Locus 117

Sequence ID Bcere.0
Location 5,211,703 – 5,211,791
Length 88
Max. P 0.573289
window819 window820 window821 window822

overview

Window 9

Location 5,211,703 – 5,211,791
Length 88
Sequences 4
Columns 91
Reading direction forward
Mean pairwise identity 83.99
Mean single sequence MFE -19.48
Consensus MFE -11.25
Energy contribution -11.25
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.15
Structure conservation index 0.58
SVM decision value 0.08
SVM RNA-class probability 0.573289
Prediction RNA

Download alignment: ClustalW | MAF

>Bcere.0 5211703 88 + 5224283
UUUCACCUCCUUUUGGUCUAAACGGCCC---AUAAUGGGCAAGGAGCAAUUAAUUUAUAGUAAUUACUCACGAGUUUAGAUUAUAUCAUAG
.............((((((((((.((((---.....))))...(((.(((((........))))).)))....))))))))))........ ( -22.20)
>Banth.0 5214712 88 + 5227293
UUUCACCUCCUUUUGGUCUAAACGGCCC---GUAAUGGGCAAGGAGCAAUUAAUUUAUAGUAAUUACUCACGAGUUUAGAUUAUAUCAUAG
.............((((((((((.((((---.....))))...(((.(((((........))))).)))....))))))))))........ ( -21.50)
>Blich.0 4207817 85 + 4222334
UUGCACCUCCUUUUGGACUAAGCGGCCCAUUAUAUUGGGCAAGGAGCAAUAAUCCUAU------UACUCACAAUUUUAUAUUAUAUCAAAG
((((.(((((....))).......(((((......)))))..)).)))).........------........................... ( -17.90)
>Bsubt.0 4198760 82 + 4214630
UUGCACCUCCUUUUGGACUAAGCGGCCC---AUAAUGGGCAAGGAGCAAUAAUUCUAU------UACUCACAAUUUUAUAUUAUACCAAAG
((((.(((((....))).......((((---.....))))..)).)))).........------........................... ( -16.30)
>consensus
UUGCACCUCCUUUUGGACUAAACGGCCC___AUAAUGGGCAAGGAGCAAUAAAUCUAU______UACUCACAAGUUUAGAUUAUAUCAAAG
......((((((...(......).((((........))))))))))............................................. (-11.25 = -11.25 +   0.00)

alignment

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secondary structure

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dotplot

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Window 0

Location 5,211,703 – 5,211,791
Length 88
Sequences 4
Columns 91
Reading direction reverse
Mean pairwise identity 83.99
Mean single sequence MFE -20.23
Consensus MFE -12.27
Energy contribution -12.28
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.89
Structure conservation index 0.61
SVM decision value 0.05
SVM RNA-class probability 0.558325
Prediction RNA

Download alignment: ClustalW | MAF

>Bcere.0 5211703 88 + 5224283
CUAUGAUAUAAUCUAAACUCGUGAGUAAUUACUAUAAAUUAAUUGCUCCUUGCCCAUUAU---GGGCCGUUUAGACCAAAAGGAGGUGAAA
...........(((((((..(.(((((((((........))))))))))..((((.....---)))).)))))))((....))........ ( -22.60)
>Banth.0 5214712 88 + 5227293
CUAUGAUAUAAUCUAAACUCGUGAGUAAUUACUAUAAAUUAAUUGCUCCUUGCCCAUUAC---GGGCCGUUUAGACCAAAAGGAGGUGAAA
...........(((((((..(.(((((((((........))))))))))..((((.....---)))).)))))))((....))........ ( -22.30)
>Blich.0 4207817 85 + 4222334
CUUUGAUAUAAUAUAAAAUUGUGAGUA------AUAGGAUUAUUGCUCCUUGCCCAAUAUAAUGGGCCGCUUAGUCCAAAAGGAGGUGCAA
......................(((((------(((....))))))))...(((((......))))).((....(((....)))...)).. ( -18.40)
>Bsubt.0 4198760 82 + 4214630
CUUUGGUAUAAUAUAAAAUUGUGAGUA------AUAGAAUUAUUGCUCCUUGCCCAUUAU---GGGCCGCUUAGUCCAAAAGGAGGUGCAA
......................(((((------(((....))))))))...((((.....---)))).((....(((....)))...)).. ( -17.60)
>consensus
CUAUGAUAUAAUAUAAAAUCGUGAGUA______AUAAAAUAAUUGCUCCUUGCCCAUUAU___GGGCCGCUUAGACCAAAAGGAGGUGAAA
.............................................((((((((((........))))(.....).....))))))...... (-12.27 = -12.28 +   0.00)

alignment

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secondary structure

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dotplot

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Window 1

Location 5,211,703 – 5,211,791
Length 88
Sequences 4
Columns 91
Reading direction forward
Mean pairwise identity 83.99
Mean single sequence MFE -19.48
Consensus MFE -11.25
Energy contribution -11.25
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.15
Structure conservation index 0.58
SVM decision value 0.08
SVM RNA-class probability 0.573289
Prediction RNA

Download alignment: ClustalW | MAF

>Bcere.0 5211703 88 + 5224283/0-91
UUUCACCUCCUUUUGGUCUAAACGGCCC---AUAAUGGGCAAGGAGCAAUUAAUUUAUAGUAAUUACUCACGAGUUUAGAUUAUAUCAUAG
.............((((((((((.((((---.....))))...(((.(((((........))))).)))....))))))))))........ ( -22.20)
>Banth.0 5214712 88 + 5227293/0-91
UUUCACCUCCUUUUGGUCUAAACGGCCC---GUAAUGGGCAAGGAGCAAUUAAUUUAUAGUAAUUACUCACGAGUUUAGAUUAUAUCAUAG
.............((((((((((.((((---.....))))...(((.(((((........))))).)))....))))))))))........ ( -21.50)
>Blich.0 4207817 85 + 4222334/0-91
UUGCACCUCCUUUUGGACUAAGCGGCCCAUUAUAUUGGGCAAGGAGCAAUAAUCCUAU------UACUCACAAUUUUAUAUUAUAUCAAAG
((((.(((((....))).......(((((......)))))..)).)))).........------........................... ( -17.90)
>Bsubt.0 4198760 82 + 4214630/0-91
UUGCACCUCCUUUUGGACUAAGCGGCCC---AUAAUGGGCAAGGAGCAAUAAUUCUAU------UACUCACAAUUUUAUAUUAUACCAAAG
((((.(((((....))).......((((---.....))))..)).)))).........------........................... ( -16.30)
>consensus
UUGCACCUCCUUUUGGACUAAACGGCCC___AUAAUGGGCAAGGAGCAAUAAAUCUAU______UACUCACAAGUUUAGAUUAUAUCAAAG
......((((((...(......).((((........))))))))))............................................. (-11.25 = -11.25 +   0.00)

alignment

Postscript

secondary structure

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dotplot

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Window 2

Location 5,211,703 – 5,211,791
Length 88
Sequences 4
Columns 91
Reading direction reverse
Mean pairwise identity 83.99
Mean single sequence MFE -20.23
Consensus MFE -12.27
Energy contribution -12.28
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.89
Structure conservation index 0.61
SVM decision value 0.05
SVM RNA-class probability 0.558325
Prediction RNA

Download alignment: ClustalW | MAF

>Bcere.0 5211703 88 + 5224283/0-91
CUAUGAUAUAAUCUAAACUCGUGAGUAAUUACUAUAAAUUAAUUGCUCCUUGCCCAUUAU---GGGCCGUUUAGACCAAAAGGAGGUGAAA
...........(((((((..(.(((((((((........))))))))))..((((.....---)))).)))))))((....))........ ( -22.60)
>Banth.0 5214712 88 + 5227293/0-91
CUAUGAUAUAAUCUAAACUCGUGAGUAAUUACUAUAAAUUAAUUGCUCCUUGCCCAUUAC---GGGCCGUUUAGACCAAAAGGAGGUGAAA
...........(((((((..(.(((((((((........))))))))))..((((.....---)))).)))))))((....))........ ( -22.30)
>Blich.0 4207817 85 + 4222334/0-91
CUUUGAUAUAAUAUAAAAUUGUGAGUA------AUAGGAUUAUUGCUCCUUGCCCAAUAUAAUGGGCCGCUUAGUCCAAAAGGAGGUGCAA
......................(((((------(((....))))))))...(((((......))))).((....(((....)))...)).. ( -18.40)
>Bsubt.0 4198760 82 + 4214630/0-91
CUUUGGUAUAAUAUAAAAUUGUGAGUA------AUAGAAUUAUUGCUCCUUGCCCAUUAU---GGGCCGCUUAGUCCAAAAGGAGGUGCAA
......................(((((------(((....))))))))...((((.....---)))).((....(((....)))...)).. ( -17.60)
>consensus
CUAUGAUAUAAUAUAAAAUCGUGAGUA______AUAAAAUAAUUGCUCCUUGCCCAUUAU___GGGCCGCUUAGACCAAAAGGAGGUGAAA
.............................................((((((((((........))))(.....).....))))))...... (-12.27 = -12.28 +   0.00)

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 17:26:20 2006