Locus 257

Sequence ID 3L_DroMel_CAF1
Location 709,070 – 709,160
Length 90
Max. P 0.998286
window385 window386

overview

Window 5

Location 709,070 – 709,160
Length 90
Sequences 4
Columns 90
Reading direction forward
Mean pairwise identity 83.23
Mean single sequence MFE -20.65
Consensus MFE -18.33
Energy contribution -18.95
Covariance contribution 0.62
Combinations/Pair 1.06
Mean z-score -3.11
Structure conservation index 0.89
SVM decision value 3.06
SVM RNA-class probability 0.998286
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 709070 90 + 23771897
CAGUGAUCCCCGAUUUCAAAUUCUCCAUUCCCCAUUACCCCGAUUCCCGAUUCAUUCCCGGGAAAAUACCACAUGCCGGGAUCUCCACUC
..(.((((((.((........))....................((((((.........)))))).............)))))).)..... ( -17.70)
>DroSec_CAF1 64702 79 + 1
CAGCGAUCCCCGAUUUCAAAUUCUCCAUUCC-------CCCGAUUCCCGAU----UCCCGGGGAAAUACCACAUGCCGGGAUCGCCACUC
..((((((((.((........))....((((-------((.((........----))..))))))............))))))))..... ( -24.40)
>DroSim_CAF1 65535 79 + 1
CAGCGAUCCCCGAUUUCAAAUUCUCCAUUCC-------CCCGAUUCCCGAU----UCCCGGGGAAAUACCACAUGCCGGGAUCGCCACUC
..((((((((.((........))....((((-------((.((........----))..))))))............))))))))..... ( -24.40)
>DroYak_CAF1 69104 70 + 1
CAGCGAUCCCUGAUUUUAAAUUC----------------CCGAUGCCCGAU----UCCCGGGGAAAUACCACAUGCCGGGAUCUCCUCUU
....((((((.((........))----------------....(.((((..----...)))).).............))))))....... ( -16.10)
>consensus
CAGCGAUCCCCGAUUUCAAAUUCUCCAUUCC_______CCCGAUUCCCGAU____UCCCGGGGAAAUACCACAUGCCGGGAUCGCCACUC
..((((((((.((........))....................((((((.........)))))).............))))))))..... (-18.33 = -18.95 +   0.62) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 709,070 – 709,160
Length 90
Sequences 4
Columns 90
Reading direction reverse
Mean pairwise identity 83.23
Mean single sequence MFE -25.97
Consensus MFE -20.20
Energy contribution -20.70
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.88
Structure conservation index 0.78
SVM decision value 0.75
SVM RNA-class probability 0.842148
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 709070 90 - 23771897
GAGUGGAGAUCCCGGCAUGUGGUAUUUUCCCGGGAAUGAAUCGGGAAUCGGGGUAAUGGGGAAUGGAGAAUUUGAAAUCGGGGAUCACUG
.(((((...(((((((((........(((((((.......)))))))........)))..((((.....))))....)))))).))))). ( -22.69)
>DroSec_CAF1 64702 79 - 1
GAGUGGCGAUCCCGGCAUGUGGUAUUUCCCCGGGA----AUCGGGAAUCGGG-------GGAAUGGAGAAUUUGAAAUCGGGGAUCGCUG
....(((((((((.........(((((((((((..----........)))))-------))))))..((........)).))))))))). ( -31.40)
>DroSim_CAF1 65535 79 - 1
GAGUGGCGAUCCCGGCAUGUGGUAUUUCCCCGGGA----AUCGGGAAUCGGG-------GGAAUGGAGAAUUUGAAAUCGGGGAUCGCUG
....(((((((((.........(((((((((((..----........)))))-------))))))..((........)).))))))))). ( -31.40)
>DroYak_CAF1 69104 70 - 1
AAGAGGAGAUCCCGGCAUGUGGUAUUUCCCCGGGA----AUCGGGCAUCGG----------------GAAUUUAAAAUCAGGGAUCGCUG
....((.((((((......(((.(((((((((...----..))).....))----------------)))))))......)))))).)). ( -18.40)
>consensus
GAGUGGAGAUCCCGGCAUGUGGUAUUUCCCCGGGA____AUCGGGAAUCGGG_______GGAAUGGAGAAUUUGAAAUCGGGGAUCGCUG
....(((((((((...............(((((.......)))))......................((........)).))))))))). (-20.20 = -20.70 +   0.50) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:37:39 2006