Structure #142559

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr4
Strand	+
Position	173,327,586 - 173,327,680
Number of sequences	5
Organisms	human, dog, mouse, rat, chicken
Mean pairwise identity	70.38
Columns	108
Mean single MFE	-30.25
Consensus MFE	-18.65
Combinations/base pair	34 / 27 = 1.26
SCI	0.62
z-score	-4.76
RNA class probability	0.9996

This structure is part of cluster 78719

Alignment

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RNAz output

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

 Sequences: 5
 Slice: 1 to 108
 Columns: 108
 Strand: +
 Mean pairwise identity:  70.38
 Mean single sequence MFE: -30.25
 Consensus MFE: -18.65
 Energy contribution: -20.45
 Covariance contribution:   1.80
 Mean z-score:  -4.76
 Structure conservation index:   0.62
 SVM decision value:   3.77
 SVM RNA-class probability: 0.999600
 Prediction: RNA

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

>hg17.chr4/173327586-173327680
CUCAGUGUGAAGAUGAAUCUCAUUUCCUUGAAAUACUGCUCCUGCUGUAUUUCAAGGAAAUGAGAUUCUGUUCAAGCAAGUUGAAAUCUUAAUU
....((.((((.(.((((((((((((((((((((((.((....)).))))))))))))))))))))))).)))).))................. ( -42.10)
>canFam1.chr25/25774128-25774222
CUCAGUGUGAAGAUGAAUAUCAUUUCCUUGAAAUACUGCUUCUACUGUAUUUCAAGGAAAUGAGAUUCUGUUCAAGCAAGUUGAAAUCUUAAUU
....((.((((.(.((((.(((((((((((((((((..........))))))))))))))))).))))).)))).))................. ( -32.00)
>mm5.chr8/94-0
CUCUGUAUGAAGAUGAAUCUCAUUUCCUUGAAGCAUCACUCCUGCUUCAUCUCAAGGAAAUGAGAUACUGCUAAAGCAAGUAGAAAUUUUAAUU
.(((......)))...(((((((((((((((((((.......)))).....))))))))))))))).(((((......)))))........... ( -28.80)
>rn3.chr16/34798715-34798804
CUCUGUAUGAAAAUGAAUCUCAUUUCCUUGAAGAAUCACUUCACUUCAUCCCAAGGAAAUGGGAUUCUGUUAAAGCAAGUAGAAAUAUU
.((((..((.....((((((((((((((((.....................))))))))))))))))........))..))))...... ( -24.62)
>galGal2.chr4/43455950-43456058
CUCAGCAUGAAAUGGAAGCCUGUUUCUCUGGAAUGCUGCUAGUGAGAUAUUACAAGGAGAGCAGAUCUUUUUCUCCCCUCUGCCCCUUAACAGCUUGAAAUCUUUAUU
.((((...(((((((....))))))).))))...((((...((((....))))((((.(.(((((.............))))))))))..)))).............. ( -23.72)
>consensus
CUCAGUAUGAAGAUGAAUCUCAUUUCCUUGAAAUACUGCUCCUGCUGUAUUUCAAGGAAAUGAGAUUCUGUUC______________AAGCAAGUUGAAAUCUUAAUU
.((((..((.....(((((((((((((((((((((............)))))))))))))))))))))......................))..)))).......... (-18.65 = -20.45 +   1.80)

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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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