Locus 13920

Sequence ID dm3.chrX
Location 10,001,925 – 10,002,033
Length 108
Max. P 0.998310
window19147 window19148

overview

Window 7

Location 10,001,925 – 10,002,033
Length 108
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 68.02
Shannon entropy 0.61823
G+C content 0.38077
Mean single sequence MFE -23.10
Consensus MFE -9.25
Energy contribution -10.84
Covariance contribution 1.59
Combinations/Pair 1.38
Mean z-score -2.30
Structure conservation index 0.40
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.18
SVM RNA-class probability 0.984938
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 10001925 108 + 22422827
ACAAACUCAAAACUUAAACUCGAGCUCUGGCAUCGACAACAAUGCAAGCCAUUGCAUAAAUUAUUGGAAAUUUAUGCGAAAAUUACAGCAAC-----AACUGCGACGGCAAAA--
...................((((((....)).))))...........(((.(((((((((((......)))))))))))........(((..-----...)))...)))....-- ( -23.60, z-score =  -2.91, R)
>droAna3.scaffold_13047 835432 108 + 1816235
UCUGGCUGGAA-----GACUCUGGUCCGGGCCUCG--AACAAUGCCAGGCAUUGCAUAAAUUAUUGCAAAUUUAUGCGAAAAUCACAACAACUCUCUGCCGGUUGUGGCAGAGAA
.(((((..((.-----...))..).))))((((.(--.......).)))).(((((((((((......))))))))))).............(((((((((....))))))))). ( -38.50, z-score =  -3.34, R)
>droYak2.chrX 18584071 107 + 21770863
ACAAACUCCAA-CUUAAACUCGAGCUCUGGCAUCGUCAACAAUGCAAGCCAUUGCAUAAAUUAUUGGAAAUUUAUGCGAAAAUUACAGCAAC-----AACUGCGACAGCAAAA--
...........-...........(((.((((..(((.....)))...))))(((((((((((......))))))))))).......)))...-----...(((....)))...-- ( -19.40, z-score =  -1.04, R)
>droSec1.super_15 711023 108 + 1954846
ACAAACUCAAAACUUAAACUCGAGCUCUGGCAUCGACAACAAUGCAAGCCAUUGCAUAAAUUAUUGGAAAUUUAUGCGAAAAUUACAGCAAC-----AACUGCGACGGCAAAA--
...................((((((....)).))))...........(((.(((((((((((......)))))))))))........(((..-----...)))...)))....-- ( -23.60, z-score =  -2.91, R)
>droSim1.chrX_random 2856684 108 + 5698898
ACAAACUCAAAACUUAAACUCGAGCUCUGGCAUCGACAACAAUGCAAGCCAUUGCAUAAAUUAUUGGAAAUUUAUGCGAAAAUUACAGCAAC-----AACUGCGACGGCAAAA--
...................((((((....)).))))...........(((.(((((((((((......)))))))))))........(((..-----...)))...)))....-- ( -23.60, z-score =  -2.91, R)
>apiMel3.GroupUn 265387875 93 - 399230636
AUAUACCAAAAACAUCAUUCUGAUGUUACAAACAGAAAUUAAUGCCAUC---UGAAUUAAAAUUCGCAAAUUCGCAUGUCAACAAAUCCGAUAAAA-------------------
..........((((((.....))))))...............((.(((.---((((((..........)))))).))).))...............------------------- (  -9.90, z-score =  -0.73, R)
>consensus
ACAAACUCAAAACUUAAACUCGAGCUCUGGCAUCGACAACAAUGCAAGCCAUUGCAUAAAUUAUUGGAAAUUUAUGCGAAAAUUACAGCAAC_____AACUGCGACGGCAAAA__
.......................(((.(.(((..........(((......(((((((((((......)))))))))))........)))..........))).).)))...... ( -9.25 = -10.84 +   1.59)

alignment

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secondary structure

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dotplot

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Window 8

Location 10,001,925 – 10,002,033
Length 108
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 68.02
Shannon entropy 0.61823
G+C content 0.38077
Mean single sequence MFE -30.60
Consensus MFE -13.99
Energy contribution -17.32
Covariance contribution 3.33
Combinations/Pair 1.41
Mean z-score -2.66
Structure conservation index 0.46
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.32
SVM RNA-class probability 0.998310
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 10001925 108 - 22422827
--UUUUGCCGUCGCAGUU-----GUUGCUGUAAUUUUCGCAUAAAUUUCCAAUAAUUUAUGCAAUGGCUUGCAUUGUUGUCGAUGCCAGAGCUCGAGUUUAAGUUUUGAGUUUGU
--....(((((.(((((.-----...))))).......(((((((((......))))))))).)))))..((((((....))))))..(((((((((.......))))))))).. ( -33.90, z-score =  -3.83, R)
>droAna3.scaffold_13047 835432 108 - 1816235
UUCUCUGCCACAACCGGCAGAGAGUUGUUGUGAUUUUCGCAUAAAUUUGCAAUAAUUUAUGCAAUGCCUGGCAUUGUU--CGAGGCCCGGACCAGAGUC-----UUCCAGCCAGA
(((((((((......)))))))))..((((.((..((((((((((((......)))))))))....((.(((.((...--.)).))).))....)))..-----.)))))).... ( -36.30, z-score =  -3.00, R)
>droYak2.chrX 18584071 107 - 21770863
--UUUUGCUGUCGCAGUU-----GUUGCUGUAAUUUUCGCAUAAAUUUCCAAUAAUUUAUGCAAUGGCUUGCAUUGUUGACGAUGCCAGAGCUCGAGUUUAAG-UUGGAGUUUGU
--....(((((.(((((.-----...))))).......(((((((((......))))))))).)))))..((((((....))))))..((((((.((......-)).)))))).. ( -29.50, z-score =  -1.56, R)
>droSec1.super_15 711023 108 - 1954846
--UUUUGCCGUCGCAGUU-----GUUGCUGUAAUUUUCGCAUAAAUUUCCAAUAAUUUAUGCAAUGGCUUGCAUUGUUGUCGAUGCCAGAGCUCGAGUUUAAGUUUUGAGUUUGU
--....(((((.(((((.-----...))))).......(((((((((......))))))))).)))))..((((((....))))))..(((((((((.......))))))))).. ( -33.90, z-score =  -3.83, R)
>droSim1.chrX_random 2856684 108 - 5698898
--UUUUGCCGUCGCAGUU-----GUUGCUGUAAUUUUCGCAUAAAUUUCCAAUAAUUUAUGCAAUGGCUUGCAUUGUUGUCGAUGCCAGAGCUCGAGUUUAAGUUUUGAGUUUGU
--....(((((.(((((.-----...))))).......(((((((((......))))))))).)))))..((((((....))))))..(((((((((.......))))))))).. ( -33.90, z-score =  -3.83, R)
>apiMel3.GroupUn 265387875 93 + 399230636
-------------------UUUUAUCGGAUUUGUUGACAUGCGAAUUUGCGAAUUUUAAUUCA---GAUGGCAUUAAUUUCUGUUUGUAACAUCAGAAUGAUGUUUUUGGUAUAU
-------------------......(((((((((......)))))))))...........(((---((.(((((((..(((((..........)))))))))))))))))..... ( -16.10, z-score =   0.07, R)
>consensus
__UUUUGCCGUCGCAGUU_____GUUGCUGUAAUUUUCGCAUAAAUUUCCAAUAAUUUAUGCAAUGGCUUGCAUUGUUGUCGAUGCCAGAGCUCGAGUUUAAGUUUUGAGUUUGU
......(((((.(((((.........))))).......(((((((((......))))))))).)))))..((((((....))))))..(((((((((.......))))))))).. (-13.99 = -17.32 +   3.33)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:30:15 2011