Structure #44296

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr12
Strand	-
Position	3,231,866 - 3,231,974
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	78.5
Columns	120
Mean single MFE	-60.73
Consensus MFE	-40.28
Combinations/base pair	41 / 32 = 1.28
SCI	0.66
z-score	-3.84
RNA class probability	0.999867

This structure is part of cluster 22010

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  78.50
 Mean single sequence MFE: -60.73
 Consensus MFE: -40.28
 Energy contribution: -39.40
 Covariance contribution:  -0.88
 Mean z-score:  -3.84
 Structure conservation index:   0.66
 SVM decision value:   4.31
 SVM RNA-class probability: 0.999867
 Prediction: RNA

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>hg17.chr12/3231974-3231866
UAGGAGGGGGCUCCGUCCCCACCCCCGGAGCUCUGGGAGUGCAGGGACGGCUAUAUAAGGGCAUGGGGCUGGGGGGAGCCCAGGGGCUGGGAUUUCUCCCUGGCCCCG
..((((....))))((((((((.(((((....))))).)))..))))).(((.......)))..(((((..((((((.(((((...)))))...))))))..))))). ( -63.00)
>mm5.chr6/21081741-21081852
UAGGAGGGGCUCUGUCCCUGUCCUGGAGUGCAGGGCAGCUAUAUAAGGACAGCCAUAUAAGGGCAUGGGACUAGGGGGGAGCCCAGGGGGCUGGGGUUUCUCCUGGCCCC
.....(((((...((((((((((((.....)))))))(((.((((.((....)).))))..)))..)))))((((((..(.(((((....))))).)..))))))))))) ( -56.30)
>rn3.chr4/22680905-22681016
UAGGAGGGGCUCUGUCCCUGUCCUGGAGUGCAGGGCAGCUAUAUAAGGACAACCAUAUAAGGGCAUGGGACUAAGGGGGAGCCCAGGGGGCUGGGGUUUCUCCUGGCCCC
......(((((((((((((((((((.....)))))))(((.((((.((....)).))))..)))..)))))......)))))))..(((((..(((....)))..))))) ( -53.70)
>canFam1.chr27/4537680-4537795
UAGUGGAGGGGGGGGGCUCCGUCCCCACCCCCGGAGCUCUGAGAGCAUGGGGACAGCUAUACAAGGGCAUGGGGCUGGGGGGAGCCCAGGGGGCUGGGAUUUCUGCCCGGCCCCG
.............(((((((..(((((.(((((..(((((...(((.((....))))).....))))).))))).))))))))))))..(((((((((.......))))))))). ( -69.90)
>consensus
UAG______GAGGGG_CUCCGUCCCCACCCC_GGAGCGCAGGGAA____UAUAAGGACAGCCAUAUAAGGGCAUGGGACU_GGGGGGAGCCCAGGGGGCUGGGAUUUCUCC_UGGCCCC_
............(((.((((..(((((((((.....(((...)))..............(((.......)))..)))))..)))))))))))..((((((((((.....)))))))))). (-40.28 = -39.40 +  -0.88)

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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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