Locus 7829

Sequence ID 3R_DroMel_CAF1
Location 20,978,845 – 20,978,940
Length 95
Max. P 0.524071
window12621

overview

Window 1

Location 20,978,845 – 20,978,940
Length 95
Sequences 5
Columns 97
Reading direction reverse
Mean pairwise identity 78.15
Mean single sequence MFE -25.80
Consensus MFE -15.10
Energy contribution -17.50
Covariance contribution 2.40
Combinations/Pair 1.00
Mean z-score -1.68
Structure conservation index 0.59
SVM decision value -0.02
SVM RNA-class probability 0.524071
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20978845 95 - 27905053
CACCGCCCUGGACCAGCCCGGACCACCACCAACCCACCACCC-ACUCCGGUGGUCGUGGCAAUUGCCCACGACGAGUCCGA-GGUCCCCAAACGCGC
...(((..(((....(((((((((.............((((.-.....))))((((((((....).)))))))).))))).-)))..)))...))). ( -34.50)
>DroPse_CAF1 29880 76 - 1
--------U-------------CCACAAUCCACACUCCACACUCCUACAAUGGCCGUGGCAAUUGCCCACGACGAGUCCGAUGGUCCCCAAACGCGC
--------.-------------..((.(((...((((......((......)).((((((....).)))))..))))..))).))............ ( -12.30)
>DroSec_CAF1 18827 95 - 1
CGCCGCCCUGGACCAGCCCGGACCACCACCAACCCACCACCC-ACUCCGGUGGUCGUGGCAAUUGCCCACGACGAGUCCGA-GGUCCCCAAACGCGC
(((......(((((....((((((.............((((.-.....))))((((((((....).)))))))).))))).-)))))......))). ( -35.40)
>DroSim_CAF1 18981 95 - 1
CACCGCCCUGGACCAGCCCGGACCACCACCAACCCACCACCC-ACUCCGGUGGUCGUGGCAAUUGCCCACGACGAGUCCGA-GGUCCCCAAACGCGC
...(((..(((....(((((((((.............((((.-.....))))((((((((....).)))))))).))))).-)))..)))...))). ( -34.50)
>DroPer_CAF1 29400 76 - 1
--------U-------------CCACAAUCCACACUCCACACUCCUACAAUGGCCGUGGCAAUUGCCCACGACGAGUCCGAUGGUCCCCAAACGCGC
--------.-------------..((.(((...((((......((......)).((((((....).)))))..))))..))).))............ ( -12.30)
>consensus
C_CCGCCCUGGACCAGCCCGGACCACCACCAACCCACCACCC_ACUCCGGUGGUCGUGGCAAUUGCCCACGACGAGUCCGA_GGUCCCCAAACGCGC
...................(((((.............((((.......))))((((((((....).))))))).........))))).......... (-15.10 = -17.50 +   2.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:55:43 2006