Locus 3098

Sequence ID 3L_DroMel_CAF1
Location 8,973,553 – 8,973,643
Length 90
Max. P 0.737678
window4829

overview

Window 9

Location 8,973,553 – 8,973,643
Length 90
Sequences 6
Columns 90
Reading direction forward
Mean pairwise identity 80.95
Mean single sequence MFE -18.26
Consensus MFE -13.38
Energy contribution -13.55
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -1.56
Structure conservation index 0.73
SVM decision value 0.44
SVM RNA-class probability 0.737678
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8973553 90 + 23771897
CAUAAACGCUUCUUGAUUGAAAAACUUAUACUUGUAAUCCUUAUAGGAAACCACCACAUCGCUGUUGGAACUAAUACCCAACACGGUGAC
.........(((......))).........((((((.....)))))).........(((((.((((((.........))))))))))).. ( -16.10)
>DroVir_CAF1 15243 87 + 1
AACAAUAU-AU-UUAAUUGCCUCAUUU-UAUGUGUAAUGUUUGCAGGAGACGACCACAUCGUUGCUGGAAUUAAUACCCAACACGGUGAC
........-..-.....(((..((((.-.......))))...)))(....).....((((((.(.(((.........))).))))))).. ( -14.30)
>DroSec_CAF1 12661 89 + 1
CAUAAACGCUUCUUGAUUGAGGAACUUAAAGCUA-AAUCCUUAUAGGAAACCGCCACAUCGCUGUUGGAACUAAUACCCAACACGGUGAC
.......((((((((..((((((...........-..))))))))))))...))..(((((.((((((.........))))))))))).. ( -20.72)
>DroSim_CAF1 13305 89 + 1
CAUAAACGCUUCUUGAUUGAGGAACUUAAAGCUA-AAUCCUUAUAGGAAACCGCCACAUCGCUGUUGGAACUAAUACCCAACACGGUGAC
.......((((((((..((((((...........-..))))))))))))...))..(((((.((((((.........))))))))))).. ( -20.72)
>DroEre_CAF1 13021 89 + 1
GUUCACCGCUUCUUUAUUGGGUAACUUAUACCUU-AAUCCUUAUAGGAAACCACCACAUCGCUGUUGGAACUAAUACCCAACACGGUGAC
..(((((((.........(((((.....))))).-..(((.....)))............))((((((.........)))))).))))). ( -21.00)
>DroYak_CAF1 13549 89 + 1
GAUUAAUGCUUCUCUACUGUGUAACUUAUGCCUU-UAUCAUCAUAGGAAACCACCACAUCGCUGUUGGAACUAAUACCCAACACGGUGAC
..................(((...((((((....-......))))))....)))..(((((.((((((.........))))))))))).. ( -16.70)
>consensus
CAUAAACGCUUCUUGAUUGAGUAACUUAUACCUA_AAUCCUUAUAGGAAACCACCACAUCGCUGUUGGAACUAAUACCCAACACGGUGAC
.............................................((......)).(((((.((((((.........))))))))))).. (-13.38 = -13.55 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:49:27 2006