Locus 5087

Sequence ID X_DroMel_CAF1
Location 13,296,599 – 13,296,735
Length 136
Max. P 0.911179
window8274 window8275

overview

Window 4

Location 13,296,599 – 13,296,703
Length 104
Sequences 4
Columns 104
Reading direction forward
Mean pairwise identity 97.60
Mean single sequence MFE -23.50
Consensus MFE -23.31
Energy contribution -23.38
Covariance contribution 0.06
Combinations/Pair 1.03
Mean z-score -2.06
Structure conservation index 0.99
SVM decision value 1.08
SVM RNA-class probability 0.911179
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13296599 104 + 22224390
UUUUAUUGUACGACAAAAUAUUUCUUUAUUAUCGUGAGUGAGUUGAACUUUCAGCCGAUCACGCGAACAACUCAACCUUGAAGUUGUAUUUCGCAUUUGUUUCC
...........((((((................((((.((.(((((....))))))).))))((((((((((((....)).))))))...)))).))))))... ( -24.40)
>DroSec_CAF1 11846 104 + 1
UUUUAUUGUACGACAAAAUAUUUCUUUAUUAUCGUGAGUGAGUUGAACUUUCAGCCGAUCACGCGAACAACUCAACCUUGAAGUUGUAUUUCGCAUUUGUUUCC
...........((((((................((((.((.(((((....))))))).))))((((((((((((....)).))))))...)))).))))))... ( -24.40)
>DroSim_CAF1 5753 104 + 1
UUUUAUUGUACGACAAAAUAUUUCUUUAUUAUCGUGAGUGAGUUGAACUUUCAGCCGAUCACGCGAACAACUCAACCUUGAAGUUGUAUUUCGCAUUUGUUUCC
...........((((((................((((.((.(((((....))))))).))))((((((((((((....)).))))))...)))).))))))... ( -24.40)
>DroEre_CAF1 6739 104 + 1
UUUUAUUGUACUACAAAAUAUUUCUUUAUUAUCGUGAGUGAGUUGAAUUUUCAGCCGAUCACGUGAACAACUCAGCCUUGAAGUUGUGUUUCGCAUUUGUUUCC
............(((((................((((.((.(((((....))))))).))))(((((..((.((((......)))).))))))).))))).... ( -20.80)
>consensus
UUUUAUUGUACGACAAAAUAUUUCUUUAUUAUCGUGAGUGAGUUGAACUUUCAGCCGAUCACGCGAACAACUCAACCUUGAAGUUGUAUUUCGCAUUUGUUUCC
...........((((((................((((.((.(((((....))))))).))))((((((((((((....)).))))))...)))).))))))... (-23.31 = -23.38 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 13,296,627 – 13,296,735
Length 108
Sequences 4
Columns 108
Reading direction forward
Mean pairwise identity 94.76
Mean single sequence MFE -20.65
Consensus MFE -20.69
Energy contribution -20.50
Covariance contribution -0.19
Combinations/Pair 1.04
Mean z-score -1.53
Structure conservation index 1.00
SVM decision value 0.62
SVM RNA-class probability 0.802865
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13296627 108 + 22224390
UUAUCGUGAGUGAGUUGAACUUUCAGCCGAUCACGCGAACAACUCAACCUUGAAGUUGUAUUUCGCAUUUGUUUCCGUUCUUAUUUUUAUAUUUAUAUAUGUACCUAU
.....((((.((.(((((....))))))).))))((((((((((((....)).))))))...)))).....................(((((......)))))..... ( -21.50)
>DroSec_CAF1 11874 102 + 1
UUAUCGUGAGUGAGUUGAACUUUCAGCCGAUCACGCGAACAACUCAACCUUGAAGUUGUAUUUCGCAUUUGUUUCCGUUCUUAUUUUUAU--U----UAUAUACCUAU
.....((((.((.(((((....))))))).))))((((((((((((....)).))))))...))))........................--.----........... ( -21.10)
>DroSim_CAF1 5781 102 + 1
UUAUCGUGAGUGAGUUGAACUUUCAGCCGAUCACGCGAACAACUCAACCUUGAAGUUGUAUUUCGCAUUUGUUUCCGUUCUUAUUUUUAU--U----UAUAUACCUAU
.....((((.((.(((((....))))))).))))((((((((((((....)).))))))...))))........................--.----........... ( -21.10)
>DroEre_CAF1 6767 102 + 1
UUAUCGUGAGUGAGUUGAAUUUUCAGCCGAUCACGUGAACAACUCAGCCUUGAAGUUGUGUUUCGCAUUUGUUUCCGUUCUUAUUUUUAU--U----UAUAUACCUAU
.....((((.((.(((((....))))))).))))(((((..((.((((......)))).)))))))........................--.----........... ( -18.90)
>consensus
UUAUCGUGAGUGAGUUGAACUUUCAGCCGAUCACGCGAACAACUCAACCUUGAAGUUGUAUUUCGCAUUUGUUUCCGUUCUUAUUUUUAU__U____UAUAUACCUAU
.....((((.((.(((((....))))))).))))((((((((((((....)).))))))...)))).......................................... (-20.69 = -20.50 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:50 2006