Structure #131846

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr3
Strand	+
Position	168,353,817 - 168,353,936
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	84.2
Columns	120
Mean single MFE	-29.09
Consensus MFE	-21.21
Combinations/base pair	49 / 36 = 1.36
SCI	0.73
z-score	-3.31
RNA class probability	0.994489

This structure is part of cluster 72408

Alignment

[Download Clustal]

RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  84.20
 Mean single sequence MFE: -29.09
 Consensus MFE: -21.21
 Energy contribution: -21.15
 Covariance contribution:  -0.06
 Mean z-score:  -3.31
 Structure conservation index:   0.73
 SVM decision value:   2.48
 SVM RNA-class probability: 0.994489
 Prediction: RNA

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

>hg17.chr3/168353817-168353936
AAAGGAUAUUGCUUCACCAAAGCAACAUCCUUGGUUUUCUGUCCCUGGCAUCACACAUUUUAAAAGGGCAAGAUUCAAUAUGUCAGAGGCUCUUUCUUUUGAAGAAAAUCCCUUAAUUC
.((((((.((((((.....)))))).))))))(((((((((((.(((((((.....(((((........))))).....))))))).)))....((....))))))))))......... ( -29.70)
>mm5.chr3/75327886-75328002
AGAGGAUAUUACUUCACCAAAGUGAUGUCCUUGCUUUUUUGCCCUGGGCAUCACACAUUUCAAAAGAGCAUGAUUUAAUAUAUCAGAGCCUUUCUUUGAAGAAAAUCCCUUAAUCC
((.((((.((.(((((.....(((((((((..((......))...)))))))))........((((.((.((((.......))))..))))))...))))))).))))))...... ( -31.80)
>rn3.chr2/165751393-165751510
AGAGGAUAUUACUUCACCAAAGUGAUGUCCUUGCUUUUCUGCCCUGGGCAUCACACAUUUCAAAAGAGCAUGAUUUAAUAUAUCAGAGCCUUUCUUUUGAAGAAAAUCCCUUAAUCC
.((((................(((((((((..((......))...)))))))))...((((((((((((.((((.......))))..))...))))))))))......))))..... ( -33.70)
>canFam1.chr34/35186536-35186656
GGAGAAUAUUAUCUCACCAAAAGCCACUCUCUUGCUUUUCUGCCCCUGGCAUCACUCAUUUCAAAAGCACAUGAUUAAAUAUGUCAGAGGCUCUUUCUUUUGAAGAAAAUCCCUUAAUCC
.((((......))))...((((((.........))))))..(((.(((((((........(((........)))......))))))).)))(((((.....))))).............. ( -21.14)
>consensus
AGAGGAUAUUACUUCACC_AAAGCGACGUCCUUGCUUUUCUGCCCCGGGCAUCACACAUUUCAAAAGAGCAUGAUUUAAUAUAUCAGAG__UCUUUCUUUUGAAGAAAAUCCCUUAAUCC
.(((((((((((((......)))))))))))))..(((((((((...))))........((((((((((..((((.......))))........)))))))))))))))........... (-21.21 = -21.15 +  -0.06)

[Download RNAz result]

Consensus structure

Secondary structure graph

Secondary structure

[PS | PDF]

Montain plot

Secondary structure

[PS | PDF]

Dotplot

Secondary structure

[PS | PDF]