Locus 25

Sequence ID Bcere.0
Location 610,479 – 610,530
Length 51
Max. P 0.999639
window144 window145 window146 window147

overview

Window 4

Location 610,479 – 610,530
Length 51
Sequences 6
Columns 51
Reading direction forward
Mean pairwise identity 97.91
Mean single sequence MFE -18.40
Consensus MFE -18.42
Energy contribution -18.20
Covariance contribution -0.22
Combinations/Pair 1.07
Mean z-score -1.15
Structure conservation index 1.00
SVM decision value 1.89
SVM RNA-class probability 0.981371
Prediction RNA

Download alignment: ClustalW | MAF

>Bcere.0 610479 51 + 5224283
CGGAGGGGUAGCGAAGUGGCUAAACGCGGCGGACUGUAAAUCCGCUCCUUC
.((((((((......((.((.....)).))(((.......))))))))))) ( -17.00)
>Banth.0 537977 51 + 5227293
CGGAGGGGUAGCGAAGUGGCUAAACGCGGCGGACUGUAAAUCCGCUCCUUC
.((((((((......((.((.....)).))(((.......))))))))))) ( -17.00)
>Bsubt.0 951631 51 + 4214630
UGGAGGGGUAGCGAAGUGGCUAAACGCGGCGGACUGUAAAUCCGCUCCCUC
..(((((.((((......)))).....((((((.......))))))))))) ( -19.10)
>Bclau.0 1447368 51 + 4303871
UGGAGGGGUAGCGAAGUGGCUAAACGCGGCGGACUGUAAAUCCGCUCCCUC
..(((((.((((......)))).....((((((.......))))))))))) ( -19.10)
>Blich.0 926247 51 + 4222334
UGGAGGGGUAGCGAAGUGGCUAAACGCGGCGGACUGUAAAUCCGCUCCCUC
..(((((.((((......)))).....((((((.......))))))))))) ( -19.10)
>Bhalo.0 1024667 51 + 4202352
UGGAGGGGUAGCGAAGUGGCUAAACGCGGCGGACUGUAAAUCCGCUCCCUC
..(((((.((((......)))).....((((((.......))))))))))) ( -19.10)
>consensus
UGGAGGGGUAGCGAAGUGGCUAAACGCGGCGGACUGUAAAUCCGCUCCCUC
..(((((.((((......)))).....((((((.......))))))))))) (-18.42 = -18.20 +  -0.22)

alignment

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secondary structure

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dotplot

Postscript

Window 5

Location 610,479 – 610,530
Length 51
Sequences 6
Columns 51
Reading direction reverse
Mean pairwise identity 97.91
Mean single sequence MFE -18.43
Consensus MFE -17.97
Energy contribution -18.30
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.07
Structure conservation index 0.97
SVM decision value 3.82
SVM RNA-class probability 0.999639
Prediction RNA

Download alignment: ClustalW | MAF

>Bcere.0 610479 51 + 5224283
GAAGGAGCGGAUUUACAGUCCGCCGCGUUUAGCCACUUCGCUACCCCUCCG
...(((((((((.....))))))...(..((((......))))..).))). ( -15.10)
>Banth.0 537977 51 + 5227293
GAAGGAGCGGAUUUACAGUCCGCCGCGUUUAGCCACUUCGCUACCCCUCCG
...(((((((((.....))))))...(..((((......))))..).))). ( -15.10)
>Bsubt.0 951631 51 + 4214630
GAGGGAGCGGAUUUACAGUCCGCCGCGUUUAGCCACUUCGCUACCCCUCCA
(((((.((((((.....))))))......((((......)))).))))).. ( -20.10)
>Bclau.0 1447368 51 + 4303871
GAGGGAGCGGAUUUACAGUCCGCCGCGUUUAGCCACUUCGCUACCCCUCCA
(((((.((((((.....))))))......((((......)))).))))).. ( -20.10)
>Blich.0 926247 51 + 4222334
GAGGGAGCGGAUUUACAGUCCGCCGCGUUUAGCCACUUCGCUACCCCUCCA
(((((.((((((.....))))))......((((......)))).))))).. ( -20.10)
>Bhalo.0 1024667 51 + 4202352
GAGGGAGCGGAUUUACAGUCCGCCGCGUUUAGCCACUUCGCUACCCCUCCA
(((((.((((((.....))))))......((((......)))).))))).. ( -20.10)
>consensus
GAGGGAGCGGAUUUACAGUCCGCCGCGUUUAGCCACUUCGCUACCCCUCCA
(((((.((((((.....))))))......((((......)))).))))).. (-17.97 = -18.30 +   0.33)

alignment

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secondary structure

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dotplot

Postscript

Window 6

Location 610,479 – 610,530
Length 51
Sequences 6
Columns 51
Reading direction forward
Mean pairwise identity 97.91
Mean single sequence MFE -18.40
Consensus MFE -18.42
Energy contribution -18.20
Covariance contribution -0.22
Combinations/Pair 1.07
Mean z-score -1.15
Structure conservation index 1.00
SVM decision value 1.89
SVM RNA-class probability 0.981371
Prediction RNA

Download alignment: ClustalW | MAF

>Bcere.0 610479 51 + 5224283/0-51
CGGAGGGGUAGCGAAGUGGCUAAACGCGGCGGACUGUAAAUCCGCUCCUUC
.((((((((......((.((.....)).))(((.......))))))))))) ( -17.00)
>Banth.0 537977 51 + 5227293/0-51
CGGAGGGGUAGCGAAGUGGCUAAACGCGGCGGACUGUAAAUCCGCUCCUUC
.((((((((......((.((.....)).))(((.......))))))))))) ( -17.00)
>Bsubt.0 951631 51 + 4214630/0-51
UGGAGGGGUAGCGAAGUGGCUAAACGCGGCGGACUGUAAAUCCGCUCCCUC
..(((((.((((......)))).....((((((.......))))))))))) ( -19.10)
>Bclau.0 1447368 51 + 4303871/0-51
UGGAGGGGUAGCGAAGUGGCUAAACGCGGCGGACUGUAAAUCCGCUCCCUC
..(((((.((((......)))).....((((((.......))))))))))) ( -19.10)
>Blich.0 926247 51 + 4222334/0-51
UGGAGGGGUAGCGAAGUGGCUAAACGCGGCGGACUGUAAAUCCGCUCCCUC
..(((((.((((......)))).....((((((.......))))))))))) ( -19.10)
>Bhalo.0 1024667 51 + 4202352/0-51
UGGAGGGGUAGCGAAGUGGCUAAACGCGGCGGACUGUAAAUCCGCUCCCUC
..(((((.((((......)))).....((((((.......))))))))))) ( -19.10)
>consensus
UGGAGGGGUAGCGAAGUGGCUAAACGCGGCGGACUGUAAAUCCGCUCCCUC
..(((((.((((......)))).....((((((.......))))))))))) (-18.42 = -18.20 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 610,479 – 610,530
Length 51
Sequences 6
Columns 51
Reading direction reverse
Mean pairwise identity 97.91
Mean single sequence MFE -18.43
Consensus MFE -17.97
Energy contribution -18.30
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.07
Structure conservation index 0.97
SVM decision value 3.82
SVM RNA-class probability 0.999639
Prediction RNA

Download alignment: ClustalW | MAF

>Bcere.0 610479 51 + 5224283/0-51
GAAGGAGCGGAUUUACAGUCCGCCGCGUUUAGCCACUUCGCUACCCCUCCG
...(((((((((.....))))))...(..((((......))))..).))). ( -15.10)
>Banth.0 537977 51 + 5227293/0-51
GAAGGAGCGGAUUUACAGUCCGCCGCGUUUAGCCACUUCGCUACCCCUCCG
...(((((((((.....))))))...(..((((......))))..).))). ( -15.10)
>Bsubt.0 951631 51 + 4214630/0-51
GAGGGAGCGGAUUUACAGUCCGCCGCGUUUAGCCACUUCGCUACCCCUCCA
(((((.((((((.....))))))......((((......)))).))))).. ( -20.10)
>Bclau.0 1447368 51 + 4303871/0-51
GAGGGAGCGGAUUUACAGUCCGCCGCGUUUAGCCACUUCGCUACCCCUCCA
(((((.((((((.....))))))......((((......)))).))))).. ( -20.10)
>Blich.0 926247 51 + 4222334/0-51
GAGGGAGCGGAUUUACAGUCCGCCGCGUUUAGCCACUUCGCUACCCCUCCA
(((((.((((((.....))))))......((((......)))).))))).. ( -20.10)
>Bhalo.0 1024667 51 + 4202352/0-51
GAGGGAGCGGAUUUACAGUCCGCCGCGUUUAGCCACUUCGCUACCCCUCCA
(((((.((((((.....))))))......((((......)))).))))).. ( -20.10)
>consensus
GAGGGAGCGGAUUUACAGUCCGCCGCGUUUAGCCACUUCGCUACCCCUCCA
(((((.((((((.....))))))......((((......)))).))))).. (-17.97 = -18.30 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 17:17:24 2006