Locus 1459

Sequence ID 2R_DroMel_CAF1
Location 5,575,049 – 5,575,162
Length 113
Max. P 0.853522
window2490

overview

Window 0

Location 5,575,049 – 5,575,162
Length 113
Sequences 4
Columns 116
Reading direction forward
Mean pairwise identity 91.91
Mean single sequence MFE -22.00
Consensus MFE -17.12
Energy contribution -19.12
Covariance contribution 2.00
Combinations/Pair 1.00
Mean z-score -2.35
Structure conservation index 0.78
SVM decision value 0.80
SVM RNA-class probability 0.853522
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5575049 113 + 20766785
CCACACGAAUACACAUCCUACACAACACCAUCCACAAUUGGGUGGGUCGAUUUUUUGGAGUAAUCCCAAAAAGAUACACUUGAUACAUUUUU--UU-UUAAGAAAUAUAAUUUCUG
..............(((..........(((((((....)))))))((...(((((.(((....))).)))))...))....)))........--..-...((((((...)))))). ( -18.80)
>DroSec_CAF1 13347 116 + 1
CCACACGAAUACACAUCCUACACAACACCAUCCACAAUUGGGUGGGUCGAUUUUUUGGAGUAAUCCUAAAAAUAUACACUUGAUACAUUUUUUUUUUUUAAGAAAUAUAAUUUCUG
......(((.....(((..........(((((((....)))))))((..((((((.(((....))).))))))..))....)))..(((((((......))))))).....))).. ( -20.20)
>DroSim_CAF1 13525 114 + 1
CCACACGAAUACACAUCCUACACAACACCAUCCACAAUUGGGUGGGUCGAUUUUUUGGAGUAAUCCUAAAAAUAUACACUGGAUACAUUUUU--UUUUAAAGAAAUAUAAUUUCUG
..............((((.........(((((((....)))))))((..((((((.(((....))).))))))..))...))))........--......((((((...)))))). ( -23.50)
>DroEre_CAF1 11945 114 + 1
CCACACGAAAGCACAUCCUACACAACACCAUCCACAAUUGGGUGGGUCGAUUUUUUGGAGUAAUCCUCAAAAUAAACACUUGCUUAGCUUU--UUUUUAAAGAAAUAUAAUUUCUA
......((((((...............(((((((....)))))))((..(((((..(((....)))..)))))..)).........)))))--)......((((((...)))))). ( -25.50)
>consensus
CCACACGAAUACACAUCCUACACAACACCAUCCACAAUUGGGUGGGUCGAUUUUUUGGAGUAAUCCUAAAAAUAUACACUUGAUACAUUUUU__UUUUAAAGAAAUAUAAUUUCUG
...........................(((((((....)))))))((..((((((.(((....))).))))))..)).......................((((((...)))))). (-17.12 = -19.12 +   2.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:23 2006