Locus 367

Sequence ID 3R_DroMel_CAF1
Location 1,419,283 – 1,419,404
Length 121
Max. P 0.999858
window610 window611

overview

Window 0

Location 1,419,283 – 1,419,388
Length 105
Sequences 5
Columns 105
Reading direction forward
Mean pairwise identity 97.14
Mean single sequence MFE -20.96
Consensus MFE -20.64
Energy contribution -20.44
Covariance contribution -0.20
Combinations/Pair 1.07
Mean z-score -2.32
Structure conservation index 0.98
SVM decision value 4.05
SVM RNA-class probability 0.999774
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1419283 105 + 27905053
AUUGAAACACUCAAGAACAUUUCGGUCCUUGUGUACGCAACAGUUUUAAUAGUAACCACACUAAACGCGCAUAUAUAUUCUCCGAUAUAUAUGUCUGUAUGCCAA
........((.((((.((......)).)))).))..(((((((......((((......)))).....(((((((((((....))))))))))))))).)))... ( -21.10)
>DroSec_CAF1 1000 105 + 1
ACUGAAACACUCAAGAGCAUUUCGGUCCUUGUGUACGCAACAGUUUUAAUAGUAACCACACUAAACACGCAUAUAUAUUCUCCGAUAUAUAUGUCUGUAUGCCAA
........((.((((..(......)..)))).))..(((((((......((((......)))).....(((((((((((....))))))))))))))).)))... ( -22.00)
>DroSim_CAF1 1000 105 + 1
ACUGAAACACUCAAGAGCAUUUCGGUCCUUGUGUACGCAACAGUUUUAAUAGUAACCACACUAAACACGCAUAUAUAUUAUCCGAUAUAUAUGUCUGUAUGCCAA
........((.((((..(......)..)))).))..(((((((......((((......)))).....(((((((((((....))))))))))))))).)))... ( -22.20)
>DroEre_CAF1 983 105 + 1
ACUGAAACACUCAAGAACAUUUCGGUCCUUGUGUACGCAACAGUUUUAAUAGCAACCACACUAAACACGCAUAUAUAUUCUCCGAUAUAUAUGUCUGUAUGCCAA
........((.((((.((......)).)))).))..(((...(((.....)))...........(((.(((((((((((....))))))))))).))).)))... ( -19.80)
>DroYak_CAF1 989 105 + 1
ACUGAAACACUCAAGAAUAUUUCGGUCCUUGUGUACGCAACAGUUAUAAUAGUAACCACACUAAACACGCAUAUAUAUUCUCCGAUAUAUAUGUCUGUAUGCCAA
........((.((((.((......)).)))).))..(((...(((((....)))))........(((.(((((((((((....))))))))))).))).)))... ( -19.70)
>consensus
ACUGAAACACUCAAGAACAUUUCGGUCCUUGUGUACGCAACAGUUUUAAUAGUAACCACACUAAACACGCAUAUAUAUUCUCCGAUAUAUAUGUCUGUAUGCCAA
........((.((((.((......)).)))).))..(((((((......((((......)))).....(((((((((((....))))))))))))))).)))... (-20.64 = -20.44 +  -0.20) 

alignment

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secondary structure

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dotplot

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Window 1

Location 1,419,313 – 1,419,404
Length 91
Sequences 5
Columns 91
Reading direction forward
Mean pairwise identity 97.80
Mean single sequence MFE -17.62
Consensus MFE -17.14
Energy contribution -17.34
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -2.66
Structure conservation index 0.97
SVM decision value 4.28
SVM RNA-class probability 0.999858
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1419313 91 + 27905053
GUGUACGCAACAGUUUUAAUAGUAACCACACUAAACGCGCAUAUAUAUUCUCCGAUAUAUAUGUCUGUAUGCCAAUACUUAUUAUAUAGUU
((((..(((((((......((((......)))).....(((((((((((....))))))))))))))).)))..))))............. ( -17.80)
>DroSec_CAF1 1030 91 + 1
GUGUACGCAACAGUUUUAAUAGUAACCACACUAAACACGCAUAUAUAUUCUCCGAUAUAUAUGUCUGUAUGCCAAUACUUACUAUAUAGUU
((((..(((((((......((((......)))).....(((((((((((....))))))))))))))).)))..))))............. ( -17.80)
>DroSim_CAF1 1030 91 + 1
GUGUACGCAACAGUUUUAAUAGUAACCACACUAAACACGCAUAUAUAUUAUCCGAUAUAUAUGUCUGUAUGCCAAUACUUACUAUAUAGUU
((((..(((((((......((((......)))).....(((((((((((....))))))))))))))).)))..))))............. ( -18.00)
>DroEre_CAF1 1013 91 + 1
GUGUACGCAACAGUUUUAAUAGCAACCACACUAAACACGCAUAUAUAUUCUCCGAUAUAUAUGUCUGUAUGCCAAUACUUACUAUAUAGUU
((((..(((...(((.....)))...........(((.(((((((((((....))))))))))).))).)))..))))............. ( -16.50)
>DroYak_CAF1 1019 91 + 1
GUGUACGCAACAGUUAUAAUAGUAACCACACUAAACACGCAUAUAUAUUCUCCGAUAUAUAUGUCUGUAUGCCAAUACUUACUAUAUAGUU
((((..(((...(((((....)))))........(((.(((((((((((....))))))))))).))).)))..))))............. ( -18.00)
>consensus
GUGUACGCAACAGUUUUAAUAGUAACCACACUAAACACGCAUAUAUAUUCUCCGAUAUAUAUGUCUGUAUGCCAAUACUUACUAUAUAGUU
((((..(((((((......((((......)))).....(((((((((((....))))))))))))))).)))..))))............. (-17.14 = -17.34 +   0.20) 

alignment

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secondary structure

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dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:41:31 2006