Locus 8612

Sequence ID	X_DroMel_CAF1
Location	21,402,539 – 21,402,647
Length	108
Max. P	0.660734

overview

Window 1

Location	21,402,539 – 21,402,647
Length	108
Sequences	4
Columns	114
Reading direction	forward
Mean pairwise identity	89.48
Mean single sequence MFE	-26.43
Consensus MFE	-17.72
Energy contribution	-18.97
Covariance contribution	1.25
Combinations/Pair	1.00
Mean z-score	-2.44
Structure conservation index	0.67
SVM decision value	0.27
SVM RNA-class probability	0.660734
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21402539 108 + 22224390
AUCGAAAUACAUACGUCGGCAUUAUCCGAC-GACUAAAGCCGUCUUUCAA----GCCC-CACCGAUGGAAUUUUACUUGGCAAAUUUCAUCCAAGUUAGUGCUCGGCAAUAACA
.............((((((......)))))-)......((((.......(----(((.-.((.((((((((((........))))))))))...))..).)))))))....... ( -24.61)
>DroSec_CAF1 52832 105 + 1
AUCGAAAU----ACGUCGGCAUUAUCCGACUUACUAAAGCCGCCUUUCAA----GCAC-CACCGAUGGAAUUUAACUUUGCAAAUUUCAUCCAAGUUAGUGCUCGGCAAUAACA
........----..(((((......)))))........((((.......(----((((-.((.((((((((((........))))))))))...))..)))))))))....... ( -25.71)
>DroSim_CAF1 20449 105 + 1
AUCGAAAU----ACGUCGGCAUUAUCCGACUUACUAAAGCCGCCUUUCAA----GCAC-CACCGAUGGAAUUUUACUUUGCAAAUUUCAUCCAAGUUAGUGCUCGGCAAUAACA
........----..(((((......)))))........((((.......(----((((-.((.((((((((((........))))))))))...))..)))))))))....... ( -25.51)
>DroYak_CAF1 41241 109 + 1
AUCGAAAU----ACGUCGGCCUUAUCCGCC-GACUAAAGCCGCCUUUCAGCCCAGCUCCGACCACUGGAAUUUAACUUGGCAAAUUUCAUCCAAGUUAGUGCUCGGCAAUAACA
........----..((((((.......)))-)))...............(((.(((((((.....))))..(((((((((..........))))))))).))).)))....... ( -29.90)
>consensus
AUCGAAAU____ACGUCGGCAUUAUCCGAC_GACUAAAGCCGCCUUUCAA____GCAC_CACCGAUGGAAUUUAACUUGGCAAAUUUCAUCCAAGUUAGUGCUCGGCAAUAACA
..............(((((......)))))........((((............((((..((.((((((((((........))))))))))...))..)))).))))....... (-17.72 = -18.97 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:08:34 2006