Structure #110194

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr2
Strand	-
Position	178,412,571 - 178,412,685
Number of sequences	5
Organisms	human, dog, mouse, rat, chicken
Mean pairwise identity	81.53
Columns	120
Mean single MFE	-31.16
Consensus MFE	-20.45
Combinations/base pair	37 / 29 = 1.28
SCI	0.66
z-score	-3
RNA class probability	0.992439

This structure is part of cluster 58284

Alignment

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RNAz output

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

 Sequences: 5
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  81.53
 Mean single sequence MFE: -31.16
 Consensus MFE: -20.45
 Energy contribution: -20.13
 Covariance contribution:  -0.32
 Mean z-score:  -3.00
 Structure conservation index:   0.66
 SVM decision value:   2.33
 SVM RNA-class probability: 0.992439
 Prediction: RNA

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>hg17.chr2/178412685-178412571
AACCAAACAUACAAUUGGGCAGAAGGAUAAUCCAAUCCAUUUCCUCUCACAGGAGAGUAACCUCCAUAACUCACUUUAAGCGCUGCCAUUCAUGAGUUAUGGGUCAUUCCCUUU
................(((..((.((((......)))).....(((((....))))).....(((((((((((......((...))......)))))))))))))...)))... ( -26.40)
>canFam1.chr36/24561264-24561150
AACCAAACAUACAAUUGGGCAGAAGGAUAAUCCAAUCCAUUUCCUCACACAGGAGAGUAACCUCCAUAACUCACUUUAAGCGCUGCCAUUCAUGAGUUAUGGGUCAUUCCCUUC
..((((........))))...(((((.............((((((.....))))))......(((((((((((......((...))......)))))))))))......))))) ( -26.80)
>mm5.chr2/75962614-75962500
AACCAAACAUACAACGGGGCAGAAGGAUCGUCCAAUCCAUUUCCUCUCACAGGAGAGUAACCUCCAUAACUCACUUUAAGCAUCACCGUUCGUGAGUUAUGGGUCAUUCCUCUC
...............((((.(((.((((......)))).)))))))......(((((.....((((((((((((....(((......))).))))))))))))......))))) ( -31.00)
>rn3.chr3/58633550-58633436
AACCAAACAUACAGUGGGGCAGAAGGAUCGUCCAAUCCAUUUCCCCUCGCAGGAGAGUAACCUCCAUAACUCACUUUGAACGUCGACGUUCAUGAGUUAUGGGUCAUUCCUCGC
.............(.((((.(((.((((......)))).))))))).)(((((((.(.....(((((((((((...((((((....))))))))))))))))).).))))).)) ( -39.50)
>galGal2.chr7/20894391-20894510
AACAAAACAUGUAAUGUGGAGCAAGAUAUAACAAAUGCAAUUCAUUUCCUCACACGAGAGAAUGACCUCCAUAACUCACUGCAGACUCUGCCACUCGUGAGUUAUGGGUCGUUUUUUUU
...(((((.........((.(((............)))...(((((..(((....)))..)))))))((((((((((((.((((...)))).....))))))))))))..))))).... ( -32.10)
>consensus
AACCAAACAUACAAUGGGGCAGAAGGAUA______AUCCAAUCCAUUUCCUCUCACAGGAGAGUAACCUCCAUAACUCACUUUAAGCGCUGCCAUUCAUGAGUUAUGGGUCAUUCCUUUC
...............((((.(((.((((............)))).))))))).....((.((((.(((..(((((((((...................)))))))))))).))))))... (-20.45 = -20.13 +  -0.32) 

	

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Consensus structure

Secondary structure graph

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Montain plot

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Dotplot

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