Locus 3197

Sequence ID	X_DroMel_CAF1
Location	8,468,032 – 8,468,124
Length	92
Max. P	0.997856

overview

Window 6

Location	8,468,032 – 8,468,124
Length	92
Sequences	5
Columns	92
Reading direction	forward
Mean pairwise identity	91.96
Mean single sequence MFE	-16.38
Consensus MFE	-16.06
Energy contribution	-16.02
Covariance contribution	-0.04
Combinations/Pair	1.04
Mean z-score	-1.80
Structure conservation index	0.98
SVM decision value	2.95
SVM RNA-class probability	0.997856
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8468032 92 + 22224390
CCUGGCAUUUGCAAUGAAAAGUCAAAUGAAUUGAAAACUCAAAAUGCUUAAUGCUUAAAAGCAUUCACACACAGGGACAACUGAAAACUGAA
((((((((((....(((....((((.....))))....)))))))))..((((((....))))))......))))................. ( -17.10)
>DroSec_CAF1 10668 92 + 1
CCUGGCAUUUGCAAUGAAAAGUCAAAUGAAAUGAAAACUCAAAAUGCUUAAUGCUUAAAAGCAUUCACACACAGGGACAACUGAAAGCUGAC
((((((((((....(((....(((.......)))....)))))))))..((((((....))))))......))))................. ( -15.90)
>DroSim_CAF1 19895 92 + 1
CCUGGCAUUUGCAAUGAAAAGUCAAAUGAAUUGAAAACUCAAAAUGCUUAAUGCUUAAAAGCAUUCACACACAGGGACAACUGAAAACUGAC
((((((((((....(((....((((.....))))....)))))))))..((((((....))))))......))))................. ( -17.10)
>DroEre_CAF1 16849 80 + 1
CCUGGCAUUUGCAAUGAAAAGUCAAAUGAAUUGAAAACUCAAAAUGUUUAAUGCUUAAAAGCAUUCGCACACAGGGACAA------------
((((.(((((((........).))))))..((((....))))..(((..((((((....)))))).)))..)))).....------------ ( -15.90)
>DroYak_CAF1 17509 92 + 1
CCUGGCAUUUGCAAUGAAAAGUCAAAUGAAUUGAAAACUCAAAAUGUUUAAUGCUUAAAAGCAUUCGCACACAGGGACAAAUGAAAACUGAA
((((.(((((((........).))))))..((((....))))..(((..((((((....)))))).)))..))))................. ( -15.90)
>consensus
CCUGGCAUUUGCAAUGAAAAGUCAAAUGAAUUGAAAACUCAAAAUGCUUAAUGCUUAAAAGCAUUCACACACAGGGACAACUGAAAACUGAA
((((((((((....(((....((((.....))))....)))))))))..((((((....))))))......))))................. (-16.06 = -16.02 +  -0.04)

alignment

secondary structure

dotplot

Window 7

Location	8,468,032 – 8,468,124
Length	92
Sequences	5
Columns	92
Reading direction	reverse
Mean pairwise identity	91.96
Mean single sequence MFE	-18.74
Consensus MFE	-15.52
Energy contribution	-15.28
Covariance contribution	-0.24
Combinations/Pair	1.05
Mean z-score	-1.48
Structure conservation index	0.83
SVM decision value	0.47
SVM RNA-class probability	0.750273
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8468032 92 - 22224390
UUCAGUUUUCAGUUGUCCCUGUGUGUGAAUGCUUUUAAGCAUUAAGCAUUUUGAGUUUUCAAUUCAUUUGACUUUUCAUUGCAAAUGCCAGG
.................((((.((((.((((((....))))))..(((...((((...((((.....))))...)))).)))..)))))))) ( -19.70)
>DroSec_CAF1 10668 92 - 1
GUCAGCUUUCAGUUGUCCCUGUGUGUGAAUGCUUUUAAGCAUUAAGCAUUUUGAGUUUUCAUUUCAUUUGACUUUUCAUUGCAAAUGCCAGG
(.((((.....)))).)((((.((((.((((((....))))))..(((...((((...(((.......)))...)))).)))..)))))))) ( -21.30)
>DroSim_CAF1 19895 92 - 1
GUCAGUUUUCAGUUGUCCCUGUGUGUGAAUGCUUUUAAGCAUUAAGCAUUUUGAGUUUUCAAUUCAUUUGACUUUUCAUUGCAAAUGCCAGG
.................((((.((((.((((((....))))))..(((...((((...((((.....))))...)))).)))..)))))))) ( -19.70)
>DroEre_CAF1 16849 80 - 1
------------UUGUCCCUGUGUGCGAAUGCUUUUAAGCAUUAAACAUUUUGAGUUUUCAAUUCAUUUGACUUUUCAUUGCAAAUGCCAGG
------------.....((((..((((((((((....))))))........((((...((((.....))))...)))).)))).....)))) ( -15.80)
>DroYak_CAF1 17509 92 - 1
UUCAGUUUUCAUUUGUCCCUGUGUGCGAAUGCUUUUAAGCAUUAAACAUUUUGAGUUUUCAAUUCAUUUGACUUUUCAUUGCAAAUGCCAGG
.........(((((((....((((...((((((....))))))..))))..((((...((((.....))))...))))..)))))))..... ( -17.20)
>consensus
GUCAGUUUUCAGUUGUCCCUGUGUGUGAAUGCUUUUAAGCAUUAAGCAUUUUGAGUUUUCAAUUCAUUUGACUUUUCAUUGCAAAUGCCAGG
.................(((((((...((((((....))))))..)))................((((((.(........))))))).)))) (-15.52 = -15.28 +  -0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:34 2006