Locus 2070

Sequence ID 3R_DroMel_CAF1
Location 5,889,728 – 5,889,844
Length 116
Max. P 0.535099
window3379

overview

Window 9

Location 5,889,728 – 5,889,844
Length 116
Sequences 4
Columns 116
Reading direction forward
Mean pairwise identity 88.65
Mean single sequence MFE -30.90
Consensus MFE -26.00
Energy contribution -27.75
Covariance contribution 1.75
Combinations/Pair 1.17
Mean z-score -1.37
Structure conservation index 0.84
SVM decision value 0.00
SVM RNA-class probability 0.535099
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5889728 116 + 27905053
AUGAAAUUCGUUCGGCUUUCGAUAUUUUUUCCGCUAUUUUACAUAGUAAAUGGCAAUGGAACUGACCAUAAAUCCUUGUGGGAUGACGACGAGGACAAUGAAGUUCAGGUAUUAAG
..((((..(....)..))))(((((((.....(((((((........)))))))....(((((...(((...(((((((.(.....).)))))))..))).))))))))))))... ( -27.80)
>DroSim_CAF1 14443 116 + 1
AUGAAUUUCGUUCGGCUUUUGAUAUUUUUUCCGCUGUUUUACAUAGUAAAUGGCAAUGCAACUAACCAUAAAUCCUUGUGGGAUGACGACGAGGAGAAUGAAGCUCAGGUAUUAUG
.(((.((((((((.((....((.......)).(((((((........)))))))...)).............(((((((.(.....).))))))))))))))).)))......... ( -27.50)
>DroEre_CAF1 13625 116 + 1
AUGAACUUCGUUCGGCUGGCGUUAUUUUUUCCGCUAUUUUACAUAGUAAAUGGCAACGCAACUAGCCAUAAAUCCUUGUGGGAUGACGAUGACGAGGAUGAAGCUCAGGUAUUAUG
.(((.((((....((((((((((.........(((((((........))))))))))))...)))))....((((((((.(........).)))))))))))).)))......... ( -32.80)
>DroYak_CAF1 13871 116 + 1
AUGAACUUCGUUCGGCUGUCGUUAUUUUUUCCGCUAUUUUAUAUAGUAAAUGGCAAUGCAACUGCUCAUAAAUCCCUGUGGGAUGAGGACGUCGAGGAUGAAGUUCAGGUACUGUG
.(((((((((((((((.(((.((((.......(((((((........)))))))..........((((((......)))))))))).))))))))..))))))))))......... ( -35.50)
>consensus
AUGAACUUCGUUCGGCUGUCGAUAUUUUUUCCGCUAUUUUACAUAGUAAAUGGCAAUGCAACUAACCAUAAAUCCUUGUGGGAUGACGACGACGAGAAUGAAGCUCAGGUAUUAUG
.((((((((((((...((((((((((......(((((((........)))))))...........((((((....))))))))))))))))....))))))))))))......... (-26.00 = -27.75 +   1.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:26:33 2006