Structure #152342

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr5
Strand	-
Position	141,210,985 - 141,211,102
Number of sequences	4
Organisms	human, dog, mouse, rat
Mean pairwise identity	81.83
Columns	120
Mean single MFE	-48.74
Consensus MFE	-29.84
Combinations/base pair	36 / 31 = 1.16
SCI	0.61
z-score	-4.33
RNA class probability	0.997327

This structure is part of cluster 84280

Alignment

[Download Clustal]

RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  81.83
 Mean single sequence MFE: -48.74
 Consensus MFE: -29.84
 Energy contribution: -31.02
 Covariance contribution:   1.19
 Mean z-score:  -4.33
 Structure conservation index:   0.61
 SVM decision value:   2.84
 SVM RNA-class probability: 0.997327
 Prediction: RNA

######################################################################

>hg17.chr5/141211102-141210985
CAUCCCUCACCUCUGGGGUCUCUCUAGGCCCUAUCUCUCCCCUUGGGAGUCUCCGGGGGACAUGUGUUCCCGCUGAGGACCACGGGAGCAUGUCUCCCCCAAUUACCCAGGCUCUCU
...........(((((((.(((((.(((............))).))))).)...((((((.(((((((((((.((.....))))))))))))).)))))).....))))))...... ( -49.30)
>canFam1.chr2/37412032-37411916
GCAUCUCUCACCUCUGGGGGCUCCCUAGGCCCUAUCUCUCCCUUUGGGAGUCUCUGGAGGGACAUGUAUUCCCUCCGGGGACCAUGGGAGCAUGUCUCCCCCUACCCAGGCUCUCU
............(((((((((((((.(((...........)))..)))))))...(((((((.......)))))))(((((.((((....))))..)))))...))))))...... ( -49.10)
>mm5.chr18/38629992-38629875
CAUCCUGAACCUGGGGGAACCUCCCUACUCCUUAUGUCUCCCCUUGGGAGUCUCUGGGGACAUGGUUUCCCACCGGGGACCAUGGGAACAUGUCUCCCUUCCCUACCCAGGCUCUCU
......((.(((((((((..(((((....................)))))..)))(((((((((...(((((..(....)..))))).)))))))))........)))))).))... ( -48.25)
>rn3.chr18/787-673
CAUCCUGAACCUGGGGGCUCCCUACUCCUUAUAUCUCCCCUUGGGAGUCUCUGGGGACAUGGUUUCCCACCGGGGGCCACGGGAACAUGUCUCCCUUCCCUACCCAGGCUCUCU
......((.(((((((((((((..((((......(((((...))))).....))))....(((.....))))))))))..((((.......)))).......)))))).))... ( -48.30)
>consensus
_CAUCCCGAACCUCUGGGGGC_UCCCUACGCCCUAUCUCUCCCCUUGGGAGUCUCUGGGG__ACAUGGUUUCCCACCGGGGACCACGGGAACAUGUCUCCCCCCCCUACCCAGGCUCUCU
.............((((((....)))))).................((((((((..(((((.(((((..((((((..(....)..))))))))))).))))).........)))))))). (-29.84 = -31.02 +   1.19)

[Download RNAz result]

Consensus structure

Secondary structure graph

Secondary structure

[PS | PDF]

Montain plot

Secondary structure

[PS | PDF]

Dotplot

Secondary structure

[PS | PDF]