Locus 3290

Sequence ID 3R_DroMel_CAF1
Location 8,818,001 – 8,818,121
Length 120
Max. P 0.798747
window5310

overview

Window 0

Location 8,818,001 – 8,818,121
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.50
Mean single sequence MFE -35.46
Consensus MFE -28.24
Energy contribution -27.40
Covariance contribution -0.84
Combinations/Pair 1.25
Mean z-score -1.69
Structure conservation index 0.80
SVM decision value 0.61
SVM RNA-class probability 0.798747
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8818001 120 + 27905053
UGCUGGCUAGUCCACGUCCGAUCUCCACUAUGCUCUGCGGAAUCUCAAAUCGUUUCAAUAAGCGAUCGUUAGCCAAAUCGAUCACCCAAAUGCUAGGAUGUCGAAUCUGCUGGCGAUUAU
.((..((...((.(((((((((.(((.(........).))))))...................(((((..........)))))............)))))).))....))..))...... ( -30.30)
>DroSec_CAF1 237978 120 + 1
UGCUGGCUAGUCCACGACCGAUCUCCACUAUUCUCUGCGGAAUCUCAAAUCGUUUCAGCAAGCGAUCGUUAGCCAAAUCGAUCACCCAAAUGCUUGGUCGUCGAAUCUGCUGGCGAUUAU
.(((.(((.(...((((..(((.(((.(........).)))))).....))))..)))).)))((((((((((....(((((.(((.........))).)))))....)))))))))).. ( -34.30)
>DroSim_CAF1 256270 120 + 1
UGCUGGCUAGUCCACGUCCGAUCUCCACUAUUCUCAGCGGAAUCUCAAAUCGUUUCAGCAAGCGAUCGUUUGCCAAAUCGAUCACCCAAAUGCUUGGUCGUCGAAUCUGCUGGCGAUUAU
.((..((...((.(((.(((((.(((.((......)).))))))....((((.((..((((((....))))))..)).)))).............)).))).))....))..))...... ( -33.40)
>DroEre_CAF1 258045 120 + 1
UGCUGGCCAGUCCACGUCCGAUCUCUACUAUGCUUUGUGGGAUCUCAAAUCGUUUCAGUAAGCGGUCGGUAACCAAAUCGAUCACCCAAAUACUUGGACGCCGGAUUUGUUGGCGAUUAU
.((..((.(((((.(((((((..........((((..((..((........))..))..))))(((((((......)))))))..........)))))))..))))).))..))...... ( -39.70)
>DroYak_CAF1 251174 120 + 1
UGCUGGCCAGUCCACGUCCGAUCUCCACUAUGCUCUGUGGGAUCUCAAAUCGUUUCAGUAAGCGAUCGUUAGCCAAAUCGAUCACCCAAAUACUUGGACGCCGGAUUUGUUGGCGGUUAU
.((..((.(((((.(((((((((.((((........))))))))...................(((((..........)))))............)))))..))))).))..))...... ( -39.60)
>consensus
UGCUGGCUAGUCCACGUCCGAUCUCCACUAUGCUCUGCGGAAUCUCAAAUCGUUUCAGUAAGCGAUCGUUAGCCAAAUCGAUCACCCAAAUGCUUGGACGUCGAAUCUGCUGGCGAUUAU
.((..((...((.(((((((((.(((.(........).)))))).......((((....))))(((((..........)))))............)))))).))....))..))...... (-28.24 = -27.40 +  -0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:38 2006