Locus 3538

Sequence ID X_DroMel_CAF1
Location 9,485,892 – 9,485,985
Length 93
Max. P 0.584188
window5794

overview

Window 4

Location 9,485,892 – 9,485,985
Length 93
Sequences 5
Columns 100
Reading direction forward
Mean pairwise identity 89.11
Mean single sequence MFE -15.50
Consensus MFE -15.10
Energy contribution -15.10
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.17
Structure conservation index 0.97
SVM decision value 0.10
SVM RNA-class probability 0.584188
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9485892 93 + 22224390
AAAAAGAGCGCGCUUUAAAGCUUUGCUCUCUACGUGCUCUCU------CUCUCA-CACCAGGUUUAUGCCAUAAAUUUCAUGAAUUAUUAAAUAUCAACA
....((((((((......(((...))).....))))))))..------......-.....(((....))).............................. ( -15.10)
>DroSec_CAF1 29033 93 + 1
AAAAAGAGCGCGCUUUAAAGCUUUGCUCUCUACGUGCUCUCU------CUCUCA-CACAAGGUUUAUGCCAUAAAUUUCAUGAAUUAUUAAAUAUCAACA
....((((((((......(((...))).....))))))))..------......-.....(((....))).............................. ( -15.10)
>DroSim_CAF1 28950 99 + 1
AAAAAGAGCGCGCUUUAAAGCUUUGCUCUCUACGUGCUCUCUCUAUAUCUCUCA-CACCAGGUUUAUGCCAUAAAUUUCAUGAAUUAUUAAAUAUCAACA
....((((((((......(((...))).....))))))))..............-.....(((....))).............................. ( -15.10)
>DroEre_CAF1 29136 95 + 1
AAAAAGAGCGCGCUUUUAAGCU-UGCUCUCUCCGUGCUCUCUUC----CUCGCCAUGCCAGGUUUAUGCCAUAAAUUACAUGAAUUAUUGAAUAUCAAGA
....((((((.(((....))).-))))))....(.((......(----((.((...)).))).....))).................(((.....))).. ( -15.70)
>DroYak_CAF1 29308 93 + 1
AAAAAGAGCGCGCUUUAAAGCUUUGCUCUCUCCGUGCUCUCU------CUCACC-UACCAGGUUUAUGCCAUCAAUUUCUUGAAUUAUUGAAUACUAACA
....((((((((......(((...))).....))))))))..------......-.....(((....))).(((((..........)))))......... ( -16.50)
>consensus
AAAAAGAGCGCGCUUUAAAGCUUUGCUCUCUACGUGCUCUCU______CUCUCA_CACCAGGUUUAUGCCAUAAAUUUCAUGAAUUAUUAAAUAUCAACA
....((((((((......(((...))).....))))))))....................(((....))).............................. (-15.10 = -15.10 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:01:55 2006