Locus 6963

Sequence ID 3L_DroMel_CAF1
Location 18,805,252 – 18,805,388
Length 136
Max. P 0.903420
window11290 window11291 window11292

overview

Window 0

Location 18,805,252 – 18,805,348
Length 96
Sequences 3
Columns 96
Reading direction forward
Mean pairwise identity 98.61
Mean single sequence MFE -29.61
Consensus MFE -26.64
Energy contribution -26.64
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.68
Structure conservation index 0.90
SVM decision value 1.03
SVM RNA-class probability 0.903420
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18805252 96 + 23771897
CAUCUUUGGUGCAAUGUUGUCAUUGUAAAGAGCCUCCCUACUCCCAAGAGAUUCUUGGUAGCGGUUCUUUGUGCCUAGACCUUCACACUGGCACUC
..........((((((....))))))((((((((...(((...(((((.....)))))))).))))))))(((((..............))))).. ( -27.34)
>DroSec_CAF1 9550 95 + 1
CAUCUUUGGUGCAAUGUUGUCAUUGUAAAGAGCCUCCC-ACUCCCAAGAGAUUCUUGGGAGCGGUUCUUUGUGCCUAGACCUUCACACUGGCACUC
..........((((((....))))))((((((((....-.((((((((.....)))))))).))))))))(((((..............))))).. ( -34.14)
>DroSim_CAF1 9492 95 + 1
CAUCUUUGGUGCAAUGUUGUCAUUGUAAAGAGCCUCCC-ACUCCCAAGAGAUUCUUGGUAGCGGUUCUUUGUGCCUAGACCUUCACACUGGCACUC
..........((((((....))))))((((((((....-.((.(((((.....))))).)).))))))))(((((..............))))).. ( -27.34)
>consensus
CAUCUUUGGUGCAAUGUUGUCAUUGUAAAGAGCCUCCC_ACUCCCAAGAGAUUCUUGGUAGCGGUUCUUUGUGCCUAGACCUUCACACUGGCACUC
..........((((((....))))))((((((((......((.(((((.....))))).)).))))))))(((((..............))))).. (-26.64 = -26.64 +   0.00)

alignment

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secondary structure

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dotplot

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Window 1

Location 18,805,252 – 18,805,348
Length 96
Sequences 3
Columns 96
Reading direction reverse
Mean pairwise identity 98.61
Mean single sequence MFE -29.91
Consensus MFE -25.10
Energy contribution -25.10
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.21
Structure conservation index 0.84
SVM decision value 0.04
SVM RNA-class probability 0.555512
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18805252 96 - 23771897
GAGUGCCAGUGUGAAGGUCUAGGCACAAAGAACCGCUACCAAGAAUCUCUUGGGAGUAGGGAGGCUCUUUACAAUGACAACAUUGCACCAAAGAUG
(.((((.(((((....(((..(((..........))).(((((.....)))))..((((((.....))))))...))).))))))))))....... ( -25.30)
>DroSec_CAF1 9550 95 - 1
GAGUGCCAGUGUGAAGGUCUAGGCACAAAGAACCGCUCCCAAGAAUCUCUUGGGAGU-GGGAGGCUCUUUACAAUGACAACAUUGCACCAAAGAUG
(.((((....((((((((((............(((((((((((.....)))))))))-)).)))).))))))((((....)))))))))....... ( -35.62)
>DroSim_CAF1 9492 95 - 1
GAGUGCCAGUGUGAAGGUCUAGGCACAAAGAACCGCUACCAAGAAUCUCUUGGGAGU-GGGAGGCUCUUUACAAUGACAACAUUGCACCAAAGAUG
(.((((....((((((((((............(((((.(((((.....))))).)))-)).)))).))))))((((....)))))))))....... ( -28.82)
>consensus
GAGUGCCAGUGUGAAGGUCUAGGCACAAAGAACCGCUACCAAGAAUCUCUUGGGAGU_GGGAGGCUCUUUACAAUGACAACAUUGCACCAAAGAUG
(.((((.(((((....(((...(...(((((.(((((.(((((.....))))).))).....)).))))).)...))).))))))))))....... (-25.10 = -25.10 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 2

Location 18,805,285 – 18,805,388
Length 103
Sequences 3
Columns 103
Reading direction forward
Mean pairwise identity 97.40
Mean single sequence MFE -27.44
Consensus MFE -25.78
Energy contribution -25.34
Covariance contribution -0.44
Combinations/Pair 1.08
Mean z-score -1.58
Structure conservation index 0.94
SVM decision value 0.01
SVM RNA-class probability 0.537715
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18805285 103 + 23771897
CUCCCUACUCCCAAGAGAUUCUUGGUAGCGGUUCUUUGUGCCUAGACCUUCACACUGGCACUCGGUCAACGGUUUCUGUUCCUGUUUCUUCUGGGGUUCUUCU
........(((((..(((..(..((.(((((......(((((..............)))))(((.....)))...))))))).)..)))..)))))....... ( -26.74)
>DroSec_CAF1 9583 102 + 1
CUCCC-ACUCCCAAGAGAUUCUUGGGAGCGGUUCUUUGUGCCUAGACCUUCACACUGGCACUCGGUCAACGGUUUCUGUUUCUGUUUCUCCUGGGGUUCUUCU
.((((-(((((((((.....)))))))).........(((((..............)))))..((..(((((.........)))))...)))))))....... ( -30.64)
>DroSim_CAF1 9525 102 + 1
CUCCC-ACUCCCAAGAGAUUCUUGGUAGCGGUUCUUUGUGCCUAGACCUUCACACUGGCACUCGGUCAACGGUUUCUGUUUCUGUUUCUCCUGGGGUUCUUCU
.....-..(((((.((((..(.(((.(((.(((((..(((((..............)))))..))..))).))).))).....)..)))).)))))....... ( -24.94)
>consensus
CUCCC_ACUCCCAAGAGAUUCUUGGUAGCGGUUCUUUGUGCCUAGACCUUCACACUGGCACUCGGUCAACGGUUUCUGUUUCUGUUUCUCCUGGGGUUCUUCU
........(((((.((((..(..((.(((((......(((((..............)))))(((.....)))...))))))).)..)))).)))))....... (-25.78 = -25.34 +  -0.44)

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 12:34:14 2006