Locus 594

Sequence ID 3R_DroMel_CAF1
Location 2,202,761 – 2,202,865
Length 104
Max. P 0.988896
window946

overview

Window 6

Location 2,202,761 – 2,202,865
Length 104
Sequences 5
Columns 104
Reading direction forward
Mean pairwise identity 92.69
Mean single sequence MFE -39.00
Consensus MFE -34.32
Energy contribution -33.64
Covariance contribution -0.68
Combinations/Pair 1.14
Mean z-score -1.88
Structure conservation index 0.88
SVM decision value 2.14
SVM RNA-class probability 0.988896
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2202761 104 + 27905053
GCGGGCUGAGAUGUUCCAUGGUCGCCGGAAGAUCGUGGUCAUAUCCAGCAAUCACGAGGUGGAUGAUGACCGCGUGCAACAGGAAGGCGCAGAAGGCGACGCAA
((((((......))))....((((((........(((((((((((((.(........).))))).))))))))((((.........))))....)))))))).. ( -42.00)
>DroSec_CAF1 1996 104 + 1
GCGGGCUGAGAUGUUCCAUGGUCGCCGGAAGAUCGUGGUCAUAUCCAGCAACCAUGAGGUGGAUGAUGACCGCGUGCAGCAGGAAGGCGCAGAAGCCGACUCAA
....((((.(((.((((.........)))).)))(((((((((((((.(........).))))).))))))))...)))).((..(((......)))..))... ( -39.50)
>DroSim_CAF1 1981 104 + 1
GCGGGCUGAGAUGUUCCAUGGUCGCCGGAAGAUCGUGGUCAUAUCCAGCAACCAUGAGGUGGAUGAUGACCGCGUGCAGCAGGAAGGCGCAGAAGCCGACUCAA
....((((.(((.((((.........)))).)))(((((((((((((.(........).))))).))))))))...)))).((..(((......)))..))... ( -39.50)
>DroEre_CAF1 1826 104 + 1
GCGGGCUGAGAUGUUUCAUGGUCGCCGAAAGAUCGUGGUCAUAUCCAGCAAUCAUGAGGUGGAAGAUGACCGCGUGCAGCAGGAAGGUGGACAAGCCGAGUCAA
...((((..(((.((((.........)))).)))((((((((.((((.(........).))))..))))))))((.((.(.....).)).)).))))....... ( -33.90)
>DroYak_CAF1 1234 104 + 1
GCGGGCUGAGAUGUUUCAUGGUCGCCGCAAGAUCGUGGUCAUAUCCAGCAAUCACGAGGUGGAAGAUGACCGCGUGCAGCAAGAAGGCGGUCAAGCCGAAGCAA
((.((((..((....)).((..((((((.....(((((((((.((((.(........).))))..)))))))))....)).....))))..))))))...)).. ( -40.10)
>consensus
GCGGGCUGAGAUGUUCCAUGGUCGCCGGAAGAUCGUGGUCAUAUCCAGCAAUCAUGAGGUGGAUGAUGACCGCGUGCAGCAGGAAGGCGCAGAAGCCGACUCAA
((((((((.(((((.((((((((.......))))))))..)))))))))..((((...)))).......))))............(((......)))....... (-34.32 = -33.64 +  -0.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:46:58 2006