Locus 3024

Sequence ID 2R_DroMel_CAF1
Location 10,435,624 – 10,435,720
Length 96
Max. P 0.923976
window4986

overview

Window 6

Location 10,435,624 – 10,435,720
Length 96
Sequences 4
Columns 119
Reading direction reverse
Mean pairwise identity 78.90
Mean single sequence MFE -33.68
Consensus MFE -23.34
Energy contribution -23.03
Covariance contribution -0.31
Combinations/Pair 1.12
Mean z-score -2.02
Structure conservation index 0.69
SVM decision value 1.16
SVM RNA-class probability 0.923976
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10435624 96 - 20766785
GGCCAGUCCACUUGGCCCCCUUCCCCG-CCCCCCUCGUGGACGAUCC----------------------GAUCUGCGAUCGGUGAUCGCCGUCAUGGCUAUAACAUGCUAUAUCAUAAU
(((..((((((..(((..........)-))......))))))(((((----------------------((((...))))))..))))))(..(((((........)))))..)..... ( -28.80)
>DroSec_CAF1 39712 96 - 1
GGCCAGUCCACUUGGCCCCCUUCCCCG-CCCCCCUCGCGGACGAUCC----------------------GAUCUGCGAUCGGUGAUCGCCGUCAUGGCUAUAACAUGCUAUAUCAUAAU
((((((.....))))))..........-........((((.((((((----------------------((((...))))))..)))))))).(((((........)))))........ ( -28.90)
>DroEre_CAF1 37295 115 - 1
GGCCGGGCCACUUGGCCCCAUCCCCGC----CCCCCGUGGACCACCCCAUCCGCGAUCUGCGGAUCUGCGAUCUGCGAUCGGUGAUCGCCGUCAUGGCUAUAACAUGCUAUAUCAUAAU
(((.(((((....)))))......(((----(....(((((........)))))((((.(((((((...)))))))))))))))...)))(..(((((........)))))..)..... ( -45.20)
>DroYak_CAF1 39515 111 - 1
GGCCAGGCCAACUGGCCCCAUUCCCCCACUUCCCCCGUGAACGACCCCAUCUGCGAUC--------UGUGAUCUGCGAUCGGUGAUCGCCGUCAUGGCUAUAACAUGCUAUAUCAUAAU
((((((.....))))))...................((((..(((.......((((((--------..(((((...)))))..)))))).)))(((((........))))).))))... ( -31.80)
>consensus
GGCCAGGCCACUUGGCCCCAUUCCCCC_CCCCCCCCGUGGACGACCC______________________GAUCUGCGAUCGGUGAUCGCCGUCAUGGCUAUAACAUGCUAUAUCAUAAU
((((((.....))))))...................((((.............................(((..((((((...)))))).)))(((((........))))).))))... (-23.34 = -23.03 +  -0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:45:27 2006