Locus 1469

Sequence ID X_DroMel_CAF1
Location 4,407,029 – 4,407,147
Length 118
Max. P 0.794974
window2342

overview

Window 2

Location 4,407,029 – 4,407,147
Length 118
Sequences 4
Columns 119
Reading direction reverse
Mean pairwise identity 90.21
Mean single sequence MFE -25.96
Consensus MFE -18.84
Energy contribution -19.09
Covariance contribution 0.25
Combinations/Pair 1.13
Mean z-score -2.36
Structure conservation index 0.73
SVM decision value 0.60
SVM RNA-class probability 0.794974
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4407029 118 - 22224390
GCAA-CACACAACAGCUGCUUUCGUUUCAAGGAUCCAAAAAUCAAGGAUCUCAAUUCAAUGUUAUGUUUUAUAGUUAGUACUAGAAACGUGAAAUAAAGUUGCGAAAGUCGCACGAUAU
....-.........((.((((((((..(..((((((.........))))))..........(((((((((.((((....)))))))))))))......)..)))))))).))....... ( -29.70)
>DroSec_CAF1 9565 116 - 1
GCAGCCACACAACAGCUGCUUUCGUUUCAAGGAUCCAAAAAUCAAGGAUCUCAAUUUAAUGUUAU--UUUAUGG-AAAUACUAGAAACAUGAAAUAAAGUUGCGAAAGUCGCACGAUAU
..............((.((((((((..(..((((((.........))))))..........((((--((((((.-............)))))))))).)..)))))))).))....... ( -27.92)
>DroSim_CAF1 9658 116 - 1
GCAGCCACACAACAGCUGCUUUCGUUUCAAGGAUCCAAAAAUCAAGGAUCUCAAUUUAAUGUUAU--UUUAUGG-AAAUAAUAGAAACAUGAAAUAAAGUUGCGAAAGUCGCACGAUAU
..............((.((((((((..(..((((((.........))))))..........((((--((((((.-............)))))))))).)..)))))))).))....... ( -27.92)
>DroEre_CAF1 10331 116 - 1
GCCGAAACACAACAGCUGCUUUCUUUUUAAGGAUCCAAAGAUCAAGGAUCUCAAUUUAAUGGCAC--UUAAUAG-AAAUACUAGAAACAAUAAAUAAAGUUGCGAAAGUCGCACGAUAU
..............((.((((((.......((((((.........))))))..(((((.((...(--(...((.-...))..))...)).)))))........)))))).))....... ( -18.30)
>consensus
GCAGCCACACAACAGCUGCUUUCGUUUCAAGGAUCCAAAAAUCAAGGAUCUCAAUUUAAUGUUAU__UUUAUAG_AAAUACUAGAAACAUGAAAUAAAGUUGCGAAAGUCGCACGAUAU
..............((.((((((((..(..((((((.........))))))................((((((..............)))))).....)..)))))))).))....... (-18.84 = -19.09 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:10:09 2006