Structure #148166

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr5
Strand	-
Position	89,198,168 - 89,198,286
Number of sequences	4
Organisms	human, mouse, rat, dog, chicken
Mean pairwise identity	88.94
Columns	120
Mean single MFE	-32.95
Consensus MFE	-25.73
Combinations/base pair	44 / 38 = 1.16
SCI	0.78
z-score	-2.44
RNA class probability	0.938679

This structure is part of cluster 82009

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  88.94
 Mean single sequence MFE: -32.95
 Consensus MFE: -25.73
 Energy contribution: -26.85
 Covariance contribution:   1.12
 Mean z-score:  -2.44
 Structure conservation index:   0.78
 SVM decision value:   1.27
 SVM RNA-class probability: 0.938679
 Prediction: RNA

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>hg17.chr5/89198286-89198168
GGCCUUGACUAUCACAUUUUCAUCGAAUGUGAAUUCCUUUUUGUACGUGUACAUAUUGUACAGAGAACAGAAGAGCUCACAGCAGCCCCUAAAAGGCAUCUGUUCUUUAUAGUGAGAU
...(((.((((((((((((.....))))))))................((((.....))))((((((((((...((.....)).(((.......))).)))))))))).))))))).. ( -31.50)
>mm5.chr13/37405387-37405505
GGCCUUGGCUAUCACGUUUUCAUCGAAUGUGAAUUCCUUUCUGUACGUGUGCAUAUUGUACAGAGAACAGAAGAGCUCACAGCAGCCCCUCAGAGGCAUCUGUUCUUUAUAGUGAGAU
(((....))).((((((((.....))))))))....(((.(((((..(((((.....)))))(((((((((...((.....)).(((.......))).)))))))))))))).))).. ( -35.90)
>canFam1.chr3/73260166-73260284
GGCCUUGGCUAUCACAUUUUCAUCGAAUGUGAAUUCCUUUUUGUACGUGUACAUAUUGUACAGAGAACAGAAGAGCUCACAGCAGCCCCUAAACGGCAUCUGUUCUUUAUAGUGAGAU
(((....))).((((((((.....))))))))....(((.(((((..(((((.....)))))(((((((((...((.....)).(((.......))).)))))))))))))).))).. ( -34.10)
>galGal2.chrW/1173575-1173457
AGGGCCUUGGCUAUCACAUUUUCAUGUGAUGUGCACUCUCAUAUACAUGUGCAUAUUAUACAAAGAACAGAAGAACUCACAGCAGCCCCAAAACAGCAUCUGUUCUUUAUACUGAGAU
..(((....))).......(((((((((((((((((............)))))))))))).((((((((((.(....)...((............)).))))))))))....))))). ( -30.30)
>consensus
__GGCCUUGGCUAUCACAUUUUCAUCGAAUGUGAAUUCCUUUUUGUACGUGUACAUAUUGUACAGAGAACAGAAGAGCUCACAGCAGCCCCUAAAAGGCAUCUGUUCUUUAUAGUGAGAU
..(((....))).((((((((.....))))))))....(((.(((((..(((((.....)))))(((((((((...((.....)).(((.......))).)))))))))))))).))).. (-25.73 = -26.85 +   1.12)

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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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