Locus 41

Sequence ID Banth.0
Location 1,362,642 – 1,362,760
Length 118
Max. P 0.999999
window270 window271 window272 window273 window274

overview

Window 0

Location 1,362,642 – 1,362,760
Length 118
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 81.01
Mean single sequence MFE -29.30
Consensus MFE -25.74
Energy contribution -24.53
Covariance contribution -1.21
Combinations/Pair 1.23
Mean z-score -1.62
Structure conservation index 0.88
SVM decision value 1.13
SVM RNA-class probability 0.919380
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 1362642 118 + 5227293/0-120
AAAUACAAAUACAAAGCUUAUCAAGAGAAGCGGAGGGAACUGGCCCGGCGAAGCUCGGCAACCUGCUUAU--AGAAAGCAAGGUGCUAAAUCCAGCAAAAUGGAAUCCAUUUUGAAAGAU
........................(((...((..(((......)))..))...)))((((.(((((((..--...)))).)))))))..(((...((((((((...))))))))...))) ( -31.00)
>Bcere.0 1518502 118 + 5224283/0-120
AAAUACAAAUACAAAGCUUAUCAAGAGAAGCGGAGGGAACUGGCCCGGCGAAGCUCGGCAACCUGCUUAU--AGAAAGCAAGGUGCUAAAUCCAGCAAAAUGGAAUCCAUUUUGAAAGAU
........................(((...((..(((......)))..))...)))((((.(((((((..--...)))).)))))))..(((...((((((((...))))))))...))) ( -31.00)
>Bclau.0 1701635 119 + 4303871/0-120
AAAAAUGAAUA-AGAACUUAUCAAGAGUGGCGGAGGGACCUGACCCAAUGAAGCCCGGCAACCAGUUUAUUUGUAAACCACGGUGCUACAUUCAGCAGAGCAGCUUUUGUUCUGAAAGAU
.....(((((.-.((.....))....(((((...(((......)))......(((.(....)..(((((....)))))...))))))))))))).((((((((...))))))))...... ( -25.90)
>consensus
AAAUACAAAUACAAAGCUUAUCAAGAGAAGCGGAGGGAACUGGCCCGGCGAAGCUCGGCAACCUGCUUAU__AGAAAGCAAGGUGCUAAAUCCAGCAAAAUGGAAUCCAUUUUGAAAGAU
........................(((...((..(((......)))..))...)))((((.(((((((.......)))).)))))))..(((...((((((((...))))))))...))) (-25.74 = -24.53 +  -1.21)

alignment

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secondary structure

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dotplot

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Window 1

Location 1,362,642 – 1,362,760
Length 118
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 72.63
Mean single sequence MFE -34.47
Consensus MFE -21.30
Energy contribution -22.20
Covariance contribution 0.90
Combinations/Pair 1.22
Mean z-score -3.04
Structure conservation index 0.62
SVM decision value 5.00
SVM RNA-class probability 0.999967
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 1362642 118 + 5227293/40-160
UGGCCCGGCGAAGCUCGGCAACCUGCUUAU--AGAAAGCAAGGUGCUAAAUCCAGCAAAAUGGAAUCCAUUUUGAAAGAUAAGGUAAAAUAUAUUACCGAACAGUCUUUUCGAAAUGGGA
..(((.(((...))).))).((((((((..--...)))).))))......((((......)))).(((((((((((((((..(((((......))))).....))).)))))))))))). ( -37.60)
>Bcere.0 1518502 118 + 5224283/40-160
UGGCCCGGCGAAGCUCGGCAACCUGCUUAU--AGAAAGCAAGGUGCUAAAUCCAGCAAAAUGGAAUCCAUUUUGAAAGAUAAGGUAAAAUAUAUUACCGAACAGUCUUUUCGAAAUGGGA
..(((.(((...))).))).((((((((..--...)))).))))......((((......)))).(((((((((((((((..(((((......))))).....))).)))))))))))). ( -37.60)
>Bclau.0 1701635 111 + 4303871/40-160
UGACCCAAUGAAGCCCGGCAACCAGUUUAUUUGUAAACCACGGUGCUACAUUCAGCAGAGCAGCUUUUGUUCUGAAAGAUAAGUGAGG---------CGAACCCCUUUUCUUAUCUGAAA
......((((.((((((....)..(((((....)))))...)).))).))))...((((((((...))))))))..(((((((.((((---------......))))..))))))).... ( -28.20)
>consensus
UGGCCCGGCGAAGCUCGGCAACCUGCUUAU__AGAAAGCAAGGUGCUAAAUCCAGCAAAAUGGAAUCCAUUUUGAAAGAUAAGGUAAAAUAUAUUACCGAACAGUCUUUUCGAAAUGGGA
...((((.(((((...((((.(((((((.......)))).)))))))..(((...((((((((...))))))))...)))..(((((......))))).........)))))...)))). (-21.30 = -22.20 +   0.90)

alignment

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secondary structure

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dotplot

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Window 2

Location 1,362,642 – 1,362,760
Length 118
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 72.63
Mean single sequence MFE -31.70
Consensus MFE -22.82
Energy contribution -21.50
Covariance contribution -1.32
Combinations/Pair 1.26
Mean z-score -2.24
Structure conservation index 0.72
SVM decision value 3.93
SVM RNA-class probability 0.999709
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 1362642 118 + 5227293/40-160
UCCCAUUUCGAAAAGACUGUUCGGUAAUAUAUUUUACCUUAUCUUUCAAAAUGGAUUCCAUUUUGCUGGAUUUAGCACCUUGCUUUCU--AUAAGCAGGUUGCCGAGCUUCGCCGGGCCA
.(((....((((......(((((((((......)))))..((((..((((((((...))))))))..))))...(((.(((((((...--..))))))).))).))))))))..)))... ( -34.00)
>Bcere.0 1518502 118 + 5224283/40-160
UCCCAUUUCGAAAAGACUGUUCGGUAAUAUAUUUUACCUUAUCUUUCAAAAUGGAUUCCAUUUUGCUGGAUUUAGCACCUUGCUUUCU--AUAAGCAGGUUGCCGAGCUUCGCCGGGCCA
.(((....((((......(((((((((......)))))..((((..((((((((...))))))))..))))...(((.(((((((...--..))))))).))).))))))))..)))... ( -34.00)
>Bclau.0 1701635 111 + 4303871/40-160
UUUCAGAUAAGAAAAGGGGUUCG---------CCUCACUUAUCUUUCAGAACAAAAGCUGCUCUGCUGAAUGUAGCACCGUGGUUUACAAAUAAACUGGUUGCCGGGCUUCAUUGGGUCA
....(((((((....((((....---------)))).)))))))..((((.((.....)).))))((.((((.(((.((((((((((....))))))).....)))))).)))).))... ( -27.10)
>consensus
UCCCAUUUCGAAAAGACUGUUCGGUAAUAUAUUUUACCUUAUCUUUCAAAAUGGAUUCCAUUUUGCUGGAUUUAGCACCUUGCUUUCU__AUAAGCAGGUUGCCGAGCUUCGCCGGGCCA
.(((...((.....))..(((((.................((((..(((((((.....)))))))..))))...((((((.((((.......))))))).))))))))......)))... (-22.82 = -21.50 +  -1.32)

alignment

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secondary structure

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dotplot

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Window 3

Location 1,362,642 – 1,362,759
Length 117
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 71.43
Mean single sequence MFE -32.13
Consensus MFE -21.29
Energy contribution -19.87
Covariance contribution -1.43
Combinations/Pair 1.31
Mean z-score -3.65
Structure conservation index 0.66
SVM decision value 6.65
SVM RNA-class probability 0.999999
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 1362642 117 + 5227293/60-180
ACCUGCUUAU--AGAAAGCAAGGUGCUAAAUCCAGCAAAAUGGAAUCCAUUUUGAAAGAUAAGGUAAAAUAUAUUACCGAACAGUCUUUUCGAAAUGGGAAAGAUUUUUUUUA-UGAAUA
((((((((..--...)))).))))......((((......)))).(((((((((((((((..(((((......))))).....))).))))))))))))..............-...... ( -30.20)
>Bcere.0 1518502 117 + 5224283/60-180
ACCUGCUUAU--AGAAAGCAAGGUGCUAAAUCCAGCAAAAUGGAAUCCAUUUUGAAAGAUAAGGUAAAAUAUAUUACCGAACAGUCUUUUCGAAAUGGGAAAGAUUUUUUUUA-UGAAUA
((((((((..--...)))).))))......((((......)))).(((((((((((((((..(((((......))))).....))).))))))))))))..............-...... ( -30.20)
>Bclau.0 1701635 111 + 4303871/60-180
ACCAGUUUAUUUGUAAACCACGGUGCUACAUUCAGCAGAGCAGCUUUUGUUCUGAAAGAUAAGUGAGG---------CGAACCCCUUUUCUUAUCUGAAAAGGGGUUUUUUCAAUGGAGA
.(((.((((((((((.((....))..)))......((((((((...))))))))..)))))))(((((---------.((((((((((((......))))))))))))))))).)))... ( -36.00)
>consensus
ACCUGCUUAU__AGAAAGCAAGGUGCUAAAUCCAGCAAAAUGGAAUCCAUUUUGAAAGAUAAGGUAAAAUAUAUUACCGAACAGUCUUUUCGAAAUGGGAAAGAUUUUUUUUA_UGAAUA
((((((((.......)))).)))).....(((...((((((((...))))))))...)))..(((((......)))))(((..((((((((......))))))))..))).......... (-21.29 = -19.87 +  -1.43)

alignment

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secondary structure

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dotplot

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Window 4

Location 1,362,642 – 1,362,759
Length 117
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 71.43
Mean single sequence MFE -25.40
Consensus MFE -14.22
Energy contribution -14.00
Covariance contribution -0.22
Combinations/Pair 1.22
Mean z-score -2.55
Structure conservation index 0.56
SVM decision value 3.21
SVM RNA-class probability 0.998747
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 1362642 117 + 5227293/60-180
UAUUCA-UAAAAAAAAUCUUUCCCAUUUCGAAAAGACUGUUCGGUAAUAUAUUUUACCUUAUCUUUCAAAAUGGAUUCCAUUUUGCUGGAUUUAGCACCUUGCUUUCU--AUAAGCAGGU
......-.........(((((.(......).))))).((((.(((((......)))))..((((..((((((((...))))))))..))))..)))).(((((((...--..))))))). ( -23.60)
>Bcere.0 1518502 117 + 5224283/60-180
UAUUCA-UAAAAAAAAUCUUUCCCAUUUCGAAAAGACUGUUCGGUAAUAUAUUUUACCUUAUCUUUCAAAAUGGAUUCCAUUUUGCUGGAUUUAGCACCUUGCUUUCU--AUAAGCAGGU
......-.........(((((.(......).))))).((((.(((((......)))))..((((..((((((((...))))))))..))))..)))).(((((((...--..))))))). ( -23.60)
>Bclau.0 1701635 111 + 4303871/60-180
UCUCCAUUGAAAAAACCCCUUUUCAGAUAAGAAAAGGGGUUCG---------CCUCACUUAUCUUUCAGAACAAAAGCUGCUCUGCUGAAUGUAGCACCGUGGUUUACAAAUAAACUGGU
...(((.(((...(((((((((((......)))))))))))..---------..))).................((((..(..(((((....)))))..)..))))..........))). ( -29.00)
>consensus
UAUUCA_UAAAAAAAAUCUUUCCCAUUUCGAAAAGACUGUUCGGUAAUAUAUUUUACCUUAUCUUUCAAAAUGGAUUCCAUUUUGCUGGAUUUAGCACCUUGCUUUCU__AUAAGCAGGU
......................(((.................(((((......)))))........(((((((.....))))))).))).......((((.((((.......)))))))) (-14.22 = -14.00 +  -0.22)

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 17:19:17 2006