Locus 2209

Sequence ID X_DroMel_CAF1
Location 5,968,356 – 5,968,456
Length 100
Max. P 0.876354
window3584

overview

Window 4

Location 5,968,356 – 5,968,456
Length 100
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 85.88
Mean single sequence MFE -15.50
Consensus MFE -13.59
Energy contribution -13.37
Covariance contribution -0.22
Combinations/Pair 1.05
Mean z-score -2.03
Structure conservation index 0.88
SVM decision value 0.89
SVM RNA-class probability 0.876354
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5968356 100 - 22224390
AAAGAAAAUUCAAUAUAAUCAACAA---------------ACGAUAGCCAAUCA-----GUUAUCGACCGCGACCCCACAAACAUGAAAUUGAUGUAUUGAAAAAGAGUGAUUAACACAA
........(((((((((.((((...---------------.(((((((......-----)))))))............((....))...))))))))))))).....(((.....))).. ( -17.70)
>DroSim_CAF1 2499 100 - 1
AAAGAAAAUUCAAUAUAAUCUACAA---------------ACGAUAGCCAAUCA-----GUUAUCGACCGCGACCCCACAAACAUGAAAUUAAUGUAUUGAAAAAGAGUGAUUAACACAA
........(((((((((........---------------.(((((((......-----)))))))............((....)).......))))))))).....(((.....))).. ( -15.30)
>DroYak_CAF1 2428 120 - 1
AAAGAAAAUUCAAUAUAAUCUACAAUCUACAAUCCACAAUAUGAUAGCCAAUCAGUUCAGUUAUCGAACGCGACCCCACAAACAUGAAAUUAAUGUAUUGAAAAAGAGUGAUUAACACAA
........(((((((((........................((((.....))))((((.......))))........................))))))))).....(((.....))).. ( -13.50)
>consensus
AAAGAAAAUUCAAUAUAAUCUACAA_______________ACGAUAGCCAAUCA_____GUUAUCGACCGCGACCCCACAAACAUGAAAUUAAUGUAUUGAAAAAGAGUGAUUAACACAA
........(((((((((........................(((((((...........)))))))............((....)).......))))))))).....(((.....))).. (-13.59 = -13.37 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:28:51 2006