Locus 4375

Sequence ID 3R_DroMel_CAF1
Location 11,549,465 – 11,549,573
Length 108
Max. P 0.505432
window7149

overview

Window 9

Location 11,549,465 – 11,549,573
Length 108
Sequences 5
Columns 114
Reading direction forward
Mean pairwise identity 78.52
Mean single sequence MFE -30.36
Consensus MFE -15.28
Energy contribution -15.68
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.82
Structure conservation index 0.50
SVM decision value -0.06
SVM RNA-class probability 0.505432
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11549465 108 + 27905053
----CAUCCAAAAGUCCUCGGGGAUCGGAGAAUCGGAGAAUCGGAGGCACCCUGGCCAAUGUCCGAAAGGAAUCAAGCGGCAGCUGGUUCCAAAAGCCAUACCCUUCCCACA--
----................((((..((....(((((....((..(((......)))..)))))))..(((((((.((....)))))))))..........))..))))...-- ( -32.00)
>DroSec_CAF1 83290 106 + 1
ACACCAUCCAAAAGUUCUUGGGG------GAAUCGGAGUAUCGGAGGCACACAGGCCAAUGUCCGAAAGGAAUCAAGCGGCAGCUGGUUCCAAAAGCCAUACCCUUCCCACA--
.......((((......))))((------(((..((.(((((((((((......)))....)))))..(((((((.((....)))))))))........))))))))))...-- ( -34.70)
>DroSim_CAF1 85978 106 + 1
ACACCAUCCAAAAGUCCUUGGGG------GAAUCGGAGAAUCGGAGGCACCCAGGCCAAUGUCCGAAAGGAAUCAAGCGGCAGGUGCGUCCAAAAGCCAUACCCUUCCCACA--
.......((((......))))((------(((..((......(((.(((((...(((..(.(((....)))....)..))).))))).))).....))......)))))...-- ( -35.20)
>DroEre_CAF1 86071 94 + 1
--ACCAACCGAGAGUCC------------------GGGAAUCGGAGGCACCCAAGCCAAUGCCCGAAAGGAAUCAACCGGCAGCUGGUUCCAAAAGCCAUUCCCUUCCCACAAA
--...............------------------(((((..((((((......))).....((....))........(((...((....))...)))..))).)))))..... ( -24.80)
>DroYak_CAF1 83067 94 + 1
--AUUAUCCAAAAGCAC------------------GGGAACCGGAGGCAGCCAAGCCAAUGUCCGAAUGGCAUCAACUGGCAGCUGGUUCCAAAAGCCAUUCCCUUCCCACAAA
--...............------------------(((((..((((((......)))....)))(((((((...(((..(...)..)))......)))))))..)))))..... ( -25.10)
>consensus
__ACCAUCCAAAAGUCCU_GGGG______GAAUCGGAGAAUCGGAGGCACCCAGGCCAAUGUCCGAAAGGAAUCAAGCGGCAGCUGGUUCCAAAAGCCAUACCCUUCCCACA__
..........................................((((((......)))....(((....))).......(((...((....))...))).......)))...... (-15.28 = -15.68 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:27:33 2006