Locus 1005

Sequence ID X_DroMel_CAF1
Location 2,907,306 – 2,907,398
Length 92
Max. P 0.683288
window1627

overview

Window 7

Location 2,907,306 – 2,907,398
Length 92
Sequences 5
Columns 92
Reading direction forward
Mean pairwise identity 97.60
Mean single sequence MFE -14.36
Consensus MFE -12.30
Energy contribution -12.30
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.53
Structure conservation index 0.86
SVM decision value 0.31
SVM RNA-class probability 0.683288
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2907306 92 + 22224390
GGAAAAAAAAUAAAAUAAAACGCCAGGAUAAUCAAUAAAUGAAAUUCAAUUUGCUGCGCCAUUUGCGCAGACAGUCAACAACAACGGAGAUA
....................(.((.((((..(((.....))).))))...(((((((((.....)))))).)))...........)).)... ( -14.70)
>DroSec_CAF1 293946 91 + 1
GGAAA-AAAAUAAAAUAAAACGCCAGGAUAAUCAAUAAAUGAAAUUCAAUUUGCUGCGCCAUUUGCGCAGACAGUCAACAACAACGGAGAUA
.....-..............(.((.((((..(((.....))).))))...(((((((((.....)))))).)))...........)).)... ( -14.70)
>DroSim_CAF1 263085 92 + 1
GGAAAAAAAAUAAAAUAAAACGCCAGGAUAAUCAAUAAAUGAAAUUCAAUUUGCUGCGCCAUUUGCGCAGACAGUCAACAACAACGGAGGUA
.....................(((.((((..(((.....))).))))...(((((((((.....)))))).)))..............))). ( -15.90)
>DroEre_CAF1 317999 90 + 1
GGAAA--AAAUAAAAUAAAACGCCAGGAUAAUCAAUAAAUGAAAUUCAAUUUGCUGCGCCAUUUGCGCAGACAGUCAACAACAACAGAGAUA
.....--..................((((..(((.....))).))))...(((((((((.....)))))).))).................. ( -12.30)
>DroYak_CAF1 302466 91 + 1
GGAAA-AAAAUAAAAUAAAACGCCAGGAUAAUCAAUAAAUGAAAUUCAAUUUGCUGCGCCAUUUGCGCAGACAGUCAACAACAACGCAGAUA
.....-...............((..((((..(((.....))).))))...(((((((((.....)))))).)))...........))..... ( -14.20)
>consensus
GGAAA_AAAAUAAAAUAAAACGCCAGGAUAAUCAAUAAAUGAAAUUCAAUUUGCUGCGCCAUUUGCGCAGACAGUCAACAACAACGGAGAUA
.........................((((..(((.....))).))))...(((((((((.....)))))).))).................. (-12.30 = -12.30 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:59:10 2006