Structure #74374

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr16
Strand	-
Position	27,898,872 - 27,899,035
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	78.03
Columns	163
Mean single MFE	-55.89
Consensus MFE	-40.47
Combinations/base pair	60 / 43 = 1.40
SCI	0.72
z-score	-3.07
RNA class probability	0.999625

This structure is part of cluster 38941

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 163
 Columns: 163
 Strand: +
 Mean pairwise identity:  78.03
 Mean single sequence MFE: -55.89
 Consensus MFE: -40.47
 Energy contribution: -37.48
 Covariance contribution:  -3.00
 Mean z-score:  -3.07
 Structure conservation index:   0.72
 SVM decision value:   3.80
 SVM RNA-class probability: 0.999625
 Prediction: RNA

######################################################################

>hg17.chr16/27899035-27898872
CAUGCCAAGGGUAACUUGGCAGACCCUCAAUGCUCUGCACACCUUCUGCCAGCAUUGGGCAUCUGCCUCUGGCCACCCCCCUUGAUUUUGCCUGUGGCCCUGCCAGGUUCCCCCCACCUGCUCAGGCUGAAGUUGCAGAAUUACAGCCUCCUGCUUCUGGCUU
...((((.(((.((((((((((.....(((((((..(((.......))).)))))))(((....)))...((((((.................)))))))))))))))).)))......((..((((((.((((....)))).))))))...))...)))).. ( -62.53)
>mm5.chr7/113505478-113505320
CAUGCCAAGGGCAACUUGGCCAAUCCGCAGCAUCCUUGUAUCUCUGCCAGCACUAGGCAUCUGUCUCUGGCCUCUUUCCUUGUUUCUGCUUGUGGCUCUGCCAGAUUCCCACCCUGCUCCUGCUGAGCACGCAGAAUCACAGCUUCCUGCUCUGGCUU
...((((.(((((....(((......((((.(..(..(.......(((((....((((....))))))))).......)..)..))))).((((..(((((..(.....)....(((((.....))))).)))))..)))))))...))))))))).. ( -47.74)
>rn3.chr1/185261841-185261682
CAUGCCAAGGGCAACUUGGCCAGUCCGCAGCAUCCUUGUAUCUCUGCCAGCACCAGGCAUCUGUCUCUGGCCUCUUUCCUUGUUUCUGCUUGUGGCUAUGCCAGGUUCCCACCCUUGCUCCUGCUGAGCAUGCAGAAUUACAGCUUCCUGCUCCGGCUU
...(((..(((.((((((((.((.((((((((.............(((((....((((....)))))))))...............))).)))))))..))))))))))).....(((((.....))))).((((............))))...))).. ( -51.29)
>canFam1.chr6/58778194-58778357
CAUGCCAAGGGCAACUUGGCCGACCCUCCGUGUUCCACAGACCUUCUGCCAGCCUUGGGCAUCUGCUUCUGGCCACCUCCCUGGAUGCUGCCUGCACCCCUGCCAGGUUUCCUCCACCUGCUCAGGGUGAGGUUGCAUCGUUAUGGCUUCCUGCUUCUGGCUU
...((((..((((....(((((.......(((.....(((.....)))...(((..((((....))))..)))))).......(((((.((((.(((((.((.(((((.......)))))..))))))))))).)))))....)))))...))))..)))).. ( -62.00)
>consensus
CAUGCCAAGGGCAACUUGGCCAACCCGCAGCAUCCU_CAUACCU_CUGCCAGCACUAGGCAUCUGCCUCUGGCCACCUCCCUUGAUUCUGCCUGUGGCCCUGCCAGGUUCCCACC_CCUGCUCAGGCUGAGCAUGCAGAAUUACAGCUUCCUGCU_CUGGCUU
...((((..((((....(((......((((((.....))........(((((....((((....)))))))))........))))((((((...(((((..((.((((.......))))))...))))).....)))))).....)))...))))..)))).. (-40.47 = -37.48 +  -3.00) 

	

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Consensus structure

Secondary structure graph

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Montain plot

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Dotplot

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