Structure #170

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr21
Strand	+
Position	15,807,374 - 15,807,467
Number of sequences	4
Organisms	human, dog, mouse, rat
Mean pairwise identity	89.61
Columns	93
Mean single MFE	-22.38
Consensus MFE	-19.91
Combinations/base pair	31 / 27 = 1.15
SCI	0.89
z-score	-2.14
RNA class probability	0.964216

This structure is part of cluster 63684

Alignment

[Download Clustal]

RNAz output

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

 Sequences: 4
 Slice: 1 to 93
 Columns: 93
 Strand: +
 Mean pairwise identity:  89.61
 Mean single sequence MFE: -22.38
 Consensus MFE: -19.91
 Energy contribution: -20.10
 Covariance contribution:   0.19
 Mean z-score:  -2.14
 Structure conservation index:   0.89
 SVM decision value:   1.56
 SVM RNA-class probability: 0.964216
 Prediction: RNA

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

>hg17.chr21/15807374-15807467
AGCAGCCAGGAAAAUCUGGCUUGGACUGGGACAAGACUAAUGCACUAAUACUUAUUUAUGAAAGCAUCAUAUAUUCUGCUCUUCCGUGAAUUA
.((((((((......)))))).(((..(((...(((.((((((....(((......)))....))))....)).))).))).)))))...... ( -18.20)
>canFam1.chr31/15350772-15350865
AGCAGCCAGGAAAAUCUGGCUUGGGCUGGAAGAAGACUAAUGUACUAAUAUUUAUUUAUGAAAGCAUCAUAUAUUCUGCUCUUCCAGGAACUA
...((((((......))))))....((((((((((((....)).))..........(((((.....)))))........))))))))...... ( -23.00)
>mm5.chr16/77189132-77189225
UGGAGCCAGAAAAAUCUAGCUAAGGCUGGAAGAAGACUAAUGCACUAAUAUUUAUUUAUGAAAGCAUCAUAUAUUCUGUUCUUCCAGGAAUUA
...(((.(((....))).)))....(((((((((((.((((((....(((......)))....))))....)).)))..))))))))...... ( -19.50)
>rn3.chr11/15624452-15624545
CAGAGCCAGAAAAAUCUGGCUUUGGCUGGAAGAAGACUAAUGCACUAAUAUUUAUUUAUGAAAGCACCAUAUAUUCUGUUCUUCCAGGAAUUA
((((((((((....)))))))))).(((((((((((.((.(((....(((......)))....))).....)).)))..))))))))...... ( -28.80)
>consensus
AGCAGCCAGAAAAAUCUGGCUUGGGCUGGAAGAAGACUAAUGCACUAAUAUUUAUUUAUGAAAGCAUCAUAUAUUCUGCUCUUCCAGGAAUUA
...(((((((....)))))))....(((((((((((.((((((....(((......)))....))))....)).)))..))))))))...... (-19.91 = -20.10 +   0.19) 

	

[Download RNAz result]

Consensus structure

Secondary structure graph

[PS | PDF]

Montain plot

[PS | PDF]

Dotplot

[PS | PDF]