Structure #33723

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr11
Strand	+
Position	13,693,393 - 13,693,511
Number of sequences	4
Organisms	human, dog, mouse, rat
Mean pairwise identity	79.13
Columns	120
Mean single MFE	-38.59
Consensus MFE	-28.02
Combinations/base pair	41 / 30 = 1.37
SCI	0.73
z-score	-4.14
RNA class probability	0.999888

This structure is part of cluster 16399

Alignment

[Download Clustal]

RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  79.13
 Mean single sequence MFE: -38.59
 Consensus MFE: -28.02
 Energy contribution: -27.08
 Covariance contribution:  -0.94
 Mean z-score:  -4.14
 Structure conservation index:   0.73
 SVM decision value:   4.39
 SVM RNA-class probability: 0.999888
 Prediction: RNA

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

>hg17.chr11/13693393-13693511
AUGCUAGGACAUUUCUUAGAAUUUGGAGAUCUUUGGGGACACUAACUAUGGAUCACAUCGUAUUGGGUCGUUCAUCCUCCAAAAUUCCAUAAUAUAGGAAAUGUCCUACAUCAUGGUU
(((.((((((((((((((.....(((((...((((((((((.......))((((.((......)))))).....))).))))).))))).....)))))))))))))))))....... ( -36.60)
>canFam1.chr21/38836335-38836454
AUGCUAGGACAUUUUUUAGAAAUUAAGGAUAUUUGGGGAGUCUAAUUGUGGAUCUCAUUCUUAUUGGGCCAUUGAUCCUUCAGAAUCCCAUAGUAGAGGAAAUGUCCAGCAUCAAGGUU
(((((.(((((((((((....((((.((((.(((((((..((.....((((..((((.......)))))))).))..)))))))))))..))))..))))))))))))))))....... ( -35.60)
>mm5.chr7/100824926-100825043
AUGCCAGGACAUUUCCUAGAAAUUGGAGAUGUUUGGAGGCCAAGAAUGGACCUCAUCAUAUUGGGUCAUUGAUUCUCCAAAAUCUCAUUAUAAUAGGAAAUGUCCUACUUCAGGAUU
.....(((((((((((((.......(((((.((((((((.(((.....((((.((......)))))).)))..))))))))))))).......)))))))))))))........... ( -44.24)
>rn3.chr1/171543132-171543249
AUGCCAGGACAUUUCCUAGAAGUUGGAGAUGUUUGGAGGCCAAGAAUGGACCUCAUCUUAUUGGGUCAUCGAUUCUCCAAAAUCCCAUCAUACUAGGAAAUAUCCCACUUCAGGAUU
......(((.(((((((((....(((.(((.((((((((....((...((((.((......)))))).))...)))))))))))))).....))))))))).)))............ ( -37.90)
>consensus
AUGCCAGGACAUUUCCUAGAAAUUGGAGAUGUUUGGAG__GCCAAGAAUGGACCUCA_UCUUAUUGGGUCAUUGAUCCUCCAAAAUCCCAUAAU_AUAGGAAAUGUCCUACAUCAGGAUU
......((((((((((((.......(((((.(((((((.........((((.((...........)).)))).....)))))))))))).......))))))))))))............ (-28.02 = -27.08 +  -0.94)

[Download RNAz result]

Consensus structure

Secondary structure graph

Secondary structure

[PS | PDF]

Montain plot

Secondary structure

[PS | PDF]

Dotplot

Secondary structure

[PS | PDF]