Locus 5240

Sequence ID X_DroMel_CAF1
Location 13,672,021 – 13,672,118
Length 97
Max. P 0.837625
window8489

overview

Window 9

Location 13,672,021 – 13,672,118
Length 97
Sequences 5
Columns 97
Reading direction reverse
Mean pairwise identity 92.78
Mean single sequence MFE -32.50
Consensus MFE -24.80
Energy contribution -24.52
Covariance contribution -0.28
Combinations/Pair 1.09
Mean z-score -2.10
Structure conservation index 0.76
SVM decision value 0.74
SVM RNA-class probability 0.837625
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13672021 97 - 22224390
CAGUCGCAGUCUCAGUCGCUGUCGCUGUCGACGUCGGUAGAUCUCGGCCUGGAAUUCUCCGAUCUUCGACGUUUUCCAAUUUCAUUCAGGCGACAAC
..((((((((..(((...)))..)))(((((.(((((.(((..((......))..))))))))..)))))...................)))))... ( -29.00)
>DroSec_CAF1 3288 97 - 1
CAGUCGCAGUCUCAGUCGCUGCCUCUGUCGGCGUCGGUAGAUCUCGGCCUGGAAUUCUCCGAUCUUCGACGUUUUCCAAUUUCAUUCAGGCGACAAC
..............(((((((((......)))(((((.(((((.......(((....)))))))))))))..................))))))... ( -26.71)
>DroSim_CAF1 2550 93 - 1
----CGCAGUCUCAGUCGCUGCCUCUGUCGACGUCGGUUGAUCUCGGCCUGGAAUUCUCCGAUCUUCGACGUUUUCCAAUUUCAUUCAGGCGACAAC
----..........(((((((((...((((((....))))))...))).(((((..(..((.....))..)..)))))..........))))))... ( -26.70)
>DroEre_CAF1 3114 97 - 1
CAGUCGCAGUCGCCGCCUCUGCCGACGUCGACGUCGGUAGAUCUCGGCCUGGAAUUCUCCGAUCUUCGACGUUUUCCAAUUUCAUUCAGGCGGCAAC
........(((((((((((((((((((....))))))))))....))).(((((..(..((.....))..)..)))))..........))))))... ( -39.90)
>DroYak_CAF1 3376 97 - 1
CAGUCGCAGUCGCCGUCGCUGCCGACGUCGACGUCGGUAGAUCUCGGCCUGGAAUUCUCCGAUCUUCGACGUUUUCCAAUUUCAUUCAGGCGACAAC
..(((((....((((...(((((((((....)))))))))....)))).(((((..(..((.....))..)..)))))...........)))))... ( -40.20)
>consensus
CAGUCGCAGUCUCAGUCGCUGCCGCUGUCGACGUCGGUAGAUCUCGGCCUGGAAUUCUCCGAUCUUCGACGUUUUCCAAUUUCAUUCAGGCGACAAC
..............((((((......(((((.(((....))).))))).(((((..(..((.....))..)..)))))..........))))))... (-24.80 = -24.52 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:01 2006