gi_545778205_gb_U000_38

cmsearch-Rfam

Family :

cspA

Id:

RF01766

Type:

Cis-reg; thermoregulator;

Taxonomy:

Eukaryota; Bacteria;

Ontology:

GO:0040040 thermosensory behavior

Description:

not description

Score:

117.1

E-value:

2.3e-30

From sequence:

1638813

To sequence:

1638428

Alignments:

                                                           vvvv                 v            vv  v          v    NC
                               :::<<<<<<_____>>>>>>,,,,,[[-[[[[------[[--[[[[..[[[[-----[[[[-[[[[[[-[[[,,,(((((( CS
               RF01766       1 auCgGucugaagUAcagaCcAuuaAaGcAGuguagUaAggcaaguC..CcuuuaAGaguuaUCguuGAUACCccUCguagu 79     
                                  ::U:UG   UACA:A::   +  G           :GC A UC    UU+ A +:UUAU  UU  UACC+CU:G  :U
  gi_545778205_gb_U000 1638813 UCUGGUUUG--UUACAAAUUUA-UCUGA----------AGC-AGUCauUGUUAUAAUUUUAUUAUUUGUACCUCUUGAGAU 1638747
                               *********..589*****965.33444..........555.334444558899999***************888776555 PP

                                          vv   vvv                 vvv                                 vv        NC
                               (------(((((((,<<<<___________......>>>>,,,,,,,,,,<<<____>>>,,,,,,,,,,,)))))))--- CS
               RF01766      80 GaacaUUcCuUuaaagcuccaAaAUcUguA......gagcAagCCauaacGCCgaaaGGCAaaauuaaUuauuaAaGguAA 154    
                                    UUCCUU +: G   ++ + UCUG+          C  +CCAU+ +GCC AA GGC AA+UU +U A:  AAGGUAA
  gi_545778205_gb_U000 1638746 -----UUCCUUGUUGGUUUUUCUCUCUGAUauuuuuUUUCGGACCAUUCUGCCCAAGGGCUAAUUUCUUCAA--AAGGUAA 1638673
                               .....88999966667777666666655553444445566778999**************999998888665..9****** PP

                                     v      v        v                  v  vv        v             vvvv     v    NC
                               --))))))),<<<<<______>>>>>,,,,,,,,,,,]]]]]]]]]-]]]]-]]]]----]]]]]]--]]]]-]],,(((( CS
               RF01766     155 UaCacuauGUCcaguAaAAUGacugGUauaGUAAAAUGGUUCaacGaugacAaagGcUUcGgcuucAUcaCUCCuGacgAu 235    
                               UA A:  U:UC:A :AAAAUG: U:GU+UAGU AAAUGGU  AA  +UGA:AAA  +UU+GG UU:AUCAC CC  A :AU
  gi_545778205_gb_U000 1638672 UA-AUUAUGUCUAACAAAAUGACUGGUUUAGUGAAAUGGUUUAACCCUGAAAAAGGUUUUGGUUUCAUCACGCCGAAAGAU 1638593
                               **.7889************************************************************************** PP

                                v                           v vv      v  vvv        vvvv         vv  v           NC
                               ((,,,,,,,<<_____>>,,<<<<<<-<<<<<<-<<<<<<--<<<________>>>>>>>>>---->>->>>>>>>>>>,, CS
               RF01766     236 gGCagcAAAGAcGUgUUCGUacACuUCuCUGCcAucCAggaCGauGGuUuCAAauCccUGgacGAAgGuCAGaAaGUguac 316    
                               : CAGCAAA:A+GUGUU:GU::A UUC C G  A:::A: +C   G UUUCAA    :U:::+GA   UC G AA U::A+
  gi_545778205_gb_U000 1638592 GGCAGCAAAGAUGUGUUUGUCCAUUUCUCAGCAAUUCAGAGCAACGAUUUCAAAACAUUAACUGAGAAUCAGGAAGUUGAA 1638512
                               ********************************************************************************* PP

                                   v    v    v   v       v  v vv                    vv       vvv      vvv        NC
                               ,,,,)))))),,,,<<<-<<<___>>>>>><<<<<<<<<______>>>>>-.>>>>,,<<<-<<<<____>>>>->>>,,, CS
               RF01766     317 UUCaCcaUcgAAAacGGcGCcAAAgGCCCggcaGCugcuAACGUaagcaGc.CuguAAucuucGcuuaaaagCgcagaAUu 396    
                               UU   :AU: A+AA GG  C:AAA:G CC G  GC ::U A GU A:: GC C  U A::U+   :  A+:   +A::AU 
  gi_545778205_gb_U000 1638511 UUUGGUAUUGAGAACGGACCUAAAGGUCCUGCCGCUGUUCAUGU-AGUGGCgCUUUGAGGUAGACAAUAUUACAAACCAUA 1638432
                               ********************************************.788886566666766665555555555555666543 PP

                                                                NC
                               ,<<<<<<<<<<<<____>>>>>>>>>>>>::: CS
               RF01766     397 uaaaacccccgccaauUggcggggguuuuuuu 428    
                                               U            U+ 
  gi_545778205_gb_U000 1638431 ----------------U------------UCA 1638428
                               ................4............*** PP

>>

RNAfold
>gi_545778205_gb_U000_38
GACAACACGGGCAUCUAAAGUGAAUAUGGUUUGUAAUAUUGUCUACCUCA
AAGCGCCACUACAUGAACAGCGGCAGGACCUUUAGGUCCGUUCUCAAUAC
CAAAUUCAACUUCCUGAUUCUCAGUUAAUGUUUUGAAAUCGUUGCUCUGA
AUUGCUGAGAAAUGGACAAACACAUCUUUGCUGCCAUCUUUCGGCGUGAU
GAAACCAAAACCUUUUUCAGGGUUAAACCAUUUCACUAAACCAGUCAUUU
UGUUAGACAUAAUUAUUACCUUUUGAAGAAAUUAGCCCUUGGGCAGAAUG
GUCCGAAAAAAAAUAUCAGAGAGAAAAACCAACAAGGAAAUCUCAAGAGG
UACAAAUAAUAAAAUUAUAACAAUGACUGCUUCAGAUAAAUUUGUAACAA
ACCAGAACACCAUUAACGCAUGAUUAA
.......((.((.......(((....((((((((.(((((((((...(((..(((((.....(((....(((((((((.......(((((((((((......((((((......(((((.((((........)))))))))......))))))..)))).))))))).......)).)))))))))).....)))))..)))......((((((....)))))).................(((((((..(((((......(((((((((((((((.((.........((((((......))))))......................((.....))...))))))))))))...))))).......))))))))))))....))))))...))).))))))))...))).......)).))..... (-90.70)

Length sequence

: 427

Length match:

384