Locus 1470

Sequence ID dm3.chr2L
Location 11,419,121 – 11,419,214
Length 93
Max. P 0.840059
window2006 window2007

overview

Window 6

Location 11,419,121 – 11,419,214
Length 93
Sequences 5
Columns 106
Reading direction forward
Mean pairwise identity 87.06
Shannon entropy 0.21635
G+C content 0.44435
Mean single sequence MFE -27.88
Consensus MFE -22.96
Energy contribution -22.20
Covariance contribution -0.76
Combinations/Pair 1.27
Mean z-score -1.42
Structure conservation index 0.82
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.14
SVM RNA-class probability 0.562796
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 11419121 93 + 23011544
UGCAUGUGUGUGU-------------GUACACACUGCCUUUCUGGACAUUUGCUUUAUGUCUUGUCACAUUUUUAUGGCCAUGGUCCAGAGUCGCCUUAUGGCAUC
.(((.((((((..-------------..)))))))))..((((((((....(((..((((......))))......)))....))))))))..(((....)))... ( -30.60, z-score =  -2.52, R)
>droSim1.chr2L 11227666 93 + 22036055
UGCAUGUGUGUGU-------------AUACACACUACCUUUCUGGACAUUUGCUUUAUGUCUUGUCACAUUUUUAUGGCCAUGGCCCAGAGUCGCCUUAUGGCAUC
.....((((((..-------------..)))))).....(((((((((...((.....))..))))..........(((....))))))))..(((....)))... ( -25.30, z-score =  -1.33, R)
>droSec1.super_3 6814088 93 + 7220098
UGCAUGUGUGUGU-------------AUACACACUACCUUUCUGGACAUUUGCUUUAUGUUUUGUCACAUUUUUAUGGUCAUGGCCAAGAGUCGCCUUAUGGCAUC
..((((.(((((.-------------...))))).(((....((((((...((.....))..)))).)).......)))))))((((.(((....))).))))... ( -22.70, z-score =  -0.80, R)
>droYak2.chr2L 7818472 106 + 22324452
UGCAUGUGUGUAUAAGCUGUAUACUCGUACACACUACCUUUCCGGGCAUUUGCUUUAUGUCGUGUCACAUUUUUAUGGCCAUGGCCCAGAGCCGCCUUAUGGCAUC
(((..(((((((..((.......))..)))))))..((.....)))))...(((((..((((((.(.(((....)))).))))))..))))).(((....)))... ( -31.90, z-score =  -1.51, R)
>droEre2.scaffold_4929 12621115 98 - 26641161
UGCAUGUGUAUAUAUGGU--------AUACACACUACCUUUCUGGACAUUUGCUUUAUGUGUUGUCACAUUUUUAUGGCCGUGGCCCAGGGCCGCCUUAUGGCAUC
.((((((((((((...))--------)))))))...((.....)).....)))...(((((....)))))......((((.((...)).))))(((....)))... ( -28.90, z-score =  -0.94, R)
>consensus
UGCAUGUGUGUGU_____________AUACACACUACCUUUCUGGACAUUUGCUUUAUGUCUUGUCACAUUUUUAUGGCCAUGGCCCAGAGUCGCCUUAUGGCAUC
.((..((((((((.............))))))))......((((((((...((.....))..))))..........(((....))))))))).(((....)))... (-22.96 = -22.20 +  -0.76)

alignment

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secondary structure

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dotplot

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Window 7

Location 11,419,121 – 11,419,214
Length 93
Sequences 5
Columns 106
Reading direction reverse
Mean pairwise identity 87.06
Shannon entropy 0.21635
G+C content 0.44435
Mean single sequence MFE -27.95
Consensus MFE -22.37
Energy contribution -22.17
Covariance contribution -0.20
Combinations/Pair 1.19
Mean z-score -1.91
Structure conservation index 0.80
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.87
SVM RNA-class probability 0.840059
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 11419121 93 - 23011544
GAUGCCAUAAGGCGACUCUGGACCAUGGCCAUAAAAAUGUGACAAGACAUAAAGCAAAUGUCCAGAAAGGCAGUGUGUAC-------------ACACACACAUGCA
..((((....))))..(((((((....((.......((((......))))...))....)))))))...(((((((((..-------------..)))))).))). ( -28.20, z-score =  -2.70, R)
>droSim1.chr2L 11227666 93 - 22036055
GAUGCCAUAAGGCGACUCUGGGCCAUGGCCAUAAAAAUGUGACAAGACAUAAAGCAAAUGUCCAGAAAGGUAGUGUGUAU-------------ACACACACAUGCA
..((((....))))..(((((((....)))...............(((((.......)))))))))...(((((((((..-------------..)))))).))). ( -26.70, z-score =  -1.89, R)
>droSec1.super_3 6814088 93 - 7220098
GAUGCCAUAAGGCGACUCUUGGCCAUGACCAUAAAAAUGUGACAAAACAUAAAGCAAAUGUCCAGAAAGGUAGUGUGUAU-------------ACACACACAUGCA
...((((..((....))..))))(((((((.......((.((((..............))))))....))).(((((...-------------.))))).)))).. ( -22.74, z-score =  -1.55, R)
>droYak2.chr2L 7818472 106 - 22324452
GAUGCCAUAAGGCGGCUCUGGGCCAUGGCCAUAAAAAUGUGACACGACAUAAAGCAAAUGCCCGGAAAGGUAGUGUGUACGAGUAUACAGCUUAUACACACAUGCA
..((((....))))(((((((((....((.......((((......))))...))....)))))))......(((((((..(((.....)))..)))))))..)). ( -34.10, z-score =  -2.06, R)
>droEre2.scaffold_4929 12621115 98 + 26641161
GAUGCCAUAAGGCGGCCCUGGGCCACGGCCAUAAAAAUGUGACAACACAUAAAGCAAAUGUCCAGAAAGGUAGUGUGUAU--------ACCAUAUAUACACAUGCA
..((((....))))(((((((((....((.......(((((....)))))...))....))))))...))).((((((((--------(.....)))))))))... ( -28.00, z-score =  -1.33, R)
>consensus
GAUGCCAUAAGGCGACUCUGGGCCAUGGCCAUAAAAAUGUGACAAGACAUAAAGCAAAUGUCCAGAAAGGUAGUGUGUAU_____________ACACACACAUGCA
..((((....))))..(((((((....((.......((((......))))...))....)))))))...(((((((((.................)))))).))). (-22.37 = -22.17 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:32:33 2011