Locus 4449

Sequence ID 3R_DroMel_CAF1
Location 11,771,375 – 11,771,471
Length 96
Max. P 0.775703
window7275

overview

Window 5

Location 11,771,375 – 11,771,471
Length 96
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 72.34
Mean single sequence MFE -30.05
Consensus MFE -10.08
Energy contribution -12.00
Covariance contribution 1.92
Combinations/Pair 1.10
Mean z-score -2.16
Structure conservation index 0.34
SVM decision value 0.54
SVM RNA-class probability 0.775703
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11771375 96 + 27905053
GCCCCCUGG-----GCUUUUGGCCAU-------CAUACACACUCACUCGCCAUUCAGUUUUUUGAUUGAGCGGCAGAGAACCAUCGCGAUUCAGGAGCCAAAGCCCUU
.......((-----(((((.(((...-------............((((((.(((((((....))))))).))).)))..((...........)).)))))))))).. ( -30.20)
>DroSec_CAF1 104169 96 + 1
GCCCCCUGG-----GCUUUCGGCCAU-------CAUACACACUCACGCGCCAUUCAGUUUUUUGAUUGAGCGGCAGCGGACCAUCGCAAUUCAGGAGCCAAAGCCCUU
.......((-----(((((.(((...-------.........((.((((((.(((((((....))))))).))).)))))((...........)).)))))))))).. ( -31.90)
>DroSim_CAF1 105853 96 + 1
GCCUCCUGG-----GCUUUUGGCCAU-------CAUACACACUCACGCGCCAUUCAGUUUUUUGAUUGAGCGGCAGCGGACCAUCGCAAUUCAGGAGCCAAAGCCCUU
.......((-----(((((.(((...-------.........((.((((((.(((((((....))))))).))).)))))((...........)).)))))))))).. ( -31.90)
>DroEre_CAF1 105224 86 + 1
GCCCCCUGG-----GCUUUUGG---------------CACACUCACUUGCCAUUAAGUUUUUUGAUUGAGCGGCAG--GACCUUUGCAAUUCAGGAGCCAAAGCCCUU
.......((-----(((((.((---------------(.......((((((....((((....))))....)))))--).(((.........))).)))))))))).. ( -27.80)
>DroYak_CAF1 108581 86 + 1
GCCCCCUGG-----GCUUUUGG---------------CACACGCACUCGCCAUUCAGUUUUUUGAUUGAGCGGCAA--GACCUUCGCAAUUCAGGAGCCAAAGCCCCU
.......((-----(((((.((---------------(.......((.(((.(((((((....))))))).))).)--).(((.........))).)))))))))).. ( -29.50)
>DroAna_CAF1 107002 96 + 1
GCAACCUGAAGGUGCCCUAAAGCCACGCAGACACAUAAAUACACAUAC-CCGUUACGGGCCUUGAUUGAGUGAGAG--GACC---------CAGUGGCAGGGCCCCAA
..........((.(((((...(((((...(((................-..)))..(((((((..........)))--).))---------).)))))))))).)).. ( -28.97)
>consensus
GCCCCCUGG_____GCUUUUGGCCAU_______CAUACACACUCACUCGCCAUUCAGUUUUUUGAUUGAGCGGCAG__GACCAUCGCAAUUCAGGAGCCAAAGCCCUU
..............(((((.(((.........................(((.(((((((....))))))).)))......((...........)).)))))))).... (-10.08 = -12.00 +   1.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:29:35 2006