Locus 139

Sequence ID Banth.0
Location 877,387 – 877,479
Length 92
Max. P 0.999922
window937 window938 window939 window940

overview

Window 7

Location 877,387 – 877,479
Length 92
Sequences 3
Columns 92
Reading direction forward
Mean pairwise identity 67.39
Mean single sequence MFE -25.37
Consensus MFE -19.01
Energy contribution -18.90
Covariance contribution -0.11
Combinations/Pair 1.29
Mean z-score -1.95
Structure conservation index 0.75
SVM decision value 4.57
SVM RNA-class probability 0.999922
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 877387 92 + 5227293
CGUUUUUUUGUUGGUUUUAUCCUGCUUUAACGGGCAGUAAGACCCCCACCUCAAAAUUCAGCGGAAGCAAAGAAGUUAGGUGGGGGAUGAAC
(((((.......(((((((..(((((......))))))))))))(((((((.(...(((.((....))...))).).))))))))))))... ( -31.00)
>Bcere.0 2181350 92 - 5224283
AUUUUUUAUACAACAUGUAUCCCCCUUUAAUGGGCAGUAAGACCCCCACCUCAAAAUUUAGCGAAAGCAAAGAAGUUAGGUGGGGGAUCAAC
.................(((..(((......)))..))).(((((((((((...(((((.((....))....)))))))))))))).))... ( -30.30)
>Bhalo.0 131502 92 - 4202352
UUUUGUGACGAUGAUUUCUACCCCGUUUAACUGGCGCUAAGACUCCCAUCUCAAGGUUUGGAGGCAACAAAAAAAGAUAAUGGGAGAUAAGC
.(((((..........(((....((((.....))))...)))(((((((.((....((((.......))))....))..)))))))))))). ( -14.80)
>consensus
AUUUUUUAUGAUGAUUUUAUCCCCCUUUAACGGGCAGUAAGACCCCCACCUCAAAAUUUAGCGGAAGCAAAGAAGUUAGGUGGGGGAUAAAC
....................(((........)))........(((((((((.....(((.((....))...)))...)))))))))...... (-19.01 = -18.90 +  -0.11)

alignment

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secondary structure

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dotplot

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Window 8

Location 877,387 – 877,479
Length 92
Sequences 3
Columns 92
Reading direction reverse
Mean pairwise identity 67.39
Mean single sequence MFE -24.29
Consensus MFE -16.51
Energy contribution -16.07
Covariance contribution -0.44
Combinations/Pair 1.27
Mean z-score -1.92
Structure conservation index 0.68
SVM decision value 3.95
SVM RNA-class probability 0.999722
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 877387 92 + 5227293
GUUCAUCCCCCACCUAACUUCUUUGCUUCCGCUGAAUUUUGAGGUGGGGGUCUUACUGCCCGUUAAAGCAGGAUAAAACCAACAAAAAAACG
(((...(((((((((...(((...((....)).))).....))))))))).....((((........)))).........)))......... ( -26.10)
>Bcere.0 2181350 92 - 5224283
GUUGAUCCCCCACCUAACUUCUUUGCUUUCGCUAAAUUUUGAGGUGGGGGUCUUACUGCCCAUUAAAGGGGGAUACAUGUUGUAUAAAAAAU
((.((.(((((((((.........((....)).........)))))))))))..))..(((......)))..((((.....))))....... ( -27.87)
>Bhalo.0 131502 92 - 4202352
GCUUAUCUCCCAUUAUCUUUUUUUGUUGCCUCCAAACCUUGAGAUGGGAGUCUUAGCGCCAGUUAAACGGGGUAGAAAUCAUCGUCACAAAA
(((...((((((((.((....((((.......))))....))))))))))....)))(((.(.....)..)))................... ( -18.90)
>consensus
GUUCAUCCCCCACCUAACUUCUUUGCUUCCGCUAAAUUUUGAGGUGGGGGUCUUACUGCCCGUUAAAGGGGGAUAAAACCAACAUAAAAAAA
......(((((((((.........((....)).........))))))))).......................................... (-16.51 = -16.07 +  -0.44)

alignment

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secondary structure

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dotplot

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Window 9

Location 877,387 – 877,479
Length 92
Sequences 3
Columns 92
Reading direction forward
Mean pairwise identity 67.39
Mean single sequence MFE -25.37
Consensus MFE -19.01
Energy contribution -18.90
Covariance contribution -0.11
Combinations/Pair 1.29
Mean z-score -1.95
Structure conservation index 0.75
SVM decision value 4.57
SVM RNA-class probability 0.999922
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 877387 92 + 5227293/0-92
CGUUUUUUUGUUGGUUUUAUCCUGCUUUAACGGGCAGUAAGACCCCCACCUCAAAAUUCAGCGGAAGCAAAGAAGUUAGGUGGGGGAUGAAC
(((((.......(((((((..(((((......))))))))))))(((((((.(...(((.((....))...))).).))))))))))))... ( -31.00)
>Bcere.0 2181350 92 - 5224283/0-92
AUUUUUUAUACAACAUGUAUCCCCCUUUAAUGGGCAGUAAGACCCCCACCUCAAAAUUUAGCGAAAGCAAAGAAGUUAGGUGGGGGAUCAAC
.................(((..(((......)))..))).(((((((((((...(((((.((....))....)))))))))))))).))... ( -30.30)
>Bhalo.0 131502 92 - 4202352/0-92
UUUUGUGACGAUGAUUUCUACCCCGUUUAACUGGCGCUAAGACUCCCAUCUCAAGGUUUGGAGGCAACAAAAAAAGAUAAUGGGAGAUAAGC
.(((((..........(((....((((.....))))...)))(((((((.((....((((.......))))....))..)))))))))))). ( -14.80)
>consensus
AUUUUUUAUGAUGAUUUUAUCCCCCUUUAACGGGCAGUAAGACCCCCACCUCAAAAUUUAGCGGAAGCAAAGAAGUUAGGUGGGGGAUAAAC
....................(((........)))........(((((((((.....(((.((....))...)))...)))))))))...... (-19.01 = -18.90 +  -0.11)

alignment

Postscript

secondary structure

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dotplot

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Window 0

Location 877,387 – 877,479
Length 92
Sequences 3
Columns 92
Reading direction reverse
Mean pairwise identity 67.39
Mean single sequence MFE -24.29
Consensus MFE -16.51
Energy contribution -16.07
Covariance contribution -0.44
Combinations/Pair 1.27
Mean z-score -1.92
Structure conservation index 0.68
SVM decision value 3.95
SVM RNA-class probability 0.999722
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 877387 92 + 5227293/0-92
GUUCAUCCCCCACCUAACUUCUUUGCUUCCGCUGAAUUUUGAGGUGGGGGUCUUACUGCCCGUUAAAGCAGGAUAAAACCAACAAAAAAACG
(((...(((((((((...(((...((....)).))).....))))))))).....((((........)))).........)))......... ( -26.10)
>Bcere.0 2181350 92 - 5224283/0-92
GUUGAUCCCCCACCUAACUUCUUUGCUUUCGCUAAAUUUUGAGGUGGGGGUCUUACUGCCCAUUAAAGGGGGAUACAUGUUGUAUAAAAAAU
((.((.(((((((((.........((....)).........)))))))))))..))..(((......)))..((((.....))))....... ( -27.87)
>Bhalo.0 131502 92 - 4202352/0-92
GCUUAUCUCCCAUUAUCUUUUUUUGUUGCCUCCAAACCUUGAGAUGGGAGUCUUAGCGCCAGUUAAACGGGGUAGAAAUCAUCGUCACAAAA
(((...((((((((.((....((((.......))))....))))))))))....)))(((.(.....)..)))................... ( -18.90)
>consensus
GUUCAUCCCCCACCUAACUUCUUUGCUUCCGCUAAAUUUUGAGGUGGGGGUCUUACUGCCCGUUAAAGGGGGAUAAAACCAACAUAAAAAAA
......(((((((((.........((....)).........))))))))).......................................... (-16.51 = -16.07 +  -0.44)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 17:27:49 2006