rrlE

cmscan-Rfam

Family :

LSU_rRNA_bacteria

Id:

RF02541

Type:

Gene; rRNA;

Taxonomy:

Eukaryota; Bacteria; Viruses; Archaea;

Ontology:

GO:0003735 structural constituent of ribosomeRF02541

Description:

not description

Score:

2889.3

E-value:

0

From sequence:

1

To sequence:

2904

Alignments:

                                                                                                                    NC
               {{{{{{{{,,,,,,{{{{{{{{{{-----{{{,,{{{{{{{{{{{[[,,,,,((((<<<________>>>,,,,,<<<<<<<--<<<_______>>>--- CS
  RF02541    1 ggucaagcuauuAAggGCgcgcGGuGGAUGCCUuGGcgccgggaggCGAuGAgGGaCGcGguaagCugCGAuAAGCcccGgggAGccGcaAacAggCuuu 100 
               GGU:AAGC A UAA::G::C:CGGUGGAUGCC UGGC:::::GAGGCGAUGA:GGACG:G UAA CU:CGAUAAGC::CGG: AG::G +A  A::C UU
     rrlE    1 GGUUAAGCGACUAAGCGUACACGGUGGAUGCCCUGGCAGUCAGAGGCGAUGAAGGACGUGCUAAUCUGCGAUAAGCGUCGGUAAGGUGAUAUGAACCGUU 100 
               *************************************************************************************************888 PP

                                                                                                                    NC
               -.->>>>>>>,,,)))),,,<<<____>>><<<<<<<______>>>>>>>,<<<<<<<<<_________>>>>>>>>>,]],,,<<<<<<-----<<___ CS
  RF02541  101 G.AccCgggGAUuuCCcAAUgGGGaAACCcgcccgggguaauacccgggcAcccccggccGAAuacAUAggccgggggaGcaAACccgGgGAAcUGaAAC 199 
                 A:CCG::GAUUUCC:AAUGGGGAAACCC:::::G:  ++  :C:::::A:C:::::C:GAAU CAUA:G:::::G:+GC+AACC:GGGGAACUGAAAC
     rrlE  101 AuAACCGGCGAUUUCCGAAUGGGGAAACCCAGUGUGU--UUCGACACACUAUCAUUAACUGAAUCCAUAGGUUAAUGAGGCGAACCGGGGGAACUGAAAC 198 
               77***********************************..6778********************************************************* PP

                                                                                                                    NC
               _>>------>>>>>->,,,,,,,,,<<____>>,,{<<<<<-----<<_____>>---->>>>>,,[[[[,,,,<<<<<<<________>>>>>>>,,,, CS
  RF02541  200 AuCUaAGUAcCcggAGGAAAAGAAAgcAAaagcgAuuCCccuAGUAGcGGCGAgCGAAaggGGaauaGcCcAAACcggggguuauuguucccccgGGGUu 299 
               AUCUAAGUACCC:GAGGAAAAGAAA:CAA  G:GAUUCCCC AGUAGCGGCGAGCGAA+GGGGA  AGCCCA                            
     rrlE  199 AUCUAAGUACCCCGAGGAAAAGAAAUCAACCGAGAUUCCCCCAGUAGCGGCGAGCGAACGGGGAGCAGCCCA---------------------------- 270 
               **********************************************************************98............................ PP

                         v                                                                                        v NC
               ,,(((-(((((-------(((((((((((((-(((,,,<<<<<______>>>>>,,<___>,<<<_______>>>,,,)))---)))))))))))))--) CS
  RF02541  300 gugGGacccccaaauuaagagccccccggcuAgccGAAcggccUGGAAaggccgaCCauAGagGGUGAuAGuCCcGUAggcgaAagccggggggcucuug 399 
                     :::C +   +A+:AG: ::::: :UAG::GAA::G:CUGGAAAG:C::+C:AUA:AGGGUGA AG+CCCGUA::C AAA: ::::: :CU:U  
     rrlE  271 ------GAGCCUG--AAUCAGUGUGUGUGUUAGUGGAAGCGUCUGGAAAGGCGCGCGAUACAGGGUGACAGCCCCGUACACAAAAAUGCACAUGCUGUGA 362 
               ......9999988..899*********************************************************************************9 PP

                                                                                                                    NC
               ))))---))),,,,,<<<<<<<<<_______>>>>>>>>>,,,,,,<<<<<______>>>>>,,]]]],,},,}}-}}}}}}}-}},,,,,,,,,,,,,, CS
  RF02541  400 gggguauCCcgAGUAgggCggggcAcGuGaAgccccGcccGAAuaugggggGACCAccccccAAGgCuAAaUAcuccccggcgACCGAUAGuGaAcuAGU 499 
               G:::+AU   GAGUA:G:C:GG::ACGUG  ::CC:G:C:GAAUAUGG:GGGACCA+CC:CCAAGGCUAAAUACUCC:::::GACCGAUAGUGAAC AGU
     rrlE  363 GCUCGAU---GAGUAGGGCGGGACACGUGGUAUCCUGUCUGAAUAUGGGGGGACCAUCCUCCAAGGCUAAAUACUCCUGACUGACCGAUAGUGAACCAGU 459 
               9999998...****************************************************************************************** PP

                                                                                                                    NC
               ,<<____>>,,,,}},,,,,,,,,<<<<_____>>>>,,,,,,,,,,,,,}-----}}}}}}}}}},,,,,{,<<<<<<<<<<<________>>>>>>>> CS
  RF02541  500 ACCGUGAGGGAAAGGUGAAAAGaACCCcggugAgGGGAGUGAAAuAGaaCCUGAAACCgcgcGCccACAAgcaGucGcggcccgauuuuaaucgggccgC 599 
               ACCGUGAGGGAAAGG GAAAAGAACCCCGG+GAGGGGAGUGAAA AGAACCUGAAACCG:G::C::ACAAGCAGU G:::C:CG   UUA+ CG:G:::C
     rrlE  460 ACCGUGAGGGAAAGGCGAAAAGAACCCCGGCGAGGGGAGUGAAAAAGAACCUGAAACCGUGUACGUACAAGCAGUGGGAGCACG--CUUAGGCGUGUGAC 557 
               ************************************************************************************..667777******** PP

                    v              v                                                                                NC
               >>>,,<<<<________>>>>{{{{{{,,,,(((((((((((((,,<<<<--<<<_____>>>-->>>>,,,<<____>>,<<<<<_____>>>>>,,,, CS
  RF02541  600 ggCGUcCcUUUUGuAuAAgGggcCggCGAgUugccgcgcgcggCaAGguUAAgccugauaggcGuAgcCGuAGcGAAAgCGcGuCcgAAuAgGgCgauuA 699 
                GCGU C:UUUUGUAUAA:G G:C:GCGA UU::: :::G::GCAAGGUUAA:C  +AUA G:G+AGCCG+AG:GAAA:CG:GUC:+AA  :GGC:+U+A
     rrlE  558 UGCGUACCUUUUGUAUAAUGGGUCAGCGACUUAUAUUCUGUAGCAAGGUUAACC-GAAUA-GGGGAGCCGAAGGGAAACCGAGUCUUAACUGGGCGUUAA 655 
               *****************************************************9.67777.99************************************* PP

                                                                                                                    NC
               ))))))))))))),,[[-[---[[[[[[,,,((((((((((((,<<<<---<<<<<<<____>>>>>>>---->>>>,,,<<<-<<<<<________>>> CS
  RF02541  700 GucgcgcgcggcaGACcCGAAACcggGuGAuCuaccCauggcCAGGguGAAgccgggcUAAagcccgguGGAGgcCCGAACccacgcccGUUGAAAAggg 799 
               GU::C::: :::AGACCCGAAACC:GGUGAUC A:CCAUG :CAGG:UGAAG::: G:UAA+:C :::UGGAGG:CCGAACC:AC::::GUUGAAAA:::
     rrlE  656 GUUGCAGGGUAUAGACCCGAAACCCGGUGAUCUAGCCAUGGGCAGGUUGAAGGUUGGGUAACACUAACUGGAGGACCGAACCGACUAAUGUUGAAAAAUU 755 
               **************************************************************************************************** PP

                                                                                                                    NC
               >>>>>,,)-))))))))))),<<<_____>>>,,,,,,]]]]]]------]-]],,[[[[[[,,,,<<<<<____>>>>>,<<<<<<<<--<<<<<<<<< CS
  RF02541  800 cgggGAUGAgcuguGgguaGgGGcGAAAggCCAAUCaAaCccgGaGAUAGCUgGUUCUCccCGAAAugccuUuAGgggcaGCgucgggcgaucccccccg 899 
               :G:GGAUGA: UGUGG:U GGGG:GAAAG:CCAAUCAAACC:GGAGAUAGCUGGUUCUCCCCGAAA::::UUUAGG::::GC:UCG:G:++UC::C:CCG
     rrlE  756 AGCGGAUGACUUGUGGCUGGGGGUGAAAGGCCAAUCAAACCGGGAGAUAGCUGGUUCUCCCCGAAAGCUAUUUAGGUAGCGCCUCGUGAAUUCAUCUCCG 855 
               **************************************************************************************************** PP

                v                                                              v                                    NC
               <<----<<<---<<<-<<<<---<<<<<<<____.>>>>>->>--->>>>->>>-->>->---->>>>>>>.>>>-->>>>>>>>->,,,<<<<<<<<<< CS
  RF02541  900 gcGGUAgaGCACuggaugggcuAgGgggccuaaa.ggccuACcaAacccaaccaAACuccGAAUgccgggg.gggaaagcccggcAGucAgaccgcgggc 997 
               G GGUAGAGCACUG +U:GGC+AGGG:G:C + + G:C:UACCAA CC:A  CAAACU CGAAU CCGG:G ::G++A:C:CGG:AG+CA:AC::CGGG:
     rrlE  856 GGGGUAGAGCACUGUUUCGGCAAGGGGGUCAUCCcGACUUACCAACCCGAUGCAAACUGCGAAUACCGGAGaAUGUUAUCACGGGAGACACACGGCGGGU 955 
               ******************************99989************************************99*************************** PP

                                                                                                  vv                NC
               ______>>>>>>>>>>,,,,<<<______>>>,,,((((-(((---(((------(-((((((-----------(((-((((((((((-------((((( CS
  RF02541  998 GaUAAgguccgcggucgAgAGGGaAAcAaCCCAGAcCgcCagcUAAGGuCCCuAAgugcggGcUAAGUGggAAAGGcuGuggggccgCuaAgACAaCcaG 1097
               G+UAA :UCCG::GU:+AGAGGGAAACAACCCAGACCGCCAGCUAAGGUCCC+AAGU:::GG:UAAGUGGGAAA:G:UGU:GG  ::C  AGACA:CCAG
     rrlE  956 GCUAACGUCCGUCGUGAAGAGGGAAACAACCCAGACCGCCAGCUAAGGUCCCAAAGUCAUGGUUAAGUGGGAAACGAUGUGGGAAGGCCCAGACAGCCAG 1055
               **************************************************************************************************** PP

                                                                          vv                                        NC
               ,<<<--<<<_________>>>-->>><___><---<<______>>->,)))))---)))))))))))))--------------------))))))))))- CS
  RF02541 1098 GAgGUUGGCUUAGAAGCAGCCAUCcUuuAAaGAguGCGUAAuAGCUCACugGuCaAGcggccccgCgCCGAaAAUguaaCGGGGCUcAAgCccgccaCCG 1197
               GA:GUUGGCUUAGAAGCAGCCAUC:UUUAAAGA++GCGUAAUAGCUCACUGG:C+AG::  CC:GC:C:GAA AUGUAACGGGGCU AA:CC:::CACCG
     rrlE 1056 GAUGUUGGCUUAGAAGCAGCCAUCAUUUAAAGAAAGCGUAAUAGCUCACUGGUCGAGUCGGCCUGCGCGGAAGAUGUAACGGGGCU-AAACCAUGCACCG 1154
               **************************************************************************************.************* PP

                                                               vv                                    vv             NC
               --)))))))<<<<<<<<._____>>>>>>>>,,,,]]]]]]<-<<<<<<<.<<<------<<<<<<<<____>>>>>>>>--->>>>>>>>>>-->,,,, CS
  RF02541 1198 AAgcugcGggcucgcgg.uuuaaccgcgagcGGUAGggGAGCguuccgcc.cgcgguGAAggcgccccGuaAggggcgccGGAgcgggcggaaGuGAgaA 1295
               AAGCUGCGG:: C ::G UU++ C:: G ::GGUAGGGGAGCGUUC:G   ::C+G GAA:G: ::C:GU+A:G:: :C:GGAG::  C:GAAGUG GAA
     rrlE 1155 AAGCUGCGGCAGCGACGcUUAUGCGUUGUUGGGUAGGGGAGCGUUCUGUAaGCCUGCGAAGGUGUGCUGUGAGGCAUGCUGGAGGUAUCAGAAGUGCGAA 1254
               *****************888899*************************9999************************************************ PP

                                                                                                            v       NC
               ,}}}}}}{{-----{{,,,,,<<<<<<_______>>>>>>{{{{,,,,{{{{,,{{,,,<<<<<<---<<_____>>->>>>>>,,,,,,[[[[,<<--- CS
  RF02541 1296 UGccGgcacgAGUAgCGAuAAgggggGUGAGAAuCcccccCGCCGaAAgcCcAAGGuUUCCuggguAAgGuUaaUCcgcccaGGGUuAGuCGggaCCUAA 1395
               UGC:G:CA:+AGUA:CGAUAA:G:GGGUGA AA CCC:C:CGCCG AAG:CCAAGG UUCCUG :+AA:GUUAAUC:G: CAGGGU AGUCG: +CCUAA
     rrlE 1255 UGCUGACAUAAGUAACGAUAAAGCGGGUGAAAAGCCCGCUCGCCGGAAGACCAAGGGUUCCUGUCCAACGUUAAUCGGGGCAGGGUGAGUCGACCCCUAA 1354
               **************************************************************************************************** PP

                                                                                          v                         NC
               <<<-<-<<<____>>>->->>>--->>,,,<<<<<________>>>>>,,(((((((((((-----((--((((((---((((--(((--(((((<<<<< CS
  RF02541 1396 GgcGaGGccGAaAggCGuAgcCGAUGGaaAgcgGGUuAAuAuUCCcgcaCcgcccggggccuuuaagcgacGgggcGACgcagaaggcuaggcgcgcggg 1495
               G:CGAGGCCGAAAGGCGUAG:CGAUGG+AA:C:GGUUAAUAUUCC:G:AC::: :G:::C:     GCGA:G:GG GACG:AGAAGGCUA:G::::C:GG
     rrlE 1355 GGCGAGGCCGAAAGGCGUAGUCGAUGGGAAACAGGUUAAUAUUCCUGUACUUGGUGUUACU-----GCGAAGGGGGGACGGAGAAGGCUAUGUUGGCCGG 1449
               *************************************************************.....********************************** PP

                                                                                            vv              vv      NC
               <__________>>>>>><<--<<<<---<<<.-<<<<<<<-<<_____>>>>>>>>>---.>>>--->>>>--->>,<<<<<<<____>>>>>>>,,))) CS
  RF02541 1496 cuguuGGaagugcccgcccaagcccuuaggc.uggggggcAGguAAAucCgccccccaau.gccgaggggcgaugggccgccgcuuaagcggcggaggcg 1593
               : G+ GG++GU:CC:G:::AA:C::+UA:GC + :::::CAGG+AAAUCCG:::::  A+ GC:GAG::G:GAU::    :C:CU+ +G:G:   AG:::
     rrlE 1450 GCGACGGUUGUCCCGGUUUAAGCGUGUAGGCuGGUUUUCCAGGCAAAUCCGGAAAAUCAAgGCUGAGGCGUGAUGACGAGGCACUACGGUGCUGAAGCAA 1549
               *******************************999999999**********99999998888*************************************** PP

                                      v                        v                                                    NC
               ))---)))---))))--------))))))--))---.)))))))))))]]]],,}},,,,,<<______>>,}}}},<<<<_____>>>>,,}}}},,{{ CS
  RF02541 1594 ccgaagccaugcugcCaaGAAAAgcccCgaagcuaa.ggccccgggcgccCGUACCguAAACCGACACAGGUgGgcagGgaGAGaAucCcaAGGCGcucG 1692
               C:+A+GCC UGCU:CCA GAAAA CC:C:AAGC++  :G:::C: ::: :CGUACC +AAACCGACACAGGUGG:CAGG:AGAGAAU:CCAAGGCGCU:G
     rrlE 1550 CAAAUGCCCUGCUUCCAGGAAAAGCCUCUAAGCAUCaGGUAACAUCAAAUCGUACCCCAAACCGACACAGGUGGUCAGGUAGAGAAUACCAAGGCGCUUG 1649
               **********************************989*************************************************************** PP

                                                                                       vvvv        vvvv             NC
               {{----{{{{{{{{-{{{,,,,,,,,,,,,,,<<<<<---<<____>>---->>>>><<<<<<.........<<<<<<____>>>>>>............ CS
  RF02541 1693 gGagAAcccuggucAAGgAACUCGGCAAAaUagcccCGUAccUUcGggAgAAGgggcgCCccc.........ccgggcguaagcccgg............ 1771
               :GAGAAC:C:GGU:AAGGAACU GGCAAAAU+G::CCGUA:CUUCGG:AGAAGG::C:C::::             ::GU  ::C  G            
     rrlE 1650 AGAGAACUCGGGUGAAGGAACUAGGCAAAAUGGUGCCGUAACUUCGGGAGAAGGCACGCUGAUauguaggug----AGGUCCCUCGCGgauggagcugaa 1745
               ***************************************************************998885443....333333333333555555677778 PP

                                                                                                                    NC
               >>>>>><___>,,,,,,,[[[[[[[[[,,<<<_________>>>,,<<<<<<<<<--<<<<____>>>>-->-->>>>>>>>,,((((,<<<--<<<<<< CS
  RF02541 1772 gggGGccGCAgagAauaGGcccgggCGACUGuUUAccAAAAaCACAggccucugCuAagucGuAAgacgAuGUAuaggggcuGAcGCCUGCCCGGUgCcg 1871
               ::::G:CG AGA A  AG::::: :C:ACUGUUUA++AAAAACACAG::CU:UGC+AA::CG+AAG::GA+GUAUA:GG::UGACGCCUGCCCGGUGCCG
     rrlE 1746 AUCAGUCGAAGAUACCAGCUGGCUGCAACUGUUUAUUAAAAACACAGCACUGUGCAAACACGAAAGUGGACGUAUACGGUGUGACGCCUGCCCGGUGCCG 1845
               **************************************************************************************************** PP

                        vv vv                       vv vv                                                           NC
               <--<<<---<<-<<<<<<<--<<____>>--->>>>>>>->>--->>>>>>>>-->>>>><<<<<<_______>>>>>><___>,,,,,<---------< CS
  RF02541 1872 GAAGGuUAAgggccgggGuuAgcGcaAgcgAAgCcccggAccgAAgCCCcgGuAAACGGCGgCCGUAACUAUAACGGuCCUAAGGUAGCGAAAUUCCUUG 1971
               GAAGGUUAA  G  :G:GUUAGCGCAAGCGAAGC:C:  A  GAAGCCCCGGUAAACGGCGGCCGUAACUAUAACGGUCCUAAGGUAGCGAAAUUCCUUG
     rrlE 1846 GAAGGUUAAUUGAUGGGGUUAGCGCAAGCGAAGCUCUUGAUCGAAGCCCCGGUAAACGGCGGCCGUAACUAUAACGGUCCUAAGGUAGCGAAAUUCCUUG 1945
               **************************************************************************************************** PP

                                                                                                                    NC
               <<<<<_____>>>>>>>,,,,,,,,,)))),,,]]-]]]]]]],,,,}}}-}}}}}}}}-}}}}}}----}}},,,,<<<<<________>>>>>,,{{{ CS
  RF02541 1972 uCGGgUAAGUuCCGaCCuGCACGAAuGGCgUAACGAcccgggCgCUGuCUCgaccagggaCcCgGcGAAAguguAgUgccgGUgAAGAUGCcggcUaCcC 2071
               UCGGGUAAGUUCCGACCUGCACGAAUGGCGUAA:GA: :::::GCUGUCUC:ACC:G:GAC:C:G:GAAA:UG+A U: C:GUGAAGAUGC:G :UACCC
     rrlE 1946 UCGGGUAAGUUCCGACCUGCACGAAUGGCGUAAUGAUGGCCAGGCUGUCUCCACCCGAGACUCAGUGAAAUUGAACUCGCUGUGAAGAUGCAGUGUACCC 2045
               **************************************************************************************************** PP

                                                                         v                                          NC
               {{{{{-{{{-{{,,,,,,{{{{-{{{{{{{,((((---(((((((,,<<<<<<<<<<<<<<<<<<---------<<<<<--<<<------<<<<<<<<__ CS
  RF02541 2072 gCggcugGACgGAAAGACCCCGUGgAcCUUUACUguAgccuggcauUGgcccccggcgcggcccGUguAGgAUAgGuGGGAGgCuuuGAAgccggggcgc 2171
               :CGGC+:GACGGAAAGACCCCGUG:ACCUUUACU:UAGC::G:CA UG::C::::: : :: ::GUGUAGGAUAGGUGGGAGGCUUUGAA:::::G:CGC
     rrlE 2046 GCGGCAAGACGGAAAGACCCCGUGAACCUUUACUAUAGCUUGACACUGAACAUUGAGCCUUGAUGUGUAGGAUAGGUGGGAGGCUUUGAAGUGUGGACGC 2145
               **************************************************************************************************** PP

                                                      v                                                             NC
               __>>>>>>>>--->>>------------>>>>>>>>>>>>>>>>>>>>>>>,,,<<<-<<<<<<_____>>>>>>>>>,,,,,)))))))----)))),, CS
  RF02541 2172 uAgccccggcGGAGcCaacguUGAaAUACCaCcCgggccgcgccgggggcCUAACccagccccguaAuccggggcggGGACagugccagguGGGcAGUUU 2271
               +AG:C:::::GGAGCC+AC UUGAAAUACCACCC:: :: : :::::G::CUAAC::+ :CCCGUAAUCCGGG: ::GGACAGUG:C::GUGGG:AGUUU
     rrlE 2146 CAGUCUGCAUGGAGCCGACCUUGAAAUACCACCCUUUAAUGUUUGAUGUUCUAACGUUGACCCGUAAUCCGGGUUGCGGACAGUGUCUGGUGGGUAGUUU 2245
               **************************************************************************************************** PP

                                                                                                                    NC
               <<<<_____>>>><<<<<<___________>>>>>>{,[[,,,,((((((<<-<<<<<<_______>>>>>>--->><<______>>,,,,)))))),,, CS
  RF02541 2272 GaCuGGGGCgGuCgCCUCCuAAAgaGUAACGGAGGcGcgCaAAGGuuccCUCAgcgcGguuGGaAAcCgcgcguaGAGcGcAAaggCAuAAGggagCuUg 2371
               GACUGGGGCGGUC:CCUCCUAAAGAGUAACGGAGG:GC:C+AAGGUU::CU:A:C::G:U+GGA A:C::G:G +:AG:GCAA+G:CAUAAG::AGCUUG
     rrlE 2246 GACUGGGGCGGUCUCCUCCUAAAGAGUAACGGAGGAGCACGAAGGUUGGCUAAUCCUGGUCGGACAUCAGGAGGUUAGUGCAAUGGCAUAAGCCAGCUUG 2345
               **************************************************************************************************** PP

                                                                                                                    NC
               ,<<<<<<<<<______>>>>>>>>>,<<<____>>>,]],,,,,,,,,,<<<<<<<-<<________>>>>>>>>>,,,,,},,,,,,}}}}}--}}}}} CS
  RF02541 2372 ACuGcccGacugACAaguCgggCaGaggCGAAAGccGGccuUAGUGAUCCggcGGcuccgagUGGaAgggCCgucGCUCAACGGAUAAAAGgUACcCCGG 2471
               ACUGC::G::UGAC  ::C::GCAG+:GCGAAAGC:GG:C+UAGUGAUCCGG:GG:UC:GA+UGGAA:G:CC:UCGCUCAACGGAUAAAAGGUAC:CCGG
     rrlE 2346 ACUGCGAGCGUGACGGCGCGAGCAGGUGCGAAAGCAGGUCAUAGUGAUCCGGUGGUUCUGAAUGGAAGGGCCAUCGCUCAACGGAUAAAAGGUACUCCGG 2445
               **************************************************************************************************** PP

                                                                                                                    NC
               },,,,,,,,<<<-<<<<<<<<---<<_______>>--->>>>>>>-->>>>,,,,,,,,,,(((((((((((,,<<-<<<<<<______>>>>>>--->> CS
  RF02541 2472 GGAUAACAGGCugAucccccCCAAGaGUuCAuAuCGACGggggggUUUgGCACCUCGAUGUCgGCUCauCgCAUCCUGGGgCuGgAGuAgGuCCCAAGGG 2571
               GGAUAACAGGCUGAU:CC:CCCAAGAGUUCAUAUCGACGG:GG:GUUUGGCACCUCGAUGUCGGCUCAUC:CAUCCUGGGGCUG+AGUAGGUCCCAAGGG
     rrlE 2446 GGAUAACAGGCUGAUACCGCCCAAGAGUUCAUAUCGACGGCGGUGUUUGGCACCUCGAUGUCGGCUCAUCACAUCCUGGGGCUGAAGUAGGUCCCAAGGG 2545
               **************************************************************************************************** PP

                                                                                                                    NC
               ,<<<<<_____>>>>>,,,,,)))))--)--))))-),,,,,<<<<<<<____>>>->>>>,,,,}}--}}}}}}}}}}},,,,((((((((--((((,, CS
  RF02541 2572 UucGGCUGUUCGCCgaUUAAAGcGguACGuGAGCuGGGUUcAGaaCGUCGUGAGACAGuuCGGUCCcUAUCcgccGcGgGcGuaGGaggccUGAggGgau 2671
               U::GGCUGUUCGCC::UUAAAG:GGUACG+GAGCUGGGUU+AGAACGUCGUGAGACAGUUCGGUCCCUAUC:GCCG:GGGCG +GGAG::CUGAGGGG +
     rrlE 2546 UAUGGCUGUUCGCCAUUUAAAGUGGUACGCGAGCUGGGUUUAGAACGUCGUGAGACAGUUCGGUCCCUAUCUGCCGUGGGCGCUGGAGAACUGAGGGGGG 2645
               **************************************************************************************************** PP

                                                                                                                    NC
               <<<<<<<_______________>>>>>>><<<<<<---<<<----<<<<<<<<<<<____>>>>>>-->>>>>---->>>->>>>>>,,<<<----<<<< CS
  RF02541 2672 ccgccccUAGUACGAGAGGACCggggcgggCggaCCucugGUGuacCgGuuGucgcGCcAgcggCauugCcGgGUAGCcauGuccGcaaggGAUAAcCGC 2771
               C::C:CCUAGUACGAGAGGACCGG:G::G:CG:A:C+CU:GUGU C:GGUUGUC::GCCA::GGCA UGCC:GGUAGC:A+:U:CG:AA :GAUAA::GC
     rrlE 2646 CUGCUCCUAGUACGAGAGGACCGGAGUGGACGCAUCACUGGUGUUCGGGUUGUCAUGCCAAUGGCACUGCCCGGUAGCUAAAUGCGGAAGAGAUAAGUGC 2745
               **************************************************************************************************** PP

                                                                                  vv                             vv NC
               <___________>>>>>---->>>,))))------)))))))),,<<<...._____>>>.,(--((((<<<<<_______>>>>>,,,,<<<<<<<<<< CS
  RF02541 2772 UGAAaGCAUCUAAGCGgGAAgCccacCccAAGAuaAggccuCCcucgg....uaaauccg.uuaAGgccccuggaAGAcuAccaggUuGAuaGgccggcg 2866
               UGAAAGCAUCUAAGC::GAA+C:  CCCC AGAU AG::CUCCCU:::    U A +::: U AAGG  C:U:GAAGAC AC:A:GUUGAUAGGCCGG  
     rrlE 2746 UGAAAGCAUCUAAGCACGAAACUUGCCCCGAGAUGAGUUCUCCCUGACuccuUGAGAGUCcUGAAGGAACGUUGAAGACGACGACGUUGAUAGGCCGGGU 2845
               ************************************************988656677999789************************************* PP

                                        vv             vv                  NC
               <--<--<<<<<____>>>>>>--->>>->>>>>->>>,,,))))-),,,}}}}}}}}:: CS
  RF02541 2867 GUGcAAgcgcgGuAAcgcgcguAGCcgAccgguACuaAUaggcCgauaggcuugaccuu 2925
               GUG:AA:CGC:G+ A:GCG:: AGC  ACCGGUACUAAU   CCG  AGGCUU:ACCUU
     rrlE 2846 GUGUAAGCGCAGCGAUGCGUUGAGCUAACCGGUACUAAUGAACCGUGAGGCUUAACCUU 2904
               *********************************************************** PP

RNAfold

>rrlE
GUUAAGCGACUAAGCGUACACGGUGGAUGCCCUGGCAGUCAGAGGCGAUG
AAGGACGUGCUAAUCUGCGAUAAGCGUCGGUAAGGUGAUAUGAACCGUUA
UAACCGGCGAUUUCCGAAUGGGGAAACCCAGUGUGUUUCGACACACUAUC
AUUAACUGAAUCCAUAGGUUAAUGAGGCGAACCGGGGGAACUGAAACAUC
UAAGUACCCCGAGGAAAAGAAAUCAACCGAGAUUCCCCCAGUAGCGGCGA
GCGAACGGGGAGCAGCCCAGAGCCUGAAUCAGUGUGUGUGUUAGUGGAAG
CGUCUGGAAAGGCGCGCGAUACAGGGUGACAGCCCCGUACACAAAAAUGC
ACAUGCUGUGAGCUCGAUGAGUAGGGCGGGACACGUGGUAUCCUGUCUGA
AUAUGGGGGGACCAUCCUCCAAGGCUAAAUACUCCUGACUGACCGAUAGU
GAACCAGUACCGUGAGGGAAAGGCGAAAAGAACCCCGGCGAGGGGAGUGA
AAAAGAACCUGAAACCGUGUACGUACAAGCAGUGGGAGCACGCUUAGGCG
UGUGACUGCGUACCUUUUGUAUAAUGGGUCAGCGACUUAUAUUCUGUAGC
AAGGUUAACCGAAUAGGGGAGCCGAAGGGAAACCGAGUCUUAACUGGGCG
UUAAGUUGCAGGGUAUAGACCCGAAACCCGGUGAUCUAGCCAUGGGCAGG
UUGAAGGUUGGGUAACACUAACUGGAGGACCGAACCGACUAAUGUUGAAA
AAUUAGCGGAUGACUUGUGGCUGGGGGUGAAAGGCCAAUCAAACCGGGAG
AUAGCUGGUUCUCCCCGAAAGCUAUUUAGGUAGCGCCUCGUGAAUUCAUC
UCCGGGGGUAGAGCACUGUUUCGGCAAGGGGGUCAUCCCGACUUACCAAC
CCGAUGCAAACUGCGAAUACCGGAGAAUGUUAUCACGGGAGACACACGGC
GGGUGCUAACGUCCGUCGUGAAGAGGGAAACAACCCAGACCGCCAGCUAA
GGUCCCAAAGUCAUGGUUAAGUGGGAAACGAUGUGGGAAGGCCCAGACAG
CCAGGAUGUUGGCUUAGAAGCAGCCAUCAUUUAAAGAAAGCGUAAUAGCU
CACUGGUCGAGUCGGCCUGCGCGGAAGAUGUAACGGGGCUAAACCAUGCA
CCGAAGCUGCGGCAGCGACGCUUAUGCGUUGUUGGGUAGGGGAGCGUUCU
GUAAGCCUGCGAAGGUGUGCUGUGAGGCAUGCUGGAGGUAUCAGAAGUGC
GAAUGCUGACAUAAGUAACGAUAAAGCGGGUGAAAAGCCCGCUCGCCGGA
AGACCAAGGGUUCCUGUCCAACGUUAAUCGGGGCAGGGUGAGUCGACCCC
UAAGGCGAGGCCGAAAGGCGUAGUCGAUGGGAAACAGGUUAAUAUUCCUG
UACUUGGUGUUACUGCGAAGGGGGGACGGAGAAGGCUAUGUUGGCCGGGC
GACGGUUGUCCCGGUUUAAGCGUGUAGGCUGGUUUUCCAGGCAAAUCCGG
AAAAUCAAGGCUGAGGCGUGAUGACGAGGCACUACGGUGCUGAAGCAACA
AAUGCCCUGCUUCCAGGAAAAGCCUCUAAGCAUCAGGUAACAUCAAAUCG
UACCCCAAACCGACACAGGUGGUCAGGUAGAGAAUACCAAGGCGCUUGAG
AGAACUCGGGUGAAGGAACUAGGCAAAAUGGUGCCGUAACUUCGGGAGAA
GGCACGCUGAUAUGUAGGUGAGGUCCCUCGCGGAUGGAGCUGAAAUCAGU
CGAAGAUACCAGCUGGCUGCAACUGUUUAUUAAAAACACAGCACUGUGCA
AACACGAAAGUGGACGUAUACGGUGUGACGCCUGCCCGGUGCCGGAAGGU
UAAUUGAUGGGGUUAGCGCAAGCGAAGCUCUUGAUCGAAGCCCCGGUAAA
CGGCGGCCGUAACUAUAACGGUCCUAAGGUAGCGAAAUUCCUUGUCGGGU
AAGUUCCGACCUGCACGAAUGGCGUAAUGAUGGCCAGGCUGUCUCCACCC
GAGACUCAGUGAAAUUGAACUCGCUGUGAAGAUGCAGUGUACCCGCGGCA
AGACGGAAAGACCCCGUGAACCUUUACUAUAGCUUGACACUGAACAUUGA
GCCUUGAUGUGUAGGAUAGGUGGGAGGCUUUGAAGUGUGGACGCCAGUCU
GCAUGGAGCCGACCUUGAAAUACCACCCUUUAAUGUUUGAUGUUCUAACG
UUGACCCGUAAUCCGGGUUGCGGACAGUGUCUGGUGGGUAGUUUGACUGG
GGCGGUCUCCUCCUAAAGAGUAACGGAGGAGCACGAAGGUUGGCUAAUCC
UGGUCGGACAUCAGGAGGUUAGUGCAAUGGCAUAAGCCAGCUUGACUGCG
AGCGUGACGGCGCGAGCAGGUGCGAAAGCAGGUCAUAGUGAUCCGGUGGU
UCUGAAUGGAAGGGCCAUCGCUCAACGGAUAAAAGGUACUCCGGGGAUAA
CAGGCUGAUACCGCCCAAGAGUUCAUAUCGACGGCGGUGUUUGGCACCUC
GAUGUCGGCUCAUCACAUCCUGGGGCUGAAGUAGGUCCCAAGGGUAUGGC
UGUUCGCCAUUUAAAGUGGUACGCGAGCUGGGUUUAGAACGUCGUGAGAC
AGUUCGGUCCCUAUCUGCCGUGGGCGCUGGAGAACUGAGGGGGGCUGCUC
CUAGUACGAGAGGACCGGAGUGGACGCAUCACUGGUGUUCGGGUUGUCAU
GCCAAUGGCACUGCCCGGUAGCUAAAUGCGGAAGAGAUAAGUGCUGAAAG
CAUCUAAGCACGAAACUUGCCCCGAGAUGAGUUCUCCCUGACUCCUUGAG
AGUCCUGAAGGAACGUUGAAGACGACGACGUUGAUAGGCCGGGUGUGUAA
GCGCAGCGAUGCGUUGAGCUAACCGGUACUAAUGAACCGUGAGGCUUAAC
CUU
(((((((.....(((((.((((((((((((((((.....))).)))......((((.(((......))).....(((((((..(((.......)))......))))))).(((((...((((....))))((((((....))))))..(((((((((.........))))))))).......(((((..(((..........))).))))).)))))...((((......))))..((((((.(((((.(..(((.((.((((((((..((((......(((((((((((((.(((...((((((....))))))....(((.((((....)))).))))))...)))))))))))))...))))(((((((.((((((((.((...)).)))))))).....((((((......))))))..........(((((((((((((((((((.((((....((((((((((.............((((.....))))............(((...(((...((((((..(((.((((..((((((....))))))..))))(((((((((((....((((((.......(((((((((((((..((((..((.....))..)))).........((.(((....))).))......)))))))))))))))))))...((((((..((((((((((((((((((...((((((......))))))....))))...(((.(((((........)))))))).)).))))))))))))(((.....)))......))))))......((((((((((((((...((.((((...((((((((((((...(((((((((.......(((.(((.((((...(((((((.....))))).))...)))).)))...))).....)))))).)))...))))).......(((((((((((....)))))))))))....(((......))).(((((((......(((.(((......))).....((((..(((((.((((....)))).........((((.(((((.......))))).))))...((..(((......)))..))((((((.(((.(((((.(.((.(((((..(((.((........)).)))...((((..(((((((((....))))))))).))))....((((((((...((((.(...((((((((....))))))))).))))..))))).)))...((((......)))).......(((((((.....))))))).((.(((..(((...)))))).))...)))))..)).).))))).))).))))))((((.(((.(.(((....))).).)))..))))..(((((........)))))..(((((((((((((..((((((((.(.((..(((..((((((((((((((...))).))))))....((((.(((.((((((((((.((.....)))))))))).)).)))..)))).....(..(((((....)))))...))))))...))))).).)))........)))))..))....))))))))))))))))..)))).)))......))))))).((((.....)))).)))))))))))))...))))).))..))))))))))))).))))).((..((((....))))..)))))..))))))))).))))))))))))).....((((...(((((((((..((((.(((((..(((.(((((.........((((.(..(((((...(((....)))...))))).).)))).(((..((((((((((((..((((..(((((((((((.((....))..))))))..))))))))))))))).((((.((((((.......)))))).(((((..........)))))(((((.....)))))((((((((...(((.(((((.(((.(((((((((((.....))))).((((((........))))))......(((.(((....))).)))..((((.......)))).............))))))...)))..))))).)))....))))))))...(((((..((((((...((((((((....))))))))))))))............)))))..((((((((.((...)).)))))))).))))...)))))).)))))))))))))))).)))).)))))))))..))))(((((((...........)))))))......)))).))).)))..))))))...)))))))(((.((((....)))).)))(((((((.((((..((((....))))..)))).(((....)))(((((...)))))((((((((((.......)))))))))).((..((((..........))))..))...)))))))((((((((...((.......))...)))))))).(((((......))))))))))))..(((((((((((......)))))).)))))..)))))))).)).)))....).)).)))..))))))....(((((((....))).)))).))))..)))))))))).)))))((((((((.(..(((((((((((..((.(....).)).))))))).(((((...((((..((((((((((((....))))))..))))))..)))).)))))...(((....(((((...........)))))....))).))))....).)))))))).....(((((.((....)).))))).(((((....)))))(((((.(((((((((..((...((((((....))))))..))...))))).)).)).)).)))...)))))))... (-1081.70)

Length sequence

: 2903

Length match:

2903