gi_545778205_gb_U000_128

"structRNAfinder"

gi_545778205_gb_U000_128
cmsearch-Rfam
Family : LSU_rRNA_eukarya	Id: RF02543	Type: Gene; rRNA;
Taxonomy: Eukaryota; Bacteria; Viruses; Archaea;	Ontology: GO:0003735 structural constituent of ribosomeRF02543
Description: not description
Score: 1261.8	E-value: 0
From sequence: 2729025	To sequence: 2726292
Alignments: NC :::::::::::::::::::::::<<<<<<-----<<____>>------>>>>>->,,,,,,,,,<<____>>,,,<<<<<- CS RF02543 1 ugacCUuaaaUcAgguaaGAuUAcCcgCuGAAuUUAAGCAUAUuAaUAaGcgGAgGAAAAGAAAcuAACaagGAUUcccuu 81 + CC UA+ U+A A+G ACC:G :GAA+U AA CAU U A UA: C:GAGGAAAAGAAA::AAC ::GAUUCCC: gi_545778205_gb_U000 2729025 AAUCCAUAGGUUAAUGAGGCGAACCGGGGGAACUGAAACAUCUAAGUACCCCGAGGAAAAGAAAUCAACCGAGAUUCCCCC 2728945 ******************************************************************************* PP v NC ----<<_____>>---->>>>>,,[[[[,,.<<<<<<<<<<<<<<<<_______>>>>>>>>>>>>>>>>,,,,((((((- CS RF02543 82 AGUAgcGGCGAgcGAAgagggAAuAGCcCA.cgcugcaacuccgcccucuuuuugggcggaguugcagcgUauaggggccu 161 AGUAGCGGCGAGCGAA :GGGA AGCCCA + G: :C: gi_545778205_gb_U000 2728944 AGUAGCGGCGAGCGAACGGGGAGCAGCCCAg----------------------A----------------GCCUGAAUCA- 2728903 **************************2......................2................4444664444. PP v vvvv vvvv v NC ((((-(((((((-(((((((,,,<-<<<<______>>>>>,,<___>,,<<_______>>,,,,,)))))))--))))))) CS RF02543 162 ccucagccgcggcccccgccuAAgUccccUgGAAuggggcaccAuAgAGGGUGAgAguCCcGUauggcgggguaccgcggc 242 G: :::G+ :: AAG C::CUGGAA G::GC C:AUA:AGGGUGA AG CCCGUA :: U C::: :C gi_545778205_gb_U000 2728902 -----GUGUGUGUGUUAGUGGAAG-CGUCUGGAAAGGCGCGCGAUACAGGGUGACAGCCCCGUACACAAAAAUGCACAUGC 2728828 .....4444444233333445666.**********************************986554444444444444 PP v NC -----))))))))-)),,,,,,,,<<<<<<<___..._____>>>>>>>,,,,.,<<<<<________>>>>>,,]]]],, CS RF02543 243 uuuaugaggggccuccaaaGAGUCGgGuugcUUG...ggAaUgcagCcCaAAg.UgGguGGUAaAuUuCauCcAAgGCUAA 319 U :G: :C A+GAGU :G : G: GG AU:C : C: AA+ UGGG:GG A + UC:UCCAAGGCUAA gi_545778205_gb_U000 2728827 UG-------UGAGCUCGAUGAGUAGGGCGGGACAcguGGUAUCCUGUCUGAAUaUGGGGGG--ACCAUCCUCCAAGGCUAA 2728756 44.......4444577999999999999998643111345678999999999845666665..45667999999*** PP NC ,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,<<____>>,,,,,,,,,,,,,,,<<<<__.__>>>>,,,,,,,,,,,,,, CS RF02543 320 AUAuuagcaaGAGACCGAUAGcgaACAAGUAccGUGAggGAAAGaUGAAAAGaACucuGA.AaagaGAGUUAAAuAGuAcg 399 AUA+U + A GACCGAUAG+GAAC AGUACCGUGAGGGAAAG GAAAAGAAC:C:G A:G:GAGU AAA AG AC gi_545778205_gb_U000 2728755 AUACUCCUGACUGACCGAUAGUGAACCAGUACCGUGAGGGAAAGGCGAAAAGAACCCCGGcGAGGGGAGUGAAAAAGAACC 2728675 ******************************************************87368999************* PP v v v NC ,,,,,,,,,,,,,,,,,,,,(~~~~~~~),,<<<<________>>>>{{{{{{,,,,(((((((((((((,,<<<--<<<< CS RF02543 400 UGAAAuuGuUaAgAgGgAAgc[225]gACCCGUCUUGAAACACGGACCAAGGAGUccaacauguguGCgAGuguuuggg 698 UGAAA++GU +A AAGC G CC U UUG A A GG::CA: GA U:::A::::: ::C+AG U+ :: gi_545778205_gb_U000 2728674 UGAAACCGUGUACGUACAAGC[ 29]GUACCUU-UUGUAUAAUGGGUCAGCGACUUAUAUUCUGUAGCAAGGUUAACC- 2728574 *******999999888876....6..4556644.788888899***************************99765. PP v v v NC <<____>>>>>>-->>>,,,<<____>>,,,,,,,~~~~~~~~~~~~,,,,))))))))))))),,[[-[---[[[[[[,, CS RF02543 699 ucauuAgacccauacgCGuAacgAAagugAauuaa[29]*[33]aaGAGCacacauguuggGACCCGAAAGauGGUGA 829 A UA :: A CG A::GAAA::GA U ++ AG:: :::::U:::GACCCGAAA:::GGUGA gi_545778205_gb_U000 2728573 -GAAUA---GGGGAGCCGAAGGGAAACCGAGU---[ 8][ 4]UUAAGUUGCAGGGUAUAGACCCGAAACCCGGUGA 2728500 .33444...66799**************974......8.......9******************************* PP v v v v NC ,((((((((((((,<<<<---<<<<<<<____>>>>>>>---->>>>,,,<<<<-<<-<<________>>>>>>>>,,)-) CS RF02543 830 ACUAugCcugggcAGggcGAAGccAGgGGAAACcCUggUGGAGgccCGuAgcgaUuCUGACGUGCAAAUCGaucgucagAc 910 C A::C:UG GCAGG::GAAG::: G AA C :::UGGAG::CCG+A:CG U: : UG AAA ::A CG: +GAC gi_545778205_gb_U000 2728499 UCUAGCCAUGGGCAGGUUGAAGGUUGGGUAACACUAACUGGAGGACCGAACCGACUA-AUGUUGAAAAAUUAGCGGAUGAC 2728420 ***************************99****************9887.777788898888899**** PP NC )))))))))),<<<_____>>>,,,,,,]]]]]]------]-]],,[[[[[[,,,,<<<<<____>>>>>,,(((((((,, CS RF02543 911 cuggGuaUAGGgGcGAAAGaCuAAUCGAACCauCUAGUAGCUGGUUcCcuCCGAAGuuUCCCUCAGGAuaGCuggagcuuu 991 UG:G::U GG:G GAAAG C:AAUC AACC::: UAGCUGGUUC:C:CCGAA ::U:: U ::A::GC: ::::: U gi_545778205_gb_U000 2728419 UUGUGGCUGGGGGUGAAAGGCCAAUCAAACCGGGAGAUAGCUGGUUCUCCCCGAAAGCUAUUUAGGUAGCGCCUCGUGAAU 2728339 *********************************************************************99999933 PP v v vv v v v v vv v v NC ,,,,,,,<<<<<<<<----<<<----<<<<<<<<<<--<<<<<<-<_____>->>>>>>.>>>>>>>>>>-->>->----> CS RF02543 992 uuuuuAGUcuuAuccGGUAAAGCgAAUGAuUAgaGGcuucggGgacgaAAugucCucga.CCuaUUcUCAAACUUUAAAUg 1071 U +A UCU:::: GGUA:AGC A UG :::: C+ : G:G+C + +G+C:U : +C:::: CAAACU : AAU gi_545778205_gb_U000 2728338 U---CA-UCUCCGGGGGUAGAGC-ACUGUUUCGG--CAAGGGGGUCAUCCCGACUUACCaACCCGAUGCAAACUGCGAAUA 2728265 2...22.************8.789887776..889999999*9999995543567777889********** PP NC >>>>>>>,<<<<<<<<<_________>>>>>>>>>,,,,,,,,,,,))))))),,,,,<<<<<<<<<<_.____>>>>>>> CS RF02543 1072 ggUaagAagccccgguuaCUUaauUGaaccggggcauuuaAuauaaagcuccaAGUGGGCCAcUUuUGG.UAAGCAgAAgU 1151 ::::AGAA UG U A::::: :AG C: :: G UAA :: : gi_545778205_gb_U000 2728264 CCGGAGAA----------------UG-----------------UUAUCACGGGAGACACACGGCGGGUGcUAACGUCCGUC 2728217 ***6................22.................33399999999987766666666665599966666666 PP v vv NC >>>,,,,<<<______>>>,,,(((.((-(---(((------(-(--(((------------------(((-((((((((( CS RF02543 1152 GGCGAUGcGGGAUGAACCgAAcGcc.ggGuUAAGGuGCcuaAgUgcacgCUcAUcuAGAuaCCAuAAAaGGUGUuggUuca 1231 G A :GG A AACC:A C: ::G:UAAGGU CC+AAGU:++:G:U A G AAA:G UGU GG : gi_545778205_gb_U000 2728216 GUGAAGAGGGAAACAACCCAGACCGcCAGCUAAGGUCCCAAAGUCAUGGUUAAGUGGG-------AAACGAUGUGGGAAGG 2728143 666666677777889999999459******************99997666.......799********* PP vv v NC (-------(((((,<<<--<<<_________>>>-->>><___><---<<______>>->,)))))---)))))))))))) CS RF02543 1232 UauaGACAGCaGgAcGGUGgccAUGGAAGUCggaAUCCgCUAAGGAGUGUGUAACAACUCAcCuGCCGAAugaAccaGCCC 1312 : AGACA C::G ::GU ::C U GAAG G::AUC:::UAA:GA G:GUAA A:CUCAC::G CGA: : CC GC C gi_545778205_gb_U000 2728142 CCCAGACAGCCAGGAUGUUGGCUUAGAAGCAGCCAUCAUUUAAAGAAAGCGUAAUAGCUCACUGGUCGAGUCGGCCUGCGC 2728062 ***************************************************************************** PP NC )-------------------)))--)))))---)-)))))<<<<<<<<<_________>>>>>>>>>,,,,]]]]]]<-<< CS RF02543 1313 uGAAAAUGGAUGGCGCUuAAGcguaccaCCuAUaCccggCCgucggggcAaauuuaaugccccgacGAGUAGGagGgcGug 1393 :GAA AUG A G G UAA:C:++:CACC A :C:::G C: C:::GC +AUGC:::G :G GUAGG:G:GCGU: gi_545778205_gb_U000 2728061 GGAAGAUGUAACGGGGCUAAACCAUGCACCGAAGCUGCGGCAGCGACGCU-----UAUGCGUUGUUGGGUAGGGGAGCGUU 2727986 ****9887777777999************************5.....566******************* PP vv vv NC <<<<<<.<<------<<----<<<____>>>--->>--->>>>>>>>>>-->,,,,,}}}}}},,,,,,,,,,,,,,<<<< CS RF02543 1394 gcGgcu.gcguuGAAgcuuugggcGUgAgccuggguGGAgcagcCgccaGUgCAGAUCUUGGUGGUAGUAGCAAAUAcUCa 1473 ::G : :C GAAG:U U G: GUGA :C G:UGGAG:: C:::AGUGC AU :UG:: AGUA C A A::C: gi_545778205_gb_U000 2727985 CUGUAAgCCUGCGAAGGUGU-GCUGUGAGGCAUGCUGGAGGUAUCAGAAGUGCGAAUGCUGACAUAAGUAACGAUAAAGCG 2727906 **99999999999766.******************************************************** PP NC <<_______>>>>>>{{{{,,,,,{{{{,,{{,,,<<<<<<---<<_____>>->>>>>>,,,,,,{{{,((.---(( CS RF02543 1474 AaUGAGAaCuUuGAggACuGAAGUGGaGAAGGGUUcCgugugAACaGuAgUuGaacacGgGUuAGUCGgUCC.UAAGg 1550 ::UGA AA :::G::::C:G A G:::AAGGGUUCC:: : AAC: UA+U:G+: ::GGGU AGUCG: CC UAA gi_545778205_gb_U000 2727905 GGUGAAAAGCCCGCUCGCCGGA-AGACCAAGGGUUCCUGUCCAACGUUAAUCGGGGCAGGGUGAGUCGACCCcUAA-- 2727831 ****************98.5******************************************8763666.. PP v NC ~~~~~~~~~~~~,,,,,))----)),,,<<<<<________>>>>>,,[[[[-[[[[[[[,,,,<<<<____>>>>,,,,, CS RF02543 1551 [17]*[21]auuuacCGAAAGGGAAgcgGGUUAAuAUUCCcgcACcuggacguggauuuuaugcgGuAAcgcaAaugA 1657 GGGAA:C:GGUUAAUAUUCC:G:AC:UG GU:::U A gi_545778205_gb_U000 2727830 [13][11]----------UGGGAAACAGGUUAAUAUUCCUGUACUUGGU-GUUACUGCG--------A--------- 2727766 ...6.....6............3*************************994.776655433........2......... PP v v vvv v v v v NC ,((((((---((((-(((((((-(((<<<<<<._________>>>>>>,,,<<<<<-----<<<<<<<<<<<<<_____>> CS RF02543 1658 acucggaGAcgccggcgggggccccgggaaGa.GUUuUCUUUuCuucuUAAcggccuauuuaCCcugcAaccgguUuaucc 1737 ::G:GACG :G :GG :: ::GG:::G: G U U:C:::UU A: : ++ :: : ::: C GG AUCC gi_545778205_gb_U000 2727765 -AGGGGGGACGGAGAAGGCUAUGUUGGCCGGGcGACGGUUGUCCCGGUUUAAGCGUGUAGGCUGGUUUUCCAGGCAAAUCC 2727686 .357899*******************997777788889999999887655554444477677777777899999999 PP v v v v vvv vv vv v v NC >>>>>>>>>>>----->>>>>,,,,,,<<<<<<<_____>>>>>>>,,)))---)))))))-))))---------)))))) CS RF02543 1738 ggaGguagGGuuuaauggccgGaAgAGcgccgcauuuuuugcggcgUCcggUgugcccccgacggcCCUUGAAAAuccgag 1818 G ::: : :: + : :GA GA ::::U :::: C:: + :: CC: C: CC AAA :C:: gi_545778205_gb_U000 2727685 GGAAAAUCAAGGCUGAGGCGUGAUGACGAGGCACUACG-GUGCUGAAGCAACAAAUGCCCUGCUUCCAGGAAAAGCCUCUA 2727606 77777766655555555555688888888899999888.9999999**************99888777777776543 PP v NC ,,,,,,,,,,,]]-]]]]]]]]],}}},,}},,,,,<<______>>,}}}},<<<<_____>>>>,,}}}},,{{{{---- CS RF02543 1819 GgAaggaauaaauuccacgccaggcCGUACCcAUAaCCGCAuCAGGUCuCCAAGGugAauAgCCUCUaGUcgAUAGAAuAA 1899 A+ + A: ::AC+ CA:+:CGUACCC AACCG CAGGU:::CA:G :GA +A: C: :G:: U:::A AA gi_545778205_gb_U000 2727605 --AGCAUC---AGGUAACAUCAAAUCGUACCCCAAACCGACACAGGUGGUCAGGUAGAGAAUACCAAGGCGCUUGAGAGAA 2727530 ..333333...4456777899********************************************************** PP vv v NC {{{{{{{{-{{{,,,,,,,,,,,,,,<<<<<---<<____>>---->>>>><<<<<<<<<<<<<<-<<<<~~~~~~~>>>> CS RF02543 1900 gGUAGgUAAGGGAAGUCGGCAAAaUAGAUCCGUAaCUUcGGgAaAAGGAUUGGCUCUgAggGcugggccc[121]gggc 2094 : ::GGU:A:GGAA U GGCAAAAU :: CCGUAACUUCGGGA AAGG ::G CUGA: :: GG::: :::C gi_545778205_gb_U000 2727529 CUCGGGUGAAGGAACUAGGCAAAAUGGUGCCGUAACUUCGGGAGAAGGCACG---CUGAUAUGUAGGUGA[ 6]UCGC 2727453 *************************************************9...888886665555555....7..5555 PP v vv v v NC ------>>>>>-->>>>>>>>><___>,,,,,,,[[[[[[[[[,,<<<_________>>>,,<<<<<<<<-<-<<<<____ CS RF02543 2095 aauuAAcagCcAAcUcAGAACUGGuACGGACaAGgGGAAUCcGACUGUuUAAUUAAAACAuAGcAUugcGAcGgcccgaAa 2175 + U :: AA:UCAG U:G+A: AC AG: G: C:ACUGUUUA U AAAACA AGCA: G:: + C:CGAAA gi_545778205_gb_U000 2727452 GGAUGGAGCUGAAAUCAG---UCGAAGAUACCAGCUGGCUGCAACUGUUUAUUAAAAACACAGCACUGUGCAAACACGAAA 2727375 555555555667888888...9********************************************************* PP v v NC _>>>>->--->>>>>>>>,,((((,<<<--<<<<<<-<--<<<----~~~~~~--->>>>>>>>-->>>>><<<<<<____ CS RF02543 2176 ggggcGgUGACgcaAUgUGAuUuCUGCCCAGUGCUcUGAAuGuCAAa[15]cAAgCgCgGGUAAACGGCGGGAGUAACU 2265 G:G A::C :UGUGA: :CUGCCC GUGC:: GAA:GU AA AAGC:C::GUAAACGGCGG GUAACU gi_545778205_gb_U000 2727374 -GUGGACGUAUACGGUGUGACGCCUGCCCGGUGCCG-GAAGGUUAAU[32]GAAGCCCCGGUAAACGGCGGCCGUAACU 2727270 .*********************************.****98...9..689********************* PP NC ___>>>>>><___>,,,,,,,,,,,,,,,<<<<<<_____>>>>>>,,,,,,,,,,)))),,,]]-]]]]]]],,,,}}}- CS RF02543 2266 AUGACUCUCuUAAgGUAGCCAAAUGCCUCGUCAucUAAUUagUGACGCGCAUGAAUGgAuUAACgAGAUUCCcACUGUCCC 2346 AU AC UC:UAA:GUAGC AAAU CCU GUC:: UAA U ::GAC GCA GAAUG: :UAA:GA :C : CUGUC:C gi_545778205_gb_U000 2727269 AUAACGGUCCUAAGGUAGCGAAAUUCCUUGUCGGGUAAGUUCCGACCUGCACGAAUGGCGUAAUGAUGGCCAGGCUGUCUC 2727189 ***************************************************************************** PP NC }}}}}}}}-}}}},,,,,,,,,,,.,<<<<<________>>>>>,,{{{{{{{{-{{{-{{,,,,,,{{{{-{{{{{{{,[ CS RF02543 2347 UAcCUACcAUCUAGCGAAACCACA.GcCAAGGGAACGGGCUUGgaAccaucAGcGGGGAAAGAAGACCCUgUUGAGCUUGA 2426 :ACC:: :A:::AG GAAA A C G GAA GC G+ACC: C:G: :G: :: AAGACCC:GU :A CUU A gi_545778205_gb_U000 2727188 CACCCGAGACUCAGUGAAAUUGAAcUCGCUGUGAAGAUGCAGUGUACCCGCGGCAAGACGGAAAGACCCCGUGAACCUUUA 2727108 ***************9977735*************************************************** PP v v v NC [[[---[[[[[[[,,<<<<<<<<<<<<<<<<<<---------<<<<<--<<______........................ CS RF02543 2427 CUCUAGucuGgcaUUGugaagcgacauggggGgUGUAGaAUAaGUGGGAGcuuuuag........................ 2483 CU UAG:: G:CA UG:::A:::A : :::: :UGUAG AUA:GUGGGAG:+UUU++ gi_545778205_gb_U000 2727107 CUAUAGCUUGACACUGAACAUUGAGCCUUGAUGUGUAGGAUAGGUGGGAGGCUUUGAaguguggacgccagucugcaugga 2727027 **************************************************997********************** PP v v v v v NC .>>------------>>>>>>>>>>>>>->>>>>>>>>>,,,((((~~~~~~)))),,,,,]]]]]]]----]]]],,<<< CS RF02543 2484 .gCGccagUGAAAUACCACuaCccccauugucgcuucaCUUAcucc[68]ggagGACAuugcCaggUGGGGAGUUUGgC 2625 :CG+C UGAAAUACCAC:: :::: : U:::U:::CU AC:: ::GGACA UG:C ::UGGG AGUUUG:C gi_545778205_gb_U000 2727026 gCCGACCUUGAAAUACCACCCUUUAAUG-UUUGAUGUUCUAACGUU[16]UGCGGACAGUGUCUGGUGGGUAGUUUGAC 2726937 **************************.89********975...7..589********************** PP NC <_____>>>-><<<<<<___________>>>>>>,,[[,,,,((((((<<-<<<<<<_______>>>>>>--->><<____ CS RF02543 2626 uGGGGCgGcACAuCuGuuAAAuaAUAACgCaGgUGUCCUAAGGcgaGCUCAgcGaGgACAGAAAcCuCgcGUaGAgcAAAA 2706 UGGGGCGG: C :CU::UAAA A UAAC::AG: G C AAGG:::GCU:A:C :G: C GA A:C: G:G :AG: AA gi_545778205_gb_U000 2726936 UGGGGCGGU-CUCCUCCUAAAGAGUAACGGAGGAGCACGAAGGUUGGCUAAUCCUGGUCGGACAUCAGGAGGUUAGUGCAA 2726857 *****.******************************************************************* PP v v v NC __>>,,,,)))))),,,,<<<<<<<<<_______>>>>>>>>>,<<<____>>>,]],,,,,,,,,,<<<<<<--<<<<__ CS RF02543 2707 GGgcAAAAGCucgCUUGAUuuccauucUCAGUAugaauggaaAccgcGAAAgcgUGGCCUAUCGAUCCUuuaguucuucaa 2787 G:CA AAGC:::CUUGA:U:C: :::U A ::: :G:A: :GCGAAAGC: G C UA GAUCC U:GU :::+A gi_545778205_gb_U000 2726856 UGGCAUAAGCCAGCUUGACUGCGAGCGUGA-CGGCGCGAGCAGGUGCGAAAGCAGGUCAUAGUGAUCCGGUGGU--UCUGA 2726779 ***********************998.5679**********************************5..67788 PP v NC _____>>>>>>>>>>,,,,,,,...,,}}}}}--}}}}}},,,,,,,,<<<-<<<<<<<<---<<_______>>--->>>> CS RF02543 2788 AaUUUgaagcuagAGGUGUCAG...AAAAGUUACCAcAGGGAUAACUGGcuUGUGGCgGCCAAGCGUUCAUAGCGACGUcG 2865 A :::GC:A G U G AAAAG UAC: C:GGGAUAAC G::U : ::CG CCAAG:GUUCAUA:CGACG CG gi_545778205_gb_U000 2726778 AUGGAAGGGCCAUCGCUCAACGgauAAAAGGUACUCCGGGGAUAACAGGCUGAUACCGCCCAAGAGUUCAUAUCGACGGCG 2726698 888888899999999887654422267************************************************** PP NC >>>-->>>>,,,,,,,,,,(((((((((((,,<<-<<<<<<______>>>>>>--->>,<<<<<_____>>>>>,,,,,)) CS RF02543 2866 CUUUUUgaUCCUUCGAUGUCGGCUCUUCCUAUCaUuguGAaGCAGAAuUCacaAAGuGUuGGaUUGUUCAcCCaCuAAUAG 2946 :: UU:G:: C UCGAUGUCGGCUC UC :AUC:U:G: : G AG A : :C:AAG:GU::G::UGUUC::C::+UAA : gi_545778205_gb_U000 2726697 GUGUUUGGCACCUCGAUGUCGGCUCAUCACAUCCUGGGGCUGAAGUAGGUCCCAAGGGUAUGGCUGUUCGCCAUUUAAAGU 2726617 ***************************************************************************** PP v NC )))--)--))))-),,,,,<<<<<<<____>>>->>>>,,,,}}--}}}}}}}}}}},.,,((((((((--((((,<<<<< CS RF02543 2947 GGAACGUGAGCUGGGUUUAGACCGUCGUGAGACAGGUUAGUUUUACCCUaCUgaugga.augucguugcaAcaGcAaucca 3026 GG ACG GAGCUGGGUUUA:A CGUCGUGAGACAG U: GU :: :C::C:G :GG UG::G::::+A::G: : : gi_545778205_gb_U000 2726616 GGUACGCGAGCUGGGUUUAGAACGUCGUGAGACAGUUCGGUCCCUAUCUGCCGUGGGCgCUGGAGAACUGAGGGGGGCUGC 2726536 ******************************************************98999999999******** PP v v v NC <<<_______________>>>>>>>><<<<<---<<<----<<<<<<<<<<<.____.>>>>>>-->>>>>--->>>-->> CS RF02543 3027 gccuAGUACGAGAGGAACggcugguucggAuAaUUggUuuucGcggcuGgcu.GAaa.agcCagUGccgCgAAGcuAcCaU 3105 :CCUAGUACGAGAGGA CGG:: : CG:AU A UGGU U :::GG UG:C: G A :G:CA UGCC::: AGCUA AU gi_545778205_gb_U000 2726535 UCCUAGUACGAGAGGACCGGAGUGGACGCAUCACUGGUGU-UCGGGUUGUCAuGCCAaUGGCACUGCCCGGUAGCUA-AAU 2726457 ************************************.8888888877637777457788888888899*.* PP v NC >>>,..<<<----<<<<<___________>>>>>---->>>,))))--..--.)))))))),,,,,,<<<<<<<_ CS RF02543 3106 ccgu..uggAUuAuggCUGAAcGCCUCUAAGccaGAAuccaugCugga..Aa.gcaacgacuuuuuccccccccu 3175 :CG :GAU+A::GCUGAA GC UCUAAGC::GAA C: :C::GA ::::C::C C ::CCC:U gi_545778205_gb_U000 2726456 GCGGaaGAGAUAAGUGCUGAAAGCAUCUAAGCACGAAACUUGCCCCGAgaU-gAGUUCUCC-----CUGACCCUU 2726388 *93345579*********************************9744.599999999.....344444443 PP v v vv v vv v NC ~~~~~~~>>>>>>>,,,(((((<<<<<_______>>>>>,,,,<<<<<<<<<-<<--<--<<<<-<<<<<<<<______>> CS RF02543 3176 [112]gggggggguugaAucccccGuAGACGACggggaUauccgaccgGGUgcUGuAAgcgguacaGcagccUuuuUgc 3361 :GGG:: +: : C:: G AGACGAC ::G+U + ::: :GG :UGUAA:CG: +U gi_545778205_gb_U000 2726387 [ 2]AGGGUCCUGAAGGAACGUUGAAGACGACGACGUUGA-UAGGCCGGGUGUGUAAGCGCA---------GCGAU-- 2726324 ....4..444444556666667****************65.56666777779****95.........45666.. PP v vv v vv v NC >>>>>>>>>>>--->>---->>>->>>>>>,,,))))):: CS RF02543 3362 ugCgguccgcuGAGgcUuAgCCcuggucggauagaUucgu 3401 :CG:UGAG: A CC: :::++ A : :G gi_545778205_gb_U000 2726323 ------GCGUUGAGCU--AACCGGUACUAAUGAACCGUGA 2726292 ......9***75..66999999999999999*** PP >>
RNAfold
>gi_545778205_gb_U000_128 UGCUGAAUCUGGCAUAUGUGGGAGUAUAAGACGCGCAGCGUCGCAUCAGG CAUUUUUUUCUGCGCCAAUGCAAAAAGGCCAUCCGUCAGGAUGGCCUUUC GCAUAAUUUGAUGCCUGGCAGUUCCCUACUCUCGCAUGGGGAGACCCCAC ACUACCAUCGGCGCUACGGCGUUUCACUUCUGAGUUCGGCAUGGGGUCAG GUGGGACCACCGCGCUACGGCCGCCAGGCAAAUUCUGUUUUAUCAGACCG CUUCUGCGUUCUGAUUUAAUCUGUAUCAGGCUGAAAAUCUUCUCUCAUCC GCCAAAACAGCUUCGGCGUUGUAAGGUUAAGCCUCACGGUUCAUUAGUAC CGGUUAGCUCAACGCAUCGCUGCGCUUACACACCCGGCCUAUCAACGUCG UCGUCUUCAACGUUCCUUCAGGACCCUUAAAGGGUCAGGGAGAACUCAUC UCGGGGCAAGUUUCGUGCUUAGAUGCUUUCAGCACUUAUCUCUUCCGCAU UUAGCUACCGGGCAGUGCCAUUGGCAUGACAACCCGAACACCAGUGAUGC GUCCACUCCGGUCCUCUCGUACUAGGAGCAGCCCCCCUCAGUUCUCCAGC GCCCACGGCAGAUAGGGACCGAACUGUCUCACGACGUUCUAAACCCAGCU CGCGUACCACUUUAAAUGGCGAACAGCCAUACCCUUGGGACCUACUUCAG CCCCAGGAUGUGAUGAGCCGACAUCGAGGUGCCAAACACCGCCGUCGAUA UGAACUCUUGGGCGGUAUCAGCCUGUUAUCCCCGGAGUACCUUUUAUCCG UUGAGCGAUGGCCCUUCCAUUCAGAACCACCGGAUCACUAUGACCUGCUU UCGCACCUGCUCGCGCCGUCACGCUCGCAGUCAAGCUGGCUUAUGCCAUU GCACUAACCUCCUGAUGUCCGACCAGGAUUAGCCAACCUUCGUGCUCCUC CGUUACUCUUUAGGAGGAGACCGCCCCAGUCAAACUACCCACCAGACACU GUCCGCAACCCGGAUUACGGGUCAACGUUAGAACAUCAAACAUUAAAGGG UGGUAUUUCAAGGUCGGCUCCAUGCAGACUGGCGUCCACACUUCAAAGCC UCCCACCUAUCCUACACAUCAAGGCUCAAUGUUCAGUGUCAAGCUAUAGU AAAGGUUCACGGGGUCUUUCCGUCUUGCCGCGGGUACACUGCAUCUUCAC AGCGAGUUCAAUUUCACUGAGUCUCGGGUGGAGACAGCCUGGCCAUCAUU ACGCCAUUCGUGCAGGUCGGAACUUACCCGACAAGGAAUUUCGCUACCUU AGGACCGUUAUAGUUACGGCCGCCGUUUACCGGGGCUUCGAUCAAGAGCU UCGCUUGCGCUAACCCCAUCAAUUAACCUUCCGGCACCGGGCAGGCGUCA CACCGUAUACGUCCACUUUCGUGUUUGCACAGUGCUGUGUUUUUAAUAAA CAGUUGCAGCCAGCUGGUAUCUUCGACUGAUUUCAGCUCCAUCCGCGAGG GACCUCACCUACAUAUCAGCGUGCCUUCUCCCGAAGUUACGGCACCAUUU UGCCUAGUUCCUUCACCCGAGUUCUCUCAAGCGCCUUGGUAUUCUCUACC UGACCACCUGUGUCGGUUUGGGGUACGAUUUGAUGUUACCUGAUGCUUAG AGGCUUUUCCUGGAAGCAGGGCAUUUGUUGCUUCAGCACCGUAGUGCCUC GUCAUCACGCCUCAGCCUUGAUUUUCCGGAUUUGCCUGGAAAACCAGCCU ACACGCUUAAACCGGGACAACCGUCGCCCGGCCAACAUAGCCUUCUCCGU CCCCCCUUCGCAGUAACACCAAGUACAGGAAUAUUAACCUGUUUCCCAUC GACUACGCCUUUCGGCCUCGCCUUAGGGGUCGACUCACCCUGCCCCGAUU AACGUUGGACAGGAACCCUUGGUCUUCCGGCGAGCGGGCUUUUCACCCGC UUUAUCGUUACUUAUGUCAGCAUUCGCACUUCUGAUACCUCCAGCAUGCC UCACAGCACACCUUCGCAGGCUUACAGAACGCUCCCCUACCCAACAACGC AUAAGCGUCGCUGCCGCAGCUUCGGUGCAUGGUUUAGCCCCGUUACAUCU UCCGCGCAGGCCGACUCGACCAGUGAGCUAUUACGCUUUCUUUAAAUGAU GGCUGCUUCUAAGCCAACAUCCUGGCUGUCUGGGCCUUCCCACAUCGUUU CCCACUUAACCAUGACUUUGGGACCUUAGCUGGCGGUCUGGGUUGUUUCC CUCUUCACGACGGACGUUAGCACCCGCCGUGUGUCUCCCGUGAUAACAUU CUCCGGUAUUCGCAGUUUGCAUCGGGUUGGUAAGUCGGGAUGACCCCCUU GCCGAAACAGUGCUCUACCCCCGGAGAUGAAUUCACGAGGCGCUACCUAA AUAGCUUUCGGGGAGAACCAGCUAUCUCCCGGUUUGAUUGGCCUUUCACC CCCAGCCACAAGUCAUCCGCUAAUUUUUCAACAUUAGUCGGUUCGGUCCU CCAGUUAGUGUUACCCAACCUUCAACCUGCCCAUGGCUAGAUCACCGGGU UUCGGGUCUAUACCCUGCAACUUAACGCCCAGUUAAGACUCGGUUUCCCU UCGGCUCCCCUAUUCGGUUAACCUUGCUACAGAAUAUAAGUCGCUGACCC AUUAUACAAAAGGUACGCAGUCACACGCCUAAGCGUGCUCCCACUGCUUG UACGUACACGGUUUCAGGUUCUUUUUCACUCCCCUCGCCGGGGUUCUUUU CGCCUUUCCCUCACGGUACUGGUUCACUAUCGGUCAGUCAGGAGUAUUUA GCCUUGGAGGAUGGUCCCCCCAUAUUCAGACAGGAUACCACGUGUCCCGC CCUACUCAUCGAGCUCACAGCAUGUGCAUUUUUGUGUACGGGGCUGUCAC CCUGUAUCGCGCGCCUUUCCAGACGCUUCCACUAACACACACACUGAUUC AGGCUCUGGGCUGCUCCCCGUUCGCUCGCCGCUACUGGGGGAAUCUCGGU UGAUUUCUUUUCCUCGGGGUACUUAGAUGUUUCAGUUCCCCCGGUUCGCC UCAUUAACCUAUGGAUUCAGUUAAUGAUAGUGUGUCGAAACACACUGGGU UUCCCCAUUCGGAAAUCGCCGGUUAUAACGGUUCAUAUCACCUUACCGAC GCUUAUCGCAGAUUAGCACGUCCUUCAUCGCCUCUGACUGCCAGGGCAUC CACCGUGUACGCUUAGUCGCUUAACCUCACAACCCGAAGAUGUUUCACUU CAGAGUUGCGAAAAUUUGAGAGACUCACGAACAACUUUCAUUGUUCAGUG UUUCAAUUUUCAGCUUGAUCCAGAUUUUUAAAGAGCAAAUAUAUCAAACA AGACUUAACAGUCUGUUUUGAGAUAUUGAGGUCGGCGACUUUCACUCACA A 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(-1061.90)
Length sequence : 3401	Length match: 2732