Locus 8289

Sequence ID X_DroMel_CAF1
Location 20,619,161 – 20,619,260
Length 99
Max. P 0.995590
window13612

overview

Window 2

Location 20,619,161 – 20,619,260
Length 99
Sequences 5
Columns 105
Reading direction reverse
Mean pairwise identity 92.91
Mean single sequence MFE -19.96
Consensus MFE -17.27
Energy contribution -17.51
Covariance contribution 0.24
Combinations/Pair 1.06
Mean z-score -2.16
Structure conservation index 0.87
SVM decision value 2.59
SVM RNA-class probability 0.995590
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20619161 99 - 22224390
UAAAGGCAGAAGGUGAACGCGGUUAAGAAAAUAAUAAUAAAUUAAAAGCCUCUGCCUCACCAGCCGAAAGGUCAAAUAAUUUCACUAACACAAG-AAAGG-----
...(((((((.(((.......((((.........)))).........))))))))))..((.(((....))).......((((..........)-)))))----- ( -19.89)
>DroSec_CAF1 23280 104 - 1
CACAGGCAGAAGGUGAACGCGGUUAAGAAAAUAAUAAUAAAUUAAAAGCCUCUGCCUCACCAGCCGAAAGGUCAAAUAAUUUCAAUAACACAAG-AAAGGGACAA
...(((((((.(((.......((((.........)))).........))))))))))..((.(((....))).......((((..........)-)))))..... ( -21.19)
>DroSim_CAF1 4311 104 - 1
CACAGGCAGAAGGUGAACGCGGUUAAGAAAAUAAUAAUAAAUUAAAAGCCUCUGCCUCACCAGCCGAAAGGUCAAAUAAUUUCAAUAACACAAG-AAAGGGACAA
...(((((((.(((.......((((.........)))).........))))))))))..((.(((....))).......((((..........)-)))))..... ( -21.19)
>DroEre_CAF1 23539 105 - 1
CACAGGCAGAAGGCGAACGCGGUUAAGAAAAUAAUAAUAAAUUAAAAGCCUGUGCCUCCGCAGCCGAAAGGUCAAAUAAUUUCAAUAACACAAAAAACGGAACAA
(((((((.....((....)).((((......))))............)))))))..((((..(((....))).........................)))).... ( -20.13)
>DroYak_CAF1 24084 104 - 1
CACAGGCAGAAGGUGAACGCGGUUAAGAAAAUAAUAAUAAAUUAAAAGCCUGUGCCUCCUCAGCCGAAAGGUCAAAUAAUUUCAAUAACACAAA-AACGGGACAA
(((((((.....((....)).((((......))))............)))))))..(((...(((....)))..................(...-...))))... ( -17.40)
>consensus
CACAGGCAGAAGGUGAACGCGGUUAAGAAAAUAAUAAUAAAUUAAAAGCCUCUGCCUCACCAGCCGAAAGGUCAAAUAAUUUCAAUAACACAAG_AAAGGGACAA
...(((((((.(((.......((((.........)))).........)))))))))).....(((....)))................................. (-17.27 = -17.51 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:00:15 2006