Locus 7835

Sequence ID 3L_DroMel_CAF1
Location 20,981,226 – 20,981,381
Length 155
Max. P 0.988874
window12751 window12752 window12753

overview

Window 1

Location 20,981,226 – 20,981,341
Length 115
Sequences 3
Columns 115
Reading direction forward
Mean pairwise identity 95.92
Mean single sequence MFE -28.63
Consensus MFE -28.24
Energy contribution -28.13
Covariance contribution -0.11
Combinations/Pair 1.06
Mean z-score -1.60
Structure conservation index 0.99
SVM decision value 0.41
SVM RNA-class probability 0.725107
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20981226 115 + 23771897
AUUCGCAUUUUGCAAGGAUAUUCGAGAAGGGGAGAAUAUUCGAGGAUAUCCUGGCGGUUGCAUUUGCAUAAAACAUAUUUUUUGAACUUCUUUCUGGAAGUUGUUUUGCUUUGUU
....(((..((((.(((((((((..(((..........)))..))))))))).)))).)))....(((..(((((.(((((..(((.....)))..)))))))))))))...... ( -29.70)
>DroSim_CAF1 6314 113 + 1
AUUCGCAUUUUGCAAGGAUAUUCGAGAAGGGG--AAUAUUCGAGGAUAUCCUGGCGGUUGCAUUUGCAUAAAACAUAUUUUCUGAACUUCUUUCUGGAAGUUGUUUUGCUUUGUU
....(((..((((.(((((((((..(((....--....)))..))))))))).)))).)))....(((..(((((.((((((.(((.....))).))))))))))))))...... ( -31.90)
>DroEre_CAF1 2010 113 + 1
AUUCGCAUUUUGCAAGGAUAUUCAAGAAGGGG--AAUAUUUGAGGACAUCCUGGCGGUUGCAUUUGCAUAAAACAUAUUUUUCGAACUUCUUUCUGGAAGUUGUUUUGCUUUGUU
....(((...(((((((((((((........)--))))))).(((....))).....)))))..))).(((((((..........((((((....)))))))))))))....... ( -24.30)
>consensus
AUUCGCAUUUUGCAAGGAUAUUCGAGAAGGGG__AAUAUUCGAGGAUAUCCUGGCGGUUGCAUUUGCAUAAAACAUAUUUUUUGAACUUCUUUCUGGAAGUUGUUUUGCUUUGUU
....(((..((((.(((((((((..(((..........)))..))))))))).)))).)))....(((..(((((.((((((.(((.....))).))))))))))))))...... (-28.24 = -28.13 +  -0.11)

alignment

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secondary structure

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dotplot

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Window 2

Location 20,981,226 – 20,981,341
Length 115
Sequences 3
Columns 115
Reading direction reverse
Mean pairwise identity 95.92
Mean single sequence MFE -21.45
Consensus MFE -22.00
Energy contribution -21.34
Covariance contribution -0.66
Combinations/Pair 1.08
Mean z-score -2.45
Structure conservation index 1.03
SVM decision value 2.14
SVM RNA-class probability 0.988874
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20981226 115 - 23771897
AACAAAGCAAAACAACUUCCAGAAAGAAGUUCAAAAAAUAUGUUUUAUGCAAAUGCAACCGCCAGGAUAUCCUCGAAUAUUCUCCCCUUCUCGAAUAUCCUUGCAAAAUGCGAAU
......(((....((((((......))))))................(((....)))...((.(((((((..((((..............))))))))))).))....))).... ( -21.94)
>DroSim_CAF1 6314 113 - 1
AACAAAGCAAAACAACUUCCAGAAAGAAGUUCAGAAAAUAUGUUUUAUGCAAAUGCAACCGCCAGGAUAUCCUCGAAUAUU--CCCCUUCUCGAAUAUCCUUGCAAAAUGCGAAU
......(((....((((((......))))))................(((....)))...((.(((((((..((((.....--.......))))))))))).))....))).... ( -22.10)
>DroEre_CAF1 2010 113 - 1
AACAAAGCAAAACAACUUCCAGAAAGAAGUUCGAAAAAUAUGUUUUAUGCAAAUGCAACCGCCAGGAUGUCCUCAAAUAUU--CCCCUUCUUGAAUAUCCUUGCAAAAUGCGAAU
......(((....((((((......))))))................(((....)))...((.(((((((..((((.....--.......))))))))))).))....))).... ( -20.30)
>consensus
AACAAAGCAAAACAACUUCCAGAAAGAAGUUCAAAAAAUAUGUUUUAUGCAAAUGCAACCGCCAGGAUAUCCUCGAAUAUU__CCCCUUCUCGAAUAUCCUUGCAAAAUGCGAAU
......(((....((((((......))))))................(((....)))...((.(((((((..((((..............))))))))))).))....))).... (-22.00 = -21.34 +  -0.66)

alignment

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secondary structure

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dotplot

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Window 3

Location 20,981,261 – 20,981,381
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 95.56
Mean single sequence MFE -20.89
Consensus MFE -20.36
Energy contribution -20.14
Covariance contribution -0.22
Combinations/Pair 1.03
Mean z-score -1.40
Structure conservation index 0.97
SVM decision value -0.00
SVM RNA-class probability 0.532509
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20981261 120 - 23771897
AUUUACCAGCGGCUUUUGUUUAAAUCAUAAUAAAUAGGGAAACAAAGCAAAACAACUUCCAGAAAGAAGUUCAAAAAAUAUGUUUUAUGCAAAUGCAACCGCCAGGAUAUCCUCGAAUAU
.....((.((((..(((((.((((.((((........(....)..........((((((......)))))).......)))).)))).))))).....))))..)).............. ( -21.00)
>DroSim_CAF1 6347 120 - 1
AUUUACCAGCGGCUUUUGUUUAAAUCAUAAUAAAUAGGGAAACAAAGCAAAACAACUUCCAGAAAGAAGUUCAGAAAAUAUGUUUUAUGCAAAUGCAACCGCCAGGAUAUCCUCGAAUAU
.....((.((((..(((((.((((.((((........(....)..........((((((......)))))).......)))).)))).))))).....))))..)).............. ( -21.00)
>DroEre_CAF1 2043 120 - 1
AUUUACAAGCGGCUUUUGUUUAAAUCGUAAUAAAAAGGAAAACAAAGCAAAACAACUUCCAGAAAGAAGUUCGAAAAAUAUGUUUUAUGCAAAUGCAACCGCCAGGAUGUCCUCAAAUAU
..........((((((((((........))))))).((((((((.........((((((......)))))).........)))))).(((....))).)))))(((....)))....... ( -20.67)
>consensus
AUUUACCAGCGGCUUUUGUUUAAAUCAUAAUAAAUAGGGAAACAAAGCAAAACAACUUCCAGAAAGAAGUUCAAAAAAUAUGUUUUAUGCAAAUGCAACCGCCAGGAUAUCCUCGAAUAU
..........(((.((((((........))))))..((((((((.........((((((......)))))).........)))))).(((....))).)))))(((....)))....... (-20.36 = -20.14 +  -0.22)

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 12:58:11 2006