Locus 2889

Sequence ID X_DroMel_CAF1
Location 7,735,503 – 7,735,611
Length 108
Max. P 0.992317
window4732 window4733

overview

Window 2

Location 7,735,503 – 7,735,611
Length 108
Sequences 3
Columns 108
Reading direction forward
Mean pairwise identity 98.77
Mean single sequence MFE -20.20
Consensus MFE -19.80
Energy contribution -19.80
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.88
Structure conservation index 0.98
SVM decision value 0.75
SVM RNA-class probability 0.840058
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7735503 108 + 22224390
CUUUUCUGCUGCUCCUGAUCCUUUUUACGGCGCCGCUCUUCCGCCAGUUCCACCUGCCUCUCCUCCGCUCGCUCCUCUCUCCUUAUACUUUCAUAAAGAGAGGGAUCC
.......((.((.(((((......))).)).)).))......((.(((..................))).))(((.(((((.((((......)))).))))))))... ( -20.07)
>DroSec_CAF1 5655 108 + 1
CUUUUCUGCUGCUCCUGAUCCUUCUUUCGGCGCCGCUCUUCCGCCAGUUCCACCUGCCUCUCCUCCGCUCGCUCCUCUCUCCUUAUACUUUCAUAAAGAGAGGGAUCC
.......((.((.((.((........)))).)).))......((.(((..................))).))(((.(((((.((((......)))).))))))))... ( -20.27)
>DroSim_CAF1 6265 108 + 1
CUUUUCUGCUGCUCCUGAUCCUUCUUUCGGCGCCGCUCUUCCGCCAGUUCCACCUGCCUCUCCUCCGCUCGCUCCUCUCUCCUUAUACUUUCAUAAAGAGAGGGAUCC
.......((.((.((.((........)))).)).))......((.(((..................))).))(((.(((((.((((......)))).))))))))... ( -20.27)
>consensus
CUUUUCUGCUGCUCCUGAUCCUUCUUUCGGCGCCGCUCUUCCGCCAGUUCCACCUGCCUCUCCUCCGCUCGCUCCUCUCUCCUUAUACUUUCAUAAAGAGAGGGAUCC
................(((((.......((.((.((......))(((......)))..............)).)).(((((.((((......)))).)))))))))). (-19.80 = -19.80 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 7,735,503 – 7,735,611
Length 108
Sequences 3
Columns 108
Reading direction reverse
Mean pairwise identity 98.77
Mean single sequence MFE -32.34
Consensus MFE -32.34
Energy contribution -32.34
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -3.30
Structure conservation index 1.00
SVM decision value 2.32
SVM RNA-class probability 0.992317
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7735503 108 - 22224390
GGAUCCCUCUCUUUAUGAAAGUAUAAGGAGAGAGGAGCGAGCGGAGGAGAGGCAGGUGGAACUGGCGGAAGAGCGGCGCCGUAAAAAGGAUCAGGAGCAGCAGAAAAG
.((((((((((((((((....))))))))))).((.((..((........(.(((......))).)......)).)).)).......)))))................ ( -32.34)
>DroSec_CAF1 5655 108 - 1
GGAUCCCUCUCUUUAUGAAAGUAUAAGGAGAGAGGAGCGAGCGGAGGAGAGGCAGGUGGAACUGGCGGAAGAGCGGCGCCGAAAGAAGGAUCAGGAGCAGCAGAAAAG
.((((((((((((((((....))))))))))).((.((..((........(.(((......))).)......)).)).)).......)))))................ ( -32.34)
>DroSim_CAF1 6265 108 - 1
GGAUCCCUCUCUUUAUGAAAGUAUAAGGAGAGAGGAGCGAGCGGAGGAGAGGCAGGUGGAACUGGCGGAAGAGCGGCGCCGAAAGAAGGAUCAGGAGCAGCAGAAAAG
.((((((((((((((((....))))))))))).((.((..((........(.(((......))).)......)).)).)).......)))))................ ( -32.34)
>consensus
GGAUCCCUCUCUUUAUGAAAGUAUAAGGAGAGAGGAGCGAGCGGAGGAGAGGCAGGUGGAACUGGCGGAAGAGCGGCGCCGAAAGAAGGAUCAGGAGCAGCAGAAAAG
.((((((((((((((((....))))))))))).((.((..((........(.(((......))).)......)).)).)).......)))))................ (-32.34 = -32.34 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:45:53 2006