Locus 4438

Sequence ID X_DroMel_CAF1
Location 11,734,670 – 11,734,781
Length 111
Max. P 0.919579
window7290

overview

Window 0

Location 11,734,670 – 11,734,781
Length 111
Sequences 4
Columns 118
Reading direction reverse
Mean pairwise identity 88.50
Mean single sequence MFE -48.12
Consensus MFE -40.45
Energy contribution -41.95
Covariance contribution 1.50
Combinations/Pair 1.06
Mean z-score -2.03
Structure conservation index 0.84
SVM decision value 1.13
SVM RNA-class probability 0.919579
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11734670 111 - 22224390
GCCAGGCGACAUGCCAUUGGCCACCGGCCAU-------UGGCCAUUGGUCACGAGUGCGCUCCCGAGACGGAGUUCGCCCACGGAUGAGCCAAUCUGCCAGCAAGGCGCCACACAAGA
(((..(((((..((((.(((((...))))).-------)))).....)))..(.(((.(((((......))))).))).).(((((......)))))...))..)))........... ( -40.60)
>DroSec_CAF1 3105 111 - 1
GCCAGGCGUCUUGCCAGUGGCCACCGGCCAU-------UGGCAAUUGGUCACGAGUGCGCUCCCAAGACGGAGUUCGCCCACGGAUGAGACAAUCUGCCAGCGAGGCGCCACACAAGA
....((((((((((((((((((...))))))-------))))..((((....(.(((.(((((......))))).))).).(((((......))))))))).))))))))........ ( -49.90)
>DroEre_CAF1 3184 118 - 1
GCCAGGCGACUUGCCACUGGCCCCCGGCCAUUGGGCAUUGGCCAUUGGUCAUGAGUGCGCUCCUAAGACGGAGUUCGCCAACGGAUGAGCCAGCCUGCCAGCAAGGCGCCACACAAGA
....((((.(((((((.(((((...))))).))(((((((((((((.((..((.(((.(((((......))))).))))))).)))).)))))..)))).))))).))))........ ( -54.10)
>DroYak_CAF1 3747 111 - 1
GCCAGGCGACUUGCCACUGGCCACCGGCCAU-------UGGCCAUUGGUCAGGAGUGCGCUCCUUAGGCGGAGUUCGCCCAUGGAUGAGUCAACCUGCCAGCAAGGCGCCACAAAAGA
....(((((((((((((((((((..((((..-------.))))..)))))))(.(((.(((((......))))).))).).))).)))))).....(((.....))))))........ ( -47.90)
>consensus
GCCAGGCGACUUGCCACUGGCCACCGGCCAU_______UGGCCAUUGGUCACGAGUGCGCUCCCAAGACGGAGUUCGCCCACGGAUGAGCCAACCUGCCAGCAAGGCGCCACACAAGA
....(((((((((((.(((((((..(((((........)))))..)))))))..(((.(((((......))))).)))....)).)))))).....(((.....))))))........ (-40.45 = -41.95 +   1.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:25:00 2006