Locus 5663

Sequence ID 3R_DroMel_CAF1
Location 14,879,100 – 14,879,216
Length 116
Max. P 0.679753
window9258

overview

Window 8

Location 14,879,100 – 14,879,216
Length 116
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 92.64
Mean single sequence MFE -31.72
Consensus MFE -26.42
Energy contribution -26.62
Covariance contribution 0.20
Combinations/Pair 1.06
Mean z-score -1.40
Structure conservation index 0.83
SVM decision value 0.30
SVM RNA-class probability 0.679753
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14879100 116 + 27905053
AAAUUGAAAUGUACUGCUUCGCUAGGUGUUACAAUAUUUGUUACGAGCAUAUUACACUGUUUUCCCGGGAAAACGCUGUACGUUCAACAGUCGGCAAAUCGUCAGCCGGCAUUUCU
...(((((.(((((.((...(((..(((..(((.....)))))).)))..........((((((....)))))))).))))))))))..((((((.........))))))...... ( -31.90)
>DroSec_CAF1 6787 113 + 1
AAAUUGAAAUGUGCUGCAUGGCUAGGUGUUACAAUAUUUGUUACGAGCA--UCACACUGUUUUCCCGGGA-AACGCUGUACCUUCAACAGUCGGCAAAUCGUCAGCCGGCAUUUCU
...(((((..((((.((.......((((((..(((....)))...))))--)).....(((((.....))-))))).)))).)))))..((((((.........))))))...... ( -27.50)
>DroSim_CAF1 6781 113 + 1
AAAUUGAAAUGUGCUGCUUGGCUAGGUGUUACAAUAUUUGUUACGAGCA--UCACACUGUUUUCCCGGGA-AACGCUGUACGUUCAACAGUCGGCAAAUCGUCAGCCGGCAUUUCU
...(((((.(((((((((((..(((((((....)))))))...))))))--.......(((((.....))-)))...))))))))))..((((((.........))))))...... ( -30.30)
>DroEre_CAF1 6767 112 + 1
AAAUCGAAAUGUGCUGCUUUGCUAGGUGUUACAAUUUGUGUUACAAGCA--GUACACUGUUUUCCCGGGA-AACGCUGUACGCUCAACAGUCGGCA-AUCGGCAGCCGGCAUUUCU
.....(((((((((((((((((..(.((((.....(((.....)))((.--(((((.((((((.....))-)))).)))))))..)))).)..)))-)..))))))..))))))). ( -38.50)
>DroYak_CAF1 7479 112 + 1
AAAUUGAAAUGUGCUGCUCUGCUAGGUGUUACAAUAUUUGUUACAAGCA--UUACACUGUUUUCCCGGGA-AACGCUGUACGUUCAACAGUCGGCA-AUCGGCAGCCGGCUUUUCU
...(((((.(((((.((..((((...(((.(((.....))).)))))))--.......(((((.....))-))))).)))))))))).(((((((.-.......)))))))..... ( -30.40)
>consensus
AAAUUGAAAUGUGCUGCUUGGCUAGGUGUUACAAUAUUUGUUACGAGCA__UUACACUGUUUUCCCGGGA_AACGCUGUACGUUCAACAGUCGGCAAAUCGUCAGCCGGCAUUUCU
...(((((.(((((.((...(((...(((.(((.....))).))))))..........(((.((....)).))))).))))))))))..((((((.........))))))...... (-26.42 = -26.62 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:01:08 2006