Structure #178910

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr8
Strand	-
Position	60,104,357 - 60,104,476
Number of sequences	5
Organisms	human, dog, mouse, rat, chicken
Mean pairwise identity	95.48
Columns	120
Mean single MFE	-33.62
Consensus MFE	-30.26
Combinations/base pair	37 / 35 = 1.06
SCI	0.9
z-score	-1.96
RNA class probability	0.994666

This structure is part of cluster 99450

Alignment

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RNAz output

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

 Sequences: 5
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  95.48
 Mean single sequence MFE: -33.62
 Consensus MFE: -30.26
 Energy contribution: -30.06
 Covariance contribution:  -0.20
 Mean z-score:  -1.96
 Structure conservation index:   0.90
 SVM decision value:   2.50
 SVM RNA-class probability: 0.994666
 Prediction: RNA

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

>hg17.chr8/60104476-60104357
UUACUUAUGCACUUUGUUAGUGUUCAAAGGAAGAGUGUCACGUUGUACAUGCUGGCAGUUUUCCAGUCAAGAGCUGUUAAUUACUGUACAGCGACUGAAUACAUUUUGUGGCAGUGGAA
.......(.(((((..(..((((((...((((((.((((((((.....))).))))).))))))((((....(((((..........))))))))))))))).....)..).)))).). ( -31.70)
>canFam1.chr29/12765386-12765267
UUACUUAUGCACUUUGUUAGUGUUCAAAGGAAGAGUGUCACGUUGUACAUGCUGGCAGUUUUCCAGUCAAGAGCUGUUAAUUACUGUACAGCGAGUGAAUACAUUUUGCAGCGGUGGAA
(((((..(((((((((........))))).....(((((((((((((((...((((((((((.......)))))))))).....))))))))..))).))))....))))..))))).. ( -32.90)
>mm5.chr4/6840305-6840185
UUACUUAUGCACUUUGUUAGUGUUCAAAGGAAGAGUGUCACGUUGUACAUGCUGGCAGCUUUCCAGUCAAGAGCUGUUAAUUACUGUACAGCAAGUGAAUACAUUUUUGCAGCAAUGGAA
...((..(((.(((((........))))).(((((((((((((((((((...((((((((((.......)))))))))).....))))))))..))))...)))))))...)))..)).. ( -33.20)
>rn3.chr5/20522061-20521942
UUACUUAUGCACUUUGUUAGUGUUCAAAGGAAGAGUGUCACGUUGUACAUGUUGGCAGCUUUCCAGUCAAGAGCUGUUAAUUACUGUACAGCAAGUGAAUACAUUUUGCAGCAAUGGAA
...((..(((.(((((........)))))((((.(((((((((((((((.((((((((((((.......))))))))))))...))))))))..))).)))).))))...)))..)).. ( -36.10)
>galGal2.chr2/344-225
UUACUUAUGCACUUUGUUAGUGUUCAAAGGAGGAGUGUCACGUUGUACAUGUUGGCAGUUUUCCAGUCAAGAGCUGUUAAUUACUGUACAGCUAGUGAAUACAUUUUGUGGCAAUGGAA
...(((..(((((.....)))))...)))......((((((((((((((.((((((((((((.......))))))))))))...)))))))).((((....))))..))))))...... ( -34.20)
>consensus
UUACUUAUGCACUUUGUUAGUGUUCAAAGGAAGAGUGUCACGUUGUACAUGCUGGCAGUUUUCCAGUCAAGAGCUGUUAAUUACUGUACAGCAAGUGAAUACAUUUU_GCAGCAAUGGAA
...((..(((.(((((........))))).....(((((((((((((((...((((((((((.......)))))))))).....))))))))..))).)))).........)))..)).. (-30.26 = -30.06 +  -0.20) 

	

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Consensus structure

Secondary structure graph

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Montain plot

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Dotplot

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