Structure #173396

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr7
Strand	+
Position	114,006,748 - 114,006,862
Number of sequences	5
Organisms	human, mouse, rat, dog, chicken
Mean pairwise identity	73.15
Columns	120
Mean single MFE	-28.46
Consensus MFE	-12.06
Combinations/base pair	41 / 28 = 1.46
SCI	0.42
z-score	-1.91
RNA class probability	0.827017
Warning	Base composition out of range

This structure is part of cluster 96254

Alignment

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RNAz output

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

 Sequences: 5
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  73.15
 Mean single sequence MFE: -28.46
 Consensus MFE: -12.06
 Energy contribution: -13.38
 Covariance contribution:   1.32
 Mean z-score:  -1.91
 Structure conservation index:   0.42
 SVM decision value:   0.70
 SVM RNA-class probability: 0.827017
 Prediction: RNA

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>hg17.chr7/114006748-114006862
CUCAGCUGUUGAAUGUGUUCUGCUCAUUUUCCAGCAGAGAGGAUGAGUUUAAUGUUUUCUUGGCAAUGUGUACUUUUUCACUUUUGCUGUUUCUGUUUGUCUGUCUACGUGCUU
...((((((.(((.(..((..(((((((((((....).))))))))))..))..).)))..(((((.(((........)))..)))))..................))).))). ( -24.20)
>mm5.chr6/15272932-15273045
CUCAGCUCUUGAAUGUGCUUUGCUCAUUUUCAGCAGGAGGACAGGUUCAAUGCUUUCUUGGCAGUGUGUCCUUUUUCCGCUUUGCCUGUUUCUAUUUACCUGUCUGCUUACUU
....(((...(((((.((...)).)))))..)))(((.((((((((..((((.......(((((.(((.........))).)))))......)))).)))))))).))).... ( -29.62)
>rn3.chr4/41168197-41168309
CUCAGCUCUUGAAUGUGCUUUGCUCAUUUCCAGCAGGAGGACAGGUUUAAUGCUUUCUUGGCCGUGUGUACUUUUUCACUUCGGCUGUUUCUAUUUACCUGUCUGCUUACUU
....(((...(((((.((...)).)))))..)))(((.((((((((..((((......((((((.(((........)))..))))))....)))).)))))))).))).... ( -31.60)
>canFam1.chr14/56495588-56495700
CUCAGCUGUUGAAUGUGUUCUGCUCAUUUUCCAGUGGGGAGGACGGGUUUAAUGCUUUCUGGGCAGUGUGUACUUUUUCACUUGUGCUGUUUGUUUACCUGUCUUCUUGCUU
((((.(((..(((((.(.....).)))))..)))))))((((((((((.....((...(.(.((((.(((........))))))).).)...))..))))))))))...... ( -34.30)
>galGal2.chr1/165401548-165401429
CUUUCUUGUUGACUAUGGUUCCAUUCACUCUCCAGCUGGGAACACAUGCUCAAUUUUUUCUUGGUAAUGGUUGUUUUCAUGCCUCUACUUUCUCUGUUUACCUGAGCAUUUGUGUGAAG
.......................(((((..(((.....)))(((.(((((((..........((((..(((((....)).)))..)))).............))))))).)))))))). ( -22.60)
>consensus
CUCAGCUGUUGAAUGU_GUUCUGCUCAUUUUCCAGCAG_GAGGACAGGUUUAAUGCUUUCUUGGCAGUGUGUACUUUUU_CACUUCUGCUGUUUCUGUUUACCUGUCUACUUGCUU____
(((.((((..(((((..........)))))..)))).))).((((((((............(((((..(((.........)))...))))).........))))))))............ (-12.06 = -13.38 +   1.32)

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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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