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RF00458.sto
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# STOCKHOLM 1.0
#=GF ID IRES_Cripavirus
#=GF DE Cripavirus internal ribosome entry site (IRES)
#=GF CC New structure 2IL9_A
#=GF CC New structure 2IL9_M
#=GF CC New structure 2NOQ_A
#=GF CC New structure 4D5N_X
#=GF CC New structure 4D61_j
#=GF CC New structure 4V92_AZ
#=GF CC New structure 4XEJ_AIRE
#=GF CC New structure 4XEJ_BIRE
#=GF CC New structure 5IT9_i
#=GF CC New structure 6D90_4
#=GF CC New structure 6D9J_4
#=GF CC New structure 7JQC_i
#=GF CC New structure 7ZJW_I
#=GF CC New structure 7ZJX_I
AF178440.1/5925-6123 .UU...GACUAUGUGAUCUUGCUUUCG-..-UAAUAAAAUUCUGUACAUAAAAGUCGAAAGUAUUGCUAUAGUUAAgGUUGCGCUUGCCUAUUUAGGCAUACUUCUCAGGAUGGCGCG.UUGC.AGUCCAA.CAAg-AUCCAGGGACUgUACAGAAUUUUCC-UAUACCUCGAGUCGGGUUU-GGAA.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................UCUAAGG....UUGACUCGCUGUAAA..UAAU
AB017037.1/6286-6484 .GA...AAAUGUGUGAUCUGAUUAGAAG..UAAGAAAAUUCCUAG-UUAUAAUAUUUUUAAUACUGCUACAUUUUU.AAGACCCUUAGUUAUUUAGCUUUACCGCCCAGGAUGGGGUG.CAGC.GUUCCUG.CAA.UAUCCAGGGCAC.-CUAGGUGCAGCCUUGUAGUUUUAGUGGACUUUAGGCU.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAGAAU....UUCACUAGCAAAUAA..UAAU
AF014388.1/6078-6278 .GU...UAAGAUGUGAUCUUGCUUCCUU..AUACAAUUUUGAGAGGUUAAUAAGAAGGAAGUAGUGCUAUCUUAAU.AAUUAGGUUAACUAUUUAGUUUUACUGUUCAGGAUGCCUAU.UGGC.AGCCCCA.UAA.UAUCCAGGACAC.CCUCUCUGCUUCUUAUAUGAUUAGGUUGUCAUUUAGAA.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................UAAGAAA....AUAACCUGCUAACUU..UCAA
AF218039.1/6028-6228 .GC...AAAAAUGUGAUCUUGCUUGUAA..AUACAAUUUUGAGAGGUUAAUAAAUUACAAGUAGUGCUAUUUUUGU.AUUUAGGUUAGCUAUUUAGCUUUACGUUCCAGGAUGCCUAG.UGGC.AGCCCCA.CAA.UAUCCAGGAAGC.CCUCUCUGCGGUUUUUCAGAUUAGGUAGUCGAAAAACC.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................UAAGAAA....UUUACCUGCUACAUU..UCAA
AF183905.1/5647-5848 .CC...AACAAUGUGAUCUUGCUUGCGGa.GGCAAAAUUUGCACAGUAUAAAAUCUGCAAGUAGUGCUAUUGUUGG.AAUCACCGUACCUAUUUAGGUUUACGCUCCAAGAUCGGUGGaUAGC.AGCCCUAuCAA.UAUCUAGGAGAA.CUGUGCU-AUGUUUAGAAGAUUAGGUAGUCUCUAAACA.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................-GAACAA....UUUACCUGCUGAACA..AAUU
AB006531.1/6003-6204 .CU...GACUAUGUGAUCUUAUUAAAAUuaGGUUAAAUUUCGAGGUUAAAAAUAGUUUUAAUAUUGCUAUAGUCUU.AGAGGUCUUGUAUAUUUAUACUUACCACACAAGAUGGACCG.GAGC.AGCCCUC.CAA.UAUCUAGUGUAC.-CCUCGUGCUCGCUCAAACAUUAAGUGGUGUUGUGCGA.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAGAAU....CUCACUUCAAGAAAA..AGAA
AF022937.1/6935-7121 .AG...UGUUGUGUGAUCUUGCGCGAU-..----AAAUGCUGACG---UGAAAACGUUGCGUAUUGCUACAACACU.----UGGUUAGCUAUUUAGCUUUACUAAUCAAGACGCCGUC.GUGC.AGCCCAC.AAAa-GUCUAGAUA--.-CGUCACAGGAGAGCAUACGCUAGGUCGCGUUGACUAUc...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................cUUAUAUA....U-GACCUGCAAAUAU..AAAC
URS000080DDA6_64698/1-142 gCU...GACUAUGUGAUCUUAUUAAAAUuaGGUUAAAUUUCGAGGUUAAAAAUAGUUUUAAUAUUGCUAUAGUCUU.AGAGGUCUUGCGA----AAGCUUACCACACAAGAUGGACCG.GAGCgAAAGCUC.CAA.UAUCUAGUGUAC.CCUCG---------------------------------.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................-------....---------------..----
#=GR URS000080DDA6_64698/1-142 2IL9_A_SS ........................(((((........................)))))......................((..((............)....{.{..{.{.)..))....(......).........}.}.}..}..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................
#=GR URS000080DDA6_64698/1-142 2IL9_M_SS ...................(..((...(((......................)))...))..)..................(((((............)....{....{{{.)))).....(......).........}}}....}..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................
URS000080E076_12136/1-190 .--...AAAAAUGUGAUCUUGCUUGUAA..AUACAAUUUUGAGAGGUUAAUAAAUUACAAGUAGUGCUAUUUUUGU.AUUUAGGUUAGCUAUUUAGCUUUACGUUCCAGGAUGCCUAG.UGGC.AGCCCCA.CAA.UAUCCAGGAAGC.CCUCUCUGCGGUUUUUCAGAUUAGGUAGUCGAAAAACC.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................UAAGAAA....UUUACCUGCU-----..----
#=GR URS000080E076_12136/1-190 2NOQ_A_SS ......(((((.........((((((((...(........{{{{{.......).)))))))).......))))).......{{{{.((((....)))).....((((.((((}}}}.(.(((......))).)....)))).))))....}}}}}...(..(((((.....{.{{.{..)))))..).................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................}.}}.}..............
URS000080E194_12136/1-201 .--...AAAAAUGUGAUCUUGCUUGUAA..AUACAAUUUUGAGAGGUUAAUAAAUUACAAGUAGUGCUAUUUUUGU.AUUUAGGUUAGCUAUUUAGCUUUACGUUCCAGGAUGCCUAG.UGGC.AGCCCCA.CAA.UAUCCAGGAAGC.CCUCUCUGCGGUUAUUCAGAUUAGGUAGUCGAAAAACC.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................UAAGAAA....UUUACCUUAAGGCUUccUCGA
#=GR URS000080E194_12136/1-201 4D5N_X_SS ......((.....(.......(((((((............{{{.{.........)))))))......)....)).......{{.....((....)).......((((..(.(..}}....((......)).......).)..))))....}.}}}....(...((..(...{{{{...).))...)....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................}}}}..............
#=GR URS000080E194_12136/1-201 4D61_j_SS ......((.....(.......(((((((............{{{.{.........)))))))......)....)).......{{.....((....)).......((((..(.(..}}....((......)).......).)..))))....}.}}}....(...((..(...{{{{...).))...)....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................}}}}..............
URS000080DD48_12136/1-190 .--...AAAAAUGUGAUCUUGCUUGUAA..AUACAAUUUUGAGAGGUUAAUAAAUUACAAGUAGUGCUAUUUUUGU.AUUUAGGUUAGCUAUUUAGCUUUACGUUCCAGGAUGCCUAG.UGGC.AGCCCCA.CAA.UAUCCAGGAAGC.CCUCUCUGCGGUCGAAAAACCUAGGUAGGUUUU---UC.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................UAAGAAA....UUUACCUAUUUUU--..----
#=GR URS000080DD48_12136/1-190 4V92_AZ_SS ......((............(..(((................{.............)))..)..........))........(.(.((((....))))......{{{.....).)....((........))...........}}}.......}...........(.(((...{{{{{))).)......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................}}}}}...............
URS00008116AA_64698/1-196 .AAgcuGACUAUGUGAUCUUAUUAAAAUuaGGUUAAAUUUCGAGGUUAAAAAUAGUUUUAAUAUUGCUAUAGUCUU.AGAGGUCUUGUAUAUUUAUACUUACCACACAAGAUGGACCG.GAGC.AGCCCUC.CAA.UAUCUAGUGUAC.C-CUCGUGCUCGCUCAAACAUUAAGUGGUGUUGUGCGA.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAGAAU....CUCACUUCAA-----..----
#=GR URS00008116AA_64698/1-196 4XEJ_AIRE_SS ................................................................................................................................................................(.......((.{{{{{))......)....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................}}}}}..............
#=GR URS00008116AA_64698/1-196 4XEJ_BIRE_SS ................................................................................................................................................................((.....(((.{.{{{)))....))....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................}}}.}..............
URS0000A7632F_12136/1-192 .--...AAAAAUGUGAUCUUGCUUGUAA..AUACAAUUUUGAGAGGUUAAUAAAUUACAAGUAGUGCUAUUUUUGU.AUUUAGGUUAGCUAUUUAGCUUUACGUUCCAGGAUGCCUAG.UGGC.AGCCCCA.CAA.UAUCCAGGAAGC.CCUCUCUGCGGCUUUUCAGAUUAGGUAGUCGAAAAACC.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................UAAGAAA....UUUACCUGCUAC---..----
#=GR URS0000A7632F_12136/1-192 5IT9_i_SS ......(((((..........((((.................{{{............))))........)))))..........{.((((....)))).....((((.((..}....(..((......))..)......)).))))....}}}..........((((....{{{{{..)))).......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................}}}}}..............
#=GR URS0000A7632F_12136/1-192 7JQC_i_SS .....................(...(.(..............{...........).)...)..........................................(.....(.......(..(.......)...)......).....)......}.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................
URS0000D56C4A_12136/1-194 .--...AAAAAUGUGAUCUUGCUUGUAA..AUACAAUUUUGAGAGGUUAAUAAAUUACAAGUAGUGCUAUUUUUGU.AUUUAGGUUAGCUAUUUAGCUUUACGUUCCAGGAUGCCUAG.UGGC.AGCCCCA.CAA.UAUCCAGGAAGC.CCUCUCUGCGGUUUUUCAGAUUAGGUAGUCGAAAAACC.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................UAAGAAA....UUUACCUCUCUAGU-..----
#=GR URS0000D56C4A_12136/1-194 6D90_4_SS ..........................(....(...................)..)..........................{{{....((....)).......((((.((.(.}}}...(((......)))......).)).)))).............(...((..(..........).))...)......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................
URS0000D56C35_12136/1-190 .--...AAAAAUGUGAUCUUGCUUGUAA..AUACAAUUUUGAGAGGUUAAUAAAUUACAAGUAGUGCUAUUUUUGU.AUUUAGGUUAGCUAUUUAGCUUUACGUUCCAGGAUGCCUAG.UGGC.AGCCCCA.CAA.UAUCCAGGAAGC.CCUCUCUGCGGUUUUUCAGAUUAGGUAGUCGAAAAACC.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................UAAGAAA....UUUACCUCUU-----..----
#=GR URS0000D56C35_12136/1-190 6D9J_4_SS ......((.............((((((............................))))))...........)).......{{.....((....)).......((((.(..(..}}....((......)).......)..).))))...............((...................))........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................
URS0002617726_12136/1-1072 .-C...AAAAAUGUGAUCUUGCUUGUAA..AUACAAUUUUGAGAGGUUAAUAAAUUACAAGUAGUGCUAUUUUUGU.AUUUAGGUUAGCUAUUUAGCUUUACGUUCCAGGAUGCCUAG.UGGC.AGCCCCA.CAA.UAUCCAGGAAGC.CCUCUCUGCGGUUAUUCAGAUUAGGUAGUCGAAAAACCuaagaaauuuaccuugaggcuucggagucgucuuaauguauagauuugaagaagagcuguuuuuacgaucccuucaggauuacaaaauucaaagugcguugcuaguaccaacccuauuuucauucuucgccaaaagcacucugauugacaaauacgauuuaucuaauuuacacgaaauugcuucugggggcgcaccucuuucgaaagaagucggggaagcgguugcaaaacgcuuccaucuuccagggauacgacaaggauaugggcucacugagacuacaucagcuauucugauuacacccgagggggaugauaaaccgggcgcggucgguaaaguuguuccauuuuuugaagcgaagguuguggaucuggauaccgggaaaacgcugggcguuaaucagagaggcgaauuaugugucagaggaccuaugauuauguccgguuauguaaacaauccggaagcgaccaacgccuugauugacaaggauggauggcuacauucuggagacauagcuuacugggacgaagacgaacacuucuucauaguugaccgcuugaagucuuugauuaaauacaaaggauaucagguggcccccgcugaauuggaaucgauauuguuacaacaccccaacaucuucgacgcgggcguggcaggucuucccgacgaugacgccggugaacuucccgccgccguuguuguuuuggagcacggaaagacgaugacggaaaaagagaucguggauuacgucgccagucaaguaacaaccgcgaaaaaguugcgcggaggaguuguguuuguggacgaaguaccgaaaggucuuaccggaaaacucgacgcaagaaaaaucagagagauccucauaaaggcc-AAGAAGggcgGAAAGUCCAAAUUGU..AAAA
#=GR URS0002617726_12136/1-1072 7ZJW_I_SS ........................................................................................((....))........(......................................)...............(...((..(((.{{{{{))).))...)..........}}}}}.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................
URS0002616B80_12136/1-163 ------AAAAAUGUGAUCUUGCUUGUAA--AUACAAUUUUGAGAGGUUAAUAAAUUACAAGUAGUGCUAUUUUUGU-AUUUAGGUUAGCUAUUUAGCUUUACGUUCCAGGAUGCCUAG-UGGC-AGCCCCA-CAA-UAUCCAGGAAGC-CCUCUCUGCGGCUUUUCAACCUUG--AGGC---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
#=GR URS0002616B80_12136/1-163 7ZJX_I_SS .................................................................................{....((((....)))).......(...(.....}.(..............)......)...)................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................
#=GC SS_cons .<<...<<<<<<<------<<<<<<<<<..__________AAAAAAA_______>>>>>>>>>---->>>>>>>>>.,,,BBBB,,<<<<____>>>>,,,,,<<<<-<<<<<bbbb<.<<<_.____>>>.>--.>>>>>->>>>,a.aaaaaa,,,<<<<<---<<<<_CCCCC>>>>-->>>>>.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................:::::::....::ccccc::::::::..::::
#=GC RF .cc...gAcuaUGUGAUCUUgCuugcgg..auaaAAAUuUuaaaggUaaaAAAaccgcaaGuAuUGCUAuagUcgg.AauuagcUUagcUAUUUAgcuUUACugccCAgGAuggcuug.ugGC.AGCCCca.cAA.uaUCcAGggcac.ccuuuaugcugccuuauagguUAgGUagccuUuaggca.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................uaAgAaa....UUuACcUGCuaAaaa..uaAu
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