Locus 1209

Sequence ID 3R_DroMel_CAF1
Location 3,649,139 – 3,649,245
Length 106
Max. P 0.717104
window1976

overview

Window 6

Location 3,649,139 – 3,649,245
Length 106
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 78.85
Mean single sequence MFE -25.52
Consensus MFE -17.90
Energy contribution -18.65
Covariance contribution 0.75
Combinations/Pair 1.20
Mean z-score -1.69
Structure conservation index 0.70
SVM decision value 0.39
SVM RNA-class probability 0.717104
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3649139 106 - 27905053
GUAACUUACAUCAUGC-AGUGAAGUGAAAUCCAAGCCUAGUUACACACUGGAAAUGGUGUGACUACAACUUUUCAGUUCGGGGGCUUAAAAGUUGCUUAAAGCAAAC-------------
.....((((.((((..-.)))).)))).......((.(((((((((.(.......))))))))))((((((((.((((....)))).))))))))......))....------------- ( -25.70)
>DroSec_CAF1 7883 120 - 1
GUAACUUACAUCAUGAAAGUGAAGUGAAAUCCAAGACUAGUUACACACAGGAAAAGGUGGGACUAUAACUUAUAAGUUCGGGGACUUAAAGGUUGCGAAAAACAAACUGGUCUUAUGCUU
(((..((((.((((....)))).)))).....((((((((((...(((........)))......((((((.((((((....)))))).)))))).........)))))))))).))).. ( -31.10)
>DroSim_CAF1 10065 106 - 1
GUAACUUACAUCAUGAAAGUGAAGUGAAAUCCAAGCCUAGUUACACACAGGAAAAGGUGGGACUAUAACUUUGCAGUUUGGCAGUUUUA-AGUUGCUAAAAACAGAA-------------
(((((((((.((((....)))).)))).......(((((((..(((.(.......))))..)))).((((....)))).))).......-.)))))...........------------- ( -22.30)
>DroEre_CAF1 7564 106 - 1
GUACCUUACAUCAUGAAAGUGAAGUGAAAUUCAAGACUAGUUACACACAGGAAAAGGUGUGACUACAACUU-UCAGCUUGAGCAUUCAAAGGUUAUUCAAAGCAGAC-------------
..(((((......((((((((((......))).....(((((((((.(.......))))))))))..))))-)))((....)).....)))))..............------------- ( -23.00)
>consensus
GUAACUUACAUCAUGAAAGUGAAGUGAAAUCCAAGACUAGUUACACACAGGAAAAGGUGGGACUACAACUUUUCAGUUCGGGGACUUAAAAGUUGCUAAAAACAAAC_____________
.....((((.((((....)))).))))..........(((((((((.(.......))))))))))((((((((.((((....)))).))))))))......................... (-17.90 = -18.65 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:03:39 2006