Locus 1144

Sequence ID	3R_DroMel_CAF1
Location	3,425,912 – 3,426,007
Length	95
Max. P	0.997794

overview

Window 9

Location	3,425,912 – 3,426,007
Length	95
Sequences	5
Columns	95
Reading direction	forward
Mean pairwise identity	93.37
Mean single sequence MFE	-25.92
Consensus MFE	-25.40
Energy contribution	-25.40
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.65
Structure conservation index	0.98
SVM decision value	2.55
SVM RNA-class probability	0.995184
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3425912 95 + 27905053
AUACGCGACAUUGCGGCCACGUCAAGUAAAAUAGAUUAAUUUUACCUGUGGCCAACGGGCCAGAAGGUUGUCGUCCUCAUUCUGAUUUUUCCAUC
....(((((.....(((((((....(((((((......))))))).)))))))....((((....)))))))))..................... ( -25.40)
>DroSec_CAF1 24121 95 + 1
AUACGCGACAUUGCGGCCACGUCACGUAAAAUAGAUUAAUUUUACCUGUGGCCAACGGGCCAGAAGGUUGUCGUCCUCAUCCUGAUUUUUCCAUC
....(((((.....(((((((....(((((((......))))))).)))))))....((((....)))))))))..................... ( -25.40)
>DroEre_CAF1 34801 95 + 1
AUACGCGACAUUGCGGCCACGUCAAGUAAAAUAGAUUAAUUUUACCUGUGGCCAACGGGCCAGAAGGUUGUCGUCCUCAUCCUGAUUUUUCCAUC
....(((((.....(((((((....(((((((......))))))).)))))))....((((....)))))))))..................... ( -25.40)
>DroYak_CAF1 41847 95 + 1
AUACGCGACAUUGCGGCCACGUCAAGUAAAAUAGAUUAAUUUUACCUGUGGCCAACGGGCCAGAAGGUUGUCGUCCUCAUCCUGAUUUUUCCCUC
....(((((.....(((((((....(((((((......))))))).)))))))....((((....)))))))))..................... ( -25.40)
>DroAna_CAF1 23269 84 + 1
AUACGCGACAUUGCGGCCACGUCAAGUAAAAUAGAUUAAUUUUACCUGUGGCCAACGGGCCAGAAGGUUGUCGUCCUCAGCCCG-----------
....(((....)))(((((((....(((((((......))))))).)))))))..(((((..((.((.......)))).)))))----------- ( -28.00)
>consensus
AUACGCGACAUUGCGGCCACGUCAAGUAAAAUAGAUUAAUUUUACCUGUGGCCAACGGGCCAGAAGGUUGUCGUCCUCAUCCUGAUUUUUCCAUC
....(((((.....(((((((....(((((((......))))))).)))))))....((((....)))))))))..................... (-25.40 = -25.40 +   0.00)

alignment

secondary structure

dotplot

Window 0

Location	3,425,912 – 3,426,007
Length	95
Sequences	5
Columns	95
Reading direction	reverse
Mean pairwise identity	93.37
Mean single sequence MFE	-29.38
Consensus MFE	-26.46
Energy contribution	-26.66
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-2.07
Structure conservation index	0.90
SVM decision value	2.93
SVM RNA-class probability	0.997794
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3425912 95 - 27905053
GAUGGAAAAAUCAGAAUGAGGACGACAACCUUCUGGCCCGUUGGCCACAGGUAAAAUUAAUCUAUUUUACUUGACGUGGCCGCAAUGUCGCGUAU
(((......))).....((((........))))(((((....)))))((((((((((......))))))))))(((((((......))))))).. ( -28.40)
>DroSec_CAF1 24121 95 - 1
GAUGGAAAAAUCAGGAUGAGGACGACAACCUUCUGGCCCGUUGGCCACAGGUAAAAUUAAUCUAUUUUACGUGACGUGGCCGCAAUGUCGCGUAU
((((((....((.....))........((((..(((((....))))).))))........)))))).((((((((((.......)))))))))). ( -27.70)
>DroEre_CAF1 34801 95 - 1
GAUGGAAAAAUCAGGAUGAGGACGACAACCUUCUGGCCCGUUGGCCACAGGUAAAAUUAAUCUAUUUUACUUGACGUGGCCGCAAUGUCGCGUAU
(((......))).....((((........))))(((((....)))))((((((((((......))))))))))(((((((......))))))).. ( -28.40)
>DroYak_CAF1 41847 95 - 1
GAGGGAAAAAUCAGGAUGAGGACGACAACCUUCUGGCCCGUUGGCCACAGGUAAAAUUAAUCUAUUUUACUUGACGUGGCCGCAAUGUCGCGUAU
(((((.....((.....))(.....)..)))))(((((....)))))((((((((((......))))))))))(((((((......))))))).. ( -29.50)
>DroAna_CAF1 23269 84 - 1
-----------CGGGCUGAGGACGACAACCUUCUGGCCCGUUGGCCACAGGUAAAAUUAAUCUAUUUUACUUGACGUGGCCGCAAUGUCGCGUAU
-----------((((((((((........)))).))))))..(((((((((((((((......)))))))))...))))))((......)).... ( -32.90)
>consensus
GAUGGAAAAAUCAGGAUGAGGACGACAACCUUCUGGCCCGUUGGCCACAGGUAAAAUUAAUCUAUUUUACUUGACGUGGCCGCAAUGUCGCGUAU
.................((((........))))(((((....)))))((((((((((......))))))))))(((((((......))))))).. (-26.46 = -26.66 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:09 2006