Structure #178899

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr8
Strand	-
Position	60,104,118 - 60,104,238
Number of sequences	5
Organisms	human, dog, mouse, rat, chicken
Mean pairwise identity	80.23
Columns	120
Mean single MFE	-27.14
Consensus MFE	-19.1
Combinations/base pair	38 / 27 = 1.41
SCI	0.7
z-score	-1.69
RNA class probability	0.714477

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:  80.23
 Mean single sequence MFE: -27.14
 Consensus MFE: -19.10
 Energy contribution: -17.62
 Covariance contribution:  -1.48
 Mean z-score:  -1.69
 Structure conservation index:   0.70
 SVM decision value:   0.38
 SVM RNA-class probability: 0.714477
 Prediction: RNA

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>hg17.chr8/60104238-60104118
GUGCCAUUUGUUUUCAUUUUGAAAAUAAAAACAAAUGACAGUACGAUUUCCUCCGAGGGAAAGUACUUUAGUUGUAAAGUAUUUCUGUCCCAAAACGAGCAAUUAUCUAUUUGUAUGCUG
....((((((((((.(((.....))).)))))))))).(((((.............((((((((((((((....))))))))))...)))).......((((........)))).))))) ( -26.70)
>canFam1.chr29/12765151-12765031
GUGCCAUUUGUUUUCGUUUUGAAAAUAAAAACAAAUGACAGUAUGAUUCCCUUGGGGAAAAAGUACUUGAGUUCUAAAGCGUUCCUGCCCCCAAACAAGCAAUUAUCUAUUUGGAUGCUG
....((((((((((..((.....))..)))))))))).((((((.......((((((....((.((....)).))...(((....))))))))).....(((........))).)))))) ( -24.80)
>mm5.chr4/6840068-6839949
GCUCAGUUUGUUUUCAUUUUAAAGAUAAAAACAAAUGACAGUGUAGUCCCCUUGAGGGGAAAGUACUUUAGUUAGAAAAUGUUUCUGCUCCCUCAUGAGCAAUUAUCUAUUUUAUGCUG
.....(((((((((.(((.....))).)))))))))..(((((((((((((....)))))............((((.(((.....(((((......)))))))).))))..)))))))) ( -28.00)
>rn3.chr5/20521826-20521707
GCUCAGUUUGUUUUCAUUUUAAAGAUAAAAACAAAUGACAGUGCAGUCCCCUCCAGGGGAAAGUACUUUAGUUACAAAAUGUUCCUGCUCCCUCACGAGCAAUUAUCUAUUUUAUGCUG
((((.(((((((((.(((.....))).)))))))))...(((((..(((((....)))))..))))).(((..((.....))..))).........))))................... ( -30.00)
>galGal2.chr2/118-0
AUGCCAUUUGUUUUCAUUUUGAAAAUAAAAACAAAUGACAGUAUGAUUCCCUGAGGGGGAAGUACUUUAGCUAUAAAGAAUCUCUGACAAAAAGAAGUUAUUAUCUAUUUGUAAGCUG
.((.((((((((((.(((.....))).)))))))))).))((((..(((((....))))).))))..(((((....((.....)).(((((.(((........))).))))).))))) ( -26.20)
>consensus
GUGCCAUUUGUUUUCAUUUUGAAAAUAAAAACAAAUGACAGUAUGAUUCCCUCGAGGGGAAAGUACUUUAGUUAUAAAGUGUUUCUGCCCCCAAACGAGCAAUUAUCUAUUUGUAUGCUG
....((((((((((.(((.....))).))))))))))..(((((..(((((....)))))..)))))..............................((((..............)))). (-19.10 = -17.62 +  -1.48)

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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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