Locus 5078

Sequence ID X_DroMel_CAF1
Location 13,276,256 – 13,276,382
Length 126
Max. P 0.558110
window8252 window8253

overview

Window 2

Location 13,276,256 – 13,276,347
Length 91
Sequences 4
Columns 92
Reading direction forward
Mean pairwise identity 89.47
Mean single sequence MFE -23.76
Consensus MFE -16.60
Energy contribution -17.85
Covariance contribution 1.25
Combinations/Pair 1.16
Mean z-score -1.73
Structure conservation index 0.70
SVM decision value 0.04
SVM RNA-class probability 0.553178
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13276256 91 + 22224390
UUCGCCGGCUAAAUCGUUGCAAAAUUUUUGUUUGUUUGUUUGCCUAGCUUCGAUUGAAGCCAGUGAGUG-AUUCAAUCGGUUUGUGGACUUU
(((((.(((.((((....(((((.......)))))..))))))).....(((((((((..((.....))-.)))))))))...))))).... ( -19.00)
>DroSec_CAF1 21688 92 + 1
UUCACUGGCUAAAUCGUGGCAAAAUUUUUGUUUGUUUUUUUGCCAAGCUUCGAUUGAAGCCAGUGAGUGGAUUCAAUCGGUUUGUGGACUUU
.(((((((((.(((((((((((((.............)))))))).....)))))..)))))))))(..((((.....))))..)....... ( -28.62)
>DroSim_CAF1 21037 92 + 1
UUCGCAGGCUAAAUCGUUGCAAAAUGUUUGUUUGUUUGUUUGCCAAGCUUCGAUUGAAGCCAGUGAGUGGAUUCAAUCGGUUUGUGGACUUU
...((((((.(((.((((....)))))))))))))..(((..(.((((..((((((((.(((.....))).)))))))))))))..)))... ( -25.30)
>DroEre_CAF1 22419 86 + 1
UUUGCAGACCAAAUCGUUGAAA-AUUUGUGUUUGUUUGUUUGCCUAGCUUCGAUUGAAGCCCGUG-----AUUCAAUCGGUUUGUGGACUUU
...(((((((((((........-))))).))))))..(((..(..(((..((((((((.......-----.))))))))))).)..)))... ( -22.10)
>consensus
UUCGCAGGCUAAAUCGUUGCAAAAUUUUUGUUUGUUUGUUUGCCAAGCUUCGAUUGAAGCCAGUGAGUG_AUUCAAUCGGUUUGUGGACUUU
((((((((((...................(((((.........)))))...(((((((.(((.....))).))))))))))))))))).... (-16.60 = -17.85 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 13,276,291 – 13,276,382
Length 91
Sequences 4
Columns 92
Reading direction reverse
Mean pairwise identity 93.10
Mean single sequence MFE -18.07
Consensus MFE -14.21
Energy contribution -15.78
Covariance contribution 1.56
Combinations/Pair 1.04
Mean z-score -1.73
Structure conservation index 0.79
SVM decision value 0.05
SVM RNA-class probability 0.558110
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13276291 91 - 22224390
UGUUAGCAAGUUUUCUAUAAGAAUUUAAGUACUCCAAAGUCCACAAACCGAUUGAAU-CACUCACUGGCUUCAAUCGAAGCUAGGCAAACAA
((((.(((((((((.....)))))))...............................-......((((((((....)))))))))).)))). ( -17.40)
>DroSec_CAF1 21723 92 - 1
UGUUAGCAAGUUUUCUAUAAGAAUUUAAGUACUGCAAAGUCCACAAACCGAUUGAAUCCACUCACUGGCUUCAAUCGAAGCUUGGCAAAAAA
......(((((((...............(.(((....))).)......((((((((.(((.....))).)))))))))))))))........ ( -19.40)
>DroSim_CAF1 21072 92 - 1
UGUUAGCAAGUUUUCUAUAAGAAUUUAAGUACUUCAAAGUCCACAAACCGAUUGAAUCCACUCACUGGCUUCAAUCGAAGCUUGGCAAACAA
((((.((((((((...............(.(((....))).)......((((((((.(((.....))).)))))))))))))).)).)))). ( -20.80)
>DroEre_CAF1 22453 87 - 1
UGUUAGUAAGUUUUCUAUAAGAGUUUAAGUACUACAAAGUCCACAAACCGAUUGAAU-----CACGGGCUUCAAUCGAAGCUAGGCAAACAA
((((.((.(((((.........((((..(.(((....))).)..))))((((((((.-----.......)))))))))))))..)).)))). ( -14.70)
>consensus
UGUUAGCAAGUUUUCUAUAAGAAUUUAAGUACUACAAAGUCCACAAACCGAUUGAAU_CACUCACUGGCUUCAAUCGAAGCUAGGCAAACAA
((((.((((((((...............(.(((....))).)......((((((((.(((.....))).)))))))))))))).)).)))). (-14.21 = -15.78 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:30 2006