Locus 6055

Sequence ID	2L_DroMel_CAF1
Location	17,044,966 – 17,045,106
Length	140
Max. P	0.984012

overview

Window 2

Location	17,044,966 – 17,045,086
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	97.50
Mean single sequence MFE	-29.78
Consensus MFE	-27.38
Energy contribution	-28.22
Covariance contribution	0.84
Combinations/Pair	1.03
Mean z-score	-1.81
Structure conservation index	0.92
SVM decision value	1.96
SVM RNA-class probability	0.984012
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17044966 120 - 22407834
UUCUCUUUAUUUUAUUCGAUUGUGUGGGUGUGUCGGCAGAGUCAACUAAUUUAUGUUUUAACACACUCGCACAUGCAAAUUAGCACACACACAAAAUGAAUGCAAAUAUUGGGUUCCAAG
..(((..(((((((((((..(((((((((((((.((((((((......)))).))))...)))))))))))))(((......)))...........)))))).)))))..)))....... ( -31.50)
>DroSec_CAF1 9102 120 - 1
UUCUCUUUAUUAUAUUCGAUUGUGUGGGUGUGUCGGCAGAGUCAACUAAUUUAUGUUUUAACACACUCGCACAUGCAAAUUAGCACACGCACAAAAUGAAUGCAAAUAUUGGGUUCCAAG
..(((..((((.((((((..(((((((((((((.((((((((......)))).))))...)))))))))))))(((......)))...........))))))..))))..)))....... ( -29.50)
>DroSim_CAF1 2752 120 - 1
UUCUCUUUAUUUUAUUCGAUUGUGUGGGUGUGUCGGCAGAGUCAACUAAUUUAUGUUUUAACACACUCGCACAUGCAAAUUAGCACACGCACAAAAUGAAUGCAAAUAUUGGGUUCCAAG
..(((..(((((((((((..(((((((((((((.((((((((......)))).))))...)))))))))))))(((......)))...........)))))).)))))..)))....... ( -31.50)
>DroEre_CAF1 8899 120 - 1
UUCACUUUGUUUUAUUGGAUUGUGUGGGUGUGUCGCCAGAGUCAACUAAUUUAUGUUUUAACACACUCGCACAUGCAAAUUAGCACACGCACAAAAUGAAUGCAAAUAUUGGGCUCCAAG
((((.(((((....(((.((.((((((((((((.((..((((......))))..))....)))))))))))))).)))....((....))))))).))))........((((...)))). ( -27.40)
>DroYak_CAF1 6648 120 - 1
UUCACUUUAUUUUAUUCGAUUGUGUGGGUGUGUCGGCAGAGUCAACUAAUUUAUGUUUUAACACACUCGCACAUGCAAAUUAGCACACGCACAAAAUGAAUGCAAAUAUUGGGUUCCAAG
....(..(((((((((((..(((((((((((((.((((((((......)))).))))...)))))))))))))(((......)))...........)))))).)))))..)......... ( -29.00)
>consensus
UUCUCUUUAUUUUAUUCGAUUGUGUGGGUGUGUCGGCAGAGUCAACUAAUUUAUGUUUUAACACACUCGCACAUGCAAAUUAGCACACGCACAAAAUGAAUGCAAAUAUUGGGUUCCAAG
..(((..(((((((((((..(((((((((((((.((((((((......)))).))))...)))))))))))))(((......)))...........)))))).)))))..)))....... (-27.38 = -28.22 +   0.84)

alignment

secondary structure

dotplot

Window 3

Location	17,045,006 – 17,045,106
Length	100
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	88.62
Mean single sequence MFE	-23.79
Consensus MFE	-20.24
Energy contribution	-20.44
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-1.62
Structure conservation index	0.85
SVM decision value	0.76
SVM RNA-class probability	0.842893
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17045006 100 - 22407834
U--------------------GAAACUUUCUCUAACCCCUUUCUCUUUAUUUUAUUCGAUUGUGUGGGUGUGUCGGCAGAGUCAACUAAUUUAUGUUUUAACACACUCGCACAUGCAAAU
.--------------------....................................(..(((((((((((((.((((((((......)))).))))...)))))))))))))..).... ( -21.10)
>DroSec_CAF1 9142 100 - 1
U--------------------GAAACUUUCUCUAACCCCUUUCUCUUUAUUAUAUUCGAUUGUGUGGGUGUGUCGGCAGAGUCAACUAAUUUAUGUUUUAACACACUCGCACAUGCAAAU
.--------------------....................................(..(((((((((((((.((((((((......)))).))))...)))))))))))))..).... ( -21.10)
>DroSim_CAF1 2792 100 - 1
U--------------------GAAACUUUCUCUAACCCCUUUCUCUUUAUUUUAUUCGAUUGUGUGGGUGUGUCGGCAGAGUCAACUAAUUUAUGUUUUAACACACUCGCACAUGCAAAU
.--------------------....................................(..(((((((((((((.((((((((......)))).))))...)))))))))))))..).... ( -21.10)
>DroEre_CAF1 8939 109 - 1
UCGAGAAGUA-----------GAAACUUUCUCCAACCCCUUUCACUUUGUUUUAUUGGAUUGUGUGGGUGUGUCGCCAGAGUCAACUAAUUUAUGUUUUAACACACUCGCACAUGCAAAU
..(((((((.-----------...)).)))))......................(((.((.((((((((((((.((..((((......))))..))....)))))))))))))).))).. ( -24.10)
>DroYak_CAF1 6688 120 - 1
UCGAAAAGUCGGGAGUGAGGCGAAACUUUCUCUAACCCCUUUCACUUUAUUUUAUUCGAUUGUGUGGGUGUGUCGGCAGAGUCAACUAAUUUAUGUUUUAACACACUCGCACAUGCAAAU
(((((.((...(((((((((.(...............).)))))))))...)).))))).(((((((((((((.((((((((......)))).))))...)))))))))))))....... ( -31.56)
>consensus
U____________________GAAACUUUCUCUAACCCCUUUCUCUUUAUUUUAUUCGAUUGUGUGGGUGUGUCGGCAGAGUCAACUAAUUUAUGUUUUAACACACUCGCACAUGCAAAU
.........................................................(..(((((((((((((.((((((((......)))).))))...)))))))))))))..).... (-20.24 = -20.44 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:52 2006