Locus 6001

Sequence ID 2R_DroMel_CAF1
Location 18,861,193 – 18,861,303
Length 110
Max. P 0.596711
window9623

overview

Window 3

Location 18,861,193 – 18,861,303
Length 110
Sequences 5
Columns 112
Reading direction reverse
Mean pairwise identity 96.01
Mean single sequence MFE -32.95
Consensus MFE -30.80
Energy contribution -30.56
Covariance contribution -0.24
Combinations/Pair 1.04
Mean z-score -1.12
Structure conservation index 0.93
SVM decision value 0.13
SVM RNA-class probability 0.596711
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18861193 110 - 20766785
UCCGACCGGAGGGGUGAAUCCGCAAACAAAGUCCCAAGCAGUUUGCAUGAUUGGAUGGGAUUUCGAGUCAUUAGUAAA-AAGAUGCCGC-UCAAAGGCAGCCGGAAUGCGGG
.(((.((((.(((.....)))((.....((((((((..(((((.....)))))..)))))))).((((((((......-..))))..))-))....))..))))....))). ( -32.90)
>DroSec_CAF1 35302 109 - 1
UCCGACCGGAGGGGAGAAUCCGCAAACAAAGUCCCAAGCAGUUUGCAUGAUUGGAUGGGAUUUCGAGUCAUUAACAAA-AAGAUGCCGC-UCAAAGGCAGCCGGAAUGCGG-
.(((.((((.(((.....)))((.....((((((((..(((((.....)))))..)))))))).((((((((......-..))))..))-))....))..))))....)))- ( -31.60)
>DroSim_CAF1 35853 109 - 1
UCCGACCGGAGGGGAGAAUCCGCAAACAAAGUCCCAAGCAGUUUGCAUGAUUGGAUGGGAUUUCGAGUCAUUAGCAAA-AAGAUGCCGC-UCAAAGGCAGCCGGAAUGCGG-
.((((((((((.((.....)).).......((((((..(((((.....)))))..)))))))))).)))....(((..-..(.((((..-.....))))..)....)))))- ( -31.80)
>DroEre_CAF1 39064 110 - 1
UCCGGCCGGAGGGGAGAAUCCGCAAACAAAGUCCCAAGCAGUUUGCAUGAUUGGAUGGGAUUUCGAGUCAUUAGCAAAAAAGAUGCCGC-UCAAAGGCAGCCGGAAUGCAG-
((((((((((........))))....(.((((((((..(((((.....)))))..)))))))).)..................((((..-.....))))))))))......- ( -34.40)
>DroYak_CAF1 36101 109 - 1
UCCGGCCGGAGGGGAGAA-CCGCAAACAAAGUCCCAAGCAGUUUGCAUGAUUGGAUGGGAUUUCGAGUCAUUAGCAAA-AAGAUGCCGCCUCAAAGGCAGCCGGAAUACAG-
((((((.....((((...-............))))..(((.(((((((((((.((.......)).))))))..)))))-....))).(((.....))).))))))......- ( -34.06)
>consensus
UCCGACCGGAGGGGAGAAUCCGCAAACAAAGUCCCAAGCAGUUUGCAUGAUUGGAUGGGAUUUCGAGUCAUUAGCAAA_AAGAUGCCGC_UCAAAGGCAGCCGGAAUGCGG_
(((((((((((.((.....)).).......((((((..(((((.....)))))..)))))))))).)))..............((((........))))...)))....... (-30.80 = -30.56 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:00:04 2006