gi_545778205_gb_U000_39

cmsearch-Rfam

Family :

cspA

Id:

RF01766

Type:

Cis-reg; thermoregulator;

Taxonomy:

Eukaryota; Bacteria;

Ontology:

GO:0040040 thermosensory behavior

Description:

not description

Score:

161.2

E-value:

6.2e-43

From sequence:

1641715

To sequence:

1641323

Alignments:

                                  v               v             vv           v                    vv v  v      v NC
                               :::<<<<<<_____>>>>>>,,,...,,[[-[[[[------[[--[[[[[[..[[-----[[[[-.[[[[[[-[[[,,,(( CS
               RF01766       1 auCgGucugaagUAcagaCcAuu...aAaGcAGuguagUaAggcaaguCCc..uuuaAGaguuaU.CguuGAUACCccUCg 75     
                                UC GU:UGAAG ACA:AC AU     AAG AG  UA UAA:GCA: UC C  UU+A G+:UUAU C  U AU CC  U: 
  gi_545778205_gb_U000 1641715 GUCGGUUUGAAGAACAGACGAUAuacGAAGUAGUUUACUAAAGCAGUUCUCauUUCAGGUGUUAUuCACUUAUUCC--UUC 1641637
                               ********************8663457888888889********9999*7766667779*****99*******999..777 PP

                                  v        vvv       v               v                                      vvv  NC
                               (((((------(((((((,<<<<__...._________>>>>,,,,,,,,.,,<<<____>>>,,,,,,,,,,,))))))) CS
               RF01766      76 uaguGaacaUUcCuUuaaagcucca....AaAUcUguAgagcAagCCaua.acGCCgaaaGGCAaaauuaaUuauuaAaGg 151    
                               U:  :  C+ UCC++U:AAG::  A     + UCUGU  ::CAA+CCAU+ A+GCCGAAAGGC +AA      +U:A   G
  gi_545778205_gb_U000 1641636 UUUGAGUCUCUCCAAUUAAGUACGAagucGUUUCUGUUAUGCAAACCAUUuAUGCCGAAAGGCUCAA-----GUUAA---G 1641564
                               77777777777776666667766642222556688888999999999977369**********6543.....23443...7 PP

                                     v   v   v v        v v              v v vv                 v     vv         NC
                               -----))))))),<<<<<______>>>>>,,,,,,,,,,,]]]]]]]]]-]]]]-]]]]----]]]]]]--]]]]-]],,( CS
               RF01766     152 uAAUaCacuauGUCcaguAaAAUGacugGUauaGUAAAAUGGUUCaacGaugacAaagGcUUcGgcuucAUcaCUCCuGac 232    
                                AAU :  :A :UC A UAAAAUGA U GU+UAGUAAAAUGG U A  G+UGA:AAAG +UUCGG :U:AU  CUCCUG :
  gi_545778205_gb_U000 1641563 GAAUGUAGAAUGUCAAAUAAAAUGACUGGUUUAGUAAAAUGGUUUAACGCUGAUAAAGGUUUCGGCUUUAUUUCUCCUGUU 1641483
                               799999*************************************************************************** PP

                               v                      v       v   v vv   v   v          v v   vv    v    v       NC
                               (((((,,,,,,,<<_____>>,,<<<<<<-<<<<<<-<<<<<<--<<<________>>>>>>>>>---->>->>>>>>>>> CS
               RF01766     233 gAugGCagcAAAGAcGUgUUCGUacACuUCuCUGCcAucCAggaCGauGGuUuCAAauCccUGgacGAAgGuCAGaAaGUg 313    
                                AU:G+AG+AAA:A+GUGUU:GU :A  U U UGC A  :A: A+G U  UU+   A C :U:  +GAA GUCA AA  U:
  gi_545778205_gb_U000 1641482 GAUGGUAGUAAAGAUGUGUUUGUGCAUUUUUCUGCGAUUCAGAAUGAUAAUUAUCGAACCUUAUUUGAAGGUCAAAAGGUU 1641402
                               ********************************************************************************* PP

                               v          v     v              v vv vvvvv      vvvvv  vv       vv        vv      NC
                               >,,,,,,)))))),,,,<<<-<<<___>>>>>><<<<<<<<<______>>>>>->>>>,,<<<-<<<<____>>>>->>>  CS
               RF01766     314 uacUUCaCcaUcgAAAacGGcGCcAAAgGCCCggcaGCugcuAACGUaagcaGcCuguAAucuucGcuuaaaagCgcaga  393    
                                +CUUC+C:AU :A+A+ GG+:C:AAA:G:CC G  GC+G  AA GU       C  UA     +G:UUAAAA:      
  gi_545778205_gb_U000 1641401 ACCUUCUCUAUAGAGAGUGGUGCUAAAGGUCCUGCAGCAGCAAAUGUCAU----CAUUAC----UGAUUAAAAU------  1641336
                               *************************************8887777777632....222222....2233333322......  PP

                                         NC
                               ~~~~~~::: CS
               RF01766     394 *[32]*uuu 428    
                                     U+U
  gi_545778205_gb_U000 1641335 *[10]*UCU 1641323
                               ...3..*** PP

>>

RNAfold
>gi_545778205_gb_U000_39
UCUUCGUUAUCGUAUACAGACGAGCGAUGAAUUUUAAUCAGUAAUGAUGA
CAUUUGCUGCUGCAGGACCUUUAGCACCACUCUCUAUAGAGAAGGUAACC
UUUUGACCUUCAAAUAAGGUUCGAUAAUUAUCAUUCUGAAUCGCAGAAAA
AUGCACAAACACAUCUUUACUACCAUCAACAGGAGAAAUAAAGCCGAAAC
CUUUAUCAGCGUUAAACCAUUUUACUAAACCAGUCAUUUUAUUUGACAUU
CUACAUUCCUUAACUUGAGCCUUUCGGCAUAAAUGGUUUGCAUAACAGAA
ACGACUUCGUACUUAAUUGGAGAGACUCAAAGAAGGAAUAAGUGAAUAAC
ACCUGAAAUGAGAACUGCUUUAGUAAACUACUUCGUAUAUCGUCUGUUCU
UCAAACCGACGCAAUCAUUAACGCAUAG
((.((((..((((......)))))))).)).......((((.((((((((...(((.(((((.((...)).)))))((..((((....)))).)).((((((((((...))))..)))))))))...))))))))))))...(((......)))...............((.((.......))))..((((((.......))))))..(((((((.....(((((((((.(((((((((((..((..((((.(((((((((...(((((.(((((.(((.........))).........(((....))).........))))).)))))..)))))))..))))))..))..))))))))...))).))))))))).............((((.(((.....))).))))......))))))).... (-85.00)

Length sequence

: 428

Length match:

391