Locus 6435

Sequence ID dm3.chr3L
Location 6,701,173 – 6,701,276
Length 103
Max. P 0.868293
window8861

overview

Window 1

Location 6,701,173 – 6,701,276
Length 103
Sequences 8
Columns 104
Reading direction forward
Mean pairwise identity 65.29
Shannon entropy 0.71729
G+C content 0.47530
Mean single sequence MFE -25.56
Consensus MFE -9.57
Energy contribution -10.28
Covariance contribution 0.70
Combinations/Pair 1.40
Mean z-score -1.45
Structure conservation index 0.37
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.99
SVM RNA-class probability 0.868293
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 6701173 103 + 24543557
AUCGGGUUUAUUAACCCCACAAGACACACUUUUCACAAUAUUCACCUGCCCC-GGAGGCAGUUACUUCUGCAUUGGUCCCUGCAAUUCAUUUUGGCAGAACUAU
...(((((....)))))............................(((((..-.((.((((..(((........)))..))))...)).....)))))...... ( -22.70, z-score =  -1.16, R)
>droMoj3.scaffold_6680 24517815 91 - 24764193
GCUGGGUUUAUUAACCCCUCUAGGUUUACA-AUAUUUCUAGCUUU-UCCACCUGCCU--AGCCGUCUA------GC---GCGCAUUUGAAUUUCCAACUGCUGU
((((((..((((((((......))))...)-)))..))))))...-.......((((--((....)))------).---))(((.(((......))).)))... ( -21.20, z-score =  -1.84, R)
>droVir3.scaffold_13049 1034482 101 + 25233164
GUUGGGUUUAUUAACCCCUCAAGGUUUGCAUACAGUUUUCCUUUUGCCCACCUGCUCGAAGGCGGCUUUUCCCUGG---CCACAUUUGAAUUUUCAACUGUCGU
(..(((((....)))))..).((((..(((...((.....))..)))..))))(((....)))((((.......))---))(((.((((....)))).)))... ( -22.50, z-score =  -0.27, R)
>droAna3.scaffold_13337 3066504 93 - 23293914
GGCGGGUUUAUUAACCCCACAAGUCGCAUUU---------UCCACCUGCCCC-GCUUGUGUUUAUUCCUGCACUCGU-CCAGCCAUUCAUUUUGGCAGCGCUAC
((((((((....)))))(((((((.(((...---------......)))...-))))))).................-...((((.......))))...))).. ( -23.40, z-score =  -1.77, R)
>droEre2.scaffold_4784 21099087 103 - 25762168
AUCGGGUUUAUUAACCCCACAAGACACAAUAU-CACAAUAUCCACCUGCCCCAGGUGGCGGGUAAUUCUGCAUUGGUGCCUGCACUUCAUUUUGGCAGGACUAC
...(((((....)))))...............-.........((((((...))))))(((((....)))))..((((.(((((.(........)))))))))). ( -30.20, z-score =  -1.36, R)
>droYak2.chr3L 7281921 95 + 24197627
AUCGGGUUUAUUAACCCCACAAGACACAAU---------AUCCACCUGCCCCAGGUGGCGGGUAAUUCUGCAUUGGUCCCUGCAAUUCCUUUUGGCAGGACUAC
...(((((....))))).....(((.((((---------...((((((...))))))(((((....))))))))))))(((((((......)).)))))..... ( -31.60, z-score =  -2.00, R)
>droSec1.super_2 6637657 103 + 7591821
AUCGGGUUUAUUAACCCCACAAGACACACUUUCCACAAUAUCCACCUGCCCC-GGUGGAAGUUUCUUCUGCAUUGGUCCUUGCAAUUCAUUUUGGCAGGACUAU
...(((((....)))))((.((((............(((.((((((......-)))))).))))))).))...(((((((.((((......)).))))))))). ( -26.30, z-score =  -1.52, R)
>droSim1.chr3L 6185985 103 + 22553184
AUCGGGUUUAUUAACCCCACAAGACACACUUUUCACAAUAUCCACCUGCCCC-GGUGGCAGUUUCUUCUGCAUUGGUCCCUGCAAUUCAUUUUGGCAGGACUAU
...(((((....))))).....(((.((..............((((......-))))((((......))))..)))))(((((((......)).)))))..... ( -26.60, z-score =  -1.67, R)
>consensus
AUCGGGUUUAUUAACCCCACAAGACACACUUU_CACAAUAUCCACCUGCCCC_GGUGGCAGUUACUUCUGCAUUGGUCCCUGCAAUUCAUUUUGGCAGGACUAU
...(((((....)))))............................(((((.......((((......))))....(......)..........)))))...... ( -9.57 = -10.28 +   0.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:07:44 2011