Structure #144743

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr5
Strand	+
Position	32,415,219 - 32,415,334
Number of sequences	6
Organisms	human, mouse, rat, dog, chicken, fugu, zebrafish
Mean pairwise identity	69.15
Columns	119
Mean single MFE	-28.78
Consensus MFE	-7.19
Combinations/base pair	21 / 16 = 1.31
SCI	0.25
z-score	-2.57
RNA class probability	0.937052

This structure is part of cluster 80020

Alignment

[Download Clustal]

RNAz output

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

 Sequences: 6
 Slice: 1 to 119
 Columns: 119
 Strand: +
 Mean pairwise identity:  69.15
 Mean single sequence MFE: -28.78
 Consensus MFE:  -7.19
 Energy contribution:  -7.42
 Covariance contribution:   0.23
 Mean z-score:  -2.57
 Structure conservation index:   0.25
 SVM decision value:   1.26
 SVM RNA-class probability: 0.937052
 Prediction: RNA

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

>hg17.chr5/32415219-32415334
CAUUUACAGCAGUAUUUUAUGCCAGGGUUAGUAUUUAAAAGCUGGUAUUUAGGUCAAAGUAAACAGAUUAUACAAGAAUAAUAUUUCUUGAUCCCCUGUGAACCUUGACCUGUGU
........(((.......(((((((..((........))..))))))).((((((((.((..((((...((.((((((......))))))))...))))..)).))))))))))) ( -28.70)
>mm5.chr15/92056263-92056148
CAUUUACAGCAAUAUUUUAUGCCAGAGUUAGUAUUUAAAAGCUAGUAUUUAGGUCAAAGUAAACAGAUUAUACAAGAAUAAUAUUUCUUGAUCCCCUGUGAACCUUGACCUAUGU
....((((((........((((........))))......))).)))..((((((((.((..((((...((.((((((......))))))))...))))..)).))))))))... ( -25.24)
>rn3.chr2/196661640-196661525
CAUUUACAGCAGUAUUUUAUGCCAGAGUUAGUAUUUAAAAGCUAGUAUUUAGGUCAAAGUAAACAGAUUAUACAAGAAUAAUAUUUCUUGAUCCCCUGUGAACCUUGACCUGUGU
....(((.(((........)))......((((........)))))))..((((((((.((..((((...((.((((((......))))))))...))))..)).))))))))... ( -25.60)
>galGal2.chrZ_random/9014001-9014112
CAUUUACAGCAGUAUUUUAUACAGGGUUAGUAAUUUAAGGUGGUAGAAGUCAAAGUGCCCAGGUUAUACAAGAAUAACAUUUCUUGAUCCCCUGUACACUUUGACCCAUGU
..(((((.((..((..((((.........))))..))..)).))))).(((((((((..((((..((.((((((......))))))))..))))..)))))))))...... ( -32.60)
>fr1.chrUn/60595505-60595614
CAUUCCCAGUAGGCUCGUGCCUCACAGUUAGUAAAACGGGAGUUCAAAGUUUGCAAGAUGCACAAGGAAGCAGAAGCUUUCUUGCCAUCUUCUAAACCCUGACCCCGGG
....(((.((((((....)))).))............(((.((.((..(((((.((((((..(((((((((....))))))))).)))))).)))))..)))))))))) ( -40.00)
>danRer1.chr5/21624733-21624835
CAUUUCCAGCAGUAUUUUACCUCACCAUUAGUACAAGAGUUCAAAGUUUGCAAGAUUCACUCGGAAUGGCUCCUUUGUAACCUUGUAAACCCUGACCUCAGU
...........(((((.............)))))..(((.(((..(((((((((.((.((..(((.....)))...)))).)))))))))..))).)))... ( -20.52)
>consensus
CAUUUACAGCAGUAUUUUAUGCCAGAGUUAGUAUUUAAAAGCUAGUAU_UAGGUCAAAGUAAACAGAUUAUACAAGA____AUAAUAUUUCUUGAUCCCCUGUAAACCUUGACCUAUGU
....................................................(((((.((..((((......(((((............))))).....))))..)).)))))...... ( -7.19 =  -7.42 +   0.23)

[Download RNAz result]

Consensus structure

Secondary structure graph

Secondary structure

[PS | PDF]

Montain plot

Secondary structure

[PS | PDF]

Dotplot

Secondary structure

[PS | PDF]