Structure #33302

Summary

Genome/Assembly hg17
Chromosome/Contig chr11
Strand -
Position 8,662,345 - 8,662,478
Number of sequences 6
Organisms human, dog, mouse, rat, chicken, zebrafish, fugu
Mean pairwise identity 71.55
Columns 145
Mean single MFE -41.89
Consensus MFE -17.59
Combinations/base pair 33 / 24 = 1.38
SCI 0.42
z-score -1.72
RNA class probability 0.517108

This structure is part of cluster 16165

Alignment

Alignment

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RNAz output

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

 Sequences: 6
 Slice: 1 to 145
 Columns: 145
 Strand: +
 Mean pairwise identity:  71.55
 Mean single sequence MFE: -41.88
 Consensus MFE: -17.59
 Energy contribution: -16.07
 Covariance contribution:  -1.52
 Mean z-score:  -1.72
 Structure conservation index:   0.42
 SVM decision value:  -0.03
 SVM RNA-class probability: 0.517108
 Prediction: RNA

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

>hg17.chr11/8662478-8662345
CAUGUCUCUAACCUGGUGACUGACUGUGCCAUAAGGCCCACAGCCAGUGAAUAAGGUCAGCAGUUACUCUUCGAGGACUCUAGCACACUCAGGCAAUAGCCGAUACCCAAGCGUGACUCUAGCCUCGAUGACA
..((((.((.((((..(.((((.(((((((....)))..)))).)))).)...)))).))..........((((((.((..(((((.((..(((....)))(.....).)).))).))..)))))))).)))) ( -40.80)
>mm5.chr7/96790610-96790477
UAUGUCACUAACCUGGUGACUGACUGUGCCAGAAAGUCCACACAGCCAGUGAAUAAGGUCAGCAGUUAUUCUUCGAGGACUUAAGCACACUAAGGCAACAAGCAAUACCUGAGCGUGACUCUAGCCUCGGACA
..((((.((.((((..(.((((.(((((............))))).)))).)...)))).))...........(((((.((..(((((.((.(((............))).)).))).))..))))))))))) ( -38.70)
>rn3.chr1/167227091-167226960
UAUGUCACUAACCUGGUGACUGACUGCGCCAUAAAGUCCACAGCCAGUGAAUAAGGUCAGUAGUUUUUCUUCGAGGACUCUAGCACACUGAGGCAACAAGCAAUACCUGAGCGUGACUCUAGCCUCGGACA
..(((((((.((((..(.((((.(((.((......))...))).)))).)...)))).)))..........(((((.((..(((((.((.(((............))).)).))).))..))))))))))) ( -37.90)
>galGal2.chr5/7256159-7256019
CCUGUCACUAAUCUGGUGACUGACCGAGACAGGAGUGGUCACAGCCAGUGAAUAUAGAUUAGUGGUUACUAUUCGAGUACUCUAGCACAUCGGGACAACAGGCACUGUCCAGACGUGACUCUAGUCUCGGCAUUAAGACA
...((((((.....))))))((.(((((((..(((((((...(((((.(((.......))).))))))))))))((((.......(((.((.(((((........))))).)).)))))))..)))))))))........ ( -47.11)
>danRer1.chrUn/71459268-71459398
CAUGUUUCAGAGCUGGUGAUUGGCUGGGCAAUGGAAAGCAGCAGCCAAUGAAUAAGCAGAGAGGUUAUUCUGCGAGUACUAUAGCACACCAAGACAACGAGCAACGUCAGGAUGUGACUCUAGUCUCGCU
.((.((((...(((..(.((((((((.((........))..)))))))).)...))).)))).))......(((((.((((.((((((((..(((..........))).)).)))).)).))))))))). ( -42.20)
>fr1.chrUn/288715682-288715553
UGUUUCUGAGCUGGUGGUUGACUGGGCCACAACAGACUACAGCCAAUGAAUAAGCAAAGAGGUUUCCUCUGCGAGCGCUCUAGCACACCAGGACAAUGGAGCGUGUCCAGGCGUGACUCUAGCCUCGCU
(((((((((((((((((((.....))))))..))).)).))).........))))).(((((...)))))(((((.(((..(((((.((.(((((........))))).)).))).))..)))))))). ( -44.60)
>consensus
CAUGUCACUAACCUGGUGACUGACUGGGCCAUA_A_A_GGCCACA__GCCAGUGAAUA_AGGUCAGAAGUUAC_UCUUCGAGGACUCUAGCACACCAAGACAACAAGCAAUACCCAAGCGUGACUCUAGCCUCG_______GACA
......(((.((((..(.((((...........................)))).)....)))).)))...........((((........(((.((.(((............))).)).)))........))))........... (-17.59 = -16.07 +  -1.52) 

	

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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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