Structure #167098

Summary

Genome/Assembly hg17
Chromosome/Contig chr7
Strand +
Position 12,673,969 - 12,674,073
Number of sequences 5
Organisms human, mouse, rat, dog, chicken
Mean pairwise identity 74
Columns 120
Mean single MFE -35.9
Consensus MFE -23.78
Combinations/base pair 37 / 26 = 1.42
SCI 0.66
z-score -2.4
RNA class probability 0.99671

This structure is part of cluster 92734

Alignment

Alignment

[Download Clustal]

RNAz output

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

 Sequences: 5
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  74.00
 Mean single sequence MFE: -35.90
 Consensus MFE: -23.78
 Energy contribution: -23.14
 Covariance contribution:  -0.64
 Mean z-score:  -2.40
 Structure conservation index:   0.66
 SVM decision value:   2.74
 SVM RNA-class probability: 0.996710
 Prediction: RNA

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

>hg17.chr7/12673969-12674073
GUUUUAUCAGUUGCCAAGUCAUGGUCACCUGUGGCUCUGUCUUGGCAGCUAUGUGUUUAACAGGCCAGACAUUAUGUUCACAGGAAGGGCCUCCUGAAGCAUAA
........((((((((((.((.(((((....))))).)).)))))))))).(((((((...(((((...(....((....)).)...)))))....))))))). ( -38.70)
>mm5.chr12/80130927-80130823
GUUUUAUCACUUGCCAAGUCGUGGCCACCUGUGGCUCUGCCUUGGCAGCUCUGCACUCAGCAGGCCAGACAUUAGGCUCACAGGAAAAGCCUCCUGAAGCGGAG
..........((((((((.((.(((((....))))).)).))))))))((((((........((((........))))..(((((......)))))..)))))) ( -40.80)
>rn3.chr6/88576313-88576208
GUUUUAUCACUUGCCAAGUCAUGGCCACCUGUGGCUCUGCCUUGGCAGCUCUGCACUCAGCAGGCCAGACAAAAUGCUCACAAGGAAGAGCCUCCUGAAGCAGAG
..........((((((((.((.(((((....))))).)).))))))))((((((..((((.(((((.....................).)))).)))).)))))) ( -38.70)
>canFam1.chr14/30211688-30211792
GUUUUAUCACUUGCCAAGUCAUGGCCACCUGUGGCUCUGUUUUGGCAGCUCUGUAUUUAACAGACCAGACAUUCUGUUCACAGGAAGGGCCUCCUGAAGCCUAA
((((.......(((((((.((.(((((....))))).)).)))))))(.(((((.....))))).))))).(((((....))))).((((........)))).. ( -33.20)
>galGal2.chr2/26173403-26173522
GUUUGGUUGCUGGCCAAGUGUUCUUCACCUGUGGAUCAGACUUGGCAGCCCUUUUGUUACUCAGCCAGAUAUUUUGUUCACAGUAUUAUUUCCCUUUGAGAAACCAUCCCAAAAUGCAG
(..(((((((((.((((((.(..((((....))))..).))))))))))..........(((((..(((((..(((....)))...)))))....))))).)))))..).......... ( -28.10)
>consensus
GUUUUAUCACUUGCCAAGUCAUGGCCACCUGUGGCUCUGCCUUGGCAGCUCUGUACUUAACAGGCCAGACAUUAUGUUCAC_AGGA_______________AGAGCCUCCUGAAGCAGAG
((((((.....(((((((.((.(((((....))))).)).)))))))(.(((((.....))))).)............................................)))))).... (-23.78 = -23.14 +  -0.64) 

	

[Download RNAz result]

Consensus structure

Secondary structure graph

Secondary structure

[PS | PDF]

Montain plot

Secondary structure

[PS | PDF]

Dotplot

Secondary structure

[PS | PDF]