Locus 729

Sequence ID X_DroMel_CAF1
Location 1,991,824 – 1,991,943
Length 119
Max. P 0.970602
window1178

overview

Window 8

Location 1,991,824 – 1,991,943
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.08
Mean single sequence MFE -21.40
Consensus MFE -21.30
Energy contribution -21.10
Covariance contribution -0.20
Combinations/Pair 1.07
Mean z-score -1.39
Structure conservation index 1.00
SVM decision value 1.66
SVM RNA-class probability 0.970602
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1991824 119 - 22224390
AGAAAAUAAAUUCAUGAAACCCAAAACGAGUUUCCCCUCCGUCGCCCUCUCCGC-CAUUCAUCAUCCAACCGACACACGCCCCCCGCUGUGCGGUGUUGUUGCAUUUUUAACAACGAAUU
........((((((((((.........(((......)))....((.......))-..)))))......((((.((((.((.....))))))))))(((((((......)))))))))))) ( -22.40)
>DroSec_CAF1 23882 120 - 1
AGAAAAUAAAUUCAUGAAACCCAAAACGAGUUUCCCCUCCGUCGCCCUCUCCACCCAUUCCUCAUCCAACCGACACACGCCCCCCGCUGUGCGGUGUUGUUGCAUUUUCAACAACGAAUU
........(((((..(((((.(.....).)))))..................................((((.((((.((.....))))))))))(((((((......)))))))))))) ( -23.50)
>DroSim_CAF1 18321 120 - 1
AGAAAAUAAAUUCAUGAAACCCAAAACGAGUUUCCCCUCCGUCGCCCUCUCCGCCCAUUCCUCAUCCAACCGACACACGCCCCCCGCUGUGCGGUGUUGUUGCAUUUUCAACAACGAAUU
........(((((..(((((.(.....).)))))..................................((((.((((.((.....))))))))))(((((((......)))))))))))) ( -23.50)
>DroEre_CAF1 13622 118 - 1
AGAAAAUAAAUUCAUGAAACCCAAAACGAGUUUCCCCUCCGUCGCC--CUCCGCCCCUCUCUCAACCAACCGACACACGCCCCCCGCUGUGCUGUGUUGUUGCAUUUUUAACAACGAAUU
........(((((..(((((.(.....).)))))............--..................((((.(((((((((........))).)))))))))).............))))) ( -16.20)
>DroYak_CAF1 24457 120 - 1
AGAAAAUAAAUUCAUGAAACCCAAAACGAGUUUUCCCUCCGUCGCCUUCUCCGCCCCUCUCUCAUCCAACCGACACACGCCCCCCGCUGUGCGGUGUUGUUGCAUUUUUAACAACGAAUU
........(((((((((..........(((......))).(..((.......))..)....))))...((((.((((.((.....))))))))))(((((((......)))))))))))) ( -21.40)
>consensus
AGAAAAUAAAUUCAUGAAACCCAAAACGAGUUUCCCCUCCGUCGCCCUCUCCGCCCAUUCCUCAUCCAACCGACACACGCCCCCCGCUGUGCGGUGUUGUUGCAUUUUUAACAACGAAUU
........(((((..(((((.(.....).)))))..................................((((.((((.((.....))))))))))(((((((......)))))))))))) (-21.30 = -21.10 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:52:19 2006