Locus 7058

Sequence ID 2L_DroMel_CAF1
Location 19,762,765 – 19,762,856
Length 91
Max. P 0.523327
window11256 window11257

overview

Window 6

Location 19,762,765 – 19,762,856
Length 91
Sequences 5
Columns 91
Reading direction forward
Mean pairwise identity 82.75
Mean single sequence MFE -16.77
Consensus MFE -11.76
Energy contribution -11.04
Covariance contribution -0.72
Combinations/Pair 1.42
Mean z-score -1.54
Structure conservation index 0.70
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19762765 91 + 22407834
CCUGCUCGAAAUGCCUUUUGACAAUUUAAUUGCUAACUCAAAUAUUGCAUUGUCUAAAAGCUGGAAAACUUGAGCAACUCUUUUUCGCUCU
..(((((((....((((((((((((.((((.............)))).)))))).))))...)).....)))))))............... ( -15.22)
>DroSec_CAF1 29095 91 + 1
UCUGCUCAAAAUGCCUUUUGACAAUUUAGUUGCUAACUCAAAUAUUUCAUUGUCUAAAAGUUGGAAAACUUGAGCAGCUCUUUGUCGUUCU
...((.......)).....(((((...(((((((....(((........))).....(((((....))))).)))))))..)))))..... ( -17.70)
>DroSim_CAF1 28193 91 + 1
UCUGCUCAAAAUGCCUUUUGACAAUUUAGUUGCUAACUCAAAUAUUUCAUUGUCUAAAAGUUGGAAAACUUGAGCAGCUCUUUUUCUUUCU
.((((((............((((((..(((.............)))..))))))...(((((....))))))))))).............. ( -17.62)
>DroEre_CAF1 30582 91 + 1
UCUGUUCGAAAUGCCUUUUGACAAUUUAAUUACUAACUCAAAUAUUUCAUUGUUUCAAGGCUGGAGAACUUGAAUAGUUCUUUUUCAUUCU
.......((((.(((((..((((((..(((.............)))..))))))..)))))..(((((((.....)))))))))))..... ( -18.82)
>DroYak_CAF1 32618 88 + 1
UCCCUUUGAAAUGCCUUUUGGCAAUUUAAUUACUAACAAAAAGA---CAUUGUUUUAACGCUGGAGAACUCGAACAGAAAUUUGUUGUUCU
(((..(((((.((((....)))).))))).....(((((.....---..)))))........)))......((((((.......)))))). ( -14.50)
>consensus
UCUGCUCGAAAUGCCUUUUGACAAUUUAAUUGCUAACUCAAAUAUUUCAUUGUCUAAAAGCUGGAAAACUUGAGCAGCUCUUUUUCGUUCU
.((((((((....((....((((((..(((.............)))..))))))........)).....)))))))).............. (-11.76 = -11.04 +  -0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 19,762,765 – 19,762,856
Length 91
Sequences 5
Columns 91
Reading direction reverse
Mean pairwise identity 82.75
Mean single sequence MFE -18.40
Consensus MFE -11.46
Energy contribution -12.98
Covariance contribution 1.52
Combinations/Pair 1.24
Mean z-score -1.76
Structure conservation index 0.62
SVM decision value -0.02
SVM RNA-class probability 0.523327
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19762765 91 - 22407834
AGAGCGAAAAAGAGUUGCUCAAGUUUUCCAGCUUUUAGACAAUGCAAUAUUUGAGUUAGCAAUUAAAUUGUCAAAAGGCAUUUCGAGCAGG
.((((((.......))))))..((((....((((((.((((((....((.(((......))).)).)))))).)))))).....))))... ( -20.50)
>DroSec_CAF1 29095 91 - 1
AGAACGACAAAGAGCUGCUCAAGUUUUCCAACUUUUAGACAAUGAAAUAUUUGAGUUAGCAACUAAAUUGUCAAAAGGCAUUUUGAGCAGA
..............(((((((((........(((((.((((((....((.(((......))).)).)))))))))))....))))))))). ( -20.10)
>DroSim_CAF1 28193 91 - 1
AGAAAGAAAAAGAGCUGCUCAAGUUUUCCAACUUUUAGACAAUGAAAUAUUUGAGUUAGCAACUAAAUUGUCAAAAGGCAUUUUGAGCAGA
..............(((((((((........(((((.((((((....((.(((......))).)).)))))))))))....))))))))). ( -20.10)
>DroEre_CAF1 30582 91 - 1
AGAAUGAAAAAGAACUAUUCAAGUUCUCCAGCCUUGAAACAAUGAAAUAUUUGAGUUAGUAAUUAAAUUGUCAAAAGGCAUUUCGAACAGA
....(((((.((((((.....))))))...(((((...(((((....((((......)))).....)))))...))))).)))))...... ( -17.80)
>DroYak_CAF1 32618 88 - 1
AGAACAACAAAUUUCUGUUCGAGUUCUCCAGCGUUAAAACAAUG---UCUUUUUGUUAGUAAUUAAAUUGCCAAAAGGCAUUUCAAAGGGA
.(((((.........)))))......(((...((....))((((---((((((.((.(((......))))).)))))))))).....))). ( -13.50)
>consensus
AGAACGAAAAAGAGCUGCUCAAGUUUUCCAGCUUUUAGACAAUGAAAUAUUUGAGUUAGCAAUUAAAUUGUCAAAAGGCAUUUCGAGCAGA
..............(((((((((.......((((((.((((((.......................)))))).))))))..))))))))). (-11.46 = -12.98 +   1.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:26:19 2006