Structure #158473

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr6
Strand	-
Position	33,440,576 - 33,440,687
Number of sequences	4
Organisms	human, dog, mouse, rat
Mean pairwise identity	81.9
Columns	120
Mean single MFE	-55.88
Consensus MFE	-37.06
Combinations/base pair	45 / 37 = 1.22
SCI	0.66
z-score	-2.05
RNA class probability	0.852924

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:  81.90
 Mean single sequence MFE: -55.88
 Consensus MFE: -37.06
 Energy contribution: -39.25
 Covariance contribution:   2.19
 Mean z-score:  -2.05
 Structure conservation index:   0.66
 SVM decision value:   0.80
 SVM RNA-class probability: 0.852924
 Prediction: RNA

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>hg17.chr6/33440687-33440576
UGCAGGCCUGGAGCCUGUAGGGCUGGACUGAGGUUCAGGUCUCCCCCCAGCUGUCUCACCCCCACUUUGUCCCCACUCUAGAGCAGGGAGGCAGUGGGGGAGGAGUUGUGU
(((((((.....))))))).((((((...((((......))))...))))))..(((.((((((((.(.((((..((....))..)))).).))))))))..)))...... ( -50.80)
>canFam1.chr2/76373365-76373254
CACAGGCCUGGAGCCUGCUGGGCUGGACUGAGGCUCAAGGUCUCCCCCAGCUGUCCCGCCCCCCAACGUCCCCACUCUAGGGCCAGGGGGGAGGUGGGGGAGGAGUUGUGU
(((((((((.((((((.(.((......))))))))).))))((((((((......((.((((((...((((........))))..)))))).))))))))))...))))). ( -55.50)
>mm5.chr4/134426443-134426325
UGCAGGCCUGGAGCCUGCAGGGCUGGAUUGAGGUUCAAGGGCCCCCCCAACUCCCUGCUGUCUCACCCCCACUAUGUCCCCCCUUAGGGCCAGGGAGGUGGUGGGGGAGGAGUUGUGU
(((((((.....)))))))(((((...(((.....))).)))))...((((((((....).....((((((((((.(((((((...)))...)))).)))))))))).)))))))... ( -60.00)
>rn3.chr5/154760648-154760531
UGCAGGCCUGGAGCCUGCAGGGCUGGAUUGAGGUUCAAGGGCCCCCAAUUCCCUGCUGUCUCACCCCCCAUUAUGUCCCCCCUUAGGGCCAGGGAGGUGGUGGGGGAGGAGUUGUGU
.((((((.....))))))((((...(((((.((((....))))..)))))))))((...(((..((((((((((.(((((((...)))...)))).))))))))))..)))..)).. ( -57.20)
>consensus
UGCAGGCCUGGAGCCUGCAGGGCUGGACUGAGGUUCAAGGGCCCCCCCA_______GCUGUCUCACCCCC_ACUAUGUCCCCACUCA_GGGCCAGGGAGGUGGUGGGGGAGGAGUUGUGU
(((((((.....)))))))(((..((.(((.....)))...))..)))........((...(((.(((((.(((((.(((((((....)))...)))).))))))))))..)))..)).. (-37.06 = -39.25 +   2.19)

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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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