Locus 8011

Sequence ID X_DroMel_CAF1
Location 19,921,420 – 19,921,525
Length 105
Max. P 0.958493
window13150

overview

Window 0

Location 19,921,420 – 19,921,525
Length 105
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 89.43
Mean single sequence MFE -31.02
Consensus MFE -26.76
Energy contribution -26.72
Covariance contribution -0.04
Combinations/Pair 1.04
Mean z-score -1.83
Structure conservation index 0.86
SVM decision value 1.49
SVM RNA-class probability 0.958493
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19921420 105 + 22224390
--GUGGAAGGGCACUUUCCUGCGCCGUGGCGCC----CCGCCUAAUUGGCGAACCACUCGGGCCCGUGCUUUCAU------UUCCAUUUCCACCGCCAUUUCCACCUCCACUUCCGC
--((((((((((.(......).)))((((((((----(.(((.....)))((.....))))))..(((.......------.........))).)))))...........))))))) ( -33.79)
>DroSec_CAF1 35578 105 + 1
--GUGGAAGGGCACUUUCCUGCGCCGUGGCGCC----CCGCCUAAUUGGCGAACCACUCGGGCCCGUGCUUCCAU------UUCCAUUUCCACCUCCAUUUCCACCUCCACUUCCGC
--((((((((((.(......).)))((((.(((----(.(((.....)))((.....))))))..(((.......------.........)))........)))).....))))))) ( -30.89)
>DroSim_CAF1 27016 105 + 1
--GUGGAAGGGCACUUUCCUGCGCCGUGGCGCC----CCGCCUAAUUGGCGAACCACUCGGGCCCGUGCUUCCAU------UUCCAUUUCCACCUCCAUUUCCACCUCCACUUCCGC
--((((((((((.(......).)))((((.(((----(.(((.....)))((.....))))))..(((.......------.........)))........)))).....))))))) ( -30.89)
>DroEre_CAF1 32631 97 + 1
--GUGGAAGGGCACUUUCCUGCGCCGUGGCACC----CCGCCUAAUUGGCGAACCACUUG-GCCCGUGCUUUCAU-------------UUCACCUCCGUUUCCACCUCCACUUCCGC
--((((((((((.(......).)))(.(((((.----.((((.....))))..((....)-)...)))))..)..-------------......................))))))) ( -28.80)
>DroYak_CAF1 33999 116 + 1
GGGUGGCAGGGCACUUUCCUGCGCCGUGGCGCCACCACCGCCUAAUUGGCGAACCACUCG-UCCCGUGCUUCCAUGCCCAUUUCCAUUUCCACCUCCAUUUCCACCUCCACUUCCGC
((((((..(((((.......((((.(.((((.......((((.....)))).......))-))).)))).....)))))..........))))))...................... ( -30.74)
>consensus
__GUGGAAGGGCACUUUCCUGCGCCGUGGCGCC____CCGCCUAAUUGGCGAACCACUCGGGCCCGUGCUUCCAU______UUCCAUUUCCACCUCCAUUUCCACCUCCACUUCCGC
..((((((((((.(......).)))((((..........(((.....)))(((.(((........))).))).............................)))).....))))))) (-26.76 = -26.72 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:53:13 2006