Structure #155094

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr5
Strand	+
Position	168,127,734 - 168,127,850
Number of sequences	5
Organisms	human, dog, mouse, rat, chicken, fugu
Mean pairwise identity	77.21
Columns	120
Mean single MFE	-42.47
Consensus MFE	-34.32
Combinations/base pair	31 / 27 = 1.15
SCI	0.81
z-score	-2.47
RNA class probability	0.99558

This structure is part of cluster 85871

Alignment

[Download Clustal]

RNAz output

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

 Sequences: 5
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  77.21
 Mean single sequence MFE: -42.47
 Consensus MFE: -34.32
 Energy contribution: -35.08
 Covariance contribution:   0.76
 Mean z-score:  -2.47
 Structure conservation index:   0.81
 SVM decision value:   2.59
 SVM RNA-class probability: 0.995580
 Prediction: RNA

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

>hg17.chr5/168127734-168127850
AGAGCACGGUGCUUUCCGCGGUGCUUGACAGAACCAUGUUCCGUUUCCAUCGUUCCACCACAUGGUUAGAUCAAGCACAAAGGAAAGCCCCGCAGCGACUGGUCAGAGUCAAGGUC
...((.(((.(((((((...((((((((...((((((((....................))))))))...))))))))...))))))).)))..))((((......))))...... ( -45.25)
>canFam1.chr4/45152459-45152343
AGAGCGCGGUGCUUUCCGCGGUGCUUGACAGAACCAUGUUCCGUUUCCAUCGUUCCACCACAUGGUUAGAUCAAGCACAAAGGAAAGCCCCGCGGCGACUGGUCAGAGUCAAGGUC
....(((((.(((((((...((((((((...((((((((....................))))))))...))))))))...))))))).)))))..((((......))))...... ( -49.35)
>mm5.chr11/86351126-86351010
AGAGAGCGAUGCUUUCCGCGGUGCUUGACAGAACCAUGUUCCGUUUCCAUCGUUCCACCACAUGGUUAGAUCAAGCACAAAGGAAAGCCCCGCGGCAACUGGUCAGAGUCAAGGUC
...(((((..(((((((...((((((((...((((((((....................))))))))...))))))))...)))))))..)))(((.....)))....))...... ( -41.45)
>galGal2.chr13/4990679-4990792
GAGUAUGCAGCCUUCCAUGGUGCUUGACAGAACCAUGUUCAAUUUGUAUUGUUCUACCACAUGGUUAGAUCAAGCACAAAGGAAAACCCCAUGGACAGCCAGAGUCAGAGUU
((.(.((..((..((((((((((((((...((((((((.((((....)))).......))))))))...))))))))...((.....))))))))..)))).).))...... ( -34.60)
>fr1.chrUn/115040994-115041112
UGUGUGCUCAGCGGUCCCUGGCGCUUGACGGAACCAUGUGAUGUCACAAUAGGCGGGGCCACAUGGUUAGAUCAAGCACAAGAGACAGCCGCGCGAGCCAAUCAGAAUGCAGGUCCAC
..((.((((.(((((.(((.(.((((((...(((((((((.((((......))))....)))))))))...)))))).).)).)...)))))..)))))).................. ( -41.70)
>consensus
AGAGCGCGCUGCUUUCCGCGGUGCUUGACAGAACCAUGUUCCGUUUCCAUC_GUUCCACCACAUGGUUAGAUCAAGCACAAAGGAAAGCCCCGCGGCAACUGGUCAGAGUCAAGGUC___
.....((((.(((((((...((((((((...((((((((.....................))))))))...))))))))...))))))).)))).......................... (-34.32 = -35.08 +   0.76) 

	

[Download RNAz result]

Consensus structure

Secondary structure graph

[PS | PDF]

Montain plot

[PS | PDF]

Dotplot

[PS | PDF]