Locus 2201

Sequence ID 2L_DroMel_CAF1
Location 5,940,759 – 5,940,860
Length 101
Max. P 0.823764
window3543 window3544

overview

Window 3

Location 5,940,759 – 5,940,860
Length 101
Sequences 4
Columns 101
Reading direction forward
Mean pairwise identity 98.35
Mean single sequence MFE -19.34
Consensus MFE -18.94
Energy contribution -18.94
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.80
Structure conservation index 0.98
SVM decision value 0.38
SVM RNA-class probability 0.712639
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5940759 101 + 22407834
CUUGGGCCACAAAACACAAAAUCGUCUUAAGUAUUUUGUGUGGUUUAAAUAAAGUAAAAAUAAUAAUGCAAAAGUAAAACCCAAUGCCCAGAUGUCCUGCU
.((((((......((((((((((.......).)))))))))(((((.......(((..........))).......)))))....)))))).......... ( -18.94)
>DroSec_CAF1 3437 101 + 1
CUUGGGCCACAAAACACAAAAUCGUCUUAAGUAUUUUGUGUGGUUUAAAUAAAGUAAAAAUAAUAAUGCAAAAGUAAAACCCAGUGCCCAGAUGUCCUGCU
.((((((.((...((((((((((.......).)))))))))(((((.......(((..........))).......)))))..)))))))).......... ( -20.54)
>DroEre_CAF1 3511 101 + 1
CUUGGGCCACAAAACACAAAAUCGUCUUAAGUAUUUUGUGUGGUUUAAAUAAAGUAAAAAUAAUAAUGCAAAAAUAAAACCCAAUGCCCAGAUGUCCGGCU
.((((((......((((((((((.......).)))))))))(((((.......(((..........))).......)))))....)))))).......... ( -18.94)
>DroYak_CAF1 3148 101 + 1
CUUGGGCCACAAAACACAAAAUCGUCUUAAGUAUUUUGUGUGGUUUAAAUAAAGUAAAAAUAAUAAUGCAAAAAUAAAACCCAAUGCCCAGAUGUCCUGCU
.((((((......((((((((((.......).)))))))))(((((.......(((..........))).......)))))....)))))).......... ( -18.94)
>consensus
CUUGGGCCACAAAACACAAAAUCGUCUUAAGUAUUUUGUGUGGUUUAAAUAAAGUAAAAAUAAUAAUGCAAAAAUAAAACCCAAUGCCCAGAUGUCCUGCU
.((((((......((((((((((.......).)))))))))(((((.......(((..........))).......)))))....)))))).......... (-18.94 = -18.94 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 5,940,759 – 5,940,860
Length 101
Sequences 4
Columns 101
Reading direction reverse
Mean pairwise identity 98.35
Mean single sequence MFE -23.31
Consensus MFE -23.31
Energy contribution -23.31
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.94
Structure conservation index 1.00
SVM decision value 0.69
SVM RNA-class probability 0.823764
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5940759 101 - 22407834
AGCAGGACAUCUGGGCAUUGGGUUUUACUUUUGCAUUAUUAUUUUUACUUUAUUUAAACCACACAAAAUACUUAAGACGAUUUUGUGUUUUGUGGCCCAAG
...........(((((....(((((..............................))))).((((((((((..((.....))..))))))))))))))).. ( -23.31)
>DroSec_CAF1 3437 101 - 1
AGCAGGACAUCUGGGCACUGGGUUUUACUUUUGCAUUAUUAUUUUUACUUUAUUUAAACCACACAAAAUACUUAAGACGAUUUUGUGUUUUGUGGCCCAAG
...........(((((....(((((..............................))))).((((((((((..((.....))..))))))))))))))).. ( -23.31)
>DroEre_CAF1 3511 101 - 1
AGCCGGACAUCUGGGCAUUGGGUUUUAUUUUUGCAUUAUUAUUUUUACUUUAUUUAAACCACACAAAAUACUUAAGACGAUUUUGUGUUUUGUGGCCCAAG
...........(((((....(((((..............................))))).((((((((((..((.....))..))))))))))))))).. ( -23.31)
>DroYak_CAF1 3148 101 - 1
AGCAGGACAUCUGGGCAUUGGGUUUUAUUUUUGCAUUAUUAUUUUUACUUUAUUUAAACCACACAAAAUACUUAAGACGAUUUUGUGUUUUGUGGCCCAAG
...........(((((....(((((..............................))))).((((((((((..((.....))..))))))))))))))).. ( -23.31)
>consensus
AGCAGGACAUCUGGGCAUUGGGUUUUACUUUUGCAUUAUUAUUUUUACUUUAUUUAAACCACACAAAAUACUUAAGACGAUUUUGUGUUUUGUGGCCCAAG
...........(((((....(((((..............................))))).((((((((((..((.....))..))))))))))))))).. (-23.31 = -23.31 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:02 2006