Locus 9344

Sequence ID 3R_DroMel_CAF1
Location 24,828,277 – 24,828,372
Length 95
Max. P 0.661251
window14955

overview

Window 5

Location 24,828,277 – 24,828,372
Length 95
Sequences 6
Columns 95
Reading direction reverse
Mean pairwise identity 80.34
Mean single sequence MFE -19.73
Consensus MFE -13.38
Energy contribution -15.47
Covariance contribution 2.09
Combinations/Pair 1.19
Mean z-score -1.47
Structure conservation index 0.68
SVM decision value 0.27
SVM RNA-class probability 0.661251
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24828277 95 - 27905053
GUUAUCGUAUCAACGAACUCGAAUAAUAAUAGCGUACAUAUGUACAUAUAUAUGUACGUAUGCAUGGAUAGCUACCGCAGACGCAGCGAGAACAC
(((.((((.....((....))..........((((.(((((((((((....)))))))))))........((....))..)))).)))).))).. ( -25.80)
>DroSec_CAF1 44104 75 - 1
GUUAUCGUAUCAACGAACUCGAAUAAUAAUAGCGUACAUAUGU--------------------AUGGAUAGCUACCGCAGACGCAGCGAGGACAC
(((.((((....)))).((((........((((...(((....--------------------)))....))))..((....))..))))))).. ( -15.10)
>DroSim_CAF1 47596 95 - 1
GUUAUCGUAUCAACGAACUCGAAUAAUAAUAGCGUACAUAUGUACAUAUAUAUGUACGUAUGCAUGGAUAGCUACCGCAGACGCAGCGAGGACAC
(((.((((.....((....))..........((((.(((((((((((....)))))))))))........((....))..)))).)))).))).. ( -26.20)
>DroEre_CAF1 39175 83 - 1
GUUAUCGUAUCAACGAACUCGAAUAAUAAUAGCGUACAUAUGU------------ACGUAUGUAUCGAUGGCUACCGCAGACGCAGCGAGGACUC
(((.((((....)))).((((..........((((((....))------------)))).((..((..(((...)))..))..)).))))))).. ( -20.50)
>DroWil_CAF1 37456 73 - 1
GUUAUCGUAUCAACGAACUCGAAUAAUAAUAACGUACAUAUGU------------AUGUAUGG----------ACCGCAGACACAAUUCAAGCUC
(((.((((....))))................(((((((....------------))))))).----------......)))............. (  -9.80)
>DroYak_CAF1 40137 83 - 1
GUUAUCGUAUCAACGAACUCGAAUAAUAAUAGCGUACAUAUGU------------ACGUAUGUAUCGAUGGCUACCGCAGACGCAGCGAGGACAC
(((.((((....)))).((((..........((((((....))------------)))).((..((..(((...)))..))..)).))))))).. ( -21.00)
>consensus
GUUAUCGUAUCAACGAACUCGAAUAAUAAUAGCGUACAUAUGU____________ACGUAUGCAUGGAUAGCUACCGCAGACGCAGCGAGGACAC
(((.((((.....((....))..........((((.(((((((((((....)))))))))))........((....))..)))).)))).))).. (-13.38 = -15.47 +   2.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:32:17 2006