Locus 2030

Sequence ID 3L_DroMel_CAF1
Location 5,589,879 – 5,589,998
Length 119
Max. P 0.683534
window3172

overview

Window 2

Location 5,589,879 – 5,589,998
Length 119
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 90.95
Mean single sequence MFE -25.03
Consensus MFE -21.22
Energy contribution -21.88
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -1.75
Structure conservation index 0.85
SVM decision value 0.31
SVM RNA-class probability 0.683534
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5589879 119 - 23771897
AGCUGAAGUCCAAGUCAGCAGAGGAAGAAGAAGCAGAAGCAGUUAAAGCCAAUGACCGCAAGUAACUUACAUUUGAAAAAUGUGUGCAAAAAGCACAGCGAAAGGAGACUUGCAUACAG
.(((((........)))))...((........((....))........)).......((((((..((((((((.....)))))((((.....)))).....)))...))))))...... ( -26.69)
>DroSec_CAF1 9361 119 - 1
AGCUGAAGUCCAAGUCAGCAGAGGAAGAAGAAGCAGAAGCAGUUAAAGCCAAUGACCGCAAGUAACUUACAUUUGAAAAAUGUGUGCAAAAAGCACAGCGAAAGGAGACUUGCAUACAG
.(((((........)))))...((........((....))........)).......((((((..((((((((.....)))))((((.....)))).....)))...))))))...... ( -26.69)
>DroSim_CAF1 8780 119 - 1
AGCUGAAGUCCAAGUCAGCGGAGGAAGCAGAAGCAGAAGCAGUUAAAGCCAAUGACCGCAAGUAACUUACAUUUGAAAAAUGUGUGCAAAAAGCACAGCGAAAGGAGACUUGCAUACAG
.(((((........)))))((.....((....))....((.......))......))((((((..((((((((.....)))))((((.....)))).....)))...))))))...... ( -27.60)
>DroEre_CAF1 10426 112 - 1
AGCUGAAGUCCAAGUCAGCAGA-------GAAGAAGAAGCAGUUAAAGCCAAUGACCGCAAGUAACUUACAUUUGAAAAAUGUGUGCAAAAAGCACAGCGAAAGGAGACAUGCAUACAG
.(((((........)))))...-------.........(((...............(((.........(((((.....)))))((((.....)))).)))...(....).)))...... ( -22.90)
>DroYak_CAF1 8190 114 - 1
AGCUGAAGUCCAAGUCAGCAGA-----AUGAAGAAGAAGCAGUUAAAGGCAAUGACCGCAAGUAACUUACAUUUGAAAAAUGUGUGCAAAAAGCACAGCGAAAGGAGACUUGCAUACAG
(((((...((....(((.....-----.)))....))..)))))...((......))((((((..((((((((.....)))))((((.....)))).....)))...))))))...... ( -25.80)
>DroAna_CAF1 9637 102 - 1
AGAAGAAG-------CAGCA---------GCAGCAAAAGCAGUUAAAGCCAAUGACCGCAAGUAACUUACAUUUGAAAAAUGUGUGCAA-AAGCACAGCGAAAGGAGACUUGCAUACAG
.......(-------(...(---------((.((....)).)))...))........((((((..((((((((.....)))))((((..-..)))).....)))...))))))...... ( -20.50)
>consensus
AGCUGAAGUCCAAGUCAGCAGA_____AAGAAGCAGAAGCAGUUAAAGCCAAUGACCGCAAGUAACUUACAUUUGAAAAAUGUGUGCAAAAAGCACAGCGAAAGGAGACUUGCAUACAG
.(((((........)))))......................................((((((..((((((((.....)))))((((.....)))).....)))...))))))...... (-21.22 = -21.88 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:49 2006