Locus 3549

Sequence ID 3L_DroMel_CAF1
Location 10,395,493 – 10,395,611
Length 118
Max. P 0.556161
window5539

overview

Window 9

Location 10,395,493 – 10,395,611
Length 118
Sequences 4
Columns 118
Reading direction forward
Mean pairwise identity 98.16
Mean single sequence MFE -24.90
Consensus MFE -24.56
Energy contribution -24.38
Covariance contribution -0.19
Combinations/Pair 1.06
Mean z-score -1.59
Structure conservation index 0.99
SVM decision value 0.04
SVM RNA-class probability 0.556161
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10395493 118 + 23771897
UAUCAAUUAUGCGGCACAUUUUUGCUGUUAUAAAUAUUUACGCAGAAAUUAAUUAUUUGAUAUUAAAAUGACCGCCAACAUUUUACACUCGACUGGGGCCUAGGAUCUGCGAAAUCCA
......((((((((((......))))).))))).......((((((..........((((...(((((((........)))))))...))))((((...))))..))))))....... ( -23.30)
>DroSec_CAF1 266788 118 + 1
UAUCAAUUAUGCGGCCCAUUUUUGCUGUUAUAAAUAUUUACGCAGAAAUUAAUUAUUUGAUAUUAAAAUGACCGCCAACAUUUUACACUCGACUGGGGCCCAGGAUCUGCGAAAUCCA
.........((.(((((((((((((.((...........)))))))))).......((((...(((((((........)))))))...))))...)))))))((((.......)))). ( -25.40)
>DroSim_CAF1 278807 118 + 1
UAUCAAUUAUGCGGCACAUUUUUGCUGUUAUAAAUAUUUACGCAGAAAUUAAUUAUUUGAUAUUAAAAUGACCGCCAACAUUUUACACUCGACUGGGGUCCAGGAUCUGCGAAAUCCA
......((((((((((......))))).))))).......((((((..........((((...(((((((........)))))))...))))((((...))))..))))))....... ( -25.60)
>DroYak_CAF1 279685 118 + 1
UAUCAAUUAUGCGGCACAUUUUUGCUGCUAUAAAUAUUUACGCAGAAAUUAAUUAUUUGAUAUUAAAAUGACCGCCAACAUUUUACACUCGACUGGGGCCUAGGAUCUGCGAAAUCCA
......((((((((((......)))))).)))).......((((((..........((((...(((((((........)))))))...))))((((...))))..))))))....... ( -25.30)
>consensus
UAUCAAUUAUGCGGCACAUUUUUGCUGUUAUAAAUAUUUACGCAGAAAUUAAUUAUUUGAUAUUAAAAUGACCGCCAACAUUUUACACUCGACUGGGGCCCAGGAUCUGCGAAAUCCA
......((((((((((......)))))).)))).......((((((..........((((...(((((((........)))))))...))))((((...))))..))))))....... (-24.56 = -24.38 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:00:47 2006