Locus 2955

Sequence ID 2R_DroMel_CAF1
Location 10,198,119 – 10,198,237
Length 118
Max. P 0.996149
window4881 window4882 window4883

overview

Window 1

Location 10,198,119 – 10,198,219
Length 100
Sequences 3
Columns 102
Reading direction reverse
Mean pairwise identity 95.39
Mean single sequence MFE -19.36
Consensus MFE -18.23
Energy contribution -18.23
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.15
Structure conservation index 0.94
SVM decision value 0.98
SVM RNA-class probability 0.894545
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10198119 100 - 20766785
GCUAAUGAGCCAUUAGCAUUACAAUGGCGUCAACAGCGUCUACCACAUUCGCACAAACGCACA--CACAUAAACAAAGCAACCACUUUUCUCGCCAUGCAAA
(((((((...)))))))......((((((......(((...........)))......((...--............))............))))))..... ( -18.36)
>DroEre_CAF1 30953 99 - 1
GCUAAUGAGCCAUUAGCAUUACAAUGGCGUCAACAGCGUCUGCCACACUCGCACAAACGCACA--CACAUAAACA-AGCGGCCACUUUUCUCGCCAUGCAAA
(((..(((((((((........)))))).)))...((((.(((.......)))...))))...--..........-)))(((..........)))....... ( -21.40)
>DroYak_CAF1 26853 102 - 1
GCUAAUGAGCCAUUAGCAUUACAAUGGCGUCAACAGCGUCUACCACACUCGCACAAACGCACACACACAUAAACAAAGCAGCCACUUUUCUCGCCAUGCAAA
(((((((...)))))))......((((((......((((.................))))..............((((......))))...))))))..... ( -18.33)
>consensus
GCUAAUGAGCCAUUAGCAUUACAAUGGCGUCAACAGCGUCUACCACACUCGCACAAACGCACA__CACAUAAACAAAGCAGCCACUUUUCUCGCCAUGCAAA
(((((((...)))))))......((((((......(((...........)))......((.................))............))))))..... (-18.23 = -18.23 +   0.00)

alignment

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secondary structure

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dotplot

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Window 2

Location 10,198,147 – 10,198,237
Length 90
Sequences 4
Columns 92
Reading direction forward
Mean pairwise identity 86.81
Mean single sequence MFE -24.60
Consensus MFE -20.81
Energy contribution -21.25
Covariance contribution 0.44
Combinations/Pair 1.12
Mean z-score -1.56
Structure conservation index 0.85
SVM decision value 0.32
SVM RNA-class probability 0.685672
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10198147 90 + 20766785
GUUUAUGUG--UGUGCGUUUGUGCGAAUGUGGUAGACGCUGUUGACGCCAUUGUAAUGCUAAUGGCUCAUUAGCACUUUGAUUUUUUCGCAC
....((((.--...))))..(((((((.....((((.((((.(((.(((((((......)))))))))).))))..)))).....))))))) ( -25.70)
>DroEre_CAF1 30980 90 + 1
GUUUAUGUG--UGUGCGUUUGUGCGAGUGUGGCAGACGCUGUUGACGCCAUUGUAAUGCUAAUGGCUCAUUAGCACUUUGAUUUUUUCGCAC
....((((.--...))))..(((((((.....((((.((((.(((.(((((((......)))))))))).))))..)))).....))))))) ( -27.20)
>DroYak_CAF1 26881 92 + 1
GUUUAUGUGUGUGUGCGUUUGUGCGAGUGUGGUAGACGCUGUUGACGCCAUUGUAAUGCUAAUGGCUCAUUAGCACUUUGAUUUUUUCGCAC
....((((......))))..(((((((.....((((.((((.(((.(((((((......)))))))))).))))..)))).....))))))) ( -25.60)
>DroAna_CAF1 25265 78 + 1
-------------UGUCUGUGUGAGAGUGUGGUGGAUCCUGUUGACGCCAUUGUAAUGCUAAUGGCUCAUUAGCACUUUGAUUUUUUCGCU-
-------------.....(((.((((((..((((....(((.(((.(((((((......)))))))))).)))))))...)))))).))).- ( -19.90)
>consensus
GUUUAUGUG__UGUGCGUUUGUGCGAGUGUGGUAGACGCUGUUGACGCCAUUGUAAUGCUAAUGGCUCAUUAGCACUUUGAUUUUUUCGCAC
....................(((((((.....((((.((((.(((.(((((((......)))))))))).))))..)))).....))))))) (-20.81 = -21.25 +   0.44)

alignment

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secondary structure

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dotplot

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Window 3

Location 10,198,147 – 10,198,237
Length 90
Sequences 4
Columns 92
Reading direction reverse
Mean pairwise identity 86.81
Mean single sequence MFE -21.97
Consensus MFE -18.25
Energy contribution -19.50
Covariance contribution 1.25
Combinations/Pair 1.00
Mean z-score -3.59
Structure conservation index 0.83
SVM decision value 2.66
SVM RNA-class probability 0.996149
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10198147 90 - 20766785
GUGCGAAAAAAUCAAAGUGCUAAUGAGCCAUUAGCAUUACAAUGGCGUCAACAGCGUCUACCACAUUCGCACAAACGCACA--CACAUAAAC
(((((((........((((((((((...)))))))))).....(((((.....))))).......))))))).........--......... ( -25.60)
>DroEre_CAF1 30980 90 - 1
GUGCGAAAAAAUCAAAGUGCUAAUGAGCCAUUAGCAUUACAAUGGCGUCAACAGCGUCUGCCACACUCGCACAAACGCACA--CACAUAAAC
((((((.........((((((((((...)))))))))).....(((((.....)))))........)))))).........--......... ( -24.50)
>DroYak_CAF1 26881 92 - 1
GUGCGAAAAAAUCAAAGUGCUAAUGAGCCAUUAGCAUUACAAUGGCGUCAACAGCGUCUACCACACUCGCACAAACGCACACACACAUAAAC
((((((.........((((((((((...)))))))))).....(((((.....)))))........)))))).................... ( -24.50)
>DroAna_CAF1 25265 78 - 1
-AGCGAAAAAAUCAAAGUGCUAAUGAGCCAUUAGCAUUACAAUGGCGUCAACAGGAUCCACCACACUCUCACACAGACA-------------
-.(.((.........((((((((((...))))))))))....(((.(((.....))))))........)).).......------------- ( -13.30)
>consensus
GUGCGAAAAAAUCAAAGUGCUAAUGAGCCAUUAGCAUUACAAUGGCGUCAACAGCGUCUACCACACUCGCACAAACGCACA__CACAUAAAC
((((((.........((((((((((...)))))))))).....(((((.....)))))........)))))).................... (-18.25 = -19.50 +   1.25)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:43:51 2006