Structure #15070

Summary

Genome/Assembly hg17
Chromosome/Contig chr1
Strand -
Position 116,082,224 - 116,082,343
Number of sequences 4
Organisms human, mouse, rat, dog
Mean pairwise identity 83.31
Columns 120
Mean single MFE -34.48
Consensus MFE -25.12
Combinations/base pair 30 / 28 = 1.07
SCI 0.73
z-score -3.74
RNA class probability 0.998004

This structure is part of cluster 6111

Alignment

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  83.31
 Mean single sequence MFE: -34.48
 Consensus MFE: -25.12
 Energy contribution: -26.25
 Covariance contribution:   1.12
 Mean z-score:  -3.74
 Structure conservation index:   0.73
 SVM decision value:   2.98
 SVM RNA-class probability: 0.998004
 Prediction: RNA

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>hg17.chr1/116082343-116082224
UGAAAAGUGAAAAAUUAAUUCCAUUAUCCAGCUGUUGCUGCUGUUAAGUGCCAAAAUACCCAGAUAUUUCCAAACAUCUGAGUAUUUGACAGCACGUUUUUACUAUAGAUCCAGAUGUU
.....((((((((...............((((....)))).......((((..((((((.(((((.((....)).))))).))))))....)))).))))))))............... ( -25.10)
>mm5.chr3/58620689-58620809
UAAAGAGUGAAAAAUUAAUUCCAUUAUCCAGCUGUUACUGCUGUGAGGUGCCCAAAUAUCCAGAUGUUUCUAAACAUCUGGAUAUUUGACAGCAUGUUUCAAACUACACAUCCAGAUGGU
...((..(((((..............((((((.......)))).)).((((.((((((((((((((((....))))))))))))))))...)))).)))))..))...(((....))).. ( -36.20)
>rn3.chr2/61144704-61144824
UAAGGAGUGAAAAAUUAAUUCUGUUAUCCAGCUGUUACCGCUGUGAGGUGACCAAAUAUCCAGAUGUUUCUAAACAUCUGGAUAUUUGACAGCAUGUUUCAAACUACACAUCCAGAUGGU
...((((((......((((.(((.....)))..))))..(((((..(....)((((((((((((((((....))))))))))))))))))))).............))).)))....... ( -39.20)
>canFam1.chr17/56156325-56156206
UACAAAGGGAAACAUGAAUUCCAUUAUCCAGCUGUUGUUGCUGCUGGUUGCCAAAAUACCCAGAUGUUCCCAAACAUCUGGGUACUUGACAGCAUGUUUUUACCAUAUACCCAGAUGCU
......((((((((((...........(((((.((....)).)))))(((.(((..((((((((((((....)))))))))))).))).)))))))))))..))............... ( -37.40)
>consensus
UAAAAAGUGAAAAAUUAAUUCCAUUAUCCAGCUGUUACUGCUGUGAGGUGCCAAAAUACCCAGAUGUUUCCAAACAUCUGGAUAUUUGACAGCAUGUUUCAA_CUACACAUCCAGAUGGU
........................((((((((.......))))....((((.((((((((((((((((....))))))))))))))))...))))...................)))).. (-25.12 = -26.25 +   1.12) 

	

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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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