Locus 2010

Sequence ID 3R_DroMel_CAF1
Location 5,705,844 – 5,705,947
Length 103
Max. P 0.686423
window3295

overview

Window 5

Location 5,705,844 – 5,705,947
Length 103
Sequences 4
Columns 114
Reading direction forward
Mean pairwise identity 87.10
Mean single sequence MFE -34.00
Consensus MFE -21.66
Energy contribution -22.22
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -2.28
Structure conservation index 0.64
SVM decision value 0.32
SVM RNA-class probability 0.686423
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5705844 103 + 27905053
GUGGCAGGCCACUUGAGUAAGGACCCCUUGUUUUGGGUUU-------UCGGUAUUUGGAUUUUCGGUUCUGGAAACUCUGGACAU----GGUAUGGUAUUGAUAUUGGUCUGGG
....(((((((..(.((((...(((...((((..((((((-------((((...((((....))))..))))))))))..)))).----)))....)))).)...))))))).. ( -32.50)
>DroSec_CAF1 9183 91 + 1
GUGGCAGGCCACUUGAGUAAGGACCCCUUGUUUUGGGUUU-------UCGGUAUUUGGAUUUUCGGUUCUGGAAACUCUGGACAU----GGUAUG------------GUCUGGG
((((....))))........(((((((.((((..((((((-------((((...((((....))))..))))))))))..)))).----))...)------------))))... ( -30.90)
>DroSim_CAF1 8651 103 + 1
GUGGCAGGCCACUUGAGUAAGGACCCCUUGUUUUGGGUUU-------UCGGUAUUUGGAUUUUCGGUUCUGGAAACUCUGGACAC----GGUAUGGUAUUGAUAUUGGUCUGGG
....(((((((..(.((((...(((...((((..((((((-------((((...((((....))))..))))))))))..)))).----)))....)))).)...))))))).. ( -31.80)
>DroYak_CAF1 9418 114 + 1
GUGCCAGGCCACUUGAGUAAGAACCCCGUGUUUUGGGUUUUCGGUUUUCGGUAUUUGGAUUUUCGGUUCUGGAAACUCUGGACAUGGAUGGCAUGGUAUUGAUAUUGGUCUGGG
...((((((((..(.((((....(((((((((..((((((((((...((((...........))))..))))))))))..)))))))..)).....)))).)...)))))))). ( -40.80)
>consensus
GUGGCAGGCCACUUGAGUAAGGACCCCUUGUUUUGGGUUU_______UCGGUAUUUGGAUUUUCGGUUCUGGAAACUCUGGACAU____GGUAUGGUAUUGAUAUUGGUCUGGG
....(((((((((.((((..((((((........)))))).............((..((........))..)).)))).)).(((.......)))..........))))))).. (-21.66 = -22.22 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:09 2006