Locus 12567

Sequence ID	dm3.chrX
Location	947,444 – 947,560
Length	116
Max. P	0.791630

overview

Window 1

Location	947,444 – 947,560
Length	116
Sequences	3
Columns	116
Reading direction	forward
Mean pairwise identity	93.68
Shannon entropy	0.08708
G+C content	0.37644
Mean single sequence MFE	-29.63
Consensus MFE	-24.97
Energy contribution	-26.20
Covariance contribution	1.23
Combinations/Pair	1.05
Mean z-score	-1.95
Structure conservation index	0.84
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.45
SVM RNA-class probability	0.701833
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chrX 947444 116 + 22422827
AAAAUCUUAUUGCUUCUUCAAUUGUAGAUAAAGAUAAACGUUGACCUCAAGAUGGGUGACAAAAUAAUGAAUCCGUCCAGCAAGUUGCUGAGUUUCGGAGGAAAAUUAAGUUUACU
...((((.((((......))))...)))).....((((((((..((((..(((((((..((......)).)))))))((((.....)))).......))))..)))...))))).. ( -23.40, z-score =  -0.68, R)
>droSim1.chrX 766254 116 + 17042790
AAAAUCUUAUUUCUUCUUCAAUUGUAGAAAAAGGUAAGCGUUGACCUCGAGAUGGGUGACAAAAUAAUGAAUCCGUCCAGCAAGUCGCUGAGUUUCGGAGGAAAAUGAGGUUGACU
...(((((.(((((.(.......).))))))))))....((..((((((.(((((((..((......)).)))))))((((.....))))..((((....)))).))))))..)). ( -31.60, z-score =  -1.98, R)
>droSec1.super_10 783360 116 + 3036183
AAAAUCUUAUUGCUUCUUCAAUUGUAGAAAAAGGUAAGAGUUGACCUCGAGAUGGGUGACAAAAUAAUGAAUCCGUCCAGCAAGUCGCUGAGUUUCGUAGGAAAAUGAGGUUGACU
....(((((((..((((........))))...)))))))((..((((((.(((((((..((......)).)))))))((((.....))))..((((....)))).))))))..)). ( -33.90, z-score =  -3.19, R)
>consensus
AAAAUCUUAUUGCUUCUUCAAUUGUAGAAAAAGGUAAGCGUUGACCUCGAGAUGGGUGACAAAAUAAUGAAUCCGUCCAGCAAGUCGCUGAGUUUCGGAGGAAAAUGAGGUUGACU
.....((((((..((((........))))...)))))).((((((((((.(((((((..((......)).)))))))((((.....))))..((((....)))).)))))))))). (-24.97 = -26.20 +   1.23)

alignment

secondary structure

dotplot

Window 2

Location	947,444 – 947,560
Length	116
Sequences	3
Columns	116
Reading direction	reverse
Mean pairwise identity	93.68
Shannon entropy	0.08708
G+C content	0.37644
Mean single sequence MFE	-24.43
Consensus MFE	-21.47
Energy contribution	-21.70
Covariance contribution	0.23
Combinations/Pair	1.07
Mean z-score	-1.86
Structure conservation index	0.88
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.70
SVM RNA-class probability	0.791630
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chrX 947444 116 - 22422827
AGUAAACUUAAUUUUCCUCCGAAACUCAGCAACUUGCUGGACGGAUUCAUUAUUUUGUCACCCAUCUUGAGGUCAACGUUUAUCUUUAUCUACAAUUGAAGAAGCAAUAAGAUUUU
......((((.....((((.((....((((.....))))((((((........)))))).....))..)))).....(((..((((((........)))))))))..))))..... ( -21.30, z-score =  -1.02, R)
>droSim1.chrX 766254 116 - 17042790
AGUCAACCUCAUUUUCCUCCGAAACUCAGCGACUUGCUGGACGGAUUCAUUAUUUUGUCACCCAUCUCGAGGUCAACGCUUACCUUUUUCUACAAUUGAAGAAGAAAUAAGAUUUU
.((..(((((................((((.....))))((((((........)))))).........)))))..)).((((.(((((((.......)))))))...))))..... ( -25.60, z-score =  -1.90, R)
>droSec1.super_10 783360 116 - 3036183
AGUCAACCUCAUUUUCCUACGAAACUCAGCGACUUGCUGGACGGAUUCAUUAUUUUGUCACCCAUCUCGAGGUCAACUCUUACCUUUUUCUACAAUUGAAGAAGCAAUAAGAUUUU
.((..(((((................((((.....))))((((((........)))))).........)))))..))(((((.(((((((.......)))))))...))))).... ( -26.40, z-score =  -2.67, R)
>consensus
AGUCAACCUCAUUUUCCUCCGAAACUCAGCGACUUGCUGGACGGAUUCAUUAUUUUGUCACCCAUCUCGAGGUCAACGCUUACCUUUUUCUACAAUUGAAGAAGCAAUAAGAUUUU
.((..(((((................((((.....))))((((((........)))))).........)))))..)).((((.(((((((.......)))))))...))))..... (-21.47 = -21.70 +   0.23)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:04:44 2011