Locus 2777

Sequence ID dm3.chr2L
Location 22,148,870 – 22,148,927
Length 57
Max. P 0.918808
window3818 window3819

overview

Window 8

Location 22,148,870 – 22,148,927
Length 57
Sequences 5
Columns 57
Reading direction forward
Mean pairwise identity 75.96
Shannon entropy 0.43085
G+C content 0.36472
Mean single sequence MFE -13.17
Consensus MFE -7.02
Energy contribution -8.74
Covariance contribution 1.72
Combinations/Pair 1.18
Mean z-score -2.12
Structure conservation index 0.53
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.27
SVM RNA-class probability 0.918808
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 22148870 57 + 23011544
GCAAAAACAAAGAGAACUUCUCUUUGUUCAAUUCGCUUUCUUCAAAGAUUGCUGCUC
(((..(((((((((.....)))))))))......((..(((....)))..))))).. ( -16.50, z-score =  -3.56, R)
>droSim1.chr2L 21718932 57 + 22036055
GUAAAAACAAAGAGAACUUCUCUUUGUUCAAUUCGCUUUCUUCGUAGAUUGCUGCUC
(((..(((((((((.....)))))))))......((..(((....)))..))))).. ( -15.00, z-score =  -3.21, R)
>droSec1.super_28 757236 57 + 873875
GUAAAAACAAAGAGAACUUCUCUUUGUUCAAUUCGCUUUCUUCGUAGAUUGCUGCUC
(((..(((((((((.....)))))))))......((..(((....)))..))))).. ( -15.00, z-score =  -3.21, R)
>droYak2.chr2R 20664115 57 - 21139217
GUAAGACCAAAGAGAGCCUCUCUUCUAUGCAAUUUGUUUUCUUUAAGAUGGCUGCUC
...........((((((((((.......((.....))........))).)))).))) (  -9.46, z-score =   0.38, R)
>droEre2.scaffold_4845 20322707 54 - 22589142
GUAAAAAUUAAGAGAGCCUCUCUUUUAUAAG---CAAUUCUUUUAAGAUGGCUACUC
...........(((((((..((((....(((---.....)))..)))).)))).))) (  -9.90, z-score =  -0.99, R)
>consensus
GUAAAAACAAAGAGAACUUCUCUUUGUUCAAUUCGCUUUCUUCGAAGAUUGCUGCUC
(((..(((((((((.....)))))))))......((..(((....)))..))))).. ( -7.02 =  -8.74 +   1.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 22,148,870 – 22,148,927
Length 57
Sequences 5
Columns 57
Reading direction reverse
Mean pairwise identity 75.96
Shannon entropy 0.43085
G+C content 0.36472
Mean single sequence MFE -12.89
Consensus MFE -7.82
Energy contribution -8.66
Covariance contribution 0.84
Combinations/Pair 1.20
Mean z-score -1.23
Structure conservation index 0.61
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.11
SVM RNA-class probability 0.545969
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 22148870 57 - 23011544
GAGCAGCAAUCUUUGAAGAAAGCGAAUUGAACAAAGAGAAGUUCUCUUUGUUUUUGC
..(((((..(((....)))..)).....((((((((((.....)))))))))).))) ( -15.30, z-score =  -1.29, R)
>droSim1.chr2L 21718932 57 - 22036055
GAGCAGCAAUCUACGAAGAAAGCGAAUUGAACAAAGAGAAGUUCUCUUUGUUUUUAC
.....((..(((....)))..)).....((((((((((.....)))))))))).... ( -13.90, z-score =  -1.78, R)
>droSec1.super_28 757236 57 - 873875
GAGCAGCAAUCUACGAAGAAAGCGAAUUGAACAAAGAGAAGUUCUCUUUGUUUUUAC
.....((..(((....)))..)).....((((((((((.....)))))))))).... ( -13.90, z-score =  -1.78, R)
>droYak2.chr2R 20664115 57 + 21139217
GAGCAGCCAUCUUAAAGAAAACAAAUUGCAUAGAAGAGAGGCUCUCUUUGGUCUUAC
(((.((((.((((......................)))))))))))........... ( -10.35, z-score =  -0.07, R)
>droEre2.scaffold_4845 20322707 54 + 22589142
GAGUAGCCAUCUUAAAAGAAUUG---CUUAUAAAAGAGAGGCUCUCUUAAUUUUUAC
(((.((((.((((..(((.....---)))....))))..)))))))........... ( -11.00, z-score =  -1.24, R)
>consensus
GAGCAGCAAUCUUAGAAGAAAGCGAAUUGAACAAAGAGAAGUUCUCUUUGUUUUUAC
............................((((((((((.....)))))))))).... ( -7.82 =  -8.66 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:57:43 2011