Locus 2109

Sequence ID dm3.chr2L
Location 16,367,957 – 16,368,060
Length 103
Max. P 0.961975
window2899 window2900

overview

Window 9

Location 16,367,957 – 16,368,060
Length 103
Sequences 4
Columns 107
Reading direction forward
Mean pairwise identity 80.13
Shannon entropy 0.31043
G+C content 0.59331
Mean single sequence MFE -35.92
Consensus MFE -21.90
Energy contribution -23.27
Covariance contribution 1.38
Combinations/Pair 1.17
Mean z-score -2.58
Structure conservation index 0.61
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.54
SVM RNA-class probability 0.948066
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 16367957 103 + 23011544
GGAUUCUACAUUUUCCCCCAUGCCCGCCCCCUUUU----GCCGGGUUUCCGCGUUGGGGCGUGGCAUGCGAUUUGUAUGUCUAGCUACUAGCUACUAGCUGAGCCCC
((((..((((...((...((((((((((((....(----((.((....)))))..)))))).)))))).))..)))).)))).(((..((((.....)))))))... ( -37.70, z-score =  -2.46, R)
>droSim1.chrU 15299801 94 + 15797150
GGAUUCUACAUUUCCCCCC-UGCCCGCCCCCUU------GCCGAGUUUCCGCGUUGGGGCGUGGCAUGCGAUUUGUAUGUGUAGCUACUAGCUAUGACCCC------
((....((((..((...(.-((((((((((..(------((.(.....).)))..)))))).)))).).))..))))...(((((.....)))))..))..------ ( -33.50, z-score =  -3.16, R)
>droSec1.super_5 5093053 94 + 5866729
GGAUUCUACAUUUCCCCCC-UGCCCGCCCCCUU------GCCGGGUUUCCGCGUUGGGGCGUGGCAUGCGAUUUGUAUGUGUAGCUACUAGCUAUGACCCC------
((....((((..((...(.-((((((((((..(------((.((....)))))..)))))).)))).).))..))))...(((((.....)))))..))..------ ( -34.90, z-score =  -2.41, R)
>droYak2.chr2R 2822123 92 + 21139217
GGAUUCUACGUCGCCCCCAAU-CCCGCCCCCUUUUCCGGGCUGGAUUUCCGCGUUGGGGCGUGGCAUGCGAUUUGUAUGUGUAGCCA-UGCCCG-------------
........((.(((....(((-((.((((........)))).)))))...))).))((((((((((((((.......))))).))))-))))).------------- ( -37.60, z-score =  -2.29, R)
>consensus
GGAUUCUACAUUUCCCCCC_UGCCCGCCCCCUU______GCCGGGUUUCCGCGUUGGGGCGUGGCAUGCGAUUUGUAUGUGUAGCUACUAGCUAUGACCCC______
......((((..((....((((((((((((.........(((((....))).)).)))))).)))))).))..))))...((((((...))))))............ (-21.90 = -23.27 +   1.38)

alignment

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secondary structure

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dotplot

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Window 0

Location 16,367,957 – 16,368,060
Length 103
Sequences 4
Columns 107
Reading direction reverse
Mean pairwise identity 80.13
Shannon entropy 0.31043
G+C content 0.59331
Mean single sequence MFE -37.46
Consensus MFE -24.73
Energy contribution -25.73
Covariance contribution 1.00
Combinations/Pair 1.11
Mean z-score -2.50
Structure conservation index 0.66
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.70
SVM RNA-class probability 0.961975
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 16367957 103 - 23011544
GGGGCUCAGCUAGUAGCUAGUAGCUAGACAUACAAAUCGCAUGCCACGCCCCAACGCGGAAACCCGGC----AAAAGGGGGCGGGCAUGGGGGAAAAUGUAGAAUCC
.((..(((((((.(....).)))))..((((.....((.((((((.((((((..((.(....).))..----.....)))))))))))).))....)))).))..)) ( -40.70, z-score =  -2.61, R)
>droSim1.chrU 15299801 94 - 15797150
------GGGGUCAUAGCUAGUAGCUACACAUACAAAUCGCAUGCCACGCCCCAACGCGGAAACUCGGC------AAGGGGGCGGGCA-GGGGGGAAAUGUAGAAUCC
------((..((.((((.....))))....((((..((.(.((((.((((((..((.(....).))..------...))))))))))-...).))..))))))..)) ( -37.30, z-score =  -3.50, R)
>droSec1.super_5 5093053 94 - 5866729
------GGGGUCAUAGCUAGUAGCUACACAUACAAAUCGCAUGCCACGCCCCAACGCGGAAACCCGGC------AAGGGGGCGGGCA-GGGGGGAAAUGUAGAAUCC
------((..((.((((.....))))....((((..((.(.((((.((((((...((((....)).))------...))))))))))-...).))..))))))..)) ( -36.90, z-score =  -2.52, R)
>droYak2.chr2R 2822123 92 - 21139217
-------------CGGGCA-UGGCUACACAUACAAAUCGCAUGCCACGCCCCAACGCGGAAAUCCAGCCCGGAAAAGGGGGCGGG-AUUGGGGGCGACGUAGAAUCC
-------------((((((-((.................)))))).((((((........(((((.((((........)))).))-))).)))))).))........ ( -34.93, z-score =  -1.35, R)
>consensus
______GGGGUCAUAGCUAGUAGCUACACAUACAAAUCGCAUGCCACGCCCCAACGCGGAAACCCGGC______AAGGGGGCGGGCA_GGGGGGAAAUGUAGAAUCC
.............(((((...))))).((((.....((.((((((.((((((...((((....)).)).........)))))))))))).))....))))....... (-24.73 = -25.73 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:44:55 2011