Locus 4927

Sequence ID 2R_DroMel_CAF1
Location 16,085,725 – 16,085,819
Length 94
Max. P 0.538729
window7892

overview

Window 2

Location 16,085,725 – 16,085,819
Length 94
Sequences 5
Columns 103
Reading direction reverse
Mean pairwise identity 81.05
Mean single sequence MFE -37.38
Consensus MFE -25.62
Energy contribution -25.42
Covariance contribution -0.20
Combinations/Pair 1.19
Mean z-score -1.56
Structure conservation index 0.69
SVM decision value 0.01
SVM RNA-class probability 0.538729
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16085725 94 - 20766785
CGGCAAGCUGG----CCCAGCCAUCCGGCCUAGCAGUCCAGUCAUGCCUCAUGUUCCGUGUGUC-----UGCACAAUGCCACAUGAGGUGGCAGCAUGGCGCA
..((..(((((----((.........)))).)))......(((((((..........((((...-----.))))..((((((.....))))))))))))))). ( -37.10)
>DroSim_CAF1 7455 94 - 1
CGGCGAGCUGG----UCCAGCCAUCCGGCCUAGCAGUCCAGUCAUGCCUCAUGUUCCGUGUGUC-----UGCACAAUGCCACAUGAGGUGGCAGCAUGGCGCA
..((..(((((----....(((....))))))))......(((((((..........((((...-----.))))..((((((.....))))))))))))))). ( -36.40)
>DroEre_CAF1 7304 94 - 1
CGGCGAGCUGG----CCCAUCCAUCCGGCCUAGCAGCGCAGUCAUGCCUCAUGUUCCGUGUGUC-----UGCACAAUGCCACAUGAGGUGGCAGCAUGGCGCA
..((..(((((----((.........)))).))).))((.(((((((..........((((...-----.))))..((((((.....))))))))))))))). ( -38.90)
>DroYak_CAF1 7526 98 - 1
CGGCGAGCUGGCCGGCCCAUCCAUCCGGCCUAGCAGCGCAGUCAUGCCUCAUGUUCCGUGUGUC-----UGCACAAUGCCACAUGAGGUGGCAGCAUGGCGCA
..((..(((((((((.........)))))).))).))((.(((((((..........((((...-----.))))..((((((.....))))))))))))))). ( -44.20)
>DroAna_CAF1 7417 86 - 1
CGAGGAGG----------AGUAGACCGUUUUG--GGCCCAGUCAUGCCG-----GCCGUGUGUAUCCAAUACACAAUGCCACAUGAGGUGGCAGCUUGGAGCA
......((----------......))((((..--((((((.(((((..(-----((..(((((((...)))))))..))).)))))..)))..)))..)))). ( -30.30)
>consensus
CGGCGAGCUGG____CCCAGCCAUCCGGCCUAGCAGCCCAGUCAUGCCUCAUGUUCCGUGUGUC_____UGCACAAUGCCACAUGAGGUGGCAGCAUGGCGCA
.(((..(.(((.........))).)..))).....((...(((((((...........(((((.......))))).((((((.....))))))))))))))). (-25.62 = -25.42 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:24 2006