gi_545778205_gb_U000_130

"structRNAfinder"

gi_545778205_gb_U000_130
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: 1257.9	E-value: 0
From sequence: 3943863	To sequence: 3946589
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 3943863 AAUCCAUAGGUUAAUGAGGCGAACCGGGGGAACUGAAACAUCUAAGUACCCCGAGGAAAAGAAAUCAACCGAGAUUCCCCC 3943943 ******************************************************************************* PP v NC ----<<_____>>---->>>>>,,[[[[,,.<<<<<<<<<<<<<<<<_______>>>>>>>>>>>>>>>>,,,,((((((- CS RF02543 82 AGUAgcGGCGAgcGAAgagggAAuAGCcCA.cgcugcaacuccgcccucuuuuugggcggaguugcagcgUauaggggccu 161 AGUAGCGGCGAGCGAA :GGGA AGCCCA + G: :C: gi_545778205_gb_U000 3943944 AGUAGCGGCGAGCGAACGGGGAGCAGCCCAg----------------------A----------------GCCUGAAUCA- 3943985 **************************2......................2................4444665444. PP v vvvv vvvv v NC ((((-(((((((-(((((((,,,<-<<<<______>>>>>,,<___>,,<<_______>>,,,,,)))))))--))))))) CS RF02543 162 ccucagccgcggcccccgccuAAgUccccUgGAAuggggcaccAuAgAGGGUGAgAguCCcGUauggcgggguaccgcggc 242 ::::::G+ :: AAG C::CUGGAA G::GC C:AUA:AGGGUGA AG CCCGUA :: U C:::::: gi_545778205_gb_U000 3943986 -----GUAUGUGUGUUAGUGGAAG-CGUCUGGAAAGGCGCGCGAUACAGGGUGACAGCCCCGUACACAAAAAUGCACAUAU 3944060 .....3344444233344445666.**********************************985555444444444444 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 3944061 UG-------UGAGCUCGAUGAGUAGGGCGGGACAcguGGUAUCCUGUCUGAAUaUGGGGGG--ACCAUCCUCCAAGGCUAA 3944132 44.......4444577888999999998888643111345668999999999845666665..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 3944133 AUACUCCUGACUGACCGAUAGUGAACCAGUACCGUGAGGGAAAGGCGAAAAGAACCCCGGcGAGGGGAGUGAAAAAGAACC 3944213 ******************************************************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 3944214 UGAAACCGUGUACGUACAAGC[ 29]GUACCUU-UUGUAUAAUGGGUCAGCGACUUAUAUUCUGUAGCAAGGUUAACC- 3944314 *******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 3944315 -GAAUA---GGGGAGCCGAAGGGAAACCGAGU---[ 8][ 4]UUAAGUUGCAGGGUAUAGACCCGAAACCCGGUGA 3944388 .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 3944389 UCUAGCCAUGGGCAGGUUGAAGGUUGGGUAACACUAACUGGAGGACCGAACCGACUA-AUGUUGAAAAAUUAGCGGAUGAC 3944468 ***************************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 3944469 UUGUGGCUGGGGGUGAAAGGCCAAUCAAACCGGGAGAUAGCUGGUUCUCCCCGAAAGCUAUUUAGGUAGCGCCUCGUGAAU 3944549 *********************************************************************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 3944550 U---CA-UCUCCGGGGGUAGAGC-ACUGUUUCGG--CAAGGGGGUCAUCCCGACUUACCaACCCGAUGCAAACUGCGAAUA 3944623 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 3944624 CCGGAGAA----------------UG-----------------UUAUCACGGGAGACACACGGCGGGUGcUAACGUCCGUC 3944671 ***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 3944672 GUGAAGAGGGAAACAACCCAGACCGcCAGCUAAGGUCCCAAAGUCAUGGUUAAGUGGG-------AAACGAUGUGGGAAGG 3944745 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 3944746 CCCAGACAGCCAGGAUGUUGGCUUAGAAGCAGCCAUCAUUUAAAGAAAGCGUAAUAGCUCACUGGUCGAGUCGGCCUGCGC 3944826 ***************************************************************************** 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 3944827 GGAAGAUGUAACGGGGCUAAACCAUGCACCGAAGCUGCGGCAGCGACGCU-----UAUGCGUUGUUGGGUAGGGGAGCGUU 3944902 ****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 3944903 CUGUAAgCCUGCGAAGGUGU-GCUGUGAGGCAUGCUGGAGGUAUCAGAAGUGCGAAUGCUGACAUAAGUAACGAUAAAGCG 3944982 **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 3944983 GGUGAAAAGCCCGCUCGCCGGA-AGACCAAGGGUUCCUGUCCAACGUUAAUCGGGGCAGGGUGAGUCGACCCcUAA-- 3945057 ****************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 3945058 [13][11]----------UGGGAAACAGGUUAAUAUUCCUGUACUUGGU-GUUACUGCG--------A--------- 3945122 ...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 3945123 -AGGGGGGACGGAGAAGGCUAUGUUGGCCGGGcGACGGUUGUCCCGGUUUAAGCGUGUAGGCUGGUUUUCCAGGCAAAUCC 3945202 .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 3945203 GGAAAAUCAAGGCUGAGGCGUGAUGACGAGGCACUACG-GUGCUGAAGCAACAAAUGCCCUGCUUCCAGGAAAAGCCUCUA 3945282 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 3945283 --AGCAUC---AGGUAACAUCAAAUCGUACCCCAAACCGACACAGGUGGUCAGGUAGAGAAUACCAAGGCGCUUGAGAGAA 3945358 ..333333...4456777899********************************************************** PP NC {{{{{{{{-{{{,,,,,,,,,,,,,,<<<<<---<<____>>---->>>>><<<<<<<<<~~~~~~~-->>>>>>>>><__ CS RF02543 1900 gGUAGgUAAGGGAAGUCGGCAAAaUAGAUCCGUAaCUUcGGgAaAAGGAUUGGCUCUgAg[146]AAcUcAGAACUGGu 2119 : ::GGU:A:GGAA U GGCAAAAU :: CCGUAACUUCGGGA AAGG ::G CUGA: AA:UCAG U:G+ gi_545778205_gb_U000 3945359 CUCGGGUGAAGGAACUAGGCAAAAUGGUGCCGUAACUUCGGGAGAAGGCACG---CUGAU[ 31]AAAUCAG---UCGA 3945457 *************************************************9...66776....9..5667766...9* PP v v v v NC _>,,,,,,,[[[[[[[[[,,<<<_________>>>,,<<<<<<<<-<-<<<<_____>>>>->--->>>>>>>>,,((((, CS RF02543 2120 ACGGACaAGgGGAAUCcGACUGUuUAAUUAAAACAuAGcAUugcGAcGgcccgaAaggggcGgUGACgcaAUgUGAuUuCU 2200 A: AC AG: G: C:ACUGUUUA U AAAACA AGCA: G:: + C:CGAAA G:G A::C :UGUGA: :CU gi_545778205_gb_U000 3945458 AGAUACCAGCUGGCUGCAACUGUUUAUUAAAAACACAGCACUGUGCAAACACGAAA-GUGGACGUAUACGGUGUGACGCCU 3945537 ******************************************************.********************** PP NC <<<--<<<<<<-<--<<<----~~~~~~--->>>>>>>>-->>>>><<<<<<_______>>>>>><___>,,,,,,,,,,, CS RF02543 2201 GCCCAGUGCUcUGAAuGuCAAa[15]cAAgCgCgGGUAAACGGCGGGAGUAACUAUGACUCUCuUAAgGUAGCCAAAUG 2290 GCCC GUGC:: GAA:GU AA AAGC:C::GUAAACGGCGG GUAACUAU AC UC:UAA:GUAGC AAAU gi_545778205_gb_U000 3945538 GCCCGGUGCCG-GAAGGUUAAU[32]GAAGCCCCGGUAAACGGCGGCCGUAACUAUAACGGUCCUAAGGUAGCGAAAUU 3945643 *********.****98...9..689********************************************** PP NC ,,,,<<<<<<_____>>>>>>,,,,,,,,,,)))),,,]]-]]]]]]],,,,}}}-}}}}}}}}-}}}},,,,,,,,,,,. CS RF02543 2291 CCUCGUCAucUAAUUagUGACGCGCAUGAAUGgAuUAACgAGAUUCCcACUGUCCCUAcCUACcAUCUAGCGAAACCACA. 2370 CCU GUC:: UAA U ::GAC GCA GAAUG: :UAA:GA :C : CUGUC:C:ACC:: :A:::AG GAAA A gi_545778205_gb_U000 3945644 CCUUGUCGGGUAAGUUCCGACCUGCACGAAUGGCGUAAUGAUGGCCAGGCUGUCUCCACCCGAGACUCAGUGAAAUUGAAc 3945724 ***********************************************************************997773 PP v NC ,<<<<<________>>>>>,,{{{{{{{{-{{{-{{,,,,,,{{{{-{{{{{{{,[[[[---[[[[[[[,,<<<<<<<<<< CS RF02543 2371 GcCAAGGGAACGGGCUUGgaAccaucAGcGGGGAAAGAAGACCCUgUUGAGCUUGACUCUAGucuGgcaUUGugaagcgac 2451 C G GAA GC G+ACC: C:G: :G: :: AAGACCC:GU :A CUU ACU UAG:: G:CA UG:::A:::A gi_545778205_gb_U000 3945725 UCGCUGUGAAGAUGCAGUGUACCCGCGGCAAGACGGAAAGACCCCGUGAACCUUUACUAUAGCUUGACACUGAACAUUGAG 3945805 5**************************************************************************** PP v v v NC <<<<<<<<---------<<<<<--<<______.........................>>------------>>>>>>>>>> CS RF02543 2452 auggggGgUGUAGaAUAaGUGGGAGcuuuuag.........................gCGccagUGAAAUACCACuaCccc 2507 : :::: :UGUAG AUA:GUGGGAG:+UUU++ :CG+C UGAAAUACCAC:: ::: gi_545778205_gb_U000 3945806 CCUUGAUGUGUAGGAUAGGUGGGAGGCUUUGAaguguggacgccagucugcauggagCCGACCUUGAAAUACCACCCUUUA 3945886 *************************997*********************************************** PP v v NC >>>->>>>>>>>>>,,,(((((-~~~~~~))))),,,,,]]]]]]]----]]]],,<<<<_____>>>-><<<<<<_____ CS RF02543 2508 cauugucgcuucaCUUAcuccgU[65]cggagGACAuugcCaggUGGGGAGUUUGgCuGGGGCgGcACAuCuGuuAAAu 2647 : : U:::U:::CU AC:: ::GGACA UG:C ::UGGG AGUUUG:CUGGGGCGG: C :CU::UAAA gi_545778205_gb_U000 3945887 AUG-UUUGAUGUUCUAACGUGGA[13]UUGCGGACAGUGUCUGGUGGGUAGUUUGACUGGGGCGGU-CUCCUCCUAAAG 3945972 *.89********98765...6..6799*******************************.******** PP NC ______>>>>>>,,[[,,,,((((((<<-<<<<<<_______>>>>>>--->><<______>>,,,,)))))),,,,<<<< CS RF02543 2648 aAUAACgCaGgUGUCCUAAGGcgaGCUCAgcGaGgACAGAAAcCuCgcGUaGAgcAAAAGGgcAAAAGCucgCUUGAUuuc 2728 A UAAC::AG: G C AAGG:::GCU:A:C :G: C GA A:C: G:G :AG: AA G:CA AAGC:::CUUGA:U:C gi_545778205_gb_U000 3945973 AGUAACGGAGGAGCACGAAGGUUGGCUAAUCCUGGUCGGACAUCAGGAGGUUAGUGCAAUGGCAUAAGCCAGCUUGACUGC 3946053 ***************************************************************************** PP v v v v NC <<<<<_______>>>>>>>>>,<<<____>>>,]],,,,,,,,,,<<<<<<--<<<<_______>>>>>>>>>>,,,,,,, CS RF02543 2729 cauucUCAGUAugaauggaaAccgcGAAAgcgUGGCCUAUCGAUCCUuuaguucuucaaAaUUUgaagcuagAGGUGUCAG 2809 : :::U A ::: :G:A: :GCGAAAGC: G C UA GAUCC U:GU :::+AA :::GC:A G U G gi_545778205_gb_U000 3946054 GAGCGUGA-CGGCGCGAGCAGGUGCGAAAGCAGGUCAUAGUGAUCCGGUGGU--UCUGAAUGGAAGGGCCAUCGCUCAACG 3946131 *998.5679**********************************5..677888888888999999998876544 PP NC ...,,}}}}}--}}}}}},,,,,,,,<<<-<<<<<<<<---<<_______>>--->>>>>>>-->>>>,,,,,,,,,,((( CS RF02543 2810 ...AAAAGUUACCAcAGGGAUAACUGGcuUGUGGCgGCCAAGCGUUCAUAGCGACGUcGCUUUUUgaUCCUUCGAUGUCGG 2887 AAAAG UAC: C:GGGAUAAC G::U : ::CG CCAAG:GUUCAUA:CGACG CG:: UU:G:: C UCGAUGUCGG gi_545778205_gb_U000 3946132 gauAAAAGGUACUCCGGGGAUAACAGGCUGAUACCGCCCAAGAGUUCAUAUCGACGGCGGUGUUUGGCACCUCGAUGUCGG 3946212 22267************************************************************************ PP v v NC ((((((((,,<<-<<<<<<______>>>>>>--->>,<<<<<_____>>>>>,,,,,)))))--)--))))-),,,,,<<< CS RF02543 2888 CUCUUCCUAUCaUuguGAaGCAGAAuUCacaAAGuGUuGGaUUGUUCAcCCaCuAAUAGGGAACGUGAGCUGGGUUUAGAC 2968 CUC UC :AUC:U:G : G AG A : C:AAG:GU::G::UGUUC::C::+UAA : GG ACG GAGCUGGGUUUA:A gi_545778205_gb_U000 3946213 CUCAUCACAUCCUGGAGCUGAAGUAGGUCCCAAGGGUAUGGCUGUUCGCCAUUUAAAGUGGUACGCGAGCUGGGUUUAGAA 3946293 ***************************************************************************** PP v NC <<<<____>>>->>>>,,,,}}--}}}}}}}}}}},.,,((((((((--((((,<<<<<<<<_______________>>>> CS RF02543 2969 CGUCGUGAGACAGGUUAGUUUUACCCUaCUgaugga.augucguugcaAcaGcAauccagccuAGUACGAGAGGAACggcu 3048 CGUCGUGAGACAG U: GU :: :C::C:G :GG UG::G::::+A::G: : ::CCUAGUACGAGAGGA CGG:: gi_545778205_gb_U000 3946294 CGUCGUGAGACAGUUCGGUCCCUAUCUGCCGUGGGCgCUGGAGAACUGAGGGGGGCUGCUCCUAGUACGAGAGGACCGGAG 3946374 ********************************9899999999******************************* PP v v v NC >>>><<<<<---<<<----<<<<<<<<<<<.____.>>>>>>-->>>>>--->>>-->>>>>,..<<<----<<<<<____ CS RF02543 3049 gguucggAuAaUUggUuuucGcggcuGgcu.GAaa.agcCagUGccgCgAAGcuAcCaUccgu..uggAUuAuggCUGAAc 3125 : CG:AU A UGGU U :::GG UG:C: G A :G:CA UGCC::: AGCUA AU:CG :GAU+A::GCUGAA gi_545778205_gb_U000 3946375 UGGACGCAUCACUGGUGU-UCGGGUUGUCAuGCCAaUGGCACUGCCCGGUAGCUA-AAUGCGGaaGAGAUAAGUGCUGAAA 3946453 **************.8888888877637777457788888888899*.**93345579********* PP v v NC _______>>>>>---->>>,))))--..--.)))))))),,,,,,<<<<<<~~~~~~~>>>>>>,,,(((((<<<<<____ CS RF02543 3126 GCCUCUAAGccaGAAuccaugCugga..Aa.gcaacgacuuuuuccccccc[115]ggggggguugaAucccccGuAGA 3311 GC UCUAAGC::GAA C: :C::GA ::::C::C U +C:CC:: ::GG: C:: G AGA gi_545778205_gb_U000 3946454 GCAUCUAAGCACGAAACUUGCCCCGAgaU-gAGUUCUCC-CUGACUCCUUG[ 8]GAAGGAA-------CGUUGAAGA 3946526 ***********************9744.599999999.55555555553....5..3555554.......***** PP vv v v v v vv NC ___>>>>>,,,,<<<<<<<<<-<<--<--<<<<-<<<<<<<<______>>>>>>>>>>>>>--->>---->>>->>>>>>, CS RF02543 3312 CGACggggaUauccgaccgGGUgcUGuAAgcgguacaGcagccUuuuUgcugCgguccgcuGAGgcUuAgCCcuggucgga 3392 CGAC ::G+U +::G C GG :UGUAA:CG: +U :CG:UGAG: A CC G C::A gi_545778205_gb_U000 3946527 CGACGACGUUGAUAGGCC-GGGUGUGUAAGCGCA---------GCGAU--------GCGUUGAGCU--AACCG-GUACUAA 3946586 ******87777655.55568****95.........45666........9***75..55776.5556667 PP NC ,,))))):: CS RF02543 3393 uagaUucgu 3401 U G gi_545778205_gb_U000 3946587 U------GA 3946589 6...... PP >>
RNAfold
>gi_545778205_gb_U000_130 UGAAAGUCACCUGCCUUAAUAUCUCAAAACUCAUCUUCGGGUGAUGUUUG AGAUAUUUGCUCUUUAAAAAUCUGGAUCAAGCUGAAAAUUGAAACACUGA ACAACGAAAGUUGUUCGUGAGUCUCUCAAAUUUUCGCAACACGAUGAUGA AUCGAAAGAAACAUCUUCGGGUUGUGAGGUUAAGCGACUAAGCGUACACG GUGGAUGCCCUGGCAGUCAGAGGCGAUGAAGGACGUGCUAAUCUGCGAUA AGCGUCGGUAAGGUGAUAUGAACCGUUAUAACCGGCGAUUUCCGAAUGGG GAAACCCAGUGUGUUUCGACACACUAUCAUUAACUGAAUCCAUAGGUUAA UGAGGCGAACCGGGGGAACUGAAACAUCUAAGUACCCCGAGGAAAAGAAA UCAACCGAGAUUCCCCCAGUAGCGGCGAGCGAACGGGGAGCAGCCCAGAG CCUGAAUCAGUAUGUGUGUUAGUGGAAGCGUCUGGAAAGGCGCGCGAUAC AGGGUGACAGCCCCGUACACAAAAAUGCACAUAUUGUGAGCUCGAUGAGU AGGGCGGGACACGUGGUAUCCUGUCUGAAUAUGGGGGGACCAUCCUCCAA GGCUAAAUACUCCUGACUGACCGAUAGUGAACCAGUACCGUGAGGGAAAG GCGAAAAGAACCCCGGCGAGGGGAGUGAAAAAGAACCUGAAACCGUGUAC GUACAAGCAGUGGGAGCACGCUUAGGCGUGUGACUGCGUACCUUUUGUAU AAUGGGUCAGCGACUUAUAUUCUGUAGCAAGGUUAACCGAAUAGGGGAGC CGAAGGGAAACCGAGUCUUAACUGGGCGUUAAGUUGCAGGGUAUAGACCC GAAACCCGGUGAUCUAGCCAUGGGCAGGUUGAAGGUUGGGUAACACUAAC UGGAGGACCGAACCGACUAAUGUUGAAAAAUUAGCGGAUGACUUGUGGCU GGGGGUGAAAGGCCAAUCAAACCGGGAGAUAGCUGGUUCUCCCCGAAAGC UAUUUAGGUAGCGCCUCGUGAAUUCAUCUCCGGGGGUAGAGCACUGUUUC GGCAAGGGGGUCAUCCCGACUUACCAACCCGAUGCAAACUGCGAAUACCG GAGAAUGUUAUCACGGGAGACACACGGCGGGUGCUAACGUCCGUCGUGAA GAGGGAAACAACCCAGACCGCCAGCUAAGGUCCCAAAGUCAUGGUUAAGU GGGAAACGAUGUGGGAAGGCCCAGACAGCCAGGAUGUUGGCUUAGAAGCA GCCAUCAUUUAAAGAAAGCGUAAUAGCUCACUGGUCGAGUCGGCCUGCGC GGAAGAUGUAACGGGGCUAAACCAUGCACCGAAGCUGCGGCAGCGACGCU UAUGCGUUGUUGGGUAGGGGAGCGUUCUGUAAGCCUGCGAAGGUGUGCUG UGAGGCAUGCUGGAGGUAUCAGAAGUGCGAAUGCUGACAUAAGUAACGAU AAAGCGGGUGAAAAGCCCGCUCGCCGGAAGACCAAGGGUUCCUGUCCAAC GUUAAUCGGGGCAGGGUGAGUCGACCCCUAAGGCGAGGCCGAAAGGCGUA GUCGAUGGGAAACAGGUUAAUAUUCCUGUACUUGGUGUUACUGCGAAGGG GGGACGGAGAAGGCUAUGUUGGCCGGGCGACGGUUGUCCCGGUUUAAGCG UGUAGGCUGGUUUUCCAGGCAAAUCCGGAAAAUCAAGGCUGAGGCGUGAU GACGAGGCACUACGGUGCUGAAGCAACAAAUGCCCUGCUUCCAGGAAAAG CCUCUAAGCAUCAGGUAACAUCAAAUCGUACCCCAAACCGACACAGGUGG UCAGGUAGAGAAUACCAAGGCGCUUGAGAGAACUCGGGUGAAGGAACUAG GCAAAAUGGUGCCGUAACUUCGGGAGAAGGCACGCUGAUAUGUAGGUGAA GCGACUUGCUCGUGGAGCUGAAAUCAGUCGAAGAUACCAGCUGGCUGCAA CUGUUUAUUAAAAACACAGCACUGUGCAAACACGAAAGUGGACGUAUACG GUGUGACGCCUGCCCGGUGCCGGAAGGUUAAUUGAUGGGGUCAGCGCAAG CGAAGCUCUUGAUCGAAGCCCCGGUAAACGGCGGCCGUAACUAUAACGGU CCUAAGGUAGCGAAAUUCCUUGUCGGGUAAGUUCCGACCUGCACGAAUGG CGUAAUGAUGGCCAGGCUGUCUCCACCCGAGACUCAGUGAAAUUGAACUC GCUGUGAAGAUGCAGUGUACCCGCGGCAAGACGGAAAGACCCCGUGAACC UUUACUAUAGCUUGACACUGAACAUUGAGCCUUGAUGUGUAGGAUAGGUG GGAGGCUUUGAAGUGUGGACGCCAGUCUGCAUGGAGCCGACCUUGAAAUA CCACCCUUUAAUGUUUGAUGUUCUAACGUGGACCCGUGAUCCGGGUUGCG GACAGUGUCUGGUGGGUAGUUUGACUGGGGCGGUCUCCUCCUAAAGAGUA ACGGAGGAGCACGAAGGUUGGCUAAUCCUGGUCGGACAUCAGGAGGUUAG UGCAAUGGCAUAAGCCAGCUUGACUGCGAGCGUGACGGCGCGAGCAGGUG CGAAAGCAGGUCAUAGUGAUCCGGUGGUUCUGAAUGGAAGGGCCAUCGCU CAACGGAUAAAAGGUACUCCGGGGAUAACAGGCUGAUACCGCCCAAGAGU UCAUAUCGACGGCGGUGUUUGGCACCUCGAUGUCGGCUCAUCACAUCCUG GAGCUGAAGUAGGUCCCAAGGGUAUGGCUGUUCGCCAUUUAAAGUGGUAC GCGAGCUGGGUUUAGAACGUCGUGAGACAGUUCGGUCCCUAUCUGCCGUG GGCGCUGGAGAACUGAGGGGGGCUGCUCCUAGUACGAGAGGACCGGAGUG GACGCAUCACUGGUGUUCGGGUUGUCAUGCCAAUGGCACUGCCCGGUAGC UAAAUGCGGAAGAGAUAAGUGCUGAAAGCAUCUAAGCACGAAACUUGCCC CGAGAUGAGUUCUCCCUGACUCCUUGAGAGUCCUGAAGGAACGUUGAAGA CGACGACGUUGAUAGGCCGGGUGUGUAAGCGCAGCGAUGCGUUGAGCUAA CCGGUACUAAUGAACCGUGAGGCUUAACCUUACAACGCCGAAGAUGUUUU GGCGGAUGAGAGAAGAUUUUCAGCCUGAUACAGAUUAAAUCAGAACGCAG AAGCGGUCUGAUGAAACAGAAUUUGCCUGGCGGCCGUAGCGCGGUGGUCC CACCUGACCCCAUGCCGAACUCAGAAGUGAAACGCCGUAGCGCCGAUGGU AGUGUGGGGUCUCCCCAUGCGAGAGUAGGGAACUGCCAGGCAUCAAAUUA AGCAGUAAGCCGGUCAUAAAACCGGUGGUUGUAAAAGAAUUCGGUGGAGC GGUAGUUCAGUCGGUUAGAAUACCUGCCUGUCACGCAGGGGGUCGCGGGU 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(-1270.50)
Length sequence : 3400	Length match: 2725