Locus 6909

Sequence ID 2L_DroMel_CAF1
Location 19,272,229 – 19,272,348
Length 119
Max. P 0.954879
window11009 window11010

overview

Window 9

Location 19,272,229 – 19,272,348
Length 119
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 96.37
Mean single sequence MFE -31.02
Consensus MFE -28.34
Energy contribution -28.37
Covariance contribution 0.03
Combinations/Pair 1.03
Mean z-score -1.56
Structure conservation index 0.91
SVM decision value 1.45
SVM RNA-class probability 0.954879
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19272229 119 + 22407834
AUGCAAAU-UUCUGUCGACAUCGACGCACUAAAUGCGACUUGCAAAUUAAUGAAAUGAACCUUUAACUUGAGUUUAACUUGGCGCCAUUUUAGCCAGAACGCGCGAGAUAAGGCGCCACC
.(((((..-....((((....))))(((.....)))...)))))...........((((((........).)))))...((((((((((((.((......))..)))))..))))))).. ( -30.60)
>DroSec_CAF1 13463 119 + 1
AUGCAAAU-UUCUGUCGACAUCGACGCACUAAAUGAGACUUGCAAAUUAAUGAAAUGAACCUUUAACUUGAGUUUAACUUGGCGCCAUUUUAGCCAGAACGUGCGAGAUAAGGCGCCACC
.(((((.(-((((((((....)))))........)))).)))))...........((((((........).)))))...((((((((((((.(((.....).)))))))..))))))).. ( -28.80)
>DroSim_CAF1 20346 119 + 1
AUGCAAAU-UUCUGUCGACAUCGACGCACUAAAUGCGACUUGCAAAUUAAUGAAAUGAACCUUUAACUUGAGUUUAACUUGGCGCCAUUUUAGCCAGAACGCGCGAGAUAAGGCGCCACC
.(((((..-....((((....))))(((.....)))...)))))...........((((((........).)))))...((((((((((((.((......))..)))))..))))))).. ( -30.60)
>DroEre_CAF1 20207 119 + 1
AUGCAAAU-UUCUGUCGACAUCGACGCACUAAAUGCGACUUGCAAAUUAAUGAAAUGAACCUUUAACUUGAGUUUAACUUGGCGCCAUUUUAGCCAGAACGGGCGAGAUAAGGCGCCACC
.(((((..-....((((....))))(((.....)))...)))))...........((((((........).)))))...((((((((((((.(((......))))))))..))))))).. ( -33.40)
>DroYak_CAF1 19491 119 + 1
AUGCAAAU-UUCUGUCGACAUCGACGCACUAAAUGCGACUUGCAAAUUAAUGAAAUGAACCUUUAACUUGAGUUUAACUUGGCGCCAUUUUAGCCGGAACGCGCGAGAUAAGGCGCCACC
.(((((..-....((((....))))(((.....)))...)))))...........((((((........).)))))...((((((((((((.((......))..)))))..))))))).. ( -30.60)
>DroAna_CAF1 35680 116 + 1
AUGCAAAUUUUCUGUCGACAUCGACGCACUAAAUGCGACUUGCAAAUUAAUGAAAUGAACCUUUAACUUGAGUUUAACUUGGCGCCUUUUUAGC----GCCGGCGAGAUAAGGCGCCGCC
.(((((.......((((....))))(((.....)))...)))))...........((((((........).)))))....((((((((....((----....)).....))))))))... ( -32.10)
>consensus
AUGCAAAU_UUCUGUCGACAUCGACGCACUAAAUGCGACUUGCAAAUUAAUGAAAUGAACCUUUAACUUGAGUUUAACUUGGCGCCAUUUUAGCCAGAACGCGCGAGAUAAGGCGCCACC
.(((((.......((((....))))(((.....)))...)))))...........((((((........).)))))...(((((((..(((.((........)).)))...))))))).. (-28.34 = -28.37 +   0.03)

alignment

Postscript

secondary structure

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dotplot

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Window 0

Location 19,272,229 – 19,272,348
Length 119
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 96.37
Mean single sequence MFE -31.62
Consensus MFE -29.29
Energy contribution -29.62
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -0.90
Structure conservation index 0.93
SVM decision value -0.04
SVM RNA-class probability 0.513527
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19272229 119 - 22407834
GGUGGCGCCUUAUCUCGCGCGUUCUGGCUAAAAUGGCGCCAAGUUAAACUCAAGUUAAAGGUUCAUUUCAUUAAUUUGCAAGUCGCAUUUAGUGCGUCGAUGUCGACAGAA-AUUUGCAU
..(((((((.......((........))......)))))))..........(((((((.((......)).)))))))((((((.((((...))))((((....))))....-)))))).. ( -31.42)
>DroSec_CAF1 13463 119 - 1
GGUGGCGCCUUAUCUCGCACGUUCUGGCUAAAAUGGCGCCAAGUUAAACUCAAGUUAAAGGUUCAUUUCAUUAAUUUGCAAGUCUCAUUUAGUGCGUCGAUGUCGACAGAA-AUUUGCAU
..(((((((.......((........))......)))))))..........(((((((.((......)).)))))))((((((.((((...))..((((....)))).)).-)))))).. ( -26.92)
>DroSim_CAF1 20346 119 - 1
GGUGGCGCCUUAUCUCGCGCGUUCUGGCUAAAAUGGCGCCAAGUUAAACUCAAGUUAAAGGUUCAUUUCAUUAAUUUGCAAGUCGCAUUUAGUGCGUCGAUGUCGACAGAA-AUUUGCAU
..(((((((.......((........))......)))))))..........(((((((.((......)).)))))))((((((.((((...))))((((....))))....-)))))).. ( -31.42)
>DroEre_CAF1 20207 119 - 1
GGUGGCGCCUUAUCUCGCCCGUUCUGGCUAAAAUGGCGCCAAGUUAAACUCAAGUUAAAGGUUCAUUUCAUUAAUUUGCAAGUCGCAUUUAGUGCGUCGAUGUCGACAGAA-AUUUGCAU
..(((((((.......(((......)))......)))))))..........(((((((.((......)).)))))))((((((.((((...))))((((....))))....-)))))).. ( -34.12)
>DroYak_CAF1 19491 119 - 1
GGUGGCGCCUUAUCUCGCGCGUUCCGGCUAAAAUGGCGCCAAGUUAAACUCAAGUUAAAGGUUCAUUUCAUUAAUUUGCAAGUCGCAUUUAGUGCGUCGAUGUCGACAGAA-AUUUGCAU
..(((((((.......((.((...))))......)))))))..........(((((((.((......)).)))))))((((((.((((...))))((((....))))....-)))))).. ( -31.62)
>DroAna_CAF1 35680 116 - 1
GGCGGCGCCUUAUCUCGCCGGC----GCUAAAAAGGCGCCAAGUUAAACUCAAGUUAAAGGUUCAUUUCAUUAAUUUGCAAGUCGCAUUUAGUGCGUCGAUGUCGACAGAAAAUUUGCAU
(((((((........))))(((----(((.....))))))..)))......(((((((.((......)).)))))))((((((.((((...))))((((....)))).....)))))).. ( -34.20)
>consensus
GGUGGCGCCUUAUCUCGCGCGUUCUGGCUAAAAUGGCGCCAAGUUAAACUCAAGUUAAAGGUUCAUUUCAUUAAUUUGCAAGUCGCAUUUAGUGCGUCGAUGUCGACAGAA_AUUUGCAU
..(((((((.......((........))......)))))))..........(((((((.((......)).)))))))((((((.((((...))))((((....)))).....)))))).. (-29.29 = -29.62 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:22:36 2006