Locus 309

Sequence ID 3R_DroMel_CAF1
Location 1,195,653 – 1,195,760
Length 107
Max. P 0.818028
window522

overview

Window 2

Location 1,195,653 – 1,195,760
Length 107
Sequences 5
Columns 107
Reading direction forward
Mean pairwise identity 93.46
Mean single sequence MFE -48.02
Consensus MFE -46.12
Energy contribution -45.80
Covariance contribution -0.32
Combinations/Pair 1.18
Mean z-score -1.19
Structure conservation index 0.96
SVM decision value 0.67
SVM RNA-class probability 0.818028
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1195653 107 + 27905053
UCCGCCAUCCGUUCAGGCGGACCACAUCACGUGCAGCCGGGGUCCGCGGGAGCAGCCGCCUGCCCUGGAGACCCGCUGCACCUGUCGCGAGAAGCCCGCCAAGACGG
........(((((..(((((.......((.(((((((..(((((..((((.((((....))))))))..)))))))))))).))((....))...)))))..))))) ( -52.40)
>DroSec_CAF1 9726 107 + 1
UCCGCCAUCCGUUCAGGCGGACCACAUCACGUGCAGUCGGGGUCCGCGGGAGCAGCCGCCUGCCCUGGAGACCCGCUGCACCUGUCGCGAGAAGCCCGUCAAGACGG
........(((((..(((((.......((.(((((((..(((((..((((.((((....))))))))..)))))))))))).))((....))...)))))..))))) ( -48.30)
>DroSim_CAF1 8829 107 + 1
UCCGCCAUCCGUUCAGGCGGACCACAUCACGUGCAGUCGGGGUCCGCGGGAGCAGCCGCCUGCCCUGGAGACCCGCUGCACCUGUCGCGAGAAGCCCGUCAAGACAG
((((((.........)))))).........(((((((..(((((..((((.((((....))))))))..))))))))))))((((((((.......)))...))))) ( -47.30)
>DroEre_CAF1 8890 107 + 1
UCCGCCCUCCGUCCAGGCGGAUCACAUCACGUGCAGCCGGGGUCCGCGGGAGCAGCCGCCUCCCCUAGAGACCCGCUGCACUUGUCGCGAGAAGCCCGCCAAGAUGG
........(((((..(((((.......((.(((((((..((((((..((((((....).)))))...).)))))))))))).))((....))...)))))..))))) ( -48.90)
>DroYak_CAF1 9682 107 + 1
UCCGCCCUCCAUCCAGGCGGACCACAUCACGUGCAGCCGGGGUCCGCGGGAACAGCCGCCUGUCCUGGAGACCCGCUGCAACUGUCGCGAGAAGCCCGCCAAAAUGG
........((((...(((((.......((..((((((..(((((..(((((.(((....))))))))..)))))))))))..))((....))...)))))...)))) ( -43.20)
>consensus
UCCGCCAUCCGUUCAGGCGGACCACAUCACGUGCAGCCGGGGUCCGCGGGAGCAGCCGCCUGCCCUGGAGACCCGCUGCACCUGUCGCGAGAAGCCCGCCAAGACGG
........(((((..(((((.......((.(((((((..(((((..((((.((((....))))))))..)))))))))))).))((....))...)))))..))))) (-46.12 = -45.80 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:03 2006