Locus 5538

Sequence ID	dm3.chr3LHet
Location	410,575 – 410,626
Length	51
Max. P	0.822395

overview

Window 2

Location	410,575 – 410,626
Length	51
Sequences	6
Columns	52
Reading direction	forward
Mean pairwise identity	75.71
Shannon entropy	0.46156
G+C content	0.37353
Mean single sequence MFE	-10.57
Consensus MFE	-7.39
Energy contribution	-6.37
Covariance contribution	-1.02
Combinations/Pair	1.62
Mean z-score	-1.14
Structure conservation index	0.70
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.80
SVM RNA-class probability	0.822395
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3LHet 410575 51 + 2555491
AAACUAAUUUCGAGCAGACGAUGAGCUUUGCUCUUAGAUUGG-GAUCUUCAA
...(((((((.((((((((.....).)))))))..)))))))-......... ( -12.70, z-score =  -1.63, R)
>droSim1.chrU 9321892 51 - 15797150
AAACUAAUUUCGAGCAGACGAUGAGCUUUGCUUUUAGAUUGG-GUUCUUCAA
...(((((((.((((((((.....).)))))))..)))))))-......... ( -10.90, z-score =  -1.02, R)
>droSec1.super_75 3628 51 + 156374
AAACUAAUUUCGAGCAGACGAUGAGCUUUGCUUUUAGAUUGG-GUUCUUCAA
...(((((((.((((((((.....).)))))))..)))))))-......... ( -10.90, z-score =  -1.02, R)
>droYak2.chrU 2137428 51 - 28119190
AAACGAAUUCCGAGCGGACAAUGAGCUUUGCUCUUAAAUUGG-GUUCAUCAA
....((((((.(((((((........))))))).......))-))))..... (  -9.10, z-score =  -0.21, R)
>droEre2.scaffold_4784 23909285 51 + 25762168
AAACGAAUUUCGAGCGGAGGAUGAGCUUUGCUUCAAAAUUGG-GUUUUUCAA
...(((.(((.((((((((......)))))))).))).))).-......... ( -11.00, z-score =  -0.60, R)
>droPer1.super_3 941856 50 + 7375914
AAUCAUAAUUCGUACAAU--AUGAAUAUUGUUCGAAAUUUUAUGUCCUGCCG
...(((((((((.(((((--(....)))))).))))...)))))........ (  -8.80, z-score =  -2.37, R)
>consensus
AAACUAAUUUCGAGCAGACGAUGAGCUUUGCUCUUAAAUUGG_GUUCUUCAA
...((((((..(((((((........)))))))...)))))).......... ( -7.39 =  -6.37 +  -1.02)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:50:19 2011