Structure #148171

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr5
Strand	+
Position	89,198,286 - 89,198,405
Number of sequences	5
Organisms	human, mouse, rat, dog, chicken
Mean pairwise identity	76.63
Columns	120
Mean single MFE	-32.14
Consensus MFE	-17.02
Combinations/base pair	39 / 25 = 1.56
SCI	0.53
z-score	-2.11
RNA class probability	0.917258

This structure is part of cluster 82009

Alignment

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RNAz output

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

 Sequences: 5
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  76.63
 Mean single sequence MFE: -32.14
 Consensus MFE: -17.02
 Energy contribution: -15.10
 Covariance contribution:  -1.92
 Mean z-score:  -2.11
 Structure conservation index:   0.53
 SVM decision value:   1.11
 SVM RNA-class probability: 0.917258
 Prediction: RNA

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>hg17.chr5/89198286-89198405
UCCAGAAAGCUUUUGCAGUAACUGCACAGCAUUUCAACAGCUGGCCUAAUUCAAGGGCUCUCUGUCAAUCAUGGAAAAAUGUGACAGACUUGUGACUUUGUGGCAAAAGCAACAAAAUU
........((((((((..(((...(((((.............(((((.......))))).(((((((..(((......)))))))))).)))))...)))..))))))))......... ( -32.60)
>mm5.chr13/37405624-37405505
UCCAGAAAAUGUUGGCAGUCAGUAUAAGGCAUUCCAACAGCUGGACUGGAUCAAGGGCUCUCUGUCAAUCAUAGAGAAAUGUGACAGACUUGUGACUUUGUGGCAAAAGUGACAAAAUU
(((((....((((((..(((.......)))...)))))).)))))(((..(((.....(((((((.....)))))))....))))))..((((.(((((......))))).)))).... ( -33.80)
>rn3.chr2/247627863-247627744
UCCAGAAAAUGUUGGCAGUGACUGUAAGGCAUUCCAACAGCUGGCCUGGAUCAAGGGCUCUCUGUCAAUCAUAGACAAAUGUGACAGACUUGUGACUUUGUGGCAAAAGUGACAAAAUU
.((((....((((((.((((.((....)))))))))))).))))(((......)))....(((((((..(((......)))))))))).((((.(((((......))))).)))).... ( -35.80)
>canFam1.chr3/73260403-73260284
UCCAGAAAGCUUUAGCAGUAAGUGCACAGCACUCCAACAGCUGGCCUAAAUCAAGGGCUCUCUGUCAAUCACUGAGAAAUGUGACAGACUUGUAACUUUGUGGCAAAAGCGACAAAAUU
...(((.(((.(((((.((.(((((...)))))...)).)))))(((......)))))).)))(((..((((........))))..))).......(((((.((....)).)))))... ( -29.60)
>galGal2.chrW/1173575-1173694
UCUCAAAUGUUUUUUCCAUAGAGCACAGUAAGCAAACAGCUGGCUUCAGGCAAGAAUCCUUUGUCAAUCAUGGCAAAAACAUGAGCCACAUGAAAUUUCAUGAUGAAUGUGAUGAAACU
.((((..(((((((.((((.((((.((((.........))))))))..((((((.....))))))....)))).))))))))))).(((((...(((....)))..)))))........ ( -28.90)
>consensus
UCCAGAAAGUUUUGGCAGUAAGUGCACAGCAUUCCAACAGCUGGCCUAAAUCAAGGGCUCUCUGUCAAUCAUAG_AAAAAUGUGACAGACUUGUGACUUUGUGGCAAAAGUGACAAAAUU
..............((((..................((((..(((((.......)))))..))))...(((((.......))))).....))))...(((((.((....)).)))))... (-17.02 = -15.10 +  -1.92)

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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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