Structure #176455

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr8
Strand	-
Position	10,576,103 - 10,576,217
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	78.49
Columns	120
Mean single MFE	-43.78
Consensus MFE	-24.66
Combinations/base pair	29 / 25 = 1.16
SCI	0.56
z-score	-2.94
RNA class probability	0.992167

This structure is part of cluster 98003

Alignment

[Download Clustal]

RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
€?x
 Mean pairwise identity:  78.49
 Mean single sequence MFE: -43.77
 Consensus MFE: -24.66
 Energy contribution: -26.73
 Covariance contribution:   2.06
 Mean z-score:  -2.94
 Structure conservation index:   0.56
 SVM decision value:   2.31
 SVM RNA-class probability: 0.992167
 Prediction: RNA

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

>hg17.chr8/10576217-10576103
AGGCUGGCCAAGAAGGCACAAGGAAAGGACUCCUUCUUCUGGCCUGGUGUGGAGAGCAGAACGUCCUGGAGAGGCGUUUGCCAGGCCAGAGCCAGCUGAAGCUUUUGAAGAAAG
.(((((((..((((((....((.......))))))))(((((((((((((.....)).(((((.(((....))))))))))))))))))))))))))................. ( -48.20)
>mm5.chr14/61106735-61106850
AGGCUGGCCCAAGAAGGUGCCAAGUACAGACCUCUUUCUUCUGGCCUGGAAUCGAGGCCAGAAGAUCCUGGGAGCCCUCUGCCAGGAUGGAAUCAGCUUAUGCUUUUGAAUAAAG
..((((((((.....)).))).))).((((((....(((((((((((.(...).)))))))))))((((((.((....)).)))))).))....(((....)))))))....... ( -44.70)
>rn3.chr15/66510626-66510741
AGGCUGGUCCAAGAAGGUGCCAAGUACAGACCUCUUUCUUCUGGCCUGGAAUCGAGGCCAGGAGAUCCUGGGAGCCCUUUGCCAGGAUGGAAUCAGCUUAUGCUUUUGAAUAAAG
((((((((((((((.(((...........)))))).(((((((((((.(...).)))))))))))((((((.((....)).))))))))).))))))))................ ( -44.30)
>canFam1.chr25/24163078-24163191
AGACUGGCAGAAGGGGUGAGGUCGACAGGACUCUCAUCUGGCCUGGGGUUGAGACCAGAAUAUCCUGGUGAACCAUUUGCCAGGACAGAAUCAGCUUAUGUUUUUGAAUAAAG
...((((((((..((((((((((.....))).))))))).......((((...(((((......))))).)))).))))))))..(((((.((.....)).)))))....... ( -37.90)
>consensus
AGGCUGGCC_AAGAAGGUGC_AAGG___ACAGAACUCUUUCUUCUGGCCUGGAAUCGAGACCAGAAGAUCCUGG_GAGCCCUUUGCCAGGACAGAAUCAGCUUAUGCUUUUGAAUAA_AG
((((((((...............................(((((((((((.......)))))))))))((((((...........))))))....))))))))................. (-24.66 = -26.73 +   2.06)

[Download RNAz result]

Consensus structure

Secondary structure graph

Secondary structure

[PS | PDF]

Montain plot

Secondary structure

[PS | PDF]

Dotplot

Secondary structure

[PS | PDF]