Locus 8077

Sequence ID 3R_DroMel_CAF1
Location 21,689,966 – 21,690,067
Length 101
Max. P 0.925995
window13005 window13006

overview

Window 5

Location 21,689,966 – 21,690,067
Length 101
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 77.96
Mean single sequence MFE -27.62
Consensus MFE -16.62
Energy contribution -16.48
Covariance contribution -0.14
Combinations/Pair 1.12
Mean z-score -2.02
Structure conservation index 0.60
SVM decision value 1.03
SVM RNA-class probability 0.903782
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21689966 101 + 27905053
AGUUUUAGUUUUAGCUUUCUUUUCCAUCAUUCGAGUGGCAUUGCAUGACUGCAUGCAAGCUGGUUCUGGUUCUGGUUCUGGC-CAGGCCAAGCCUUGUCCUU
................................(((.(((((((((((....)))))))...((((.((((.(((((....))-))))))))))).))))))) ( -27.80)
>DroPse_CAF1 80537 79 + 1
-GUUUUAGUUUU--------------UUGUUCGAGUGGCAUUGCAUGACUGCAUGCAAGCCGGCUCG------GG-ACGGGC-CGGGCCAAGCCUUGUCCUU
-...........--------------..(((((((((((.(((((((....)))))))))).)))).------))-))((((-.((((...)))).)))).. ( -33.10)
>DroEre_CAF1 13817 94 + 1
-GUUUUAGUUUUAGCUUUCUUUUCCAUCAUUCGAGUGGCAUUGCAUGACUGCAUGCAAGCUGGUUCU------GGUUCUGGC-CAGGCCAAGCCUUGUCCUU
-...............................(((.(((((((((((....)))))))((((((.((------(((....))-)))))).)))..))))))) ( -25.80)
>DroYak_CAF1 13995 95 + 1
-GUUUUAGUUUUAGCUUUCUUUUCCAUCAUUCGAGUGGCAUUGCAUGACUGCAUGCAAGCUGCUUCU------AGUUUUGGUUCUGGCCAAGCCUUGUCCUU
-............((((.((...(((..(((.(((..((.(((((((....)))))))))..)))..------)))..)))....))..))))......... ( -23.40)
>DroAna_CAF1 14745 79 + 1
-GUUUUAGUUUUAGCUUUUUU----GCCAGUCGAGUAGCAUUGCAUGACUGCAUGCAAGCCG-----------------GGC-CUGGCCAAGCCUUGUCCUU
-............((((...(----((.(((((.(((....))).))))))))...)))).(-----------------(((-..(((...)))..)))).. ( -22.50)
>DroPer_CAF1 80255 79 + 1
-GUUUUAGUUUU--------------UUGUUCGAGUGGCAUUGCAUGACUGCAUGCAAGCCGGCUCG------GG-ACGGGC-CGGGCCAAGCCUUGUCCUU
-...........--------------..(((((((((((.(((((((....)))))))))).)))).------))-))((((-.((((...)))).)))).. ( -33.10)
>consensus
_GUUUUAGUUUUAGCUUUCUU____AUCAUUCGAGUGGCAUUGCAUGACUGCAUGCAAGCCGGUUCU______GG_UCUGGC_CAGGCCAAGCCUUGUCCUU
...............................((((.(((.(((((((....))))))))))..................(((....)))....))))..... (-16.62 = -16.48 +  -0.14)

alignment

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secondary structure

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dotplot

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Window 6

Location 21,689,966 – 21,690,067
Length 101
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 77.96
Mean single sequence MFE -23.64
Consensus MFE -13.94
Energy contribution -13.97
Covariance contribution 0.03
Combinations/Pair 1.08
Mean z-score -2.16
Structure conservation index 0.59
SVM decision value 1.17
SVM RNA-class probability 0.925995
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21689966 101 - 27905053
AAGGACAAGGCUUGGCCUG-GCCAGAACCAGAACCAGAACCAGCUUGCAUGCAGUCAUGCAAUGCCACUCGAAUGAUGGAAAAGAAAGCUAAAACUAAAACU
.......((..((((((((-(......))))........((((((((((((....))))))).))..(......).)))........)))))..))...... ( -21.50)
>DroPse_CAF1 80537 79 - 1
AAGGACAAGGCUUGGCCCG-GCCCGU-CC------CGAGCCGGCUUGCAUGCAGUCAUGCAAUGCCACUCGAACAA--------------AAAACUAAAAC-
..((((..((((......)-))).))-))------((((..((((((((((....))))))).))).)))).....--------------...........- ( -28.30)
>DroEre_CAF1 13817 94 - 1
AAGGACAAGGCUUGGCCUG-GCCAGAACC------AGAACCAGCUUGCAUGCAGUCAUGCAAUGCCACUCGAAUGAUGGAAAAGAAAGCUAAAACUAAAAC-
.......((..((((((((-(......))------))..((((((((((((....))))))).))..(......).)))........)))))..)).....- ( -21.50)
>DroYak_CAF1 13995 95 - 1
AAGGACAAGGCUUGGCCAGAACCAAAACU------AGAAGCAGCUUGCAUGCAGUCAUGCAAUGCCACUCGAAUGAUGGAAAAGAAAGCUAAAACUAAAAC-
.......((..(((((.....(((.....------.((.(..(((((((((....))))))).))..)))......)))........)))))..)).....- ( -16.82)
>DroAna_CAF1 14745 79 - 1
AAGGACAAGGCUUGGCCAG-GCC-----------------CGGCUUGCAUGCAGUCAUGCAAUGCUACUCGACUGGC----AAAAAAGCUAAAACUAAAAC-
........(((((.(((((-...-----------------.((((((((((....))))))).)))......)))))----....)))))...........- ( -25.40)
>DroPer_CAF1 80255 79 - 1
AAGGACAAGGCUUGGCCCG-GCCCGU-CC------CGAGCCGGCUUGCAUGCAGUCAUGCAAUGCCACUCGAACAA--------------AAAACUAAAAC-
..((((..((((......)-))).))-))------((((..((((((((((....))))))).))).)))).....--------------...........- ( -28.30)
>consensus
AAGGACAAGGCUUGGCCAG_GCCAGA_CC______AGAACCAGCUUGCAUGCAGUCAUGCAAUGCCACUCGAAUGAU____AAGAAAGCUAAAACUAAAAC_
........(((..(((....))).....................(((((((....))))))).))).................................... (-13.94 = -13.97 +   0.03)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:02:05 2006