Structure #115235

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr20
Strand	+
Position	1,222,094 - 1,222,210
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	75.42
Columns	120
Mean single MFE	-51.52
Consensus MFE	-38.29
Combinations/base pair	47 / 34 = 1.38
SCI	0.74
z-score	-3.21
RNA class probability	0.999941

This structure is part of cluster 61099

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  75.42
 Mean single sequence MFE: -51.52
 Consensus MFE: -38.29
 Energy contribution: -37.98
 Covariance contribution:  -0.31
 Mean z-score:  -3.21
 Structure conservation index:   0.74
 SVM decision value:   4.71
 SVM RNA-class probability: 0.999941
 Prediction: RNA

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>hg17.chr20/1222094-1222210
GGCCACCUGGGGAGAGGCCUGCGGGACUCCAGGCUAAGCAGGUGGCAUGGUGACAAACACCAUGGCAACCUGCCUCCUUGCUAGGGCCUAGAAGGGAGGGAGGACCUGAGAGAGCA
.((..(((((((.....((....)).)))))))((...((((((.(((((((.....))))))).)..(((.(((((((.((((...)))).))))))).))))))))..)).)). ( -54.40)
>mm5.chr2/30019237-30019121
AGCUGCCUGGGGACAGGCCUGUGGGACUCCAGGCUGAACAGGCAACGUGGCAAUAAAUGCCAUGGCAACAUGCCUCCUCUCUCGGGCUAUGAUGAGAGGGAGGAGUUAAGAAGACA
.((((((((......((((((........))))))...)))))).(((((((.....)))))))))(((...(((((.((((((........))))))))))).)))......... ( -49.80)
>rn3.chr3/29130175-29130059
AGCUGCCUGGGGACAGGCCUGUGGGACUCCAGGCCGAACAGGCCACAUGACAGAGAAUGCCAUGGCAACAUGCCUCCUCUCUGGGGCUAUGAUGAGAGGGAGGAGUUGAGAGGACG
.((.(((((....)))))..)).(..(((..((((.....)))).((((.((.....)).)))).((((...(((((.((((.(........).))))))))).)))).)))..). ( -47.80)
>canFam1.chr24/28100931-28100811
GGCUGCCUGGGCAAAGGGCUGUGGGACUCCAGGGGAGAAGGCAGGUGGCAUAGUGACAUAGACUAUGGCAACCUGUCUCCUCUCUGGGGCCCGGAGAGGGAGGGAGGACUUGAGAGGGCA
....((((...(......((.((((.((((((((..((.((((((((.((((((.......)))))).).)))))))))..)))))))))))).))...(((......))))...)))). ( -54.10)
>consensus
AGCUGCCUGGGGACAGGCCUGUGGGACUCCAGGCU___AAACAGGCGACAUGGCAACAAAUACCAUGGCAACAUGCCUCCUCUCUGGGGCCAUGA_AGAGAGGGAGGACUUGAGAGGACA
.((((((((......((((((........))))))......))))))))((((((.....))))))(((.....)))((((((((....(((.....)))))))))))............ (-38.29 = -37.98 +  -0.31)

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Consensus structure

Secondary structure graph

Secondary structure

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Montain plot

Secondary structure

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Dotplot

Secondary structure

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