Locus 8362

Sequence ID X_DroMel_CAF1
Location 20,758,815 – 20,758,956
Length 141
Max. P 0.959979
window13730 window13731 window13732 window13733

overview

Window 0

Location 20,758,815 – 20,758,916
Length 101
Sequences 3
Columns 101
Reading direction forward
Mean pairwise identity 86.44
Mean single sequence MFE -23.47
Consensus MFE -19.41
Energy contribution -20.30
Covariance contribution 0.89
Combinations/Pair 1.11
Mean z-score -2.75
Structure conservation index 0.83
SVM decision value 1.30
SVM RNA-class probability 0.939717
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20758815 101 + 22224390
CGGACUUUAGAAACAUGGUACUACAAUAUAUAUUGUCAGGACUUAAUUAGGGCUAGCCUUUUUUAGUUAAGUCGUGACAUAAACUUUCUUAAAUUUUUCCC
.(((.((((((((..((......))........(((((.(((((((((((((....)))....)))))))))).))))).....)))).))))....))). ( -23.70)
>DroSec_CAF1 78141 93 + 1
CGGACUAUAGAAACAUGGUACG-------AUAUUGUCAGGACCUUAUUAAGUCUAGUCUUUUUUAAUUAAGUCCUGACAUAAACUUUCUUAAAUUUUUG-C
((.(((((......))))).))-------....(((((((((...((((((..........))))))...)))))))))....................-. ( -20.20)
>DroSim_CAF1 23486 93 + 1
CGGAGUAUAGAAACAUGGUACG-------AUAUUGUCAGGACUUAAUUAAGGCUAGCCUUUUUUAAUUAAGUCCUGACAUAAGCUUUCUUAAAUUUUUG-C
.(((((((.........)))).-------....(((((((((((((((((((....)))....)))))))))))))))).......)))..........-. ( -26.50)
>consensus
CGGACUAUAGAAACAUGGUACG_______AUAUUGUCAGGACUUAAUUAAGGCUAGCCUUUUUUAAUUAAGUCCUGACAUAAACUUUCUUAAAUUUUUG_C
.................................(((((((((((((((((((........)))))))))))))))))))...................... (-19.41 = -20.30 +   0.89)

alignment

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secondary structure

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dotplot

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Window 1

Location 20,758,815 – 20,758,916
Length 101
Sequences 3
Columns 101
Reading direction reverse
Mean pairwise identity 86.44
Mean single sequence MFE -20.87
Consensus MFE -18.42
Energy contribution -19.87
Covariance contribution 1.45
Combinations/Pair 1.04
Mean z-score -2.43
Structure conservation index 0.88
SVM decision value 1.37
SVM RNA-class probability 0.947636
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20758815 101 - 22224390
GGGAAAAAUUUAAGAAAGUUUAUGUCACGACUUAACUAAAAAAGGCUAGCCCUAAUUAAGUCCUGACAAUAUAUAUUGUAGUACCAUGUUUCUAAAGUCCG
.(((....((((.((((.....(((((.(((((((.((.....((....)).)).))))))).)))))(((.....))).........)))))))).))). ( -17.90)
>DroSec_CAF1 78141 93 - 1
G-CAAAAAUUUAAGAAAGUUUAUGUCAGGACUUAAUUAAAAAAGACUAGACUUAAUAAGGUCCUGACAAUAU-------CGUACCAUGUUUCUAUAGUCCG
(-((.((((((....)))))).(((((((((((.(((((............))))).)))))))))))....-------.......)))............ ( -18.70)
>DroSim_CAF1 23486 93 - 1
G-CAAAAAUUUAAGAAAGCUUAUGUCAGGACUUAAUUAAAAAAGGCUAGCCUUAAUUAAGUCCUGACAAUAU-------CGUACCAUGUUUCUAUACUCCG
(-((......((((....))))((((((((((((((((....(((....)))))))))))))))))))....-------.......)))............ ( -26.00)
>consensus
G_CAAAAAUUUAAGAAAGUUUAUGUCAGGACUUAAUUAAAAAAGGCUAGCCUUAAUUAAGUCCUGACAAUAU_______CGUACCAUGUUUCUAUAGUCCG
............(((((.....((((((((((((((((....(((....))))))))))))))))))).(((........))).....)))))........ (-18.42 = -19.87 +   1.45)

alignment

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secondary structure

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dotplot

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Window 2

Location 20,758,843 – 20,758,956
Length 113
Sequences 3
Columns 113
Reading direction forward
Mean pairwise identity 89.32
Mean single sequence MFE -26.38
Consensus MFE -22.34
Energy contribution -23.57
Covariance contribution 1.23
Combinations/Pair 1.07
Mean z-score -3.25
Structure conservation index 0.85
SVM decision value 1.51
SVM RNA-class probability 0.959979
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20758843 113 + 22224390
UAUAUUGUCAGGACUUAAUUAGGGCUAGCCUUUUUUAGUUAAGUCGUGACAUAAACUUUCUUAAAUUUUUCCCAUUUUUUGAUCGAUCGUUUUUAGGAAACAGAAAUAUAUUA
((((((((((.(((((((((((((....)))....)))))))))).))))......(((((((((....((.((.....))...)).....)))))))))....))))))... ( -26.30)
>DroSec_CAF1 78163 111 + 1
-AUAUUGUCAGGACCUUAUUAAGUCUAGUCUUUUUUAAUUAAGUCCUGACAUAAACUUUCUUAAAUUUUUG-CAUUUUUGGCUCGAUCGUUUUAUAGAAACAGAAAUAUAUUA
-....(((((((((...((((((..........))))))...)))))))))....................-.(((((((..((............))..)))))))...... ( -21.80)
>DroSim_CAF1 23508 110 + 1
-AUAUUGUCAGGACUUAAUUAAGGCUAGCCUUUUUUAAUUAAGUCCUGACAUAAGCUUUCUUAAAUUUUUG-CAUUUUUGGCUCGAUCGUU-UAAAGAAACAGAAAUAUUUUA
-....(((((((((((((((((((....)))....))))))))))))))))...((..............)-)(((((((..((.......-....))..)))))))...... ( -31.04)
>consensus
_AUAUUGUCAGGACUUAAUUAAGGCUAGCCUUUUUUAAUUAAGUCCUGACAUAAACUUUCUUAAAUUUUUG_CAUUUUUGGCUCGAUCGUUUUAAAGAAACAGAAAUAUAUUA
.....(((((((((((((((((((........)))))))))))))))))))......................(((((((..((............))..)))))))...... (-22.34 = -23.57 +   1.23)

alignment

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secondary structure

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dotplot

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Window 3

Location 20,758,843 – 20,758,956
Length 113
Sequences 3
Columns 113
Reading direction reverse
Mean pairwise identity 89.32
Mean single sequence MFE -23.43
Consensus MFE -19.45
Energy contribution -21.23
Covariance contribution 1.78
Combinations/Pair 1.03
Mean z-score -3.16
Structure conservation index 0.83
SVM decision value 1.35
SVM RNA-class probability 0.945194
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20758843 113 - 22224390
UAAUAUAUUUCUGUUUCCUAAAAACGAUCGAUCAAAAAAUGGGAAAAAUUUAAGAAAGUUUAUGUCACGACUUAACUAAAAAAGGCUAGCCCUAAUUAAGUCCUGACAAUAUA
.......(((((.(((((((.....((....))......)))))))......))))).....(((((.(((((((.((.....((....)).)).))))))).)))))..... ( -20.00)
>DroSec_CAF1 78163 111 - 1
UAAUAUAUUUCUGUUUCUAUAAAACGAUCGAGCCAAAAAUG-CAAAAAUUUAAGAAAGUUUAUGUCAGGACUUAAUUAAAAAAGACUAGACUUAAUAAGGUCCUGACAAUAU-
.......(((((((((.....))))......((.......)-).........))))).....(((((((((((.(((((............))))).)))))))))))....- ( -21.70)
>DroSim_CAF1 23508 110 - 1
UAAAAUAUUUCUGUUUCUUUA-AACGAUCGAGCCAAAAAUG-CAAAAAUUUAAGAAAGCUUAUGUCAGGACUUAAUUAAAAAAGGCUAGCCUUAAUUAAGUCCUGACAAUAU-
.......(((((((((....)-)))......((.......)-).........))))).....((((((((((((((((....(((....)))))))))))))))))))....- ( -28.60)
>consensus
UAAUAUAUUUCUGUUUCUUUAAAACGAUCGAGCCAAAAAUG_CAAAAAUUUAAGAAAGUUUAUGUCAGGACUUAAUUAAAAAAGGCUAGCCUUAAUUAAGUCCUGACAAUAU_
.......(((((((((.....))))...........((((.......)))).))))).....((((((((((((((((....(((....)))))))))))))))))))..... (-19.45 = -21.23 +   1.78)

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 13:02:05 2006