Structure #32874

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr11
Strand	+
Position	2,107,747 - 2,107,863
Number of sequences	4
Organisms	human, dog, mouse, rat
Mean pairwise identity	76.59
Columns	120
Mean single MFE	-53.82
Consensus MFE	-39.49
Combinations/base pair	35 / 29 = 1.21
SCI	0.73
z-score	-4.67
RNA class probability	0.999954

This structure is part of cluster 15949

Alignment

[Download Clustal]

RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  76.59
 Mean single sequence MFE: -53.83
 Consensus MFE: -39.49
 Energy contribution: -41.05
 Covariance contribution:   1.56
 Mean z-score:  -4.67
 Structure conservation index:   0.73
 SVM decision value:   4.83
 SVM RNA-class probability: 0.999954
 Prediction: RNA

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

>hg17.chr11/2107747-2107863
CAGCUCUCCUGCUCUGUGGGCUCAGACCCGCCUGACCUCCCUACUCCCCGGCCUCACCCCACCUUGCCCCCAAGAGGUCCCACAGAGCUUCGGACCUCCUGGAGACAAGGCAGGGU
.(((......)))..(((((.((((......))))....)))))...........((((..(((((.(.(((.(((((((...........))))))).))).).)))))..)))) ( -40.10)
>canFam1.chr18/56651064-56651182
CAGCUCUCCUGCUCUGCAGGGCCUGCAUCCUCCUGACCUCCCCUACUCCCCGACCUCACCCUGCCUGGGCCCCAGGAUGCCCCGUGGAGCUCUGAGCCUCCUGGGGACAAGACAGGGU
..((..((((((...))))))...))...............................((((((.((...((((((((.((....(((....))).)).))))))))...)).)))))) ( -41.20)
>mm5.chr7/0-116
CAGUUCUCCUGGCUCUGUAGGCUUUAAGCCUCCUAGCUUCCCCAACUCCGGGCCUCACCCCACCUUGCCCCCAGGAGGUCUGUAGAGCUCCAGACCUCCUGGGGGCAAGGUGGGGU
(((.....)))(((..(.((((.....)))).).)))...(((......)))....((((((((((((((((((((((((((........)))))))))))))))))))))))))) ( -73.40)
>rn3.chr1/0-117
CAGUUCUCCUGGCUCUGAAGGCUUUAAAGCCUCCUCGCUUCCCCAGCUCCAGGCCUCACCCCACCUUGCCCCCAGGAGGUCUGUAGAGCUCCAGACCUCCUGAGGGUAAGAUGGGGU
..........(((.(((.(((((....)))))....(((.....)))..))))))..((((((.(((((((.(((((((((((........))))))))))).))))))).)))))) ( -60.60)
>consensus
CAGCUCUCCU_GCUCUGU_AGGC_UUAAAGCCUCCUGACCUCCCC_ACCCCCCGGCCUCACCCCACCUUGCCCCCAGGAGGU_CCGUAGAGCUCCAGACCUCCUGGGGACAAGACAGGGU
...........(((......)))....................................(((((((((((((((((((((((.(((........)))))))))))))))))))))))))) (-39.49 = -41.05 +   1.56)

[Download RNAz result]

Consensus structure

Secondary structure graph

Secondary structure

[PS | PDF]

Montain plot

Secondary structure

[PS | PDF]

Dotplot

Secondary structure

[PS | PDF]