Locus 1520

Sequence ID 2R_DroMel_CAF1
Location 5,757,983 – 5,758,077
Length 94
Max. P 0.947305
window2568 window2569

overview

Window 8

Location 5,757,983 – 5,758,077
Length 94
Sequences 3
Columns 110
Reading direction forward
Mean pairwise identity 86.06
Mean single sequence MFE -23.50
Consensus MFE -17.06
Energy contribution -17.72
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -2.17
Structure conservation index 0.73
SVM decision value 0.30
SVM RNA-class probability 0.677205
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5757983 94 + 20766785
UCAGGAUACCAAAUAUGUCUCCUUAAUACCUUUGGGUAUUAAUUGGCACUAAUUACAAGUCGACUAAGUACCAAGCC----------------AUCCUGCAAUUUGAUGC
.((((((...............((((((((....))))))))((((.(((................))).))))...----------------))))))........... ( -18.39)
>DroSec_CAF1 48364 110 + 1
UAAGGAUACCAAAUAUGUCUCCUUAAUACCUUUAGGUAUUAAUUGGCACUAAUUACAAGUCGACUAAGUGCCCAACCAUGUCGAUAAUCCUGCAUCCUGCAAUUUGAUGC
..(((((........((((...((((((((....))))))))..))))..........((((((...((.....))...)))))).)))))(((((.........))))) ( -27.90)
>DroSim_CAF1 49252 110 + 1
UAAGGAUACCAAAUAUGUCUCCUUAAUACCUUUAGGUACUAAUUGGCACUAAUUACAAGUCGACUAAGUGCCCAACCAUGUCGAUAAUCCUGCAUCCUGGAAUUUGAUGC
..(((((........((((...(((.((((....)))).)))..))))..........((((((...((.....))...)))))).)))))(((((.........))))) ( -24.20)
>consensus
UAAGGAUACCAAAUAUGUCUCCUUAAUACCUUUAGGUAUUAAUUGGCACUAAUUACAAGUCGACUAAGUGCCCAACCAUGUCGAUAAUCCUGCAUCCUGCAAUUUGAUGC
..(((((...............((((((((....))))))))..((((((................)))))).....................)))))............ (-17.06 = -17.72 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 5,757,983 – 5,758,077
Length 94
Sequences 3
Columns 110
Reading direction reverse
Mean pairwise identity 86.06
Mean single sequence MFE -30.90
Consensus MFE -24.90
Energy contribution -25.46
Covariance contribution 0.56
Combinations/Pair 1.08
Mean z-score -2.89
Structure conservation index 0.81
SVM decision value 1.37
SVM RNA-class probability 0.947305
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5757983 94 - 20766785
GCAUCAAAUUGCAGGAU----------------GGCUUGGUACUUAGUCGACUUGUAAUUAGUGCCAAUUAAUACCCAAAGGUAUUAAGGAGACAUAUUUGGUAUCCUGA
...((((((((((((.(----------------((((........))))).))))))))).(((((((((((((((....))))))))(....)....)))))))..))) ( -28.90)
>DroSec_CAF1 48364 110 - 1
GCAUCAAAUUGCAGGAUGCAGGAUUAUCGACAUGGUUGGGCACUUAGUCGACUUGUAAUUAGUGCCAAUUAAUACCUAAAGGUAUUAAGGAGACAUAUUUGGUAUCCUUA
(((......)))((((((((((....(((((..(((.....)))..))))))))))).....((((((((((((((....))))))))(....)....)))))))))).. ( -32.40)
>DroSim_CAF1 49252 110 - 1
GCAUCAAAUUCCAGGAUGCAGGAUUAUCGACAUGGUUGGGCACUUAGUCGACUUGUAAUUAGUGCCAAUUAGUACCUAAAGGUAUUAAGGAGACAUAUUUGGUAUCCUUA
(((((.........)))))(((((.(((((....(((.((((((................))))))..((((((((....))))))))...)))....)))))))))).. ( -31.39)
>consensus
GCAUCAAAUUGCAGGAUGCAGGAUUAUCGACAUGGUUGGGCACUUAGUCGACUUGUAAUUAGUGCCAAUUAAUACCUAAAGGUAUUAAGGAGACAUAUUUGGUAUCCUUA
(((......)))(((((((...................((((((................))))))..((((((((....))))))))(....).......))))))).. (-24.90 = -25.46 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:43 2006