chr32_3

cmsearch-Rfam

Family :

HOTTIP_3

Id:

RF02042

Type:

Gene; lncRNA;

Taxonomy:

Eukaryota;

Ontology:

Not found

Description:

not description

Score:

19.7

E-value:

0.0057

From sequence:

157172

To sequence:

157351

Alignments:

                 ::::::::::::::::::.....::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::: CS
  RF02042     92 GAAAAAcGAAAAcACaGC.....ucgGGgAGCCCCCAcCaGCcGGCGCCuguGCCAGCUCaCCUCUGGCcauGGCgcaGCUGCuGgUgCACaCaGc 182   
                  AAAAA  AAAA ACaGC       g GgAG C  CA  a    G G  u uGC AG  C   UC  GC   G   c GCUG u gU C     G+
    chr32 157172 CAAAAAAAAAAAAACAGCgaagcGAGAGGAGGCAGCAGGAAGGCGUGGAUUUGCGAGUGCCAUUCCUGCUCCGUAUCGGCUGUUUGUUCUUCACGU 157267
                 3455555666666666551110055567778888888777666677888999999**999999999999999999*********999888766666 PP

                 :.::::::::::::::...:::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::: CS
  RF02042    183 G.GCCAAGGCcAGCUC...CACaUUCuUCCCUCCccCUCCCAcUUCaCcGGaGaCcgGAGcCCuGcgugCAGaGGAAGGGcCucAGc 265   
                 G GCCA  G cAGC       C   Cu CCCUCCc+C CC A U  aC G a +C gG  c C    +gCAG  GAAGGG C cAG 
    chr32 157268 GuGCCACAGUCAGCCUgugAGCUGACUCCCCUCCCUCGCC-AGU--ACAGCACCCAGGCACACACGCCGCAGCUGAAGGGACGCAGG 157351
                 66*******9999854111344445666666666665553.544..444556666677777777788899**********9999874 PP



Internal HMM-only pipeline statistics summary: (run for model(s) with zero basepairs)
--------------------------------------------------------------------------------------
Query model(s):                                          1  (353 consensus positions)
Target sequences:                                       34  (57702516 residues searched)
Windows passing local HMM SSV      filter:           16399  (0.1716); expected (0.02)
Windows passing local HMM MSV bias filter:            5310  (0.05631); expected (0.02)
Windows passing local HMM Viterbi  filter:             285  (0.00315); expected (0.001)
Windows passing local HMM Forward  filter:              98  (0.001179); expected (1e-05)
Total HMM hits reported:                                 1  (3.119e-06)

# CPU time: 5.25u 0.00s 00:00:05.25 Elapsed: 00:00:01.30
//

RNAfold
>chr32_3
UCAGAUGCAGUGGAUGGGUGAGAGAGACGGCAGCACACAGUCACGUGAGC
AGUGAGCACCGAGUAGCAAAAAGGACGUUUUUCACACAAAAAAAAAAAAA
CAGCGAAGCGAGAGGAGGCAGCAGGAAGGCGUGGAUUUGCGAGUGCCAUU
CCUGCUCCGUAUCGGCUGUUUGUUCUUCACGUGUGCCACAGUCAGCCUGU
GAGCUGACUCCCCUCCCUCGCCAGUACAGCACCCAGGCACACACGCCGCA
GCUGAAGGGACGCAGGGUGGUGAGAGGUGGGGGAGGCGCAUCAGACACAA
GGUAGUGUGCAAGCCUCCGGCGACCCUUCGUUAGCGCUGACUUUGAAAGC
CUC
(((((..(((((((.((((....(.((.(((.((((((..((((.......))))((........))......(((......(((((..........(((((((....(((.....((.(((((((((((((.(.....).).)))).))))))))))...)))))))))).........))))).....))).(((((((..((((..(.(((((((((((..(.((.(((((.(((......)))((..((....))..)).))))).)))..))))))))))).)..)))).))).)))).))))))..))))))....)))).)).....)))))..)))))....... (-125.80)

Length sequence

: 353

Length match:

178