Locus 3904

Sequence ID 2L_DroMel_CAF1
Location 11,416,478 – 11,416,574
Length 96
Max. P 0.766541
window6153

overview

Window 3

Location 11,416,478 – 11,416,574
Length 96
Sequences 4
Columns 107
Reading direction forward
Mean pairwise identity 76.34
Mean single sequence MFE -19.40
Consensus MFE -11.46
Energy contribution -13.02
Covariance contribution 1.56
Combinations/Pair 1.06
Mean z-score -1.90
Structure conservation index 0.59
SVM decision value 0.52
SVM RNA-class probability 0.766541
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11416478 96 + 22407834
---CAGUCCCACCCCAUUUCAUGCCCAUCCUCGGACAGGUUGGGAUACCAUACCCAUACCCAUACC------CAAGCUC--AUGCCAUCUCCCGAUGGAUGAAAACA
---......................(((((((((...(((((((........)))).)))......------...((..--..))......)))).)))))...... ( -22.10)
>DroSec_CAF1 133989 96 + 1
---CAGUCCCACCCCAUUUCAUGCCCAUCCUCGGACAGGUUGGGAUACCAUACCCAUACCCAUACC------CAAGCCC--AUGCCAUCUCCCGAUGGAUGAAAACA
---......................(((((((((...(((((((........)))).)))......------...((..--..))......)))).)))))...... ( -20.90)
>DroSim_CAF1 140779 102 + 1
---CAGUCCCACCCCAUUUCAUGCCCAUCCUCGGACAGGUUGGGAUACCAUACCCAUACCCAUACCCAUAGCCAAGCCC--AUGCCAUCUCCCGAUGGAUGAAAACA
---......................(((((((((...(((((((........)))).)))...............((..--..))......)))).)))))...... ( -20.90)
>DroAna_CAF1 119951 93 + 1
AGCCUGCUCCUCCCCCACCCACGCCCCU------------GGCAAUACCAUACCCAUGCCCAUCUU--UAGACAGGUCGAAAUACCAGCUCGCGAUGGAUGAAAACA
...............((.((((((....------------((((............))))......--......(((......))).....))).))).))...... ( -13.70)
>consensus
___CAGUCCCACCCCAUUUCAUGCCCAUCCUCGGACAGGUUGGGAUACCAUACCCAUACCCAUACC______CAAGCCC__AUGCCAUCUCCCGAUGGAUGAAAACA
................((((((.((((.(((.....))).))))........................................(((((....)))))))))))... (-11.46 = -13.02 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:04:21 2006