Locus 6491

Sequence ID 3L_DroMel_CAF1
Location 17,256,951 – 17,257,071
Length 120
Max. P 0.668046
window10471

overview

Window 1

Location 17,256,951 – 17,257,071
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 97.08
Mean single sequence MFE -33.54
Consensus MFE -28.60
Energy contribution -29.00
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.50
Structure conservation index 0.85
SVM decision value 0.28
SVM RNA-class probability 0.668046
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17256951 120 - 23771897
AAAACACGACAAUUUAUCCUGAUGAGGGCAGGAAAUUCCAGUUAAAUUGCGGCCCCGUAGGCGAUUAAGUUGCCAAAUAAAGUGCAGUCAGCGCGACGAAGCGCGUCAGCAAAGGGUUAA
......((.(((((((((((....))))..((.....))...)))))))))((((....((((((...))))))........(((.(...((((......))))..).)))..))))... ( -33.10)
>DroSec_CAF1 140683 119 - 1
AAAACACGACAAUUCAUCCUGAUGAG-GCAGGAAAUUCCAGUUAAAUUGCGUCCUCGUAGGCGAUUAAGUUGCCAAAUAAAGUGCAGUCAGCGCGACGAAGCGCGGCAACAAAGGGUUAA
.......(((......(((((.....-.)))))....((.........((((..((((.((((((...)))))).......((((.....)))).)))).))))(....)...))))).. ( -32.20)
>DroSim_CAF1 135502 120 - 1
AAAACACGACAAUUCAUCCUGAUGAGGGCAGGAAAUUCCAGUUAAAUUGCGGCCUCGUAGGCGAUUAAGUUGCCAAAUAAAGUGCAGUCAGCGCGACGAAGCGCGGCAACAAGGGGUUAA
..........(((((..(((.((((((.(.((.....)).((......))).))))))))).......((((((.......(......).((((......))))))))))...))))).. ( -34.00)
>DroEre_CAF1 143766 120 - 1
AAAACACGACAAUUCAUCCUGAUGAGGGCAGGAAAUUCCAGUUAAAUUGCGGCCUCGUAGGCGAUUAAGUUGCCAAAUAAAGUGCAGUCAGCGCGACGAAGCGCGCCAACAAAGGGUUAA
...............(((((..((..(((.((.....)).........(((.(.((((.((((((...)))))).......((((.....)))).)))).)))))))..)).)))))... ( -34.20)
>DroYak_CAF1 147837 120 - 1
AAAACACGACAAUUCAUCCUGAUGAGGGCAGGAAAUUCCAGUUAAAUUGCGGCCUCGUAGGCGAUUAAGUUGCCAAAUAAAGUGCAGUCAGCGCGUCGAAGCGCGGCAACAAAGGGUUAA
..........(((((..(((.((((((.(.((.....)).((......))).))))))))).......((((((.......(......).((((......))))))))))...))))).. ( -34.20)
>consensus
AAAACACGACAAUUCAUCCUGAUGAGGGCAGGAAAUUCCAGUUAAAUUGCGGCCUCGUAGGCGAUUAAGUUGCCAAAUAAAGUGCAGUCAGCGCGACGAAGCGCGGCAACAAAGGGUUAA
..(((..(((...........((((((.(.((.....)).((......))).)))))).((((((...))))))............))).((((......))))...........))).. (-28.60 = -29.00 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:21:02 2006