Locus 2948

Sequence ID 2R_DroMel_CAF1
Location 10,182,193 – 10,182,288
Length 95
Max. P 0.512653
window4868

overview

Window 8

Location 10,182,193 – 10,182,288
Length 95
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 83.35
Mean single sequence MFE -31.65
Consensus MFE -21.78
Energy contribution -23.95
Covariance contribution 2.17
Combinations/Pair 1.00
Mean z-score -1.69
Structure conservation index 0.69
SVM decision value -0.04
SVM RNA-class probability 0.512653
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10182193 95 + 20766785
CACUGC--------------------CGUCC-GAGAGUGGCCAUGCAUGAGGGC---UCCCAUAAAAUUGGGUCAAUUGCUGUUAACAAUUUGGCAGCGCAAUCUUU-UGGCCGUUUCGA
......--------------------....(-((((.((((((.....((..((---.((((......))))......((((((((....))))))))))..))...-))))))))))). ( -33.40)
>DroSim_CAF1 10433 95 + 1
CACUGC--------------------CGUCC-GAGAGUGGCCAUGCAUGAGGGC---UCCCAUAAAAUUGGGUCAAUUGCUGUUAACAAUUUGGCAGCGCAAUCUUU-UGGCCGUUUCGA
......--------------------....(-((((.((((((.....((..((---.((((......))))......((((((((....))))))))))..))...-))))))))))). ( -33.40)
>DroEre_CAF1 15087 95 + 1
CACUGC--------------------CGUCC-GAGAGUGGCCAUGCAUGAGGGC---UCCCAUAAAAUUGGGUCAAUUGCUGUUAACAAUUUGGCAGGGCAAUCUUU-UGGCCGUUUCGA
......--------------------....(-((((.((((((.....((..((---(((((......)))).......(((((((....))))))))))..))...-))))))))))). ( -30.40)
>DroWil_CAF1 13330 84 + 1
--CUGC--------------------UGU-------------AUGCAUGAGUGCGAGGCCCAUAAAAUUGGGUCAAUUGCUGUUAACAAUUUGGCAGCGCAAUCUUU-UGCCCGUUUCGA
--.(((--------------------...-------------..)))((((.(((.((((((......))))))....((((((((....))))))))((((....)-))).))))))). ( -27.20)
>DroYak_CAF1 10676 95 + 1
CACUGC--------------------CGUCC-GAGAGUGGCCAUGCAUGAGGGC---CCCCAUAAAAUUGGGUCAAUUGCUGUUAACAAUUUGGCAGCGCAAUCUUU-UGCCCGUUUCGA
((.(((--------------------.((((-....).)))...))))).((((---.((((......))))......((((((((....)))))))).........-.))))....... ( -27.60)
>DroAna_CAF1 10190 117 + 1
CACACCUCCGAUCCCCGCCAGGCCUUCAUCCGGUGAGUGGCCAUGCAUGAGGGC---CCCCAUAAAAUUGGGUCAAUUGCUGUUAACAAUUUGGCAGCGCAAUCUCUUCGGCCGUUUCGA
........(((..(..(((.((((((((((.(((.....)))..).))))))))---)((((......))))......((((((((....))))))))...........))).)..))). ( -37.90)
>consensus
CACUGC____________________CGUCC_GAGAGUGGCCAUGCAUGAGGGC___UCCCAUAAAAUUGGGUCAAUUGCUGUUAACAAUUUGGCAGCGCAAUCUUU_UGGCCGUUUCGA
................................((((.((((((.....((..((....((((......))))......((((((((....))))))))))..))....)))))))))).. (-21.78 = -23.95 +   2.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:43:37 2006