Locus 3520

Sequence ID X_DroMel_CAF1
Location 9,438,078 – 9,438,181
Length 103
Max. P 0.623747
window5766

overview

Window 6

Location 9,438,078 – 9,438,181
Length 103
Sequences 4
Columns 103
Reading direction forward
Mean pairwise identity 82.90
Mean single sequence MFE -28.62
Consensus MFE -16.64
Energy contribution -18.32
Covariance contribution 1.69
Combinations/Pair 1.04
Mean z-score -2.11
Structure conservation index 0.58
SVM decision value 0.18
SVM RNA-class probability 0.623747
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9438078 103 + 22224390
GAGCACAAUCGAUGCGAAAGUUUGGAGGGUGAAAAGGGGUGGUCAGUUUUCCCGGAAAACUAAAUUCCCCCUGGCCAAUUUAAAGCUGAUGUAUUGUUGUUUA
....((((.(((((((..(((((....(((....(((((..((.(((((((...)))))))..))..))))).)))......)))))..)))))))))))... ( -31.00)
>DroSec_CAF1 19610 102 + 1
GAGCACAAUCGAUGAGAAAGUUUGGAGGGUGAAAAGGGGUGGUCAGUUUUCCCGGAAAACUAAUUUCCCACUGGCCAAUUUAAAGCUGAAGUAUUGUUGU-AA
....((((.(((((....(((((....(((....(((((..((.(((((((...))))))).))..))).)).)))......)))))....)))))))))-.. ( -25.20)
>DroEre_CAF1 20025 101 + 1
GAGCACAG-CAAUGGGAAAGUUUGGAGGGUGAAAAGGGGUGGUCAGUUUUCCCGGAAAACUAAUUGCCCACUUGGCAAUUUAAAGCUAAAGUAUUGCUCU-AA
(((((((.-...))....(((((.(((..((..((((((..((.(((((((...))))))).))..))).)))..)).))).))))).......))))).-.. ( -31.40)
>DroYak_CAF1 20609 87 + 1
GCGCACUG-CAAUGGGAAAGUUAGCAGGGUGAAAAGGGGUGGUCAGUUUUCCCGGAAAACUAAUUACCCACUUGGCAAUUUAAAGCUA---------------
.(((.(((-((((......))).)))).)))..((((((((((.(((((((...))))))).))))))).)))(((........))).--------------- ( -26.90)
>consensus
GAGCACAA_CAAUGGGAAAGUUUGGAGGGUGAAAAGGGGUGGUCAGUUUUCCCGGAAAACUAAUUUCCCACUGGCCAAUUUAAAGCUAAAGUAUUGUUGU_AA
..................(((((.(((..((..((((((((((.(((((((...))))))).))))))).)))..)).))).)))))................ (-16.64 = -18.32 +   1.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:01:29 2006