Locus 1647

Sequence ID X_DroMel_CAF1
Location 4,664,074 – 4,664,174
Length 100
Max. P 0.758924
window2706

overview

Window 6

Location 4,664,074 – 4,664,174
Length 100
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 82.26
Mean single sequence MFE -24.30
Consensus MFE -16.35
Energy contribution -16.47
Covariance contribution 0.12
Combinations/Pair 1.12
Mean z-score -1.87
Structure conservation index 0.67
SVM decision value 0.50
SVM RNA-class probability 0.758924
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4664074 100 + 22224390
CAAAUUUAAUUCAUCUCUGUGCUUUUA--------------------CUGAGGCAAAGUUUUAUUUAAAACGCAACGAUUCCCUCGGGAUUUGGCCAAUCAAAGGGAAUCAAUUUGCGCU
....(((((.......((.((((((..--------------------..)))))).))......))))).(((((.((((((((...((((.....))))..))))))))...))))).. ( -25.92)
>DroSec_CAF1 25397 94 + 1
CAAAUUUAAUUCAUCU------UUUUA--------------------CAGAGGCAAAGUUUCAUUUAAAACGCAGCGAUUCCCUCGGGAUUUGGCCAAUCAAAGGGAAUCAAUUUGCGCG
................------.....--------------------..(((((...)))))........(((((.((((((((...((((.....))))..))))))))...))))).. ( -20.70)
>DroEre_CAF1 26201 98 + 1
CAAAUUUAAUUCAUCUCUG--CUUUUA--------------------CUGAGGGAAAGUUUUAUUUAAAAUGCAGCGAUUCCCUGGGGUUUUGGCCAAUCAAAGGGAAUCAAUUUACGCU
................(((--((((((--------------------.(((((.....)))))..))))).)))).((((((((..((((......))))..)))))))).......... ( -20.80)
>DroYak_CAF1 22555 118 + 1
CAAAUUUAAUUCAUCACUG--CUUUUACCACUAUUACUUUUUUUUCACUGAGAGAAAGUUAUAUUUAAAACGCAGCGAUUCCCUGGGGAUUUGGCCAAUCAAAGGGAAUCAAUUUGCGCU
((((((..........(((--((((((....(((.((((((((((....)))))))))).)))..))))).)))).((((((((...((((.....))))..)))))))))))))).... ( -29.80)
>consensus
CAAAUUUAAUUCAUCUCUG__CUUUUA____________________CUGAGGCAAAGUUUUAUUUAAAACGCAGCGAUUCCCUCGGGAUUUGGCCAAUCAAAGGGAAUCAAUUUGCGCU
......................................................................(((((.((((((((...((((.....))))..))))))))...))))).. (-16.35 = -16.47 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:15:40 2006