Locus 1088

Sequence ID X_DroMel_CAF1
Location 3,206,826 – 3,206,931
Length 105
Max. P 0.966043
window1762

overview

Window 2

Location 3,206,826 – 3,206,931
Length 105
Sequences 4
Columns 108
Reading direction forward
Mean pairwise identity 92.49
Mean single sequence MFE -28.75
Consensus MFE -25.65
Energy contribution -26.27
Covariance contribution 0.63
Combinations/Pair 1.07
Mean z-score -2.23
Structure conservation index 0.89
SVM decision value 1.59
SVM RNA-class probability 0.966043
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3206826 105 + 22224390
UUUUUCCGUACAACAUAUUUGACUAAUUCCCCGGGGUCGAAGACCUCUCUUCAUGAGCCCCAAAAAUAAUGGAAAAA---GGGUGGAAAUUGUCCACUCGCAUAAUUA
(((((((((....((....))...........(((((.(((((....)))))....))))).......)))))))))---(((((((.....)))))))......... ( -30.50)
>DroSec_CAF1 16184 105 + 1
UUUUUCCGUAUGACAUAUUUGACUAAUUCCCCGGGGUAGAAGACCUCUCUUCAUGAGACCCGAAAAUAAUGGAAGAA---GGGUGGAAAUUGUCCACUCGCAUAAUUA
(((((((((....((....))..........((((.(((((((....))))).))...))))......)))))))))---(((((((.....)))))))......... ( -28.70)
>DroEre_CAF1 17930 108 + 1
UUUUUCCGUAUGACAUAUUUGACUAAUUCCCCGGGGUCGCUGACCUCUCUUCAUGAGCCCCAAAAAUAAUGGACAAAGAGGGGUGGGUAUAGUCCACUCGCAUAAUUA
........((((........(((((...(((.((((((...)))))).........(((((..................))))))))..)))))......)))).... ( -25.31)
>DroYak_CAF1 20689 105 + 1
UUUUUCCGUAUGACAUGUUUGACUAAUUCCCCGGGGUCGAAGACCUCUCUUCAUGAGCCCCAAAAAUAAUGGAAAAA---GGGUGGAAAUUGUCCACUCGCAUAAUUA
(((((((((....((....))...........(((((.(((((....)))))....))))).......)))))))))---(((((((.....)))))))......... ( -30.50)
>consensus
UUUUUCCGUAUGACAUAUUUGACUAAUUCCCCGGGGUCGAAGACCUCUCUUCAUGAGCCCCAAAAAUAAUGGAAAAA___GGGUGGAAAUUGUCCACUCGCAUAAUUA
(((((((((....((....))...........(((((.(((((....)))))....))))).......)))))))))...(((((((.....)))))))......... (-25.65 = -26.27 +   0.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:01:14 2006