Locus 6823

Sequence ID 3L_DroMel_CAF1
Location 18,325,761 – 18,325,878
Length 117
Max. P 0.947104
window11071 window11072

overview

Window 1

Location 18,325,761 – 18,325,853
Length 92
Sequences 6
Columns 93
Reading direction reverse
Mean pairwise identity 90.97
Mean single sequence MFE -29.42
Consensus MFE -25.14
Energy contribution -24.95
Covariance contribution -0.19
Combinations/Pair 1.12
Mean z-score -2.18
Structure conservation index 0.85
SVM decision value 1.10
SVM RNA-class probability 0.915799
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18325761 92 - 23771897
AUGGAACCCCAAGUCGGCGUUAUGUCUACAGACAAAUUGCCAUAACCAUAAUGGCAAACUGCCUGCUAAGGGGAUAUUUCAGCUG-CUGUGAC
.(((((((((.(((.(((....((((....))))..(((((((.......)))))))...))).)))..))))...)))))....-....... ( -28.20)
>DroSec_CAF1 109999 92 - 1
AAGGAACCCCAAGUCGGCGUUAUGUCUACAGACAAAUUGCCAUAACCAUAAUGGCAAACGGCCUGCUGAGGGGAUAUUUCAGCUG-CUGUGAC
..((((((((.(((.(((....((((....))))..(((((((.......)))))))...))).)))..))))...)))).....-....... ( -28.80)
>DroSim_CAF1 119847 92 - 1
AAGGAACCCCAAGUCGGCGUUAUGUCUACAGACAAAUUGCCAUAACCAUAAUGGCAAACGGCCUGCUGAGGGGAUAUUUCAGCUG-CUGUGAC
..((((((((.(((.(((....((((....))))..(((((((.......)))))))...))).)))..))))...)))).....-....... ( -28.80)
>DroEre_CAF1 105829 91 - 1
AAGGAACCCCAAGUCGGCGCUAUGUCUACAGACAAAUUGCCAUAACCAUAAUGGCAAACGGCCUGCUGAG-GGAUAUUUCAGCUG-CUGUGAC
..((....))..(((.......((((....))))..(((((((.......)))))))(((((..((((((-(....))))))).)-))))))) ( -28.80)
>DroYak_CAF1 116336 92 - 1
GAGGAACCCCAAGUCGGCGCUAUGUCUACAGACAAAUUGCCAUAACCAUAAUGGCAAACGGCCUGCUGAGGGGAUAUUUCUGCUG-CUGUGAC
.(((((((((.(((.(((....((((....))))..(((((((.......)))))))...))).)))..))))...)))))....-....... ( -29.60)
>DroAna_CAF1 107940 91 - 1
CCAGGAUCCCAAGUAGACGUUAUGUCUACAGACAAAUUGCCAUAACCAUAAUGGCAAACGGCCUGUUGGGGGAC--UCUGGGAUGCCUGUGAC
((((..((((..((((((.....)))))).......(((((((.......)))))))....((....)))))).--.))))............ ( -32.30)
>consensus
AAGGAACCCCAAGUCGGCGUUAUGUCUACAGACAAAUUGCCAUAACCAUAAUGGCAAACGGCCUGCUGAGGGGAUAUUUCAGCUG_CUGUGAC
..((((((((.(((.(((....((((....))))..(((((((.......)))))))...))).)))..))))...))))............. (-25.14 = -24.95 +  -0.19)

alignment

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secondary structure

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dotplot

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Window 2

Location 18,325,778 – 18,325,878
Length 100
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 86.58
Mean single sequence MFE -32.55
Consensus MFE -24.98
Energy contribution -24.90
Covariance contribution -0.08
Combinations/Pair 1.10
Mean z-score -3.94
Structure conservation index 0.77
SVM decision value 1.37
SVM RNA-class probability 0.947104
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18325778 100 - 23771897
ACCCACAUCCCAGUCCC----CAAUCCACAUGGAACCCCAAGUCGGCGUUAUGUCUACAGACAAAUUGCCAUAACCAUAAUGGCAAACUGCCUGCUAAGGGGAU
............(((((----(..(((....)))......(((.(((....((((....))))..(((((((.......)))))))...))).)))..)))))) ( -32.60)
>DroSec_CAF1 110016 99 - 1
ACCCAC-UCCCAGUCCC----CAAUCCUCAAGGAACCCCAAGUCGGCGUUAUGUCUACAGACAAAUUGCCAUAACCAUAAUGGCAAACGGCCUGCUGAGGGGAU
......-.....(((((----(..(((....)))......(((.(((....((((....))))..(((((((.......)))))))...))).)))..)))))) ( -32.50)
>DroSim_CAF1 119864 100 - 1
ACCCACAUCCCAGUCCC----CAAUCCUCAAGGAACCCCAAGUCGGCGUUAUGUCUACAGACAAAUUGCCAUAACCAUAAUGGCAAACGGCCUGCUGAGGGGAU
............(((((----(..(((....)))......(((.(((....((((....))))..(((((((.......)))))))...))).)))..)))))) ( -32.50)
>DroEre_CAF1 105846 99 - 1
ACCCACAUCCCAGCCCC----CAAAACUCAAGGAACCCCAAGUCGGCGCUAUGUCUACAGACAAAUUGCCAUAACCAUAAUGGCAAACGGCCUGCUGAG-GGAU
......(((((......----..........((....))...((((((((.((((....))))..(((((((.......)))))))..)))..))))))-)))) ( -28.20)
>DroYak_CAF1 116353 104 - 1
ACCCACAUCCCAGUCCCCCUCCGAUUCUCGAGGAACCCCAAGUCGGCGCUAUGUCUACAGACAAAUUGCCAUAACCAUAAUGGCAAACGGCCUGCUGAGGGGAU
.................((((........))))..((((.(((.(((....((((....))))..(((((((.......)))))))...))).)))..)))).. ( -33.00)
>DroAna_CAF1 107957 92 - 1
ACCCAAACCCCA-----------AGAGUGCCAGGAUCCCAAGUAGACGUUAUGUCUACAGACAAAUUGCCAUAACCAUAAUGGCAAACGGCCUGUUGGGGGAC-
.......(((((-----------(.((.(((..........((((((.....)))))).......(((((((.......)))))))..))))).))))))...- ( -36.50)
>consensus
ACCCACAUCCCAGUCCC____CAAUCCUCAAGGAACCCCAAGUCGGCGUUAUGUCUACAGACAAAUUGCCAUAACCAUAAUGGCAAACGGCCUGCUGAGGGGAU
...................................((((.(((.(((....((((....))))..(((((((.......)))))))...))).)))..)))).. (-24.98 = -24.90 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:30:41 2006