Locus 3877

Sequence ID 2R_DroMel_CAF1
Location 12,842,463 – 12,842,556
Length 93
Max. P 0.865314
window6262

overview

Window 2

Location 12,842,463 – 12,842,556
Length 93
Sequences 5
Columns 96
Reading direction reverse
Mean pairwise identity 91.93
Mean single sequence MFE -31.38
Consensus MFE -25.46
Energy contribution -26.06
Covariance contribution 0.60
Combinations/Pair 1.08
Mean z-score -1.72
Structure conservation index 0.81
SVM decision value 0.85
SVM RNA-class probability 0.865314
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12842463 93 - 20766785
GUUCCAUAAUGGCUAAGAGGAAAUCGGAGCGCCGGCUGC---AGUUAGCCAUAUGCCGAUGAUUAGUUGGCAGGCGGCAAAAAGUGGGCCUUAACA
(..((((....(((..((.....))..)))((((((((.---...)))))...(((((((.....)))))))...))).....))))..)...... ( -31.70)
>DroSec_CAF1 186230 93 - 1
GUUCCAUACUGGCUAAGAGGAAAUCGGAGCGCCGGCUGC---AGUUAGCCAUAUGCCAAUGAUUAGUUGGCAGGCGGCAAAAAGUGGGCCUAAACC
(..((((....(((..((.....))..)))((((((((.---...)))))...(((((((.....)))))))...))).....))))..)...... ( -32.00)
>DroSim_CAF1 194830 93 - 1
GUUCCAUACUGGCUAAGAGGAAAUCGGAGCGCCGGCUGC---AGUUAGCCAUAUGCCGAUGAUUAGUUGGCAGGCGGCAAAAAGUGGGCCUAAACC
(..((((....(((..((.....))..)))((((((((.---...)))))...(((((((.....)))))))...))).....))))..)...... ( -31.70)
>DroEre_CAF1 190009 96 - 1
CUUCCAUACUGGCUAAGAGGAAAUCGGAGCAGCGGCUGCAGCAGUUAGCCAUAUGCCAAUGAUUAGUUGGCAGGCGGCAAGAAGUGGGCCUAAGCC
((((...(((((((..((.....))..))).((....))..))))..(((...(((((((.....)))))))...)))..))))..(((....))) ( -28.90)
>DroYak_CAF1 194332 93 - 1
GUUCCAUACUGGCUAAGAGCACAGUGGAGCAGCGGCUGC---AGUUAGCCAUAUGCCAAUGAUUAGUUGGCAGGCGGAAAGAAGUGGGCCUAAACC
(((((..((((((.....)).)))))))))...((((.(---(.((..((...(((((((.....)))))))...))....)).))))))...... ( -32.60)
>consensus
GUUCCAUACUGGCUAAGAGGAAAUCGGAGCGCCGGCUGC___AGUUAGCCAUAUGCCAAUGAUUAGUUGGCAGGCGGCAAAAAGUGGGCCUAAACC
..(((((....(((..((.....))..)))((((((((.......)))))...(((((((.....)))))))...))).....)))))........ (-25.46 = -26.06 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:14 2006