Locus 9668

Sequence ID dm3.chr3R
Location 8,105,414 – 8,105,467
Length 53
Max. P 0.500000
window13259

overview

Window 9

Location 8,105,414 – 8,105,467
Length 53
Sequences 8
Columns 53
Reading direction forward
Mean pairwise identity 94.54
Shannon entropy 0.11145
G+C content 0.33255
Mean single sequence MFE -9.34
Consensus MFE -7.78
Energy contribution -8.21
Covariance contribution 0.44
Combinations/Pair 1.07
Mean z-score -1.67
Structure conservation index 0.83
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.00
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>dm3.chr3R 8105414 53 + 27905053
CUCGUUAAGAAUGAAUUCAAUUAUCGUUAUGAUUUCAUGUUUUGGCACUUCCC
...((((((((((((.(((..........))).))))).)))))))....... (  -9.50, z-score =  -1.68, R)
>droSim1.chr3R 14234696 53 - 27517382
CUCGUUAAGAAUGAAUUCAAUUAUCGUUAUGAUUUCAUGUUUUGGCACUUCCC
...((((((((((((.(((..........))).))))).)))))))....... (  -9.50, z-score =  -1.68, R)
>droSec1.super_0 7279149 53 - 21120651
CUCGUUAAGAAUGAAUUCAAUUAUCGUUAUGAUUUCAUGUUUUGGCACUUCCC
...((((((((((((.(((..........))).))))).)))))))....... (  -9.50, z-score =  -1.68, R)
>droYak2.chr3R 12422812 53 + 28832112
CUCGUUAAGAAUGAAUUCAAUUAUCGUUAUGAUUUCAUGUUUUGGCACUUCCC
...((((((((((((.(((..........))).))))).)))))))....... (  -9.50, z-score =  -1.68, R)
>droEre2.scaffold_4770 4236059 53 - 17746568
CUCGUUAAGAAUGAAUUCAAUUAUCGUUAUGAUUUCAUGUUUUGGCACUUCCC
...((((((((((((.(((..........))).))))).)))))))....... (  -9.50, z-score =  -1.68, R)
>droAna3.scaffold_13340 19398479 53 - 23697760
CUCGUUAAGAAUGAAUUCAAUUACGGAUAUGAUUUCAUGUUUCGGCACUUCCA
...((..((((((((.(((..........))).))))).)))..))....... (  -7.60, z-score =  -0.15, R)
>dp4.chr2 22890741 53 + 30794189
CUCGUUAAAAUAGAAUUCAAUUAUAGUUAUGAUUUCAUGUUUUGGCACUUCCC
...((((((((((((.(((..........))).))).)))))))))....... (  -9.80, z-score =  -2.41, R)
>droPer1.super_3 5666300 53 + 7375914
CUCGUUAAAAUAGAAUUCAAUUAUAGUUAUGAUUUCAUGUUUUGGCACUUCCC
...((((((((((((.(((..........))).))).)))))))))....... (  -9.80, z-score =  -2.41, R)
>consensus
CUCGUUAAGAAUGAAUUCAAUUAUCGUUAUGAUUUCAUGUUUUGGCACUUCCC
...((((((((((((.(((..........))).))))).)))))))....... ( -7.78 =  -8.21 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:08:46 2011