Locus 8947

Sequence ID 3R_DroMel_CAF1
Location 23,993,509 – 23,993,599
Length 90
Max. P 0.613366
window14340

overview

Window 0

Location 23,993,509 – 23,993,599
Length 90
Sequences 6
Columns 92
Reading direction reverse
Mean pairwise identity 86.08
Mean single sequence MFE -27.05
Consensus MFE -20.72
Energy contribution -21.17
Covariance contribution 0.45
Combinations/Pair 1.16
Mean z-score -2.29
Structure conservation index 0.77
SVM decision value 0.16
SVM RNA-class probability 0.613366
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23993509 90 - 27905053
AAGAGGCGGCGAUGGUCGG--AAAAGGGGGCGUGGAGACGAACCUCUUAAUUGGAUGCAUGCAGGCAAAAUAACAUGCGAGGCGUGCGCAAA
........((....(((.(--(..((((((..((....))..))))))..)).)))((((((..(((........)))...))))))))... ( -29.00)
>DroSec_CAF1 195042 90 - 1
AAGAGGCGGCGAGGGUCGG--AAAAGGGGGCGUGGAGACGAACCUCUUAAUUGGAUGCAUGCAGGCAAAAUAACAUGCGAGGCGUGCGCAAA
........((....(((.(--(..((((((..((....))..))))))..)).)))((((((..(((........)))...))))))))... ( -29.00)
>DroSim_CAF1 191617 89 - 1
AAGAGGCGGCGAGGGUCGG--AAAAGG-GGCGUGGAGACGAACCUCUUAAUUGGAUGCAUGCAGGCAAAAUAACAUGCGAGGCGUGCGCAAA
........((....(((.(--(.((((-((..((....))..))))))..)).)))((((((..(((........)))...))))))))... ( -28.20)
>DroEre_CAF1 203576 92 - 1
AAGGGGCGGUGGGGGUCGGUGAAAAGGGGGCGUGGAGACGAACCUCUUAAUUGGAUGCAUGCAGGCAAAAUAACAUGCGAGGCGUGCGCAAA
.....((........(((((...((((((...((....))..)))))).)))))..((((((..(((........)))...))))))))... ( -27.50)
>DroWil_CAF1 243835 87 - 1
AUGUGGAGG-GAGGGGGGG--AUA-GU-UCAGUCAGGGCAAACCUCUUAAUUGGAUGCAUGCAGGCAAAAUAACAUGCGAGGCGUGCUCAAA
.....((..-((((((...--...-((-((.....))))...))))))..)).((.((((((..(((........)))...))))))))... ( -22.40)
>DroYak_CAF1 204867 78 - 1
AGGGGGCGG--------------GAGGGGGCGUGGAGACGAACCUCUUAAUUGGAUGCAUGCAGGCAAAAUAACAUGCGAGGCGUGCGCAAA
.....((..--------------((((((...((....))..))))))........((((((..(((........)))...))))))))... ( -26.20)
>consensus
AAGAGGCGGCGAGGGUCGG__AAAAGGGGGCGUGGAGACGAACCUCUUAAUUGGAUGCAUGCAGGCAAAAUAACAUGCGAGGCGUGCGCAAA
.....((................((((((...((....))..))))))........((((((..(((........)))...))))))))... (-20.72 = -21.17 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:23:17 2006