Locus 1229

Sequence ID 2R_DroMel_CAF1
Location 4,841,360 – 4,841,452
Length 92
Max. P 0.974056
window2135

overview

Window 5

Location 4,841,360 – 4,841,452
Length 92
Sequences 4
Columns 107
Reading direction forward
Mean pairwise identity 77.10
Mean single sequence MFE -19.15
Consensus MFE -13.48
Energy contribution -12.73
Covariance contribution -0.75
Combinations/Pair 1.30
Mean z-score -2.11
Structure conservation index 0.70
SVM decision value 1.72
SVM RNA-class probability 0.974056
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4841360 92 + 20766785
---CAGUUAGU--------CAGUCAUUUCCAUUAAAAUUGGCAACAGUUAAGUGGGAAAUAAAUUAGAAUUGGUAAUAUAAAUCUAAUCCCCCCAACAUCACC----
---..(((...--------......((((((((..(((((....))))).))))))))....((((((.(((......))).))))))......)))......---- ( -16.40)
>DroGri_CAF1 10485 100 + 1
---CAAUUGCCAAGUCUCACAUCCGUUUGUGUUCAAAUUGGCAACAUUUAAACGACAAAUAAAUUAGAAUUGGUAAUACAAUUUGGA----CCAAACAUGUCGUUUG
---...(((((((....((((......))))......)))))))....(((((((((.........((((((......))))))...----.......))))))))) ( -25.81)
>DroSim_CAF1 2013 94 + 1
CGUCAGUUAGU--------CAGUCAUUUCCAUUAAAAUUGGCAACAGUUAAGUGGGAAAUAAAUUAGAAUUGGUAAUAUAAAUCUAAUCC-CCCAACAUCACC----
.....(((...--------......((((((((..(((((....))))).))))))))....((((((.(((......))).))))))..-...)))......---- ( -16.40)
>DroYak_CAF1 2352 91 + 1
---CAGCUGGU--------CAGUCAUUUCCAUUAAAAUUGGCAACAGUUAAGUGGGAAAUAAAUUAGAAUUGGUAAUAUAAAUCUAAUCC-CCCAACAUCACC----
---..(.(((.--------......((((((((..(((((....))))).))))))))....((((((.(((......))).))))))..-.))).)......---- ( -18.00)
>consensus
___CAGUUAGU________CAGUCAUUUCCAUUAAAAUUGGCAACAGUUAAGUGGGAAAUAAAUUAGAAUUGGUAAUAUAAAUCUAAUCC_CCCAACAUCACC____
........................((((((.....(((((....))))).....))))))..((((((.(((......))).))))))................... (-13.48 = -12.73 +  -0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:59:32 2006