Locus 1329

Sequence ID 3L_DroMel_CAF1
Location 3,857,924 – 3,858,024
Length 100
Max. P 0.607821
window2072

overview

Window 2

Location 3,857,924 – 3,858,024
Length 100
Sequences 5
Columns 100
Reading direction reverse
Mean pairwise identity 94.36
Mean single sequence MFE -21.80
Consensus MFE -19.90
Energy contribution -21.30
Covariance contribution 1.40
Combinations/Pair 1.00
Mean z-score -1.14
Structure conservation index 0.91
SVM decision value 0.15
SVM RNA-class probability 0.607821
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3857924 100 - 23771897
UUAUUUAUGCGGUCAAAAGCAUAAAUAAAUUCUUCUUUUUUGGGCGUACCAAAGUCGGGUAAUAAAACUCGAGCAAAGUGUCAAGCGGGUUCCAUUUAAG
((((((((((........))))))))))......(((...((((...(((....((((((......))))))((..........)).)))))))...))) ( -22.80)
>DroSec_CAF1 57154 96 - 1
UUAUUUAUGCGGUCAAAAGCAUAAAUAAAUUAU----UUUUGGGCGUCCCAAAGUCGGGUAAUAAAACGCGAGCAAAGUGUCAAGCGGGUUCCAUUUAAG
((((((((((........)))))))))).....----...((((...(((....(((.((......)).)))((..........))))).))))...... ( -23.00)
>DroSim_CAF1 57773 96 - 1
UUAUUUAUGCGGUCAAAAGCAUAAAUAAAUUAU----UUUUGGGCGUCCCAAAGUCGGGUAAUAAAACUCGAGCAAAGUGUCAAGCGGGUUCCAUUUAAG
((((((((((........)))))))))).....----...((((...(((....((((((......))))))((..........))))).))))...... ( -24.90)
>DroEre_CAF1 59584 94 - 1
UU--UUAUGCGGUCAAAAGCAUAAAUAAAUUAU----UUUUGGGUGUCCCAACGUCUGGUAAUAAAACUCGAGCAAAGUGUCAAGCGGGUUCCAUUUAAG
.(--((((((........)))))))........----...((((...(((....((.(((......))).))((..........))))).))))...... ( -17.30)
>DroYak_CAF1 59458 96 - 1
CUAAUUAUGCGGUCAAAAGCAUAAAUAAAUUAU----UUUUGGGCGUCCCAAAGUCGGGUAAUAAAACUCGAGCAAAGUGUCAAGCGGGUUCCAUUUAAG
....((((((........)))))).........----...((((...(((....((((((......))))))((..........))))).))))...... ( -21.00)
>consensus
UUAUUUAUGCGGUCAAAAGCAUAAAUAAAUUAU____UUUUGGGCGUCCCAAAGUCGGGUAAUAAAACUCGAGCAAAGUGUCAAGCGGGUUCCAUUUAAG
((((((((((........))))))))))............((((...(((....((((((......))))))((..........))))).))))...... (-19.90 = -21.30 +   1.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:52 2006