Locus 2309

Sequence ID 2R_DroMel_CAF1
Location 8,496,163 – 8,496,272
Length 109
Max. P 0.677548
window3802

overview

Window 2

Location 8,496,163 – 8,496,272
Length 109
Sequences 5
Columns 112
Reading direction reverse
Mean pairwise identity 91.25
Mean single sequence MFE -33.06
Consensus MFE -24.20
Energy contribution -24.88
Covariance contribution 0.68
Combinations/Pair 1.07
Mean z-score -2.00
Structure conservation index 0.73
SVM decision value 0.30
SVM RNA-class probability 0.677548
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8496163 109 - 20766785
UGUG---GGGCAGAAAACAUAGAGCAAAGCAUAAUACACAAUAAAGGUGCCCGCGAAAGCAGAGCAGCCGAAAGUGCCAGCGCGUGUUGGUGUGGUUUGAAUGUGCAGGCGA
....---..((.....((((.((((...((((...((((......((((((.((....)).).))).))....(((....)))))))..)))).))))..))))....)).. ( -31.60)
>DroSec_CAF1 8484 112 - 1
UGCGUGUGGGCAGAAAACAUAGAGCAAAGCAUAAUACACAAUAAAGGUGCCCGCGAAAGCAGAGCAGCCGAAAGUGCCAGCGCGUGUUGGUGUGGUUUGAAUGUGCAGGCGA
..(((.((.(((............((((.((((..((((......((((((.((....)).).))).))....(((....)))))))...)))).))))..))).)).))). ( -35.14)
>DroSim_CAF1 8382 112 - 1
UGUGUGUGGGCAGAAAACAUAGAGCAAAGCAUAAUACACAAUAAAGGUGCCCGCGAAAGCAGAGCAGCCGAAAGUGCCAGCGCGUGUUGGUGUGGUUUGAAUGUGCAGGCGA
..(((.((.(((............((((.((((..((((......((((((.((....)).).))).))....(((....)))))))...)))).))))..))).)).))). ( -33.34)
>DroYak_CAF1 8804 112 - 1
UGUGUGUGGGCAGAAAACAUAGAGCAAAGCAUAAUACACAAUAAAGGUGCCCGCAAAAGCAGAGCAGCCGAAAGUGCCAGCGCGUGUUGGUGUGGUUUGCCUGUGCAGGCGA
(((((((..((.................))...))))))).......((((.(((...(((((.(((((((..(((....)))...))))).)).)))))...))).)))). ( -36.13)
>DroAna_CAF1 6005 104 - 1
UGUGUGCGAGCAGAAAACAUAGAGCAAAGCAUAAUACACAAUAAAGGGGCUC-CGAAAGAGGAGCAACCGAAAGUGCCAGCGCGUGUUUGUGU---UU--AUGUG--AGAGA
(((((.(.....)...)))))..(((((((((((.((((......((.((((-(......)))))..))....(((....)))))))))))))---))--.))).--..... ( -29.10)
>consensus
UGUGUGUGGGCAGAAAACAUAGAGCAAAGCAUAAUACACAAUAAAGGUGCCCGCGAAAGCAGAGCAGCCGAAAGUGCCAGCGCGUGUUGGUGUGGUUUGAAUGUGCAGGCGA
(((......))).....((((...((((.((((..((((......((((((.((....)).).))).))....(((....)))))))...)))).))))..))))....... (-24.20 = -24.88 +   0.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:26:27 2006