gi_545778205_gb_U000_42

"structRNAfinder"

gi_545778205_gb_U000_42
cmsearch-Rfam
Family : cspA	Id: RF01766	Type: Cis-reg; thermoregulator;
Taxonomy: Eukaryota; Bacteria;	Ontology: GO:0040040 thermosensory behavior
Description: not description
Score: 126.7	E-value: 4.4e-33
From sequence: 657103	To sequence: 657549
Alignments: v v v v vv vvv vv v NC :::<<<<<<_____>>>>>>,,,,,[[-[[[[------[[--[[[[[[[[-----[[[[-.[[[[[[-[[[,,,(((((((-- CS RF01766 1 auCgGucugaagUAcagaCcAuuaAaGcAGuguagUaAggcaaguCCcuuuaAGaguuaU.CguuGAUACCccUCguaguGaa 82 C: UC: GU +:GA : AA G AGU U :G+AA U C UU+AA + : C :AUA + C:U:::+AA gi_545778205_gb_U000 657103 CGCUUUCA---GUUUUGAGA-CAAAUGAAGUUU----UAGUAACUUCUUUAAAAUCAAUAgCUAAAAUAAGUAACAUCAAAAA 657177 *88887...566777765.6799*985....5888888889999999888888889999988999**99876 PP v v v NC ---....-(((((((,<<<<_____~~~~~~>>>>,,,,,,,,,,<<<____>>>,,,,,,,,,,,)))))))-----))))) CS RF01766 83 caU....UcCuUuaaagcuccaAaA[ 6]gagcAagCCauaacGCCgaaaGGCAaaauuaaUuauuaAaGguAAUaCacua 161 +A C UUUA +:C:+++ A :G:AA C A A C +++ G A+UU++ ++ UAAA GUAAU+ :::A gi_545778205_gb_U000 657178 UAAcgcgACUUUUAUCACUUUUUAG[40]-GGUAACCGACACAGCAUUUGUGUCUAUUUUUCAUGUAAAGGUAAUU-UUGA 657292 6543333588888888877665443...8...5666666666666666666677788888888888999999999996.89* PP vvv vvv vv vvv vv v v v vv NC )),<<<<<______>>>>>,,,,,,,,,,,]]]]]]]]]-]]]]-]]]]----]]]]]]--]]]]-]],,((((((,,,,,,, CS RF01766 162 uGUCcaguAaAAUGacugGUauaGUAAAAUGGUUCaacGaugacAaagGcUUcGgcuucAUcaCUCCuGacgAugGCagcAAA 244 :GUC: AA AU A++:GUA GU AA U UU: GA : AAA G UUC G UU:AU ACUCC GA GA: CAGCAAA gi_545778205_gb_U000 657293 UGUCU---AAGAUUAAAGGUAACGUUAAGUGGUUUAAUGAGUCCAAAGGAUUCGGUUUCAUUACUCCGGAAGACGGCAGCAAA 657372 **6...889999999************************************************************** PP vv v v v v vv vv v v v v vv vv v NC <<_____>>,,<<<<<<-<<<<<<-<<<<<<--<<<________>>>>>>>>>---->>->>>>>>>>>>,,,,,,)))))), CS RF01766 245 GAcGUgUUCGUacACuUCuCUGCcAucCAggaCGauGGuUuCAAauCccUGgacGAAgGuCAGaAaGUguacUUCaCcaUcgA 327 GACGUGUUCGU AC C CUGC A:C AG: + UGGUUU AAA :CU G:+GAA GUCAG GU A UUC :UC gi_545778205_gb_U000 657373 GACGUGUUCGUACACUUCUCUGCAAUCCAGACUAAUGGUUUUAAAACUCUUGCUGAAGGUCAGCGCGUAGAGUUCGAAAUCAC 657455 ******************************************************************************* PP v vv v v vv vv v v v vvv vv vv vvv v v NC ,,,<<<-<<<___>>>>>><<<<<<<<<______>>>>>->>>>,,<<<-<<<<____>>>>->>>,,,,<<<<<<<<<<<<_ CS RF01766 328 AAacGGcGCcAAAgGCCCggcaGCugcuAACGUaagcaGcCuguAAucuucGcuuaaaagCgcagaAUuuaaaacccccgcca 410 AA GG+GCCAAAGGCCC C G G AACGUA C C G AA +U+C :U A :++G A UU AAA:CCC:::+A gi_545778205_gb_U000 657456 UAACGGUGCCAAAGGCCCUUCUGCUGCAAACGUAAUCGCUCUGUAAGAUAC--GUCAGCAAG----AAUUCAAAACCCGCUUA 657532 ******************************999999**88876..344443344....45559999999999988 PP v v NC ___>>>>>>>>>>>>::: CS RF01766 411 auUggcggggguuuuuuu 428 AU :::GGG:UUU UUU gi_545778205_gb_U000 657533 AUC-AGCGGGUUUUUUUU 657549 877.89999999999* PP >>
RNAfold
>gi_545778205_gb_U000_42 GCUUUCAGUUUUGAGACAAAUGAAGUUUUAGUAACUUCUUUAAAAUCAAU AGCUAAAAUAAGUAACAUCAAAAAUAACGCGACUUUUAUCACUUUUUAGU AAAGUUACACUGGACAAAGCGUACCACAAUUGGUGUACUGGUAACCGACA CAGCAUUUGUGUCUAUUUUUCAUGUAAAGGUAAUUUUGAUGUCUAAGAUU AAAGGUAACGUUAAGUGGUUUAAUGAGUCCAAAGGAUUCGGUUUCAUUAC UCCGGAAGACGGCAGCAAAGACGUGUUCGUACACUUCUCUGCAAUCCAGA CUAAUGGUUUUAAAACUCUUGCUGAAGGUCAGCGCGUAGAGUUCGAAAUC ACUAACGGUGCCAAAGGCCCUUCUGCUGCAAACGUAAUCGCUCUGUAAGA UACGUCAGCAAGAAUUCAAAACCCGCUUAAUCAGCGGGUUUUUUUU (((((.((((((((.......((((((.....)))))).......)))).))))..........(((((((((........((((((((.(((((.....)))))(((.((......)).))).(((((.((.(((..(((...)))..))).)).)))))............))))))))..)))))))))...........(((..(((((.(((((((..(((((((...)))))))((......)).(((.....)))..(((.(((.((((....)))).))).)))...(((......)))......((((((((((((...))))))...))))))..))))))))))))..))).)))))..((((((((...(((((.((.........))))))))))).))))...((((((((((.....)))))))))).... (-114.30)
Length sequence : 446	Length match: 445