Structure #115658

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr20
Strand	+
Position	6,772,144 - 6,772,247
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	77.53
Columns	104
Mean single MFE	-38.62
Consensus MFE	-29.62
Combinations/base pair	40 / 29 = 1.38
SCI	0.77
z-score	-2.76
RNA class probability	0.999149

This structure is part of cluster 61291

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 104
 Columns: 104
 Strand: +
 Mean pairwise identity:  77.53
 Mean single sequence MFE: -38.62
 Consensus MFE: -29.62
 Energy contribution: -28.88
 Covariance contribution:  -0.75
 Mean z-score:  -2.76
 Structure conservation index:   0.77
 SVM decision value:   3.40
 SVM RNA-class probability: 0.999149
 Prediction: RNA

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>hg17.chr20/6772144-6772247
UAGGGCAAAGAAGGGCUCCAGUUUUGUGUGCUGUGAACUGCAAAGCUGGAGCCCUCUGGAGAAUUCAGUUCCUGCCAUGUCUGCCACCUGAUUCUCACCUGGC
...((((.(((.(((((((((((((((((.......)).))))))))))))))))))((((.......))))))))......((((..((.....))..)))) ( -43.50)
>mm5.chr2/133374935-133375039
CAGGGCAAGGAAGGGUUCCAGUUUUGUGUGCUAAGGAAUCGCAAUGCUGGGAUCCUCUGCAGAGUUUAGUUGCUGCUGUCUCUGCCACCUGCUCCUCACCUGGC
((((...(((((((((((((((.(((((..(....)...))))).)))))))))))..((((((..((((....)))).)))))).......))))..)))).. ( -44.10)
>rn3.chr3/121359361-121359461
CAGGGCAAGGAAGGCUUCCAGUUUUGUGUGCUAAGGAACUGCAGUGCUGGGAUCCUUUGCAGAGUUUUGCUGCUGAAUCUGCACCUGCUCCUCACCUGGC
((((...(((((((.(((((((.((((((........)).)))).))))))).))).((((((.((........)).)))))).....))))..)))).. ( -33.70)
>canFam1.chr24/32572416-32572318
UAGAGCAAAGAAGGGCUCUAGUUUUGUGUGCUAUAAACCACAAAUCUGGAGCCCUCUGCAACUUUAGUUCCUGUUGUGUUUGCCACCUGGUUCUCAGC
(((((...(((.(((((((((.((((((.(.......))))))).))))))))))))....)))))......((((.(...(((....))).).)))) ( -33.20)
>consensus
CAGGGCAAAGAAGGGCUCCAGUUUUGUGUGCU_AGGAACCGCAAAGCUGGAACCCUCUGCAGAGUUUAGUUCCUGCUGUGUCUGCCACCUGCUCCUCACCUGGC
((((....(((((((((((((((((((((........)).))))))))))))))))..((((..........))))....)))....))))............. (-29.62 = -28.88 +  -0.75)

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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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