Locus 3827

Sequence ID 2R_DroMel_CAF1
Location 12,637,207 – 12,637,367
Length 160
Max. P 0.973483
window6178 window6179 window6180

overview

Window 8

Location 12,637,207 – 12,637,327
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 98.89
Mean single sequence MFE -38.17
Consensus MFE -36.00
Energy contribution -36.00
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.83
Structure conservation index 0.94
SVM decision value 1.54
SVM RNA-class probability 0.962815
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12637207 120 + 20766785
UAUUUAGUUUCCGGUUUUAACUUGCGCCAUAAACCGGGCGUUAUGUGUCCGCUUUUAUGGCUUCUAGCGACGUCCCGUCUUCAUUGUUUCUUAAUAAUCCGACGAGCGUCUUCGGAGUGC
........((((((...........((((((((.((((((.....))))))..)))))))).......(((((..((((...((((((....))))))..)))).))))).))))))... ( -36.60)
>DroSec_CAF1 29903 120 + 1
UAUUUUGUUUCCGGUUUUAACUUGCGCCAUAAAGCGGGCGUUAUGUGUCCGCUUUUAUGGCUUCUAGCGACGUCCCGUCUUCAUUGUUUCUUAAUAAUCCGACGAGCGUCUUCGGAGUGC
........((((((...........(((((((((((((((.....))))))).)))))))).......(((((..((((...((((((....))))))..)))).))))).))))))... ( -41.30)
>DroEre_CAF1 30805 120 + 1
UAUUUAGUUUCCGGUUUUAACUUGCGCCAUAAACCGGGCGUUAUGUGUCCGCUUUUAUGGCUUCUAGCGACGUCCCGUCUUCAUUGUUUCUUAAUAAUCCGACGAGCGUCUUCGGAGUGC
........((((((...........((((((((.((((((.....))))))..)))))))).......(((((..((((...((((((....))))))..)))).))))).))))))... ( -36.60)
>consensus
UAUUUAGUUUCCGGUUUUAACUUGCGCCAUAAACCGGGCGUUAUGUGUCCGCUUUUAUGGCUUCUAGCGACGUCCCGUCUUCAUUGUUUCUUAAUAAUCCGACGAGCGUCUUCGGAGUGC
........((((((...........((((((((.((((((.....))))))..)))))))).......(((((..((((...((((((....))))))..)))).))))).))))))... (-36.00 = -36.00 +   0.00)

alignment

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secondary structure

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dotplot

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Window 9

Location 12,637,207 – 12,637,327
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 98.89
Mean single sequence MFE -36.93
Consensus MFE -34.53
Energy contribution -34.53
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -3.35
Structure conservation index 0.94
SVM decision value 1.71
SVM RNA-class probability 0.973483
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12637207 120 - 20766785
GCACUCCGAAGACGCUCGUCGGAUUAUUAAGAAACAAUGAAGACGGGACGUCGCUAGAAGCCAUAAAAGCGGACACAUAACGCCCGGUUUAUGGCGCAAGUUAAAACCGGAAACUAAAUA
....((((..((((((((((...(((((.......))))).)))))).))))((.....))........))))..........(((((((.((((....))))))))))).......... ( -36.10)
>DroSec_CAF1 29903 120 - 1
GCACUCCGAAGACGCUCGUCGGAUUAUUAAGAAACAAUGAAGACGGGACGUCGCUAGAAGCCAUAAAAGCGGACACAUAACGCCCGCUUUAUGGCGCAAGUUAAAACCGGAAACAAAAUA
....((((..((((((((((...(((((.......))))).)))))).))))(((....((((((((.((((.(.......).))))))))))))...)))......))))......... ( -38.60)
>DroEre_CAF1 30805 120 - 1
GCACUCCGAAGACGCUCGUCGGAUUAUUAAGAAACAAUGAAGACGGGACGUCGCUAGAAGCCAUAAAAGCGGACACAUAACGCCCGGUUUAUGGCGCAAGUUAAAACCGGAAACUAAAUA
....((((..((((((((((...(((((.......))))).)))))).))))((.....))........))))..........(((((((.((((....))))))))))).......... ( -36.10)
>consensus
GCACUCCGAAGACGCUCGUCGGAUUAUUAAGAAACAAUGAAGACGGGACGUCGCUAGAAGCCAUAAAAGCGGACACAUAACGCCCGGUUUAUGGCGCAAGUUAAAACCGGAAACUAAAUA
....((((..((((((((((...(((((.......))))).)))))).))))(((....((((((((.(((.........)))....))))))))...)))......))))......... (-34.53 = -34.53 +   0.00)

alignment

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secondary structure

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dotplot

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Window 0

Location 12,637,247 – 12,637,367
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 100.00
Mean single sequence MFE -34.00
Consensus MFE -34.00
Energy contribution -34.00
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.55
Structure conservation index 1.00
SVM decision value 0.35
SVM RNA-class probability 0.699132
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12637247 120 - 20766785
CAGUGUCUGGCCCAUAAACAUCCUUAAUGCGAGGACGUGUGCACUCCGAAGACGCUCGUCGGAUUAUUAAGAAACAAUGAAGACGGGACGUCGCUAGAAGCCAUAAAAGCGGACACAUAA
..(((((((...........(((((.....))))).(((.((..((....((((((((((...(((((.......))))).)))))).))))....)).))))).....))))))).... ( -34.00)
>DroSec_CAF1 29943 120 - 1
CAGUGUCUGGCCCAUAAACAUCCUUAAUGCGAGGACGUGUGCACUCCGAAGACGCUCGUCGGAUUAUUAAGAAACAAUGAAGACGGGACGUCGCUAGAAGCCAUAAAAGCGGACACAUAA
..(((((((...........(((((.....))))).(((.((..((....((((((((((...(((((.......))))).)))))).))))....)).))))).....))))))).... ( -34.00)
>DroEre_CAF1 30845 120 - 1
CAGUGUCUGGCCCAUAAACAUCCUUAAUGCGAGGACGUGUGCACUCCGAAGACGCUCGUCGGAUUAUUAAGAAACAAUGAAGACGGGACGUCGCUAGAAGCCAUAAAAGCGGACACAUAA
..(((((((...........(((((.....))))).(((.((..((....((((((((((...(((((.......))))).)))))).))))....)).))))).....))))))).... ( -34.00)
>consensus
CAGUGUCUGGCCCAUAAACAUCCUUAAUGCGAGGACGUGUGCACUCCGAAGACGCUCGUCGGAUUAUUAAGAAACAAUGAAGACGGGACGUCGCUAGAAGCCAUAAAAGCGGACACAUAA
..(((((((...........(((((.....))))).(((.((..((....((((((((((...(((((.......))))).)))))).))))....)).))))).....))))))).... (-34.00 = -34.00 +   0.00)

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 11:04:56 2006