Locus 9677

Sequence ID 3R_DroMel_CAF1
Location 25,604,268 – 25,604,368
Length 100
Max. P 0.627530
window15463

overview

Window 3

Location 25,604,268 – 25,604,368
Length 100
Sequences 5
Columns 106
Reading direction reverse
Mean pairwise identity 86.04
Mean single sequence MFE -32.06
Consensus MFE -25.74
Energy contribution -25.50
Covariance contribution -0.24
Combinations/Pair 1.18
Mean z-score -1.57
Structure conservation index 0.80
SVM decision value 0.19
SVM RNA-class probability 0.627530
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25604268 100 - 27905053
AAAGAGAGGAAGCCAGGCUAAAAGCCAGGCCAAAUCAGGCGAUGCGAGGCUAUGGCAUGGCUAUGGUGCUGCU------GCUGGAAAUCCCAAUGCAGCAUUGCGA
.....((....(((.(((.....))).)))....))..(((((((...((((((((...))))))))..(((.------..(((.....)))..)))))))))).. ( -35.50)
>DroSec_CAF1 31249 98 - 1
AGAGAGAGGUAGCCAGGCUA--AGUUGGGCCAAAUCAGGCGAUGCGAGGCUAUGGCAUGGCUGUGGUGCUGCU------GCUGGAAAUCCCAAUGCAGCAUUGCGA
......((.((((((((((.--.((...(((......)))...))..)))).)))).)).))(..(((((((.------..(((.....)))..)))))))..).. ( -37.60)
>DroSim_CAF1 32059 98 - 1
AGAGAGAGGAAGCCAGGCCA--AGUUGGGCCAAAUCAGGCGAUGCGAGGCUAUGGCAUGGCUGUGGUGCUGGU------GCUGGAAAUCCCAAUGCAGCAUUGCGA
..........(((((.((((--.....((((..(((....)))....)))).)))).)))))(..((((((.(------..(((.....)))..)))))))..).. ( -36.00)
>DroEre_CAF1 32205 101 - 1
AG--AGAGGAAGACUGACCA--AAUCAGGCAAUAUCAGGCGAUG-GAGGCUAUGGCAUGGUUAUGGUUAUGGUGCUGGUGCUGGAAAUCCCAAUGCAGCAUUGCGA
..--.......(((((((((--..((((((..((((....))))-...))).)))..)))))..))))..(((((((.(..(((.....)))..)))))))).... ( -25.10)
>DroYak_CAF1 32713 96 - 1
AG--AGAGGAAGCCAGGCAA--AAUCAGGCAAUAUCAGGCGAUGCGAGGCUAUGGCAUGGUUAUGGUUGUGGU------GCUGGAAAUCCCAAUGCAGCAUUGCGA
..--.((....(((......--.....)))....))..(((((((..(((((((((...)))))))))...((------..(((.....)))..)).))))))).. ( -26.10)
>consensus
AGAGAGAGGAAGCCAGGCCA__AGUCAGGCCAAAUCAGGCGAUGCGAGGCUAUGGCAUGGCUAUGGUGCUGGU______GCUGGAAAUCCCAAUGCAGCAUUGCGA
.....((....(((.(((.....))).)))....))..(((((((...((((((((...))))))))............(((((.....)))..)).))))))).. (-25.74 = -25.50 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:39:40 2006