Structure #110232

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr2
Strand	-
Position	179,216,606 - 179,216,697
Number of sequences	6
Organisms	human, dog, mouse, rat, chicken, zebrafish
Mean pairwise identity	66.2
Columns	114
Mean single MFE	-21.78
Consensus MFE	-11.99
Combinations/base pair	16 / 11 = 1.45
SCI	0.55
z-score	-1.89
RNA class probability	0.963755

This structure is part of cluster 58300

Alignment

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RNAz output

	  
###########################  RNAz 0.1.1  #############################

 Sequences: 6
 Slice: 1 to 114
 Columns: 114
 Strand: +
 Mean pairwise identity:  66.20
 Mean single sequence MFE: -21.78
 Consensus MFE: -11.99
 Energy contribution: -11.72
 Covariance contribution:  -0.27
 Mean z-score:  -1.89
 Structure conservation index:   0.55
 SVM decision value:   1.54
 SVM RNA-class probability: 0.963755
 Prediction: RNA

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>hg17.chr2/179216697-179216606
UUCUCUGAUGAUGUCACACAAAAUUAUCAUGACAAAUAUUACCAGAGCAAAGUGUAACGGCCAACACUUUGUUCGCUCAUUUUACGCUGUC
.....(((((((..........))))))).((((..........(((((((((((........)))))))))))((.........)))))) ( -21.30)
>canFam1.chr36/25283460-25283365
UUCUCUGAUGAUGUCACAUUCAAAAUUAUCAUGACUUAAAUAUUACCAGAGCAGAGUGUAACGGCCAACACUUUGUUCGCUCAUUCUACACUGUC
...(((((((((............))))))).))..............(((((((((((........)))))))))))................. ( -19.40)
>mm5.chr2/76598636-76598542
UUCUCUGAUGAUGUCACACUGAAAAUUAUCAUGACAAAUAUAACCAGAGCAAAGUGUAACGGCCAUACACUUUGUUCGCCCACUUCACACUGUC
.....((.((((((((...(((......))))))))..........((((((((((((.......)))))))))))).......)))))..... ( -21.00)
>rn3.chr3/59301302-59301209
UUCUCUGAUGAUGUCACACUUAAAAUUAUCAUGACAAACAUGACCAGAGCAAAGUGUAACGGCCAACACUUUGUUCGCUCACUGCACGCUGUC
.....(((((((............))))))).((((..........(((((((((((........)))))))))))((.....))....)))) ( -23.00)
>galGal2.chr7/21153507-21153603
GGAUCUGAUUACGUCGUAAUUUCCAUGCCUGACUGACAAUUUUUGAACAAAGUGCAAGCGGCCAACACUUUGUUCACCCACUGUUUGGGUGCUGCU
(((...((((((...)))))))))..((................((((((((((...........))))))))))(((((.....))))))).... ( -23.10)
>danRer1.chrUn/438-347
CAGGGCGACAAAGUCAUACCGCCAUUUUAAUGACAAACUCGAUGUGCGAGCGGCCUGCACACUGAGUUCAUAAUAAUGUAUGUGCACUGUU
(((.((.(((..(((((............))))).((((((.((((((.......)))))).))))))............))))).))).. ( -22.90)
>consensus
UUCUCUGAUGAUGUCACAC__AAAAUUAUCAUG____AC__AAACAUUACCAGAGCAAAGUGUAA_CGGCCA_ACACUUUGUUCGCUCAC_________UGU____ACACUGUC
....................................................(((((((((((..........))))))))))).............................. (-11.99 = -11.72 +  -0.27)

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Consensus structure

Secondary structure graph

Secondary structure

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Montain plot

Secondary structure

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Dotplot

Secondary structure

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