Locus 3342

Sequence ID 3L_DroMel_CAF1
Location 9,813,962 – 9,814,082
Length 120
Max. P 0.867916
window5193

overview

Window 3

Location 9,813,962 – 9,814,082
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.64
Mean single sequence MFE -25.94
Consensus MFE -21.02
Energy contribution -20.78
Covariance contribution -0.24
Combinations/Pair 1.03
Mean z-score -1.83
Structure conservation index 0.81
SVM decision value 0.86
SVM RNA-class probability 0.867916
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9813962 120 + 23771897
AUUUUCAUUUCGCUACUCAUCAUCCCGCCGAUACUUAACUUAGGCUAGGCUUUAAAAAAUCUUAGCAGUUUCUGAGUUUUUAGUAGUUUAGGCUUAUAAAGUUAUCAGUUUUCAGUGGUU
........................((((.((.(((((((((((.((((((((((((((..(((((......)))))))))))).))))))).))....))))))..)))..)).)))).. ( -25.30)
>DroSec_CAF1 108093 120 + 1
AUUUUCAUUUCUCUACUCAUCAUCGCGCCGAUACUUAACUUAGGCUAGGCUUUAAAAAAUCUUAGCAGUUUCUGAGUUUUUAGUAGUUUAGGCUUAUAAAGUUAUCAGUUUUCAGUGGUU
.....................(((((...((.(((((((((((.((((((((((((((..(((((......)))))))))))).))))))).))....))))))..)))..)).))))). ( -22.70)
>DroSim_CAF1 111427 120 + 1
AUUUUCAUUUCUCUACUCAUCAUCGCGCCGAUACUUAACUUAGGCUAGGCUUUAAAAAAUCUUAGCAGUUUCUGAGUUUUUAGUAGUUUAGGCUUAUAAAGUUAUCAGUUUUCAGUGGUU
.....................(((((...((.(((((((((((.((((((((((((((..(((((......)))))))))))).))))))).))....))))))..)))..)).))))). ( -22.70)
>DroEre_CAF1 110953 114 + 1
------AUUUCGCUACUCAUCAUUGCGCUGAUACUUAACUUAGGCUAGGCUUUAAAAAAUCUUAGCAGUUUCUGAGUUUUUAGUAGUUUAGGCUUAUAAAGUUAUCAGUUUUCAAUGGUU
------............(((((((.((((((((((.....((.((((((((((((((..(((((......)))))))))))).))))))).))....))).)))))))...))))))). ( -29.50)
>DroYak_CAF1 121014 114 + 1
------AUUUCGCUACUCAUCAUUGCGCUGAUACUUAACUUAGGCUAGGCUUUAAAAAAUCUUAGCAGUUUCUGAGUUUUUAGUAGUUUAGGCUUAUAAAGUUAUCAGUUUUCAAUGGUU
------............(((((((.((((((((((.....((.((((((((((((((..(((((......)))))))))))).))))))).))....))).)))))))...))))))). ( -29.50)
>consensus
AUUUUCAUUUCGCUACUCAUCAUCGCGCCGAUACUUAACUUAGGCUAGGCUUUAAAAAAUCUUAGCAGUUUCUGAGUUUUUAGUAGUUUAGGCUUAUAAAGUUAUCAGUUUUCAGUGGUU
..................(((((...((.(((((((.....((.((((((((((((((..(((((......)))))))))))).))))))).))....))).)))).)).....))))). (-21.02 = -20.78 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:15 2006