Locus 3078

Sequence ID X_DroMel_CAF1
Location 8,221,830 – 8,221,928
Length 98
Max. P 0.715213
window5033 window5034

overview

Window 3

Location 8,221,830 – 8,221,928
Length 98
Sequences 3
Columns 104
Reading direction forward
Mean pairwise identity 81.70
Mean single sequence MFE -22.85
Consensus MFE -17.42
Energy contribution -17.87
Covariance contribution 0.45
Combinations/Pair 1.07
Mean z-score -1.49
Structure conservation index 0.76
SVM decision value 0.02
SVM RNA-class probability 0.545510
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8221830 98 + 22224390
CGAUCGUAAGGAUCAAUUGCCGGCAGCAGGAAUAUCCUGCCGCUCAUCCUCUCAUUCUCUUGGCAAAUUUCAGAGCCGCCUCCUGCUCCUC---CUUCAUC---
.(((.(.(((((....((((((((.(((((.....))))).))).................)))))......((((........)))).))---)))))))--- ( -25.92)
>DroSec_CAF1 123077 98 + 1
CGAUCGUCAGGAUCAAUUGCUGGCAGCAGGAAUAUCCUGCCGCUCAUCCUCUCAUUCUGUUGGCAAAUUUCAGAGCCGCCGCCUCCUGCUC---CUCCAUC---
.((((.....))))..((((..((((((((.....))))).................)))..))))......((((.(.......).))))---.......--- ( -23.72)
>DroYak_CAF1 113287 102 + 1
CGAUCGUCAGGAUCAAUUGCUGGCAGCAAAAAUAUCCUGCCGCUCAUCU--GCAAUCUCUUGGCAAAUUUCAGAGUCGCCUCCACUUCCACUUCCAUUUCCACC
.....(((((((...(((((((((((..........)))))).......--))))).)))))))........(((....)))...................... ( -18.91)
>consensus
CGAUCGUCAGGAUCAAUUGCUGGCAGCAGGAAUAUCCUGCCGCUCAUCCUCUCAUUCUCUUGGCAAAUUUCAGAGCCGCCUCCUCCUCCUC___CUUCAUC___
.((((.....)))).......(((.(((((.....))))).....................(((..........))))))........................ (-17.42 = -17.87 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 8,221,830 – 8,221,928
Length 98
Sequences 3
Columns 104
Reading direction reverse
Mean pairwise identity 81.70
Mean single sequence MFE -32.27
Consensus MFE -22.68
Energy contribution -21.80
Covariance contribution -0.88
Combinations/Pair 1.20
Mean z-score -1.84
Structure conservation index 0.70
SVM decision value 0.39
SVM RNA-class probability 0.715213
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8221830 98 - 22224390
---GAUGAAG---GAGGAGCAGGAGGCGGCUCUGAAAUUUGCCAAGAGAAUGAGAGGAUGAGCGGCAGGAUAUUCCUGCUGCCGGCAAUUGAUCCUUACGAUCG
---(((.(((---(((((((........))))).....(((((.......(....)...(.((((((((.....))))))))))))))....)))))...))). ( -34.40)
>DroSec_CAF1 123077 98 - 1
---GAUGGAG---GAGCAGGAGGCGGCGGCUCUGAAAUUUGCCAACAGAAUGAGAGGAUGAGCGGCAGGAUAUUCCUGCUGCCAGCAAUUGAUCCUGACGAUCG
---(((.(((---((.(((...(((((((.........)))))...............((.((((((((.....))))))))))))..))).))))..).))). ( -33.10)
>DroYak_CAF1 113287 102 - 1
GGUGGAAAUGGAAGUGGAAGUGGAGGCGACUCUGAAAUUUGCCAAGAGAUUGC--AGAUGAGCGGCAGGAUAUUUUUGCUGCCAGCAAUUGAUCCUGACGAUCG
(((.(....(((.(..((..(((((....)))))...))..).....((((((--...((.(((((((((...)))))))))))))))))..)))...).))). ( -29.30)
>consensus
___GAUGAAG___GAGGAGGAGGAGGCGGCUCUGAAAUUUGCCAAGAGAAUGAGAGGAUGAGCGGCAGGAUAUUCCUGCUGCCAGCAAUUGAUCCUGACGAUCG
........................(((((.........))))).............(.((.((((((((.....)))))))))).)....((((.....)))). (-22.68 = -21.80 +  -0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:50:25 2006