Structure #192496

Summary

Genome/Assembly hg17
Chromosome/Contig chr9
Strand +
Position 125,537,083 - 125,537,186
Number of sequences 5
Organisms human, dog, mouse, rat, chicken, zebrafish
Mean pairwise identity 77.8
Columns 118
Mean single MFE -18.61
Consensus MFE -9.02
Combinations/base pair 18 / 17 = 1.06
SCI 0.48
z-score -2.06
RNA class probability 0.807773

This structure is part of cluster 107113

Alignment

Alignment

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RNAz output

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

 Sequences: 5
 Slice: 1 to 118
 Columns: 118
 Strand: +
 Mean pairwise identity:  77.80
 Mean single sequence MFE: -18.61
 Consensus MFE:  -9.02
 Energy contribution:  -9.86
 Covariance contribution:   0.84
 Mean z-score:  -2.06
 Structure conservation index:   0.48
 SVM decision value:   0.64
 SVM RNA-class probability: 0.807773
 Prediction: RNA

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>hg17.chr9/125537083-125537186
UUAUAAAUUAGAGCAGACAAAUCUGUAUCUCACCCCACGCCGGUAAAGAGCAUUCUAUCAAUAUAGUGAAAUGCUAAUCUCCUAAUUAACAACCUAAUUAGGU
.........((((((((....))))).))).(((.......)))....((((((((((....))))...)))))).....((((((((......)))))))). ( -17.80)
>canFam1.chr9/3624259-3624156
UUAUAAAUUAGGGCAGACAAAUCUGUAUCUAGCCCCACGCCGGUAAAGAGCAUUCUAUCAAUACAGUGAAAUGCUAAUCUCCUAAUUAACAACCUAAUUAGGU
.....((((((((((((....)))))...((((..(((....(((..((........))..))).)))....))))....)))))))....((((....)))) ( -20.20)
>mm5.chr2/147310264-147310161
UUAUAAAUUAGGGCAGACAAAUCUGUAUCUAGCCCCACACCAGUAAAGAGCAUUCUAUCAAUAUAGUGAAAUGCUAAUCUCCUAAUUAACAACCUAAUUAGGU
..........(((((((((....))..))).)))).............((((((((((....))))...)))))).....((((((((......)))))))). ( -19.60)
>galGal2.chr17/9903183-9903080
UUAUAAAUUAGGGCAGACAAAUCCGUAACUAGAAUCACGCCUGCAAAGAGCAUUCUAUCAAUAUAGUGAAAUGCUAAUCUCCUAAUUAACAACCUAAUUAGGU
.....(((((((((((........................))))....((((((((((....))))...)))))).....)))))))....((((....)))) ( -17.96)
>danRer1.chrNA/317845591-317845702
UUUUAAAGCAACACACUGGUAACUUACUCCACUGGAACUCCACUCCACCCCUCACUAAACAAGCCACUCUAUCAGUAAAUGCUAAUCUCCUAAUUAACAAGCUAAUUAGGU
......((((....(((((((...........((((.......)))).......((.....))......)))))))...)))).....((((((((......)))))))). ( -17.50)
>consensus
UUAUAAAUUAGGGCA__GACA_____________AAUCUGUAUCUAGCCCCACGCCAGUAAAGAGCAUUCUAUCAAUAUAGUGAAAUGCUAAUCUCCUAAUUAACAACCUAAUUAGGU
...............................................................((((((.(((.......))).)))))).....((((((((......)))))))). ( -9.02 =  -9.86 +   0.84) 

	

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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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