Locus 619

Sequence ID X_DroMel_CAF1
Location 1,718,381 – 1,718,482
Length 101
Max. P 0.980138
window1003

overview

Window 3

Location 1,718,381 – 1,718,482
Length 101
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 78.26
Mean single sequence MFE -28.27
Consensus MFE -14.88
Energy contribution -17.24
Covariance contribution 2.36
Combinations/Pair 1.12
Mean z-score -2.52
Structure conservation index 0.53
SVM decision value 1.85
SVM RNA-class probability 0.980138
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1718381 101 - 22224390
--------UGGGUUCUCUUUUGAGUUU-----------UGUUAAAUUAUGUGCUCCAAGCCCUAAACCAUUUUUGGUAUAUCAUAGACAAUUUGAAAAACUUAACUGAGAUCUCAGUUCG
--------((((.((((..((((((((-----------(.(((((((....((.....)).....((((....))))...........))))))))))))))))..)))).))))..... ( -24.20)
>DroSec_CAF1 2688 112 - 1
--------UGGGGUCUCUUUUGAAUUUUUGCUGGCUUCUGUUAAAUGUGGUGCUACAUGCCAUAAACCAUUUUUGGUAUAUCAAAGACAAUUUGAAAAACUUAACUGAGAUCUCAGUUCG
--------(((((((((..((((.((((...((((....))))..((((((.......)))))).((((....))))...(((((.....))))))))).))))..)))))))))..... ( -26.10)
>DroSim_CAF1 2683 112 - 1
--------UGGGGUCUCUUUUGAGUUUUUGCUGGCUUCUGUUAAAUGUGGUGCUACAAGCCAUAAACCAUUUUUGGUAUAUCAUAGACAAUUUGAAAAACUUAACUGAGAUCUCAGUUCG
--------(((((((((..((((((((((.......(((((....((((((.......)))))).((((....)))).....))))).......))))))))))..)))))))))..... ( -33.34)
>DroEre_CAF1 2700 117 - 1
CAAGAGGCUGGGUUCUCAUUGAAGUUUUUGCUUUCUCCUGUUAA---UGGUGUUGUAAACCAUAAAUCAUUAUAUUUAUAUCAUAGACAAUUUGAAAAACUUAAGUGAGAUCUCAGUUCA
...(((.(((((.(((((((.((((((((.(.......((((.(---(((((((((((...........)))))...))))))).))))....))))))))).))))))).)))))))). ( -29.50)
>DroYak_CAF1 2723 117 - 1
CAAUUGGCUGGGUGCUCAUUUCAGUUUUUGCUUUCUCCUGUUAA---UGGCGUUGUAAGCCAUAAAUCAUUUUUUUUAUAUCAUUGACAAUUUGAAAAACUUUAGUGAGAUCUCAGUUUA
.....(((((((..((((((..(((((((.(.......((((((---((((.......)))(((((........)))))...)))))))....))))))))..))))))..))))))).. ( -28.20)
>consensus
________UGGGUUCUCUUUUGAGUUUUUGCUGGCUCCUGUUAAAU_UGGUGCUACAAGCCAUAAACCAUUUUUGGUAUAUCAUAGACAAUUUGAAAAACUUAACUGAGAUCUCAGUUCG
........((((.((((..((((((((((..................((((.......))))...((((....)))).................))))))))))..)))).))))..... (-14.88 = -17.24 +   2.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:49:35 2006