Locus 278

Sequence ID X_DroMel_CAF1
Location 938,492 – 938,622
Length 130
Max. P 0.901898
window423 window424

overview

Window 3

Location 938,492 – 938,590
Length 98
Sequences 4
Columns 98
Reading direction forward
Mean pairwise identity 97.45
Mean single sequence MFE -16.92
Consensus MFE -15.05
Energy contribution -15.80
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -2.27
Structure conservation index 0.89
SVM decision value 0.71
SVM RNA-class probability 0.829418
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 938492 98 + 22224390
UGUAUCUCGUAAUUCAGCAGCAACAACCGCAAAACAAAUAAAAGCAACCUCGAUGAUAACAAUCAUCGUCAACAGCAACAAAUGCACGCAAUUGUUGU
...................(((((((..((....................(((((((....)))))))......(((.....)))..))..))))))) ( -18.40)
>DroSec_CAF1 21568 98 + 1
UGUAUCUCGUAAUUCAGCAGCAACAACCGCAAAACAAAUAAAAGCAACCUCGAUGAUAACAAUCAUCGUCAACAGCAACCAAUGCACGCAAUUGUUGU
...................(((((((..((....................(((((((....)))))))......(((.....)))..))..))))))) ( -18.40)
>DroSim_CAF1 17600 98 + 1
UGUAUCUCGUAAUUCAACAGCAACAACCGCAAAACAAAUAAAAGCAACCUCGAUGAUAACAAUCAUCGUCAACAGCAACAAAUGCACGCAAUUGUUGU
...................(((((((..((....................(((((((....)))))))......(((.....)))..))..))))))) ( -18.40)
>DroEre_CAF1 29844 98 + 1
UGUAUCUCGUAAUUCAGCAGCAACAACCGCAAAACAAAUAAAAGCAACCUCCACGAUAACAAUCAUCGUCAACAGCAACAAAAGCACGCAAUUGUUGU
...................(((((((..((......................(((((.......))))).....((.......))..))..))))))) ( -12.50)
>consensus
UGUAUCUCGUAAUUCAGCAGCAACAACCGCAAAACAAAUAAAAGCAACCUCGAUGAUAACAAUCAUCGUCAACAGCAACAAAUGCACGCAAUUGUUGU
...................(((((((..((....................(((((((....)))))))......(((.....)))..))..))))))) (-15.05 = -15.80 +   0.75) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 938,531 – 938,622
Length 91
Sequences 4
Columns 91
Reading direction forward
Mean pairwise identity 97.80
Mean single sequence MFE -17.52
Consensus MFE -15.65
Energy contribution -16.40
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -3.40
Structure conservation index 0.89
SVM decision value 1.02
SVM RNA-class probability 0.901898
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 938531 91 + 22224390
AAAAGCAACCUCGAUGAUAACAAUCAUCGUCAACAGCAACAAAUGCACGCAAUUGUUGUCAGUGAUUUAAAAUUUAUAACAAUUAACAGAA
....((.....(((((((....)))))))......(((.....)))..))(((((((((.(((........))).)))))))))....... ( -19.00)
>DroSec_CAF1 21607 91 + 1
AAAAGCAACCUCGAUGAUAACAAUCAUCGUCAACAGCAACCAAUGCACGCAAUUGUUGUCAGUGAUUUAAAAUUUAUAACAAUUAACAGAA
....((.....(((((((....)))))))......(((.....)))..))(((((((((.(((........))).)))))))))....... ( -19.00)
>DroSim_CAF1 17639 91 + 1
AAAAGCAACCUCGAUGAUAACAAUCAUCGUCAACAGCAACAAAUGCACGCAAUUGUUGUCAGUGAUUUAAAAUUUAUAACAAUUAACAGAA
....((.....(((((((....)))))))......(((.....)))..))(((((((((.(((........))).)))))))))....... ( -19.00)
>DroEre_CAF1 29883 91 + 1
AAAAGCAACCUCCACGAUAACAAUCAUCGUCAACAGCAACAAAAGCACGCAAUUGUUGUCAGUGAUUUAAAAUUUAUAACAAUUAACAGAA
....((.......(((((.......))))).....((.......))..))(((((((((.(((........))).)))))))))....... ( -13.10)
>consensus
AAAAGCAACCUCGAUGAUAACAAUCAUCGUCAACAGCAACAAAUGCACGCAAUUGUUGUCAGUGAUUUAAAAUUUAUAACAAUUAACAGAA
....((.....(((((((....)))))))......(((.....)))..))(((((((((.(((........))).)))))))))....... (-15.65 = -16.40 +   0.75) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:41 2006