Structure #172639

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr7
Strand	-
Position	101,021,478 - 101,021,586
Number of sequences	5
Organisms	human, dog, mouse, rat, chicken
Mean pairwise identity	77.81
Columns	120
Mean single MFE	-33.26
Consensus MFE	-16.41
Combinations/base pair	32 / 25 = 1.28
SCI	0.49
z-score	-2.27
RNA class probability	0.934702

This structure is part of cluster 95813

Alignment

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RNAz output

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

 Sequences: 5
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  77.81
 Mean single sequence MFE: -33.26
 Consensus MFE: -16.41
 Energy contribution: -16.77
 Covariance contribution:   0.36
 Mean z-score:  -2.27
 Structure conservation index:   0.49
 SVM decision value:   1.24
 SVM RNA-class probability: 0.934702
 Prediction: RNA

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>hg17.chr7/101021586-101021478
AAAGAAGAGAACAGACACGUUAGGCAAACUCCAUCUGCCCUCGUGUCUAACACUUUCUUCCCUGCAGAUAGCAGACAAUGGGGUUACCAGAUGUCAUUGCCUGCUGGG
...(((((((..(((((((...((((.........))))..))))))).....)))))))((.((((...(((((((.(((.....)))..))))..))))))).)). ( -37.80)
>canFam1.chr6/68165094-68165203
AGAGAAGAGAACAGACACGCUAGGCAAACUCCAUCUGCCCCUCGAGUCUAACACUUUUCUCCCUGCAGAUAGCAGACAAUGGGGUUACCAGAUGUCAUUGCCUGCUUGG
.((((((((...((((.((...((((.........))))...)).))))....))))))))((.((((...(((((((.(((.....)))..))))..)))))))..)) ( -34.40)
>mm5.chr5/32-144
AGAGAAGAGAGAAGACACGUUAGGCAAACUGCCUCUGGCUUCUCUGUCUAACACUUUUCUUUCCCCACAGAAUAGCAGACAAUGAGUUUACCAGAUGUCAUUGCCUGCUUGG
......(((((((((...((((((((....(((...))).....))))))))..))))))))).(((......(((((.(((((((((.....))).)))))).)))))))) ( -33.00)
>rn3.chr12/143-31
AGAGAAGAGAGAAGACAUGUUAGGCAAACUGCCUCUGGCUUCUCUGUCUAACACUUUUCUUUCCCCACAGAAUAGCAGACAAUGGGUUUACCAGAUGUCAUUGCCUGCUUGG
......(((((((((..(((((((((....(((...))).....))))))))).))))))))).(((.((....(((((((.(((.....)))..))))..)))...))))) ( -33.60)
>galGal2.chr19/3617579-3617459
GAAGAAAAGAACAGACACAUUAGGCAAACUCCAUCUGCCCCUCAUGUCUAUCACUUUCCUUCACUCUCUCUUUUGCCAAACAGGAUACAAUGGCAUAAUCAGAUGUCUUGGUUUGCCUGG
((((.((((...(((((.....((((.........)))).....)))))....)))).))))..................((((..((...(((((......)))))...))...)))). ( -27.50)
>consensus
AGAGAAGAGAACAGACACGUUAGGCAAACUCCAUCUGCCCUCCCUGUCUAACACUUUUCU________UUCCCUGCAGAAUAGCAGACAAUGGGGUUACCAGAUGUCAUUGCCUGCUUGG
...............((.((.((((((....((((((((((...(((((...................................)))))..))))....))))))...)))))))).)). (-16.41 = -16.77 +   0.36)

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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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