Locus 3343

Sequence ID 2R_DroMel_CAF1
Location 11,354,372 – 11,354,488
Length 116
Max. P 0.665021
window5467

overview

Window 7

Location 11,354,372 – 11,354,488
Length 116
Sequences 4
Columns 116
Reading direction reverse
Mean pairwise identity 90.37
Mean single sequence MFE -32.96
Consensus MFE -25.92
Energy contribution -27.30
Covariance contribution 1.37
Combinations/Pair 1.09
Mean z-score -1.66
Structure conservation index 0.79
SVM decision value 0.28
SVM RNA-class probability 0.665021
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11354372 116 - 20766785
AAGGGUUCUUUGACUUCGAUUUCACUUCAAAGGGGUUUGCGAUUGAGUCCUGGGAUCGCAAUUAACUGAAUAUUUGGAGCACCCUGUUCCCGCAUCGAUUAUAGUGGCUCAAUCUA
.(((.((((((((.............)))))))).)))..((((((((((((.(((((((......)).......(((((.....))))).....))))).))).))))))))).. ( -30.62)
>DroSec_CAF1 12427 116 - 1
CAAGGUUCUUUGACUACGAUUUGACUUCAAAGGGGUUUGCGAUUGAGUCCUGGGAUCUCAAUUAAGUGAAUAUUUGGAGCACCCUGUUCCCGCAUCGAUUAUAGUGGCUCAAUCUA
((((.((((((((.............)))))))).)))).((((((((((((.(((((((......)))......(((((.....)))))......)))).))).))))))))).. ( -32.92)
>DroSim_CAF1 12401 116 - 1
CAAGGUUCUUUGACUUCGAUUUGACUUCAAAGGAGUUUGCGAUUGAGUCCUGGGAUCUCAAUUAACUGAACAUUUGGAGCACCCUGUUCCCGCAUCGAUUAUAGUGGCUCAAUCUA
((((.((((((((..((.....))..)))))))).)))).((((((((((((.(((((((......)))......(((((.....)))))......)))).))).))))))))).. ( -36.20)
>DroEre_CAF1 14745 105 - 1
AAGGGUUCUUUGACUUCGAU-----------GGGGACUGCGAUUGAGUCCUGGGAUCUCAAUUAACCGAAUAUUUGGAGCACCCUGUUCCCGCAUCGAUUAUAGUGGCUCAAUCUA
..(((((((.(((..(((((-----------((((((((((((((((((....)).)))))))..((((....)))).)))....).)))).))))))))).)).)))))...... ( -32.10)
>consensus
AAAGGUUCUUUGACUUCGAUUUGACUUCAAAGGGGUUUGCGAUUGAGUCCUGGGAUCUCAAUUAACUGAAUAUUUGGAGCACCCUGUUCCCGCAUCGAUUAUAGUGGCUCAAUCUA
.(((.((((((((.............)))))))).)))..((((((((((((.(((((((......)))......(((((.....)))))......)))).))).))))))))).. (-25.92 = -27.30 +   1.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:12 2006