Locus 3009

Sequence ID X_DroMel_CAF1
Location 8,037,675 – 8,037,768
Length 93
Max. P 0.671680
window4929 window4930

overview

Window 9

Location 8,037,675 – 8,037,768
Length 93
Sequences 3
Columns 93
Reading direction forward
Mean pairwise identity 85.61
Mean single sequence MFE -20.54
Consensus MFE -15.67
Energy contribution -16.23
Covariance contribution 0.56
Combinations/Pair 1.11
Mean z-score -2.02
Structure conservation index 0.76
SVM decision value 0.29
SVM RNA-class probability 0.671680
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8037675 93 + 22224390
AGAGAAACAAGUUGUAGUUAACUGUAUAUGUACACCAACGCGAAUGCGGAUGAGCACAAGUUGGCCAAAAUUAAAUUUGGCCUAAAUUUACUU
.(((....((.((((.(((..((((((.(((........))).))))))...))))))).))(((((((......)))))))........))) ( -21.70)
>DroSec_CAF1 11311 85 + 1
AGA-------GUUGAAGUUAACUGUAUUUGUAUACCAACGCGAAUGCGGAUGAGCAUAAGUUGGCCAAAAUUAA-CUUGGCUUAAAUUUAUUU
.((-------(((........((((((((((........)))))))))).(((((.((((((((......))))-)))))))))))))).... ( -21.10)
>DroSim_CAF1 606 92 + 1
AGAGAAACAAGUUGAAGCUAACUGUAUUUGUAUACCAACGCGAAUGAAGAUGAACAUAAGUUGGCCAAAAUUAA-CUUGGCUUAACUUUAUUU
.(((...((((((((.(((((((.(((((((........)))))))............))))))).....))))-)))).))).......... ( -18.82)
>consensus
AGAGAAACAAGUUGAAGUUAACUGUAUUUGUAUACCAACGCGAAUGCGGAUGAGCAUAAGUUGGCCAAAAUUAA_CUUGGCUUAAAUUUAUUU
................(((..((((((((((........))))))))))...))).......((((((........))))))........... (-15.67 = -16.23 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 8,037,675 – 8,037,768
Length 93
Sequences 3
Columns 93
Reading direction reverse
Mean pairwise identity 85.61
Mean single sequence MFE -17.87
Consensus MFE -12.73
Energy contribution -12.40
Covariance contribution -0.33
Combinations/Pair 1.17
Mean z-score -1.95
Structure conservation index 0.71
SVM decision value 0.06
SVM RNA-class probability 0.564338
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8037675 93 - 22224390
AAGUAAAUUUAGGCCAAAUUUAAUUUUGGCCAACUUGUGCUCAUCCGCAUUCGCGUUGGUGUACAUAUACAGUUAACUACAACUUGUUUCUCU
((((.......(((((((......)))))))((((((((..(((((((....)))..))))..))))...)))).......))))........ ( -22.50)
>DroSec_CAF1 11311 85 - 1
AAAUAAAUUUAAGCCAAG-UUAAUUUUGGCCAACUUAUGCUCAUCCGCAUUCGCGUUGGUAUACAAAUACAGUUAACUUCAAC-------UCU
...............(((-(((((((((((((((..((((......))))....))))))...))))....))))))))....-------... ( -15.80)
>DroSim_CAF1 606 92 - 1
AAAUAAAGUUAAGCCAAG-UUAAUUUUGGCCAACUUAUGUUCAUCUUCAUUCGCGUUGGUAUACAAAUACAGUUAGCUUCAACUUGUUUCUCU
.....(((((((((((((-.....))))((((((..(((........)))....))))))...............)))).)))))........ ( -15.30)
>consensus
AAAUAAAUUUAAGCCAAG_UUAAUUUUGGCCAACUUAUGCUCAUCCGCAUUCGCGUUGGUAUACAAAUACAGUUAACUUCAACUUGUUUCUCU
............((((((......))))))((((..((((......))))....))))((((....))))....................... (-12.73 = -12.40 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:52 2006