Locus 5224

Sequence ID	X_DroMel_CAF1
Location	13,635,190 – 13,635,286
Length	96
Max. P	0.602609

overview

Window 9

Location	13,635,190 – 13,635,286
Length	96
Sequences	4
Columns	116
Reading direction	reverse
Mean pairwise identity	74.74
Mean single sequence MFE	-31.72
Consensus MFE	-17.33
Energy contribution	-18.20
Covariance contribution	0.87
Combinations/Pair	1.09
Mean z-score	-1.83
Structure conservation index	0.55
SVM decision value	0.14
SVM RNA-class probability	0.602609
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13635190 96 - 22224390
GGUCGCAGCUGUUCAAAAAUUGCAC---------------CGCAUAAGGU-----UGCAAGCUGCCGCUCCAAAUUGUAAUCCCGUUGGAAAUUAAGGGGCAACCCUUGCAGCAUU
(((.((((.(.......).))))))---------------)(((......-----)))..(((((...(((((...(....)...)))))....(((((....))))))))))... ( -30.40)
>DroSec_CAF1 4541 91 - 1
GGUCGCAG----------GUUGCAG---------------CUUAAACGCCAGAUAUUUGUGCUGGCGCUCCGAAUUGUAAUCCCGUUGGAAAAUAAGUUGCAGCCCUUGCAGCAUU
.((.((((----------(((((((---------------((((..((((((.........)))))).(((((...(....)...)))))...))))))))))))..))).))... ( -34.90)
>DroEre_CAF1 5386 116 - 1
GGUCGCAGCUGUUCAAAAAAUGCACGACAUAAGCUUCCAGCUUAAACGCCAGAUAUUUGUGCUGCCGCUCCAAAUUGUAAUCCCCUUGGAAAUUAAGGGGCAGCCCUUGCAGCAUU
.((((..((............)).)))).(((((.....)))))..............(((((((...(((((............)))))....(((((....)))))))))))). ( -28.90)
>DroYak_CAF1 6269 116 - 1
GGUCGCAGCUGUUCAAAAAUUGCACGAUAUAAGCUUGCAGCUUAGAAGCCAGAUAUUUGUGCUGCCGCUCCAAAUUGUAAUCCCCUUGGAAAUUAAGGGGCAACCCUUGCAGCAUU
(((..(.((.(((....))).))......(((((.....))))))..)))........(((((((...(((((............)))))....(((((....)))))))))))). ( -32.70)
>consensus
GGUCGCAGCUGUUCAAAAAUUGCAC_______________CUUAAAAGCCAGAUAUUUGUGCUGCCGCUCCAAAUUGUAAUCCCCUUGGAAAUUAAGGGGCAACCCUUGCAGCAUU
....((((...........))))...................................(((((((...(((((...(....)...)))))....(((((....)))))))))))). (-17.33 = -18.20 +   0.87)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:42:43 2006