Locus 2824

Sequence ID 3R_DroMel_CAF1
Location 7,568,211 – 7,568,309
Length 98
Max. P 0.554273
window4562

overview

Window 2

Location 7,568,211 – 7,568,309
Length 98
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 80.78
Mean single sequence MFE -33.03
Consensus MFE -23.16
Energy contribution -24.33
Covariance contribution 1.17
Combinations/Pair 1.16
Mean z-score -1.25
Structure conservation index 0.70
SVM decision value 0.04
SVM RNA-class probability 0.554273
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7568211 98 + 27905053
UCAAUGCUCGACGA------GGCGGGUGG---UGUCACCGCCGGAGGAGCAACGAGUGCAAAGAAACGCAAGGAUGA---CGAUAAUCCAUCGGGCAGCAACAAGCAACC
....(((((((...------.((((((((---.....)))))......(((.....))).......)))..((((..---.....)))).)))))))((.....)).... ( -30.90)
>DroPse_CAF1 267 106 + 1
UCCAUGCUAGAGGAGGACGAGGCGGAGGG---AGCUAGUAGCGGGGAGGCGACAAGCGCCAAGCGGCGCAAGGAUGACAACGAUGGUCCAUGCGGAAGCG-CAGGCGAUU
.((.(((.......((((.(..((..(..---..((.((.((......)).))..(((((....)))))..))....)..)).).))))..((....)))-))))..... ( -32.30)
>DroSec_CAF1 255 98 + 1
UCAAUGCUCGAUGA------GGCGGGCGG---UGGCUCCGCCGGAGGAGCAACGAGUGCAAAGAAACGCAAGGAUGA---CGAUAACCCAUCGGGCAGCAACAAGCAACC
....(((((((((.------((((..((.---..(((((......)))))..))..))).......(....).....---......).)))))))))((.....)).... ( -34.00)
>DroSim_CAF1 267 98 + 1
UCAAUGCUCGAUGA------GGCGGGCGG---UGGCUCCGCCGGAGGAGCAACGAGUGCAAAGAAACGCAAGGAUGA---CGAUAAUCCAUCGGGCAGCAACAAGCAACC
....(((((((((.------.(((..((.---..(((((......)))))..))..))).......(....).....---........)))))))))((.....)).... ( -33.90)
>DroEre_CAF1 669 101 + 1
UCGAUGCUCGAUGA------UGCGGGCGAUGAUGCAUCCGCCGGAGGAGCAACGAGUUCAAAGAGACGCAAGGAUGA---CGAUAAUCCAUCGGGCAGCAACAGGCAAUC
....((((((((..------(((((((((((...))).))))....((((.....)))).......)))).((((..---.....))))))))))))((.....)).... ( -32.50)
>DroYak_CAF1 267 98 + 1
UCGAUGCUCGAUGA------UGCGGGCGG---UGCAUCCGCCGGAGGAGCAACGAGUGCAAAGAGACGCAAGGAUGA---CGAUAAUCCAUCGGGCAGCAACAGGCAAUC
....((((((((..------(((((((((---.....)))))......(((.....))).......)))).((((..---.....))))))))))))((.....)).... ( -34.60)
>consensus
UCAAUGCUCGAUGA______GGCGGGCGG___UGCCUCCGCCGGAGGAGCAACGAGUGCAAAGAAACGCAAGGAUGA___CGAUAAUCCAUCGGGCAGCAACAAGCAACC
....((((((((.........((((((((........)))))......(((.....))).......)))..((((..........))))))))))))((.....)).... (-23.16 = -24.33 +   1.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:45:30 2006