Locus 2999

Sequence ID 3L_DroMel_CAF1
Location 8,622,466 – 8,622,586
Length 120
Max. P 0.516443
window4682

overview

Window 2

Location 8,622,466 – 8,622,586
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 84.28
Mean single sequence MFE -39.80
Consensus MFE -29.10
Energy contribution -28.60
Covariance contribution -0.50
Combinations/Pair 1.37
Mean z-score -1.78
Structure conservation index 0.73
SVM decision value -0.03
SVM RNA-class probability 0.516443
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8622466 120 - 23771897
GGUCGCGAGGAGGACGAGGUCAUGGGAGUGAAGUUCUCCAAGGAGCUUAUCCUGUGCCGGGAGCAAAUUGUGCCCAUGACCAAUCCCAACAUGGAGAUGACACCGAUGCAGGAGAAGCUG
........(((((((....((((....)))).)))))))....(((((.((((((..(((..(((.....)))(((((...........)))))........)))..)))))).))))). ( -42.10)
>DroVir_CAF1 10887 120 - 1
GGCCGCGAGGAGGAUGAGGUCAUGGGCGUUAAGUUCUCCAAGGAGCUUAUUCUGUGCCGAGAGCAAAUUGUGCCCAUGACCAAUCCGAACAUGGAAAUGACGCCAAUGCAGGAGAAGAUA
((((....)..((((..(((((((((((.((((((((....)))))))).....(((.....))).....))))))))))).))))...(((....)))..)))................ ( -42.70)
>DroGri_CAF1 11173 120 - 1
GGUCGUGAGGAGGAUGAGGUUAUGGGUGUCAAGUUCUCCAAGGAGCUCAUCCUGUCGAGGGAUCAAAUUGUGCCCAUGACCAACAACAACAUGGAAAUGACCCCAAUGCAGGAGAAACUA
..((.((.((.((....(((((((((((.(((.(((((..((((.....))))...)))))......))))))))))))))........(((....))).))))....)).))....... ( -36.40)
>DroWil_CAF1 15826 120 - 1
GGACGGGAAGAGGAUGAGGUUAUGGGUGUUAAAUUCUCAAAGGAAUUGAUACUAUCACGUGAGCAAAUUGUACCCAUGACCAAUCCGAAUAUGGAAAUGACUCCAAUGCAAGAGAAACUU
...........((((..(((((((((((...((((((((...((..........))...))))..)))).))))))))))).)))).....((((......))))............... ( -30.10)
>DroMoj_CAF1 11545 120 - 1
GGCCGCGAAGAGGACGAGGUCAUGGGCGUCAAGUUCUCCAAGGAGCUGAUCCUGUCGCGGGAGCAAAUUGUGCCCAUGACGAAUCCAAACAUGGAAAUGACGCCCAUGCAGGAGAAACUG
((((.((.......)).))))((((((((((((((((....)))))).....(((((.(((.((.....)).))).)))))..((((....))))..)))))))))).(((......))) ( -45.30)
>DroAna_CAF1 10712 120 - 1
GGCCGCGAGGAGGAUGAGGUCAUGGGGGUCAAGUUCUCAAAGGAACUGAUCCUCUCCAGGGAGCAAAUCGUCCCGAUGACCAACCCCAACAUGGAGAUGACGCCCAUGCAGGAGAAGCUG
((((....)).......((((((((((((((.(((((....)))))))))))))....((((........)))).))))))..))((..(((((.(......))))))..))........ ( -42.20)
>consensus
GGCCGCGAGGAGGAUGAGGUCAUGGGCGUCAAGUUCUCCAAGGAGCUGAUCCUGUCCCGGGAGCAAAUUGUGCCCAUGACCAAUCCCAACAUGGAAAUGACGCCAAUGCAGGAGAAACUG
(((........((((..(((((((((((...((((((....))))))..(((......))).........))))))))))).))))...(((....)))..)))................ (-29.10 = -28.60 +  -0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:47:05 2006