Locus 7727

Sequence ID 3L_DroMel_CAF1
Location 20,619,817 – 20,619,937
Length 120
Max. P 0.816471
window12579

overview

Window 9

Location 20,619,817 – 20,619,937
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 88.54
Mean single sequence MFE -33.70
Consensus MFE -25.76
Energy contribution -26.36
Covariance contribution 0.60
Combinations/Pair 1.11
Mean z-score -1.90
Structure conservation index 0.76
SVM decision value 0.67
SVM RNA-class probability 0.816471
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20619817 120 + 23771897
AAAUCAAAUCAAGUCAUAGUCACCAGGCUCAACACCCGAGCAGUUGAAGCCAAGCCACCAGUUAUGGAGUCACGUCUUCAACGGCAACUGCUGCUCAAUGGUGUGCAGACCUUGGCAAUA
............((((..(((....((((((((.........)))).))))..(((((((....(((((......))))).((((....)))).....))))).)).)))..)))).... ( -36.90)
>DroSec_CAF1 64592 120 + 1
AAAUCAAAUCAAGUCAUAGUCACCAGGCUCAACACCCGAGCAGUUGAAGCCAAGCCACCAGUUAUGGAGUCACGUCUUCAACGGCAACUGCUGCUCAAUGGUGUGCAGACCUUGGCAAUA
............((((..(((....((((((((.........)))).))))..(((((((....(((((......))))).((((....)))).....))))).)).)))..)))).... ( -36.90)
>DroAna_CAF1 86464 102 + 1
AAAUCAAAUCAAGUCAUAGUCACUAGGUUCAGC---UUAGCAG---------------CGGUUAUGGAGUCACGUCUUCAACGGCAACUGCUCCUCAAUGGUGUGCAAGCCUUGGCAAUA
..................((((..(((((..((---..(((((---------------..(((.(((((......)))))..)))..)))))((.....))...)).))))))))).... ( -22.80)
>DroSim_CAF1 59496 120 + 1
AAAUCAAAUCAAGUCAUAGUCACCAGGCUCAACACCCGAGCAGUUGAAGCCAAGCCACCAGUUAUGGAGUCACGUCUUCAACGGCAACUGCUGCUCAAUGGUGUGCAGACCUUGGCAAUA
............((((..(((....((((((((.........)))).))))..(((((((....(((((......))))).((((....)))).....))))).)).)))..)))).... ( -36.90)
>DroEre_CAF1 57148 115 + 1
AAAUCAAAUCAAGUCAUAGUCACCAGGCUCAACACCCGAGCAGCUAGG-----GCCCCCAGUUAUGGAGUCACGUCUUCAACGGCAACCGCUGCUCAAUGGUGUGCAGACCUUGGCAAUA
..................((((..(((((..(((((.(((((((...(-----((..(((....))).)))..(((......)))....)))))))...)))))..)).))))))).... ( -35.00)
>consensus
AAAUCAAAUCAAGUCAUAGUCACCAGGCUCAACACCCGAGCAGUUGAAGCCAAGCCACCAGUUAUGGAGUCACGUCUUCAACGGCAACUGCUGCUCAAUGGUGUGCAGACCUUGGCAAUA
..................((((..(((((..(((((.(((((((....................(((((......)))))..(....).)))))))...)))))..)).))))))).... (-25.76 = -26.36 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:55:14 2006