Structure #178909

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr8
Strand	-
Position	60,104,238 - 60,104,357
Number of sequences	5
Organisms	human, dog, mouse, rat, chicken
Mean pairwise identity	68.94
Columns	120
Mean single MFE	-32.7
Consensus MFE	-9.16
Combinations/base pair	33 / 22 = 1.50
SCI	0.28
z-score	-2.55
RNA class probability	0.98988

This structure is part of cluster 99450

Alignment

[Download Clustal]

RNAz output

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

 Sequences: 5
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  68.94
 Mean single sequence MFE: -32.70
 Consensus MFE:  -9.16
 Energy contribution: -10.00
 Covariance contribution:   0.84
 Mean z-score:  -2.55
 Structure conservation index:   0.28
 SVM decision value:   2.19
 SVM RNA-class probability: 0.989880
 Prediction: RNA

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

>hg17.chr8/60104357-60104238
GUCAUGGGGAUGGGGGGUGGGUGGGGACUAUAUCUAUAUUCCAUCUAACUAAAAAUGAAUAAAUGAGAGUGUAUAGGAAAAGAAAUAGACUGAAGUCAUUUUUGCCCUUAGGAAUUAUA
.((((..((((((((.(((((((....)...)))))).))))))))........))))....((((...(.((..((...((((((.(((....))))))))).))..)).)..)))). ( -25.40)
>canFam1.chr29/12765267-12765151
GUCAUGGGGGUGGCGGGUGGGGACUAUCUGGAUAUUCCAUCGAACUACGAAUGAAAUAGACGAGAGUGUAUAGGAAAAGAAAUAGACUGAAGUCAUUUUUGCCCUUAGGAAACAUA
....(((((((..((((((....).)))))....((((.(((.....))).....(((.((....)).))).)))).((((((.(((....))))))))))))))))(....)... ( -30.20)
>mm5.chr4/6840185-6840068
GUCAUGGAGGUGAGGGGGAGGGCGGGACUCGAUCUAUAUUCCAUCUUAGCAAAGAUGAAUAUAUGAGAGUUUUGGAGAAGAGAAUGGCAGAAGUCGUUCUUGUCCUCAGGAAUUGGA
.((((....))))....(((((((((((((....(((((((.(((((....))))))))))))...)))))))......(((((((((....))))))))))))))).......... ( -36.60)
>rn3.chr5/20521942-20521826
GUCACGGAGGUGAGGGGGAGGGUGGGACUCGAUCUAUAUUCCAUCUCACCGACGAGGAACAUAUGAGAGUUUUGGGAAGGAAAUGGCGGAAGUCAUUCUUGUCCGCAGGAACUGGA
.((.((..((((((..((((.(((((......))))).))))..))))))..))..)).........(((((((((((((((.((((....))))))))).))).)).)))))... ( -40.90)
>galGal2.chr2/225-118
GCCAAAGGGAGAAAGAGCUAUAUCUAUAUUCCAUCUAACUUAAAAUGAGUAGAUGGGAGUGCAGAGAAAAAAGUAGACUGAAGUCAUUUUCACCCUUAGGAGUUAUA
.((.(((((.(((((.(((...(((.(((((((((((.(((.....)))))))).)))))).)))......))).(((....))).))))).))))).))....... ( -30.40)
>consensus
GUCAUGGGGGUGAGGGGGAGGGGGGGACUAUAUCUAUAUUCCAUCUAACUAAAAAUGAA_UAGAUGAGAGUGUA__GGAAAAGAAAUAGACUGAAGUCAUUUUUGCCCUUAGGAAUUAUA
......((((((.(((...((......))...))).))))))..................................(((.(((((...(((....))).))))).)))............ ( -9.16 = -10.00 +   0.84)

[Download RNAz result]

Consensus structure

Secondary structure graph

Secondary structure

[PS | PDF]

Montain plot

Secondary structure

[PS | PDF]

Dotplot

Secondary structure

[PS | PDF]