Locus 3904

Sequence ID 3R_DroMel_CAF1
Location 10,635,481 – 10,635,578
Length 97
Max. P 0.538428
window6251

overview

Window 1

Location 10,635,481 – 10,635,578
Length 97
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 79.53
Mean single sequence MFE -35.15
Consensus MFE -14.72
Energy contribution -14.92
Covariance contribution 0.20
Combinations/Pair 1.21
Mean z-score -2.43
Structure conservation index 0.42
SVM decision value 0.01
SVM RNA-class probability 0.538428
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10635481 97 - 27905053
AGGCAAGAAACUGAAGCGCAAGUCCAAGUGGCGUCAACUUUUUGGCCAAUGUUGGUG------GAAGAAGAGACGACGCCAAAGGAGCUAUCAGGAUUAUUGG
...(((....(((((((.....(((...(((((((..((((((..(((.......))------)..))))))..)))))))..)))))).)))).....))). ( -33.10)
>DroPse_CAF1 8693 103 - 1
GCCCAGCCAGCGCCCACGCAGAACCAAGUGGCGGCGUCUGCUGGGCGCCUGCUGGUGGCGGCGGAAACGGCGCCGUCGCCCACGCAGCUACAAAGAUUACUGG
(((((((..(((((..(((........)))..)))))..)))))))((.(((.((((((((((.......))))))))))...)))))............... ( -52.60)
>DroSec_CAF1 7846 97 - 1
AGGCAAGAAACUGAAGCGCAAGUCAAAGUGGCGUCAACUUUUUGGCCAAUGUUGGUG------GAAGAAGAGACGACGCCAAAGGAGCUAUCAGGAUUAUUGG
...(((....(((((((.....((....(((((((..((((((..(((.......))------)..))))))..)))))))...))))).)))).....))). ( -30.50)
>DroSim_CAF1 8028 97 - 1
AGGCAAGAAACUGAAGCGCAAGUCAAAGUGGCGUCAACUUUUUGGCCAAUGCUGGUG------GAAAAAGAGACGACGCCAAAGGAGCUAUCAGGAUUAUUGG
...(((....(((((((.....((....(((((((..((((((..(((.......))------)..))))))..)))))))...))))).)))).....))). ( -30.10)
>DroEre_CAF1 7901 97 - 1
AGGCAAGAAACUGCAGCGCAGGUCCAAGUGGCGUCAGCUUUUUGGCCACUGUUGGAG------GAAGAAGCGACGACGCCAGAGGAGCUAUCAGGGCUAUUGG
..(((......)))(((.(((.(((...(((((((.(((((((..(((....)))..------.)))))))...)))))))..))).))....).)))..... ( -33.20)
>DroYak_CAF1 7970 97 - 1
GGGCAAGAAACUCCAACGCAAGUCAAAGUGGCGUCAGCUUUUUGGCCAAUGUUGGUG------GCAGAAGCGGCGACGCCAAAGGAACUAUCAGGGCUAUUGG
.(((..((...(((.((....)).....(((((((.(((((((.((((....)))).------).))))))...)))))))..)))....))...)))..... ( -31.40)
>consensus
AGGCAAGAAACUGAAGCGCAAGUCAAAGUGGCGUCAACUUUUUGGCCAAUGUUGGUG______GAAGAAGAGACGACGCCAAAGGAGCUAUCAGGAUUAUUGG
...(((...(((...((....))...)))((((((..(.....)((((....))))..................))))))...................))). (-14.72 = -14.92 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:57 2006