Locus 8643

Sequence ID X_DroMel_CAF1
Location 21,782,133 – 21,782,253
Length 120
Max. P 0.955861
window14203

overview

Window 3

Location 21,782,133 – 21,782,253
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 78.37
Mean single sequence MFE -32.81
Consensus MFE -20.54
Energy contribution -20.66
Covariance contribution 0.12
Combinations/Pair 1.21
Mean z-score -2.31
Structure conservation index 0.63
SVM decision value 1.46
SVM RNA-class probability 0.955861
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21782133 120 + 22224390
CCACCAGAAAAAAAAAACGGAGGUGAAUUCCCAACAUUCAGCACCUUAACAAGCCGUACGCUGAAAAUAUUUGGAGAUGCACCUUGGUUGGGUACAAUUUUUCUGUAAACUCGAAGGGAU
....((((((((...(((.((((((.((..((((..((((((.................)))))).....))))..)).)))))).)))(....)..)))))))).....((....)).. ( -29.13)
>DroSim_CAF1 48423 115 + 1
CCACCAGAAA----AAACGGAGGAGAAUUC-CAACAUUCAGCACCUCAACAAGCAGUACGCUGAAACUAUUUGGAGGUGCACCUUGGGUGGGUACACUUUUUCUGGAAACUCCGAGGGAC
...(((((((----((.(.((((.((((..-....)))).(((((((..((((.(((........))).))))))))))).)))).)(((....))))))))))))....(((...))). ( -36.50)
>DroYak_CAF1 54385 104 + 1
CCACCAGAAA----AAAUGGAGAAGGAUUCCCAGCAUUCUGCACCUCAACAAGCCCUACGCUGGAAAUAUUUGGAGGUGCAUAUUGGG-GAGUUUAAUUUUUCUGGAAA-----------
...(((((((----((.((((......(((((((.....((((((((.......((......)).........))))))))..)))))-)).)))).)))))))))...----------- ( -32.79)
>consensus
CCACCAGAAA____AAACGGAGGAGAAUUCCCAACAUUCAGCACCUCAACAAGCCGUACGCUGAAAAUAUUUGGAGGUGCACCUUGGGUGGGUACAAUUUUUCUGGAAACUC__AGGGA_
...(((((((.......(.((((.((((.......)))).(((((((....(((.....)))...........))))))).)))).)(((....)))..))))))).............. (-20.54 = -20.66 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:09:12 2006