Locus 6342

Sequence ID 2R_DroMel_CAF1
Location 19,889,724 – 19,889,818
Length 94
Max. P 0.631212
window10137

overview

Window 7

Location 19,889,724 – 19,889,818
Length 94
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 88.72
Mean single sequence MFE -24.92
Consensus MFE -17.06
Energy contribution -17.02
Covariance contribution -0.04
Combinations/Pair 1.12
Mean z-score -2.17
Structure conservation index 0.68
SVM decision value 0.20
SVM RNA-class probability 0.631212
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19889724 94 + 20766785
GCCGAUU-------GCCAAUGGCACACAUAAAUUGAAACAAGUCCAGCGGUCAAAGAGAUACGUAUCUUUUGAAAAUGCAAU-------UCUGGCAUUUGUUUCAUUU
((((...-------.....))))..........((((((((((((((((.((((.(((((....)))))))))...)))...-------..))).))))))))))... ( -24.20)
>DroSec_CAF1 123278 92 + 1
GCCGAUU-------GCCAAUGGCACACAUAAAUUGAAACAAGUCCAGCGGUCAACGAGAUACGUAUCUUU--AAAAUGCAAU-------UCUGGCACUCGUUUCAAUU
((((...-------.....)))).......(((((((((.(((((((..((....(((((....))))).--.....))...-------.)))).))).))))))))) ( -22.00)
>DroSim_CAF1 100649 92 + 1
GCCGAUU-------GCCAAUGGCACACAUAAAUUGAAACAAGUCCAGCGGUCAAAGAGAUACGUAUCUUU--AAAAUGCAAU-------UCUGGCACUCGUUUCAAUU
((((...-------.....)))).......(((((((((.(((((((..((...((((((....))))))--.....))...-------.)))).))).))))))))) ( -22.80)
>DroEre_CAF1 125700 92 + 1
GCCGAUU-------GCCAAUGGCACACAUAAAUUGAAACCAGUGCAGUGGUCAAAGAGAUACGUAUCUUU--AAAAUGCAAU-------UCUGGCACUCGUUUCAAUU
((((...-------.....)))).......(((((((((.(((((((..((...((((((....))))))--.....))...-------.)).))))).))))))))) ( -23.30)
>DroYak_CAF1 124436 106 + 1
GCCGAUGGCCGGUGGCCAAUGGCACACAUAAAUUGAAACAAGUUCGGCGGUCAAAGAGAUACGUAUCUUU--AAAAUGCUUUUCUGGUUUCUGGCACUCGUUUCAAUU
((((.(((((...))))).)))).......(((((((((.(((((((.(..(((((((.....((....)--).....))))).))..).)))).))).))))))))) ( -32.30)
>consensus
GCCGAUU_______GCCAAUGGCACACAUAAAUUGAAACAAGUCCAGCGGUCAAAGAGAUACGUAUCUUU__AAAAUGCAAU_______UCUGGCACUCGUUUCAAUU
..............(((...))).......(((((((((.(((((((..(((.....)))..((((.........))))...........)))).))).))))))))) (-17.06 = -17.02 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:08:46 2006