Structure #161688

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr6
Strand	+
Position	85,997,107 - 85,997,226
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	78.77
Columns	120
Mean single MFE	-39.7
Consensus MFE	-30.31
Combinations/base pair	36 / 30 = 1.20
SCI	0.76
z-score	-3.28
RNA class probability	0.99974

This structure is part of cluster 89617

Alignment

[Download Clustal]

RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  78.77
 Mean single sequence MFE: -39.70
 Consensus MFE: -30.31
 Energy contribution: -29.75
 Covariance contribution:  -0.56
 Mean z-score:  -3.28
 Structure conservation index:   0.76
 SVM decision value:   3.98
 SVM RNA-class probability: 0.999740
 Prediction: RNA

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

>hg17.chr6/85997107-85997226
AAUAUUGUUUUAAUAUCAAAUCCAGAUAAGCUGGGAGGUCUCAUCCUCCUUGCCAUGUGUGCACAGAGAAGCACACAUUUUUCAUUAAGUGCCAAGGUCACCCACAAGUGCUUUGGCAG
.............((((.......)))).((.((((((......)))))).)).((((((((........))))))))...........((((((((.(((......))))))))))). ( -39.10)
>mm5.chr9/88596584-88596702
AAUAUCACCUCAAUAUCAAAUCCAGAUAAGCCAGGAGGUCUCCCCCUCCCCAGAGGCAGGCAUGGAGAAGCAUGCUUUUCCAGUUCGAUGCCAAGGUCACCCAUGAGUACUUUGGCAG
.......((((..((((.......)))).....(((((......)))))...))))(..((.((((((((....))))))))))..).(((((((((.((......))))))))))). ( -39.30)
>rn3.chr8/93417017-93417135
AAUAUCACCUCAAUAUCAAAUCCAGAUAAGCCGGGAGGUCUCUCCCUCUCCAGAGGCAGGCAUGGAGAAGCAUGCUUUUCCAGUUAGAUGCCAAGGUCACCCAUGAGUACUUUGGCAG
...(((.((((..((((.......))))....(((((....)))))......))))..(((.((((((((....))))))))))).)))((((((((.((......)))))))))).. ( -39.30)
>canFam1.chr12/48213477-48213597
CAUAUUGUCUUGAUAUCAAAUCCAGAUCAGCUGGGAGGUCUCAUCCUCCUCCUGAUGUGUGCACAGAGAAACACACAUUUUCUAUUAAAUGCCAAGGUCACCCGCAGGGUGCUUUGGCAG
.........((((((..((((....(((((..((((((......)))))).)))))(((((..........)))))))))..)))))).((((((((.(((((...))))))))))))). ( -41.10)
>consensus
AAUAUCACCUCAAUAUCAAAUCCAGAUAAGCCGGGAGGUCUCACCCUCCCCA_GAGGCAGGCACAGAGAAGCACACAUUUCCAAUUAAAUGCCAAGGUCACCCAC_GAGUACUUUGGCAG
.............((((.......))))....((((((......))))))...(((((((((........)))))))))..........(((((((((.((.......))))))))))). (-30.31 = -29.75 +  -0.56)

[Download RNAz result]

Consensus structure

Secondary structure graph

Secondary structure

[PS | PDF]

Montain plot

Secondary structure

[PS | PDF]

Dotplot

Secondary structure

[PS | PDF]