Structure #174115

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr7
Strand	+
Position	126,489,310 - 126,489,428
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	75.85
Columns	120
Mean single MFE	-43.45
Consensus MFE	-28.08
Combinations/base pair	51 / 38 = 1.34
SCI	0.65
z-score	-2.26
RNA class probability	0.987136

This structure is part of cluster 96693

Alignment

[Download Clustal]

RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  75.85
 Mean single sequence MFE: -43.45
 Consensus MFE: -28.08
 Energy contribution: -28.21
 Covariance contribution:   0.13
 Mean z-score:  -2.26
 Structure conservation index:   0.65
 SVM decision value:   2.07
 SVM RNA-class probability: 0.987136
 Prediction: RNA

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

>hg17.chr7/126489310-126489428
GAGGGCAGCAGCCUGGUGCUCUAGUGGGCCCAUUUUAAUAAUAAGGGCAAUAAGGCUGGCUGUGGCUUUGGAAGCCUAAGGAGGCCGAGUGAGCCUCUUGGGGAAGAAAUGCCUAAUG
....((((((((((..((((((((((....)))).........))))))...))))).)))))(((.((.....(((.(((((((.......))))))).)))....)).)))..... ( -44.20)
>mm5.chr6/27990156-27990268
GAGGGCAAUGCUCUAGUGGGCCCAUUUCCAUAAUGAGGACAACACAGCUGGCUGUGGCUUUGGAUGGUUUUGACAAGGCCCAGUAAGCUGCUAAGGAGAGAAGUGGCUAACG
.(((((...))))).((.(((((.(((((.......(.....).(((((.((((.(((((((...........))))))))))).)))))....)))))...).)))).)). ( -39.30)
>rn3.chr4/55164980-55165091
GAGGGCAAUGCUCUAGUGGGCCCAUUUCCAUAAUGAGGACAACAUAGCUGGCUGUGGCUUUGGACGGUUUGACAAGGCCCAGUAAGCUGCUAGGGAGAGAAGUGGCUAACG
.(((((...))))).((.(((((.(((((.......(.....).(((((.((((.(((((((..........))))))))))).)))))....)))))...).)))).)). ( -37.50)
>canFam1.chr14/52018040-52017922
GAGGCCAGCACCCUGGCACUCUGGUGGGCCCAUUUCAGAUAUGAGGACAGCACAGUUGGUUGUGGCUUUGGAGGCCUGACAAGGCUAAGUGAGCUGCUCAGGGGAGAAGGGCCUAGCG
((((((((....))))).))).(.(((((((.((((.....((((..((((.((.((((((..((((.....))))......)))))).)).))))))))...)))).))))))).). ( -52.80)
>consensus
GAGGGCA________AUGCUCUAGUGGGCCCAUUUCAAUAAUGAGGACAACACAGCUGGCUGUGGCUUUGGAAG__CCUGACAAGGCCCAGUAAGCUGCUAAGGAGAGAAGUGCCUAACG
.((((((.(.....).)))))).((.((((.(((((.....((((.......(((((.((((.(((((((...........))))))))))).))))))))).....))))))))).)). (-28.08 = -28.21 +   0.13)

[Download RNAz result]

Consensus structure

Secondary structure graph

Secondary structure

[PS | PDF]

Montain plot

Secondary structure

[PS | PDF]

Dotplot

Secondary structure

[PS | PDF]