Locus 4883

Sequence ID X_DroMel_CAF1
Location 12,694,821 – 12,694,926
Length 105
Max. P 0.656512
window7970

overview

Window 0

Location 12,694,821 – 12,694,926
Length 105
Sequences 6
Columns 109
Reading direction reverse
Mean pairwise identity 75.25
Mean single sequence MFE -28.98
Consensus MFE -12.36
Energy contribution -14.45
Covariance contribution 2.09
Combinations/Pair 1.22
Mean z-score -2.02
Structure conservation index 0.43
SVM decision value 0.26
SVM RNA-class probability 0.656512
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12694821 105 - 22224390
GAACCCUUUUGG-GGGCUUAGCAACAGUUGUGCUCCUCCAAC-GGGAUAAGUUCCUUCAAGUACUGUGCCUUACAUAAUUGAGG-GGAGCUCCUAAGGUUAC-CAAAUU
.((((...((((-((((((............(((..(((...-.)))..))).(((((((....((((.....)))).))))))-)))))))))))))))..-...... ( -30.10)
>DroSec_CAF1 47808 105 - 1
GAACCCUUUUGG-GGGCUUAGCAACAGUUGUGCUCCUCCAAU-GGGAUAAGUUCCUUCAAGUACUGGGUCUUACAUAAUUGAAG-GGAGCUCCUAAGGUAAC-CAAAAA
..(((...((((-((((((..(..((((((((.((((.....-))))((((..((..........))..))))))))))))..)-.)))))))))))))...-...... ( -30.00)
>DroSim_CAF1 33899 106 - 1
NNNCCCUUUUGG-GGGCUUAGCAACAGUUGUGUCUCUCAAAC-GGGAUAAGUUCCUUCAAGUACUGGGUCUUACAUAAUUGAAG-AGAGCUUCUCUUGAGACACCAAUG
...(((.(((((-((((.((((....)))).))).)))))).-)))..................((((((((.((....))(((-((.....)))))))))).)))... ( -29.40)
>DroEre_CAF1 47047 96 - 1
GAAUCCUUUUGG-GGGCUUAGCAACAGUUUUGCUCCUCCAAC-GGGAUAAGUUCCCUCAAGUACUGUGUCUUACAUAAUUGAAG-GGAGGUCCUA----------AAUU
..(((((.((((-(((...(((((.....)))))))))))).-)))))...(((((((((....((((.....)))).))).))-))))......----------.... ( -31.30)
>DroYak_CAF1 51312 96 - 1
GAACCCUUUUGG-GGGCUUAGCAACAGUUUUGCUCCUCCAAC-GGGAUAAGUUCCCUCAAGUACUGUGUCUUACAUAAUUGAAG-GGAGCUCCUA----------AAUU
...(((..((((-(((...(((((.....)))))))))))).-)))...(((((((((((....((((.....)))).))).))-))))))....----------.... ( -32.80)
>DroAna_CAF1 52629 88 - 1
GAACCCUUUUGGGGGGCUUAGCAACAGUUU-ACCCCUUUAAUGGGGGCAACUUCCUUCUCAUUUCGAGCCAUU--UAACUCAAAU------------------AUAAUG
...(((....))).(((((((....((((.-.((((......))))..)))).....))......)))))...--..........------------------...... ( -20.30)
>consensus
GAACCCUUUUGG_GGGCUUAGCAACAGUUGUGCUCCUCCAAC_GGGAUAAGUUCCUUCAAGUACUGUGUCUUACAUAAUUGAAG_GGAGCUCCUA________C_AAUU
...(((..((((.((((..(((....)))..)).)).))))..)))...(((((((((((....((.......))...)))))..)))))).................. (-12.36 = -14.45 +   2.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:17 2006