Locus 5055

Sequence ID X_DroMel_CAF1
Location 13,245,932 – 13,246,040
Length 108
Max. P 0.594625
window8222

overview

Window 2

Location 13,245,932 – 13,246,040
Length 108
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 75.97
Mean single sequence MFE -22.50
Consensus MFE -8.54
Energy contribution -9.38
Covariance contribution 0.84
Combinations/Pair 1.25
Mean z-score -1.82
Structure conservation index 0.38
SVM decision value 0.12
SVM RNA-class probability 0.594625
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13245932 108 - 22224390
GGGCAAUGAUUG--------CAUUAUUAUAAGCUUAUUGAUAUCAUAAUUUGU-UUUUUUUUUUUUUGCUCAAAAAUGCAAAAUUUAAAAUCCGCAUUCUGAGUCGAUAGCCCUUGU
((((.(((((..--------....))))).....(((((((.(((.(((.((.-.((((....((((((........))))))...))))..)).))).)))))))))))))).... ( -24.40)
>DroSec_CAF1 2357 106 - 1
GGGCAAUGAUUG--------CAGUAUUAUAUGCUUAUUAAUAUCAUAAUUUGU-UUGGU--AUUAUUGCUCAAAAAUGCAAUAAUUAAAGUCCGUAUUCUGAGUCGAUAGCCCUUGU
((((..(((((.--------(((...(((..((((.....(((((........-.))))--)(((((((........)))))))...))))..)))..))))))))...)))).... ( -24.70)
>DroSim_CAF1 2399 106 - 1
GGGCAAUGAUUG--------CAGUAUUAUAUGCUUAUUAAUAUCAUAAUUUGU-UUGGU--AUUAUUGCUCAAAAAUGCAAUAAUUAAAAUCCGUAUUCUGAGUCGAUAGCCCUUGU
((((..(((((.--------(((....(((((..(.(((((((((........-.))))--)(((((((........))))))))))).)..))))).))))))))...)))).... ( -23.70)
>DroEre_CAF1 2389 115 - 1
GUGCAUAGAUUUGGAACAAUGAUUAUUCGAUUCGCAUUAAUAUCAUCAUUUUUAUUGGU--ACCAAUGCUCAAAAAUGCAAUAAUUAAAAACCGUAUUCCAGAUCGAUAGCCCUUGU
..((...(((((((((...(((....)))....(((((..(((((..........))))--)..)))))...........................)))))))))....))...... ( -19.70)
>DroYak_CAF1 2298 97 - 1
AGGCAAUGAUUG--------GAUUAUUAGAUAAGCAUUAGUAUCAUACUUAUUAUUGAU--AUUAU----------UGCAAUAAUUUCAAACAGUAUUCCAAGUCGAUAGCCCUUGU
.(((..((((((--------((.((((((((..(((.((((((((..........))))--)))).----------)))....)))).....)))).))).)))))...)))..... ( -20.00)
>consensus
GGGCAAUGAUUG________CAUUAUUAUAUGCUUAUUAAUAUCAUAAUUUGU_UUGGU__AUUAUUGCUCAAAAAUGCAAUAAUUAAAAUCCGUAUUCUGAGUCGAUAGCCCUUGU
((((..(((((............(((((.........))))).....................((((((........))))))..................)))))...)))).... ( -8.54 =  -9.38 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:02 2006