Structure #34336

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr11
Strand	+
Position	18,681,211 - 18,681,318
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	75.04
Columns	120
Mean single MFE	-40.8
Consensus MFE	-31.74
Combinations/base pair	34 / 25 = 1.36
SCI	0.78
z-score	-2
RNA class probability	0.988221

This structure is part of cluster 16746

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  75.04
 Mean single sequence MFE: -40.80
 Consensus MFE: -31.74
 Energy contribution: -30.93
 Covariance contribution:  -0.81
 Mean z-score:  -2.00
 Structure conservation index:   0.78
 SVM decision value:   2.11
 SVM RNA-class probability: 0.988221
 Prediction: RNA

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

>hg17.chr11/18681211-18681318
AAAAUAAUAAAAAUCAAGAGCCAUUGGCUGCCCUGCUUGUGGGCCUGUGUGGCACAUGCCUAUCUUGGAGAGGGCAUGGGGGCAUGGUGCCAGAGGCUCUGGCUGUC
................((((((.(((((.(((.(((((....(((.....))).(((((((.((.....))))))))).))))).)))))))).))))))....... ( -44.50)
>mm5.chr7/34463286-34463402
AAAAAUAAAAUAAAAUAAAAACCUAAGGGCCAUUGGCUUCCUGACUUGUCUGCCUGUGUGGCACGUGCCUGUCCCAGACAGGGGGUAGAGGCAUGGUGCCAGAAGCCCUGCUUGUC
.........................(((((..(((((..((((.(((.(((.(((((.(((.(((....))).))).))))).)).).))))).)).)))))..)))))....... ( -39.70)
>rn3.chr1/97686945-97687062
AAAAAAUAAAAUUAAAUUAAAACCCAAGGUCUGUUGGUUUCCUAACUUGUCUGCCUGUGUGGCACGUGCCUGUCCCAGACAGGGGGUGGAGGCAUGGUGCCAGGAGCCCUGGUUGUC
....................((((..(((.((.(((((..((...(((..((.(((((.(((.(((....))).))).))))).))..)))....)).))))).)).)))))))... ( -37.70)
>canFam1.chr21/43335444-43335554
ACAAAAAAAUAAAAACCAAGGGCCAUCGCUGGCCUGCUUAUCUCCCUGUGUGGCAUGUGCCUGUCCUGGAGAGGAGGGUAUGGGGGCAUGGUGCCAGGGCCCUGGAUGUC
...............(((.(((((....(((((..(((...(((((((.....)).((((((.((((....)))))))))))))))...))))))))))))))))..... ( -41.30)
>consensus
AAA_AA______AAAAUAAAAACC_AAGGGCCAUUGGCUGCCCUACUUGUCUGCCUGUGUGGCACGUGCCUGUCCCAGA___CAGGGGAUGGAGGCAUGGUGCCAGAAGCCCUGGUUGUC
..........................((((((.(((((..............(((.....))).(((((((.((((........)))...).)))))))..))))).))))))....... (-31.74 = -30.93 +  -0.81)

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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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