Locus 2991

Sequence ID	X_DroMel_CAF1
Location	7,963,178 – 7,963,338
Length	160
Max. P	0.825769

overview

Window 6

Location	7,963,178 – 7,963,298
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	93.06
Mean single sequence MFE	-41.70
Consensus MFE	-33.79
Energy contribution	-34.85
Covariance contribution	1.06
Combinations/Pair	1.05
Mean z-score	-2.12
Structure conservation index	0.81
SVM decision value	0.70
SVM RNA-class probability	0.825769
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7963178 120 + 22224390
CUGCAUGCCAUCCUCAAUGAAUCCAAGCUAACGGCGGAAGGCACUCAACUGCAUACGUAUGUGGAGCAACUGUUACCACUACUCCAGGACAACUGGAUGGAGGUGCGGCCGCAGCAGCAA
((((.((((.(((....((....)).((.....))))).)))).....((((((..(((.(((((((....))).)))))))(((((.....))))).....))))))..))))...... ( -39.10)
>DroSim_CAF1 13299 120 + 1
CUGCAUGCCAUCCUCAAUGAAUCCAAGCUAACGGCGGAGGGCACUCAACUGCAUACGUAUGUGGAGCAACUGCUACCACUUCUCCAGGACAACUGGAUGGAGGUGCGGCCGCAGCAGCAA
.(((.((((.(((....((....)).((.....))))).)))).....((((...(((((.((((((....))).)))(((((((((.....))))).)))))))))...))))..))). ( -42.40)
>DroEre_CAF1 14216 120 + 1
CUGCAUACCAUACUCAAUGAAUCCAAGCUAACUGCGGAGGGCACUCAACUGCAUACCUACGUGGAGCAACUGCUUCCACUUCUCCAGGACAACUGGAUGGAGGUGCGUCCGCAGCAGCAA
..........................(((..(((((((.((((......))).(((((..(((((((....)).))))).(((((((.....))))).)))))))).))))))).))).. ( -41.20)
>DroYak_CAF1 14525 120 + 1
CUGCAUGCCAUCCUCAAUGAAUCCAAGCUAACUGCGGAAGGCACGCAACUGCAUACGUACGUGCAGCAACUGCUUCCUCUGCUCCAGGACAACUGGAUGGAGGUGCGACCGCAGGAGCAA
((((.((((.(((....((....)).((.....))))).))))((((.((((((......)))))).........((((((.(((((.....)))))))))))))))...))))...... ( -44.10)
>consensus
CUGCAUGCCAUCCUCAAUGAAUCCAAGCUAACGGCGGAAGGCACUCAACUGCAUACGUACGUGGAGCAACUGCUACCACUUCUCCAGGACAACUGGAUGGAGGUGCGGCCGCAGCAGCAA
.(((.((((.(((....((....)).((.....))))).)))).....((((...(((((..(((((....))).)).(((((((((.....))))).)))))))))...))))..))). (-33.79 = -34.85 +   1.06)

alignment

secondary structure

dotplot

Window 7

Location	7,963,218 – 7,963,338
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	94.17
Mean single sequence MFE	-43.73
Consensus MFE	-34.66
Energy contribution	-35.98
Covariance contribution	1.31
Combinations/Pair	1.03
Mean z-score	-1.89
Structure conservation index	0.79
SVM decision value	0.10
SVM RNA-class probability	0.581777
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7963218 120 + 22224390
GCACUCAACUGCAUACGUAUGUGGAGCAACUGUUACCACUACUCCAGGACAACUGGAUGGAGGUGCGGCCGCAGCAGCAACAACCUCUGCUCAACCAAGAUGCGGCGGCCAGUCUGCAUG
(((..(....((((..(((.(((((((....))).)))))))(((((.....))))).....))))((((((.((((((........)))((......))))).)))))).)..)))... ( -43.40)
>DroSim_CAF1 13339 120 + 1
GCACUCAACUGCAUACGUAUGUGGAGCAACUGCUACCACUUCUCCAGGACAACUGGAUGGAGGUGCGGCCGCAGCAGCAACAACCUCUGCUCAACCAAGAUGCGGCGGCCAGUCUGCAUG
.........((((.((((((.((((((....))).)))(((((((((.....))))).))))))))((((((.((((((........)))((......))))).)))))).)).)))).. ( -45.50)
>DroEre_CAF1 14256 120 + 1
GCACUCAACUGCAUACCUACGUGGAGCAACUGCUUCCACUUCUCCAGGACAACUGGAUGGAGGUGCGUCCGCAGCAGCAACAACCUCUGCUCAACCAAGAUGCGGCGGCCAGUCUGCAUG
(((......)))........(((((((....(((((((....(((((.....)))))))))))))).))))).((((......((.((((((......)).)))).)).....))))... ( -39.70)
>DroYak_CAF1 14565 120 + 1
GCACGCAACUGCAUACGUACGUGCAGCAACUGCUUCCUCUGCUCCAGGACAACUGGAUGGAGGUGCGACCGCAGGAGCAACAACCUUUGCUCAACCAAGAUGCGGCGGCCAGCCUGCAUG
(((.(((.((((...(((((..((((...))))...(((((.(((((.....)))))))))))))))...))))((((((......))))))........)))(((.....))))))... ( -46.30)
>consensus
GCACUCAACUGCAUACGUACGUGGAGCAACUGCUACCACUUCUCCAGGACAACUGGAUGGAGGUGCGGCCGCAGCAGCAACAACCUCUGCUCAACCAAGAUGCGGCGGCCAGUCUGCAUG
(((..(....((((........(((((....))).)).(((((((((.....))))).))))))))((((((.((((((........)))((......))))).)))))).)..)))... (-34.66 = -35.98 +   1.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:30 2006