Locus 3419

Sequence ID 3L_DroMel_CAF1
Location 10,029,711 – 10,029,831
Length 120
Max. P 0.886451
window5343

overview

Window 3

Location 10,029,711 – 10,029,831
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.17
Mean single sequence MFE -27.96
Consensus MFE -22.68
Energy contribution -23.28
Covariance contribution 0.60
Combinations/Pair 1.11
Mean z-score -1.77
Structure conservation index 0.81
SVM decision value 0.94
SVM RNA-class probability 0.886451
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10029711 120 + 23771897
CUUCAUAAAAACAUGCUGUGCAACGAAAAAUGUACCACUACAUUUUUCAAGGUAGUCCUUGAACAAAGUUCGAUCCGCGAACGAAUUCCCAGUAUGGCAUUCCUCGAUGGUUCAAUCGGC
............(((((((((...((((((((((....))))))))))((((....)))).......(((((.....))))).........)))))))))...(((((......))))). ( -31.10)
>DroSec_CAF1 82227 120 + 1
CUUCAUAAAAACAUGCUGUGCAACGAAAAAUGUACCACUACAUUUUUCAAGGUAGUCCUUGAACAAAGUUCGAUCCGCGAAUGAAUUCCCAGUAUGGCAUUCCUCGAUGGUUCAAUCGGC
............(((((((((...((((((((((....))))))))))((((....))))(((....(((((.....)))))...)))...)))))))))...(((((......))))). ( -29.50)
>DroSim_CAF1 92011 120 + 1
CUUCAUAAAAACAUGCUGUGUAACGAAAAAUGUACCACUACAUUUUUCAAGGUAGUCCUUGAACAAAGUUCGAUCCGCGAAUGAAUUCCCAGUAUGGCAUUCCUCGAUGGUUCAAUCGGC
...........((((((((((...((((((((((....))))))))))((((....))))..)))..(((((.....))))).......))))))).......(((((......))))). ( -28.50)
>DroEre_CAF1 86493 108 + 1
CUUCAUAAAAACAUUUUGUGCAACGAAAAAUGCACCACUACAUUUUUC------------GAACAAAGUUCGAUCCGCGAAUGCAUUCCCAGUGCGCCAUUCCUCGAUGGUUCAAUCGGC
.................((((..(((((((((........))))))))------------)......(((((.....))))))))).((...((.((((((....)))))).))...)). ( -23.80)
>DroYak_CAF1 84937 120 + 1
CUUCAUAAAAACAUUCUGCGCAACGAAAAAUGUACCACUACAUUUUUCAAGGUAGUCCUUGAACAAAGUUCGAUCCGCGAAUGAAUUCCCAGUAUGGCAUACCUCGAUGGUUCAAUCGGC
..(((((.....((((..(((...((((((((((....))))))))))..((..(..(((.....)))..)...)))))...))))......)))))......(((((......))))). ( -26.90)
>consensus
CUUCAUAAAAACAUGCUGUGCAACGAAAAAUGUACCACUACAUUUUUCAAGGUAGUCCUUGAACAAAGUUCGAUCCGCGAAUGAAUUCCCAGUAUGGCAUUCCUCGAUGGUUCAAUCGGC
............(((((((((...((((((((((....))))))))))((((....))))(((....(((((.....)))))...)))...)))))))))...(((((......))))). (-22.68 = -23.28 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:41 2006