Locus 7726

Sequence ID 3R_DroMel_CAF1
Location 20,735,099 – 20,735,189
Length 90
Max. P 0.600025
window12459

overview

Window 9

Location 20,735,099 – 20,735,189
Length 90
Sequences 5
Columns 90
Reading direction forward
Mean pairwise identity 87.67
Mean single sequence MFE -27.56
Consensus MFE -17.50
Energy contribution -18.54
Covariance contribution 1.04
Combinations/Pair 1.10
Mean z-score -2.52
Structure conservation index 0.63
SVM decision value 0.13
SVM RNA-class probability 0.600025
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20735099 90 + 27905053
CCGAUCCAGCGACCUCGCCACCAUCAUCAUUAUCACCAUGGUACCAUAGUGCCAUGGAGGCAUGGAGGCAUGGAACUGUGGAGCCACCAC
....((((((..((..(((......(....)....(((((((((....))))))))).)))..))..)).))))...((((.....)))) ( -29.20)
>DroSec_CAF1 31397 82 + 1
CCGAUCCAGCGACCUCGCCACCAUCAUCAUUAUCACCAUGGUACUAUAGUGCCAUGAAGGCAU--------GGAACUGUGGAGCCACCAC
..(((...(((....)))....))).............((((.(((((((.(((((....)))--------)).))))))).)))).... ( -24.50)
>DroSim_CAF1 32375 90 + 1
CCGAUCCAGCGACCUCGCCACCAUCAUCAUUAUCACCAUGGUACUAUAGUGCCAUGGAGGCAUGGAGGUAUGGAACUGUGGAGCCACCAC
....((((...((((((((......(....)....(((((((((....))))))))).)))...))))).))))...((((.....)))) ( -31.70)
>DroEre_CAF1 36755 82 + 1
CCGAUCCAGCGACCUCGCCACCAUCAUCAUUAUCACCAUGGUGCCAUAGUA--------CCAUGGAAGCAUGGAACUGUGGAGCCACCAC
..(((...(((....)))....))).............((((.(((((((.--------(((((....))))).))))))).)))).... ( -28.40)
>DroYak_CAF1 33216 90 + 1
CCGAUCCAGCGACCUCGCCACCAUCAUCAUUAUCACCAUGGUACCAUAGCAUCAUCGUUCCAUGGAGGCAUGGAACUGUGGAGCCACCAC
..(((...(((....)))....))).............((((.(((((........((((((((....))))))))))))).)))).... ( -24.00)
>consensus
CCGAUCCAGCGACCUCGCCACCAUCAUCAUUAUCACCAUGGUACCAUAGUGCCAUGGAGGCAUGGAGGCAUGGAACUGUGGAGCCACCAC
..(((...(((....)))....))).............((((.(((((((.((((..............)))).))))))).)))).... (-17.50 = -18.54 +   1.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:53:02 2006