Locus 5141

Sequence ID 3R_DroMel_CAF1
Location 13,528,861 – 13,528,964
Length 103
Max. P 0.767558
window8391

overview

Window 1

Location 13,528,861 – 13,528,964
Length 103
Sequences 5
Columns 109
Reading direction forward
Mean pairwise identity 88.54
Mean single sequence MFE -31.62
Consensus MFE -23.52
Energy contribution -24.44
Covariance contribution 0.92
Combinations/Pair 1.10
Mean z-score -1.92
Structure conservation index 0.74
SVM decision value 0.52
SVM RNA-class probability 0.767558
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13528861 103 + 27905053
CUGGGUCUGGGGUCUGGAUCUGUUUCUGAUUCUGA------AUCCGAUUCUGGGUCCGAGUCCGCUCGGAUCCAUGCUCAUGCAAUUUCUGUUUGCGCUUGCUGGAAAU
.(((((..((((((.(((.....))).))))))..------))))).(((((((((((((....)))))))))..((...(((((.......)))))...)).)))).. ( -37.50)
>DroSec_CAF1 3620 96 + 1
CUGGG-------UCUGGAUCUGUUUCUGAUUCUGA------AUCCGAUUCUGGGUCCCAGUCCGUUCGGAUCCAUGCUCAUGCAAUUUCUGUUUGCGCUUGCUGGAAAU
(((((-------((..((((.(.(((.......))------).).)).))..)).)))))(((....)))((((.((...(((((.......)))))...))))))... ( -29.40)
>DroSim_CAF1 4104 96 + 1
CUGGG-------UCUGGAUCUGUUUCUGAUUCUGA------AUCCGAUUCUGGGUCCCAGUCCGUUCGGAUCCAUGCUCAUGCAAUUUCUGUUUGCGCUUGCUGGAAAU
(((((-------((..((((.(.(((.......))------).).)).))..)).)))))(((....)))((((.((...(((((.......)))))...))))))... ( -29.40)
>DroEre_CAF1 3519 102 + 1
CUGGG-------UCUGGAUCUGUUUCUGAUUCUGAAUCUGUAUCCGAUUCUGGGUUCGAGUCCGUUCGGAUCCAUGCUCAUGCAAUUUCUGUGUGCGCUUGCUGGAAAU
.((((-------(((((((....(((.(((((.(((((.......))))).))))).)))...))))))))))).((.((((((.....)))))).))........... ( -31.00)
>DroYak_CAF1 3860 90 + 1
GUGGG-------UCUGGAUCUGUUUCUGA------------AUCCGAUUCUGGGUCCGAGCCCGUUCGGAUCCAUGCUCAUGCAAUUUGUGUGUGCGCUAGCUGAAAAU
.((((-------(..(((......)))..------------))))).(((((((((((((....)))))))))).((.(((((.....))))).)).......)))... ( -30.80)
>consensus
CUGGG_______UCUGGAUCUGUUUCUGAUUCUGA______AUCCGAUUCUGGGUCCGAGUCCGUUCGGAUCCAUGCUCAUGCAAUUUCUGUUUGCGCUUGCUGGAAAU
.((((.......((.(((((.......))))).)).......)))).(((((((((((((....)))))))))).((.((..((.....))..)).)).....)))... (-23.52 = -24.44 +   0.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:24 2006