chr35_22

cmsearch-Rfam

Family :

ylbH

Id:

RF00516

Type:

Cis-reg;

Taxonomy:

Eukaryota; Bacteria;

Ontology:

Not found

Description:

This family is a putative regulatory RNA structure that is found upstream of the ylbH gene
in B. subtilis and related low GC Gram-positive bacteria.

Score:

27.5

E-value:

0.0088

From sequence:

1494097

To sequence:

1493990

Alignments:

                              v   v       v   v             v         v                            v      v      NC
                  ::::::::::<<<<<<<<<___>>>>>>>>><<<<<----<<<<<~~~~~>>>>>------->>>>>-----------<<<<-<<<<-<<<<<_ CS
  RF00516       1 AuAAAAAAAaccccgcccuaAAagggcggggccCugCUaagccgg*[8]*ccggcGaaGGaAcaGggAGAGGAGAAAucGgaGGaagAaCuuaU 97     
                   U AAAAA A:: ::C :: AA:: G:: :::CCU: U+ :  ::     ::  :   GG  :AGG:AGAGG GAA U: :  :AAGA      
    chr35 1494097 CUCAAAAAUAGAGAGCUGGUAACCUGUUGUCUCCUUUUUCUUUUC*[4]*GAUGACGCGGUGAAGGAAGAGGUGAACUUUCUUCAAGA------ 1494011
                  ************************************877755554..3..666777889999*************************9...... PP

                               v    v        NC
                  _________>>>>>>>>>>>>>:::  CS
  RF00516      98 GGGGAAAuGuaaGucuuCucCgugg  123    
                   GG A A+G     CUU: : :+ G 
    chr35 1494010 AGGAAGACG----GCUUGUGAGCAG  1493989
                  788888888....5***********  PP

RNAfold
>chr35_22
ACUCAGCUGCUCACAAGCCGUCUUCCUUCUUGAAGAAAGUUCACCUCUUC
CUUCACCGCGUCAUCCCCCGAAAAGAAAAAGGAGACAACAGGUUACCAGC
UCUCUAUUUUUGAGCUCUUCU
....(((((...((..(..((((((.(((((((((.(((.......))).)))))..................))))...))))))..)..))...)))))(((.......)))....... (-20.00)

Length sequence

: 121

Length match:

106