Locus 6596

Sequence ID 2R_DroMel_CAF1
Location 20,634,375 – 20,634,468
Length 93
Max. P 0.566130
window10496

overview

Window 6

Location 20,634,375 – 20,634,468
Length 93
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 78.79
Mean single sequence MFE -29.83
Consensus MFE -17.41
Energy contribution -16.67
Covariance contribution -0.75
Combinations/Pair 1.24
Mean z-score -1.60
Structure conservation index 0.58
SVM decision value 0.06
SVM RNA-class probability 0.566130
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20634375 93 + 20766785
GCCCG------GCAGGU----AGCAUAAGUUACUUUC-CUGUUUUGCUGC---UGCGACGCCCACUUUAAUCAAAUUUUUUGAUUGGAUUGUUUCGGAAGCAAGUCG
....(------(.((((----(((....))))))).)-).(.((((((.(---((.((((.....(((((((((.....))))))))).)))).))).)))))).). ( -24.30)
>DroPse_CAF1 85481 88 + 1
GCCUGGCAGCGGCAGGC----AGCA---------------GUUUCGCUGGGCGGACGACGCCCACUUCAAUCAAAUUUUUUGAUUGGAUUGUUUCGGAAGCAAGUCG
(((((.(...).)))))----....---------------(((((..((((((.....)))))).(((((((((.....)))))))))........)))))...... ( -33.00)
>DroEre_CAF1 124538 97 + 1
GCCUGCCA--GGCAGGC----AGCAGAAGUUACUUUC-CUGUUUUGCUGG---UGCGACGCCCACUUCAAUCAAAUUUUUUGAUUGGAUUCUUUCGGAAGCAAGUCG
((((((..--.))))))----.(((..(((.((....-..))...)))..---)))(((......(((((((((.....)))))))))(((.....)))....))). ( -28.60)
>DroYak_CAF1 89165 93 + 1
GCCUG------GCAGGC----AGCAGAAGUUACUUUC-CUGUUUUGCUGC---CGCGACGCCCACUUCAAUCAAAUUUUUUGAUUGGAUUGUUUCGGAAGCAAGUCG
....(------((.(((----(((((((.........-...)))))))))---)((..((..((.(((((((((.....))))))))).))...))...))..))). ( -30.40)
>DroAna_CAF1 90582 98 + 1
GCCUG------CCAGGCAGACAACAGAAGUUACUCUGGAAGCUUCGCAGC---GACUACGCCCACUUCAAUCAAAUUUUUUGAUUGGAUUGUUUCGGGAGCAAGUCG
(((..------...))).(((..((((......))))...(((((...((---(....))).((.(((((((((.....))))))))).)).....)))))..))). ( -29.70)
>DroPer_CAF1 96520 88 + 1
GCCUGGCAGCGGCAGGC----AGCA---------------GUUUCGCUGGGCGGACGACGCCCACUUCAAUCAAAUUUUUUGAUUGGAUUGUUUCGGAAGCAAGUCG
(((((.(...).)))))----....---------------(((((..((((((.....)))))).(((((((((.....)))))))))........)))))...... ( -33.00)
>consensus
GCCUG______GCAGGC____AGCAGAAGUUACUUUC_CUGUUUCGCUGC___GACGACGCCCACUUCAAUCAAAUUUUUUGAUUGGAUUGUUUCGGAAGCAAGUCG
(((((.......))))).......................(((((..((......)).((..((.(((((((((.....))))))))).))...)))))))...... (-17.41 = -16.67 +  -0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:14:39 2006