Locus 5904

Sequence ID 3L_DroMel_CAF1
Location 15,856,723 – 15,856,818
Length 95
Max. P 0.629936
window9414

overview

Window 4

Location 15,856,723 – 15,856,818
Length 95
Sequences 4
Columns 95
Reading direction forward
Mean pairwise identity 89.75
Mean single sequence MFE -28.40
Consensus MFE -25.69
Energy contribution -25.25
Covariance contribution -0.44
Combinations/Pair 1.17
Mean z-score -1.39
Structure conservation index 0.90
SVM decision value 0.20
SVM RNA-class probability 0.629936
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15856723 95 + 23771897
CAGUUCCCUCGGCGCACAUGGAAAACUUUCAGAAUAGAUUAAAUUUGUUCUGGCUGUGGUACUAAGGGGGGCGGGGGGAUUCACCGCAGCUUCCA
.((((((((((.(.(.(.((((..((..(((((((((((...)))))))))))..))..).))).).).).)))))))))).............. ( -30.30)
>DroSim_CAF1 65582 91 + 1
CAGCUCCCUCGGCGCACAUGGAAAACUUUCAGAAUAGAUUAAAUUUGUUCUGGCUGCGGUACCAAAGAG----GGGGGUUGCACCGCAGCUUCCA
..((.((...)).))...(((((......((((((((((...))))))))))(((((((((((......----...)))...))))))))))))) ( -31.70)
>DroEre_CAF1 63659 89 + 1
CAGCUCCCUCGGCGCACAUGGAAAACUUUCAGAAUAGAUUAAAUUUGUUCUGGCUGCGGCACCAAAGGG------GGGAUUCAUCGCAGCUUUCA
..((.((...)).)).....((((.....((((((((((...))))))))))(((((((..((......------))......))))))))))). ( -24.20)
>DroYak_CAF1 105318 89 + 1
CAGCUCCCGCGGCGCACAUGGAAAACUUUCAGAAUAGAUUAAAUUUGUUCAGGCUGCGGUACCAAAGAG------GGGAUUCACCGCAGCUUCCA
..((.((...)).))...(((((........((((((((...))))))))..((((((((.((......------)).....))))))))))))) ( -27.40)
>consensus
CAGCUCCCUCGGCGCACAUGGAAAACUUUCAGAAUAGAUUAAAUUUGUUCUGGCUGCGGUACCAAAGAG______GGGAUUCACCGCAGCUUCCA
..((.((...)).))...(((((......((((((((((...))))))))))((((((((.((............)).....))))))))))))) (-25.69 = -25.25 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:03:27 2006