Locus 8528

Sequence ID 3L_DroMel_CAF1
Location 22,313,380 – 22,313,503
Length 123
Max. P 0.983542
window13969 window13970 window13971

overview

Window 9

Location 22,313,380 – 22,313,486
Length 106
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 83.78
Mean single sequence MFE -30.62
Consensus MFE -22.52
Energy contribution -24.03
Covariance contribution 1.50
Combinations/Pair 1.00
Mean z-score -2.69
Structure conservation index 0.74
SVM decision value 1.92
SVM RNA-class probability 0.982643
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22313380 106 + 23771897
UCCCACG--------------GCCCCCAGCCCGAGAAACCCACUGCCUCUUGGCAUCCGCAGCCACAAAUUACAAAUUGAAAGUAGUUUGUAUCUGCUGUCUCUUCUGCUGCAGCAACUC
.......--------------((...((((..((((.((....((((....))))...((((..(((((((((.........)))))))))..)))).)).))))..))))..))..... ( -30.10)
>DroSec_CAF1 72092 90 + 1
UCCCACG--------------GCC----------------CACUGCCUCCUGGCAGCCGCAGCCACAAAUUACAAAUUGAAAGUAGUUUGUAUCUGCUGUCUCUUCUGCUGGAGCAACUC
......(--------------((.----------------...((((....)))))))((((..(((((((((.........)))))))))..))))((.((((......)))))).... ( -27.80)
>DroEre_CAF1 70423 120 + 1
UCCCACGGCCCACGGCUCACGGCCCCCAGCCCGAGAAACCGACUGCCUCCUGGCUGCCGCAGCCACAAAUUACAAAUUGAAAGUAGUUUGUAUCUGCUGUCUCUUGUGCUGCAGCAACUC
......((((..........))))..((((.(((((....(((.(((....)))....((((..(((((((((.........)))))))))..)))).)))))))).))))......... ( -35.80)
>DroYak_CAF1 50561 106 + 1
UCCCACG--------------GCCCCCAACCCGAGAAACCCACUGCCUCCUGGCAGCCGCAGCCACAAAUUACAAAUUGAAAGUAGUUUGUAUCUGCUGUCUCUUCUGCUGCAGCAACUC
......(--------------(........))((((......(((((....)))))..((((..(((((((((.........)))))))))..))))..))))...(((....))).... ( -28.80)
>consensus
UCCCACG______________GCCCCCAGCCCGAGAAACCCACUGCCUCCUGGCAGCCGCAGCCACAAAUUACAAAUUGAAAGUAGUUUGUAUCUGCUGUCUCUUCUGCUGCAGCAACUC
................................((((......(((((....)))))..((((..(((((((((.........)))))))))..))))..))))...(((....))).... (-22.52 = -24.03 +   1.50)

alignment

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secondary structure

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Window 0

Location 22,313,406 – 22,313,503
Length 97
Sequences 4
Columns 97
Reading direction forward
Mean pairwise identity 96.91
Mean single sequence MFE -31.27
Consensus MFE -29.92
Energy contribution -29.93
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -3.42
Structure conservation index 0.96
SVM decision value 1.95
SVM RNA-class probability 0.983542
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22313406 97 + 23771897
CACUGCCUCUUGGCAUCCGCAGCCACAAAUUACAAAUUGAAAGUAGUUUGUAUCUGCUGUCUCUUCUGCUGCAGCAACUCCCGCCGGCAGUAAAAAA
.((((((....(((....((((..(((((((((.........)))))))))..)))).........(((....)))......)))))))))...... ( -30.00)
>DroSec_CAF1 72102 97 + 1
CACUGCCUCCUGGCAGCCGCAGCCACAAAUUACAAAUUGAAAGUAGUUUGUAUCUGCUGUCUCUUCUGCUGGAGCAACUCCCGCCGGCAGUAAAAAA
.((((((....((((((...((..(((((((((.........)))))))))..))))))))......((.((((...)))).)).))))))...... ( -32.40)
>DroEre_CAF1 70463 97 + 1
GACUGCCUCCUGGCUGCCGCAGCCACAAAUUACAAAUUGAAAGUAGUUUGUAUCUGCUGUCUCUUGUGCUGCAGCAACUCCCGCCGGCAGUAAAAAA
.((((((....(((((...)))))(((((((((.........)))))))))...((((((..(....)..)))))).........))))))...... ( -31.70)
>DroYak_CAF1 50587 97 + 1
CACUGCCUCCUGGCAGCCGCAGCCACAAAUUACAAAUUGAAAGUAGUUUGUAUCUGCUGUCUCUUCUGCUGCAGCAACUCCCGCCGGCAGUAAAAAA
..(((((....)))))..((((..(((((((((.........)))))))))..)))).........((((((.((.......))..))))))..... ( -31.00)
>consensus
CACUGCCUCCUGGCAGCCGCAGCCACAAAUUACAAAUUGAAAGUAGUUUGUAUCUGCUGUCUCUUCUGCUGCAGCAACUCCCGCCGGCAGUAAAAAA
.((((((....(((....((((..(((((((((.........)))))))))..)))).........(((....)))......)))))))))...... (-29.92 = -29.93 +   0.00)

alignment

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secondary structure

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dotplot

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Window 1

Location 22,313,406 – 22,313,503
Length 97
Sequences 4
Columns 97
Reading direction reverse
Mean pairwise identity 96.91
Mean single sequence MFE -33.80
Consensus MFE -31.00
Energy contribution -31.50
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -2.33
Structure conservation index 0.92
SVM decision value 1.16
SVM RNA-class probability 0.924782
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22313406 97 - 23771897
UUUUUUACUGCCGGCGGGAGUUGCUGCAGCAGAAGAGACAGCAGAUACAAACUACUUUCAAUUUGUAAUUUGUGGCUGCGGAUGCCAAGAGGCAGUG
.....(((((((....((.....(((((((..........(((((((((((..........))))).)))))).)))))))...))....))))))) ( -31.10)
>DroSec_CAF1 72102 97 - 1
UUUUUUACUGCCGGCGGGAGUUGCUCCAGCAGAAGAGACAGCAGAUACAAACUACUUUCAAUUUGUAAUUUGUGGCUGCGGCUGCCAGGAGGCAGUG
((((((.((((.....((((...)))).))))))))))..((((.((((((.(((.........))).)))))).)))).((((((....)))))). ( -32.90)
>DroEre_CAF1 70463 97 - 1
UUUUUUACUGCCGGCGGGAGUUGCUGCAGCACAAGAGACAGCAGAUACAAACUACUUUCAAUUUGUAAUUUGUGGCUGCGGCAGCCAGGAGGCAGUC
......((((((..(..(.((((((((((((((((..((((..((............))...))))..))))).))))))))))))..).)))))). ( -36.20)
>DroYak_CAF1 50587 97 - 1
UUUUUUACUGCCGGCGGGAGUUGCUGCAGCAGAAGAGACAGCAGAUACAAACUACUUUCAAUUUGUAAUUUGUGGCUGCGGCUGCCAGGAGGCAGUG
((((((.((((..((((......)))).))))))))))..((((.((((((.(((.........))).)))))).)))).((((((....)))))). ( -35.00)
>consensus
UUUUUUACUGCCGGCGGGAGUUGCUGCAGCAGAAGAGACAGCAGAUACAAACUACUUUCAAUUUGUAAUUUGUGGCUGCGGCUGCCAGGAGGCAGUG
......((((((....((....((((((((..........(((((((((((..........))))).)))))).))))))))..))....)))))). (-31.00 = -31.50 +   0.50)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:18:08 2006