Locus 5004

Sequence ID X_DroMel_CAF1
Location 13,083,468 – 13,083,567
Length 99
Max. P 0.946227
window8151

overview

Window 1

Location 13,083,468 – 13,083,567
Length 99
Sequences 4
Columns 109
Reading direction forward
Mean pairwise identity 87.80
Mean single sequence MFE -38.10
Consensus MFE -29.85
Energy contribution -30.22
Covariance contribution 0.37
Combinations/Pair 1.14
Mean z-score -2.41
Structure conservation index 0.78
SVM decision value 1.36
SVM RNA-class probability 0.946227
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13083468 99 + 22224390
AAGUUGAAGUUGGAGCUGAAG----------UUGUUGCCCCAAGGCGGCGCAAAAGUCUGGGCCUAUUAGUCUGGGUGUUGCGCUCUAAAGUUGCAGCUGGGUUUUACA
.(((((...(((((((.....----------..((((((....))))))((((...((..(((......)))..))..))))))))))).....))))).......... ( -34.10)
>DroSec_CAF1 32582 99 + 1
AAGUUGAAGUUGGCGCUGGAG----------UUGUUGCCCCAAGGCGGCGCAAAAGUCUGGGCCUAUUAGUUUGGGUGUUGCGCUCUAAAGUUGCAGCUGGGUUUUGCG
..((.(((.(..(((((((((----------(.((((((....))))))((((...((..(((......)))..))..)))))))))).....)).))..).))).)). ( -32.70)
>DroEre_CAF1 33321 98 + 1
AAGUUGAAGUUGCAGUUGGAG----------CUGUUGCCCCAAGGCGGCGCAACAGUCUGGGCCUAUUAGUCUGGGUGUUGCGCUCCAAAGUUGCAGCUGGGCUU-ACA
(((((..(((((((.((((((----------(.((((((....))))))((((((.((..(((......)))..)))))))))))))))...))))))).)))))-... ( -48.60)
>DroYak_CAF1 35671 105 + 1
AAGUUGAAGUUGUAGCUGGAGUCGCUUGUUGUUGUUGCCCCAAGGCGGCGCAAAAGUCUGGGCCUAUUAGUCUGGGUGUUGCGCUCUAAAGUUGCAGCUGGGUUU----
.......((((((((((((((.(((...((((.((((((....))))))))))...((..(((......)))..))....)))))))..))))))))))......---- ( -37.00)
>consensus
AAGUUGAAGUUGGAGCUGGAG__________UUGUUGCCCCAAGGCGGCGCAAAAGUCUGGGCCUAUUAGUCUGGGUGUUGCGCUCUAAAGUUGCAGCUGGGUUU_ACA
.......((((((((((((((............((((((....))))))((((...((..(((......)))..))..)))).))))..)))))))))).......... (-29.85 = -30.22 +   0.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:37:57 2006