Locus 5682

Sequence ID 3R_DroMel_CAF1
Location 14,906,662 – 14,906,781
Length 119
Max. P 0.638306
window9289

overview

Window 9

Location 14,906,662 – 14,906,781
Length 119
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 86.02
Mean single sequence MFE -28.88
Consensus MFE -26.13
Energy contribution -25.93
Covariance contribution -0.19
Combinations/Pair 1.09
Mean z-score -1.40
Structure conservation index 0.90
SVM decision value 0.22
SVM RNA-class probability 0.638306
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14906662 119 + 27905053
UGGGCGAGCAACAUCAUCAUCAUCAUCAUCUCUAGUAUCCGAAACCGAAUCGAAAACAACAUCAUCAUCGCCGGAUGAUGGCCCGAUGGAAUGCCAUCUAUGCCACAGUUAAGAGGCAA
.((((..................................(((.......)))..........(((((((....)))))))))))(((((....)))))..((((.(......).)))). ( -29.20)
>DroSec_CAF1 34037 113 + 1
UGGGCGAGCA------UCAUCAUCAUCAUCUCUAGUAUCCGAAACCGAAUCGAAAACAACAUCAUCAUCGCCGGAUGAUGGCCCGAUGGAAUGCCAUCUAUGCCACAGUUAAGAGGCAA
.((((.....------.......................(((.......)))..........(((((((....)))))))))))(((((....)))))..((((.(......).)))). ( -29.20)
>DroSim_CAF1 33953 113 + 1
UGGGCGAGCA------UCAUCAUCAUCAUCUCUAGUAUCCGAAACCGAAUCGAAAACAACAUCAUCAUCGCCGGAUGAUGGCCCGAUGGAAUGCCAUCUAUGCCACAGUUAAGAGGCAA
.((((.....------.......................(((.......)))..........(((((((....)))))))))))(((((....)))))..((((.(......).)))). ( -29.20)
>DroEre_CAF1 33443 110 + 1
UGGGCGAGCA------UCAUCAUUAUCAUCUCUAGUAUUCGAAACCGAAUCGAAAU---CAUCAUUAUCGCCGGAUGAUGGCCCGAUGGAAUGCCAUCUAUGCCACAGUUAAGAGGCAA
.((((((...------...))..((((((((...(.(((((....))))))((...---..)).........))))))))))))(((((....)))))..((((.(......).)))). ( -30.40)
>DroYak_CAF1 40409 96 + 1
UGGGCGAGCA------UCAUCAUCAUC--------------AAACCCAAUCGAAAU---CAUCAUUAUCGCCGGAUGAUGGCCCGAUGGAAUGCCAUCUAUGCCACAGUUAAGAGGCAA
.((((((...------...))......--------------...............---...(((((((....)))))))))))(((((....)))))..((((.(......).)))). ( -26.50)
>DroAna_CAF1 32104 95 + 1
UGGGCGAGCA------UCAUCAUCGGC---------------AGCCGAUUCGAAAA---CAUCAUCAUCGCCGGAUGAUGGCCCAGUGGAAUGCCAUCUAUGCCACAGUUAAGAGGCAC
(((((.....------((...(((((.---------------..)))))..))...---...(((((((....))))))))))))((((....))))...((((.(......).)))). ( -28.80)
>consensus
UGGGCGAGCA______UCAUCAUCAUCAUCUCUAGUAUCCGAAACCGAAUCGAAAA___CAUCAUCAUCGCCGGAUGAUGGCCCGAUGGAAUGCCAUCUAUGCCACAGUUAAGAGGCAA
.((((((............)).........................................(((((((....)))))))))))(((((....)))))..((((.(......).)))). (-26.13 = -25.93 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:01:38 2006