Structure #154257

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr5
Strand	+
Position	163,580,251 - 163,580,360
Number of sequences	6
Organisms	human, dog, mouse, rat, chicken, zebrafish
Mean pairwise identity	71.66
Columns	120
Mean single MFE	-31.92
Consensus MFE	-25.84
Combinations/base pair	41 / 27 = 1.52
SCI	0.81
z-score	-3.22
RNA class probability	0.983396

This structure is part of cluster 85396

Alignment

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RNAz output

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

 Sequences: 6
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  71.66
 Mean single sequence MFE: -31.92
 Consensus MFE: -25.84
 Energy contribution: -25.77
 Covariance contribution:  -0.07
 Mean z-score:  -3.22
 Structure conservation index:   0.81
 SVM decision value:   1.94
 SVM RNA-class probability: 0.983396
 Prediction: RNA

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

>hg17.chr5/163580251-163580360
AAUAAUAACCUCUGUAUAUAGUGUUUUCACAGGAUUAAUGGCUGGUUGGGGUUAAUGUCUCUCAGCUAUGCCAUGGGCCAUCAACUCUUUUCAGCUGGCCAUUAAUCCC
....................(((....))).(((((((((((..(((((((((.(((.(((...((...))...))).))).)))))....))))..))))))))))). ( -36.50)
>canFam1.chr4/41066092-41065983
AAUAAUAACUUCUGUAUAUAGUGUUUUCACAGGAUUAAUGGCUGGUUAGGGUUAAUGGCUCUCAGCUAUGCCAUGGGCCAUCAACUCUUUUCAGUUGGCCAUUAAUCCC
....................(((....))).((((((((((((..((((((((.(((((((...((...))...))))))).))))))....))..)))))))))))). ( -39.20)
>mm5.chr11/82139464-82139355
AAUAAUAACCGACAUAUAUAGUGUUUUCAAAGGAUUAAUGGUUAGUUGGGGUUAAUGGCUCUCAGCUAUGCCAUGGGCCAUCAACUCUUCUCACUUGGCCAUCAAUCCC
..........(((((.....)))))......(((((.(((((((((.((((((.(((((((...((...))...))))))).))))))....)).))))))).))))). ( -32.80)
>rn3.chr10/85779923-85779814
AAUAAUAACCUAUGUAUAUAGUGUUUUCAGUGGAUUAAUGGUUAGUUGGGGUUAAUGGUCCUCAGCUAUGCCAUGGGCCAUCAACUCUUCUCACUUGGCCAUCAAUCCC
......(((((((....)))).)))......(((((.(((((((((.((((((.(((((((...((...))...))))))).))))))....)).))))))).))))). ( -32.60)
>galGal2.chr13/3120006-3120121
AAUAGAAGUAACAACCUCAUCAUGAAGCAUUUCCUAAAGAUUAAUGAACAAAUGAAGUAAAUGGCCCUAGGCUAUAUUUUGGGACAUCAACUUCUCCCAAGUGGUCAUUAAUCCC
....((.((....)).))....................(((((((((.((..........((((((...))))))..(((((((.(......).))))))))).))))))))).. ( -23.00)
>danRer1.chrNA/107870603-107870489
AAUACCAACAAUAACGUCACAAAUGGGCAUUUCAGGAGAUUAAUGGUAGACCGAAGCUAAUAGCCUUUGGCUGACUCUCCAGCCAUCAGCUUUUCCCAGCUGCUCAUUAAUUCC
.....................((((((((.....(((((....(((....)))........(((...((((((......))))))...))))))))....))))))))...... ( -27.40)
>consensus
AA______UAAUAAC_____CUCUGUAUAUAGUGUUUUCAAAGGAUUAAUGGUUAGUUGGGGUUAAUGGCCCUCAGCUAUGCCAUGGGCCAUCAACUCUUCUCAGUUGGCCAUUAAUCCC
..........................................((((((((((((((..((((((.(((((((.............))))))).))))))......)))))))))))))). (-25.84 = -25.77 +  -0.07)

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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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