Locus 4864

Sequence ID 3R_DroMel_CAF1
Location 12,793,441 – 12,793,542
Length 101
Max. P 0.579864
window7967

overview

Window 7

Location 12,793,441 – 12,793,542
Length 101
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 76.08
Mean single sequence MFE -28.58
Consensus MFE -14.95
Energy contribution -15.68
Covariance contribution 0.72
Combinations/Pair 1.07
Mean z-score -1.70
Structure conservation index 0.52
SVM decision value 0.09
SVM RNA-class probability 0.579864
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12793441 101 + 27905053
AAGUAAAAUGGCGGAGUCGCAUUAAGCG-------CGGCCUUUUAUGGAGUCCGCCCAAAGCUGCGUACAAAGCGGGGCUCAUUAU--AUAAAUCUCAUUGAUCCGCCAU
.......(((((((((((((.......)-------))))..((((((.(((..((((...(((........))).))))..))).)--))))).........)))))))) ( -34.70)
>DroPse_CAF1 177929 101 + 1
AAAGCAAAUGGCGG--UGGCAUUAAGCGAC-----UGGCAUUUUAUGGACUCCGGCCCGAGUAGUCUACAACGCGAAGCUCAUUAU--AUAAAUCUCAUUGAUCCGCCAU
.....(((((.(((--(.((.....)).))-----)).)))))..........(((..((((..((........)).)))).....--....(((.....)))..))).. ( -22.10)
>DroGri_CAF1 277934 89 + 1
AAAGAAAAUGGCGGAGCGGCAUUAAGCGUAUA--GCAUCAUUUUAUGGAGUCCACCCC-----------------AGGCUCAUUAU--AUAAAUCCCAUUGAUCCGCCAU
.......((((((((((........))(((((--((((......)))(((((......-----------------.))))).))))--))............)))))))) ( -22.20)
>DroSim_CAF1 170129 101 + 1
AAGUAAAAUGGCGGAGUCGCAUUAAGCG-------CGGCCUUUUAUGGAGUCCGCCCAAAGCUGCGUACAAAGCGGGGCUCAUUAU--AUAAAUCUCAUUGAUCCGCCAU
.......(((((((((((((.......)-------))))..((((((.(((..((((...(((........))).))))..))).)--))))).........)))))))) ( -34.70)
>DroWil_CAF1 228407 91 + 1
AAGUAAAAUGGCGGCGGCACAUUAAGUGCA-----UGACAUUUUAUGAAGUCCAGCCAAAGUAGC------------GCUCAUUAU--AUGAAUCUCAUUGAUCCGCCAU
.......(((((((..((((.....))))(-----(((.((((.((((.((.(.((....)).).------------))))))...--..)))).))))....))))))) ( -21.80)
>DroAna_CAF1 155550 110 + 1
AAGGAAAAUGGCGGAGUGGCAUUAAGCGAACGGGGCACCGUUUUAUGGAGUCCGCCCAAAGCUGCGUACAAAGCGGGGCUCAUUAUAUAUAAAUCUCAUUGAUCCGCCAU
.......((((((((((.((.....))..)).((((.((((...)))).))))((((...(((........))).)))).......................)))))))) ( -36.00)
>consensus
AAGGAAAAUGGCGGAGUCGCAUUAAGCG_A_____CGGCAUUUUAUGGAGUCCGCCCAAAGCUGCGUACAAAGCGGGGCUCAUUAU__AUAAAUCUCAUUGAUCCGCCAU
.......((((((((...((.....))....................(((((........................))))).....................)))))))) (-14.95 = -15.68 +   0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:40:42 2006