Structure #9170

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr1
Strand	+
Position	48,710,796 - 48,710,909
Number of sequences	5
Organisms	human, dog, mouse, rat, chicken
Mean pairwise identity	76.86
Columns	120
Mean single MFE	-35.92
Consensus MFE	-23.54
Combinations/base pair	29 / 26 = 1.12
SCI	0.66
z-score	-3.25
RNA class probability	0.999554

This structure is part of cluster 2793

Alignment

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RNAz output

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

 Sequences: 5
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  76.86
 Mean single sequence MFE: -35.92
 Consensus MFE: -23.54
 Energy contribution: -26.10
 Covariance contribution:   2.56
 Mean z-score:  -3.25
 Structure conservation index:   0.66
 SVM decision value:   3.72
 SVM RNA-class probability: 0.999554
 Prediction: RNA

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>hg17.chr1/48710796-48710909
CUCCCUGGAGCCUCCCUUCCUCUCCCUGUGUUCUAAUCCUCAUUUCCGGGAGGUCAUUUUAAUUAGCAGGCUGUCAUGGUGACUCAGCCUGCUGUUUCCACAGACAGGAAGGG
(((....)))...(((((((((((((.(((..........)))....)))))(((........((((((((((....(....).))))))))))........))))))))))) ( -45.49)
>canFam1.chr15/51837718-51837599
CUCCCCUGAGCCUCCCUUCCUCUCCCCAUCUCCCGUCUCCGAAUCCUCAUUUCCGGGAGGUCAUUUUAAUUAGCAGGCUGUCGCAGUGACUCAACCUGCCGCUUCACAGACAGGAAGGG
(((....)))...((((((((.((...((((((((.....((....)).....))))))))...........(((((..(((.....)))....))))).........)).)))))))) ( -35.50)
>mm5.chr4/44131716-44131603
CUCCCUGGAGCCUCCCUCCCUCUCCCUAUCUCCUAAUCCUCAUUUCCGGGAGGUCAUUUUAAUUAGCAGGCUGUCAUGGUGACUCAGCCUGCUGCUUCCACAGGCAGGAAGGG
..((((...((((.((((((...........................))))))..........((((((((((....(....).)))))))))).......))))....)))) ( -39.43)
>rn3.chr5/39898333-39898220
CUCCCUGGAGCCUCCCUCCCUCUCCCUAUCUCCUAAUCCUCGUUUCCGGGAGGUCAUUUUAAUUAGCAGGCUGUCAUGGUGACUCAGCCUGCUGCUUCCACAGACAGGAAGGG
..((((((((.....)))).................((((.((((...((((((..........(((((((((....(....).)))))))))))))))..)))))))))))) ( -40.80)
>galGal2.chr8/22933542-22933645
UCAUCCCCCCUCUGCAUACCUUCUAAUCCAUAUCUCCAAGAGGUCAUUUUAAUUAUCACACUGUCACAGCUAUUCAUUACUCUGCUCUUGGAGACAGAGAGCC
.........(((((..................((((((((((((.((.......)).)).(((...)))...............))))))))))))))).... ( -18.36)
>consensus
CUCCCUGGAGCCUCCCUCCCUCUCCCUAUCUCCU_______AAUCCUCAUUUCCGGGAGGUCAUUUUAAUUAGCAGGCUGUCAUGGUGACUCAGCCUGCUGCUUCCACAGACAGGAAGGG
.............(((((((((((((............................)))))(((........((((((((((...........))))))))))........))))))))))) (-23.54 = -26.10 +   2.56)

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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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