Locus 2300

Sequence ID X_DroMel_CAF1
Location 6,231,181 – 6,231,286
Length 105
Max. P 0.549312
window3727

overview

Window 7

Location 6,231,181 – 6,231,286
Length 105
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 82.61
Mean single sequence MFE -30.06
Consensus MFE -19.08
Energy contribution -19.58
Covariance contribution 0.50
Combinations/Pair 1.04
Mean z-score -1.70
Structure conservation index 0.63
SVM decision value 0.03
SVM RNA-class probability 0.549312
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6231181 105 + 22224390
UUUCACGAUUGGAGCGAGGUCCUCGAGCACUUACAGCUUUAAUUUUCGCCACUCUGGUGACUUU---------------CGUUGGCGUCCUCGAUUGGCCAUUUUCUCAUUUGGAAAUUC
((((.(((.(((((...((((.(((((.((...((((........(((((.....)))))....---------------.))))..)).)))))..))))...))).)).)))))))... ( -26.72)
>DroSec_CAF1 4244 99 + 1
UUUCACGAGUGGAGCGAGGUCCUCGAGCACUUACAGCUUUAAU-UUCGCCACUCUAGUGGCUUU---------------U-----CGUCCUCGAUUGGCCAUUUUCUCAUUUGGAAAUUC
((((.(((((((((((((((....((((.......))))..))-)))))......(((((((..---------------(-----((....)))..))))))).)).))))))))))... ( -30.70)
>DroSim_CAF1 6324 99 + 1
UUUCACGAGUGGAGCGAGGUCCUCGAGCACUUACAGCUUUAAU-UUCGCCACUCUGGUGGCUUU---------------U-----CGUCCUCGAUUGGCCAUUUUCUCAUUUGGAAAUUC
((((.(((((((((((((((....((((.......))))..))-)))))......(((((((..---------------(-----((....)))..))))))).)).))))))))))... ( -30.60)
>DroYak_CAF1 11728 119 + 1
UUUCACGAUUUGAGCAAGGUCCUUGUGCACUUACGGCUUUAAU-GUCGCCACUUUGGUGGCUUUGGUGGAGAACUGUUUCGUUGCCGCCGUCGAUUGGCAAUUUUCUCAUUGGGAAAUUC
((((.((((..(((((((...)))))((.(...((((......-...(((((....)))))...(((((..(((......))).)))))))))...))).....))..)))).))))... ( -32.20)
>consensus
UUUCACGAGUGGAGCGAGGUCCUCGAGCACUUACAGCUUUAAU_UUCGCCACUCUGGUGGCUUU_______________C_____CGUCCUCGAUUGGCCAUUUUCUCAUUUGGAAAUUC
.....((((((((((.((((.(....).))))...))))))......(((((....)))))............................)))).......((((((......)))))).. (-19.08 = -19.58 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:30:59 2006