Locus 6409

Sequence ID 3R_DroMel_CAF1
Location 16,785,324 – 16,785,444
Length 120
Max. P 0.529032
window10451

overview

Window 1

Location 16,785,324 – 16,785,444
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 95.83
Mean single sequence MFE -29.15
Consensus MFE -25.27
Energy contribution -25.52
Covariance contribution 0.25
Combinations/Pair 1.07
Mean z-score -1.62
Structure conservation index 0.87
SVM decision value -0.01
SVM RNA-class probability 0.529032
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16785324 120 + 27905053
GCAAAACGUGCGAAAAUUAAGCAGACAAUUAGCUGGAAAUUGUUAAUAAUAUUUAAAUUAAACACUCCGGCAACUGAGAUCAUUAGCGAGCUCAGCUCAUCUGGCGUUUCAGUCUGCGGA
(((.....))).........((((((.....((((((...((((..((((......)))))))).))))))...((((((..((((.((((...))))..)))).))))))))))))... ( -31.60)
>DroSec_CAF1 17879 120 + 1
GCAAAACGUGCGAAAAUUAAGCAGACAAUUAGCUGGAAAUUGUUAAUAAUAUUUAAAUUAAACACUCCAGCAACUGAGAUCAUUAGCGUGCUCAUCUCAUCUGGCGUUUCAGUCUGCGGA
(((.....))).........((((((.....((((((...((((..((((......)))))))).))))))...(((((((((....)))...))))))............))))))... ( -28.80)
>DroEre_CAF1 13810 120 + 1
GCAAAACGUGCGAAAAUUAAGCAGACAAUUAGCUGGAAAUUGUUAAUAAUAUUUAAAUUAAACACUGCGGCAACUCAGAUCAUUAGCGAGUUCAGCUCAUCUGGCGUUUCAGUCAGCGGA
(((.....))).........((........(((((((..(((((((((((......))))....(((.(....).)))....))))))).)))))))....((((......))))))... ( -24.80)
>DroYak_CAF1 610 120 + 1
GCAAAACGUGCGAAAAUUAAGCAGACAAUUAGCUGGAAAUUGUUAAUAAUAUUUAAAUUAAACACUUGGGCAACUGAGAUCAUUAGCGAGUUCUGCUCAUCUGGCGUUUCAGUCUGCGGA
(((.....))).........((((((.....((..((....(((((((((......))))....((..(....)..))....)))))(((.....))).))..))......))))))... ( -31.40)
>consensus
GCAAAACGUGCGAAAAUUAAGCAGACAAUUAGCUGGAAAUUGUUAAUAAUAUUUAAAUUAAACACUCCGGCAACUGAGAUCAUUAGCGAGCUCAGCUCAUCUGGCGUUUCAGUCUGCGGA
(((.....))).........((((((.....((..((....(((((((((......))))....(((.(....).)))....)))))(((.....))).))..))......))))))... (-25.27 = -25.52 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:20:51 2006