Locus 7388

Sequence ID X_DroMel_CAF1
Location 18,394,175 – 18,394,290
Length 115
Max. P 0.778432
window12110 window12111

overview

Window 0

Location 18,394,175 – 18,394,290
Length 115
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 92.11
Mean single sequence MFE -27.14
Consensus MFE -23.21
Energy contribution -23.21
Covariance contribution 0.00
Combinations/Pair 1.08
Mean z-score -1.79
Structure conservation index 0.85
SVM decision value -0.05
SVM RNA-class probability 0.507084
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18394175 115 + 22224390
AUAACAUCGAACGAACCAACGGCGACAACAAAACGACACAAGGCAUAAAACAACUUAAUAAAAAUUCCACUGCUGUGUCGUACAUCGUUGGCAUUAUCGCUCGAAAUGGUGAAGG-----
......((((.(((.((((((....)......((((((((..(((.........................))))))))))).....))))).....))).))))...........----- ( -24.11)
>DroSim_CAF1 19544 115 + 1
AUAACAGCGAACGAACCAACGGCGACAACAAAACGACACAAGGCAUAAAACAACUUAAUAAAAAUUCCACUGCUGUGUCGUACAUCGUUGGCAUUAUCGCUCGAAAUGGCGAAGG-----
......((.(((((......(....)......((((((((..(((.........................)))))))))))...))))).))....(((((......)))))...----- ( -27.11)
>DroYak_CAF1 36740 120 + 1
AUAACAGCGAGCGAACCAACGACGGCAACAAAACGACACAAGGCAUAAAACAACUUAAUAAAAAUUCCACUGCUGUGUCGUACAUCGUUGGCAUUAUCGUUGCAAAUGGUGAAAGGGGGG
....((((((.....(((((((.(....)...((((((((..(((.........................)))))))))))...))))))).....)))))).................. ( -30.21)
>consensus
AUAACAGCGAACGAACCAACGGCGACAACAAAACGACACAAGGCAUAAAACAACUUAAUAAAAAUUCCACUGCUGUGUCGUACAUCGUUGGCAUUAUCGCUCGAAAUGGUGAAGG_____
.....(((((.....(((((((.(....)...((((((((..(((.........................)))))))))))...))))))).....)))))................... (-23.21 = -23.21 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 18,394,175 – 18,394,290
Length 115
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 92.11
Mean single sequence MFE -33.47
Consensus MFE -28.53
Energy contribution -29.53
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -2.28
Structure conservation index 0.85
SVM decision value 0.55
SVM RNA-class probability 0.778432
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18394175 115 - 22224390
-----CCUUCACCAUUUCGAGCGAUAAUGCCAACGAUGUACGACACAGCAGUGGAAUUUUUAUUAAGUUGUUUUAUGCCUUGUGUCGUUUUGUUGUCGCCGUUGGUUCGUUCGAUGUUAU
-----...........((((((((....(((((((.((.(((((((((((.((((((..((....))..)))))))))..))))))))........)).)))))))))))))))...... ( -34.70)
>DroSim_CAF1 19544 115 - 1
-----CCUUCGCCAUUUCGAGCGAUAAUGCCAACGAUGUACGACACAGCAGUGGAAUUUUUAUUAAGUUGUUUUAUGCCUUGUGUCGUUUUGUUGUCGCCGUUGGUUCGUUCGCUGUUAU
-----............(((((((....(((((((.((.(((((((((((.((((((..((....))..)))))))))..))))))))........)).))))))))))))))....... ( -32.50)
>DroYak_CAF1 36740 120 - 1
CCCCCCUUUCACCAUUUGCAACGAUAAUGCCAACGAUGUACGACACAGCAGUGGAAUUUUUAUUAAGUUGUUUUAUGCCUUGUGUCGUUUUGUUGCCGUCGUUGGUUCGCUCGCUGUUAU
.................(((.(((....((((((((((.(((((((((((.((((((..((....))..)))))))))..))))))))........))))))))))....))).)))... ( -33.20)
>consensus
_____CCUUCACCAUUUCGAGCGAUAAUGCCAACGAUGUACGACACAGCAGUGGAAUUUUUAUUAAGUUGUUUUAUGCCUUGUGUCGUUUUGUUGUCGCCGUUGGUUCGUUCGCUGUUAU
.................(((((((....(((((((.((.(((((((((((.((((((..((....))..)))))))))..))))))))........)).))))))))))))))....... (-28.53 = -29.53 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:37:40 2006