Locus 4252

Sequence ID X_DroMel_CAF1
Location 11,172,863 – 11,172,958
Length 95
Max. P 0.635940
window6986

overview

Window 6

Location 11,172,863 – 11,172,958
Length 95
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.32
Mean single sequence MFE -25.92
Consensus MFE -10.43
Energy contribution -10.78
Covariance contribution 0.35
Combinations/Pair 1.25
Mean z-score -2.58
Structure conservation index 0.40
SVM decision value 0.21
SVM RNA-class probability 0.635940
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11172863 95 + 22224390
---------CACAUUUCCAUAAAUAAUGCAAAGCAAUUUAAAUUGC-GCCAAUGCGCAGUUUUAAAG--------GCAAGGAAAAUUGGAAAAGCGAAU------GCGAAUGG-GGAAAC
---------....(..((((............((.....(((((((-((....))))))))).....--------))................((....------))..))))-..)... ( -21.50)
>DroSec_CAF1 7520 96 + 1
---------CACAUUUCCAUAAAUAAUGCAAAGCAAUUUAAAUUGC-GCCAAUGCGCAGUUUUUAAG--------GCAAGGAAAAUUGGAAAAGCGAAU------GGGAAUGGGGGAAAC
---------..(((((((((............((.....(((((((-((....))))))))).....--------))........(((......)))))------)))))))........ ( -24.60)
>DroSim_CAF1 3022 96 + 1
---------CACAUUUCCAUAAAUAAUGCAAAGCAAUUUAAAUUGC-GCCAAUGCGCAGUUUUUAAG--------GCAAGGAAAAUUGGAAAAGCGAAU------GGGAAUGGGGGAAAC
---------..(((((((((............((.....(((((((-((....))))))))).....--------))........(((......)))))------)))))))........ ( -24.60)
>DroEre_CAF1 7539 95 + 1
---------CACAUUUCCAUAAAUAAUGCAAAGCAAUUUAAAUUGC-GUCAAUGCGCAGUUUUCAAG--------GCAGGAAAAAUCGGAUAGGCGGAU------GGGAAUGG-GGAAAU
---------..(((((((((......(((...((.....(((((((-((....))))))))).....--------))..((....))......))).))------))))))).-...... ( -24.50)
>DroYak_CAF1 2840 101 + 1
---------CACAUUUCCAUAAAUGAUGCAAAGCAAUUUAAAUUGC-GCCAAUGCGCAGUUUUCAAG--------GCAGGGAAAAUCGGAAAAGCGGGUGGGAAUGGGAAUGG-GGAAAU
---------..(((((((((......(((...((.....(((((((-((....))))))))).....--------)).((.....))......))).......))))))))).-...... ( -26.62)
>DroAna_CAF1 2991 110 + 1
CAGUCCCCCCACAGUCCCAUCAAUAAUGCAAAGCCAUUUAAAUGGGGGGCAUUGCGCAGUUUUGAACUGAAACUGUCGUGGGAAAU-GGAAAAAC---U------GCGAAUCCGGAGACA
..((((((((((.(((((.(((..((((......))))....)))))))).....((((((((.....)))))))).)))))....-(((.....---.------.....))))).))). ( -33.70)
>consensus
_________CACAUUUCCAUAAAUAAUGCAAAGCAAUUUAAAUUGC_GCCAAUGCGCAGUUUUCAAG________GCAAGGAAAAUUGGAAAAGCGAAU______GGGAAUGG_GGAAAC
...........(((((((........(((...(((((....))))).((....)))))...........................(((......)))........)))))))........ (-10.43 = -10.78 +   0.35)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:20:17 2006