Locus 1768

Sequence ID dm3.chr2L
Location 13,627,432 – 13,627,548
Length 116
Max. P 0.991188
window2430 window2431

overview

Window 0

Location 13,627,432 – 13,627,548
Length 116
Sequences 4
Columns 119
Reading direction forward
Mean pairwise identity 92.06
Shannon entropy 0.12850
G+C content 0.31392
Mean single sequence MFE -23.98
Consensus MFE -22.27
Energy contribution -22.46
Covariance contribution 0.19
Combinations/Pair 1.08
Mean z-score -2.68
Structure conservation index 0.93
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.46
SVM RNA-class probability 0.991188
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 13627432 116 + 23011544
AUGAAGGCAGUGUCGAGUGCACUCAGAAAUACAAUAAAUGCAG---CUCUCUAUUUUAUUUCAAAAAAUUAUCUUUUAUUUCAUUUUCUCCUUUUGCGCUCGACCCUUUUAAAUAAGAA
..(((((....((((((((((....((((((.((((.......---.....)))).)))))).((((......)))).................))))))))))))))).......... ( -22.50, z-score =  -2.03, R)
>droEre2.scaffold_4929 14810065 117 - 26641161
AUGAAGCCAGUGUCGAGUGCACUCAGAAAUACAAUAAAUGCAUACUCUCUCUGUUUUAUUUCUACAAAUUAUCUUUUAUAUCAUUUUCUGCUCUUGCUCUCGACACU--CGAAUAAGAA
......(.(((((((((.(((..((((((...((((((.(((.........))))))))).....(((......))).......))))))....))).)))))))))--.)........ ( -22.60, z-score =  -1.99, R)
>droSim1.chr2L 13396282 116 + 22036055
AUGAAGGCAGUGUCGAGUGCACUCAGAAAUACAAUAAAUGCAG---CUCUCUAUUUUAUUUCAAAAAAUUAUCUUUUAUUUCAUUUUCUCCUUUUGCACUCGACACUUUUAAAUAAGAA
........(((((((((((((....((((((.((((.......---.....)))).)))))).((((......)))).................)))))))))))))............ ( -25.40, z-score =  -3.36, R)
>droSec1.super_16 1762995 116 + 1878335
AUGAAGGCAGUGUCGAGUGCACUCAGAAAUACAAUAAAUGCAG---CUUUCUAUUUUAUUUCAAAAAAUUAUCUUUUAUUUCAUUUUCUCCUUUUGCACUCGACACUUUUAAAUAAGAA
........(((((((((((((....((((((.((((.......---.....)))).)))))).((((......)))).................)))))))))))))............ ( -25.40, z-score =  -3.35, R)
>consensus
AUGAAGGCAGUGUCGAGUGCACUCAGAAAUACAAUAAAUGCAG___CUCUCUAUUUUAUUUCAAAAAAUUAUCUUUUAUUUCAUUUUCUCCUUUUGCACUCGACACUUUUAAAUAAGAA
........(((((((((((((....((((((.((((...............)))).))))))...(((......))).................)))))))))))))............ (-22.27 = -22.46 +   0.19)

alignment

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secondary structure

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dotplot

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Window 1

Location 13,627,432 – 13,627,548
Length 116
Sequences 4
Columns 119
Reading direction reverse
Mean pairwise identity 92.06
Shannon entropy 0.12850
G+C content 0.31392
Mean single sequence MFE -29.09
Consensus MFE -24.47
Energy contribution -25.34
Covariance contribution 0.88
Combinations/Pair 1.07
Mean z-score -2.81
Structure conservation index 0.84
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.03
SVM RNA-class probability 0.979727
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 13627432 116 - 23011544
UUCUUAUUUAAAAGGGUCGAGCGCAAAAGGAGAAAAUGAAAUAAAAGAUAAUUUUUUGAAAUAAAAUAGAGAG---CUGCAUUUAUUGUAUUUCUGAGUGCACUCGACACUGCCUUCAU
...........((((((((((.(((.....(((((((.............)))))))((((((.((((((...---.....)))))).))))))....))).))))))....))))... ( -23.62, z-score =  -0.97, R)
>droEre2.scaffold_4929 14810065 117 + 26641161
UUCUUAUUCG--AGUGUCGAGAGCAAGAGCAGAAAAUGAUAUAAAAGAUAAUUUGUAGAAAUAAAACAGAGAGAGUAUGCAUUUAUUGUAUUUCUGAGUGCACUCGACACUGGCUUCAU
........(.--(((((((((.(((....((((((....((((((......))))))....................((((.....))))))))))..))).))))))))).)...... ( -29.90, z-score =  -2.22, R)
>droSim1.chr2L 13396282 116 - 22036055
UUCUUAUUUAAAAGUGUCGAGUGCAAAAGGAGAAAAUGAAAUAAAAGAUAAUUUUUUGAAAUAAAAUAGAGAG---CUGCAUUUAUUGUAUUUCUGAGUGCACUCGACACUGCCUUCAU
............(((((((((((((.....(((((((.............)))))))((((((.((((((...---.....)))))).))))))....)))))))))))))........ ( -31.82, z-score =  -4.02, R)
>droSec1.super_16 1762995 116 - 1878335
UUCUUAUUUAAAAGUGUCGAGUGCAAAAGGAGAAAAUGAAAUAAAAGAUAAUUUUUUGAAAUAAAAUAGAAAG---CUGCAUUUAUUGUAUUUCUGAGUGCACUCGACACUGCCUUCAU
............(((((((((((((.....(((((((.............)))))))((((((.((((((...---.....)))))).))))))....)))))))))))))........ ( -31.02, z-score =  -4.03, R)
>consensus
UUCUUAUUUAAAAGUGUCGAGUGCAAAAGGAGAAAAUGAAAUAAAAGAUAAUUUUUUGAAAUAAAAUAGAGAG___CUGCAUUUAUUGUAUUUCUGAGUGCACUCGACACUGCCUUCAU
............(((((((((((((.....(((((((.............))))))).........((((((.....((((.....))))))))))..)))))))))))))........ (-24.47 = -25.34 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:38:26 2011