Locus 5635

Sequence ID 3L_DroMel_CAF1
Location 15,488,729 – 15,488,845
Length 116
Max. P 0.801815
window8901

overview

Window 1

Location 15,488,729 – 15,488,845
Length 116
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 92.05
Mean single sequence MFE -40.17
Consensus MFE -31.45
Energy contribution -33.08
Covariance contribution 1.62
Combinations/Pair 1.11
Mean z-score -2.13
Structure conservation index 0.78
SVM decision value 0.62
SVM RNA-class probability 0.801815
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15488729 116 + 23771897
UAAGAGAGA-AGAGGAAGCGUGAAUGCGCAGAAUUCAAUUACCUAUCUGAAUGUGGGCUGUGAAAAGAGCCUU---CGGUCCAGGAGGCGUCAAAGCCAUCAUUGGACUCGGGCGUAUCG
....(((..-..(((..((((....)))).(....).....))).)))(((((((((((.(....).)))))(---(((((((((((((......))).)).)))))).))))))).)). ( -36.60)
>DroSec_CAF1 29858 119 + 1
UAAGAGAGA-AGAGGAAGCGUGAAUGCGCAGAAUUCAAUUACCUAUCAGAAUGUGGGCUGUGAGAAGAGCCUUCUUCUGUCCAGGAGGCGUCAAAGCCAUCAUUGGACUCUGGCGUCUCG
...((.(((-(((((..((((....))))....((((....(((((......)))))...))))......)))))))).))...(((((((((.(((((....))).)).))))))))). ( -43.90)
>DroSim_CAF1 31886 119 + 1
UAAGAGAGA-AGAGGAAGCGUGAAUGCGCAGAAUUCAAUUACCUAUCAGAAUGUGGGCUGUGAAAAGAGCCUUCUUCUGUCCAGGAGGCGUCAAAGCCAUCAUUGGACUCGGGCGUCUCG
...((.(((-(((((..((((....))))....((((....(((((......)))))...))))......)))))))).))...((((((((..(((((....))).))..)))))))). ( -43.20)
>DroYak_CAF1 112238 120 + 1
UAAGAGAGAAAGAGGAAGCGUGAAUGCGCAGAAUUCAAUUACCUAUCUGGAUGUGGACUGUGAAAAGAGCCUGCUUCCGCCCAGGAGGCCUCAUAGCCAUCGUUGGACUCGGGUGUCUCU
..(((((.(..(((...((((....))))................((..(..((((.((((((.........((((((.....)))))).))))))))))..)..)))))...).))))) ( -37.00)
>consensus
UAAGAGAGA_AGAGGAAGCGUGAAUGCGCAGAAUUCAAUUACCUAUCAGAAUGUGGGCUGUGAAAAGAGCCUUCUUCUGUCCAGGAGGCGUCAAAGCCAUCAUUGGACUCGGGCGUCUCG
...(((((...(((...((((....))))....((((((..(((..(((((...(((((.(....).)))))..)))))...))).(((......)))...)))))))))...).)))). (-31.45 = -33.08 +   1.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:55:08 2006