Locus 3558

Sequence ID 3R_DroMel_CAF1
Location 9,636,564 – 9,636,655
Length 91
Max. P 0.996952
window5715

overview

Window 5

Location 9,636,564 – 9,636,655
Length 91
Sequences 6
Columns 91
Reading direction forward
Mean pairwise identity 94.36
Mean single sequence MFE -22.15
Consensus MFE -20.78
Energy contribution -21.37
Covariance contribution 0.58
Combinations/Pair 1.04
Mean z-score -1.93
Structure conservation index 0.94
SVM decision value 2.77
SVM RNA-class probability 0.996952
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9636564 91 + 27905053
GUGGCACGUGGCGCAUUUUGGGAAAACAAAAGGUGCAAAGCGGAAAGGGAAACUCGGGCCCAAACGAUGCAUAACGAAAUUCGUGAAUAAA
(.(((.(((.((((.(((((......))))).))))...)))....((....))...))))..((((.............))))....... ( -22.12)
>DroSec_CAF1 29267 91 + 1
GUGGCACGUGGCGCAUUUCGGGAAAACAAAAGGUGCAAAGCGGAAAGGGAAACUCGGGCCCAAACGAUGCAUAACGAAAUUCGUUAAUAAA
...(((((((((((((((..(.....)...))))))..........((....))...)))...))).))).(((((.....)))))..... ( -20.90)
>DroSim_CAF1 31646 91 + 1
GUGGCACGUGGCGCAUUUUGGGAAAACAAAAGGUGCAAAGCGGAAAGGGAAACUCGGGCCCAAACGAUGCAUAACGAAAUUCGUUAAUAAA
(.(((.(((.((((.(((((......))))).))))...)))....((....))...))))..........(((((.....)))))..... ( -24.20)
>DroEre_CAF1 29975 91 + 1
GUGGCACGUGGCGCGUUUUGGGAAAACAAAAGGUGCAAAACGGAAAGGGAAACUCGGGCCCAAGUGAUGCAUAACGAAAUUCGUUAAUAAA
(.(((.(((.((((.(((((......))))).))))...)))....((....))...))))..........(((((.....)))))..... ( -26.00)
>DroYak_CAF1 30462 91 + 1
GUGGCACGUGGCGCAUUUUGGGAAAACAAAAGGUGCAAAACGGAAAGGGAAACUCGGGCCCAAACGAUGCAUAACGAAAUUCGUUAAUAAA
(.(((.(((.((((.(((((......))))).))))...)))....((....))...))))..........(((((.....)))))..... ( -23.90)
>DroAna_CAF1 28676 89 + 1
GUGGCACGUGGCGCAUUUC-GGAAAACAAAAGGUGCAAAACGGAAAGGAAAACGAAAACCCAAACGAUGCAUAACGA-AUUCGUUAAUAAA
...((((((.((((.(((.-(.....).))).))))...)))....((...........))......))).(((((.-...)))))..... ( -15.80)
>consensus
GUGGCACGUGGCGCAUUUUGGGAAAACAAAAGGUGCAAAACGGAAAGGGAAACUCGGGCCCAAACGAUGCAUAACGAAAUUCGUUAAUAAA
...((((((.((((.(((((......))))).))))...)))....(((.........)))......))).(((((.....)))))..... (-20.78 = -21.37 +   0.58)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:04:09 2006