Locus 4852

Sequence ID X_DroMel_CAF1
Location 12,608,822 – 12,608,926
Length 104
Max. P 0.975242
window7927

overview

Window 7

Location 12,608,822 – 12,608,926
Length 104
Sequences 4
Columns 114
Reading direction reverse
Mean pairwise identity 84.09
Mean single sequence MFE -25.32
Consensus MFE -18.40
Energy contribution -19.15
Covariance contribution 0.75
Combinations/Pair 1.10
Mean z-score -2.63
Structure conservation index 0.73
SVM decision value 1.75
SVM RNA-class probability 0.975242
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12608822 104 - 22224390
AGGACCAGCAGGAAAAACAUGAAAUUGU---------AAUGGAGUCGAUAAAAAAAAAAUCAAUCUAUGUGAAUGGGUUUCGCAAUCCAGAGA-AAGAAGUUGGUCAAAUUUUU
..(((((((.......(((......)))---------..((((...(((.........)))......((((((.....)))))).))))....-.....)))))))........ ( -22.00)
>DroSec_CAF1 6801 100 - 1
AGGACCAGCAGGAAAAACAUGUAAUUGU---------AAUGGAGUCGAUGA-----AAAUCAAUAUAUGUCUCUGGGUUUCGCAAUCCAGAGAGAAGAAGUUGGUCAAAUUUUU
..(((((((........((((((.....---------...(....)(((..-----..)))..))))))((((((((((....))))))))))......)))))))........ ( -29.40)
>DroSim_CAF1 8222 100 - 1
AGGACCAGCAGGAAAAACAUGAAAUUGU---------AAUGGAGUCGAUGA-----AAAUCAAUAUAUGUGACUGGGUUUCGCAAUCCAGAGAGAAGAAGUUGGUCAAAUUUUU
..(((((((.......(((......)))---------..((((...(((..-----..)))......(((((.......))))).))))..........)))))))........ ( -23.10)
>DroEre_CAF1 7199 105 - 1
UGGACCAGCAGGCAAAACAUGAACUCGAAUGAACAUGAAUGGAGUCGAUGG-----AAAUCAAUAUAUGUGAGUGGGUUUCACAAUCCAG-G---GGAAGUUGGUCAAAUUCUU
..(((((((........((((..(......)..))))..((((...(((..-----..)))......((((((.....)))))).)))).-.---....)))))))........ ( -26.80)
>consensus
AGGACCAGCAGGAAAAACAUGAAAUUGU_________AAUGGAGUCGAUGA_____AAAUCAAUAUAUGUGACUGGGUUUCGCAAUCCAGAGA_AAGAAGUUGGUCAAAUUUUU
..(((((((.(......).....................((((...(((.........)))......((((((.....)))))).))))..........)))))))........ (-18.40 = -19.15 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:34:34 2006