Locus 6918

Sequence ID 3L_DroMel_CAF1
Location 18,669,820 – 18,670,033
Length 213
Max. P 0.914220
window11214 window11215

overview

Window 4

Location 18,669,820 – 18,669,929
Length 109
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 91.53
Mean single sequence MFE -19.63
Consensus MFE -18.66
Energy contribution -18.42
Covariance contribution -0.24
Combinations/Pair 1.04
Mean z-score -1.37
Structure conservation index 0.95
SVM decision value 1.09
SVM RNA-class probability 0.914220
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18669820 109 + 23771897
CGUCUUGUCAGCGGCUAACGAGCGCCACUUACACGCUCAACAAUCACUUAACCUCAAUUGUUGCUUCUGAAUAAAAAAUACAAAAAAAAAGGAAAAAAA---UAAGGAUGAG
((((((.((((.(((....(((((.........)))))((((((............))))))))).))))..........(.........)........---..)))))).. ( -18.10)
>DroSec_CAF1 7098 109 + 1
CGUCUUGUCAGCGGCUAACGAGCGCCACUUACACGCUCAACAAUCACUUAACCUCAAUUGUUGCUUCUGAAUAAAAAAUACAAAAAAAGCAAAAAAAAA---AAAGGAUGAG
((((((.((((.(((....(((((.........)))))((((((............))))))))).))))((.....))....................---..)))))).. ( -17.70)
>DroSim_CAF1 7044 104 + 1
CGUCUUGUCAGCGGCUAACGAGCGCCACUUACACGCUCAACAAUCACUUAACCUCAAUUGUUGCUUCUGAAUAAAAAAUACAAAAAA-G----UAAAAA---AAAGGAUGAG
((((((.((((.(((....(((((.........)))))((((((............))))))))).))))........(((......-)----))....---..)))))).. ( -21.40)
>DroEre_CAF1 7036 104 + 1
CGUCUUGUCAGCGGCUAACGAGCGCCACUUACACGCUCAACAAUCACUUAACCUCAAUUGUUGCUUCUGAAUAAAAAAUAUAAAAAA-----GGGCGAA---AAAGGACGAG
((((((((.((.(((........))).)).)).(((((((((((............)))))).(....)..................-----)))))..---..)))))).. ( -21.10)
>DroYak_CAF1 7146 112 + 1
CGUCUUGUCAGCGGCUAACGAGCGCCACUUACACGCUCAACAAUCACUUAACCUCAAUUGUUGCUUCUGAAUAAAAAAUACAAAAAAAAAAAAGGAAAAAUGAAAGGACGAG
((((((.((((.(((....(((((.........)))))((((((............))))))))).))))..........((..................))..)))))).. ( -19.87)
>consensus
CGUCUUGUCAGCGGCUAACGAGCGCCACUUACACGCUCAACAAUCACUUAACCUCAAUUGUUGCUUCUGAAUAAAAAAUACAAAAAAAA___AAAAAAA___AAAGGAUGAG
((((((.((((.(((....(((((.........)))))((((((............))))))))).))))((.....)).........................)))))).. (-18.66 = -18.42 +  -0.24)

alignment

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secondary structure

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dotplot

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Window 5

Location 18,669,929 – 18,670,033
Length 104
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.28
Mean single sequence MFE -33.94
Consensus MFE -21.95
Energy contribution -20.94
Covariance contribution -1.02
Combinations/Pair 1.50
Mean z-score -1.83
Structure conservation index 0.65
SVM decision value 0.34
SVM RNA-class probability 0.697619
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18669929 104 - 23771897
CACAAAGGA-----GGAG----------CUGCCACUAAAAU-GAGGGGAGUGCGAAACUAAGAGGUGGAGCCAUUGGCAUUGCUUUUUGCACUUUUCCCUUUACCCUUUGUUGUUGGCCC
.(((((((.-----((..----------...)).......(-(((((((((((((......((((..(.(((...))).)..))))))))))...)))))))).)))))))......... ( -32.50)
>DroSec_CAF1 7207 104 - 1
CACAAAAGA-----GAAG----------CUGGCAUUAAAAA-GUGGGGGGUGCGAAACUAAGAGGUGGAGCCAUUGGCAUUGCCUUUUGCACUUUUCCCUUUACCCUUUGUUGUUGGCCC
.........-----...(----------(..(((.((((..-((((((((........(((((((..(.(((...))).)..))))))).......))))))))..)))).)))..)).. ( -34.26)
>DroAna_CAF1 6555 119 - 1
CACAAAAGGCGCAAAAAGGAUCAAGGGAAAGGGAUUCAGAG-AAAGGCAAUGGCAGAGUCAGAGGCAGAGCCAUUGGCAUUGCCUUUUACGCUUUUCCCUUUACCCUUUGUUGUUCUGCU
..........(((..((.(((.((((((((((((....(.(-((((((((((.(((.......(((...))).))).))))))))))).).....))))))).))))).))).)).))). ( -41.60)
>DroSim_CAF1 7148 104 - 1
CACAAAAGA-----GAAG----------CUGCCAUUAAAAA-CAGGGGAGUGCGAAACUAAGAGGUGGAGCCAUUGGCAUUGCCUUUUGCACUUUUCCCUUUACCCUUUGUUGUUGGCCC
.........-----....----------..((((.....((-(((((((((((((......((((..(.(((...))).)..)))))))))))...........))))))))..)))).. ( -30.10)
>DroEre_CAF1 7140 104 - 1
CACAAAAGA-----GAAG----------CUGCCAUUAAAAA-GGGGGCGGGGCGCAACUAAGAGGCGGAGCCAUUGGCAUUGCCUUUUACACUUCUCCCUUUACCCUUUGUUGUUGGCUC
.........-----....----------..((((.(((.((-((((..((((.(....((((((((((.(((...))).)))))))))).....).))))...)))))).))).)))).. ( -36.60)
>DroYak_CAF1 7258 105 - 1
UACAAAAGA-----GAAG----------CUGCCAUUAAAAAAGAGGGGAGUGCGUAACUAAGAGGUGGAGCCAUUGGCAUUGCCUUUUACACUUUUCCCUUUACCCUUUCUUCUUGGCCC
.........-----....----------..((((..((.(((((((((((...((...(((((((..(.(((...))).)..))))))).))..)))))))....)))).))..)))).. ( -28.60)
>consensus
CACAAAAGA_____GAAG__________CUGCCAUUAAAAA_GAGGGGAGUGCGAAACUAAGAGGUGGAGCCAUUGGCAUUGCCUUUUACACUUUUCCCUUUACCCUUUGUUGUUGGCCC
..............................((((....(((.((((((((........((((((((((.(((...))).)))))))))).....))))))))....))).....)))).. (-21.95 = -20.94 +  -1.02)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:33:00 2006