Locus 278

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

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

secondary structure

dotplot

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

secondary structure

dotplot

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