Locus 5478

Sequence ID 2R_DroMel_CAF1
Location 17,631,749 – 17,631,848
Length 99
Max. P 0.929402
window8739

overview

Window 9

Location 17,631,749 – 17,631,848
Length 99
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 77.85
Mean single sequence MFE -29.00
Consensus MFE -18.57
Energy contribution -19.80
Covariance contribution 1.23
Combinations/Pair 1.30
Mean z-score -1.99
Structure conservation index 0.64
SVM decision value 1.20
SVM RNA-class probability 0.929402
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17631749 99 + 20766785
GCCGAGUAGAAGCUGCAGGCCCACCAGUUUGGUGGAGCCAAGUCUGAAGAACAAGUUGCGCAAUGGCUCGAAAGGCAAGGCCAAGGCCAAAAAGUAGAU
(((((((....((.(((((((((((.....))))).)))...((....))......)))))....))))....)))..(((....)))........... ( -33.40)
>DroPse_CAF1 28258 99 + 1
CCCGAGUCGUAAGUGUCGUCCCACCUCGUAUAAAGAGCCAAAAAUAAAUGCAAAAAUGCGCAACGACUCCCUCCCUACCAAAAAGUCUUCGAAAUAGAU
...(((((((..(((......)))(((.......)))...........(((........))))))))))...............((((.......)))) ( -15.30)
>DroSec_CAF1 20874 99 + 1
GCCGAGUAGAAGCUGCAGGCCCACCAGUUUGGUGGAGCCAAGUUUGAAGAACAAGAUGCGCAAUGGCUCGAAAGGCAAGGCCAAGGCCAAAAAGUAGAA
(((((((....((.(((((((((((.....))))).)))..((((...))))....)))))....))))....)))..(((....)))........... ( -34.60)
>DroSim_CAF1 20974 99 + 1
GCCGAGUAGAAGCUGCAGGCCCACCAGUUUGGUGGAGCCAAGUCUGAAGAACAAGAUGCGCAAUGGCUCGAAAGGCAAGGCCAAGGCCAAAAAGUAGAU
(((((((....((.((.((((((((.....))))).)))..((((........))))))))....))))....)))..(((....)))........... ( -35.70)
>DroEre_CAF1 20848 99 + 1
GCCGAGCAGAAGCUGCAGGCCCACCAGUUUGGUGGAGCCUAGUCUGCGGAACAAGAUGCGUAAUAGCUCGAUAGGCAGGGCUAAGGCCAAGAAGUAGAU
(((..(((((......(((((((((.....))))).))))..))))).......((.((......))))....)))..(((....)))........... ( -35.80)
>DroYak_CAF1 20694 99 + 1
GCCGAGCAGAAGAUGCAGACCCACCAGUUUGGCGGAGCCUAAUCUGAAAAACAAGAUGCGUAGUGGAUCGAAAGACAAGGCCAAGACCAAAAAGUAGAU
(((..(((.....)))....((((..((..(((...)))..((((........))))))...)))).((....))...))).................. ( -19.20)
>consensus
GCCGAGUAGAAGCUGCAGGCCCACCAGUUUGGUGGAGCCAAGUCUGAAGAACAAGAUGCGCAAUGGCUCGAAAGGCAAGGCCAAGGCCAAAAAGUAGAU
..(((((......(((.((((((((.....))))).)))..((((........))))..)))...)))))........(((....)))........... (-18.57 = -19.80 +   1.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:51 2006