Locus 78

Sequence ID Bcere.0
Location 4,991,052 – 4,991,166
Length 114
Max. P 0.998129
window443 window444 window445 window446

overview

Window 3

Location 4,991,052 – 4,991,166
Length 114
Sequences 3
Columns 114
Reading direction forward
Mean pairwise identity 79.24
Mean single sequence MFE -23.77
Consensus MFE -13.12
Energy contribution -13.24
Covariance contribution 0.12
Combinations/Pair 1.21
Mean z-score -2.95
Structure conservation index 0.55
SVM decision value 1.30
SVM RNA-class probability 0.939580
Prediction RNA

Download alignment: ClustalW | MAF

>Bcere.0 4991052 114 - 5224283
UCCCCCGCUUCUUUCUAUUUGCACAAAGAGAAUUGUAAAAGAAAAAAUAUAUCACGUAAAAUGAUUCAAAAUGAUGUUAAUUAUCAUUUAUAAUGAUAGUUAACAUCAAGGAGG
..((((.....(((((.((((((..........)))))))))))...........................((((((((((((((((.....)))))))))))))))).)).)) ( -26.90)
>Banth.0 5022128 114 - 5227293
UCCCCCGCUUCUUUCUAUUUGCACAAAGAGAAUUGUAAAAGAAAAAAUAUAUCACGUAAAAUGAUUCAAAAUGAUAUUAACUAUCAUUUAUAAUGAUAGUUAACAUCAAGGAGG
..((((.....(((((.((((((..........)))))))))))...........................((((.(((((((((((.....))))))))))).)))).)).)) ( -23.20)
>Bsubt.0 2720883 113 + 4214630
UCCCCUCCUUUUCUUUAAAAUUACAAUGAGAAUUAUAAAAAGAAGUAAGCAUCAAGUAAAAUGAACAAAAGUGAUGAAAAACAUCAUUGAUAAUGAUACUUUA-AUGAAGGGGG
...((((((((...(((((.((((..(((...((((........))))...))).))))..........(((((((.....)))))))...........))))-).)))))))) ( -21.20)
>consensus
UCCCCCGCUUCUUUCUAUUUGCACAAAGAGAAUUGUAAAAGAAAAAAUAUAUCACGUAAAAUGAUUCAAAAUGAUGUUAAAUAUCAUUUAUAAUGAUAGUUAACAUCAAGGAGG
..((((..(((((..............))))).......................................((((.(((((((((((.....))))))))))).)))).)).)) (-13.12 = -13.24 +   0.12)

alignment

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secondary structure

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dotplot

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Window 4

Location 4,991,052 – 4,991,166
Length 114
Sequences 3
Columns 114
Reading direction reverse
Mean pairwise identity 79.24
Mean single sequence MFE -31.60
Consensus MFE -24.22
Energy contribution -24.57
Covariance contribution 0.35
Combinations/Pair 1.26
Mean z-score -4.99
Structure conservation index 0.77
SVM decision value 3.01
SVM RNA-class probability 0.998129
Prediction RNA

Download alignment: ClustalW | MAF

>Bcere.0 4991052 114 - 5224283
CCUCCUUGAUGUUAACUAUCAUUAUAAAUGAUAAUUAACAUCAUUUUGAAUCAUUUUACGUGAUAUAUUUUUUCUUUUACAAUUCUCUUUGUGCAAAUAGAAAGAAGCGGGGGA
(((((.(((((((((.((((((.....)))))).)))))))))......(((((.....)))))...((((((((..(((((......))))).....))))))))..))))). ( -31.30)
>Banth.0 5022128 114 - 5227293
CCUCCUUGAUGUUAACUAUCAUUAUAAAUGAUAGUUAAUAUCAUUUUGAAUCAUUUUACGUGAUAUAUUUUUUCUUUUACAAUUCUCUUUGUGCAAAUAGAAAGAAGCGGGGGA
(((((.((((((((((((((((.....))))))))))))))))......(((((.....)))))...((((((((..(((((......))))).....))))))))..))))). ( -35.40)
>Bsubt.0 2720883 113 + 4214630
CCCCCUUCAU-UAAAGUAUCAUUAUCAAUGAUGUUUUUCAUCACUUUUGUUCAUUUUACUUGAUGCUUACUUCUUUUUAUAAUUCUCAUUGUAAUUUUAAAGAAAAGGAGGGGA
.(((((((..-..((((((((.......(((((.....))))).....((.......)).))))))))..(((((((((((((....)))))))....))))))..))))))). ( -28.10)
>consensus
CCUCCUUGAUGUUAACUAUCAUUAUAAAUGAUAAUUAACAUCAUUUUGAAUCAUUUUACGUGAUAUAUUUUUUCUUUUACAAUUCUCUUUGUGCAAAUAGAAAGAAGCGGGGGA
(((((.((((((((((((((((.....))))))))))))))))........................((((((((..(((((......))))).....))))))))..))))). (-24.22 = -24.57 +   0.35)

alignment

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secondary structure

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dotplot

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Window 5

Location 4,991,052 – 4,991,166
Length 114
Sequences 3
Columns 114
Reading direction forward
Mean pairwise identity 79.24
Mean single sequence MFE -23.77
Consensus MFE -13.12
Energy contribution -13.24
Covariance contribution 0.12
Combinations/Pair 1.21
Mean z-score -2.95
Structure conservation index 0.55
SVM decision value 1.30
SVM RNA-class probability 0.939580
Prediction RNA

Download alignment: ClustalW | MAF

>Bcere.0 4991052 114 - 5224283/0-114
UCCCCCGCUUCUUUCUAUUUGCACAAAGAGAAUUGUAAAAGAAAAAAUAUAUCACGUAAAAUGAUUCAAAAUGAUGUUAAUUAUCAUUUAUAAUGAUAGUUAACAUCAAGGAGG
..((((.....(((((.((((((..........)))))))))))...........................((((((((((((((((.....)))))))))))))))).)).)) ( -26.90)
>Banth.0 5022128 114 - 5227293/0-114
UCCCCCGCUUCUUUCUAUUUGCACAAAGAGAAUUGUAAAAGAAAAAAUAUAUCACGUAAAAUGAUUCAAAAUGAUAUUAACUAUCAUUUAUAAUGAUAGUUAACAUCAAGGAGG
..((((.....(((((.((((((..........)))))))))))...........................((((.(((((((((((.....))))))))))).)))).)).)) ( -23.20)
>Bsubt.0 2720883 113 + 4214630/0-114
UCCCCUCCUUUUCUUUAAAAUUACAAUGAGAAUUAUAAAAAGAAGUAAGCAUCAAGUAAAAUGAACAAAAGUGAUGAAAAACAUCAUUGAUAAUGAUACUUUA-AUGAAGGGGG
...((((((((...(((((.((((..(((...((((........))))...))).))))..........(((((((.....)))))))...........))))-).)))))))) ( -21.20)
>consensus
UCCCCCGCUUCUUUCUAUUUGCACAAAGAGAAUUGUAAAAGAAAAAAUAUAUCACGUAAAAUGAUUCAAAAUGAUGUUAAAUAUCAUUUAUAAUGAUAGUUAACAUCAAGGAGG
..((((..(((((..............))))).......................................((((.(((((((((((.....))))))))))).)))).)).)) (-13.12 = -13.24 +   0.12)

alignment

Postscript

secondary structure

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dotplot

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Window 6

Location 4,991,052 – 4,991,166
Length 114
Sequences 3
Columns 114
Reading direction reverse
Mean pairwise identity 79.24
Mean single sequence MFE -31.60
Consensus MFE -24.22
Energy contribution -24.57
Covariance contribution 0.35
Combinations/Pair 1.26
Mean z-score -4.99
Structure conservation index 0.77
SVM decision value 3.01
SVM RNA-class probability 0.998129
Prediction RNA

Download alignment: ClustalW | MAF

>Bcere.0 4991052 114 - 5224283/0-114
CCUCCUUGAUGUUAACUAUCAUUAUAAAUGAUAAUUAACAUCAUUUUGAAUCAUUUUACGUGAUAUAUUUUUUCUUUUACAAUUCUCUUUGUGCAAAUAGAAAGAAGCGGGGGA
(((((.(((((((((.((((((.....)))))).)))))))))......(((((.....)))))...((((((((..(((((......))))).....))))))))..))))). ( -31.30)
>Banth.0 5022128 114 - 5227293/0-114
CCUCCUUGAUGUUAACUAUCAUUAUAAAUGAUAGUUAAUAUCAUUUUGAAUCAUUUUACGUGAUAUAUUUUUUCUUUUACAAUUCUCUUUGUGCAAAUAGAAAGAAGCGGGGGA
(((((.((((((((((((((((.....))))))))))))))))......(((((.....)))))...((((((((..(((((......))))).....))))))))..))))). ( -35.40)
>Bsubt.0 2720883 113 + 4214630/0-114
CCCCCUUCAU-UAAAGUAUCAUUAUCAAUGAUGUUUUUCAUCACUUUUGUUCAUUUUACUUGAUGCUUACUUCUUUUUAUAAUUCUCAUUGUAAUUUUAAAGAAAAGGAGGGGA
.(((((((..-..((((((((.......(((((.....))))).....((.......)).))))))))..(((((((((((((....)))))))....))))))..))))))). ( -28.10)
>consensus
CCUCCUUGAUGUUAACUAUCAUUAUAAAUGAUAAUUAACAUCAUUUUGAAUCAUUUUACGUGAUAUAUUUUUUCUUUUACAAUUCUCUUUGUGCAAAUAGAAAGAAGCGGGGGA
(((((.((((((((((((((((.....))))))))))))))))........................((((((((..(((((......))))).....))))))))..))))). (-24.22 = -24.57 +   0.35)

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 17:21:25 2006