Structure #7637

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr1
Strand	+
Position	38,398,275 - 38,398,395
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	92.34
Columns	120
Mean single MFE	-28.4
Consensus MFE	-24.05
Combinations/base pair	29 / 27 = 1.07
SCI	0.85
z-score	-1.9
RNA class probability	0.849997

This structure is part of cluster 2061

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  92.34
 Mean single sequence MFE: -28.40
 Consensus MFE: -24.05
 Energy contribution: -23.55
 Covariance contribution:  -0.50
 Mean z-score:  -1.90
 Structure conservation index:   0.85
 SVM decision value:   0.78
 SVM RNA-class probability: 0.849997
 Prediction: RNA

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>hg17.chr1/38398275-38398395
UAUAUACUAAUUAACUCCAUGGCCUCUCUAACGAGUUUAAGCACAAUAAGGCCUCUGAAAAUAUCGAGGCAUUUUGCAGCUGCCUUAAAUUCUACCUAGGGAGACAGGCUCACAGCUCAU
................((.((..(((((((..((((((((((((((....(((((.((.....)))))))...)))....)).)))))))))....))))))).))))............ ( -27.80)
>mm5.chr4/31311053-31310935
CAUAUACUAAUUAACUCCGUGGCCUCUCUAACGAGUUUAAGCACAAUAAGGCCUCUGAAAAUAUCAAGGCAUUUUGCAGCCGCCUUAAAUUCUAUCCAGGGAGACAUGCCCAUGGCUU
..............((((.(((...(((....)))...........((((((...(((.....))).(((........)))))))))........))).))))....(((...))).. ( -29.10)
>rn3.chr5/29316356-29316238
CAUAUACUAAUUAACUCCGUGGCCUCUCUAACGAGUUUAAGCACAAUAAGGCCUCUGAAAAUAUCAAGCCAUUUUGCAGCCGCCUUAAAUUCUACCCAGGGAGACAUGCCCAUGGCUU
..............((((.(((...(((....)))...........((((((..((((((((........))))).)))..))))))........))).))))....(((...))).. ( -28.60)
>canFam1.chr15/59876592-59876472
UAUAUACUAAUUAACUCCAUGGCCUCUCUAACGAGUUUAAGCACAAUAAGGCCGCUGAAAAUAUCGAGGCAUUUUGCAGCUGCCUUAAAUUCUACCUUGGGAGACAUGCUCACAGCUCAU
..............((((..((...(((....)))...........((((((.(((((((((........))))).)))).)))))).......))...))))....((.....)).... ( -28.10)
>consensus
CAUAUACUAAUUAACUCCAUGGCCUCUCUAACGAGUUUAAGCACAAUAAGGCCUCUGAAAAUAUCAAGGCAUUUUGCAGCCGCCUUAAAUUCUACCCAGGGAGACAUGCCCACAGCU__U
..............((((.(((.(((......)))...........((((((..((((((((........))))).)))..))))))........))).))))....(((...))).... (-24.05 = -23.55 +  -0.50)

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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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