Transcript_25

"structRNAfinder"

Transcript_25
cmscan-Rfam
Family : SSU_rRNA_bacteria	Id: RF00177	Type: Gene; rRNA;
Taxonomy: Eukaryota; Bacteria; Viruses; Archaea; Viroids;	Ontology: GO:0003735 structural constituent of ribosomeRF00177
Description: not description
Score: 269.9	E-value: 1.3e-84
From sequence: 61	To sequence: 1013
Alignments: vv vv NC ::::::::<<<<<_______>>>>>,{{{{-{{{{{{,{{{{{{{{{----{{{-{{{,,~~~~~~,,,,,,~~~~~~~,~~~~~~~~~~~~,, CS RF00177 1 uuuauggAGaGuuUGAUCcUggCuCAGggcGaaCGCuGGCGGcgcGcuUaAcaCAuGCAA[39]GaAcGG[206]A[22][13]GC 349 +U U U:U AU U:G :::: :::+U+ACACAUGCAA C Transcript_25 61 AUGGUCCCGACUUUUAUAUUAGCCUUAGCU--------------AAACUUACACAUGCAA[58]------[ 28]-[12][17]-C 222 ***************9998855544444..............67***********...8............9..............8 PP v NC ,}}}}}}-},,,,,<-<<<---<<<<<____>>>>>->>>>,}}-}}}}}},,~~~~~~~~~~~~,,<<<<<------<<<<<-----<<____ CS RF00177 350 AGCaGugggGAAUauUgcgCAAugGgcGaAAgcCugAcgcaGCgAcgCCGCGU[31]*[54]AAGcccCGGCUAAcuccGUGCCAGCAGCC 516 AGCAGUG+: A AUU::: AU::GCGAAAGC::GA:::AG:: U AAG::CCGG UAA ::CGUGCCAGC CC Transcript_25 223 AGCAGUGAUCGACAUUAAAU-AUAAGCGAAAGCUUGAUUUAGUU-------AU[ 2][ 4]AAGAGCCGGUUAAACUCGUGCCAGCCACC 302 9**************996.6****************877.......66...9.......***************************** PP v NC >>------->>>>>>>>>>,}}}}}}}}}},,,,,,,,,,{{{-----{,[[[[-[-[[[,~~~~~~~~~~~~~,,,]]].]--]]]],,,,<< CS RF00177 517 GCGGUAAuACggagGgggCaaGCGuugccCGGAaUuAuUGGGcGUAAAGgGcgcGcAgGcG[64][100]GACgCu.gAggcgCGAAAGC 760 GCGGU AUACG:: GG::CA :::: A U U GGCGUAAAG G:G: :A:::G AC::: :A :C:CGA A C Transcript_25 303 GCGGUUAUACGAGAGGCUCA------AGUUAAUACU-AUCGGCGUAAAGUGUGAUUAUAGG[39][ 49]-ACCUAgAAUUCACGACAGC 463 *****************9......4444444444.467***********997776...9......9...5666625679******* PP NC <<<<---<<---<<<<_________>>>>--->>>>>>>>,,,,,,,,,,((((((,,~~~~~~~~~~~~,,,,,))))))}}}},<<<----- CS RF00177 761 guGGGgAgCaAAcgGGAUUAGAUACCCcgGUAGuCCacGCcgUAAACGAUGggcgCUA[29][11]auUAAGcgccCCgCCUGgGGAgUA 882 ::GG A::AA :GGGAUUAGAUACCCC: UA::CC::G CGUAAAC U :::G: A UA :C::: CGCC G:G A UA Transcript_25 464 UAGGAAACAAACUGGGAUUAGAUACCCCACUAUGCCUAGUCGUAAACUUUGAUGGUAA[ 3][ 3]--UAUACCAUUCGCCGGGGAACUA 549 *******************************************************98........8....788***************** PP v v v NC -<<<<___._>>>>---->>>,,,,,,,,{{{{{-{{{{{{{...-{{,,{{{{{{{{{{{{{{{{{,,,,<<<<________>>>>,,,,,,, CS RF00177 883 CggcCGCA.AGgcugAAACuCAAAGGAAUuGaCgGgGgCCCG...CaCAAGCGguGgagcauGuGGuUUAAuuCGAuGcaAcgCGaaGAACCUU 972 C:::CG A AG:::+AAAC:CAA GGA UUG:C:G G CCC: C:CA :::G:GGAGC:U U::U UA : GA+ C+AC C : AACCU Transcript_25 550 CAAGCGUAuAGCUUAAAACCCAACGGACUUGGCGGUGCCCCAcacCCCACCUAGAGGAGCCUGUUCUAUA-ACUGAAACUACCCGUUCAACCUC 642 **9868****************************877799************999888.899****************** PP v vvv vvv v NC ,{{{{{{{,,,,,~~~~~~,[[-[[[[--[[[[[[[[[,,,((((((<<<____>>>,,.<<<<______>>>>,,)))))),,,~~~~~~,,, CS RF00177 973 ACCcgggcUUGAc[50]AGGUGcugCAuGgcuGuCGUCAGCuCGuguCGUGAGauGU.cgGGUUAAGUCCcgcAaCGaGCGCA[78]AuG 1181 ACC::::CU G C AG :U: A::GC:GUCG AGC:C: :::GUGA::: U :+++ AAG : A :G:GC A A Transcript_25 643 ACCACCCCUAGCC[ 3]AGUCUAUAUACCGCCGUCGCAAGCCCACCCUGUGAAGGAUcAAUAACAAGC---UAAAUGGGCAUA[ 4]AAA 728 ********999...9..**********************************9843444556666...59***876...8..* PP v v NC ,]]]]-]]]---]]]]]]]],,,,}}}}}}},,,}}-}}}}}}}}}},,,<<<<<~~~~~~>>>>>,,,,,,<---<<<<<<<<.________> CS RF00177 1182 ACGuCAaguCauCauggCCCUUAugcccgGGGCuaCACaCgugcuaCAAUGgccg[46]cggcCucAGUUCGGAcuGgaGgC.UGcAAcUCG 1314 ACGUCA:GUC :::G: C AUG::::GG A:A:A G:GCUACA U :C:: ::G: U A CG A::::AG C UG AAC C Transcript_25 729 ACGUCAGGUCGAGGUGUAGCACAUGGGGUGGAA-AGAAAUGGGCUACAUUUUCUA[ 4]UAGAAUAA--ACGAAUAAUAGUCaUGAAACAC- 816 *****************************87.999*********99886...9..68888987..5******97699999999. PP v v NC >>>>>>>--->,,,,,}}}}},,,,,<<<<<<<<_______>>>>>>>>,,,,,,}}---}}}}}}}}}}-}},,<-<<-<<---<<<<<<<<- CS RF00177 1315 cCucCagGAAGuuGGAauCGCUAGUAaucGcggcUCAGcAugccgCgguGAAUACGuUCcCGGGcCuuGuACaCACCGcCCGUCAcgcCacgga 1408 CU::::GAAG GGA:U::: AGUAA::::::: AG :::::::UGAA CG: CC:GGG C :G:ACACACCGCCCGUCA :C::CG: Transcript_25 817 GCUAUUUGAAGGAGGAUUUAGCAGUAAAAAGAAAAUAGAGCGUUCUUUUGAAAUCGGCCCUGGGACGCGCACACACCGCCCGUCACUCUCCGCC 910 6*****************************************************************************************9 PP v NC -~~~~~~-->>>>>>>>---->>-->>-->,<<<<<<<<<<____>>>>>>>>>>::::::::::::: CS RF00177 1409 A[63]gAccggGgcgAAGUCGUAaCAAGGuagCcguaccGGAAggugcgGcugGAUcAccUcCUUu 1533 A A:CG::G: AAGUCGUAACA GGUA:::GUACCGGAAGGUGC:::UGGAU+A C Transcript_25 911 A[41]UAGCGGAGACAAGUCGUAACACGGUAAGUGUACCGGAAGGUGCACUUGGAUUAACAAAAAA 1013 9...5..68********************************************************** PP
RNAfold
>Transcript_25 AAAGCAUAACACUGAAGAUGUUAAGACGGACCCUAAUAAGGUCCCGCAAG CACAAAAGCAUGGUCCCGACUUUUAUAUUAGCCUUAGCUAAACUUACACA UGCAAGUAUCAGCAGUCCGGUGAGAAUGCCCUCAAUACCCAACAAGUUUA AGAGGAGCUGGUAUCAGGCACGCUACUAGUAGCCCAAAACACCUUGCUCA GCCACACCCCCAAGGGUACUCAGCAGUGAUCGACAUUAAAUAUAAGCGAA AGCUUGAUUUAGUUAUAGCUAAAAGAGCCGGUUAAACUCGUGCCAGCCAC CGCGGUUAUACGAGAGGCUCAAGUUAAUACUAUCGGCGUAAAGUGUGAUU AUAGGACCCAAUACUAAAGCCAAAAGGCCUCAAAACUGUUAUACGCCCAU UGAGACUUGUAGGCUCCAAAACGAAAGUAGCUUUAAAACUUUAACCUAGA AUUCACGACAGCUAGGAAACAAACUGGGAUUAGAUACCCCACUAUGCCUA GUCGUAAACUUUGAUGGUAAAAUACAUAUACCAUUCGCCGGGGAACUACA AGCGUAUAGCUUAAAACCCAACGGACUUGGCGGUGCCCCACACCCCACCU AGAGGAGCCUGUUCUAUAACUGAAACUACCCGUUCAACCUCACCACCCCU AGCCCCCAGUCUAUAUACCGCCGUCGCAAGCCCACCCUGUGAAGGAUCAA UAACAAGCUAAAUGGGCAUAGCCCAAAACGUCAGGUCGAGGUGUAGCACA UGGGGUGGAAAGAAAUGGGCUACAUUUUCUAUACCUAGAAUAAACGAAUA AUAGUCAUGAAACACGCUAUUUGAAGGAGGAUUUAGCAGUAAAAAGAAAA UAGAGCGUUCUUUUGAAAUCGGCCCUGGGACGCGCACACACCGCCCGUCA CUCUCCGCCAUUUUUCACAAACUCACUAAAUAAUAAUUUAAAUAUAACUA CUAGCGGAGACAAGUCGUAACACGGUAAGUGUACCGGAAGGUGCACUUGG AUUAACAAAAAAAAAAAAAA ...((.((((((....).)))))....(((((.......))))).))..((......))...((..((((((...(((((((.(((((((......(((.(((.......(((((...((((....((((....(((((.....(((((.....))))))))))..)))).((((....))))......))))))))).......((((....)))).....))))))......(((((((.(((((....))))))))))))..)))))))..(((((.......((((((..((((.....)))).)))))).)))))..)))))))...((.((....((((((.....................(((....))).(((..((((((((..((((((((((.....((((((((...((....)).................((((........((.((((((........((((.........)))).....)))))).)).......(((((((.........)))))))..((((((......((((.....))))....)))..)))...(((.((((.....))))))).)))).)))))))).........((((........))))..))).(((((((.....................((.(((((.........))))).))...........((((..(((((...)))))..((.((.....)).)).))))....))))))).....)))))))......(((((....))))).......))))))))..)))..))))))(((((((..(..((((((.(((.(((((((.........)))))))((((..(((...((((((.((.......)).)))).))....)))...))))....)))..))))))..)..)))))))..........)).))...))))))..))....((((((((((....))))))))))..................... (-268.42)
Length sequence : 1020	Length match: 952