gi_545778205_gb_U000_37

cmsearch-Rfam

Family :

cspA

Id:

RF01766

Type:

Cis-reg; thermoregulator;

Taxonomy:

Eukaryota; Bacteria;

Ontology:

GO:0040040 thermosensory behavior

Description:

not description

Score:

161.3

E-value:

5.9e-43

From sequence:

1051305

To sequence:

1051727

Alignments:

                                  v               v              v           v    v         v   v  vv         v  NC
                               :::<<<<<<_____>>>>>>..,,,.,,[[-[[[[------[[--[[[[[[[[-----[[[[-.[[[[[[-[.[[,,,((( CS
               RF01766       1 auCgGucugaagUAcagaCc..Auu.aAaGcAGuguagUaAggcaaguCCcuuuaAGaguuaU.CguuGAUA.CCccUCgu 76     
                                UC GU:UGAA  ACA:AC   AU  AAAG AGU UA UAA:GCA: UC C UU    :U:   C UU   A CCCCU: U
  gi_545778205_gb_U000 1051305 GUCGGUUUGAAAGACAGACAgcAUAcAAAGUAGUUUACUAAAGCAGUUCUCAUU----AUCAGgCAUU---AuCCCCUUCU 1051378
                               *******************74454459*****************9999976553....5555446664...4466666666 PP

                               v  v         v vv      v               v                                vv v      NC
                               ((((------(((((((....,<<<<___________>>>>,,,,,,,,,,<<<____>>>,,,,,,,,,,,)))))))-- CS
               RF01766      77 aguGaacaUUcCuUuaa....agcuccaAaAUcUguAgagcAagCCauaacGCCgaaaGGCAaaauuaaUuauuaAaGguA 153    
                                :U A + U :CU :      +: : +A + UCUGUA : :A  CC+ +++GCCGAAAGGC +AA      A  : AG:+A
  gi_545778205_gb_U000 1051379 UUUGAGUCUCUCUCCUGaacaCUAAGUAGUUUCUGUAUUAAAGCCCUGUUUGCCGAAAGGCCCAA------AAUGAAGGAA 1051453
                               66666655555555533222222222234445666666666667788889***********6554......3445677777 PP

                                  v  v v     v        v                 vv  v  v     v        v     v            NC
                               ---))))))),<<<<<______>>>>>,,,,,,,,,,,]]]]]]]]]-]]]]-]]]]----]]]]]]--]]]]-]],,((( CS
               RF01766     154 AUaCacuauGUCcaguAaAAUGacugGUauaGUAAAAUGGUUCaacGaugacAaagGcUUcGgcuucAUcaCUCCuGacgA 234    
                                UA A: A :UC:A UAAAAUGA U:GU+UAGUAAAAUGGUU+AA G+ :A:AA G +UU+GG :U:AU ACUCCUGA::A
  gi_545778205_gb_U000 1051454 GUAAAAUAUGUCUAAUAAAAUGACUGGUUUAGUAAAAUGGUUUAACGCAGAUAAAGGUUUUGGCUUUAUCACUCCUGAUGA 1051534
                               7777777*****************************************9******************************** PP

                                                           v v vv  v   v  vvv        vvvv   v     vv  v v        NC
                               (((,,,,,,,<<_____>>,,<<<<<<-<<<<<<-<<<<<<--<<<________>>>>>>>>>---->>->>>>>>>>>>, CS
               RF01766     235 ugGCagcAAAGAcGUgUUCGUacACuUCuCUGCcAucCAggaCGauGGuUuCAAauCccUGgacGAAgGuCAGaAaGUgua 315    
                               U:GCAGCAAAGACGU UUCGU::A UUC C G  AU CAG +C   G  UUC      CUG ACGAA  UC G AA U::A
  gi_545778205_gb_U000 1051535 UGGCAGCAAAGACGUUUUCGUCCAUUUCACCGCCAUCCAGAGCAAUGAAUUCCGCACGCUGAACGAAAAUCAGAAAGUUGA 1051615
                               ********************************************************************************* PP

                                                    v    v      v  v              v    v    v   vv      vv   v   NC
                               ,,,,,)))))),,,,<<<-<<<___.>>>>>><<<<<<<<<______>>>>>-.>>>>,,<<<-<<<<____>>>>->>>, CS
               RF01766     316 cUUCaCcaUcgAAAacGGcGCcAAA.gGCCCggcaGCugcuAACGUaagcaGc.CuguAAucuucGcuuaaaagCgcagaA 394    
                               +UU +C:AU::A+ A:GG GC A    GCCC:G  G ::C AACGU  G:: C C  UAA: UU   :U A+:   CA :A
  gi_545778205_gb_U000 1051616 AUUUUCUAUUGAGCAGGG-GCAACGuGGCCCCGCGGCAGCGAACGU-UGUUACgCUCUAAGGUUGCCAUUAUUACUCAACA 1051694
                               ***************999.9988652579*****************.6888777888999999888888888888899999 PP

                                      vv v         v vv         NC
                               ,,,<<<<<<<<<<~~~~~>>>>>>>>>>:::  CS
               RF01766     395 Uuuaaaacccccg*[8]*cggggguuuuuuu  429    
                               U+U::A:  C  :     :  G  :U::UU  
  gi_545778205_gb_U000 1051695 UCUCCAUUUCCGC*[7]*GUUGUCAUGGUUC  1051728
                               9999998666555..4..5556668999***  PP

>>

RNAfold
>gi_545778205_gb_U000_37
GCGUCGGUUUGAAAGACAGACAGCAUACAAAGUAGUUUACUAAAGCAGUU
CUCAUUAUCAGGCAUUAUCCCCUUCUUUUGAGUCUCUCUCCUGAACACUA
AGUAGUUUCUGUAUUAAAGCCCUGUUUGCCGAAAGGCCCAAAAUGAAGGA
AGUAAAAUAUGUCUAAUAAAAUGACUGGUUUAGUAAAAUGGUUUAACGCA
GAUAAAGGUUUUGGCUUUAUCACUCCUGAUGAUGGCAGCAAAGACGUUUU
CGUCCAUUUCACCGCCAUCCAGAGCAAUGAAUUCCGCACGCUGAACGAAA
AUCAGAAAGUUGAAUUUUCUAUUGAGCAGGGGCAACGUGGCCCCGCGGCA
GCGAACGUUGUUACGCUCUAAGGUUGCCAUUAUUACUCAACAUCUCCAUU
UCCGCUGUCCAUGUUGUCAUGGUUCACA
..(((.........)))..(((((....(((.((.(((((((((.(((((....((((.(((((((((..((((((((((.((((.((....(((((.....((((......))))......)))))...)).)))).))))).)))))..)))....)))))).))))...))))).))))))))).)).)))......(((((((.......))))))).....(((((((((((((...((((....))))...((((..((........))..))))..((((..(((.((.(((((((((....))).))))))..)).))).(((((......))))))))).(((((((...))).)))).....)))))))))))))..................)))))(((((....)))))...... (-111.30)

Length sequence

: 428

Length match:

421