Locus 35

Sequence ID dm3.chr2L
Location 268,036 – 268,115
Length 79
Max. P 0.894823
window56 window57

overview

Window 6

Location 268,036 – 268,115
Length 79
Sequences 3
Columns 79
Reading direction forward
Mean pairwise identity 75.53
Shannon entropy 0.34760
G+C content 0.48252
Mean single sequence MFE -24.80
Consensus MFE -12.65
Energy contribution -15.43
Covariance contribution 2.78
Combinations/Pair 1.04
Mean z-score -2.25
Structure conservation index 0.51
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.53
SVM RNA-class probability 0.732771
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 268036 79 + 23011544
CAUAGGAAAAUUAUUAGCGGGAGAGGAUUUUCAUUGGCCCACCAAGGGGGUUUUAAGAAAAAGGGCACCCACACUCAAU
......................(((..(((((...(((((.(....))))))....))))).((....))...)))... ( -15.50, z-score =   0.15, R)
>droEre2.scaffold_4929 319110 78 + 26641161
CAGAUGAAAAUAAUGAGCGGGG-UGGGUUUUCAUUGGCCCGCGCGGGGGAUUUUAAGAUAAAGGCCACCCGCGCUCAAU
.............(((((...(-((((((......)))))))(((((((.(((((...))))).)).)))))))))).. ( -32.20, z-score =  -3.16, R)
>droYak2.chr2L 262041 71 + 22324452
CGGAUGAAAGUUAUGAGUGGGGGUGGGUUUUCAUUGG--------AGGGGCUUUAAGUUAAAGGCCACCCACACUCAAU
..(((....))).((((((.((((((.((((..((((--------((...))))))...)))).)))))).)))))).. ( -26.70, z-score =  -3.73, R)
>consensus
CAGAUGAAAAUUAUGAGCGGGGGUGGGUUUUCAUUGGCCC_C___GGGGGUUUUAAGAUAAAGGCCACCCACACUCAAU
.............((((((.((((((.((((..(((((((......)))...))))...)))).)))))).)))))).. (-12.65 = -15.43 +   2.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 268,036 – 268,115
Length 79
Sequences 3
Columns 79
Reading direction reverse
Mean pairwise identity 75.53
Shannon entropy 0.34760
G+C content 0.48252
Mean single sequence MFE -19.57
Consensus MFE -10.83
Energy contribution -11.83
Covariance contribution 1.00
Combinations/Pair 1.20
Mean z-score -2.39
Structure conservation index 0.55
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.12
SVM RNA-class probability 0.894823
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 268036 79 - 23011544
AUUGAGUGUGGGUGCCCUUUUUCUUAAAACCCCCUUGGUGGGCCAAUGAAAAUCCUCUCCCGCUAAUAAUUUUCCUAUG
.......(((((.(....(((((......((((....).))).....)))))....).)))))................ ( -15.80, z-score =  -0.95, R)
>droEre2.scaffold_4929 319110 78 - 26641161
AUUGAGCGCGGGUGGCCUUUAUCUUAAAAUCCCCCGCGCGGGCCAAUGAAAACCCA-CCCCGCUCAUUAUUUUCAUCUG
..((((((.((((((..(((((..........(((....)))...)))))...)))-)))))))))............. ( -24.22, z-score =  -2.45, R)
>droYak2.chr2L 262041 71 - 22324452
AUUGAGUGUGGGUGGCCUUUAACUUAAAGCCCCU--------CCAAUGAAAACCCACCCCCACUCAUAACUUUCAUCCG
..((((((.((((((.(((((...)))))...(.--------.....).....)))))).))))))............. ( -18.70, z-score =  -3.78, R)
>consensus
AUUGAGUGUGGGUGGCCUUUAUCUUAAAACCCCC___G_GGGCCAAUGAAAACCCACCCCCGCUCAUAAUUUUCAUCUG
..((((((.(((((((((.....................))))))............)))))))))............. (-10.83 = -11.83 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:05:26 2011