Locus 6447

Sequence ID dm3.chr3L
Location 6,767,917 – 6,768,027
Length 110
Max. P 0.996376
window8876 window8877

overview

Window 6

Location 6,767,917 – 6,768,027
Length 110
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 91.15
Shannon entropy 0.17293
G+C content 0.32109
Mean single sequence MFE -25.61
Consensus MFE -23.94
Energy contribution -23.80
Covariance contribution -0.14
Combinations/Pair 1.04
Mean z-score -2.68
Structure conservation index 0.93
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.61
SVM RNA-class probability 0.993351
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 6767917 110 + 24543557
GAUAAAAUAGUUUAACCUCGGCAAAAAUCGCGUUUUGAAUUUGAAAUGCGAUUUUUGUGGUUGCGUUUUAGUUGGGUUUUGUGUGUUUAUUUUUAUAUUUUGGUGUUUCG
((((((.......((((((.((((((((((((((((......)))))))))))))))).)..((......)).))))).......))))))................... ( -25.84, z-score =  -2.69, R)
>droSim1.chr3L 6249256 110 + 22553184
GAUAAAAUAGUUUAACCUCGGCAAAAAUCGCGUUUUGAAUUUGAAAUGCGAUUUUUGUGGUUGCGUUUUAGUUUGGUCUUGUGUGUUUAUUUUUAUAUUUUGGUGUUUCG
(((.((((((..(((((...((((((((((((((((......)))))))))))))))))))))..))...)))).)))..(((((........)))))............ ( -24.40, z-score =  -2.28, R)
>droSec1.super_2 6704361 110 + 7591821
GAUAAAAUAGUUUAACCUCGGCAAAAAUCGCGUUUUGAAUUUGAAAUGCGAUUUUUGUGGUUGCGUUUUAGUUUGGUCUUGUGUGUUUUUUUUUAUAUUUUGGUGUUUCG
(((.((((((..(((((...((((((((((((((((......)))))))))))))))))))))..))...)))).)))..(((((........)))))............ ( -24.40, z-score =  -2.32, R)
>droYak2.chr3L 7355500 110 + 24197627
GAUAAAAUAGUUUAACCUCGGCAAAAAUCGCGUUUUGAAUUUGAAAUGCGAUUUUUGUGGUUGCGUUUUAGUUUGGUCUUGUGUGUUUAUUUUUAUAUUUUGGUGUUUCG
(((.((((((..(((((...((((((((((((((((......)))))))))))))))))))))..))...)))).)))..(((((........)))))............ ( -24.40, z-score =  -2.28, R)
>droEre2.scaffold_4784 21172045 110 - 25762168
GAUAAAAUAGUUUAACCUCGGCAAAAAUCGCGUUUUGAAUUUGAAAUGCGAUUUUUGUGGUUGCGUUUUAGUUUGGACUCGUGUGUUUAUUUUUAUAUUUUGGUGUUUCG
..(((((((...(((((...((((((((((((((((......)))))))))))))))))))))..........(((((......)))))......)))))))........ ( -27.20, z-score =  -2.69, R)
>droAna3.scaffold_13337 3152064 98 - 23293914
GAUAAAAUAGUUUAACCUCGGCAAGAAUCGCGUUUUGAAUUUGAAAUGCGAUUUUUGUGGUUGUGUUUUAUUUU---UUUGACUACGU-UUUUGGUGUUUCG--------
(((((((((...(((((...((((((((((((((((......))))))))))))))))))))))))))))))..---....((((...-...))))......-------- ( -27.40, z-score =  -3.82, R)
>consensus
GAUAAAAUAGUUUAACCUCGGCAAAAAUCGCGUUUUGAAUUUGAAAUGCGAUUUUUGUGGUUGCGUUUUAGUUUGGUCUUGUGUGUUUAUUUUUAUAUUUUGGUGUUUCG
..((((((....(((((...((((((((((((((((......))))))))))))))))))))).))))))........................................ (-23.94 = -23.80 +  -0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 6,767,917 – 6,768,027
Length 110
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 91.15
Shannon entropy 0.17293
G+C content 0.32109
Mean single sequence MFE -13.50
Consensus MFE -13.43
Energy contribution -13.60
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -2.62
Structure conservation index 1.00
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.92
SVM RNA-class probability 0.996376
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 6767917 110 - 24543557
CGAAACACCAAAAUAUAAAAAUAAACACACAAAACCCAACUAAAACGCAACCACAAAAAUCGCAUUUCAAAUUCAAAACGCGAUUUUUGCCGAGGUUAAACUAUUUUAUC
................................................((((.((((((((((.(((........))).))))))))))....))))............. ( -13.90, z-score =  -3.27, R)
>droSim1.chr3L 6249256 110 - 22553184
CGAAACACCAAAAUAUAAAAAUAAACACACAAGACCAAACUAAAACGCAACCACAAAAAUCGCAUUUCAAAUUCAAAACGCGAUUUUUGCCGAGGUUAAACUAUUUUAUC
................................................((((.((((((((((.(((........))).))))))))))....))))............. ( -13.90, z-score =  -2.96, R)
>droSec1.super_2 6704361 110 - 7591821
CGAAACACCAAAAUAUAAAAAAAAACACACAAGACCAAACUAAAACGCAACCACAAAAAUCGCAUUUCAAAUUCAAAACGCGAUUUUUGCCGAGGUUAAACUAUUUUAUC
................................................((((.((((((((((.(((........))).))))))))))....))))............. ( -13.90, z-score =  -2.89, R)
>droYak2.chr3L 7355500 110 - 24197627
CGAAACACCAAAAUAUAAAAAUAAACACACAAGACCAAACUAAAACGCAACCACAAAAAUCGCAUUUCAAAUUCAAAACGCGAUUUUUGCCGAGGUUAAACUAUUUUAUC
................................................((((.((((((((((.(((........))).))))))))))....))))............. ( -13.90, z-score =  -2.96, R)
>droEre2.scaffold_4784 21172045 110 + 25762168
CGAAACACCAAAAUAUAAAAAUAAACACACGAGUCCAAACUAAAACGCAACCACAAAAAUCGCAUUUCAAAUUCAAAACGCGAUUUUUGCCGAGGUUAAACUAUUUUAUC
.................((((((........(((....))).......((((.((((((((((.(((........))).))))))))))....))))....))))))... ( -14.80, z-score =  -2.46, R)
>droAna3.scaffold_13337 3152064 98 + 23293914
--------CGAAACACCAAAA-ACGUAGUCAAA---AAAAUAAAACACAACCACAAAAAUCGCAUUUCAAAUUCAAAACGCGAUUCUUGCCGAGGUUAAACUAUUUUAUC
--------.............-...........---((((((......((((.(((.((((((.(((........))).)))))).)))....))))....))))))... ( -10.60, z-score =  -1.17, R)
>consensus
CGAAACACCAAAAUAUAAAAAUAAACACACAAGACCAAACUAAAACGCAACCACAAAAAUCGCAUUUCAAAUUCAAAACGCGAUUUUUGCCGAGGUUAAACUAUUUUAUC
................................................((((.((((((((((.(((........))).))))))))))....))))............. (-13.43 = -13.60 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:07:58 2011