Locus 5

Sequence ID Banth.0
Location 4,235,084 – 4,235,154
Length 70
Max. P 0.999800
window11 window12 window13 window14

overview

Window 1

Location 4,235,084 – 4,235,154
Length 70
Sequences 3
Columns 73
Reading direction forward
Mean pairwise identity 76.85
Mean single sequence MFE -23.03
Consensus MFE -19.55
Energy contribution -19.00
Covariance contribution -0.55
Combinations/Pair 1.22
Mean z-score -4.33
Structure conservation index 0.85
SVM decision value 4.11
SVM RNA-class probability 0.999800
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 4235084 70 + 5227293
AUAAAGUGAAACUUUAAUCAGUGGGGAGAUU---CAUCCCCCACUGAUUAUUAGUUGAACCAAUCGGACGUUU
.....((..((((.((((((((((((.((..---..))))))))))))))..))))..))............. ( -25.70)
>Bcere.0 3113215 73 + 5224283
AUAAAGUGAAACUUUAAUAAGUGGGGGGCUUUUCCACCCCCCACUUAUUAUUAGUUGAACCAAUCGGGCUUUU
..(((((..((((.((((((((((((((........))))))))))))))..))))...((....))))))). ( -30.10)
>Bhalo.0 2609126 70 + 4202352
AUAAAGUGAAACUCCAUUCAGUGAGUUUUUU---CAAUCACCACUGAAUGUUAGUUAAAUCAAUCGGUUGUUU
......(((((((.(((((((((.((.....---.....)))))))))))..))))...)))........... ( -13.30)
>consensus
AUAAAGUGAAACUUUAAUCAGUGGGGAGAUU___CAACCCCCACUGAUUAUUAGUUGAACCAAUCGGACGUUU
.....((..((((.((((((((((((............))))))))))))..))))..))............. (-19.55 = -19.00 +  -0.55)

alignment

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secondary structure

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dotplot

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Window 2

Location 4,235,084 – 4,235,154
Length 70
Sequences 3
Columns 73
Reading direction reverse
Mean pairwise identity 76.85
Mean single sequence MFE -22.47
Consensus MFE -22.18
Energy contribution -21.63
Covariance contribution -0.54
Combinations/Pair 1.36
Mean z-score -4.27
Structure conservation index 0.99
SVM decision value 3.43
SVM RNA-class probability 0.999194
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 4235084 70 + 5227293
AAACGUCCGAUUGGUUCAACUAAUAAUCAGUGGGGGAUG---AAUCUCCCCACUGAUUAAAGUUUCACUUUAU
............(((..((((..((((((((((((((..---..)).)))))))))))).))))..))).... ( -23.30)
>Bcere.0 3113215 73 + 5224283
AAAAGCCCGAUUGGUUCAACUAAUAAUAAGUGGGGGGUGGAAAAGCCCCCCACUUAUUAAAGUUUCACUUUAU
...((((.....)))).((((..(((((((((((((((......))))))))))))))).))))......... ( -29.00)
>Bhalo.0 2609126 70 + 4202352
AAACAACCGAUUGAUUUAACUAACAUUCAGUGGUGAUUG---AAAAAACUCACUGAAUGGAGUUUCACUUUAU
...........(((...((((..((((((((((.(.((.---...)).))))))))))).)))))))...... ( -15.10)
>consensus
AAACGACCGAUUGGUUCAACUAAUAAUCAGUGGGGGAUG___AAACACCCCACUGAUUAAAGUUUCACUUUAU
...........(((...((((..(((((((((((((((......))))))))))))))).)))))))...... (-22.18 = -21.63 +  -0.54)

alignment

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secondary structure

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dotplot

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Window 3

Location 4,235,084 – 4,235,154
Length 70
Sequences 3
Columns 73
Reading direction forward
Mean pairwise identity 76.85
Mean single sequence MFE -23.03
Consensus MFE -19.55
Energy contribution -19.00
Covariance contribution -0.55
Combinations/Pair 1.22
Mean z-score -4.33
Structure conservation index 0.85
SVM decision value 4.11
SVM RNA-class probability 0.999800
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 4235084 70 + 5227293/0-73
AUAAAGUGAAACUUUAAUCAGUGGGGAGAUU---CAUCCCCCACUGAUUAUUAGUUGAACCAAUCGGACGUUU
.....((..((((.((((((((((((.((..---..))))))))))))))..))))..))............. ( -25.70)
>Bcere.0 3113215 73 + 5224283/0-73
AUAAAGUGAAACUUUAAUAAGUGGGGGGCUUUUCCACCCCCCACUUAUUAUUAGUUGAACCAAUCGGGCUUUU
..(((((..((((.((((((((((((((........))))))))))))))..))))...((....))))))). ( -30.10)
>Bhalo.0 2609126 70 + 4202352/0-73
AUAAAGUGAAACUCCAUUCAGUGAGUUUUUU---CAAUCACCACUGAAUGUUAGUUAAAUCAAUCGGUUGUUU
......(((((((.(((((((((.((.....---.....)))))))))))..))))...)))........... ( -13.30)
>consensus
AUAAAGUGAAACUUUAAUCAGUGGGGAGAUU___CAACCCCCACUGAUUAUUAGUUGAACCAAUCGGACGUUU
.....((..((((.((((((((((((............))))))))))))..))))..))............. (-19.55 = -19.00 +  -0.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 4,235,084 – 4,235,154
Length 70
Sequences 3
Columns 73
Reading direction reverse
Mean pairwise identity 76.85
Mean single sequence MFE -22.47
Consensus MFE -22.18
Energy contribution -21.63
Covariance contribution -0.54
Combinations/Pair 1.36
Mean z-score -4.27
Structure conservation index 0.99
SVM decision value 3.43
SVM RNA-class probability 0.999194
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 4235084 70 + 5227293/0-73
AAACGUCCGAUUGGUUCAACUAAUAAUCAGUGGGGGAUG---AAUCUCCCCACUGAUUAAAGUUUCACUUUAU
............(((..((((..((((((((((((((..---..)).)))))))))))).))))..))).... ( -23.30)
>Bcere.0 3113215 73 + 5224283/0-73
AAAAGCCCGAUUGGUUCAACUAAUAAUAAGUGGGGGGUGGAAAAGCCCCCCACUUAUUAAAGUUUCACUUUAU
...((((.....)))).((((..(((((((((((((((......))))))))))))))).))))......... ( -29.00)
>Bhalo.0 2609126 70 + 4202352/0-73
AAACAACCGAUUGAUUUAACUAACAUUCAGUGGUGAUUG---AAAAAACUCACUGAAUGGAGUUUCACUUUAU
...........(((...((((..((((((((((.(.((.---...)).))))))))))).)))))))...... ( -15.10)
>consensus
AAACGACCGAUUGGUUCAACUAAUAAUCAGUGGGGGAUG___AAACACCCCACUGAUUAAAGUUUCACUUUAU
...........(((...((((..(((((((((((((((......))))))))))))))).)))))))...... (-22.18 = -21.63 +  -0.54)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 17:15:00 2006