Locus 6267

Sequence ID 3L_DroMel_CAF1
Location 16,692,288 – 16,692,426
Length 138
Max. P 0.745955
window10053 window10054

overview

Window 3

Location 16,692,288 – 16,692,408
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 74.33
Mean single sequence MFE -44.33
Consensus MFE -19.68
Energy contribution -19.10
Covariance contribution -0.58
Combinations/Pair 1.50
Mean z-score -1.97
Structure conservation index 0.44
SVM decision value 0.46
SVM RNA-class probability 0.745955
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16692288 120 + 23771897
GCAGCGUCGCCAGGUUUCGCCCAACUAUUCCGUGGUGGGUCAUUGCCAAACGAAGGCCACUGCUUGUCCGGGAAUACACCUUCUCAACGAGCUCAAAAAGUGGCCAAAUUGGCGACCAAA
...(.((((((((((...(((((.((((...)))))))))....))).......(((((((((((((..(((((......))))).))))))......)))))))....))))))))... ( -48.40)
>DroPse_CAF1 13493 120 + 1
CCAUCGGCGUCAGGUCCUGCCCAAUUAUUCCCUCGUCGGCCACUGCCAGACGAAGGCCACUGCCUGCCCAGGGCGCCAGCUCCUGGACGAACUACGCAAGUGGCCGCGUUGGCAGCCAAA
.....((((((((....(((............((((((((....))).))))).(((((((((.((.(((((((....)).))))).))......)).))))))))))))))).)))... ( -46.90)
>DroEre_CAF1 14169 120 + 1
GCAGCGUCGCCAGGUUUCGCCCAACUAUUCCCUGGUGGGUCAUUGCCAAACAAAGGCCACCGCUUGUCCGGGCAGACAUCUUCUGAACGAGCUCAAAAAGUGGCCACGCUGGCAGCCGAA
.(((((((((((((................)))))))((((((((((.......)))....((((((.((((.((....)))))).))))))......)))))))))))))......... ( -43.09)
>DroWil_CAF1 34513 120 + 1
CCAACGUCGUCAGGUUGUGCCCAAUUAUAUUCUAUUGGGUCAUUGUCAGACUAAGGGCACUCUAUGCCCUGGACAGCAUCUUCUCAAUGAAUUAAAGAAAUGGCCACGAUGGCAAAAGAA
.....((((((.(((..(.((((((........))))))((((((..(((((.((((((.....))))))....))..)))...)))))).........)..)))..))))))....... ( -35.10)
>DroAna_CAF1 11140 120 + 1
GAGACGUCGCCAGGUUGUGCCCAACUACACUCUCCUGGGACACUGCCAGACAAAGGCCACUGCCUGUCCGGGACGUCAUCUGUUGGAUGAGCUCCGCAAAUGGCCAAGAUGGCAAAAGAA
.....(((.(((((..(((........)))...))))))))..(((((......(((((.((((.....)(((..(((((.....)))))..))))))..)))))....)))))...... ( -40.90)
>DroPer_CAF1 13375 120 + 1
CCAGCGGCGUCAGGUCCUGCCCAAUUAUUCCCUCGUCGGCCACUGCCAGACGAAGGCCACUGCCUGCCCAGGGCGGCAGCUCCUGGACGAACUACGCAAGUGGCCGCGUUGGCAGCCAAA
...(((((((((((..(((((........((.((((((((....))).))))).)).....((((.....)))))))))..))).)))....(((....)))))))).((((...)))). ( -51.60)
>consensus
CCAGCGUCGCCAGGUUCUGCCCAACUAUUCCCUCGUGGGUCACUGCCAGACGAAGGCCACUGCCUGCCCGGGACGACAUCUUCUGAACGAACUAAACAAGUGGCCACGUUGGCAACCAAA
........((((((.....))................(((((((.........((((....))))...(((((.......))))).............)))))))....))))....... (-19.68 = -19.10 +  -0.58)

alignment

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secondary structure

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dotplot

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Window 4

Location 16,692,328 – 16,692,426
Length 98
Sequences 6
Columns 98
Reading direction forward
Mean pairwise identity 82.99
Mean single sequence MFE -30.47
Consensus MFE -22.86
Energy contribution -23.50
Covariance contribution 0.64
Combinations/Pair 1.17
Mean z-score -1.84
Structure conservation index 0.75
SVM decision value 0.33
SVM RNA-class probability 0.692545
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16692328 98 + 23771897
CAUUGCCAAACGAAGGCCACUGCUUGUCCGGGAAUACACCUUCUCAACGAGCUCAAAAAGUGGCCAAAUUGGCGACCAAAGCCUUAGGUUUCCAUAUG
..(((((((.....(((((((((((((..(((((......))))).))))))......)))))))...)))))))...(((((...)))))....... ( -31.40)
>DroSec_CAF1 13905 98 + 1
CAUUGCCAAACGAAGGCCACAGCGUGUCCGGGAAGACAUCUUCUGAACGAGCUCAAGAAGUGGCCACGUUGGCAGCCAAAGCCUUAGGUUCCCAUAUG
..(((((((.((..(((((((((.(((.(((.(((....)))))).))).)))......)))))).)))))))))....((((...))))........ ( -29.70)
>DroSim_CAF1 21802 98 + 1
CAUUGCCAAACGAAGGCCACAGCUUGUCCGGGAAGACAUCUUCUGAACGAGCUCAAGAAGUGGCCACGUUGGCAGCCAAAGCCUUAGGUUUCCAUAUG
..(((((((.((..(((((((((((((.(((.(((....)))))).)))))))......)))))).)))))))))...(((((...)))))....... ( -35.10)
>DroEre_CAF1 14209 98 + 1
CAUUGCCAAACAAAGGCCACCGCUUGUCCGGGCAGACAUCUUCUGAACGAGCUCAAAAAGUGGCCACGCUGGCAGCCGAAGCCUUAAGUUCCCAUAAG
..((((((......((((((.((((((.((((.((....)))))).)))))).......))))))....))))))....................... ( -27.00)
>DroYak_CAF1 16544 98 + 1
CAUUGCCAAACGAAGGCCACAGCUUGUCCGGGAAGACAUCUUCUGAACGAGCUCAAAAAGUGGCCACGCUGGCAGCCAAAGCCUUAAGUUCCCAUAGG
..((((((..((..(((((((((((((.(((.(((....)))))).)))))))......)))))).)).))))))....................... ( -31.20)
>DroAna_CAF1 11180 87 + 1
CACUGCCAGACAAAGGCCACUGCCUGUCCGGGACGUCAUCUGUUGGAUGAGCUCCGCAAAUGGCCAAGAUGGCAAAAGAAGCCAUAG-----------
....((((((((..(((....)))))))(((..(.(((((.....))))))..)))....))))....(((((.......)))))..----------- ( -28.40)
>consensus
CAUUGCCAAACGAAGGCCACAGCUUGUCCGGGAAGACAUCUUCUGAACGAGCUCAAAAAGUGGCCACGUUGGCAGCCAAAGCCUUAGGUUCCCAUAUG
..((((((......((((((.((((((.(((((.......))))).)))))).......))))))....))))))....................... (-22.86 = -23.50 +   0.64)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:14:16 2006