Locus 2047

Sequence ID dm3.chr2L
Location 15,871,649 – 15,871,741
Length 92
Max. P 0.841361
window2814 window2815

overview

Window 4

Location 15,871,649 – 15,871,741
Length 92
Sequences 8
Columns 119
Reading direction forward
Mean pairwise identity 77.13
Shannon entropy 0.38177
G+C content 0.41757
Mean single sequence MFE -24.96
Consensus MFE -11.58
Energy contribution -11.64
Covariance contribution 0.06
Combinations/Pair 1.19
Mean z-score -2.14
Structure conservation index 0.46
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.22
SVM RNA-class probability 0.599932
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 15871649 92 + 23011544
UGACAGUCCCUGCGGCGACAAAAAGUUGCCAA------------------------ACAGAAACAUUCCGUAAGUUUAUUUAUGGAAUUCU---GCCGCCAAGGAAUUGAGAAUGUUAU
...((((.(((((((((((.....))))))..------------------------.((((...((((((((((....)))))))))))))---)..))..))).)))).......... ( -28.30, z-score =  -3.87, R)
>droSim1.chr2L 15580604 92 + 22036055
UGACAGUCCCUGCGGCGACAAAAAGUUGCCAG------------------------AAAGAAACAUUCUGUAAGUUUAUUUAUGGAAUUCC---GCCGCCAAGGAAUUGAGAAUGUUAU
...((((.(((((((((.......(((.....------------------------.....)))((((((((((....))))))))))..)---)))))..))).)))).......... ( -23.30, z-score =  -2.21, R)
>droSec1.super_5 4603108 92 + 5866729
UGACAGUCCCUGCGGCGACAAAAAGUUGCCAG------------------------AAAGAAACAUUCUGUAAGUUUAUUUAUGGAAUCCU---GCCGCCAAGGAAUUGAGAAUGUUAU
...((((.(((((((((((.....))))))..------------------------........((((((((((....))))))))))...---...))..))).)))).......... ( -22.00, z-score =  -1.74, R)
>droYak2.chr2L 2849511 92 - 22324452
UGGCAGUCGCUGCGGCGACAAAAAGUUUCCAA------------------------AAAGAAACAUUCCGUAAGCUUAUUUAUGGAAUUUU---GCCGCCAAGGAAUUGAGGAUAUAGA
((((.(((((....))))).....(((((...------------------------...)))))((((((((((....))))))))))...---...)))).................. ( -26.20, z-score =  -2.24, R)
>droEre2.scaffold_4929 7570082 92 + 26641161
UGACAGUCCCUGCGGCGACAAAAAGUUGCCAG------------------------AAAGAAACAUUCCGUAAGUUUAUUUAUGGAAUUCU---GCCGCCAAGGAAUUGAGAAUGUUAU
...((((.(((((((((((.....)))))).(------------------------..(((...((((((((((....)))))))))))))---..)))..))).)))).......... ( -26.40, z-score =  -3.29, R)
>droPer1.super_49 124062 93 - 569410
UGACAGUCCCUGCGGUGGCACAAAGUUGGCCG-----------------------AAAAGAAACAUUUUGGGAGCAUAUUUAUGGGCUCAA---GUCACCGAGGAAUUGCAGAUGUAAU
((.((((.(((.(((((((..........(((-----------------------(((.......))))))((((..........))))..---)))))))))).))))))........ ( -28.50, z-score =  -1.99, R)
>dp4.chr4_group4 4689045 93 + 6586962
UGACAGUCCCUGCGGUGGCACAAAGUUGGCCG-----------------------AAAAGAAACAUUUUGGAAGCAUAUUUAUGGGCUCAA---GUCACCGAGGAAUUGCAGAUGUAAU
((.((((.(((.(((((((.....(((..(((-----------------------(((.......)))))).))).......((....)).---)))))))))).))))))........ ( -24.60, z-score =  -0.97, R)
>droWil1.scaffold_180772 6335764 119 + 8906247
UGACAGUCCCUACGGUGAGAGAAAGUUGCCAACCAAAAAAAAAAAAAUAAAAUGCAAAAGAAACAUUUCACCAGCAUAUUUAUGGGCCUAUUGUGCCACCAAGGAAUUGAAGAAGUAAU
...((((.(((..(((((((.....((((........................))))........)))))))............((((....).)))....))).)))).......... ( -20.38, z-score =  -0.84, R)
>consensus
UGACAGUCCCUGCGGCGACAAAAAGUUGCCAG________________________AAAGAAACAUUCCGUAAGCUUAUUUAUGGAAUUCU___GCCGCCAAGGAAUUGAGAAUGUAAU
...((((.(((..((((((.....))))))....................................................(((.............)))))).)))).......... (-11.58 = -11.64 +   0.06)

alignment

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secondary structure

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dotplot

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Window 5

Location 15,871,649 – 15,871,741
Length 92
Sequences 8
Columns 119
Reading direction reverse
Mean pairwise identity 77.13
Shannon entropy 0.38177
G+C content 0.41757
Mean single sequence MFE -24.33
Consensus MFE -12.52
Energy contribution -12.11
Covariance contribution -0.41
Combinations/Pair 1.18
Mean z-score -2.25
Structure conservation index 0.51
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.87
SVM RNA-class probability 0.841361
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 15871649 92 - 23011544
AUAACAUUCUCAAUUCCUUGGCGGC---AGAAUUCCAUAAAUAAACUUACGGAAUGUUUCUGU------------------------UUGGCAACUUUUUGUCGCCGCAGGGACUGUCA
..........((.((((((((((((---((((((((.(((......))).)))))........------------------------..(....)..)))))))))).))))).))... ( -26.10, z-score =  -2.87, R)
>droSim1.chr2L 15580604 92 - 22036055
AUAACAUUCUCAAUUCCUUGGCGGC---GGAAUUCCAUAAAUAAACUUACAGAAUGUUUCUUU------------------------CUGGCAACUUUUUGUCGCCGCAGGGACUGUCA
..........((.((((((((((((---((((..(((.(((.((((.........)))).)))------------------------.))).....))))))))))).))))).))... ( -25.10, z-score =  -2.98, R)
>droSec1.super_5 4603108 92 - 5866729
AUAACAUUCUCAAUUCCUUGGCGGC---AGGAUUCCAUAAAUAAACUUACAGAAUGUUUCUUU------------------------CUGGCAACUUUUUGUCGCCGCAGGGACUGUCA
..........((.((((((((((((---((((..(((.(((.((((.........)))).)))------------------------.))).....))))))))))).))))).))... ( -25.50, z-score =  -3.02, R)
>droYak2.chr2L 2849511 92 + 22324452
UCUAUAUCCUCAAUUCCUUGGCGGC---AAAAUUCCAUAAAUAAGCUUACGGAAUGUUUCUUU------------------------UUGGAAACUUUUUGUCGCCGCAGCGACUGCCA
...................((((((---((((((((.(((......))).)))))((((((..------------------------..))))))..)))))))))((((...)))).. ( -26.90, z-score =  -3.58, R)
>droEre2.scaffold_4929 7570082 92 - 26641161
AUAACAUUCUCAAUUCCUUGGCGGC---AGAAUUCCAUAAAUAAACUUACGGAAUGUUUCUUU------------------------CUGGCAACUUUUUGUCGCCGCAGGGACUGUCA
..........((.((((((((((((---((((((((.(((......))).)))))........------------------------..(....)..)))))))))).))))).))... ( -26.10, z-score =  -3.34, R)
>droPer1.super_49 124062 93 + 569410
AUUACAUCUGCAAUUCCUCGGUGAC---UUGAGCCCAUAAAUAUGCUCCCAAAAUGUUUCUUUU-----------------------CGGCCAACUUUGUGCCACCGCAGGGACUGUCA
.........(((.(((((((((...---..((((..........))))................-----------------------.(((((....)).))))))).))))).))).. ( -21.30, z-score =  -1.07, R)
>dp4.chr4_group4 4689045 93 - 6586962
AUUACAUCUGCAAUUCCUCGGUGAC---UUGAGCCCAUAAAUAUGCUUCCAAAAUGUUUCUUUU-----------------------CGGCCAACUUUGUGCCACCGCAGGGACUGUCA
.........(((.((((((((((((---(((.(((...((((((.........)))))).....-----------------------.))))))....))..))))).))))).))).. ( -19.20, z-score =  -0.32, R)
>droWil1.scaffold_180772 6335764 119 - 8906247
AUUACUUCUUCAAUUCCUUGGUGGCACAAUAGGCCCAUAAAUAUGCUGGUGAAAUGUUUCUUUUGCAUUUUAUUUUUUUUUUUUUGGUUGGCAACUUUCUCUCACCGUAGGGACUGUCA
..........((.(((((((((((........(((..((((......((((((((((.......))))))))))........))))...))).........)))))).))))).))... ( -24.47, z-score =  -0.86, R)
>consensus
AUAACAUCCUCAAUUCCUUGGCGGC___AGAAUUCCAUAAAUAAACUUACAGAAUGUUUCUUU________________________CUGGCAACUUUUUGUCGCCGCAGGGACUGUCA
..........((.((((((((((((...................((.........))................................(....).....))))))).))))).))... (-12.52 = -12.11 +  -0.41)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:43:44 2011