Structure #140507

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr4
Strand	+
Position	135,577,206 - 135,577,326
Number of sequences	4
Organisms	human, dog, mouse, rat
Mean pairwise identity	83.89
Columns	120
Mean single MFE	-26.85
Consensus MFE	-17.5
Combinations/base pair	37 / 31 = 1.19
SCI	0.65
z-score	-3.28
RNA class probability	0.985379

This structure is part of cluster 77493

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  83.89
 Mean single sequence MFE: -26.85
 Consensus MFE: -17.50
 Energy contribution: -20.75
 Covariance contribution:   3.25
 Mean z-score:  -3.28
 Structure conservation index:   0.65
 SVM decision value:   2.00
 SVM RNA-class probability: 0.985379
 Prediction: RNA

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>hg17.chr4/135577206-135577326
UUCACACCUUGUGCAUUAAAUGGAGCUCAGUAUGAUCUUAUGUCUACCCAUGCAAAGGAUGUGAAUUAUUACAUCAUCAUUCACAUCCUGUUGUGUUGUGCUUCUUAAAUAUCAUCUUUU
..(((.....)))........(((((.(((((.(((.....))))))..(((((((((((((((((.((......)).))))))))))).)))))))).)))))................ ( -27.20)
>canFam1.chr19/46120525-46120405
UUCACACCUUGUGCAUUAAAUGAAGCUCAGUACAGUCUUACAUCUAACAAUGCAAAGGGUAUGAAUUAUUACAUCAUAAUUCACAUCCUGUUGUGUUGUGCUUCUUAAAUAUCAUCUUUU
..(((.....)))........(((((...(((......))).....((((((((((((((.((((((((......)))))))).))))).))))))))))))))................ ( -28.30)
>mm5.chr3/46524407-46524527
UCAACACCUCCUGCACUAAAUAGUGCUCUGUACAGCCUUAUAUCUAACAAUGCAAUGGGUGUGAAUUAUUACAUCAUAAUUCAUACCCUGUUGUGCUAUGUUUCUUAAAAAUCAUCAUUU
..((((......(((((....)))))...(((((((....(((......)))....(((((((((((((......))))))))))))).)))))))..)))).................. ( -29.10)
>rn3.chr2/134205788-134205908
UCAACACCUUGUGCACUAAAUAGUGCUCAGUACAGCCUUACAUUUAACAAUGCAAUGGGUGUGAAUUAUUACAUCAUAUUUCAUACCGUGAUUUCUUAUGUUUCUUAAAAAUCAUCAUUU
........(((.(((((....))))).))).......................((((((((((((.(((......))).))))))))(((((((.(((.......)))))))))))))). ( -22.80)
>consensus
UCAACACCUUGUGCACUAAAUAGAGCUCAGUACAGCCUUACAUCUAACAAUGCAAAGGGUGUGAAUUAUUACAUCAUAAUUCACACCCUGUUGUGUUAUGCUUCUUAAAAAUCAUCAUUU
........(((.(((((....))))).)))................(((((((((((((((((((((((......)))))))))))))).)))))))))..................... (-17.50 = -20.75 +   3.25)

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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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