Locus 2589

Sequence ID dm3.chr2L
Location 20,354,629 – 20,354,783
Length 154
Max. P 0.939958
window3555 window3556

overview

Window 5

Location 20,354,629 – 20,354,743
Length 114
Sequences 4
Columns 118
Reading direction reverse
Mean pairwise identity 82.40
Shannon entropy 0.28301
G+C content 0.31882
Mean single sequence MFE -17.83
Consensus MFE -13.99
Energy contribution -13.30
Covariance contribution -0.69
Combinations/Pair 1.29
Mean z-score -2.07
Structure conservation index 0.78
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.46
SVM RNA-class probability 0.939958
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 20354629 114 - 23011544
UCAGAUAUCUAUAGAAAGAAGUAAAAUCGC---AAUAUUUUCGAAUGCCUCGAAAAUUAUAUUACGACAUUGUUACUCACAA-AAACCCCCAAUAUUCCAAAGCUUAAUUGAAAUGGU
.................((.((((..(((.---(((((((((((.....))))))...))))).))).....))))))....-..............(((...(......)...))). ( -11.90, z-score =   0.19, R)
>droEre2.scaffold_4845 18519362 117 + 22589142
-CCAACAUUGCACGUAAAAAGCAAAAUUGCAAAAAUAUUUUCGAAAAACUCGAGAGUUAUAUUGCGACAUUGCUACCCACAAUCAAACCUAAAUAUUCCAAAGCAAAAUCCAAAUCUU
-..................(((((..((((((....((((((((.....))))))))....))))))..)))))............................................ ( -18.60, z-score =  -3.42, R)
>droSec1.super_18 248246 115 - 1342155
CGAGAUAUCUAUAGAAAGAAGCAAAAUCGC--AAAUAUUUUCGAAUGCCUCGAAAAUUAUAUUGCGACAUUGUUACCCACAA-AAAACCUCAAUAUUCCAAAGAUAAAUCCAACUGGU
.(((...(((......)))(((((..((((--((..((((((((.....))))))))....))))))..)))))........-.....)))..................((....)). ( -21.20, z-score =  -3.11, R)
>droSim1.chr2L 19928937 115 - 22036055
CGAGAUAUCUAUAGAAAGAAGCAAAAUCGC--AAAUAUUUUCGAAUGCCUCGAAAAUUAUAUUGCGACAUUGUUACCCACAA-AAAACAUUAAUAUUCCAAAGCUAAAUCGAAAUGGU
(((....(((......)))(((((..((((--((..((((((((.....))))))))....))))))..)))))........-.........................)))....... ( -19.60, z-score =  -1.94, R)
>consensus
CCAGAUAUCUAUAGAAAGAAGCAAAAUCGC__AAAUAUUUUCGAAUGCCUCGAAAAUUAUAUUGCGACAUUGUUACCCACAA_AAAACCUCAAUAUUCCAAAGCUAAAUCCAAAUGGU
...................(((((..((((......((((((((.....))))))))......))))..)))))............................................ (-13.99 = -13.30 +  -0.69)

alignment

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secondary structure

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dotplot

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Window 6

Location 20,354,668 – 20,354,783
Length 115
Sequences 4
Columns 118
Reading direction reverse
Mean pairwise identity 83.98
Shannon entropy 0.25231
G+C content 0.37160
Mean single sequence MFE -26.45
Consensus MFE -19.49
Energy contribution -18.80
Covariance contribution -0.69
Combinations/Pair 1.21
Mean z-score -1.90
Structure conservation index 0.74
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.67
SVM RNA-class probability 0.782407
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 20354668 115 - 23011544
AUUGGCACAUUGGAUUCUAAAGGCAAGUGCACUCUAUACAUCAGAUAUCUAUAGAAAGAAGUAAAAUCGC---AAUAUUUUCGAAUGCCUCGAAAAUUAUAUUACGACAUUGUUACUC
....((((.(((...........)))))))..((((((.((.....)).))))))....(((((..(((.---(((((((((((.....))))))...))))).))).....))))). ( -18.10, z-score =  -0.10, R)
>droEre2.scaffold_4845 18519402 114 + 22589142
AUGGGCACUUUGGAUUCUGAAAGCAAGUGCACUAGA----UCCAACAUUGCACGUAAAAAGCAAAAUUGCAAAAAUAUUUUCGAAAAACUCGAGAGUUAUAUUGCGACAUUGCUACCC
..(((((..((((((.(((...((....))..))))----)))))...)))........(((((..((((((....((((((((.....))))))))....))))))..))))).)). ( -31.50, z-score =  -3.50, R)
>droSec1.super_18 248285 113 - 1342155
AUUGGCACUUUGGAUUCCGAAGGCAAGUGCACUCGAU---CGAGAUAUCUAUAGAAAGAAGCAAAAUCGC--AAAUAUUUUCGAAUGCCUCGAAAAUUAUAUUGCGACAUUGUUACCC
....((.((((((...)))))))).......(((...---.)))...(((......)))(((((..((((--((..((((((((.....))))))))....))))))..))))).... ( -28.10, z-score =  -2.00, R)
>droSim1.chr2L 19928976 113 - 22036055
AUUGGCACUUUGGAUUCCGAAGGCAAGUGCACUCGAU---CGAGAUAUCUAUAGAAAGAAGCAAAAUCGC--AAAUAUUUUCGAAUGCCUCGAAAAUUAUAUUGCGACAUUGUUACCC
....((.((((((...)))))))).......(((...---.)))...(((......)))(((((..((((--((..((((((((.....))))))))....))))))..))))).... ( -28.10, z-score =  -2.00, R)
>consensus
AUUGGCACUUUGGAUUCCGAAGGCAAGUGCACUCGAU___CCAGAUAUCUAUAGAAAGAAGCAAAAUCGC__AAAUAUUUUCGAAUGCCUCGAAAAUUAUAUUGCGACAUUGUUACCC
....((((.(((...........))))))).............................(((((..((((......((((((((.....))))))))......))))..))))).... (-19.49 = -18.80 +  -0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:54:05 2011