Locus 5265

Sequence ID	X_DroMel_CAF1
Location	13,778,168 – 13,778,260
Length	92
Max. P	0.999930

overview

Window 8

Location	13,778,168 – 13,778,260
Length	92
Sequences	5
Columns	92
Reading direction	forward
Mean pairwise identity	94.67
Mean single sequence MFE	-28.12
Consensus MFE	-26.42
Energy contribution	-26.70
Covariance contribution	0.28
Combinations/Pair	1.06
Mean z-score	-1.89
Structure conservation index	0.94
SVM decision value	2.92
SVM RNA-class probability	0.997756
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13778168 92 + 22224390
GAGGCCACCCACACGACAAUCGGAACAGGUAUUGUGCUUUUCCGAUUUCGAUAAUGGAUGAACUCCGAUCCACUGAAAGAAAGAUGGAUUGU
(((..((.(((..(((.((((((((.((((.....)))))))))))))))....))).))..)))(((((((((.......)).))))))). ( -29.80)
>DroSec_CAF1 85592 92 + 1
GAGGCCACCCACACGACAAUCGGAACAGGUAUUGUGCUUUUCCGAUUUCGAUAAUGGAUGAACUCCGAUCCACUGGGAGAAAGAUGGAUUGC
(((..((.(((..(((.((((((((.((((.....)))))))))))))))....))).))..)))(((((((((.......)).))))))). ( -29.60)
>DroSim_CAF1 92006 92 + 1
GAGGCCACCCACACGACAAUCGGAACAGGUAUUGUGCUUUUCCGAUUUCGAUAAUGGAUGAACUCCGAUCCACUGGGAGAAAGAUGGAUUGC
(((..((.(((..(((.((((((((.((((.....)))))))))))))))....))).))..)))(((((((((.......)).))))))). ( -29.60)
>DroEre_CAF1 87132 91 + 1
GAGGCCACCCACACGACAAUCGGAACAGGUAU-GUGCUUUUCCGAUUUCGAUAAUGGAUGAACUCCGAUCCGCUGGAAUAAAGAUGGAUUGG
(((..((.(((..(((.((((((((.((((..-..)))))))))))))))....))).))..)))(((((((((.......)).))))))). ( -30.10)
>DroYak_CAF1 95035 92 + 1
GAGGCCACCCACACAACAAUCGGAACAGGUAUUGUGGUUUUUCGAUUUCGAUAAUGGAUGAACUGCGAUCCACUGGGAAAAAGAUGGAUUGG
.((..((.((((((((..(((......))).))))).....(((....)))...))).))..)).(((((((((.......)).))))))). ( -21.50)
>consensus
GAGGCCACCCACACGACAAUCGGAACAGGUAUUGUGCUUUUCCGAUUUCGAUAAUGGAUGAACUCCGAUCCACUGGGAGAAAGAUGGAUUGC
(((..((.(((..(((.((((((((.((((.....)))))))))))))))....))).))..)))(((((((((.......)).))))))). (-26.42 = -26.70 +   0.28)

alignment

secondary structure

dotplot

Window 9

Location	13,778,168 – 13,778,260
Length	92
Sequences	5
Columns	92
Reading direction	reverse
Mean pairwise identity	94.67
Mean single sequence MFE	-28.31
Consensus MFE	-26.88
Energy contribution	-27.52
Covariance contribution	0.64
Combinations/Pair	1.03
Mean z-score	-2.54
Structure conservation index	0.95
SVM decision value	4.63
SVM RNA-class probability	0.999930
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13778168 92 - 22224390
ACAAUCCAUCUUUCUUUCAGUGGAUCGGAGUUCAUCCAUUAUCGAAAUCGGAAAAGCACAAUACCUGUUCCGAUUGUCGUGUGGGUGGCCUC
.(.((((((..........)))))).)(((..(((((((...(((((((((((.((........)).)))))))).))).)))))))..))) ( -31.30)
>DroSec_CAF1 85592 92 - 1
GCAAUCCAUCUUUCUCCCAGUGGAUCGGAGUUCAUCCAUUAUCGAAAUCGGAAAAGCACAAUACCUGUUCCGAUUGUCGUGUGGGUGGCCUC
.(.((((((..........)))))).)(((..(((((((...(((((((((((.((........)).)))))))).))).)))))))..))) ( -31.00)
>DroSim_CAF1 92006 92 - 1
GCAAUCCAUCUUUCUCCCAGUGGAUCGGAGUUCAUCCAUUAUCGAAAUCGGAAAAGCACAAUACCUGUUCCGAUUGUCGUGUGGGUGGCCUC
.(.((((((..........)))))).)(((..(((((((...(((((((((((.((........)).)))))))).))).)))))))..))) ( -31.00)
>DroEre_CAF1 87132 91 - 1
CCAAUCCAUCUUUAUUCCAGCGGAUCGGAGUUCAUCCAUUAUCGAAAUCGGAAAAGCAC-AUACCUGUUCCGAUUGUCGUGUGGGUGGCCUC
((.((((..............)))).))((..(((((((...(((((((((((.((...-....)).)))))))).))).)))))))..)). ( -28.64)
>DroYak_CAF1 95035 92 - 1
CCAAUCCAUCUUUUUCCCAGUGGAUCGCAGUUCAUCCAUUAUCGAAAUCGAAAAACCACAAUACCUGUUCCGAUUGUUGUGUGGGUGGCCUC
...((((((..........))))))...((..((((((...(((....))).....(((((((...........)))))))))))))..)). ( -19.60)
>consensus
CCAAUCCAUCUUUCUCCCAGUGGAUCGGAGUUCAUCCAUUAUCGAAAUCGGAAAAGCACAAUACCUGUUCCGAUUGUCGUGUGGGUGGCCUC
.(.((((((..........)))))).)(((..(((((((...(((((((((((.((........)).)))))))).))).)))))))..))) (-26.88 = -27.52 +   0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:36 2006