gi_545778205_gb_U000_294

"structRNAfinder"

gi_545778205_gb_U000_294
cmsearch-Rfam
Family : SSU_rRNA_eukarya	Id: RF01960	Type: Gene; rRNA;
Taxonomy: Eukaryota; Bacteria; Viruses; Archaea; Viroids;	Ontology: GO:0003735 structural constituent of ribosomeRF01960
Description: not description
Score: 683.4	E-value: 4.2e-205
From sequence: 2731152	To sequence: 2729621
Alignments: v v NC :::<<<<<_______>>>>>,{{{{{.{{{{{,{{{{{{{{[-----[[[-[[[,,<<.-<<<---~~~~~~->>>>>,,, CS RF02542 1 CACCAGGuUGAUUCUgCCUGAcgugg.acgCUagucuccgaGAUUaAGCCAUGCAuGc.ucgcGAA[10]AgcggCGaA 83 A AG UUGAU UG CU A::U: ACGCU G:::C:G: UAA: CAUGCA+G: :CG AG: :CG+A gi_545778205_gb_U000 2731152 GAAGAGUUUGAUCAUGGCUCAGAUUGaACGCUGGCGGCAGGC-CUAACACAUGCAAGUcGAACGGU[30]AGUGGCGGA 2731049 *********************99649*********8.79*********87888754...9..6889* PP v v v NC ,,,(((,,,,,,<<<<<<<<--<<---<<<<<<<--<<<----<<<<<<<____>>>>>>>----->>>............ CS RF02542 84 cgGCUCAGUAauccggccccuAucUaaucgccccaugcggAUAcCcgcgguAAaccgcgGguAAuAcgc............ 152 CGG U AGUAAU :::::: A CU+ ::G::::A :GGAUA:C::C:G+AAAC:G::G:UAAUAC: gi_545778205_gb_U000 2731048 CGGGUGAGUAAUGUCUGGGA-AGCUGCCUGAUGGAGGGGGAUAACUACUGGAAACGGUAGCUAAUACCGcauaaugucgca 2730969 ***************9.*****************************************9969******* PP v v NC ...............................>>>>>>>-->>>>>>>>>><<<--<-<<<--<<<<<<<<_______>>>> CS RF02542 153 ...............................ggggcgaaUgaggggccggcCuAUcAGcuaGucggUAgGGUAAgGGCcUA 202 ::::C::AUG :::::: :::AU AGCU+GU:GGU: GGUAA GGC :A gi_545778205_gb_U000 2730968 agaccaaagagggggaccuucgggccucuugCCAUCGGAUGUGCCCAGAUGGGAUUAGCUUGUUGGUGGGGUAACGGCUCA 2730888 ***************************************************************************** PP v v v NC >>>>>>>----->>>>,,,<<<<<<<<____>>>>--->>>>))),<<<<<<__________>>>>>>,<<<<____>>>> CS RF02542 203 ccgaggCgAugAcgGgUaACGGggaAuuagggUucgAUuCCGGAGAGGgAGCCUGAGAGAUgGCUcCCAcgUCCAAGGAcg 283 CC:AGGCGA GA :::U A ::::U AG+G:::GA : A A: G:: CUGAGA A G ::C :AC::C+A GG::G gi_545778205_gb_U000 2730887 CCAAGGCGACGAUCCCU-AGCUGGUCUGAGAGGAUGACCAGCCACACUGGAACUGAGACACGGUCCAGACUCCUACGGGAG 2730808 *************.*********************************************************** PP v NC ,,,]]]]]]-],,,,,<-<<<---<<<<<.___>>>>>->>>>,}}-}}}}}},,,,,,,,,,.....,,<<<<<<_____ CS RF02542 284 GCAGCAGGCGCGAAAcUUgCCcAAccccc.auugggggAGGcAGucAggagacGUaaauuuaa.....gacgggcguGUAA 358 GCAGCAG :G GAA +UUGC CAA::::C ++G::::A GCAG:CA:G:::CGU++AU +A + :GG::UGUAA gi_545778205_gb_U000 2730807 GCAGCAGUGGGGAAUAUUGCACAAUGGGCgCAAGCCUGAUGCAGCCAUGCCGCGUGUAUGAAGaaggcCUUCGGGUUGUAA 2730727 *************************9999*********************999998888665777777777777 PP v v v NC _~~~~~~>>>>>>,,,..,,<<<<<<-------<<<<-----<<____>>------->>>>>>>>>>,}}}}}}}}}},,, CS RF02542 359 A[ 3]cgcccggaa..aAcuGGAGGGCAAGuCuGGUGCCAGCAgCCGCGGUAAUaCCaGCUCCaggAGcguccaugaug 434 A ::CC: + A AA::: GGC A :::GUGCCAGCAGCCGCGGUAAUAC::: ::: AGCGU :A:: + gi_545778205_gb_U000 2730726 A[54]ACCCGCAGAagAAGCAC-CGGCUAACUCCGUGCCAGCAGCCGCGGUAAUACGGAGGGUGCAAGCGUUAAUCGGA 2730599 6.....77777766667***6.699999********************************************** PP NC ,,,,,,,[[[,,,,,,,((((---(((------------------------------------------------------ CS RF02542 435 auUGcUGCggUUAAAAaGucCGUAgUcggauaauuuuauuuuuuauuaaaaguguuuuuuuaagguguauuauauuaugua 515 AUU CUG:G: UAAA G::CG AG:CGG+U++UU++ U + +U+U+AAA+ + +U+AA UG ++ U ++ +A gi_545778205_gb_U000 2730598 AUUACUGGGCGUAAAGCGCACGCAGGCGGUUUGUUAAGUCAGAUGUGAAAUCCCCGGGCUCAACCUGGGAACUGCAUCUGA 2730518 ************************************************99999999999666666665555555555 PP v v v v NC -..-----------(((((((((--(((((((<<--<<<<<<<<---<<<______>>>------>>>>>>>>-->>,,,, CS RF02542 516 a..uuaagaauuuaggaccGcccggcGgccacggUAuucggcgGcgAgggGUGAAAcccgAuGACCcgccgagGAccaaCa 594 + U +A UU+:G: :::: G+:GG::::: AUUC::: AG::GUGAAA::CG +GA :::GAGGA :A C gi_545778205_gb_U000 2730517 UacUGGCAAGCUUGAGUCUCGUAGAGGGGGGUAGAAUUCCAGGUGUAGCGGUGAAAUGCGUAGAGAUCUGGAGGAAUACCG 2730437 5458999999******************************************************************* PP v v NC <--<<____>>>)))))))-))))))-)))---)))---)))),,,,<<<<<<---<<---<<<<_________>>>>--- CS RF02542 595 gAgGCGAAAGCgguggcCgagggCggauccGaugAucAAGgaCGuAaGCcgGaGgAuCGAAggcGAUUAGAuACCgccGUA 675 G GGCGAA GCG::::CC: :::: :C:GA G:UCA G::CG+AAGC::G:GGA:C AA:::GAUUAGAUACC:::GUA gi_545778205_gb_U000 2730436 GUGGCGAAGGCGGCCCCCUGGACGAAGACUGACGCUCAGGUGCGAAAGCGUGGGGAGCAAACAGGAUUAGAUACCCUGGUA 2730356 ***************************************************************************** PP NC >>>>>>>>,,,,,,,,,,((((((,<<<<<<<<<<......____..>>>>>>>>>>,,<<____>>...,,)))----)) CS RF02542 676 GuuCcgGCaGUAAACgAUGCCcAcagggcggcgcc......uuua..ggcgccgcccaagaGAAAuc...uAgUgUauGGG 745 G::C::GC GUAAACGAUG:C:AC+ GG::G: : + : :C::CC +AG: AA :C +AGU: G: gi_545778205_gb_U000 2730355 GUCCACGCCGUAAACGAUGUCGACUUGGAGGUUGUgcccuuGAG-gcGUGGCUUCCGGAGCUAACGCguuAAGUC----GA 2730280 ******************************9999975333.5799**************999999.... PP NC ),]]],<<<------<<<<____>>>>---->>>,,,,,,,,{{{{{-{{{{{{{--{{,,{{{{{{{{{{{{{{{{{,,, CS RF02542 746 CUccGGggguAGUAcccgcGCAAgcggGAAAcuuaAaGAAAUUGACgGAaggACACCACAAGgAgUGgAgUGuGCGGcUUA 826 C :C: :GG AGUAC:::CGCAAG::: AAACU:AAA AAUUGACGG :G::C: CACAAG::GUGGAG::UG:GG:UUA gi_545778205_gb_U000 2730279 CCGCCUGGGGAGUACGGCCGCAAGGUUAAAACUCAAAUGAAUUGACGGGGGCCCG-CACAAGCGGUGGAGCAUGUGGUUUA 2730200 ***************************************************.7********************** PP v v v NC ,<<<<________>>>>,,,,,,,,{{{{{{{,,,...<<<<<<-~~~~~~>>>>>>,,,[[-[[[[--[[[[[[[[[,,, CS RF02542 827 AuuuGACUCAACGCgggacAaCUUACCagggccga...ggccccu[20]ggggccgaggGUGGugCAUggCCGUUcuuA 918 A:::GA CAACGC:::++A CUUACC:GG:C+ C:C: :G:G + +GGUG UGCAUGGC:G ::U+A gi_545778205_gb_U000 2730199 AUUCGAUGCAACGCGAAGAACCUUACCUGGUCUUGacaUCCACGG[34]CGUGAGACAGGUGCUGCAUGGCUGUCGUCA 2730091 ******************************9886443333332...4..444457999***************** PP NC ((((((<<<____>>>.,<<<<______>>>>,,)))))),,,,,((((,..............................< CS RF02542 919 AcgcgUgggGUGAccu.UccggUUAAaUccgguAAcgcgUGAGAuccccg..............................c 968 :C:CGUG::GUGA::U U::GGUUAA UCC:: AACG:G:G A+CC::+ : gi_545778205_gb_U000 2730090 GCUCGUGUUGUGAAAUgUUGGGUUAAGUCCCGCAACGAGCGCAACCCUUAuccuuuguugccagcgguccggccgggaacU 2730010 *********************************************99999999999999999999999999999999 PP v NC <____>>,,<<<<<<<<.____>>>>>>>>,,,,,)))),,,,]]]]-]]]---]-]]]]]]],,,,,}}}}}}},,,}}- CS RF02542 969 cuuaaggGACccgcgcc.guaAggcgcggGAAGgaggggucaAgAACAGGuCaGuGAugCCCcuAGAUgcccuGGGCUgCA 1048 C +A G:GAC:::C::: +UAA:::G:::GAAGG ::GG+ A:: CA:GUCA U AUG CCCU A G:CC:GGGCU:CA gi_545778205_gb_U000 2730009 CAAAGGAGACUGCCAGUgAUAAACUGGAGGAAGGUGGGGAUGACGUCAAGUCA-UCAUGGCCCUU-ACGACCAGGGCUACA 2729931 99999********99*****************************9.55***85.89*********** PP NC }}}}}}}}}},,,<<<<<<_____________~~~~~~>>>>>>..,,,,<---<<<<<<<<______..>>>>>>>>--- CS RF02542 1049 CGCgCAcUaCAaUggccgcuugaaauauaaua[ 8]gcggcc..aauuGGGAcuggccccUGUAAu..ggggccagGAA 1127 C:CG::CUACAAUG:C:::U+ AAA A AA :::G:C A+U :GGA:UGG:::CUG AA G:::CCA:GAA gi_545778205_gb_U000 2729930 CACGUGCUACAAUGGCGCAUACAAAGAGAAGC[31]UGCGUCguAGUCCGGAUUGGAGUCUGCAACucGACUCCAUGAA 2729825 *****************9888877766554...6..**999999*************888******* PP v v v NC >,,,,,}}}}},,,,,<<<<<<<<_______>>>>>>>>,,,,,,}}---}}}}}}}}}}-}},,,,<<-<<-<-<<<<<< CS RF02542 1128 CguGGAAuUcCUAGUAgucgcgcgUCAuuAAcgcgcgacGAAUguGUCCCUGUccuUuGUACACACCGcCCGUCGcuAuCu 1208 : GGAAU::CUAGUA: CG:G: UCA A :C:CG :GAAU+ GU CC:G::C: UGUACACACCGCCCGUC+C::: : gi_545778205_gb_U000 2729824 GUCGGAAUCGCUAGUAAUCGUGGAUCAGAAUGCCACGGUGAAUACGUUCCCGGGCCUUGUACACACCGCCCGUCACACCAU 2729744 ***************************************************************************** PP v vvvv vvvv v v NC <<--<<<<<<<<<<<<<<<<<<<<____...................>>>>>>>>>>>>>>>>>>>>-->>>>>>>>-->- CS RF02542 1209 cAGAuggcugcccgggcgaagagcuuaa...................gcucugagcccgggcagcuaGAUgaGaUagAAGU 1270 :GA G ::::C::: G ::+UA :: A :::G:::: C GA: : :::GAAGU gi_545778205_gb_U000 2729743 GGGAGUGGGUUGCAAAAGAAGUAGGUAGcuuaaccuucgggagggcgCUUACCACUUUGUGAUUCAUGACUGGGGUGAAGU 2729663 *********99877666655555569*************66666677899******************* PP NC >>-->>,,,,<<<<<<<<<<____>>>>>>>>>>:::::::: CS RF02542 1271 CGUAaCAAGGcugCugucGGaGAACCggcaGcagGAUCAuua 1312 CGUAACAAGG:::C:GU:GG GAACC:GC:G:::GAUCA gi_545778205_gb_U000 2729662 CGUAACAAGGUAACCGUAGGGGAACCUGCGGUUGGAUCACCU 2729621 **************************************** PP
RNAfold
>gi_545778205_gb_U000_294 CGCGUUGCGUGAUAUUUUCGUGUAGGGUGAGCUUUCAUUAAUAGAAAGCG AACGGCCUUAUUCUCUUCAGCCUCACUCCCAACGCGUAAACGCCUUGCUA UUCACUUUUCAUCAGACAAUCUGUGUGAGCACUGCAAAGUACGCUUCUUU AAGGUAAGGAGGUGAUCCAACCGCAGGUUCCCCUACGGUUACCUUGUUAC GACUUCACCCCAGUCAUGAAUCACAAAGUGGUAAGCGCCCUCCCGAAGGU UAAGCUACCUACUUCUUUUGCAACCCACUCCCAUGGUGUGACGGGCGGUG UGUACAAGGCCCGGGAACGUAUUCACCGUGGCAUUCUGAUCCACGAUUAC UAGCGAUUCCGACUUCAUGGAGUCGAGUUGCAGACUCCAAUCCGGACUAC GACGCACUUUAUGAGGUCCGCUUGCUCUCGCGAGGUCGCUUCUCUUUGUA UGCGCCAUUGUAGCACGUGUGUAGCCCUGGUCGUAAGGGCCAUGAUGACU UGACGUCAUCCCCACCUUCCUCCAGUUUAUCACUGGCAGUCUCCUUUGAG UUCCCGGCCGGACCGCUGGCAACAAAGGAUAAGGGUUGCGCUCGUUGCGG GACUUAACCCAACAUUUCACAACACGAGCUGACGACAGCCAUGCAGCACC UGUCUCACGGUUCCCGAAGGCACAUUCUCAUCUCUGAAAACUUCCGUGGA UGUCAAGACCAGGUAAGGUUCUUCGCGUUGCAUCGAAUUAAACCACAUGC UCCACCGCUUGUGCGGGCCCCCGUCAAUUCAUUUGAGUUUUAACCUUGCG GCCGUACUCCCCAGGCGGUCGACUUAACGCGUUAGCUCCGGAAGCCACGC CUCAAGGGCACAACCUCCAAGUCGACAUCGUUUACGGCGUGGACUACCAG GGUAUCUAAUCCUGUUUGCUCCCCACGCUUUCGCACCUGAGCGUCAGUCU UCGUCCAGGGGGCCGCCUUCGCCACCGGUAUUCCUCCAGAUCUCUACGCA UUUCACCGCUACACCUGGAAUUCUACCCCCCUCUACGAGACUCAAGCUUG CCAGUAUCAGAUGCAGUUCCCAGGUUGAGCCCGGGGAUUUCACAUCUGAC UUAACAAACCGCCUGCGUGCGCUUUACGCCCAGUAAUUCCGAUUAACGCU UGCACCCUCCGUAUUACCGCGGCUGCUGGCACGGAGUUAGCCGGUGCUUC UUCUGCGGGUAACGUCAAUGAGCAAAGGUAUUAACUUUACUCCCUUCCUC CCCGCUGAAAGUACUUUACAACCCGAAGGCCUUCUUCAUACACGCGGCAU GGCUGCAUCAGGCUUGCGCCCAUUGUGCAAUAUUCCCCACUGCUGCCUCC CGUAGGAGUCUGGACCGUGUCUCAGUUCCAGUGUGGCUGGUCAUCCUCUC AGACCAGCUAGGGAUCGUCGCCUUGGUGAGCCGUUACCCCACCAACAAGC UAAUCCCAUCUGGGCACAUCCGAUGGCAAGAGGCCCGAAGGUCCCCCUCU UUGGUCUUGCGACAUUAUGCGGUAUUAGCUACCGUUUCCAGUAGUUAUCC CCCUCCAUCAGGCAGCUUCCCAGACAUUACUCACCCGUCCGCCACUCGUC AGCGAAGCAGCAAGCUGCUUCCUGUUACCGUUCGACUUGCAUGUGUUAGG CCUGCCGCCAGCGUUCAAUCUGAGCCAUGAUCAAACUCUUCAAUUUAAAA GUUUGAUGCUCAAAGAAUUAAACUUCGUAAUGAAUUACGUGUUCACUCUU GAGACUUGGUAUUCAUUUUUCGUCUUGCGACGUUAAGAAUCCGUAUCUUC GAGUGCCCACACAGAUUGUCUGAUAAAUUGUUAAAGAGCAGUGCCGCUUC G (((((((.((((.........(((((((..((((((.......)))))).....)))))))...........))))...))))))).....((.(((((.((.((..((.(((((((((((((((((.(((((..((.(((((.(((((....((((.((((((.....((((.(((....))).)))))))))).))))((((.......))))((((((..((((((((...(((.........((((......))))........)))...)))))....(((((.((((((.(((((((((((((((((((((....))).))).)))....(((((...)))))..((((((.(.(((((((((((((.(.((((.((..(((.....))))).)))).)))))))))))))).)(((((....)))))))))))....))))))))))))......(((((.((((((((((((((.....))))).((((((.....)))))).........(((((((.....))))).))..(((((((.....(((((......)))))...)))))))...))))))))).)).)))(((......)))............((((((((((.((((((((((((((.(.((((...((((....((((((.......(((((.((........)).)))))....((((......))))(((((.((((.............((((.((......)).))))(((....)))((((.....))))............(((((((.((....)))))))))......((.((((((((((..(((((((((...(((......)))....((.(((...))).))))))))).))..((((((.....))))))..........((((((........)))))).(((((.(((..(((((((((..........)))......(((((.....((.((........))))...))))).......))))))..))))))))......(((((((((((((((.(((((((.(((...))).)))))))...)))))))...........((..((((.((..((((.....))))...))....))))..)).....((((......)))).))))))))))))))))))))((((((..((.(((((..........(((.((((.......)))).)))........))))).))))))))....)))).))))))))))).....)).)).)))).))))))))..)))((((((.....))))))...(((..(((.((((.....)))).)))..)))...)))))))))))..)))(((((((((.........)))))))))(((((....((.((((((...........))))))...))..))))).((((((.....(((((((...((((((.(((((......)))))))))))((........))((...(((((((........)))))))...))..))))).))......)))))).........))))))))))).....(((.(((((((....)))))))))).....(((((..(((.((((....((....))....)))).)))..)))))....((((((((.((......)).)))))))).(((((.((....(((..(((((....))))).)))...)))))))..)))..))))))....((((....))))..)))))..))))).))..))))).))))))))))))))))).))..)).))..))))).))....... (-600.80)
Length sequence : 1851	Length match: 1530