Locus 5600

Sequence ID dm3.chr3LHet
Location 1,805,291 – 1,805,388
Length 97
Max. P 0.978230
window7690 window7691

overview

Window 0

Location 1,805,291 – 1,805,388
Length 97
Sequences 5
Columns 100
Reading direction forward
Mean pairwise identity 76.02
Shannon entropy 0.42856
G+C content 0.40685
Mean single sequence MFE -22.60
Consensus MFE -17.10
Energy contribution -16.90
Covariance contribution -0.20
Combinations/Pair 1.25
Mean z-score -1.83
Structure conservation index 0.76
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.99
SVM RNA-class probability 0.978230
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3LHet 1805291 97 + 2555491
CAUAAAUUUUGUGGGACGAACACACAAACUCUAUGAGCUAGCCGUUGCAACUUGUAGCGAGCAGAAUUAAGAAAAAA-GUCCGUUACAAAUGUAUUGA--
((.....((((((((((...........(((...)))...((((((((.....)))))).))...............-))))..)))))).....)).-- ( -19.40, z-score =  -0.62, R)
>droSim1.chrU 12030294 92 + 15797150
CACAAAUUUGGUGGGACGAACGCACAAACUCUCUGAGCUAGCCGCUGCAAUCAGUAGCGAGCGAAAUAAAGAAAAUCAGUUCGUUACAUCUG--------
.........((((..((((((((.((.......)).))..((((((((.....)))))).))................))))))..))))..-------- ( -27.80, z-score =  -2.84, R)
>droSec1.super_62 172444 92 - 174595
CAUAAAUUUGGUGGGACGAACGCACUAACUCUCUGAGCUAGCCGCUACAAUCAGUAGCGAGCGAAAUAAUGAAAAUCAGUUCGUUACAUCUG--------
.........((((..((((((((.(((.(((...))).))).((((((.....)))))).)).......((.....))))))))..))))..-------- ( -27.10, z-score =  -3.08, R)
>droEre2.scaffold_4929 23417779 99 + 26641161
-AUAAAUUUGGUAGGACGAACAAACAAACUUUCUGAGCUAGCCGUUUCAAUUCGUAACGAGCAGAACCCAGAAAAACAGUUCGUUACAAUUCAUUAUUCA
-......(((....(((((((........((((((..((.((((((.(.....).)))).))))....))))))....))))))).)))........... ( -17.60, z-score =  -1.25, R)
>droAna3.scaffold_13034 1027812 93 - 2223656
UAUAAAUUCGGUGGGACGAAC-CACAAACUCUGUGAGCUAGCCGCGGCA-UUUGUUGCGAACGUAAACAAGAAAAAAAGUUCGUUACAAAAAUAU-----
..........((((......)-))).....(((((.(....))))))..-(((((.((((((................)))))).))))).....----- ( -21.09, z-score =  -1.35, R)
>consensus
CAUAAAUUUGGUGGGACGAACACACAAACUCUCUGAGCUAGCCGCUGCAAUUAGUAGCGAGCGAAAUAAAGAAAAACAGUUCGUUACAAAUG__U_____
...........((.(((((((.......(((...)))...((((((((.....)))))).))................))))))).))............ (-17.10 = -16.90 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 1,805,291 – 1,805,388
Length 97
Sequences 5
Columns 100
Reading direction reverse
Mean pairwise identity 76.02
Shannon entropy 0.42856
G+C content 0.40685
Mean single sequence MFE -22.47
Consensus MFE -13.92
Energy contribution -13.80
Covariance contribution -0.12
Combinations/Pair 1.20
Mean z-score -1.52
Structure conservation index 0.62
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.73
SVM RNA-class probability 0.801389
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3LHet 1805291 97 - 2555491
--UCAAUACAUUUGUAACGGAC-UUUUUUCUUAAUUCUGCUCGCUACAAGUUGCAACGGCUAGCUCAUAGAGUUUGUGUGUUCGUCCCACAAAAUUUAUG
--........(((((...((((-.........(((((((...((((...((....))...))))...))))))).........)))).)))))....... ( -15.87, z-score =   0.09, R)
>droSim1.chrU 12030294 92 - 15797150
--------CAGAUGUAACGAACUGAUUUUCUUUAUUUCGCUCGCUACUGAUUGCAGCGGCUAGCUCAGAGAGUUUGUGCGUUCGUCCCACCAAAUUUGUG
--------..((((.((((.((.((((((((.......(((.((..(((....)))..)).)))..)))))))).)).)))))))).............. ( -23.70, z-score =  -1.03, R)
>droSec1.super_62 172444 92 + 174595
--------CAGAUGUAACGAACUGAUUUUCAUUAUUUCGCUCGCUACUGAUUGUAGCGGCUAGCUCAGAGAGUUAGUGCGUUCGUCCCACCAAAUUUAUG
--------..((((.((((.((((((((((........((.((((((.....)))))))).......)))))))))).)))))))).............. ( -29.36, z-score =  -3.56, R)
>droEre2.scaffold_4929 23417779 99 - 26641161
UGAAUAAUGAAUUGUAACGAACUGUUUUUCUGGGUUCUGCUCGUUACGAAUUGAAACGGCUAGCUCAGAAAGUUUGUUUGUUCGUCCUACCAAAUUUAU-
......((((((...((((((((....(((((((((..((.((((.(.....).)))))).))))))))))))))))).))))))..............- ( -26.00, z-score =  -2.78, R)
>droAna3.scaffold_13034 1027812 93 + 2223656
-----AUAUUUUUGUAACGAACUUUUUUUCUUGUUUACGUUCGCAACAAA-UGCCGCGGCUAGCUCACAGAGUUUGUG-GUUCGUCCCACCGAAUUUAUA
-----.......((..(((((((..............(((..(((.....-))).)))((.(((((...))))).)))-))))))..))........... ( -17.40, z-score =  -0.33, R)
>consensus
_____A__CAGUUGUAACGAACUGUUUUUCUUGAUUCCGCUCGCUACAAAUUGCAGCGGCUAGCUCAGAGAGUUUGUGCGUUCGUCCCACCAAAUUUAUG
............((..((((((................((.((((.(.....).)))))).(((((...))))).....))))))..))........... (-13.92 = -13.80 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:51:31 2011