Locus 1442

Sequence ID 3R_DroMel_CAF1
Location 4,159,553 – 4,159,647
Length 94
Max. P 0.846289
window2403

overview

Window 3

Location 4,159,553 – 4,159,647
Length 94
Sequences 4
Columns 112
Reading direction forward
Mean pairwise identity 85.85
Mean single sequence MFE -25.66
Consensus MFE -20.25
Energy contribution -20.75
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.90
Structure conservation index 0.79
SVM decision value 0.77
SVM RNA-class probability 0.846289
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4159553 94 + 27905053
UCCACGUCCACGCACACAUUGAAUAUCACCACCACA------------------GCCACAGUCACAUCCACAUCUACAGGCUCAAGUGGAAGUGGAAGCCACCGCGUCGACG
....((((.((((...............((((...(------------------(((.....................))))...))))..((((...)))).)))).)))) ( -24.20)
>DroSec_CAF1 3500 100 + 1
UCCACGUCCACGCACACAUCGAACAUCACCACCACAUC------------GACAGUCACAGUCACAUCCACAUCUACAGGCUCAAGUGGAAGUGGAAGCCACCGCGUCGUCG
....((.(.((((.........................------------(((.......)))...(((((.(((((........))))).))))).......)))).).)) ( -23.20)
>DroSim_CAF1 8186 100 + 1
UCCACGUCCACGCACACAUCGAACAUCACCACCACAGC------------GACAGUCACAGUCACAUACACAUCUACAGGCUCAAGUGGAAGUGGAAGCCACCGCGUCGACG
....((((.((((.......(.....)....((((.(.------------(((.......))).).......(((((........))))).))))........)))).)))) ( -23.50)
>DroYak_CAF1 8528 112 + 1
UCCACGUCCACGCACACAUCGACCAUCACCUCCACAGUCGCAGUCGCUGUCACAGUCACAAUCACAUCCACAUCUACAGACUCAAGUGGAAGUGGAAGGCACCGCGUCGACG
....((((.((((.......(((.............)))((.((.((((...)))).)).....(.(((((.(((((........))))).))))).)))...)))).)))) ( -31.72)
>consensus
UCCACGUCCACGCACACAUCGAACAUCACCACCACAGC____________GACAGUCACAGUCACAUCCACAUCUACAGGCUCAAGUGGAAGUGGAAGCCACCGCGUCGACG
....((((.((((.......(.....).......................................(((((.(((((........))))).))))).......)))).)))) (-20.25 = -20.75 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:10:42 2006