAAC------------------------------------------------------AGAAGCUAACAUCCCAGU---GGUAACAACUGGCUAACUUGUUACGCAGC-AACUGCCAUGCAAUGCUGUUGAAAAAACAAGUGGGGUUUGUCGAGUUCGCGUAAUUCGAACAGUCUUGUCUUCUGACGA-----UAAAU----------GAAGACUACGCA-CGUAG----------------------UCCGCACUAUGGA-----AAUCAACUCGGAC-GCGGGUUCGAUUCCCGC-CACCUCCACCA Bvora_marin Bdell_bacte GGGGGCG-----UACUGGC--UUCGACGUGGGUGCU------GAAGCAUAAGGAGCAUAC--CGGGG-CGGAUGAGGA-CCUCGUUAAAAA-----------CGUCC---ACUUUGUAAUUGGCAAC---------------------------------------------------------------GAUUACGCACUUGCAGCUUAA---------------------UUAAGCAGC------------------------------ACGAUCAACCUUGUGGU-----------------GGUUCCGCACUUGGAUUGAUCGU------------------------------------------------------CAUUUA---GGGACCUC---GGCGUGUUGGGUU-----------UUCUCCAG--CAGACAUGCUUAAAUUUA--CUGGGGGAGA------GGUCUUAGGGAUUUUGUCU-GUG-GAAG-CCCGAGGACC-----AAUCUAAAA----CAC-UGACUAAGUA-UGUAG----------------------CGCCUUAUCGUGG-----AUCAUUUGCGGAC-GGGGGUUCAAUUCCCCC-CGCCUCCACCA Bdell_bacte Myxoc_xanth GGGGGCG-----ACCUGGU--UUCGACGGGGGCAUU------GAAGUUCGAGACGCGUGC--CGAGC-UUGUCAGGU-AGCUCGUAAAUUCAA-------CCCGGCAA---AGACACAAAAGCCAACGACAACGUU------------------------------------------------------GAGCUCGCGCUGGCUGCCUAA---------------------AAACAGCCCAUAGUGCG----------------------CGGUCCCCCCGCCCU-----------------CGGCCUGUGGGGUUGGGACAG-------------------------------------------------------ACCGUCAUAAUGCAGGCUG----GCUGCCGAGGGUG-------------CCUGG-ACCCGAGGUGGCGAGAUCUUCCCAGG----AC-----CGGCUCUGAGUAUCCCGUCC-GUG-GGAGCCUCAGGGACG------UAGCAAAU----CGC-GGACUACGCA-CGUAG----------------------GGUCGAAGAGCGG-----ACGGCUUUCGGAC-GCGGGUUCGAUUCCCGC-CGCCUCCACug Myxoc_xanth Epsilonproteobacteria Wolin_succi GGGGUCG-----ACUUGGA-UUUCGACGGGAGCUAA------AUAGCCUCGGUUGCAUGU--CGGC--AUGGGCAC----GCCGUAAAA-----------CUACCCG--CAAUCAAUAAACGCAAACAACGCAAAC---------------------------------------------UACGCUCCCGCUUACGCCAAAGCUGCGUAA---------------------GUCUA--ACUCUUCGGAGC--------------------CGUCAAGCCUCACAAU---------------GCUAACUAGUGGGGAUUUGGCG---------------------------------------------------------UAACUUU---GUUAGCCGC--UCUCUCGUCUC--------------AUCCGAAGCGAGGGAA-----AAGA---UUAGGAU-UGCCCAUCACUUCCGCCU--------UGGGG--GCUUGAGCAAAGCGAUGG-AAAGAGCUUUCAA--CCCCAUCUAAGCA-UGUAG-------------------------AGACUGGGGUGGGUUUGG-CUUUCGGAC-UGGGGUUCGAUUCCCCA-CGACUCCACCA Wolin_succi Campbr_lari GGGGACG-----ACUUGGC--UUCGACAGGAGUAGA------GUGGCCUUGGUGGCAUGU--CGCUU--UGAGC----AAAGCGUAAAAA----------GCUCAAA--UUAAAAUUAAACGCAAACAACGUUAAA---------------------------------------------UUCGCUCCUGCUUAUGCUAAAGCUGCGUAA---------------------GUU------CAGUU-GAGC--------------------CUGAAUUUUAAGUG---------------AUACUAUCUAGCUUAGAAUUUGG----------------------------------------------------------UCAUUUUU-GAUAGUGUA---GAUUGAAAUU----------------UGAC-AAAUUUUAAUU--GAAA--UUAAA--GUC-UUA---GUCUAGCUU-GAAAUUUUGGAAGGUGAGUUUGGCUAGAU-------GAAUUUU-----UCACCUUUGCUAAGCA-UGUAG-----------------------AUGCCGUGGUUGUU----UUAUUUUUGGAC-AGGGGUUCAAUUCCCCU-CGUCUCCACCA Campbr_lari Campb_upsal GGGGACG-----ACCUGGC--UUCGACAGGAGUAGU------UUGACUAGGAUGGCAUAC--CGCUU--UGGGC----AAAGCGUAAAAA----------GCCUAAA---UAAAAUUAAACGCAAACAACGCGAAA---------------------------------------------UUUGCUCCUGCUUACGCUAAAGUUGCGUGA---------------------GUU------CAGUU-GAGC--------------------CUAGAGCUUGAGUG---------------AUACUAUCUAGCUUAAGUUUUAG----------------------------------------------------------UCAUCUUU-GGUAGUGUA---GUUUUAAGACU---------------UGAC-GCACCUUAAAGU-GAAG--UUUA---GUC-UA----GUCAAAUUUGUAAGUUUUGGAAGAUGAGCGGAAUUUGAU-------GAAAGAG-----UCAUCUUUGCUAAGUA-UGUAG-----------------------AGGUCUUUUUUGGG----CUAUUUUUGGAC-AGGGGUUCAAUUCCCCU-CGUCUCCACCA Campb_upsal Campb_fetus GGGGGUG-----ACUUGGC--UUCGACAGGAGUAGU------GGAGUCACGGCGGCAUGC--AGCUU--UGGGC----AAAGCUUAAAAA----------GCCCAAA--AUAAAAUUAAACGCAAACAACGUUAAA---------------------------------------------UUCGCUCCUGCUUACGCUAAAGCUGCGUAA---------------------GUC------CAGUU-GAGC--------------------CCUGCGAAACUUCA---------------AUGCUAUCUAGAAGCUUUAGCGGG---------------------------------------------------------UAAUUUUU-GAUAGCUUA---GAUUAAAGAAU---------------UGAC-GAAUCUAUAAUU-GAAA--UUUA---GUC-UUA---GCUUAGCUA-AACGCUUUGGGAAGUGAGCGAAGCUAAGU-------GAAACUC-----UCACUUCUGCUAAGCA-UGUAG-----------------------AGGCUAUGAAUCUA----UUAUUUUUGGAC-UGCAGUUCGAUCCUGCA-CACCUCCACCA Campb_fetus Campb_fetu2 NNNNNNN-----NNNNNNN--NNNNNNAGGAGUAAG------UCUGCUUAGAUGGCAUGU--CGCUU--UGGGC----AAAGCGUAAAAA----------GCCCAAA---UAAAAUUAAACGCAAACAACGUUAAA---------------------------------------------UUCGCUCCUGCUUACGCUAAAGCUGCGUAA---------------------GUU------CAGUU-GAGC--------------------CUGAAAUUUAAGUC---------------AUACUAUCUAGCUUAAUUUUCGG----------------------------------------------------------UCAUCUUU-GAUAGUGUA---GCCUUGCGUU----------------UGAC-AAGCGUUGAGGU-GAAA--UAAA---GUC-UUA---GCCUUGCUUUUGAGUUUUGGAAGAUGAGCGAAGUAGGGU-------GAAGUAG-----UCAUCUUUGCUAAGCA-UGUAG-----------------------AGGUCUUUGUGGGA----UUAUUUUUGGNN-NNNNNNNNNNNNNNNNN-NNNNNNNNNNN Campb_fetu2 Campbl_coli GGGAGCG-----ACUUGGC--UUCGACAGGAGUAAG------UCUGCUUAGAUGGCAUGU--CGCUU--UGGGC----AAAGCGUAAAAA----------GCCCAAA---UAAAAUUAAACGCAAACAACGUUAAA---------------------------------------------UUCGCUCCUGCUUACGCUAAAGCUGCGUAA---------------------GUU------CAGUU-GAGC--------------------CUGAAAUUUAAGUC---------------AUACUAUCUAGCUUAAUUUUCGG----------------------------------------------------------UCAUUUUU-GAUAGUGUA---GCCUUGCGUU----------------UGAC-AAGCGUUGAGGU-GAAA--UAAG---GUC-UUA---GCCUUGCUUUUGAGUUUUGGAAGAUGAGCGAAGUAGGGU-------GAAGUAG-----UCAUCUUUGCUAAGCA-UGUAG-----------------------AGGUCUUUGUGGGA----UUAUUUUUGGAC-AGGGGUUCGAUUCCCCU-CGCUUCCACCA Campbl_coli Campb_coli2 NNNNNNN-----NNNNNNN--NNNNNNAGGAGUAAG------UCUGCUUAGAUGGCAUGU--CGCUU--UGGAC----AAAGCGUAAAAA----------GUCCAAA--UUAAAAUUAAACGCAAAUAACGUUAAA---------------------------------------------UUUGCUCCUGCUUACGCUAAAGCUGCGUAA---------------------GUU------CAGUU-GAGC--------------------CCGAAACUCAAGUG---------------AUGCUAUCUAGCUUGAAUUUUGG----------------------------------------------------------UCAUCUUU-GAUAGUGUA---GAUUGAAAAU----------------UGAC-AACUUUUAAUC--GAAG--UUAAA--GUC-UUA---GUCUAGCUU-GAAAUUUUGGAAGGUGAGUUUAGCCAGAU-------GAAGUUU-----UCACCUUUGCUAAACA-UGUAG-----------------------AAGUCUUUGUGGGG----UUAUUUUUGGNN-NNNNNNNNNNNNNNNNN-NNNNNNNNNNN Campb_coli2 Campb_jejun GGGAGCG-----ACUUGGC--UUCGACAGGAGUAAG------UCUGCUUAGAUGGCAUGU--CGCUU--UGGGC----AAAGCGUAAAAA----------GCCCAAA---UAAAAUUAAACGCAAACAACGUUAAA---------------------------------------------UUCGCUCCUGCUUACGCUAAAGCUGCGUAA---------------------GUU------CAGUU-GAGC--------------------CUGAAAUUUAAGUC---------------AUACUAUCUAGCUUAAUUUUCGG----------------------------------------------------------UCAUUUUU-GAUAGUGUA---GCCUUGCGUU----------------UGAC-AAGCGUUGAGGU-GAAA--UAAA---GUC-UUA---GCCUUGCUUUUGAGUUUUGGAAGAUGAGCGAAGUAGGGU-------GAAGUAG-----UCAUCUUUGCUAAGCA-UGUAG-----------------------AGGUCUUUGUGGGA----UUAUUUUUGGAC-AGGGGUUCGAUUCCCCU-CGCUUCCACCA Campb_jejun Helcb_pylo1 NNNNNNN-----NNNNNNN-NNNNNNNAGAUUUCUU------GUCGCGCAGAUAGCAUGC--CAAG---CGCUG------CUUGUAAAA-------------CAGCA--ACAAAAAUAACUGUAAACAACACAGAU---------------------------------------------UACGCUCCAGCUUACGCUAAAGCUGCGUGA---------------------GUUAAUCUCCUUUUGGAGC--------------------UGGACUGAUUAGAAU-----------------UUCUAGCGUUUUAAUCGCUCCA--------------------------------------------------------UAACCUUAA-GCUAGACGC--UUUUAAAAGGUG--------------GUUC--GCCUUUUAAAC--UAAGAAACAA-GAAC--UCUUGAAACUAUCUUAAGGUUUUAGAAAGUUGGACCAGAGCUAGUUUUAAGGCUAAAAA-CUAACCAAUUUUCUAAGCAUUGUAG----------------------AAGUUUGUGUUU-AGGGCAAGAUUUUUGGAC-UGGGNNNNNNNNNNNNN-NNNNNNNNNNN Helcb_pylo1 Helcb_pylo2 GGGGCUG-----ACUUGGA-UUUCGACAGAUUUCUU------GUCGCACAGAUAGCAUGC--CAAG---CGCUG------CUUGUAAAA-------------CAGCA--ACAAAAAUAACUGUAAACAACACAGAU---------------------------------------------UACGCUCCAGCUUACGCUAAAGCUGCGUGA---------------------GUUAAUCUCCUUUUGGAGC--------------------UGGACUGAUUAGAAU-----------------UUCUAGCGUUUUAAUCGCUCCA--------------------------------------------------------UAACCUUAA-GCUAGACGC--UUUUAAAAGGUG--------------GUUC--GCCUUUUAAAC--UAAGAAACAA-GAAC--UCUUGAAACUAUCUCAAGGUUUUAGAAAGUUGGACCAGAGCUAGUUUUAAGGCUAAAAAACCAACCAAUUUUCUAAGCAUUGUAG----------------------AAGUUUGUGUUU-AGGGCAAGAUUUUUGGAC-UGGGGUUCGAUUCCCCA-CAGCUCCACCA Helcb_pylo2 Helcb_pylo3 GGGGCUG-----ACUUGGA-UUUCGACAGAUUUCUU------GUCGCACAGAUAGCAUGC--CAAG---CGCUG------CUUGUAAAA-------------CAGCA--ACAAAAAUAACUGUAAACAACGCAGAU---------------------------------------------UACGCUCCAGCUUACGCUAAAGCUGCGUGA---------------------GUUAAUCUCCUUUUGGAGC--------------------UGGACUGAUUAGAAU-----------------UUCUAGCGUUUUAAUCGCUCCA--------------------------------------------------------UAACCUUAA-GCUAGACGC--UUUUAAAAGGUG--------------GUUC--GCCUUUUAAAC--UAAGAAACAA-GAAC--UCUUGAAACUAUCUCAAGGUUUUAGAAAGUUGGACCAGAACUAGUUUUAAGGCUAAAAAGCUAAUCAAUUUUCUAAGCAUUGUAG----------------------AAGUUUGUGUUU-AGGACAAGAUUUUUGGAC-UGGGGUUCGAUUCCCCA-CAGCUCCACCA Helcb_pylo3 Helcb_muste GGGGCUG-----AUUUGGC-UUUCGACAGGAAUUGU------AUCGCUUGGAUUGCAUGU--CGGUA--GGCA------UACCGUAAUCC------------UGCCA-GCUUAAAUUAAACGCAAACAACAAAAAU---------------------------------------------UACGCUCCAGCUUACGCAAAAGUAGCGUAG--------------------GUUUAUCUCUGUUUUGGAGC--------------------CGAUCUUUUUGCCAU------------------AUCUACUAACAAAAAAGGUCG--------------------------------------------------------UUAUUUC---GUAGGUU----GCGCUUUUUUGU---------------GUCAUCAAAAAAGCAA--AGAUAA------GAC-UGCUUGCCUGCAAAAGAUUU-----UGAAAGUUG---AAUCUAGCGGGCAA-AAAGAUUA---UUCAACUUUGCUAAGCA-UGUAG------------------------AGAUCCUUGU-AGAUAUAA-UUUUUGGAC-UGGGGUUCGAUCCCCCA-CAGCUCCACCA Helcb_muste Helcb_hepat GGGGCUG------AUUGGC-UUUCGACAGGAGCAAA-------GAGACUUAAGUGCAUGU--GAGC---UGGUAA-----GCUCUAAAA-----------CUACCAC--AAAUAAAUAAACGCAAACAACGCAAAU---------------------------------------------UACGCUCCAGCUUACGCAAAAGUCGCGUAA--------------------GUUUAUCACACUUUUGGAGU--------------------CGGCUUAAGAACUUCUAA---------------UCUAGCUAGAAUCUUUCAAGCUG------------------------------------------------------UAAUCUUU--GCUAGAU----GCUCUUUUUGUCAU------------ACCUUAGCAAAAAGAA----AAGAA---UAAGGU-UGCUUGUGGGAUUUAUCU--------UGGGGUGU----UGGAUAACCACGA-----AAAGAAAACAAUACCUACUAAACA-UGUAG------------------------AUUCUUAAGA-AGCUCAAG-CUUUUGGAC-UGGGGUUCAACUCCCCA-CAGCUCCACCA Helcb_hepat Helcb_ganma NNNNNNN-----NNNNNNN-NNNNNNNNNGAAUUAG------AUAGCUCUAGCUGCAUGC--CGACUUGUGUUAU-----GUCGUAAAA------------CUAGCA-UAUAAAUAUAAACGCAAACAACGCAAAU---------------------------------------------UACGCUCCUGCUUACGCUAAAGUUGCGUAA--------------------GUUUAAUUAGCUUUUGGAGC--------------------UGUUUUUGAACAAGGA----------------UUCUAGCGACUUUUCAAAAACA--------------------------------------------------------UCAUUUUA--GCUAGAU----GCGCCUUGCACU--------------ACCGAAUGCAAGUUUAAGUUUAGGUUGCCUUGAA--GC--------AUUAUUUUUGGAAG-UUUGGUG-UUUUUAAGAAAGAU-----UUAAAAU---------CCAAAUAAGCA-UGUAU------------------------AUCGGCUGUUGUUGGUCUAGUUUUNNNNN-NNNNNNNNNNNNNNNNN-NNNNNNNNNNN Helcb_ganma