Locus 16

Sequence ID Bhalo.0
Location 2,860,213 – 2,860,288
Length 75
Max. P 0.999694
window120 window121 window122 window123

overview

Window 0

Location 2,860,213 – 2,860,288
Length 75
Sequences 6
Columns 75
Reading direction forward
Mean pairwise identity 85.96
Mean single sequence MFE -24.52
Consensus MFE -23.18
Energy contribution -20.97
Covariance contribution -2.22
Combinations/Pair 1.35
Mean z-score -1.70
Structure conservation index 0.95
SVM decision value 1.20
SVM RNA-class probability 0.929356
Prediction RNA

Download alignment: ClustalW | MAF

>Bhalo.0 2860213 75 + 4202352
AAUGACCCGUACUGGGCUCGAACCAGUGACCUCUACCCUGUCAAGGUAGCGCUCUCCCAACUGAGCUAACGGAUC
......(((((((((.......))))).....(((((.......))))).((((........))))..))))... ( -21.70)
>Bclau.0 2571144 75 + 4303871
UAUGACCCGUACUGGGCUCGAACCAGUGACCUCUACCCUGUCAAGGUAGCGCUCUCCCAACUGAGCUAACGGAUC
......(((((((((.......))))).....(((((.......))))).((((........))))..))))... ( -21.70)
>Bsubt.0 2952455 75 - 4214630
UAUGAUUCCGACUGGGCUCGAACCAGCGACCUCUACCCUGUCAAGGUAGCGCUCUCCCAGCUGAGCUACGGAAUC
...(((((((....((((((.....((.((((..((...))..)))).))(((.....))))))))).))))))) ( -24.60)
>Blich.0 1299724 75 + 4222334
UAUGAUUCCGACUGGGCUCGAACCAGCGACCUCUACCCUGUCAAGGUAGCGCUCUCCCAGCUGAGCUACGGAAUC
...(((((((....((((((.....((.((((..((...))..)))).))(((.....))))))))).))))))) ( -24.60)
>Bcere.0 1389507 75 + 5224283
UAUGACCCCGGAGAGGCUCGAACUCACGACCUCCACCCUGUCAAGGUGGCGCUCUCCCUGCUGAGCUACGGGAUC
......((((..((((.(((......)))))))((((.......))))..((((........))))..))))... ( -25.00)
>Banth.0 1232475 75 + 5227293
UAUGAUCCCGGAGAGGCUCGAACUCACGACCUCCACCCUGUCAAGGUGGCGCUCUCCCUGCUGAGCUACGGGAUC
...(((((((..((((.(((......)))))))((((.......))))..((((........))))..))))))) ( -29.50)
>consensus
UAUGACCCCGACUGGGCUCGAACCAGCGACCUCUACCCUGUCAAGGUAGCGCUCUCCCAGCUGAGCUACGGGAUC
...((.(((((((((.......))))).....(((((.......))))).((((........))))..)))).)) (-23.18 = -20.97 +  -2.22)

alignment

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secondary structure

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dotplot

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Window 1

Location 2,860,213 – 2,860,288
Length 75
Sequences 6
Columns 75
Reading direction reverse
Mean pairwise identity 85.96
Mean single sequence MFE -32.20
Consensus MFE -33.37
Energy contribution -30.90
Covariance contribution -2.47
Combinations/Pair 1.29
Mean z-score -2.70
Structure conservation index 1.04
SVM decision value 3.90
SVM RNA-class probability 0.999694
Prediction RNA

Download alignment: ClustalW | MAF

>Bhalo.0 2860213 75 + 4202352
GAUCCGUUAGCUCAGUUGGGAGAGCGCUACCUUGACAGGGUAGAGGUCACUGGUUCGAGCCCAGUACGGGUCAUU
(((((((..((((((..((..((.(.((((((.....)))))).).)).))..)).)))).....)))))))... ( -30.00)
>Bclau.0 2571144 75 + 4303871
GAUCCGUUAGCUCAGUUGGGAGAGCGCUACCUUGACAGGGUAGAGGUCACUGGUUCGAGCCCAGUACGGGUCAUA
(((((((..((((((..((..((.(.((((((.....)))))).).)).))..)).)))).....)))))))... ( -30.00)
>Bsubt.0 2952455 75 - 4214630
GAUUCCGUAGCUCAGCUGGGAGAGCGCUACCUUGACAGGGUAGAGGUCGCUGGUUCGAGCCCAGUCGGAAUCAUA
(((((((..(((((((..(..((.(.((((((.....)))))).).)).)..))).)))).....)))))))... ( -33.40)
>Blich.0 1299724 75 + 4222334
GAUUCCGUAGCUCAGCUGGGAGAGCGCUACCUUGACAGGGUAGAGGUCGCUGGUUCGAGCCCAGUCGGAAUCAUA
(((((((..(((((((..(..((.(.((((((.....)))))).).)).)..))).)))).....)))))))... ( -33.40)
>Bcere.0 1389507 75 + 5224283
GAUCCCGUAGCUCAGCAGGGAGAGCGCCACCUUGACAGGGUGGAGGUCGUGAGUUCGAGCCUCUCCGGGGUCAUA
((((((...((...))..((((((..((((((.....)))))).(.(((......))).)))))))))))))... ( -32.90)
>Banth.0 1232475 75 + 5227293
GAUCCCGUAGCUCAGCAGGGAGAGCGCCACCUUGACAGGGUGGAGGUCGUGAGUUCGAGCCUCUCCGGGAUCAUA
((((((...((...))..((((((..((((((.....)))))).(.(((......))).)))))))))))))... ( -33.50)
>consensus
GAUCCCGUAGCUCAGCUGGGAGAGCGCUACCUUGACAGGGUAGAGGUCGCUGGUUCGAGCCCAGUCGGGAUCAUA
(((((((..(((((((..(..((.(.((((((.....)))))).).)).)..))).)))).....)))))))... (-33.37 = -30.90 +  -2.47)

alignment

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secondary structure

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dotplot

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Window 2

Location 2,860,213 – 2,860,288
Length 75
Sequences 6
Columns 75
Reading direction forward
Mean pairwise identity 85.96
Mean single sequence MFE -24.52
Consensus MFE -23.18
Energy contribution -20.97
Covariance contribution -2.22
Combinations/Pair 1.35
Mean z-score -1.70
Structure conservation index 0.95
SVM decision value 1.20
SVM RNA-class probability 0.929356
Prediction RNA

Download alignment: ClustalW | MAF

>Bhalo.0 2860213 75 + 4202352/0-75
AAUGACCCGUACUGGGCUCGAACCAGUGACCUCUACCCUGUCAAGGUAGCGCUCUCCCAACUGAGCUAACGGAUC
......(((((((((.......))))).....(((((.......))))).((((........))))..))))... ( -21.70)
>Bclau.0 2571144 75 + 4303871/0-75
UAUGACCCGUACUGGGCUCGAACCAGUGACCUCUACCCUGUCAAGGUAGCGCUCUCCCAACUGAGCUAACGGAUC
......(((((((((.......))))).....(((((.......))))).((((........))))..))))... ( -21.70)
>Bsubt.0 2952455 75 - 4214630/0-75
UAUGAUUCCGACUGGGCUCGAACCAGCGACCUCUACCCUGUCAAGGUAGCGCUCUCCCAGCUGAGCUACGGAAUC
...(((((((....((((((.....((.((((..((...))..)))).))(((.....))))))))).))))))) ( -24.60)
>Blich.0 1299724 75 + 4222334/0-75
UAUGAUUCCGACUGGGCUCGAACCAGCGACCUCUACCCUGUCAAGGUAGCGCUCUCCCAGCUGAGCUACGGAAUC
...(((((((....((((((.....((.((((..((...))..)))).))(((.....))))))))).))))))) ( -24.60)
>Bcere.0 1389507 75 + 5224283/0-75
UAUGACCCCGGAGAGGCUCGAACUCACGACCUCCACCCUGUCAAGGUGGCGCUCUCCCUGCUGAGCUACGGGAUC
......((((..((((.(((......)))))))((((.......))))..((((........))))..))))... ( -25.00)
>Banth.0 1232475 75 + 5227293/0-75
UAUGAUCCCGGAGAGGCUCGAACUCACGACCUCCACCCUGUCAAGGUGGCGCUCUCCCUGCUGAGCUACGGGAUC
...(((((((..((((.(((......)))))))((((.......))))..((((........))))..))))))) ( -29.50)
>consensus
UAUGACCCCGACUGGGCUCGAACCAGCGACCUCUACCCUGUCAAGGUAGCGCUCUCCCAGCUGAGCUACGGGAUC
...((.(((((((((.......))))).....(((((.......))))).((((........))))..)))).)) (-23.18 = -20.97 +  -2.22)

alignment

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secondary structure

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dotplot

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Window 3

Location 2,860,213 – 2,860,288
Length 75
Sequences 6
Columns 75
Reading direction reverse
Mean pairwise identity 85.96
Mean single sequence MFE -32.20
Consensus MFE -33.37
Energy contribution -30.90
Covariance contribution -2.47
Combinations/Pair 1.29
Mean z-score -2.70
Structure conservation index 1.04
SVM decision value 3.90
SVM RNA-class probability 0.999694
Prediction RNA

Download alignment: ClustalW | MAF

>Bhalo.0 2860213 75 + 4202352/0-75
GAUCCGUUAGCUCAGUUGGGAGAGCGCUACCUUGACAGGGUAGAGGUCACUGGUUCGAGCCCAGUACGGGUCAUU
(((((((..((((((..((..((.(.((((((.....)))))).).)).))..)).)))).....)))))))... ( -30.00)
>Bclau.0 2571144 75 + 4303871/0-75
GAUCCGUUAGCUCAGUUGGGAGAGCGCUACCUUGACAGGGUAGAGGUCACUGGUUCGAGCCCAGUACGGGUCAUA
(((((((..((((((..((..((.(.((((((.....)))))).).)).))..)).)))).....)))))))... ( -30.00)
>Bsubt.0 2952455 75 - 4214630/0-75
GAUUCCGUAGCUCAGCUGGGAGAGCGCUACCUUGACAGGGUAGAGGUCGCUGGUUCGAGCCCAGUCGGAAUCAUA
(((((((..(((((((..(..((.(.((((((.....)))))).).)).)..))).)))).....)))))))... ( -33.40)
>Blich.0 1299724 75 + 4222334/0-75
GAUUCCGUAGCUCAGCUGGGAGAGCGCUACCUUGACAGGGUAGAGGUCGCUGGUUCGAGCCCAGUCGGAAUCAUA
(((((((..(((((((..(..((.(.((((((.....)))))).).)).)..))).)))).....)))))))... ( -33.40)
>Bcere.0 1389507 75 + 5224283/0-75
GAUCCCGUAGCUCAGCAGGGAGAGCGCCACCUUGACAGGGUGGAGGUCGUGAGUUCGAGCCUCUCCGGGGUCAUA
((((((...((...))..((((((..((((((.....)))))).(.(((......))).)))))))))))))... ( -32.90)
>Banth.0 1232475 75 + 5227293/0-75
GAUCCCGUAGCUCAGCAGGGAGAGCGCCACCUUGACAGGGUGGAGGUCGUGAGUUCGAGCCUCUCCGGGAUCAUA
((((((...((...))..((((((..((((((.....)))))).(.(((......))).)))))))))))))... ( -33.50)
>consensus
GAUCCCGUAGCUCAGCUGGGAGAGCGCUACCUUGACAGGGUAGAGGUCGCUGGUUCGAGCCCAGUCGGGAUCAUA
(((((((..(((((((..(..((.(.((((((.....)))))).).)).)..))).)))).....)))))))... (-33.37 = -30.90 +  -2.47)

alignment

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secondary structure

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dotplot

Postscript

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