Locus 7232

Sequence ID X_DroMel_CAF1
Location 18,071,103 – 18,071,298
Length 195
Max. P 0.963524
window11835 window11836 window11837

overview

Window 5

Location 18,071,103 – 18,071,223
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 97.22
Mean single sequence MFE -47.47
Consensus MFE -42.79
Energy contribution -42.90
Covariance contribution 0.11
Combinations/Pair 1.02
Mean z-score -1.88
Structure conservation index 0.90
SVM decision value 0.19
SVM RNA-class probability 0.625026
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18071103 120 + 22224390
GGAUGAAGGGUGGCGUUGGGUGUCUGCGUCUGUUCUGCGCCCCUCCUGCUAUGUAGGUCAAGCAUCCCCGAUUCUGGAGCCCUGUCGCCUCCAGAAUGCAUCCAACGCACCGCUAAUCCA
((((..((((((.((((((((((..(((.......)))((....(((((...)))))....)).......((((((((((......).))))))))))))))))))))))).)).)))). ( -48.00)
>DroSec_CAF1 8777 120 + 1
GGAUGAAGGGUGGCGUUGGGUGUCUGCGUCUGUGCUGCACCCCUCCUGCUAUGUAGGUCAAGCAUCCCCGAUUCUGGAGUGCUGUCGCCUCCAGAAUGCAUCCACCGCACCGCUAAUCCA
((((..((((((.((.(((((((...((...(((((........(((((...)))))...)))))...))(((((((((.((....)))))))))))))))))).)))))).)).)))). ( -49.10)
>DroSim_CAF1 13366 120 + 1
GGAUGAAGGGUGGCGUUGGGUGUCUGCGUCUGUGCUGCACCCCUCCUGCUAUGUAGGUCAAGCAUCCCCGAUUCUGGAGUCCUGUCGCCUCCAGAAUGCAUCCACCGCACCGCUAAUCCA
((((..((((((.((.(((((((...((...(((((........(((((...)))))...)))))...))(((((((((.(.....).)))))))))))))))).)))))).)).)))). ( -45.30)
>consensus
GGAUGAAGGGUGGCGUUGGGUGUCUGCGUCUGUGCUGCACCCCUCCUGCUAUGUAGGUCAAGCAUCCCCGAUUCUGGAGUCCUGUCGCCUCCAGAAUGCAUCCACCGCACCGCUAAUCCA
((((..((((((.((.(((((((...((...(((((........(((((...)))))...)))))...))((((((((((......).)))))))))))))))).)))))).)).)))). (-42.79 = -42.90 +   0.11)

alignment

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secondary structure

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dotplot

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Window 6

Location 18,071,143 – 18,071,258
Length 115
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 92.18
Mean single sequence MFE -24.97
Consensus MFE -22.65
Energy contribution -22.43
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -1.69
Structure conservation index 0.91
SVM decision value 0.16
SVM RNA-class probability 0.611541
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18071143 115 + 22224390
CCCUCCUGCUAUGUAGGUCAAGCAUCCCCGAUUCUGGAGCCCUGUCGCCUCCAGAAUGCAUCCAACGCACCGCUAAUCCACAUGCCCACCCUCCGUGCAACCCGUC-----CACACGCCC
.......((.((((.((...(((.......((((((((((......).)))))))))((.......))...)))...))))))))........((((.........-----..))))... ( -25.10)
>DroSec_CAF1 8817 118 + 1
CCCUCCUGCUAUGUAGGUCAAGCAUCCCCGAUUCUGGAGUGCUGUCGCCUCCAGAAUGCAUCCACCGCACCGCUAAUCCACAUGCCCAUCCUCCUUGCA--CCGCCCAAAACACACUCCC
.......((.((((.((...(((.......(((((((((.((....)))))))))))((.......))...)))...))))))))..............--................... ( -26.80)
>DroSim_CAF1 13406 118 + 1
CCCUCCUGCUAUGUAGGUCAAGCAUCCCCGAUUCUGGAGUCCUGUCGCCUCCAGAAUGCAUCCACCGCACCGCUAAUCCACAUGCCCAUCCUCCUUGCA--CCGCCCAAAACACACUCCC
.......((.((((.((...(((.......(((((((((.(.....).)))))))))((.......))...)))...))))))))..............--................... ( -23.00)
>consensus
CCCUCCUGCUAUGUAGGUCAAGCAUCCCCGAUUCUGGAGUCCUGUCGCCUCCAGAAUGCAUCCACCGCACCGCUAAUCCACAUGCCCAUCCUCCUUGCA__CCGCCCAAAACACACUCCC
.......((.((((.((...(((.......((((((((((......).)))))))))((.......))...)))...))))))))................................... (-22.65 = -22.43 +  -0.22)

alignment

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secondary structure

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dotplot

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Window 7

Location 18,071,183 – 18,071,298
Length 115
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 90.50
Mean single sequence MFE -28.13
Consensus MFE -26.92
Energy contribution -27.03
Covariance contribution 0.11
Combinations/Pair 1.04
Mean z-score -2.22
Structure conservation index 0.96
SVM decision value 1.55
SVM RNA-class probability 0.963524
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18071183 115 + 22224390
CCUGUCGCCUCCAGAAUGCAUCCAACGCACCGCUAAUCCACAUGCCCACCCUCCGUGCAACCCGUC-----CACACGCCCCGCGAAGGAUGCUCCACCUCAGCCCCGCCUGGUCGCGACA
...(((((..((((...((((((..(((...((..........))........((((.........-----..))))....)))..)))))).........((...))))))..))))). ( -33.30)
>DroSec_CAF1 8857 118 + 1
GCUGUCGCCUCCAGAAUGCAUCCACCGCACCGCUAAUCCACAUGCCCAUCCUCCUUGCA--CCGCCCAAAACACACUCCCCGCGAAGGAUGCUCCACCCCACACCCGCCAGGUCGCGACA
...(((((..((.....((((((..(((...((..........))...........((.--..))................)))..)))))).........(....)...))..))))). ( -23.70)
>DroSim_CAF1 13446 118 + 1
CCUGUCGCCUCCAGAAUGCAUCCACCGCACCGCUAAUCCACAUGCCCAUCCUCCUUGCA--CCGCCCAAAACACACUCCCCGCGAAGGAUGCUCCACCUCACACCCGCCUGGUCGCGACA
...(((((..((((...((((((..(((...((..........))...........((.--..))................)))..)))))).........(....).))))..))))). ( -27.40)
>consensus
CCUGUCGCCUCCAGAAUGCAUCCACCGCACCGCUAAUCCACAUGCCCAUCCUCCUUGCA__CCGCCCAAAACACACUCCCCGCGAAGGAUGCUCCACCUCACACCCGCCUGGUCGCGACA
...(((((..((((...((((((..(((...((..........))...........((.....))................)))..)))))).......(......).))))..))))). (-26.92 = -27.03 +   0.11)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:33:42 2006