Locus 5654

Sequence ID 3L_DroMel_CAF1
Location 15,530,609 – 15,530,704
Length 95
Max. P 0.771725
window8942

overview

Window 2

Location 15,530,609 – 15,530,704
Length 95
Sequences 5
Columns 112
Reading direction reverse
Mean pairwise identity 76.05
Mean single sequence MFE -19.38
Consensus MFE -10.34
Energy contribution -11.26
Covariance contribution 0.92
Combinations/Pair 1.10
Mean z-score -1.88
Structure conservation index 0.53
SVM decision value 0.53
SVM RNA-class probability 0.771725
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15530609 95 - 23771897
AGAGGGAUGUGAUUUAUGUCUAGUCAUAAGCAACGAAAUAAAAAUUCAUUUAGAUUUCUAAAUUUAA-----------------GCUUGAAAAUGUUACGCUUAUAUUCCAC
...(((((((((.(((((......)))))((................((((((....))))))...(-----------------((........)))..))))))))))).. ( -16.30)
>DroSec_CAF1 886 94 - 1
AGAGGGAUGUGAUUUAUGUCUAGUCAUAAGCAAAGAAAUAAUAAUUCAUUUAGAU-UCUAAAUUUAA-----------------GCUUGAAAGUGAUAAGCUUAUAUUCCUC
.(((((((((((.((.((((...(((..(((...(((.......)))((((((..-.))))))....-----------------))))))....)))))).))))))))))) ( -19.40)
>DroSim_CAF1 1677 94 - 1
AGAGGGAUGUGAUUUAUGUCUAGUCAUAAGCAAAGAAAUAAUAAUUCAUUUAGAU-UCUAAAUUUAA-----------------GCUUGAAAGUGAUAAGCUUAUAUUCCUC
.(((((((((((.((.((((...(((..(((...(((.......)))((((((..-.))))))....-----------------))))))....)))))).))))))))))) ( -19.40)
>DroEre_CAF1 3899 103 - 1
AGAGGGAUGUGUUUUAAGUCUAGUCAUAUUCAAUGAAAUAAUAUUUCAAUU-----UACAAUUUCAA----GUUACAAUUGAAAGCUUGAAAAUUAUACGCUUAUAUUCCUC
.((((((((((......((.((((.........((((((...))))))...-----.....((((((----(((.........))))))))))))).))...)))))))))) ( -20.50)
>DroYak_CAF1 1681 101 - 1
AGAGGGAUA--UUUUAAGUCUAUUCAUAUUCAAAGAAAUAAUAUUUCAUUUAGAU-UCUAAAUUUAAGUAGGUUACAAUUGAA--------UCUGACACGCUUAUAUUCCUC
.((((((((--...(((((....(((.((((((.(((((...)))))((((((((-.....)))))))).........)))))--------).)))...))))))))))))) ( -21.30)
>consensus
AGAGGGAUGUGAUUUAUGUCUAGUCAUAAGCAAAGAAAUAAUAAUUCAUUUAGAU_UCUAAAUUUAA_________________GCUUGAAAAUGAUACGCUUAUAUUCCUC
.(((((((((((......................(((.......)))((((((....))))))......................................))))))))))) (-10.34 = -11.26 +   0.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:55:47 2006