Structure #192510

Summary

Genome/Assembly hg17
Chromosome/Contig chr9
Strand -
Position 125,537,305 - 125,537,409
Number of sequences 5
Organisms human, dog, mouse, rat, chicken
Mean pairwise identity 85.74
Columns 116
Mean single MFE -20.9
Consensus MFE -14.29
Combinations/base pair 22 / 20 = 1.10
SCI 0.68
z-score -1.74
RNA class probability 0.550354

This structure is part of cluster 107113

Alignment

Alignment

[Download Clustal]

RNAz output

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

 Sequences: 5
 Slice: 1 to 116
 Columns: 116
 Strand: +
 Mean pairwise identity:  85.74
 Mean single sequence MFE: -20.90
 Consensus MFE: -14.29
 Energy contribution: -14.81
 Covariance contribution:   0.52
 Mean z-score:  -1.74
 Structure conservation index:   0.68
 SVM decision value:   0.03
 SVM RNA-class probability: 0.550354
 Prediction: RNA

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

>hg17.chr9/125537409-125537305
AUAUUUAAAUUAGGAAAAUAUCAGGCAAGAUGUUUCUUUUGUAAACUACUUCUGUCCAAAGCAUUCUGUAUAUUAUCAGAAUGAAAAAUGACAGCACUUUGUCA
...((((....((((((.((((......))))))))))...))))......(((((.....(((((((........)))))))......))))).......... ( -20.10)
>canFam1.chr9/3624378-3624483
AUAUUUAAAUUAGGAAAAUGCCAGGCAAGAUGUUUCUUUUUGUAAACUGCUUCUGUCCAAAGCAUUCUGUAUAUUAUCAGAAUGAAAAAUGACAGCACUUUGUCA
............(((....((...((((((.......)))))).....)).....)))....(((((((........))))))).....((((((....)))))) ( -20.60)
>mm5.chr2/147310383-147310486
AUAUUUAAAUUAGGAAAAUAGCAGACAACUUGUUUCCUUUGUAAACUGCUCUGUCCAAAGCAUUCUGUGUAUUAUCAGAAUGAAAAAUGACAGCACUUUGUCA
............(((....(((((((((..........))))...)))))...)))....(((((((........))))))).....((((((....)))))) ( -21.20)
>rn3.chr3/157625371-157625474
AUAUUUAAAUUAGGAAAAUAGCAGGCAAGUUGUUUCCUUUGUAAACUGCUUUGUCCAAAGCAUUCUGUGUAUUAUCAGAAUGAAAAAUGACAGCACUUUGUCA
............(((....((((((((((........)))))...)))))...)))....(((((((........))))))).....((((((....)))))) ( -23.80)
>galGal2.chr17/9903302-9903417
AUAUUUAGAUUAGGCAAAAAAAAAAAAAAACCCAGGCAAGAUGCAGCUUUUCUAAACUGUUUCUUUCCAAACCAUUCAGUGCAAUAUCAGAAUGAAAAAUGACAACACUUUGUCA
.(((((.(((...((...................((.((((.((((.((....)).)))).)))).))..((......))))...))).))))).....((((((....)))))) ( -18.80)
>consensus
AUAUUUAAAUUAGG___________AAAAUACCAGGCAAGAUGUUUCUUUU_GUAAACUGCUUCUGUCCAAAGCAUUCUGUGUAUUAUCAGAAUGAAAAAUGACAGCACUUUGUCA
..................................((((((.((....................(((((.....(((((((........)))))))......))))))).)))))). (-14.29 = -14.81 +   0.52) 

	

[Download RNAz result]

Consensus structure

Secondary structure graph

Secondary structure

[PS | PDF]

Montain plot

Secondary structure

[PS | PDF]

Dotplot

Secondary structure

[PS | PDF]