Locus 133

Sequence ID Banth.0
Location 746,744 – 746,826
Length 82
Max. P 0.999802
window917 window918 window919 window920

overview

Window 7

Location 746,744 – 746,826
Length 82
Sequences 4
Columns 84
Reading direction forward
Mean pairwise identity 73.29
Mean single sequence MFE -29.05
Consensus MFE -31.44
Energy contribution -26.88
Covariance contribution -4.56
Combinations/Pair 1.65
Mean z-score -1.71
Structure conservation index 1.08
SVM decision value 4.11
SVM RNA-class probability 0.999802
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 746744 82 + 5227293
GCGGAAGUAGUUCAGU--GGUAGAAUACAACCUUGCCAAGGUUGGGGUCGCGGGUUCGAAUCCCGUCUUCCGCUCCAAUUUUCA
(((((((.........--....((...((((((.....))))))...))(((((.......))))))))))))........... ( -27.90)
>Bcere.0 823437 82 + 5224283
GCGGAAGUAGUUCAGU--GGUAGAAUACAACCUUGCCAAGGUUGGGGUCGCGGGUUCGAAUCCCGUCUUCCGCUCCAAUUUUCA
(((((((.........--....((...((((((.....))))))...))(((((.......))))))))))))........... ( -27.90)
>Bsubt.0 95768 82 + 4214630
GCGGAAGUAGUUCAGU--GGUAGAACACCACCUUGCCAAGGUGGGGGUCGCGGGUUCGAAUCCCGUCUUCCGCUCCAACUAUAC
(((((((..((((...--....)))).((((((.....)))))).....(((((.......))))))))))))........... ( -30.90)
>Bhalo.0 1025354 84 + 4202352
GCGCCCGUAGCUCAAUUGGAUAGAGCGUUUGACUACGGAUCAAAAGGUUAGGGGUUCGACUCCUCUCGGGCGCGCCAUUUCUAU
(((((((..((((.........)))).((((((....).))))).....(((((.....)))))..)))))))........... ( -29.50)
>consensus
GCGGAAGUAGUUCAGU__GGUAGAACACAACCUUGCCAAGGUUGGGGUCGCGGGUUCGAAUCCCGUCUUCCGCUCCAAUUUUAA
(((((((..((((.........)))).(((((((...))))))).....(((((.......))))))))))))........... (-31.44 = -26.88 +  -4.56)

alignment

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secondary structure

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dotplot

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Window 8

Location 746,744 – 746,826
Length 82
Sequences 4
Columns 84
Reading direction reverse
Mean pairwise identity 73.29
Mean single sequence MFE -25.05
Consensus MFE -26.39
Energy contribution -22.95
Covariance contribution -3.44
Combinations/Pair 1.57
Mean z-score -1.16
Structure conservation index 1.05
SVM decision value 3.78
SVM RNA-class probability 0.999610
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 746744 82 + 5227293
UGAAAAUUGGAGCGGAAGACGGGAUUCGAACCCGCGACCCCAACCUUGGCAAGGUUGUAUUCUACC--ACUGAACUACUUCCGC
...........(((((((..(((.......)))(((((((((....)))...))))))........--.........))))))) ( -23.60)
>Bcere.0 823437 82 + 5224283
UGAAAAUUGGAGCGGAAGACGGGAUUCGAACCCGCGACCCCAACCUUGGCAAGGUUGUAUUCUACC--ACUGAACUACUUCCGC
...........(((((((..(((.......)))(((((((((....)))...))))))........--.........))))))) ( -23.60)
>Bsubt.0 95768 82 + 4214630
GUAUAGUUGGAGCGGAAGACGGGAUUCGAACCCGCGACCCCCACCUUGGCAAGGUGGUGUUCUACC--ACUGAACUACUUCCGC
...........(((((((..(((..(((......)))..)))....(((...(((((((...))))--)))...)))))))))) ( -27.90)
>Bhalo.0 1025354 84 + 4202352
AUAGAAAUGGCGCGCCCGAGAGGAGUCGAACCCCUAACCUUUUGAUCCGUAGUCAAACGCUCUAUCCAAUUGAGCUACGGGCGC
...........(((((((...(((.(((((..........))))))))..........((((.........))))..))))))) ( -25.10)
>consensus
UGAAAAUUGGAGCGGAAGACGGGAUUCGAACCCGCGACCCCAACCUUGGCAAGGUUGUAUUCUACC__ACUGAACUACUUCCGC
...........(((((((.((((.......))))......((((((.....)))))).((((.........))))..))))))) (-26.39 = -22.95 +  -3.44)

alignment

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secondary structure

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dotplot

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Window 9

Location 746,744 – 746,826
Length 82
Sequences 4
Columns 84
Reading direction forward
Mean pairwise identity 73.29
Mean single sequence MFE -29.05
Consensus MFE -31.44
Energy contribution -26.88
Covariance contribution -4.56
Combinations/Pair 1.65
Mean z-score -1.71
Structure conservation index 1.08
SVM decision value 4.11
SVM RNA-class probability 0.999802
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 746744 82 + 5227293/0-84
GCGGAAGUAGUUCAGU--GGUAGAAUACAACCUUGCCAAGGUUGGGGUCGCGGGUUCGAAUCCCGUCUUCCGCUCCAAUUUUCA
(((((((.........--....((...((((((.....))))))...))(((((.......))))))))))))........... ( -27.90)
>Bcere.0 823437 82 + 5224283/0-84
GCGGAAGUAGUUCAGU--GGUAGAAUACAACCUUGCCAAGGUUGGGGUCGCGGGUUCGAAUCCCGUCUUCCGCUCCAAUUUUCA
(((((((.........--....((...((((((.....))))))...))(((((.......))))))))))))........... ( -27.90)
>Bsubt.0 95768 82 + 4214630/0-84
GCGGAAGUAGUUCAGU--GGUAGAACACCACCUUGCCAAGGUGGGGGUCGCGGGUUCGAAUCCCGUCUUCCGCUCCAACUAUAC
(((((((..((((...--....)))).((((((.....)))))).....(((((.......))))))))))))........... ( -30.90)
>Bhalo.0 1025354 84 + 4202352/0-84
GCGCCCGUAGCUCAAUUGGAUAGAGCGUUUGACUACGGAUCAAAAGGUUAGGGGUUCGACUCCUCUCGGGCGCGCCAUUUCUAU
(((((((..((((.........)))).((((((....).))))).....(((((.....)))))..)))))))........... ( -29.50)
>consensus
GCGGAAGUAGUUCAGU__GGUAGAACACAACCUUGCCAAGGUUGGGGUCGCGGGUUCGAAUCCCGUCUUCCGCUCCAAUUUUAA
(((((((..((((.........)))).(((((((...))))))).....(((((.......))))))))))))........... (-31.44 = -26.88 +  -4.56)

alignment

Postscript

secondary structure

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dotplot

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Window 0

Location 746,744 – 746,826
Length 82
Sequences 4
Columns 84
Reading direction reverse
Mean pairwise identity 73.29
Mean single sequence MFE -25.05
Consensus MFE -26.39
Energy contribution -22.95
Covariance contribution -3.44
Combinations/Pair 1.57
Mean z-score -1.16
Structure conservation index 1.05
SVM decision value 3.78
SVM RNA-class probability 0.999610
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 746744 82 + 5227293/0-84
UGAAAAUUGGAGCGGAAGACGGGAUUCGAACCCGCGACCCCAACCUUGGCAAGGUUGUAUUCUACC--ACUGAACUACUUCCGC
...........(((((((..(((.......)))(((((((((....)))...))))))........--.........))))))) ( -23.60)
>Bcere.0 823437 82 + 5224283/0-84
UGAAAAUUGGAGCGGAAGACGGGAUUCGAACCCGCGACCCCAACCUUGGCAAGGUUGUAUUCUACC--ACUGAACUACUUCCGC
...........(((((((..(((.......)))(((((((((....)))...))))))........--.........))))))) ( -23.60)
>Bsubt.0 95768 82 + 4214630/0-84
GUAUAGUUGGAGCGGAAGACGGGAUUCGAACCCGCGACCCCCACCUUGGCAAGGUGGUGUUCUACC--ACUGAACUACUUCCGC
...........(((((((..(((..(((......)))..)))....(((...(((((((...))))--)))...)))))))))) ( -27.90)
>Bhalo.0 1025354 84 + 4202352/0-84
AUAGAAAUGGCGCGCCCGAGAGGAGUCGAACCCCUAACCUUUUGAUCCGUAGUCAAACGCUCUAUCCAAUUGAGCUACGGGCGC
...........(((((((...(((.(((((..........))))))))..........((((.........))))..))))))) ( -25.10)
>consensus
UGAAAAUUGGAGCGGAAGACGGGAUUCGAACCCGCGACCCCAACCUUGGCAAGGUUGUAUUCUACC__ACUGAACUACUUCCGC
...........(((((((.((((.......))))......((((((.....)))))).((((.........))))..))))))) (-26.39 = -22.95 +  -3.44)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 17:27:34 2006