Structure #155577

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr5
Strand	+
Position	170,629,369 - 170,629,489
Number of sequences	4
Organisms	human, dog, mouse, rat, chicken
Mean pairwise identity	92.78
Columns	120
Mean single MFE	-31.98
Consensus MFE	-28.92
Combinations/base pair	38 / 36 = 1.06
SCI	0.9
z-score	-2.51
RNA class probability	0.985892

This structure is part of cluster 86084

Alignment

[Download Clustal]

RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  92.78
 Mean single sequence MFE: -31.98
 Consensus MFE: -28.92
 Energy contribution: -29.05
 Covariance contribution:   0.13
 Mean z-score:  -2.51
 Structure conservation index:   0.90
 SVM decision value:   2.02
 SVM RNA-class probability: 0.985892
 Prediction: RNA

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

>hg17.chr5/170629369-170629489
UUGCUGCUUUAUAACUUGAGGUUUCAGUUUUCAAGGCAUCUGUGUCGGUUAAGUAAUGCCUAACCCUAUUAAAAGGAAUGGAUUACAAAUUGCUUAACAGUGCUGAAAAACUAGACCCUA
...................(((((.((((((...((((.((((...(((...(((((.((....(((......)))...))))))).....)))..))))))))..)))))))))))... ( -27.30)
>canFam1.chr4/47311379-47311259
UGGCUGCUUUAUAACUCGAGGUUUCAGUUUUCAAGGCAUCUGUUUCGGUUAAGUAAUGCCUAACCCUAUUAAAAGAAAUGGGUUACAAAUUGCUUAACAGUGCUGAAAAACUAGACCCUA
...................(((((.((((((...(((((........((((((((((...((((((.(((......)))))))))...)))))))))).)))))..)))))))))))... ( -31.30)
>mm5.chr11/88513229-88513111
UUGCUGCUUCAUAACUGAGGUCUCAGUUUUCAAGGCAUCUGUGUCAUUAAGUAAUGCCUAACCCUAUUAAAAGGAAUGGGUUACAAAUUGCUUAACAGUGCUGAAAAACUAGACCCUA
..................(((((.((((((...((((.((((.....((((((((...((((((.(((......)))))))))...))))))))))))))))..)))))))))))... ( -34.30)
>galGal2.chr13/6218759-6218879
UUGCUGCUUCGUAACCAGCGGUUUCGGUUUUCAAGACAUCUGUGUCGGUUAAGUAAUGCAUAACCCUAUUAAAAGCAAUGGGUUACAAAUUGCUUAACAGUGCUGAAAAACUAGACCCUA
..((((.........))))(((((.(.((((((.((((....)))).((((((((((...((((((.............))))))...)))))))))).....)))))).).)))))... ( -35.02)
>consensus
UUGCUGCUUCAUAACUUGAGGUUUCAGUUUUCAAGGCAUCUGUGUCGGUUAAGUAAUGCCUAACCCUAUUAAAAGGAAUGGGUUACAAAUUGCUUAACAGUGCUGAAAAACUAGACCCUA
...................(((((.((((((...((((.((((......((((((((...((((((.(((......)))))))))...))))))))))))))))..)))))))))))... (-28.92 = -29.05 +   0.13) 

	

[Download RNAz result]

Consensus structure

Secondary structure graph

[PS | PDF]

Montain plot

[PS | PDF]

Dotplot

[PS | PDF]