Locus 3919

Sequence ID X_DroMel_CAF1
Location 10,477,357 – 10,477,474
Length 117
Max. P 0.500000
window6432

overview

Window 2

Location 10,477,357 – 10,477,474
Length 117
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 89.54
Mean single sequence MFE -31.54
Consensus MFE -22.28
Energy contribution -22.80
Covariance contribution 0.52
Combinations/Pair 1.07
Mean z-score -1.76
Structure conservation index 0.71
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10477357 117 + 22224390
AUUUCCACUGCUGCCCUUAUUAAUAAACCCUUUAAAGCCUCAGCUGGUCGUUAAAACGGUGCAGCAGUCGCUAGUCUGGGAAAUCC-CCGAUUGGCUCAAGGGAAAUUCCCUCUAAAU
((((((((((((((((...(((((..(((......(((....)))))).)))))...)).)))))))).(((((((.(((....))-).))))))).....))))))........... ( -40.00)
>DroSec_CAF1 8233 118 + 1
AUUUCCAUUGCUGGACUUAUUAACAAACCCUUUAAAGCCUCAGCUGGUCGUUAAAAUCGUGGAGCAGUCGCUAGUCUGGGAAAUCCCCCGAUUGGCUCAAGGGAAAUUCCCUCUAAAU
((((((((((((..((...(((((..(((......(((....)))))).)))))....))..)))))).(((((((.(((.....))).))))))).....))))))........... ( -30.30)
>DroSim_CAF1 8423 118 + 1
AUUUCCAUUGCUGGACUUAUUAAAAAACCCUUUAAAGCCUCAGCUGGUCGUUAAAAUCGUGCAGCAGUCGCUAGUCUGGGAAAUCCCCCGAUUGGCUCAAGGGAAAUUCCCUCUAAAU
(((((((((((((.((...(((((......))))).(((......)))..........)).))))))).(((((((.(((.....))).))))))).....))))))........... ( -33.50)
>DroEre_CAF1 9525 108 + 1
AUUUGCAAUGCUGGA-AUAUUAAUAAGUCCUUUAAAGCCUCAGUUGGUC--------GGUGCAGUAGUCGCUAGUGUGGGAAAUCC-CCGAUUGGCUCAAGGGAAAUUCCCUCUAAAU
............(((-((.((((........))))..(((.(((..(((--------(..(((.(((...))).)))(((....))-)))))..)))..)))...)))))........ ( -24.50)
>DroYak_CAF1 10080 116 + 1
AUUUUCAUUGCUGGC-AUAUUAAUAAACCCUUUAAAGCCUCAGCUGGUCGUUAAAACGGUGCAGCAGUCGCAAGUCUGGGAAAUCC-CCGAUUGGCUCAAGGGAAAUUCCCCCUAAAU
......(((((((.(-((..................(((......)))(((....))))))))))))).((.((((.(((....))-).)))).))...((((.......)))).... ( -29.40)
>consensus
AUUUCCAUUGCUGGACUUAUUAAUAAACCCUUUAAAGCCUCAGCUGGUCGUUAAAACGGUGCAGCAGUCGCUAGUCUGGGAAAUCC_CCGAUUGGCUCAAGGGAAAUUCCCUCUAAAU
......(((((((......((((........)))).(((......))).............))))))).(((((((.(((....)).).)))))))....(((.....)))....... (-22.28 = -22.80 +   0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:11:44 2006