Locus 4993

Sequence ID X_DroMel_CAF1
Location 13,044,816 – 13,044,933
Length 117
Max. P 0.802559
window8132

overview

Window 2

Location 13,044,816 – 13,044,933
Length 117
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 85.41
Mean single sequence MFE -30.16
Consensus MFE -18.84
Energy contribution -20.28
Covariance contribution 1.44
Combinations/Pair 1.12
Mean z-score -2.44
Structure conservation index 0.62
SVM decision value 0.62
SVM RNA-class probability 0.802559
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13044816 117 - 22224390
CACAUGCAUAAAACAAAAACAAAGCGGCUGCAGAAGCUGAUGAAGGAGAAUAAUAAUGAGAAGAAGGAG---CAGUAGCCAACUCAUUCAAUAAUUGUUGUUUCUCCUUUUCUUGCGCCU
.....(((................(((((.....)))))..((((((((((((((((..(((..((..(---(....))...))..)))....))))))).)))))))))...))).... ( -27.90)
>DroSec_CAF1 14255 113 - 1
CACAUGCAUUAAACAAAAACAAAGCGGCUGCAGAAGCGGAC-------UUCUCUAAUGAGAAGAAGGAGCAGCAGUAGACAACUCAUUCAAUAAUUGCUGUUUUCCCUUUUCUUGCGCCU
.........................(((.(((((((.((.(-------(((((....))))))..(((((((((((.................))))))))))).)).)))).)))))). ( -31.33)
>DroSim_CAF1 13776 113 - 1
CACAUGCAUUAAACAAAAACAAAGCGGCUGCAGAAGCGGAC-------UUCUCUAAUGAGAAGAAGGAGCAGCAGUAGACAACUCAUUCAAUAAUUGCCGUUUCCCCUUUUCUUGCGCCU
.........................(((.(((((((.((.(-------(((((....))))))..(((((.(((((.................))))).))))).)).)))).)))))). ( -28.83)
>DroYak_CAF1 15272 120 - 1
CACAUGCAUAAAAUAAAAACAAAGCGCCUGCAGAAGCGGAAGAAGGAGAAUAAUAAUGAGAAGAAGCAGCAGCAGUAGGCAACUCAUUCAAUAAUUGUUGUUUUUCUUUUUCUUGCGCUU
.....................((((((..((....))((((((((((((((((((((.....(((((....)).(.((....))).)))....)))))))))))))))))))).)))))) ( -32.60)
>consensus
CACAUGCAUAAAACAAAAACAAAGCGGCUGCAGAAGCGGAC_______AACAAUAAUGAGAAGAAGGAGCAGCAGUAGACAACUCAUUCAAUAAUUGCUGUUUCCCCUUUUCUUGCGCCU
.......................(((.((((....))))..................((((((.((((((((((((.................)))))))))))).))))))...))).. (-18.84 = -20.28 +   1.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:37:40 2006