Locus 4182

Sequence ID	X_DroMel_CAF1
Location	10,984,665 – 10,984,756
Length	91
Max. P	0.998779

overview

Window 9

Location	10,984,665 – 10,984,756
Length	91
Sequences	5
Columns	92
Reading direction	forward
Mean pairwise identity	93.41
Mean single sequence MFE	-21.94
Consensus MFE	-18.92
Energy contribution	-20.00
Covariance contribution	1.08
Combinations/Pair	1.04
Mean z-score	-2.53
Structure conservation index	0.86
SVM decision value	3.22
SVM RNA-class probability	0.998779
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10984665 91 + 22224390
CAGAUAUGUAGAUGUAGUUAAGCAGAGAUAUAUGUAUACAUAUAUACUUGUUAUGCAAGCGAACAGUGUGCAUGUCCAAGUG-AAUGGUGAA
...(((((((..(((......)))....))))))).(((.(((.((((((.((((((.((.....)).))))))..))))))-.)))))).. ( -20.70)
>DroSec_CAF1 8741 92 + 1
CAGAUAUGUAGAUGUAGUUAAGCAGAGAUAUAUCUAUACAUAUAUACUUGUUAUGCAAGCGAACAGUGUGCAUGUCCAAGUGGAAUGGUGAA
.((((((((...(((......)))...)))))))).(((.....((((((.((((((.((.....)).))))))..)))))).....))).. ( -25.10)
>DroSim_CAF1 8866 92 + 1
CAGAUAUGUAGAUGUAGUUAAGCAGAGAUAUAUCUAUACAUAUAUACUUGUUAUGCAAGCGAACAGUGUGCAUGUCCAAGUGGAAUGGUGAA
.((((((((...(((......)))...)))))))).(((.....((((((.((((((.((.....)).))))))..)))))).....))).. ( -25.10)
>DroEre_CAF1 9545 85 + 1
CAUAUAU------GUAGUUAAGCAGAGAUAUAUGUAUACAUAUAUACUUGUUAUGCAAGCAAACAGUGUGCAUGUCCAAGUG-AAUGGUGAA
.((((((------(((.....(((........))).)))))))))(((((.((((((.((.....)).))))))..))))).-......... ( -19.40)
>DroYak_CAF1 9198 85 + 1
CAUAUAU------GUAGUUAAGCAGAGAUAUAUGUAUACAUAUAUACUUGUUAUGCAAGCAAACAGUGUGCAUGUCCAAGUG-AAUGGUGAA
.((((((------(((.....(((........))).)))))))))(((((.((((((.((.....)).))))))..))))).-......... ( -19.40)
>consensus
CAGAUAUGUAGAUGUAGUUAAGCAGAGAUAUAUGUAUACAUAUAUACUUGUUAUGCAAGCGAACAGUGUGCAUGUCCAAGUG_AAUGGUGAA
.((((((((...(((......)))...)))))))).(((.....((((((.((((((.((.....)).))))))..)))))).....))).. (-18.92 = -20.00 +   1.08)

alignment

secondary structure

dotplot

Window 0

Location	10,984,665 – 10,984,756
Length	91
Sequences	5
Columns	92
Reading direction	reverse
Mean pairwise identity	93.41
Mean single sequence MFE	-13.12
Consensus MFE	-11.14
Energy contribution	-11.54
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-1.60
Structure conservation index	0.85
SVM decision value	0.99
SVM RNA-class probability	0.895547
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10984665 91 - 22224390
UUCACCAUU-CACUUGGACAUGCACACUGUUCGCUUGCAUAACAAGUAUAUAUGUAUACAUAUAUCUCUGCUUAACUACAUCUACAUAUCUG
.........-.(((((...(((((..(.....)..)))))..)))))(((((((....)))))))........................... ( -12.90)
>DroSec_CAF1 8741 92 - 1
UUCACCAUUCCACUUGGACAUGCACACUGUUCGCUUGCAUAACAAGUAUAUAUGUAUAGAUAUAUCUCUGCUUAACUACAUCUACAUAUCUG
...........(((((...(((((..(.....)..)))))..)))))..(((((((((((......))))............)))))))... ( -12.00)
>DroSim_CAF1 8866 92 - 1
UUCACCAUUCCACUUGGACAUGCACACUGUUCGCUUGCAUAACAAGUAUAUAUGUAUAGAUAUAUCUCUGCUUAACUACAUCUACAUAUCUG
...........(((((...(((((..(.....)..)))))..)))))..(((((((((((......))))............)))))))... ( -12.00)
>DroEre_CAF1 9545 85 - 1
UUCACCAUU-CACUUGGACAUGCACACUGUUUGCUUGCAUAACAAGUAUAUAUGUAUACAUAUAUCUCUGCUUAACUAC------AUAUAUG
.........-.(((((...(((((..(.....)..)))))..)))))(((((((((....................)))------)))))). ( -14.35)
>DroYak_CAF1 9198 85 - 1
UUCACCAUU-CACUUGGACAUGCACACUGUUUGCUUGCAUAACAAGUAUAUAUGUAUACAUAUAUCUCUGCUUAACUAC------AUAUAUG
.........-.(((((...(((((..(.....)..)))))..)))))(((((((((....................)))------)))))). ( -14.35)
>consensus
UUCACCAUU_CACUUGGACAUGCACACUGUUCGCUUGCAUAACAAGUAUAUAUGUAUACAUAUAUCUCUGCUUAACUACAUCUACAUAUCUG
...........(((((...(((((..(.....)..)))))..)))))(((((((....)))))))........................... (-11.14 = -11.54 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:18:28 2006