Locus 5521

Sequence ID 2R_DroMel_CAF1
Location 17,663,300 – 17,663,420
Length 120
Max. P 0.729919
window8846

overview

Window 6

Location 17,663,300 – 17,663,420
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 93.75
Mean single sequence MFE -25.63
Consensus MFE -20.00
Energy contribution -21.75
Covariance contribution 1.75
Combinations/Pair 1.00
Mean z-score -2.27
Structure conservation index 0.78
SVM decision value 0.42
SVM RNA-class probability 0.729919
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17663300 120 + 20766785
GUGAGAGAGCAACAAGUUUACCAUAAUCACAAUAAUUUUCAACUCAACUGGACACAAGUGGCACAAACGGAAACAACGAGACCAAACCUCUGUAUGUGCCGGAGAAUGUGCCAUAAAAAC
((((..((((.....)))).......))))..................(((.((((..(((((((.(((....)...(((.......))).)).))))))).....)))))))....... ( -25.50)
>DroSec_CAF1 16732 120 + 1
GUGAGAGAGCAACAAGUUUACCAUAAUCACAAUAAUUUUCAACUCAACUGGACACAAGUGGCACAAACGGAAACAACGAGACCAAACCUCAGUAUGUGCCGGAGAAUGUGCCAUAAAAAC
((((..((((.....)))).......))))..................(((.((((..(((((((.(((....)...(((.......))).)).))))))).....)))))))....... ( -26.20)
>DroEre_CAF1 17129 120 + 1
GUGAGAGAGCAACAAGUUUACCAUAAUCACAAUAAUUUUCAACUCAACUGGACACAAGUGGCACAAACGGAAACAACGAGACCAAACCUCAGUAUGUGCCGGAGAAUGUGCCAUAAAAAC
((((..((((.....)))).......))))..................(((.((((..(((((((.(((....)...(((.......))).)).))))))).....)))))))....... ( -26.20)
>DroYak_CAF1 28742 108 + 1
GUGAGAGAGCAACAAGUUUACCAUAAUCACAAUAAUUUUCAACUCAACUGGACACAAGUGGCACAAACGGAAACAACGAGACCAUACCUCAGUAUGU------------GCCACAAAAAC
(((...((((.....)))).(((.........................))).)))..((((((((.(((....)...(((.......))).)).)))------------)))))...... ( -24.61)
>consensus
GUGAGAGAGCAACAAGUUUACCAUAAUCACAAUAAUUUUCAACUCAACUGGACACAAGUGGCACAAACGGAAACAACGAGACCAAACCUCAGUAUGUGCCGGAGAAUGUGCCAUAAAAAC
((((..((((.....)))).......))))..................(((.((((..(((((((.(((....)...(((.......))).)).))))))).....)))))))....... (-20.00 = -21.75 +   1.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:36 2006