Locus 15124

Sequence ID dm3.chrX
Location 17,505,078 – 17,505,232
Length 154
Max. P 0.879682
window20841 window20842

overview

Window 1

Location 17,505,078 – 17,505,192
Length 114
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 94.43
Shannon entropy 0.09765
G+C content 0.41267
Mean single sequence MFE -32.35
Consensus MFE -22.06
Energy contribution -23.14
Covariance contribution 1.08
Combinations/Pair 1.06
Mean z-score -2.85
Structure conservation index 0.68
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.74
SVM RNA-class probability 0.803204
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 17505078 114 + 22422827
UCAUCCUUCGUGACAAGCCAUUAUUCAACCCCUU--GCCGGGCAGUAAAAACUAGUACUUGUGUACAGUCUAUUAAAUCCUCAAGGAUAUGAAUAAUGCUGCUGAGCGUGGAACAU
...(((..(((....((((((((((((...((((--(..(((...(((..(((.((((....)))))))...)))...))))))))...)))))))))..)))..))).))).... ( -31.80, z-score =  -2.77, R)
>droYak2.chrX 16132696 116 + 21770863
UCAUCCUUCAUGAGAAGCCAUUAUUCAACCCCUUUUGCAGGGCAGUAAAAACUAGUACUAGUUUGCAGUCUAUUAAAUCCUCAAGGAUAUGAAUAAUGCUUCUGAGCGUGCAACAU
........((((((((((.((((((((.......(((((((..((((........))))..)))))))........((((....)))).))))))))))))))...))))...... ( -27.90, z-score =  -1.92, R)
>droEre2.scaffold_4690 7841928 114 + 18748788
UCAUCCUUAGUGACACGCCAUUAUUCAACCCCUU--GCAGGGCAGUAAAAACUAGUACUUGUGUACAGUCUAUUAAGUCCUCAAGGAUAUGAAUAAUGCUUCUGAGCGUGGAACAU
.........((..((((((((((((((...((((--(.(((((.......(((.((((....))))))).......))))))))))...))))))))).......)))))..)).. ( -37.25, z-score =  -4.23, R)
>droSec1.super_17 1347884 114 + 1527944
UCAUCCUUCGUGACAAGCCAUUAUUCAACCGCUU--GCCGGGCAGUAAAAACUAGUACUUGUGUACAGUCUAUUAAAUCCUCAAGGAUAUGAAUAAUGGUGCUGAGCGUGGAACAU
...(((..(((.....(((((((((((.......--...(((((((....))).((((....)))).)))).....((((....)))).))))))))))).....))).))).... ( -33.00, z-score =  -2.57, R)
>droSim1.chrX_random 4493276 114 + 5698898
UCAUCCUUCGUGACAAGCCAUUAUUCAACCCCUU--GCCGGGCAGUAAAAACUAGUACUUGUGUACAGUCUAUUAAAUCCUCAAGGAUAUGAAUAAUGCUGCUGAGCGUGGAACAU
...(((..(((....((((((((((((...((((--(..(((...(((..(((.((((....)))))))...)))...))))))))...)))))))))..)))..))).))).... ( -31.80, z-score =  -2.77, R)
>consensus
UCAUCCUUCGUGACAAGCCAUUAUUCAACCCCUU__GCCGGGCAGUAAAAACUAGUACUUGUGUACAGUCUAUUAAAUCCUCAAGGAUAUGAAUAAUGCUGCUGAGCGUGGAACAU
...(((..(((....((((((((((((............(((((((....))).((((....)))).)))).....((((....)))).)))))))))..)))..))).))).... (-22.06 = -23.14 +   1.08)

alignment

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secondary structure

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dotplot

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Window 2

Location 17,505,112 – 17,505,232
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 72.06
Shannon entropy 0.55906
G+C content 0.41873
Mean single sequence MFE -30.51
Consensus MFE -16.50
Energy contribution -17.53
Covariance contribution 1.03
Combinations/Pair 1.32
Mean z-score -1.31
Structure conservation index 0.54
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.04
SVM RNA-class probability 0.879682
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 17505112 120 + 22422827
GCCGGGCAGUAAAAACUAGUACUUGUGUACAGUCUAUUAAAUCCUCAAGGAUAUGAAUAAUGCUGCUGAGCGUGGAACAUCAGUUGCAUGUCCUUGGCCAAAGACCCACGCUUAGUCUUA
(((((((((((...(((.((((....)))))))...(((.((((....)))).)))....)))))))(..((((.(((....))).))))..).))))..(((((.........))))). ( -34.10, z-score =  -1.56, R)
>droAna3.scaffold_13248 1927816 101 - 4840945
-------------ACAGGAUUCUUAUGGAUCUGAUAUAAAGGAUUCAAGGAUAAAAAUA------CUAAGUGUGAGCCUACUUUUCAAGAUAUUUGAGCCUGGAGUUCCUUUGAAAUUUC
-------------...((((((....))))))....((((((((((.(((....(((((------(((((((......)))))....)).)))))...))).))).)))))))....... ( -21.40, z-score =  -0.48, R)
>droYak2.chrX 16132732 120 + 21770863
GCAGGGCAGUAAAAACUAGUACUAGUUUGCAGUCUAUUAAAUCCUCAAGGAUAUGAAUAAUGCUUCUGAGCGUGCAACAUCAGUUGCAUGUCCUCAGCCAAAGACCCACGGUAAGUGUUA
(((((..((((........))))..))))).((((.(((.((((....)))).))).........(((((((((((((....))))))))..)))))....)))).(((.....)))... ( -31.80, z-score =  -1.46, R)
>droEre2.scaffold_4690 7841962 101 + 18748788
GCAGGGCAGUAAAAACUAGUACUUGUGUACAGUCUAUUAAGUCCUCAAGGAUAUGAAUAAUGCUUCUGAGCGUGGAACAUCAGUGGCAUGUCCUUGUCCAA-------------------
(.(((((.......(((.((((....))))))).......))))))..(((((.((...(((((.((((..(.....).)))).))))).))..)))))..------------------- ( -28.34, z-score =  -1.59, R)
>droSec1.super_17 1347918 120 + 1527944
GCCGGGCAGUAAAAACUAGUACUUGUGUACAGUCUAUUAAAUCCUCAAGGAUAUGAAUAAUGGUGCUGAGCGUGGAACAUCAGUUGCAUGUCCUUGGCCAAAGACCCACGCUUAGUCUUA
((((((((((....))).((((....)))).)))).(((.((((....)))).))).....)))((((((((((((((....)))....(((.((....)).)))))))))))))).... ( -34.20, z-score =  -1.43, R)
>droSim1.chrX_random 4493310 120 + 5698898
GCCGGGCAGUAAAAACUAGUACUUGUGUACAGUCUAUUAAAUCCUCAAGGAUAUGAAUAAUGCUGCUGAGCGUGGAACAUCAGUUGCAUGUCCUUGGCCAAAGACCCACGCUUAGUCUAA
(((((((((((...(((.((((....)))))))...(((.((((....)))).)))....)))))))(..((((.(((....))).))))..).))))...((((.........)))).. ( -33.20, z-score =  -1.36, R)
>consensus
GCCGGGCAGUAAAAACUAGUACUUGUGUACAGUCUAUUAAAUCCUCAAGGAUAUGAAUAAUGCUGCUGAGCGUGGAACAUCAGUUGCAUGUCCUUGGCCAAAGACCCACGCUUAGUCUUA
....(((.......(((.((((....)))))))............((((((((((....(((((....))))).............)))))))))))))..................... (-16.50 = -17.53 +   1.03)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:53:29 2011