gi_545778205_gb_U000_248

cmsearch-Rfam

Family :

Six3os1_6

Id:

RF02251

Type:

Gene; lncRNA;

Taxonomy:

Eukaryota;

Ontology:

GO:0010468 regulation of gene expression

Description:

not description

Score:

19.2

E-value:

0.0032

From sequence:

1456320

To sequence:

1456177

Alignments:

                               ::::::::::::::::::::::..............:::::::.::::::::::::::::::::::::::::::::::::: CS
               RF02251      26 GCuGgAGAaGCGCaGGCaGCGu..............uguGgCC.agGAGGUGGGCUCaGaGGGCGGCGCaGAGCcuuGCUU 91     
                               GCuGg G aGCGC GGCa CGu               ++GgC  +g A  UG G  C+G GGGCGG   a  GCc u CU 
  gi_545778205_gb_U000 1456320 GCUGGCGCAGCGCGGGCAACGUacuucuggcggcaaAUGGGCAuGGCAACUGUGUCCGGCGGGCGGGCUAAUGCCAUACUC 1456240
                               567777888888888888777522211111000110222222202224446667789999*****9999999********9 PP

                               :::::::::::::::::::::::::::::....:::::::::::::::::::::::::::::: CS
               RF02251      92 GggGaGAGGCuCUCGGACAGuCgGGGuug....GCugCggGCCCgAGCCGGGUaGGgUcGCGC 150    
                                 g aGA GCuC CGG CA + gGGGu+     G +g  gG CC  GCCGGGU+G gU GC  
  gi_545778205_gb_U000 1456239 UCGCAGACGCUCACGGGCAUCGGGGGUCAuccaGUCGGUGGUCCAUGCCGGGUCGAGUUGCAG 1456177
                               99*****************988888876511113456678899999*********99998743 PP



Internal HMM-only pipeline statistics summary: (run for model(s) with zero basepairs)
--------------------------------------------------------------------------------------
Query model(s):                                          1  (200 consensus positions)
Target sequences:                                        1  (9283304 residues searched)
Windows passing local HMM SSV      filter:             849  (0.03403); expected (0.02)
Windows passing local HMM MSV bias filter:             423  (0.01691); expected (0.02)
Windows passing local HMM Viterbi  filter:              21  (0.0008457); expected (0.001)
Windows passing local HMM Forward  filter:               3  (0.000119); expected (1e-05)
Total HMM hits reported:                                 1  (1.551e-05)

# CPU time: 0.84u 0.00s 00:00:00.84 Elapsed: 00:00:00.23
//

RNAfold
>gi_545778205_gb_U000_248
AACGGGUUUACCCCCGUUCAGGUUGUGCUGCAACUCGACCCGGCAUGGAC
CACCGACUGGAUGACCCCCGAUGCCCGUGAGCGUCUGCGAGAGUAUGGCA
UUAGCCCGCCCGCCGGACACAGUUGCCAUGCCCAUUUGCCGCCAGAAGUA
CGUUGCCCGCGCUGCGCCAGCGUCCAUACCACACUUAUCAGUGAAUUUG
((((((......))))))..(((((.(......).))))).((.((((((....(.((((.........(((((......))))).(((((.((((((((.....(((.....))).......))))))))...)))))...........(((.((....)).)))))))))))))).)).((((....))))...... (-54.90)

Length sequence

: 199

Length match:

142