Structure #158464

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr6
Strand	+
Position	33,440,536 - 33,440,647
Number of sequences	4
Organisms	human, dog, mouse, rat
Mean pairwise identity	83.52
Columns	120
Mean single MFE	-40.88
Consensus MFE	-27.12
Combinations/base pair	25 / 23 = 1.09
SCI	0.66
z-score	-2.73
RNA class probability	0.968248
Warning	Base composition out of range

This structure is part of cluster 87789

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  83.52
 Mean single sequence MFE: -40.88
 Consensus MFE: -27.12
 Energy contribution: -27.25
 Covariance contribution:   0.12
 Mean z-score:  -2.73
 Structure conservation index:   0.66
 SVM decision value:   1.62
 SVM RNA-class probability: 0.968248
 Prediction: RNA

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

>hg17.chr6/33440536-33440647
AAGAAAAACACCCAAAAACCACAUGGAGACAGAAGACAAGACACAACUCCUCCCCCACUGCCUCCCUGCUCUAGAGUGGGGACAAAGUGGGGGUGAGACAGCUGGGGGGAG
..........(((.....((((.((....))...............(((..((((((((...((((..((....))..))))...)))))))).)))...).))).))).. ( -43.30)
>canFam1.chr2/76373215-76373325
AAGAAAAACACCCAAAACCACAUGGAGACAGAAGACGAGACACAACUCCUCCCCCACCUCCCCCCUGGCCCUAGAGUGGGGACGUUGGGGGGCGGGACAGCUGGGGGAGA
......................((....))......(((......)))(((((((((((((((((...((((.....)))).....)))))).))).....)))))))). ( -42.20)
>mm5.chr4/134426286-134426403
GAGAAAAACACCCAAAACCACAUGAAGACAGAAGACAAGACACAACUCCUCCCCCACCACCUCCCUGGCCCUAAGGGGGGACAUAGUGGGGGUGAGACAGCAGGGAGUUGGGGGGGC
..........(((....((...((....))............(((((((((((((((..(((((((.......))))))).....)))))))..........)))))))))).))). ( -41.40)
>rn3.chr5/154760492-154760608
AAGAAAAACACCCAAAACCACAUGAAGACAGAAGACAAGACACAACUCCUCCCCCACCACCUCCCUGGCCCUAAGGGGGGACAUAAUGGGGGGUGAGACAGCAGGGAAUUGGGGGC
..........(((((..((...((....))...............(((.(((((((...(((((((.......)))))))......))))))).)))......))...)))))... ( -36.60)
>consensus
AAGAAAAACACCC_AAAACCACAUGAAGACAGAAGACAAGACACAACUCCUCCCCCACCACCUCCCUGGCCC_AAAGGGGGGACAUAGU_GGGGGUGAGACAGC_______UGGGGGGGC
..........(((.....(((..((....))...............(((..(((((....(((((((........)))))))........))))).)))............))))))... (-27.12 = -27.25 +   0.12)

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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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