Locus 4471

Sequence ID	3L_DroMel_CAF1
Location	12,962,770 – 12,962,930
Length	160
Max. P	0.989516

overview

Window 0

Location	12,962,770 – 12,962,890
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	95.33
Mean single sequence MFE	-28.60
Consensus MFE	-25.28
Energy contribution	-25.36
Covariance contribution	0.08
Combinations/Pair	1.08
Mean z-score	-1.92
Structure conservation index	0.88
SVM decision value	2.17
SVM RNA-class probability	0.989516
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12962770 120 + 23771897
GCCUUCCCCAACUUUUCCGACUUGGUCAACGACGCGUGUCGAACUUCAUUUUGAUAUGGGUCCAGGUCACUGACAUAUCAAUUUGACCACAAAAGCUUUCAAACAAAGGCCAGAACACAA
(((((......(......)...(((((((.(((.(((((((((......))))))))).)))(((....)))..........)))))))................))))).......... ( -28.00)
>DroSec_CAF1 80029 120 + 1
GCCUUCUCCAACUUUUCCGACUCGGUCAACGACGCGUGUCGAACUUCAUUUUGAUAUGGGUCCAGGUCACUGACAUAUCAAUUUGACCACAAAAGCUUUCAAACAAAGGCCAGAACACAA
(((((............((((.(((((...))).)).))))....(((..((((((((....(((....))).))))))))..)))...................))))).......... ( -29.20)
>DroSim_CAF1 84743 120 + 1
GCCUUCUCCAACUUUUCCGACUCGGUCAACGACGCGUGUCGAACUUCAUUUUGAUAUGGGUCCAGGUCACUGACAUAUCAAUUUGACCACAAAAGCUUUCAAACAAAGGCCAGAACACAA
(((((............((((.(((((...))).)).))))....(((..((((((((....(((....))).))))))))..)))...................))))).......... ( -29.20)
>DroEre_CAF1 85990 119 + 1
GCCUUCUCCAAGUUUUUCGACUCGGCCAACGACGCGUGUCGAACUUCAUUUUGAUAUGGGUCCAGGUCACUGACAUAUCAAUUUGACCACAAAAGCUUUCAAACAAAGGCCGAAACACA-
.....................((((((...(((.(((((((((......))))))))).)))..(((((.(((....)))...)))))...................))))))......- ( -32.70)
>DroYak_CAF1 83960 119 + 1
GCCUUCUCCAAUUUUUUCGACUCAGUCAACGAUGCGUGUCGAACUUCAUUUUGAUAUGGGUCCAGGUCACUGACAUAUCAAUUCGACCACAAAAGCUUUCAAACAAAGGCCCAAACACA-
(((((.............(((...)))...((.((((((((((.......((((((((....(((....))).))))))))))))).)))....))..)).....))))).........- ( -23.91)
>consensus
GCCUUCUCCAACUUUUCCGACUCGGUCAACGACGCGUGUCGAACUUCAUUUUGAUAUGGGUCCAGGUCACUGACAUAUCAAUUUGACCACAAAAGCUUUCAAACAAAGGCCAGAACACAA
.......................((((...(((.(((((((((......))))))))).)))..(((((.(((....)))...)))))...................))))......... (-25.28 = -25.36 +   0.08)

alignment

secondary structure

dotplot

Window 1

Location	12,962,810 – 12,962,930
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	97.05
Mean single sequence MFE	-25.02
Consensus MFE	-23.24
Energy contribution	-23.28
Covariance contribution	0.04
Combinations/Pair	1.07
Mean z-score	-1.28
Structure conservation index	0.93
SVM decision value	0.50
SVM RNA-class probability	0.758870
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12962810 120 + 23771897
GAACUUCAUUUUGAUAUGGGUCCAGGUCACUGACAUAUCAAUUUGACCACAAAAGCUUUCAAACAAAGGCCAGAACACAAAGUUGGCCGCAAAAUUCAAUUUGGACACAAUGAGACACGA
.....(((..((((((((....(((....))).))))))))..)))........(.(((((......((((((.........)))))).((((......)))).......)))))).... ( -25.40)
>DroSec_CAF1 80069 118 + 1
GAACUUCAUUUUGAUAUGGGUCCAGGUCACUGACAUAUCAAUUUGACCACAAAAGCUUUCAAACAAAGGCCAGAACACAAAGUUGGCCGCAAAAUUCAAUUUGGCCACAAUGAGA--CGA
.....(((..((((((((....(((....))).))))))))..)))........(.(((((......(((((((........(((....))).......)))))))....)))))--).. ( -25.46)
>DroSim_CAF1 84783 118 + 1
GAACUUCAUUUUGAUAUGGGUCCAGGUCACUGACAUAUCAAUUUGACCACAAAAGCUUUCAAACAAAGGCCAGAACACAAAGUUGGCCGCAAAAUUCAAUUUGGCCACAAUGAGA--CGA
.....(((..((((((((....(((....))).))))))))..)))........(.(((((......(((((((........(((....))).......)))))))....)))))--).. ( -25.46)
>DroEre_CAF1 86030 117 + 1
GAACUUCAUUUUGAUAUGGGUCCAGGUCACUGACAUAUCAAUUUGACCACAAAAGCUUUCAAACAAAGGCCGAAACACA-AGUUGGCCGCAAAAUUCAAUUUGGCCACAAUGAGA--CGA
.....(((..((((((((....(((....))).))))))))..)))........(.(((((......((((((......-..)))))).((((......)))).......)))))--).. ( -26.20)
>DroYak_CAF1 84000 117 + 1
GAACUUCAUUUUGAUAUGGGUCCAGGUCACUGACAUAUCAAUUCGACCACAAAAGCUUUCAAACAAAGGCCCAAACACA-AGUUGGCCGCAAAAUUCAAUUUGGCCACAAUGAGA--CGA
....((((((((((((((....(((....))).)))))))).............(((((......))))).........-.((.(((((............))))))))))))).--... ( -22.60)
>consensus
GAACUUCAUUUUGAUAUGGGUCCAGGUCACUGACAUAUCAAUUUGACCACAAAAGCUUUCAAACAAAGGCCAGAACACAAAGUUGGCCGCAAAAUUCAAUUUGGCCACAAUGAGA__CGA
.....(((..((((((((....(((....))).))))))))..)))..........(((((......((((((.........)))))).((((......)))).......)))))..... (-23.24 = -23.28 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:24:06 2006