Locus 881

Sequence ID	dm3.chr2L
Location	6,410,273 – 6,410,427
Length	154
Max. P	0.948001

overview

Window 8

Location	6,410,273 – 6,410,387
Length	114
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	93.81
Shannon entropy	0.10642
G+C content	0.47116
Mean single sequence MFE	-36.30
Consensus MFE	-29.44
Energy contribution	-32.56
Covariance contribution	3.12
Combinations/Pair	1.09
Mean z-score	-2.70
Structure conservation index	0.81
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	1.54
SVM RNA-class probability	0.948001
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 6410273 114 + 23011544
AUCUUUUCGAUCGGACAAUCAUUGCAGAUUUCUGCACGUUUGUUUACAUAUA------UAGUAGCCGGCUUUUGCACUUCGGUGCACAUUGCCACCACGUAGACGGCCGUCAGGAAGAUA
((((((..((.(((.(......(((((....)))))((((((.((((.....------..))))..(((...(((((....)))))....)))......))))))))))))..)))))). ( -37.90, z-score =  -3.85, R)
>droSim1.chr2L 6214696 114 + 22036055
AUCUUUUCGAUCGGACAAUCAUGGCAGAUUUCUGCGCGUUUGUUUACAUAUA------UAGUAGCCGGCUUUUGCACUUCGGUGCACAUUGCCACCACGUAGACGGCCGUCAGGAAGAUA
((((((..((.(((.(..((...((((....))))((((..(.((((.....------..)))).)(((...(((((....)))))....)))...)))).))..))))))..)))))). ( -37.40, z-score =  -2.91, R)
>droSec1.super_5 4477971 114 + 5866729
AUCUUUUCGAUCGGACAAUCAUGGCAGAUUUCUGCGCGUUUGUUUACAUAUA------UAGUAGCCGGCUUUUGCACUUCGGUGUUCAUUACCACCACGUAGACGGCCGUCAGGAAGAUA
((((((..((.(((......(((((((....)))).)))((((((((.....------.........((....)).....((((........))))..)))))))))))))..)))))). ( -31.50, z-score =  -1.60, R)
>droYak2.chr2L 15830603 114 - 22324452
AUCUUUUCGAUCGGACAAUCAUGGCAGAUUUCUGCACGUUUGUUUACAUAUA------UAGUAGCCGGCUUUCGCACUUCGGUGCACAUUGCCACCACGUAGACGGCCGUCAGGAGGAUA
((((((..((.(((.(.......((((....)))).((((((.((((.....------..))))..(((....((((....)))).....)))......))))))))))))..)))))). ( -35.40, z-score =  -2.49, R)
>droEre2.scaffold_4929 15336525 119 + 26641161
AUCUCUUCGAUCGGACAAUCAUGGCAGAUU-CUGCACGUUUGUUUACAUAUACGUGUAUAGUAGCCGGCUUUCGCACUUCGGUGCACAUUGCCACCACGUAGACGGCCGGCAGAAAGAUA
((((.(((((((...((....))...))))-.(((((((.((....))...))))))).....(((((((.((((((....))))....(((......))))).))))))).))))))). ( -39.30, z-score =  -2.67, R)
>consensus
AUCUUUUCGAUCGGACAAUCAUGGCAGAUUUCUGCACGUUUGUUUACAUAUA______UAGUAGCCGGCUUUUGCACUUCGGUGCACAUUGCCACCACGUAGACGGCCGUCAGGAAGAUA
((((((..((.(((.........((((....))))....((((((((.(((.........)))...(((....((((....)))).....))).....)))))))))))))..)))))). (-29.44 = -32.56 +   3.12)

alignment

secondary structure

dotplot

Window 9

Location	6,410,273 – 6,410,387
Length	114
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	93.81
Shannon entropy	0.10642
G+C content	0.47116
Mean single sequence MFE	-31.42
Consensus MFE	-28.40
Energy contribution	-28.72
Covariance contribution	0.32
Combinations/Pair	1.09
Mean z-score	-1.28
Structure conservation index	0.90
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.01
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>dm3.chr2L 6410273 114 - 23011544
UAUCUUCCUGACGGCCGUCUACGUGGUGGCAAUGUGCACCGAAGUGCAAAAGCCGGCUACUA------UAUAUGUAAACAAACGUGCAGAAAUCUGCAAUGAUUGUCCGAUCGAAAAGAU
.(((((..(((((((.(((...((((((((....(((((....)))))...))).)))))..------................(((((....)))))..))).).))).)))..))))) ( -34.00, z-score =  -2.41, R)
>droSim1.chr2L 6214696 114 - 22036055
UAUCUUCCUGACGGCCGUCUACGUGGUGGCAAUGUGCACCGAAGUGCAAAAGCCGGCUACUA------UAUAUGUAAACAAACGCGCAGAAAUCUGCCAUGAUUGUCCGAUCGAAAAGAU
.(((((..(((((((.(((...((((((((....(((((....)))))...))).)))))..------...............(.((((....)))))..))).).))).)))..))))) ( -32.90, z-score =  -1.79, R)
>droSec1.super_5 4477971 114 - 5866729
UAUCUUCCUGACGGCCGUCUACGUGGUGGUAAUGAACACCGAAGUGCAAAAGCCGGCUACUA------UAUAUGUAAACAAACGCGCAGAAAUCUGCCAUGAUUGUCCGAUCGAAAAGAU
.(((((..(((((((.((((((((((((........))))..(((((........)).))).------...))))).......(.((((....)))))..))).).))).)))..))))) ( -27.30, z-score =  -0.78, R)
>droYak2.chr2L 15830603 114 + 22324452
UAUCCUCCUGACGGCCGUCUACGUGGUGGCAAUGUGCACCGAAGUGCGAAAGCCGGCUACUA------UAUAUGUAAACAAACGUGCAGAAAUCUGCCAUGAUUGUCCGAUCGAAAAGAU
...........((..((.....((((((((....(((((....)))))...))).)))))..------.........((((.(((((((....))).)))).)))).))..))....... ( -29.30, z-score =  -0.71, R)
>droEre2.scaffold_4929 15336525 119 - 26641161
UAUCUUUCUGCCGGCCGUCUACGUGGUGGCAAUGUGCACCGAAGUGCGAAAGCCGGCUACUAUACACGUAUAUGUAAACAAACGUGCAG-AAUCUGCCAUGAUUGUCCGAUCGAAGAGAU
.(((((((.((((((..(((((.(((((........)))))..))).))..))))))(((((((....)))).))).((((.(((((((-...))).)))).))))......).)))))) ( -33.60, z-score =  -0.72, R)
>consensus
UAUCUUCCUGACGGCCGUCUACGUGGUGGCAAUGUGCACCGAAGUGCAAAAGCCGGCUACUA______UAUAUGUAAACAAACGUGCAGAAAUCUGCCAUGAUUGUCCGAUCGAAAAGAU
.(((((..(((((((.(((...((((((((....(((((....)))))...))).))))).........................((((....))))...))).).))).)))..))))) (-28.40 = -28.72 +   0.32)

alignment

secondary structure

dotplot

Window 0

Location	6,410,313 – 6,410,427
Length	114
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	90.72
Shannon entropy	0.16057
G+C content	0.47797
Mean single sequence MFE	-36.44
Consensus MFE	-31.36
Energy contribution	-31.48
Covariance contribution	0.12
Combinations/Pair	1.16
Mean z-score	-1.74
Structure conservation index	0.86
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.72
SVM RNA-class probability	0.797465
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 6410313 114 + 23011544
------UGUUUACAUAUAUAGUAGCCGGCUUUUGCACUUCGGUGCACAUUGCCACCACGUAGACGGCCGUCAGGAAGAUAUAUAAAUAUCUGAGUCAGACUGUGCCGCGGGAACUGGAAA
------............((((..(((((...(((((....)))))....)))........(.((((((((.((.((((((....))))))...)).))).).)))))))..)))).... ( -34.50, z-score =  -1.38, R)
>droSim1.chr2L 6214736 113 + 22036055
------UGUUUACAUAUAUAGUAGCCGGCUUUUGCACUUCGGUGCACAUUGCCACCACGUAGACGGCCGUCAGGAAGAUAUAUAAAUAUCUGAGUCAGACUGUGCCGCGGGAGCUGGAA-
------..................(((((((((((.....(((((.....).))))........(((((((.((.((((((....))))))...)).))).).))))))))))))))..- ( -36.30, z-score =  -1.52, R)
>droSec1.super_5 4478011 110 + 5866729
------UGUUUACAUAUAUAGUAGCCGGCUUUUGCACUUCGGUGUUCAUUACCACCACGUAGACGGCCGUCAGGAAGAUAUAUAAAUAUCUGAG----ACUGUGCCGCGGGAGCUGGAAA
------..................(((((((((((.....((((........))))........(((...(((..((((((....))))))...----.))).))))))))))))))... ( -35.40, z-score =  -2.22, R)
>droYak2.chr2L 15830643 114 - 22324452
------UGUUUACAUAUAUAGUAGCCGGCUUUCGCACUUCGGUGCACAUUGCCACCACGUAGACGGCCGUCAGGAGGAUAUAUAAAUAUCUGAGUCAGACUGUGCCACGGGAGUUGGAAA
------..................((((((..(((((....))))...................(((((((.((.((((((....))))))...)).))).).)))..)..))))))... ( -33.70, z-score =  -0.96, R)
>droEre2.scaffold_4929 15336564 120 + 26641161
UGUUUACAUAUACGUGUAUAGUAGCCGGCUUUCGCACUUCGGUGCACAUUGCCACCACGUAGACGGCCGGCAGAAAGAUAUAUAAAUAUCUGAGUCAGACUGUGCCGCGGGAGUUGGAAA
......((....((((((((((.(((((((.((((((....))))....(((......))))).))))))).((.((((((....))))))...))..)))))).)))).....)).... ( -42.30, z-score =  -2.63, R)
>consensus
______UGUUUACAUAUAUAGUAGCCGGCUUUUGCACUUCGGUGCACAUUGCCACCACGUAGACGGCCGUCAGGAAGAUAUAUAAAUAUCUGAGUCAGACUGUGCCGCGGGAGCUGGAAA
........................(((((((((((.....(((((.....).))))........(((((((.((.((((((....))))))...)).))).).))))))))))))))... (-31.36 = -31.48 +   0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:21:15 2011