Locus 7371

Sequence ID	X_DroMel_CAF1
Location	18,367,542 – 18,367,682
Length	140
Max. P	0.854528

overview

Window 9

Location	18,367,542 – 18,367,661
Length	119
Sequences	4
Columns	119
Reading direction	reverse
Mean pairwise identity	99.58
Mean single sequence MFE	-19.63
Consensus MFE	-19.00
Energy contribution	-19.25
Covariance contribution	0.25
Combinations/Pair	1.00
Mean z-score	-1.88
Structure conservation index	0.97
SVM decision value	0.12
SVM RNA-class probability	0.593781
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18367542 119 - 22224390
GGGUGCAGGCAUUAUUCAUACAUAAAAAGCCAAUUAAAAAUUUAUAAUAAACCCCGCGCCAAACUGCUGCAACAACCCCAAAAGAAGCAGGCCGAAAAUAAAAAGAAUUAAAUAUGGCA
.(((((.(((.((((......))))...))).((((........)))).......)))))...(((((.................)))))((((....(((......)))....)))). ( -20.43)
>DroSec_CAF1 12169 119 - 1
GGGUGCAGGCAUUAUUCAUACAUAAAAAGCCAAUUAAAAAUUUAUAAUAAACCCCGCGCCAAACUGCUGCAACAACCCCAAAAGAAGCAGGCCGAAAAUAAAAAGAAUUAAAUAUGGCA
.(((((.(((.((((......))))...))).((((........)))).......)))))...(((((.................)))))((((....(((......)))....)))). ( -20.43)
>DroEre_CAF1 11333 119 - 1
GGGUGCAGGCAUUAUUCAUACAUAAAAAGCCAAUUAAAAAUUUAUAAUAAACCCCGCGCCAAACUGCUGCAACAACCCCAAAAGAAGCAGGCCGAAAAUAAAAAGAAUUAAAUAUCGCA
.(((((.(((.((((......))))...))).((((........)))).......)))))...(((((.................)))))............................. ( -17.23)
>DroYak_CAF1 11205 119 - 1
GGGUGCAGGCAUUAUUCAUACAUAAAAAGCCAAUUAAAAAUUUAUAAUAAACCCCGCGCCAAACUGCUGCAACAACCCCAAAAGAAGCAGGCCGAAAAUAAAAAGAAUUAAAUAUGGCA
.(((((.(((.((((......))))...))).((((........)))).......)))))...(((((.................)))))((((....(((......)))....)))). ( -20.43)
>consensus
GGGUGCAGGCAUUAUUCAUACAUAAAAAGCCAAUUAAAAAUUUAUAAUAAACCCCGCGCCAAACUGCUGCAACAACCCCAAAAGAAGCAGGCCGAAAAUAAAAAGAAUUAAAUAUGGCA
.(((((.(((.((((......))))...))).((((........)))).......)))))...(((((.................)))))((((....(((......)))....)))). (-19.00 = -19.25 +   0.25)

alignment

secondary structure

dotplot

Window 0

Location	18,367,582 – 18,367,682
Length	100
Sequences	4
Columns	115
Reading direction	reverse
Mean pairwise identity	89.61
Mean single sequence MFE	-34.95
Consensus MFE	-24.49
Energy contribution	-26.24
Covariance contribution	1.75
Combinations/Pair	1.00
Mean z-score	-3.09
Structure conservation index	0.70
SVM decision value	0.80
SVM RNA-class probability	0.854528
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18367582 100 - 22224390
UUACGAUGGACAGGGGUGC---------------CGGGGUGCAGGCAUUAUUCAUACAUAAAAAGCCAAUUAAAAAUUUAUAAUAAACCCCGCGCCAAACUGCUGCAACAACCCC
....(.((.((((.(((((---------------.(((((...(((.((((......))))...))).((((........))))..))))))))))...))).).)).)...... ( -25.00)
>DroSec_CAF1 12209 100 - 1
GGGCGAGGGGCAGGGGUGC---------------CGGGGUGCAGGCAUUAUUCAUACAUAAAAAGCCAAUUAAAAAUUUAUAAUAAACCCCGCGCCAAACUGCUGCAACAACCCC
(((...(.(((((.(((((---------------.(((((...(((.((((......))))...))).((((........))))..))))))))))...))))).).....))). ( -33.20)
>DroEre_CAF1 11373 115 - 1
GGGGGCGGGGCAGGGGUGCAGUGUUGCCGGGGUGCGGGGUGCAGGCAUUAUUCAUACAUAAAAAGCCAAUUAAAAAUUUAUAAUAAACCCCGCGCCAAACUGCUGCAACAACCCC
((((..(..((((.(((((......))...((((((((((...(((.((((......))))...))).((((........))))..))))))))))..))).))))..)..)))) ( -45.20)
>DroYak_CAF1 11245 100 - 1
GGGGGAGGGGCAGGGGUGC---------------CGGGGUGCAGGCAUUAUUCAUACAUAAAAAGCCAAUUAAAAAUUUAUAAUAAACCCCGCGCCAAACUGCUGCAACAACCCC
((((..(.(((((.(((((---------------.(((((...(((.((((......))))...))).((((........))))..))))))))))...))))).).....)))) ( -36.40)
>consensus
GGGCGAGGGGCAGGGGUGC_______________CGGGGUGCAGGCAUUAUUCAUACAUAAAAAGCCAAUUAAAAAUUUAUAAUAAACCCCGCGCCAAACUGCUGCAACAACCCC
((((..(.(((((.(((((................(((((...(((.((((......))))...))).((((........))))..))))))))))...))))).).....)))) (-24.49 = -26.24 +   1.75)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:37:14 2006