Locus 8439

Sequence ID 3L_DroMel_CAF1
Location 22,165,669 – 22,165,775
Length 106
Max. P 0.678629
window13799

overview

Window 9

Location 22,165,669 – 22,165,775
Length 106
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 83.59
Mean single sequence MFE -26.54
Consensus MFE -18.05
Energy contribution -18.38
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.44
Structure conservation index 0.68
SVM decision value 0.30
SVM RNA-class probability 0.678629
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22165669 106 - 23771897
-----U-GACUCUCUGC--GUUCGUUAGGUGAUUUGGUUAUGCAACAACAUCAUUAAAUCACCAAUUACUUUAGUCAACAGAGGAAUAAACCGAAUUUCCUUAUACACAAGCCG------
-----(-((((....((--....))..(((((((((((.(((......))).))))))))))).........)))))...((((((..........))))))............------ ( -23.00)
>DroVir_CAF1 49694 105 - 1
-------GU--AGUUGCGACUUCGUUAGGUGAUUUGGUUAUGCAACAACAUCAUUAAAUCACCAAUUACUUUAGUCAACAGUGGAAUAAAGUGAAUUUCCUUUUACACAAGAGC------
-------((--((..(.((........(((((((((((.(((......))).)))))))))))..((((((((.((.......)).))))))))...)))..))))........------ ( -24.60)
>DroPse_CAF1 48375 117 - 1
GGCAGU-GC--CACUGUGAGUUCGUUAGGUGAUUUGGUUAUGCAACAACAUCAUUAAAUCACCAAUUACUUUAGUCAACAGAGGAAUAAACCAAAUUUCCUUAUACACAAGCCAAACGAA
(((.((-..--.((((.((((..(((.(((((((((((.(((......))).)))))))))))))).))))))))..)).((((((..........))))))........)))....... ( -30.30)
>DroGri_CAF1 27082 112 - 1
GGUUGUGCC--AACUUCGAGUUCGUUAGGUGAUUUGGUUAUGCAACAACAUCAUUAAAUCACCAAUUACCUUAGUCAACAGAGGAAUAAACUGAAUUUCCUUAUACACAAUGCC------
.((((((..--......(((((((((.(((((((((((.(((......))).))))))))))).....((((.(....).))))....))).)))))).......))))))...------ ( -27.76)
>DroMoj_CAF1 77546 105 - 1
-------GC--GACUGCGACUUCGUUAGGUGAUUUGGUUAUGCAGCAACAUCAUUAAAUCACCAAUUACUUUAGUCAACAGAGAAAUAAACUGAAUUUCCUUAUUCACGAGAGC------
-------((--(((((((....)))..(((((((((((.(((......))).))))))))))).........))))...............(((((......))))).....))------ ( -23.30)
>DroPer_CAF1 48379 117 - 1
GGCAGU-GC--CACUGUGAGUUCGUUAGGUGAUUUGGUUAUGCAACAACAUCAUUAAAUCACCAAUUACUUUAGUCAACAGAGGAAUAAACCAAAUUUCCUUAUACACAAGCCAAACGAA
(((.((-..--.((((.((((..(((.(((((((((((.(((......))).)))))))))))))).))))))))..)).((((((..........))))))........)))....... ( -30.30)
>consensus
_____U_GC__CACUGCGAGUUCGUUAGGUGAUUUGGUUAUGCAACAACAUCAUUAAAUCACCAAUUACUUUAGUCAACAGAGGAAUAAACCGAAUUUCCUUAUACACAAGCCC______
...........................(((((((((((.(((......))).))))))))))).................((((((..........)))))).................. (-18.05 = -18.38 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:15:22 2006