Locus 1036

Sequence ID 3R_DroMel_CAF1
Location 3,229,650 – 3,229,747
Length 97
Max. P 0.582444
window1677

overview

Window 7

Location 3,229,650 – 3,229,747
Length 97
Sequences 5
Columns 102
Reading direction forward
Mean pairwise identity 89.87
Mean single sequence MFE -20.70
Consensus MFE -15.40
Energy contribution -17.20
Covariance contribution 1.80
Combinations/Pair 1.00
Mean z-score -1.65
Structure conservation index 0.74
SVM decision value 0.10
SVM RNA-class probability 0.582444
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3229650 97 + 27905053
GCUGUUGGCAAAUAAAACUGUUGGCGCUAACAUUAAACGGCUAUGAAGUGUGGAAACUAACAAUGGA-GGAAAUUCGUAGUCGGAAAAAAGUAAGCAA----
...((..(((........)))..))(((.((......((((((((((.((((....)..))).....-.....)))))))))).......)).)))..---- ( -24.32)
>DroSec_CAF1 54223 102 + 1
GCUGUUGGCAAAUAAAACCGUUGGCGCUAACAUUAAAAGGCUAUGAAGUGUGGAAACUAACAAUGGAAGGAAAUUCGUAGUCGGAAAAAAGUAAGCGAAAAA
(((((((((.(((......)))...)))))).......(((((((((.((((....)..)))...........)))))))))...........)))...... ( -20.60)
>DroSim_CAF1 55643 102 + 1
GCUGUUGGCAAAUAAAACCGUUGGCGCUAACAUUAAACGGCUAUGAAGUGUGGAAACUAACAAUGGAAGGAAAUUCGUAGUCGGAAAAAAGUAAGAAAAAAA
(((((((((.(((......)))...))))))......((((((((((.((((....)..)))...........))))))))))......))).......... ( -20.50)
>DroEre_CAF1 48624 100 + 1
GCUGUUGGCAAAUAAAACCGUUGGCGCUAACAUUAAACGGCUAUGA-GUGUGGAAACUAACAAUGGA-UGAAACUCUCAUUCGGGAAAAAAUAUGCGAAAAA
....((.(((.......(((((((((((..(((.........))))-))))(....)...)))))).-......((((....)))).......))).))... ( -18.50)
>DroYak_CAF1 40092 100 + 1
GCUGUUGGCAAAUAAAACCGUUGGCGCUAACAUUAAACGGCUAUGAAGUGUGGAAACUAACAAUGGA-UGCAAGUCUCAGUCGA-AAAAAGUGAGCAAAAAC
(((((((((.(((......)))...))))))......(((((..((..((((....(((....))).-))))..))..))))).-........)))...... ( -19.60)
>consensus
GCUGUUGGCAAAUAAAACCGUUGGCGCUAACAUUAAACGGCUAUGAAGUGUGGAAACUAACAAUGGA_GGAAAUUCGUAGUCGGAAAAAAGUAAGCAAAAAA
(((((((((.(((......)))...))))))).....((((((((((.((((....)..)))...........))))))))))...........))...... (-15.40 = -17.20 +   1.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:58:56 2006