Locus 5823

Sequence ID 3R_DroMel_CAF1
Location 15,237,106 – 15,237,225
Length 119
Max. P 0.999600
window9536

overview

Window 6

Location 15,237,106 – 15,237,225
Length 119
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 97.14
Mean single sequence MFE -40.54
Consensus MFE -39.52
Energy contribution -39.52
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.23
Structure conservation index 0.97
SVM decision value 3.77
SVM RNA-class probability 0.999600
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15237106 119 - 27905053
CGCCCACGCAGACCAGCAGGUGACGCUGAUUCGACGAUGUCCUCGGAGCGUUGGCGUUGCACUCAAAUGCGAAAAGCGGCAGUAAAAAGCUUUUCCGAGGGCGGAUAAUAAACAAAAAU
(((((..(((....((...(..((((..((.(..(((.....)))..).))..))))..).))....)))(((((((...........)))))))...)))))................ ( -40.60)
>DroSec_CAF1 4391 119 - 1
CGCCCACGCAGACCAGCAGGUGACGCUGAUUCGACGAUGUCCUCGGAGCGUUGGCGUUGCACUCAAAUGCGAAAAGCGGCAGUAAAAAGCUUUUCCGAGGGCGGAUAAUAAACAAAAAU
(((((..(((....((...(..((((..((.(..(((.....)))..).))..))))..).))....)))(((((((...........)))))))...)))))................ ( -40.60)
>DroSim_CAF1 4417 119 - 1
CGCCCACGCAGACCAGCAGGUGACGCUGAUUCGACGAUGUCCUCGGAGCGUUGGCGUUGCACUCAAAUGCGAAAAGCGGCAGUAAAAAGCUUUUCCGAGGGCGGAUAAUAAACAAAAAU
(((((..(((....((...(..((((..((.(..(((.....)))..).))..))))..).))....)))(((((((...........)))))))...)))))................ ( -40.60)
>DroEre_CAF1 2244 117 - 1
CGCCCACGCAGACCAGCAGGUGACGCUGAUUCGACGACGUCCUCGGCGCGUUGGCGUUGCACUCA-AUGCGAAAAGCGACAGUAA-AAGCUUUUCCGAGGGCGGAUAAUAAACAAAAAU
(((((((((....((((.(....)))))...(((((.(((.....)))))))))))).(((....-.)))(((((((........-..)))))))...)))))................ ( -41.40)
>DroYak_CAF1 2199 118 - 1
CGCCCACGCAGACCAGCAGGUGACGCUGAUUCGACGACGUCCUCGAAGCGUUGGCGUUGCACUCAAAUGCGAAAAGCGACAGUAG-AAGCUUUUCCGAGGGCGGAUAAUAAACAAAAAU
(((((..(((....((...(..((((..((.(..(((.....)))..).))..))))..).))....)))(((((((..(....)-..)))))))...)))))................ ( -39.50)
>consensus
CGCCCACGCAGACCAGCAGGUGACGCUGAUUCGACGAUGUCCUCGGAGCGUUGGCGUUGCACUCAAAUGCGAAAAGCGGCAGUAAAAAGCUUUUCCGAGGGCGGAUAAUAAACAAAAAU
(((((..(((....((...(..((((..((.(..(((.....)))..).))..))))..).))....)))(((((((...........)))))))...)))))................ (-39.52 = -39.52 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:05:37 2006