Locus 7753

Sequence ID 3R_DroMel_CAF1
Location 20,796,678 – 20,796,816
Length 138
Max. P 0.995809
window12511 window12512

overview

Window 1

Location 20,796,678 – 20,796,790
Length 112
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 87.27
Mean single sequence MFE -23.81
Consensus MFE -18.93
Energy contribution -20.68
Covariance contribution 1.75
Combinations/Pair 1.10
Mean z-score -1.93
Structure conservation index 0.79
SVM decision value -0.03
SVM RNA-class probability 0.519116
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20796678 112 + 27905053
UACGAAAGUUAUUAUUCAAUUU-----AGUCUCAUUUUUCGAGUGUAACUGAAUGGCUAGCUGGCCAAUGCCUGGCAUGCUAUUUUUAUUACAUUAUUCUGCAAAAUAGUAACAACA
.......(((((((((......-----...(((.......)))(((((..(((((((..((((((....))).)))..)))))))...)))))...........))))))))).... ( -24.90)
>DroSec_CAF1 12467 112 + 1
UACGAAAGUUAUUAUUUAAUUU-----AAUCUCAUUUUUCGAGUGUAACUGAAUGGCUAGCUGGCCAAUGCCUGGCAUGCUAUUUUUAUUACAUUAUUCUGCAAAAUAGUAACAACA
.......((((((((((.....-----...(((.......)))(((((..(((((((..((((((....))).)))..)))))))...)))))..........)))))))))).... ( -26.40)
>DroSim_CAF1 12407 112 + 1
UACGAAAGUUAUUAUUUAAUUU-----AAUCUCAUUUUUCGAGUGUAACUGAAUGGCUAGCUGGCCAAUGCCUGGCAUGCUAUUUUUAUUACAUUAUUCUGCAAAAUAGUAACAACA
.......((((((((((.....-----...(((.......)))(((((..(((((((..((((((....))).)))..)))))))...)))))..........)))))))))).... ( -26.40)
>DroEre_CAF1 10082 112 + 1
UAAGAAAGAUAUUAUUUAAUUU-----GGCCUCCUUUUCCGAGUGUAACUGAAUGGCUAGCUGGCCAAUGCCUGGCAUGCUAUUUUUAUUACAUUAUUCUGCAAAAUAGUAACAACA
.......(.((((((((.((((-----((.........))))))((((..(((((((..((((((....))).)))..)))))))...))))...........)))))))).).... ( -23.30)
>DroYak_CAF1 4984 112 + 1
CCAUAAAGUUAUUACCUAAUUU-----AAUCUCCUUCUUCGAGUGUAACCGAAUGGCUAGCUGGCCAAUGCCUGGCAUGCUAUUUUUAUUACAUUAUUCUGCAAAAUAGUAACAACA
.......(((((((........-----...(((.......)))(((((..(((((((..((((((....))).)))..)))))))...))))).............))))))).... ( -22.00)
>DroAna_CAF1 6198 105 + 1
------------UUUUUAAUUAGCUCUUGGCCCAUUUUUCAAGUGUAACUAUAUGGCUAGUUGGCCAAUGCUUGGCAUGCUAUUUUUAUUACAUUAUUCAGCAAAAUAGUAACAACA
------------........(((((..(((..((((.....))))...)))...)))))((((((((.....)))).(((((((((................))))))))).)))). ( -19.89)
>consensus
UACGAAAGUUAUUAUUUAAUUU_____AAUCUCAUUUUUCGAGUGUAACUGAAUGGCUAGCUGGCCAAUGCCUGGCAUGCUAUUUUUAUUACAUUAUUCUGCAAAAUAGUAACAACA
.......((((((((((.............(((.......)))(((((..(((((((..((((((....))).)))..)))))))...)))))..........)))))))))).... (-18.93 = -20.68 +   1.75)

alignment

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secondary structure

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dotplot

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Window 2

Location 20,796,713 – 20,796,816
Length 103
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 94.90
Mean single sequence MFE -21.38
Consensus MFE -19.74
Energy contribution -19.97
Covariance contribution 0.22
Combinations/Pair 1.08
Mean z-score -2.00
Structure conservation index 0.92
SVM decision value 2.62
SVM RNA-class probability 0.995809
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20796713 103 + 27905053
GAGUGUAACUGAAUGGCUAGCUGGCCAAUGCCUGGCAUGCUAUUUUUAUUACAUUAUUCUGCAAAAUAGUAACAACACAGAUACACACACACAACCC-UCAAUA
..(((((.(((((((((..((((((....))).)))..))))))........((((((......)))))).......))).)))))...........-...... ( -22.50)
>DroSec_CAF1 12502 103 + 1
GAGUGUAACUGAAUGGCUAGCUGGCCAAUGCCUGGCAUGCUAUUUUUAUUACAUUAUUCUGCAAAAUAGUAACAACACAGAUACACACACACACCCC-UCAAUA
..(((((.(((((((((..((((((....))).)))..))))))........((((((......)))))).......))).)))))...........-...... ( -22.50)
>DroSim_CAF1 12442 103 + 1
GAGUGUAACUGAAUGGCUAGCUGGCCAAUGCCUGGCAUGCUAUUUUUAUUACAUUAUUCUGCAAAAUAGUAACAACACAGAUACACACACACACCCC-UCAAUA
..(((((.(((((((((..((((((....))).)))..))))))........((((((......)))))).......))).)))))...........-...... ( -22.50)
>DroEre_CAF1 10117 101 + 1
GAGUGUAACUGAAUGGCUAGCUGGCCAAUGCCUGGCAUGCUAUUUUUAUUACAUUAUUCUGCAAAAUAGUAACAACACAGAUACACACACAC--CCC-UCAAUA
..(((((.(((((((((..((((((....))).)))..))))))........((((((......)))))).......))).)))))......--...-...... ( -22.50)
>DroYak_CAF1 5019 102 + 1
GAGUGUAACCGAAUGGCUAGCUGGCCAAUGCCUGGCAUGCUAUUUUUAUUACAUUAUUCUGCAAAAUAGUAACAACACAGAUACACACACAC--CCCGUCAAUA
..(((((...(((((((..((((((....))).)))..)))))))............((((................)))))))))......--.......... ( -19.99)
>DroAna_CAF1 6226 103 + 1
AAGUGUAACUAUAUGGCUAGUUGGCCAAUGCUUGGCAUGCUAUUUUUAUUACAUUAUUCAGCAAAAUAGUAACAACACAGAUACACACACACACCUC-UGCACA
..(((((.((...(((((....))))).((.(((...(((((((((................))))))))).))))).)).)))))...........-...... ( -18.29)
>consensus
GAGUGUAACUGAAUGGCUAGCUGGCCAAUGCCUGGCAUGCUAUUUUUAUUACAUUAUUCUGCAAAAUAGUAACAACACAGAUACACACACACACCCC_UCAAUA
..(((((.(((((((((..((((((....))).)))..))))))........((((((......)))))).......))).))))).................. (-19.74 = -19.97 +   0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:53:57 2006