Locus 3909

Sequence ID 2R_DroMel_CAF1
Location 12,883,847 – 12,883,944
Length 97
Max. P 0.979027
window6313

overview

Window 3

Location 12,883,847 – 12,883,944
Length 97
Sequences 5
Columns 104
Reading direction forward
Mean pairwise identity 75.45
Mean single sequence MFE -28.26
Consensus MFE -21.75
Energy contribution -21.79
Covariance contribution 0.04
Combinations/Pair 1.36
Mean z-score -1.84
Structure conservation index 0.77
SVM decision value 1.83
SVM RNA-class probability 0.979027
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12883847 97 + 20766785
GUGGAGCUAAGGAAGAUCGGAGAUCGACUAAAU-------UGGGUUAUUCGUUCCUGUUCGAUCGGGCAAUCGAUCUGCUUAGCCUACCGAUACACCCAUACAC
((((.((((((..(((((((.((..((((....-------..))))..))...((((......))))...))))))).))))))))))................ ( -28.50)
>DroSec_CAF1 6859 97 + 1
GAGGAGCUAAGGAAGAUCGAAGAUCGACUUUAU-------UGAGUUAUUGUUAUCUGUUCGAUCGGGCAAUCGAUCUGCUGAGCCCACCGAUACACCCAUACAC
..((.(((.((..(((((((((((.(((..((.-------.....))..)))))))((((....))))..))))))).)).))))).................. ( -24.10)
>DroEre_CAF1 7071 104 + 1
GAGGAGCUAAGGAAGAUCGGAGAUCGAAUUUAUCGGAGAUCGAGUUAUUGGUUCCUGUUCGAUCGGGCAAUCGAUCUGCUUAGCCCACCGAUACACCCAUACAC
..((.((((((..(((((((.((((((((.....(((.(((((....)))))))).))))))))......))))))).)))))))).................. ( -33.40)
>DroYak_CAF1 8153 97 + 1
GUGGAGCUAAGAAAGAUCGGAGAUCGAAUUUAU-------AGAGUUAUUGGUUCCUAUUCGAUCGGGCAAUCGAUCUGCUUAGCCCACCGAUACACCCAUACAC
((((.((((((..(((((((.((((((((....-------.(((.......)))..))))))))......))))))).))))))))))................ ( -29.30)
>DroAna_CAF1 7238 79 + 1
AAGAGGUUAAGCGAGAUCGGAAAUCGAUAA------------------------C-CAUCGAUAAGGCAUCCGAUCUGCUUAGUCCUUCGAUCCAACCACACGC
..((((((((((.((((((((.((((((..------------------------.-.))))))......)))))))))))))).))))................ ( -26.00)
>consensus
GAGGAGCUAAGGAAGAUCGGAGAUCGAAUUUAU_______UGAGUUAUUGGUUCCUGUUCGAUCGGGCAAUCGAUCUGCUUAGCCCACCGAUACACCCAUACAC
((((.((((((..(((((((.((((((((...........................))))))))......))))))).))))))))))................ (-21.75 = -21.79 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:04 2006