Locus 7451

Sequence ID dm3.chr3L
Location 14,918,679 – 14,918,735
Length 56
Max. P 0.833574
window10265 window10266

overview

Window 5

Location 14,918,679 – 14,918,735
Length 56
Sequences 7
Columns 56
Reading direction forward
Mean pairwise identity 75.60
Shannon entropy 0.49163
G+C content 0.54682
Mean single sequence MFE -17.36
Consensus MFE -10.28
Energy contribution -10.57
Covariance contribution 0.29
Combinations/Pair 1.36
Mean z-score -1.36
Structure conservation index 0.59
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.84
SVM RNA-class probability 0.833574
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 14918679 56 + 24543557
CUGGGCCAUAACUCGUAUAUUGGCCCACGGCCUAAGCGUUGGCCAAUAGCUCAUGC
.(((((((............))))))).((((........))))............ ( -20.40, z-score =  -1.82, R)
>droSim1.chr3L 14235462 56 + 22553184
CUGGGCUAUAACUCGUGUAUUGGCCCACGGCCUAAGCGUUGGCCAAUAGCUCAUGC
.((((((((.((....))..(((((.(((.......))).)))))))))))))... ( -20.40, z-score =  -1.70, R)
>droSec1.super_0 7036778 56 + 21120651
CUGGGCUAUAGCUCGUGUAUUGGCCCACGGCCUAAGCGUUGGCCAAUAGCUCAUGC
.((((((((.(((..(((...((((...))))...)))..)))..))))))))... ( -21.60, z-score =  -1.49, R)
>droYak2.chr3L 15004796 56 + 24197627
CCUGGCUAUAACUCGUGUAUUGCCCCACGGCCUAAGCGUUGGCCAAUAGCUCAUGC
...((((((.....(((........)))((((........)))).))))))..... ( -15.80, z-score =  -0.78, R)
>droEre2.scaffold_4784 14878801 56 + 25762168
CUUGGCCAUAACUCGUGUAUUGGCCAACGGCCUAAGCGUUGGCCAAUAGCUCAUGC
.............((((((((((((((((.......))))))))))))...)))). ( -20.20, z-score =  -2.14, R)
>droAna3.scaffold_13337 19096532 56 - 23293914
CCCGGCCAUAACUCGUGUAUUGGCCCCCAGCCUAAGCGUCGGCCAAUAGUUCAUGC
.............((((((((((((....((....))...))))))))...)))). ( -14.30, z-score =  -0.73, R)
>droPer1.super_12 912122 51 - 2414086
CUAGAGCAUUACCUGUAGACCAGGUACCAAUGUCCCAGCUGAUCCAAAUUG-----
((.(..(((((((((.....))))))...)))..).)).............----- (  -8.80, z-score =  -0.85, R)
>consensus
CUGGGCCAUAACUCGUGUAUUGGCCCACGGCCUAAGCGUUGGCCAAUAGCUCAUGC
...(((((.....(((.....(((.....)))...))).)))))............ (-10.28 = -10.57 +   0.29)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 14,918,679 – 14,918,735
Length 56
Sequences 7
Columns 56
Reading direction reverse
Mean pairwise identity 75.60
Shannon entropy 0.49163
G+C content 0.54682
Mean single sequence MFE -17.60
Consensus MFE -9.20
Energy contribution -10.51
Covariance contribution 1.31
Combinations/Pair 1.29
Mean z-score -1.24
Structure conservation index 0.52
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.05
SVM RNA-class probability 0.518404
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 14918679 56 - 24543557
GCAUGAGCUAUUGGCCAACGCUUAGGCCGUGGGCCAAUAUACGAGUUAUGGCCCAG
((....))....((((........)))).(((((((.((.......))))))))). ( -19.90, z-score =  -1.51, R)
>droSim1.chr3L 14235462 56 - 22553184
GCAUGAGCUAUUGGCCAACGCUUAGGCCGUGGGCCAAUACACGAGUUAUAGCCCAG
((....))....((((........)))).(((((....((....))....))))). ( -16.50, z-score =  -0.82, R)
>droSec1.super_0 7036778 56 - 21120651
GCAUGAGCUAUUGGCCAACGCUUAGGCCGUGGGCCAAUACACGAGCUAUAGCCCAG
((...(((((((((((.((((....).))).))))))).....))))...)).... ( -18.60, z-score =  -1.25, R)
>droYak2.chr3L 15004796 56 - 24197627
GCAUGAGCUAUUGGCCAACGCUUAGGCCGUGGGGCAAUACACGAGUUAUAGCCAGG
...((.(((((.((((........))))(((........))).....))))))).. ( -16.00, z-score =  -0.41, R)
>droEre2.scaffold_4784 14878801 56 - 25762168
GCAUGAGCUAUUGGCCAACGCUUAGGCCGUUGGCCAAUACACGAGUUAUGGCCAAG
((...((((((((((((((((....).))))))))))).....))))...)).... ( -21.40, z-score =  -2.77, R)
>droAna3.scaffold_13337 19096532 56 + 23293914
GCAUGAACUAUUGGCCGACGCUUAGGCUGGGGGCCAAUACACGAGUUAUGGCCGGG
((...(((((((((((..(((....)).)..))))))).....))))...)).... ( -17.10, z-score =  -0.74, R)
>droPer1.super_12 912122 51 + 2414086
-----CAAUUUGGAUCAGCUGGGACAUUGGUACCUGGUCUACAGGUAAUGCUCUAG
-----.............((((..(((...((((((.....)))))))))..)))) ( -13.70, z-score =  -1.19, R)
>consensus
GCAUGAGCUAUUGGCCAACGCUUAGGCCGUGGGCCAAUACACGAGUUAUGGCCCAG
((...(((((((((((.((((....)).)).))))))).....))))...)).... ( -9.20 = -10.51 +   1.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:27:14 2011