Locus 1221

Sequence ID X_DroMel_CAF1
Location 3,633,798 – 3,633,917
Length 119
Max. P 0.998508
window1961 window1962 window1963 window1964

overview

Window 1

Location 3,633,798 – 3,633,890
Length 92
Sequences 5
Columns 92
Reading direction forward
Mean pairwise identity 98.70
Mean single sequence MFE -23.94
Consensus MFE -24.10
Energy contribution -23.94
Covariance contribution -0.16
Combinations/Pair 1.04
Mean z-score -1.65
Structure conservation index 1.01
SVM decision value 1.84
SVM RNA-class probability 0.979427
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3633798 92 + 22224390
GUAACCGUUAGAAUUAGCCCAUAAUGGUCGAUAUCUAAAUGUGUGUGUAUAUCGAUGUGAUGUCAUCGAUUGUCGAUAACGAUUGGAUGCGA
...(((((((...........)))))))((.(((((((.(((...((...(((((((......)))))))...))...))).))))))))). ( -24.10)
>DroSec_CAF1 12855 92 + 1
GUAACCGUUAGAAAUAGCCCAUAAUGGUCGAUAUCUAAAUGUGUGUGUAUAUCGAUGUGAUGUCAUCGAUUGUCGAUAACGAUUGGAUGCGA
...(((((((...........)))))))((.(((((((.(((...((...(((((((......)))))))...))...))).))))))))). ( -24.10)
>DroSim_CAF1 4625 92 + 1
GUAACCGUUAGAAUUAGCCCAUAAUGGUCGAUAUCUAAAUGUGUGUGUAUAUCGAUGUGAUGUCAUCGAUUGUCGAUAACGAUUGGAUGCGA
...(((((((...........)))))))((.(((((((.(((...((...(((((((......)))))))...))...))).))))))))). ( -24.10)
>DroEre_CAF1 13536 92 + 1
GUAACCGUUAGAAUUAGCCCAUAAUGGUCGAUAUCUAAAUGUGUGUGUAUAUCGAUGUGAUGUCAUCGAUUGUCGAUAGCGAUUGGAUGCGA
...(((((((...........)))))))((.(((((((.(((...((...(((((((......)))))))...))...))).))))))))). ( -24.40)
>DroYak_CAF1 5180 92 + 1
GUAACCGUUAGAAUUAGCCCAUAAUGGUCGAUAUCUAAAUGUGUAUGUAUAUCGAUGUGAUGUCAUCGAUUGUCGAUAACGAUUGGAUGCGA
...(((((((...........)))))))((.(((((((.(((...((...(((((((......)))))))...))...))).))))))))). ( -23.00)
>consensus
GUAACCGUUAGAAUUAGCCCAUAAUGGUCGAUAUCUAAAUGUGUGUGUAUAUCGAUGUGAUGUCAUCGAUUGUCGAUAACGAUUGGAUGCGA
...(((((((...........)))))))((.(((((((.(((...((...(((((((......)))))))...))...))).))))))))). (-24.10 = -23.94 +  -0.16)

alignment

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secondary structure

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dotplot

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Window 2

Location 3,633,798 – 3,633,890
Length 92
Sequences 5
Columns 92
Reading direction reverse
Mean pairwise identity 98.70
Mean single sequence MFE -16.90
Consensus MFE -16.24
Energy contribution -16.44
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.77
Structure conservation index 0.96
SVM decision value 1.90
SVM RNA-class probability 0.981954
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3633798 92 - 22224390
UCGCAUCCAAUCGUUAUCGACAAUCGAUGACAUCACAUCGAUAUACACACACAUUUAGAUAUCGACCAUUAUGGGCUAAUUCUAACGGUUAC
..((..(((...(((((((.....)))))))......(((((((..............)))))))......)))))................ ( -17.14)
>DroSec_CAF1 12855 92 - 1
UCGCAUCCAAUCGUUAUCGACAAUCGAUGACAUCACAUCGAUAUACACACACAUUUAGAUAUCGACCAUUAUGGGCUAUUUCUAACGGUUAC
..((..(((...(((((((.....)))))))......(((((((..............)))))))......)))))................ ( -17.14)
>DroSim_CAF1 4625 92 - 1
UCGCAUCCAAUCGUUAUCGACAAUCGAUGACAUCACAUCGAUAUACACACACAUUUAGAUAUCGACCAUUAUGGGCUAAUUCUAACGGUUAC
..((..(((...(((((((.....)))))))......(((((((..............)))))))......)))))................ ( -17.14)
>DroEre_CAF1 13536 92 - 1
UCGCAUCCAAUCGCUAUCGACAAUCGAUGACAUCACAUCGAUAUACACACACAUUUAGAUAUCGACCAUUAUGGGCUAAUUCUAACGGUUAC
........(((((.........(((((((......)))))))............(((((......((.....))......)))))))))).. ( -15.50)
>DroYak_CAF1 5180 92 - 1
UCGCAUCCAAUCGUUAUCGACAAUCGAUGACAUCACAUCGAUAUACAUACACAUUUAGAUAUCGACCAUUAUGGGCUAAUUCUAACGGUUAC
..((..(((...(((((((.....)))))))......(((((((...((......)).)))))))......)))))................ ( -17.60)
>consensus
UCGCAUCCAAUCGUUAUCGACAAUCGAUGACAUCACAUCGAUAUACACACACAUUUAGAUAUCGACCAUUAUGGGCUAAUUCUAACGGUUAC
..((..(((...(((((((.....)))))))......(((((((..............)))))))......)))))................ (-16.24 = -16.44 +   0.20)

alignment

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secondary structure

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dotplot

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Window 3

Location 3,633,817 – 3,633,917
Length 100
Sequences 5
Columns 100
Reading direction forward
Mean pairwise identity 98.00
Mean single sequence MFE -24.32
Consensus MFE -23.42
Energy contribution -23.78
Covariance contribution 0.36
Combinations/Pair 1.06
Mean z-score -2.08
Structure conservation index 0.96
SVM decision value 2.99
SVM RNA-class probability 0.998042
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3633817 100 + 22224390
CAUAAUGGUCGAUAUCUAAAUGUGUGUGUAUAUCGAUGUGAUGUCAUCGAUUGUCGAUAACGAUUGGAUGCGAGUGUGUGUUAAUUUAAUUUGAUAAAAG
....(((.(((.(((((((.(((...((...(((((((......)))))))...))...))).)))))))))).))).((((((......)))))).... ( -24.20)
>DroSec_CAF1 12874 100 + 1
CAUAAUGGUCGAUAUCUAAAUGUGUGUGUAUAUCGAUGUGAUGUCAUCGAUUGUCGAUAACGAUUGGAUGCGAGAGUGUGUUAAUUUAAUUUGAUAAAAG
....((..(((.(((((((.(((...((...(((((((......)))))))...))...))).))))))))))..)).((((((......)))))).... ( -23.10)
>DroSim_CAF1 4644 100 + 1
CAUAAUGGUCGAUAUCUAAAUGUGUGUGUAUAUCGAUGUGAUGUCAUCGAUUGUCGAUAACGAUUGGAUGCGAGAGUGUGUUAAUUUAAUUUGAUAAAAG
....((..(((.(((((((.(((...((...(((((((......)))))))...))...))).))))))))))..)).((((((......)))))).... ( -23.10)
>DroEre_CAF1 13555 100 + 1
CAUAAUGGUCGAUAUCUAAAUGUGUGUGUAUAUCGAUGUGAUGUCAUCGAUUGUCGAUAGCGAUUGGAUGCGAGCGUGUGUUAAUUUAAUUUGAUAAAAG
....(((.(((.(((((((.(((...((...(((((((......)))))))...))...))).)))))))))).))).((((((......)))))).... ( -26.80)
>DroYak_CAF1 5199 100 + 1
CAUAAUGGUCGAUAUCUAAAUGUGUAUGUAUAUCGAUGUGAUGUCAUCGAUUGUCGAUAACGAUUGGAUGCGAGCGUGUGUUAAUUUAAUUUCAUAAAAG
((((.((.(((.(((((((.(((...((...(((((((......)))))))...))...))).)))))))))).)))))).................... ( -24.40)
>consensus
CAUAAUGGUCGAUAUCUAAAUGUGUGUGUAUAUCGAUGUGAUGUCAUCGAUUGUCGAUAACGAUUGGAUGCGAGAGUGUGUUAAUUUAAUUUGAUAAAAG
....(((.(((.(((((((.(((...((...(((((((......)))))))...))...))).)))))))))).))).((((((......)))))).... (-23.42 = -23.78 +   0.36)

alignment

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secondary structure

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dotplot

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Window 4

Location 3,633,817 – 3,633,917
Length 100
Sequences 5
Columns 100
Reading direction reverse
Mean pairwise identity 98.00
Mean single sequence MFE -13.30
Consensus MFE -12.74
Energy contribution -12.94
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -2.16
Structure conservation index 0.96
SVM decision value 3.12
SVM RNA-class probability 0.998508
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3633817 100 - 22224390
CUUUUAUCAAAUUAAAUUAACACACACUCGCAUCCAAUCGUUAUCGACAAUCGAUGACAUCACAUCGAUAUACACACACAUUUAGAUAUCGACCAUUAUG
.......................................(((((((.....)))))))......(((((((..............)))))))........ ( -13.64)
>DroSec_CAF1 12874 100 - 1
CUUUUAUCAAAUUAAAUUAACACACUCUCGCAUCCAAUCGUUAUCGACAAUCGAUGACAUCACAUCGAUAUACACACACAUUUAGAUAUCGACCAUUAUG
.......................................(((((((.....)))))))......(((((((..............)))))))........ ( -13.64)
>DroSim_CAF1 4644 100 - 1
CUUUUAUCAAAUUAAAUUAACACACUCUCGCAUCCAAUCGUUAUCGACAAUCGAUGACAUCACAUCGAUAUACACACACAUUUAGAUAUCGACCAUUAUG
.......................................(((((((.....)))))))......(((((((..............)))))))........ ( -13.64)
>DroEre_CAF1 13555 100 - 1
CUUUUAUCAAAUUAAAUUAACACACGCUCGCAUCCAAUCGCUAUCGACAAUCGAUGACAUCACAUCGAUAUACACACACAUUUAGAUAUCGACCAUUAUG
....((((................((...((........))...))...(((((((......)))))))...............))))............ ( -11.40)
>DroYak_CAF1 5199 100 - 1
CUUUUAUGAAAUUAAAUUAACACACGCUCGCAUCCAAUCGUUAUCGACAAUCGAUGACAUCACAUCGAUAUACAUACACAUUUAGAUAUCGACCAUUAUG
....(((((..............................(((((((.....)))))))......(((((((...((......)).)))))))...))))) ( -14.20)
>consensus
CUUUUAUCAAAUUAAAUUAACACACGCUCGCAUCCAAUCGUUAUCGACAAUCGAUGACAUCACAUCGAUAUACACACACAUUUAGAUAUCGACCAUUAUG
.......................................(((((((.....)))))))......(((((((..............)))))))........ (-12.74 = -12.94 +   0.20)

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 10:04:16 2006