Locus 3558

Sequence ID 3L_DroMel_CAF1
Location 10,419,501 – 10,419,606
Length 105
Max. P 0.829535
window5549

overview

Window 9

Location 10,419,501 – 10,419,606
Length 105
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 91.50
Mean single sequence MFE -35.68
Consensus MFE -28.42
Energy contribution -28.58
Covariance contribution 0.16
Combinations/Pair 1.11
Mean z-score -1.74
Structure conservation index 0.80
SVM decision value 0.71
SVM RNA-class probability 0.829535
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10419501 105 + 23771897
GCGUGCAGCUUGCAACUUGCAA-------CAUGCAGCAGCCAGUGUGCAACAUGCG-GCAUCCAGGGUUCAAAAGGUCAAGCGGCUGCUGCGGCAAUUUGUCAAUUUUAUAAC
((.....))((((((.((((..-------..((((((((((.(((((...))))).-((..((...........))....)))))))))))))))).))).)))......... ( -31.20)
>DroSec_CAF1 290548 104 + 1
GCGUGCAUCUAGCAACUUGCAA-------CAUGCAGCAGCCAGUG--CAUGUUGCAUACAUGCAGGGUUCAAAAGGUCAAGCGGCUGCUGCGGCAAUUUGUCAAUUUUAUAAC
((((((.....)))...)))..-------...(((((((((..((--(((((.....)))))))((.(......).))....)))))))))(((.....)))........... ( -34.60)
>DroSim_CAF1 306265 105 + 1
GCGUGCAGCUAGCAACUUGCAA-------CAUGCAGCAGCCAGUGUGCAACAUGCA-GCAUGCAGGGUUCAAAAGGUCAAGCGGCUGCUGCGGCAAUUUGUCAAUUUUAUAAC
((.....))..((((.((((..-------..((((((((((.((((((........-)))))).((.(......).))....)))))))))))))).))))............ ( -33.80)
>DroEre_CAF1 301499 112 + 1
GCGUGCAGCUUGCAACUUGCAACUUGCAGCAUGCAGCAGCCAGUGUGCAACAUGCG-GCAUGCAGGGGGCAAAAGGUCAAGCGGCUGCUGCGGCAAUUUGUCAAUUUUAUAAC
((.(((((.((((.....)))).)))))))..(((((((((.((((((........-))))))....(((.....)))....)))))))))(((.....)))........... ( -44.00)
>DroYak_CAF1 303689 105 + 1
GCGUGCAGCUAGCAACUUGUAA-------CAUGCAGCAGCCAGUGUGCAACAUGCG-GCAUGCAGGGGGCAAAAGGUCAAGCGGCUGCUGCGGCAAUUUGUCAAUUUUAUAAC
((.....))..((((.((((..-------..((((((((((.((((((........-))))))....(((.....)))....)))))))))))))).))))............ ( -34.80)
>consensus
GCGUGCAGCUAGCAACUUGCAA_______CAUGCAGCAGCCAGUGUGCAACAUGCG_GCAUGCAGGGUUCAAAAGGUCAAGCGGCUGCUGCGGCAAUUUGUCAAUUUUAUAAC
((((((.....)))...)))............(((((((((.((.(((.....))).))..((...(..(....)..)..)))))))))))(((.....)))........... (-28.42 = -28.58 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:00:57 2006