gi_545778205_gb_U000_40

cmsearch-Rfam

Family :

cspA

Id:

RF01766

Type:

Cis-reg; thermoregulator;

Taxonomy:

Eukaryota; Bacteria;

Ontology:

GO:0040040 thermosensory behavior

Description:

not description

Score:

140.2

E-value:

6e-37

From sequence:

1907611

To sequence:

1907151

Alignments:

                                     vvv     vvv             v v               vvv      v                vvvvvvv NC
                               :::<<<<<<_____>>>>>>,,,,,[[.-[[[[------[[--[[[[[[[[-----[[[[-[[[[[[-[[[,,,((((((( CS
               RF01766       1 auCgGucugaagUAcagaCcAuuaAaG.cAGuguagUaAggcaaguCCcuuuaAGaguuaUCguuGAUACCccUCguaguG 80     
                               A+C::     AGU     ::AU +  G CA U U   +A:: AAGUCC   U AG+: :: CGUUGA : :          
  gi_545778205_gb_U000 1907611 AACGAGGUACAGUUCUGUUUAUGUGUGgCAUUUUCAGUAAAGAAGUCC---UGAGUAAACACGUUGACGUUGAA------U 1907540
                               ***9887776666655556666666666888887666666667****9...89999999999999994444332......1 PP

                                        vv v                                                      v vv         v NC
                               ------(((((((,<<<<______~~~~~~>>>>,,,,,,..,,,,<<<____>>>,,,,,,,,,,,)))))))-----.) CS
               RF01766      81 aacaUUcCuUuaaagcuccaAaAU*[ 5]*gagcAagCCa..uaacGCCgaaaGGCAaaauuaaUuauuaAaGguAAUa.C 157    
                               A C  U:CU  : + : CC+ A        G :  A C A  U+A+GCC+   GGC AA  +AA +A :  AG:+A U+  
  gi_545778205_gb_U000 1907539 ACCGCUUCUCUGCCGAGCCUUAUA*[26]*GUUUUAUCUAugUUAUGCCUGCGGGCGAAGAAAACAAUCUAAGGAAUUUuU 1907439
                               334445555555566655543322...7..555666665522557999999999*************99999999888832 PP

                               vvvvvv  vvvv      vvvv                        v  vvv             v v      v   vv  NC
                               )))))),<<<<<______>>>>>,,,,,,,,,,,]]]]]]]]]-]]]]-]]]]----]]]]]]--]]]]-]],,((((((, CS
               RF01766     158 acuauGUCcaguAaAAUGacugGUauaGUAAAAUGGUUCaacGaugacAaagGcUUcGgcuucAUcaCUCCuGacgAugGC 238    
                                ++AUG C    AA AU A++ GU   GU AA U: :UCAACGA:: :AAAGG+UU+GGCU::AU A UCC G+ :AU  C
  gi_545778205_gb_U000 1907438 CAAAUGGCA---AAGAUUAAAGGUCAGGUUAAGUGGUUCAACGAGUCUAAAGGUUUUGGCUUCAUUACUCCGGCUGAUGGC 1907361
                               334455552...55566677789********************************************************** PP

                                                v   v    v            vv          vv              v   v   v      NC
                               ,,,,,,<<_____>>,,<<<<<<-<<<<<<-<<<<<<--<<<________>>>>>>>>>---->>->>>>>>>>>>,,,,, CS
               RF01766     239 agcAAAGAcGUgUUCGUacACuUCuCUGCcAucCAggaCGauGGuUuCAAauCccUGgacGAAgGuCAGaAaGUguacUUC 319    
                               AGCAAAGA+GUGUUCGU :AC UCUC GC:A:CCAG:++  UGG+UUCAAA  :CUGG:+GAA:GUC GAA GU: A UUC
  gi_545778205_gb_U000 1907360 AGCAAAGAUGUGUUCGUACACUUCUCCGCUAUCCAGGGUAAUGGCUUCAAAACUCUGGCUGAAGGUCAGAACGUUGAGUUC 1907280
                               ********************************************************************************* PP

                                vv   v        vvv   vvv    v                     v                             v NC
                               ,)))))),,,,<<<-<<<___>>>>>><<<<<<<<<______>>>>>->>>>,,<<<-<<<~~~~~~>>>->>>,.,,,<< CS
               RF01766     320 aCcaUcgAAAacGGcGCcAAAgGCCCggcaGCugcuAACGUaagcaGcCuguAAucuucGc*[ 6]*gCgcagaA.Uuuaa 399    
                                  AU: A+ ACGGC   AAA   CCGG AGCUG:UAACGU A:CAG CU U  ::U :::      :::+A::   +UA 
  gi_545778205_gb_U000 1907279 GAAAUUCAGGACGGCCAGAAAGGUCCGGCAGCUGUUAACGU-AACAG-CUAUCUGAUCGAA*[26]*UUCAAUCUcGCUAU 1907181
                               **************9888999999*****************.8****.*****99999876...9..67889997689999 PP

                                                        v     NC
                               <<<<<<<<<<_.___>>>>>>>>>>>>::: CS
               RF01766     400 aacccccgcca.auUggcggggguuuuuuu 428    
                               AA::CC::::  A+U::::GG::UU U++U
  gi_545778205_gb_U000 1907180 AAAGCCUCGUCgAAUGCGAGGCUUUUUACU 1907151
                               *********861566*************** PP

>>

RNAfold
>gi_545778205_gb_U000_40
GUAAAAAGCCUCGCAUUCGACGAGGCUUUAUAGCGAGAUUGAAGCGUAUU
CACACUUCAGAUCAGUGGAUUCGAUCAGAUAGCUGUUACGUUAACAGCUG
CCGGACCUUUCUGGCCGUCCUGAAUUUCGAACUCAACGUUCUGACCUUCA
GCCAGAGUUUUGAAGCCAUUACCCUGGAUAGCGGAGAAGUGUACGAACAC
AUCUUUGCUGCCAUCAGCCGGAGUAAUGAAGCCAAAACCUUUAGACUCGU
UGAACCACUUAACCUGACCUUUAAUCUUUGCCAUUUGAAAAAUUCCUUAG
AUUGUUUUCUUCGCCCGCAGGCAUAACAUAGAUAAAACUGACACAUUACU
GCAUGAGGCACCAAUAUAAGGCUCGGCAGAGAAGCGGUAUUCAACGUCAA
CGUGUUUACUCAGGACUUCUUUACUGAAAAUGCCACACAUAAACAGAACU
GUACCUCGUU
....((((((((((....).)))))))))...(((((.((((((.((....)).))))))...(((((.((((((.((..((((((((...))))))))((((((....))))))....(((((..((((((.....)))).))..)))))..((.((((((..(((((((((((((.(((((((((.((((....)))).))))))))))))......)).))))))..)))))))))).....)).)))))))))))...(((((.......((((((((............(((((.((((....(((((...((((........(((......)))........)))).)))))...)))).)))))...))))))))....(((..((.((....))))..)))))))).........(((...(((.....)))...)))........))))). (-127.40)

Length sequence

: 460

Length match:

459