Locus 100

Sequence ID Banth.0
Location 260,657 – 260,753
Length 96
Max. P 0.999251
window710 window711 window712 window713

overview

Window 0

Location 260,657 – 260,753
Length 96
Sequences 5
Columns 100
Reading direction forward
Mean pairwise identity 64.57
Mean single sequence MFE -20.14
Consensus MFE -20.54
Energy contribution -16.86
Covariance contribution -3.68
Combinations/Pair 1.90
Mean z-score -0.57
Structure conservation index 1.02
SVM decision value 3.46
SVM RNA-class probability 0.999251
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 260657 96 + 5227293
CCUUCAUAUAUCCUCAAAGAUAAGGUUUGAGAGUCUCUACCGGGUUACCGUAAACAACCUGACUAUGAAGGCAGUGUGUCU---U-AUAUUUAUAAAGAG
((((((((....((((((.......)))))).........((((((.........))))))..))))))))..........---.-.............. ( -18.50)
>Bcere.0 294525 96 + 5224283
CCUUCAUAUAUCCUCAAAGAUAUGGUUUGAGAGUCUCUACCGGGUUACCGUAAACAACCUGACUAUGAAGGCAGUGUGUCU---U-AUAUUUAUAAAGAG
((((((((....((((((.......)))))).........((((((.........))))))..))))))))..........---.-.............. ( -18.50)
>Bhalo.0 648458 99 + 4202352
CUUUCGUAUAUACUUGGAGAUAAGGUCCAGGAGUUUCUACCAGAUCACCGUAAAUGAUCUGACUAUGAAGGUGGAAUGGCUCGAU-AUCUUCGUACGGAA
..(((((((......(((((((.(..(((.....(((((((((((((.......))))))).((....)))))))))))..)..)-))))))))))))). ( -25.90)
>Bsubt.0 693791 100 + 4214630
AAUUCGUAUAAUCGCGGGAAUAUGGCUCGCAAGUCUCUACCAAGCUACCGUAAAUGGCUUGACUACGUAAACAUUUCUUUCGUUUGAUAUAAAUAAAACA
....((((.....(((((.......)))))..........(((((((.......)))))))..))))..............((((..........)))). ( -17.10)
>Blich.0 693214 96 + 4222334
UUGUCGUAUAAUCAUGGGGAUAUGGCCCAUAAGUUUCUACCAAGCUACCGUAAAUAGCUUGACUACGCUUGUAUACAAUAU---U-UUAUCCGUGAAAAA
...........((((((((((((.....((((((......(((((((.......))))))).....)))))).....))))---)-...))))))).... ( -20.70)
>consensus
CCUUCGUAUAUCCUCGGAGAUAUGGUUCGAGAGUCUCUACCAGGUUACCGUAAAUAACCUGACUAUGAAGGCAGUGUGUCU___U_AUAUUCAUAAAGAA
((((((((....((((((.......)))))).........(((((((.......)))))))..))))))))............................. (-20.54 = -16.86 +  -3.68)

alignment

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secondary structure

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dotplot

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Window 1

Location 260,657 – 260,753
Length 96
Sequences 5
Columns 100
Reading direction reverse
Mean pairwise identity 64.57
Mean single sequence MFE -19.22
Consensus MFE -16.08
Energy contribution -13.44
Covariance contribution -2.64
Combinations/Pair 1.64
Mean z-score -0.45
Structure conservation index 0.84
SVM decision value 1.18
SVM RNA-class probability 0.927612
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 260657 96 + 5227293
CUCUUUAUAAAUAU-A---AGACACACUGCCUUCAUAGUCAGGUUGUUUACGGUAACCCGGUAGAGACUCUCAAACCUUAUCUUUGAGGAUAUAUGAAGG
..............-.---..........(((((((((((.((((.....(((....))).....))))((((((.......))))))))).)))))))) ( -20.80)
>Bcere.0 294525 96 + 5224283
CUCUUUAUAAAUAU-A---AGACACACUGCCUUCAUAGUCAGGUUGUUUACGGUAACCCGGUAGAGACUCUCAAACCAUAUCUUUGAGGAUAUAUGAAGG
..............-.---..........(((((((((((.((((.....(((....))).....))))((((((.......))))))))).)))))))) ( -20.80)
>Bhalo.0 648458 99 + 4202352
UUCCGUACGAAGAU-AUCGAGCCAUUCCACCUUCAUAGUCAGAUCAUUUACGGUGAUCUGGUAGAAACUCCUGGACCUUAUCUCCAAGUAUAUACGAAAG
....((((..((((-(.....(((.......(((.((.(((((((((.....)))))))))))))).....)))....)))))....))))...(....) ( -18.90)
>Bsubt.0 693791 100 + 4214630
UGUUUUAUUUAUAUCAAACGAAAGAAAUGUUUACGUAGUCAAGCCAUUUACGGUAGCUUGGUAGAGACUUGCGAGCCAUAUUCCCGCGAUUAUACGAAUU
..................(....).........((((.((((((.((.....)).)))))).......(((((...........)))))...)))).... ( -13.90)
>Blich.0 693214 96 + 4222334
UUUUUCACGGAUAA-A---AUAUUGUAUACAAGCGUAGUCAAGCUAUUUACGGUAGCUUGGUAGAAACUUAUGGGCCAUAUCCCCAUGAUUAUACGACAA
..............-.---...(((((((.........(((((((((.....))))))))).......(((((((.......))))))).)))))))... ( -21.70)
>consensus
UUCUUUAUAAAUAU_A___AGACACACUGCCUUCAUAGUCAGGUUAUUUACGGUAACCUGGUAGAGACUCUCGAACCAUAUCUCCGAGAAUAUACGAAAG
...............................((((((.(((((((((.....))))))))).......(((((((.......)))))))...)))))).. (-16.08 = -13.44 +  -2.64)

alignment

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secondary structure

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dotplot

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Window 2

Location 260,657 – 260,753
Length 96
Sequences 5
Columns 100
Reading direction forward
Mean pairwise identity 64.57
Mean single sequence MFE -20.14
Consensus MFE -20.54
Energy contribution -16.86
Covariance contribution -3.68
Combinations/Pair 1.90
Mean z-score -0.57
Structure conservation index 1.02
SVM decision value 3.46
SVM RNA-class probability 0.999251
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 260657 96 + 5227293/0-100
CCUUCAUAUAUCCUCAAAGAUAAGGUUUGAGAGUCUCUACCGGGUUACCGUAAACAACCUGACUAUGAAGGCAGUGUGUCU---U-AUAUUUAUAAAGAG
((((((((....((((((.......)))))).........((((((.........))))))..))))))))..........---.-.............. ( -18.50)
>Bcere.0 294525 96 + 5224283/0-100
CCUUCAUAUAUCCUCAAAGAUAUGGUUUGAGAGUCUCUACCGGGUUACCGUAAACAACCUGACUAUGAAGGCAGUGUGUCU---U-AUAUUUAUAAAGAG
((((((((....((((((.......)))))).........((((((.........))))))..))))))))..........---.-.............. ( -18.50)
>Bhalo.0 648458 99 + 4202352/0-100
CUUUCGUAUAUACUUGGAGAUAAGGUCCAGGAGUUUCUACCAGAUCACCGUAAAUGAUCUGACUAUGAAGGUGGAAUGGCUCGAU-AUCUUCGUACGGAA
..(((((((......(((((((.(..(((.....(((((((((((((.......))))))).((....)))))))))))..)..)-))))))))))))). ( -25.90)
>Bsubt.0 693791 100 + 4214630/0-100
AAUUCGUAUAAUCGCGGGAAUAUGGCUCGCAAGUCUCUACCAAGCUACCGUAAAUGGCUUGACUACGUAAACAUUUCUUUCGUUUGAUAUAAAUAAAACA
....((((.....(((((.......)))))..........(((((((.......)))))))..))))..............((((..........)))). ( -17.10)
>Blich.0 693214 96 + 4222334/0-100
UUGUCGUAUAAUCAUGGGGAUAUGGCCCAUAAGUUUCUACCAAGCUACCGUAAAUAGCUUGACUACGCUUGUAUACAAUAU---U-UUAUCCGUGAAAAA
...........((((((((((((.....((((((......(((((((.......))))))).....)))))).....))))---)-...))))))).... ( -20.70)
>consensus
CCUUCGUAUAUCCUCGGAGAUAUGGUUCGAGAGUCUCUACCAGGUUACCGUAAAUAACCUGACUAUGAAGGCAGUGUGUCU___U_AUAUUCAUAAAGAA
((((((((....((((((.......)))))).........(((((((.......)))))))..))))))))............................. (-20.54 = -16.86 +  -3.68)

alignment

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secondary structure

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dotplot

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Window 3

Location 260,657 – 260,753
Length 96
Sequences 5
Columns 100
Reading direction reverse
Mean pairwise identity 64.57
Mean single sequence MFE -19.22
Consensus MFE -16.08
Energy contribution -13.44
Covariance contribution -2.64
Combinations/Pair 1.64
Mean z-score -0.45
Structure conservation index 0.84
SVM decision value 1.18
SVM RNA-class probability 0.927612
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 260657 96 + 5227293/0-100
CUCUUUAUAAAUAU-A---AGACACACUGCCUUCAUAGUCAGGUUGUUUACGGUAACCCGGUAGAGACUCUCAAACCUUAUCUUUGAGGAUAUAUGAAGG
..............-.---..........(((((((((((.((((.....(((....))).....))))((((((.......))))))))).)))))))) ( -20.80)
>Bcere.0 294525 96 + 5224283/0-100
CUCUUUAUAAAUAU-A---AGACACACUGCCUUCAUAGUCAGGUUGUUUACGGUAACCCGGUAGAGACUCUCAAACCAUAUCUUUGAGGAUAUAUGAAGG
..............-.---..........(((((((((((.((((.....(((....))).....))))((((((.......))))))))).)))))))) ( -20.80)
>Bhalo.0 648458 99 + 4202352/0-100
UUCCGUACGAAGAU-AUCGAGCCAUUCCACCUUCAUAGUCAGAUCAUUUACGGUGAUCUGGUAGAAACUCCUGGACCUUAUCUCCAAGUAUAUACGAAAG
....((((..((((-(.....(((.......(((.((.(((((((((.....)))))))))))))).....)))....)))))....))))...(....) ( -18.90)
>Bsubt.0 693791 100 + 4214630/0-100
UGUUUUAUUUAUAUCAAACGAAAGAAAUGUUUACGUAGUCAAGCCAUUUACGGUAGCUUGGUAGAGACUUGCGAGCCAUAUUCCCGCGAUUAUACGAAUU
..................(....).........((((.((((((.((.....)).)))))).......(((((...........)))))...)))).... ( -13.90)
>Blich.0 693214 96 + 4222334/0-100
UUUUUCACGGAUAA-A---AUAUUGUAUACAAGCGUAGUCAAGCUAUUUACGGUAGCUUGGUAGAAACUUAUGGGCCAUAUCCCCAUGAUUAUACGACAA
..............-.---...(((((((.........(((((((((.....))))))))).......(((((((.......))))))).)))))))... ( -21.70)
>consensus
UUCUUUAUAAAUAU_A___AGACACACUGCCUUCAUAGUCAGGUUAUUUACGGUAACCUGGUAGAGACUCUCGAACCAUAUCUCCGAGAAUAUACGAAAG
...............................((((((.(((((((((.....))))))))).......(((((((.......)))))))...)))))).. (-16.08 = -13.44 +  -2.64)

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 17:24:56 2006