Locus 4604

Sequence ID 3L_DroMel_CAF1
Location 13,141,355 – 13,141,475
Length 120
Max. P 0.721894
window7219

overview

Window 9

Location 13,141,355 – 13,141,475
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.67
Mean single sequence MFE -26.85
Consensus MFE -23.68
Energy contribution -23.32
Covariance contribution -0.36
Combinations/Pair 1.09
Mean z-score -1.33
Structure conservation index 0.88
SVM decision value 0.40
SVM RNA-class probability 0.721894
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13141355 120 + 23771897
CAGGCGAUUGCCAACAAUUCAGUCGCAUUAUUUAUUCAUUUCAAUGCUGUUGACGCUGGUUUAAUAGCUUGUUAAAUAUUUAGUUCGCGUUUACACAAAAUGCGACAAAAAGCCGGACAA
..((((((((....)))))..((((((((................(((((((((....).))))))))(((((((((...........))))).)))))))))))).....)))...... ( -26.60)
>DroSec_CAF1 129020 120 + 1
CAGGCAAUUGCCAACAAUUCAGUCGCAUUAUUUAUUCAUUUUAAUGCUGUUGACGCUGGUUUAAUAGGUUGUUAAAUAUUUAAUUUGCGUUUACACAAAAUGCGACAAAAAGCCGGACAA
..((((((((....)))))..((((((((..(((.......)))((.(((.(((((..(((.((((..(....)..)))).)))..))))).))))).)))))))).....)))...... ( -27.80)
>DroSim_CAF1 128960 120 + 1
CAGGCAAUUGCCAACAAUUCAGUCGCAUUAUUUAUUCAUUUCAAUGCUGUUGACGCUGGUUUAAUAGCUUGUUAAAUAUUUAGUUCGCGUUUACACAAAAUGCGACAAAAAGCCGGACAA
..(((....))).........(((((((((..((((.....(((.(((((((((....).)))))))))))...))))..))))((((((((.....))))))))......))..))).. ( -26.50)
>DroEre_CAF1 125867 120 + 1
CAGGCAAUUGCCAACAAUUCAGACGCAUUAUUUAUUCAUUCCGAUGCUGUUGACGUUGGUUUAAUAGCUUGUUUAAUAUUUAGUUCGCGUUUACACAAAAUGCGACAAAAAGCCGGACAA
(((((.(((((((((...((((..(((((.............)))))..)))).))))))..))).)))))...........((.(((((((.....))))))))).............. ( -26.22)
>DroYak_CAF1 130311 120 + 1
GAGGCAAUUGCCAACAAUUCAGUCGCAUUAUUUAUUCAUUCCGAUGCUGUUGACGUUGGUUUAAUAGCUUGUUUAAUAUUUAGUUCGCGUUUACACAAAAUGCGACAAAAAGCCGGACAA
..(((....((((((...((((..(((((.............)))))..)))).))))))......................((.(((((((.....))))))))).....)))...... ( -27.12)
>consensus
CAGGCAAUUGCCAACAAUUCAGUCGCAUUAUUUAUUCAUUUCAAUGCUGUUGACGCUGGUUUAAUAGCUUGUUAAAUAUUUAGUUCGCGUUUACACAAAAUGCGACAAAAAGCCGGACAA
..((((((((....)))))..((((((((.......(((....))).(((.(((((..(((.((((..........)))).)))..))))).)))...)))))))).....)))...... (-23.68 = -23.32 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:28:10 2006