Locus 74

Sequence ID Bcere.0
Location 2,236,464 – 2,236,579
Length 115
Max. P 0.999014
window418 window419 window420 window421 window422

overview

Window 8

Location 2,236,464 – 2,236,579
Length 115
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 72.63
Mean single sequence MFE -22.53
Consensus MFE -13.82
Energy contribution -13.60
Covariance contribution -0.22
Combinations/Pair 1.07
Mean z-score -1.94
Structure conservation index 0.61
SVM decision value 1.91
SVM RNA-class probability 0.982135
Prediction RNA

Download alignment: ClustalW | MAF

>Bcere.0 2236464 115 - 5224283/200-320
AUCUAGGAGAUCAGAAAUAUACUUUUCUUUUUAAUAGGAGUAAUACAUACAUU-----CUUUUAUAAAAUGGGAGCUCUUCAAAAAACUUUAUUGAAGUUAGUUGAAGGGAAACCGACAA
...(((((((..(((((......)))))...........(((.....)))..)-----)))))).....(((...((((((((..((((((...))))))..))))))))...))).... ( -23.30)
>Banth.0 2295039 120 - 5227293/200-320
AUCUAGGAGAUCAGAGAUAUACUGUUAUUUUUAAUAGGAUUAAUACAUACAUUAUUAUCCUCUAUAAAAUGGGAGCUCUUCAAAAAACUUUAUUGAAGUUAGUUGAAGUGAAACCGACAA
((((..(....)..))))....(((((((((....(((((.((((.......)))))))))....)))))((...(.((((((..((((((...))))))..)))))).)...)))))). ( -23.00)
>Bsubt.0 204931 109 + 4214630/200-320
AU------AAUCAGGACUAUA---UUAAAGGAAAUGAAAACAUAGCAUAAAGUA--AAGACCAAUAAUAAGGUAGCUCUUCAAAAAACUUCGCUGAAGUUAGUUGAAGUGAAGCCGACAA
..------..((.((.((.((---((....(..(((....)))..)....))))--.)).))........(((..(.((((((..((((((...))))))..)))))).)..)))))... ( -21.30)
>consensus
AUCUAGGAGAUCAGAAAUAUACU_UUAUUUUUAAUAGGAAUAAUACAUACAUUA__A_CAUCUAUAAAAUGGGAGCUCUUCAAAAAACUUUAUUGAAGUUAGUUGAAGUGAAACCGACAA
......................................................................((...(.((((((..((((((...))))))..)))))).)...))..... (-13.82 = -13.60 +  -0.22)

alignment

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secondary structure

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dotplot

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Window 9

Location 2,236,464 – 2,236,579
Length 115
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 79.33
Mean single sequence MFE -29.63
Consensus MFE -26.95
Energy contribution -26.73
Covariance contribution -0.22
Combinations/Pair 1.10
Mean z-score -4.33
Structure conservation index 0.91
SVM decision value 3.07
SVM RNA-class probability 0.998329
Prediction RNA

Download alignment: ClustalW | MAF

>Bcere.0 2236464 115 - 5224283/240-360
UAAUACAUACAUU-----CUUUUAUAAAAUGGGAGCUCUUCAAAAAACUUUAUUGAAGUUAGUUGAAGGGAAACCGACAAUCUCCAUAAUUCAAUGAUGAUAUAAAAUCAUUGAAUUAUG
.............-----...........(((...((((((((..((((((...))))))..))))))))...)))........((((((((((((((........)))))))))))))) ( -32.80)
>Banth.0 2295039 120 - 5227293/240-360
UAAUACAUACAUUAUUAUCCUCUAUAAAAUGGGAGCUCUUCAAAAAACUUUAUUGAAGUUAGUUGAAGUGAAACCGACAAUCUCCAUAAUUCAAUGAUGAUAUAAAAUCAUUGAAUUAUG
.............................(((...(.((((((..((((((...))))))..)))))).)...)))........((((((((((((((........)))))))))))))) ( -29.50)
>Bsubt.0 204931 118 + 4214630/240-360
CAUAGCAUAAAGUA--AAGACCAAUAAUAAGGUAGCUCUUCAAAAAACUUCGCUGAAGUUAGUUGAAGUGAAGCCGACAAUUUUCAGGAUUCAAUGAUCUAACAUAAUCAUUGAAAUUUU
..............--....((........(((..(.((((((..((((((...))))))..)))))).)..)))((......)).)).(((((((((........)))))))))..... ( -26.60)
>consensus
UAAUACAUACAUUA__A_CAUCUAUAAAAUGGGAGCUCUUCAAAAAACUUUAUUGAAGUUAGUUGAAGUGAAACCGACAAUCUCCAUAAUUCAAUGAUGAUAUAAAAUCAUUGAAUUAUG
..............................((...(.((((((..((((((...))))))..)))))).)...)).........((((((((((((((........)))))))))))))) (-26.95 = -26.73 +  -0.22)

alignment

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secondary structure

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dotplot

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Window 0

Location 2,236,464 – 2,236,579
Length 115
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 79.33
Mean single sequence MFE -27.83
Consensus MFE -22.51
Energy contribution -24.07
Covariance contribution 1.56
Combinations/Pair 1.06
Mean z-score -3.18
Structure conservation index 0.81
SVM decision value 3.33
SVM RNA-class probability 0.999014
Prediction RNA

Download alignment: ClustalW | MAF

>Bcere.0 2236464 115 - 5224283/240-360
CAUAAUUCAAUGAUUUUAUAUCAUCAUUGAAUUAUGGAGAUUGUCGGUUUCCCUUCAACUAACUUCAAUAAAGUUUUUUGAAGAGCUCCCAUUUUAUAAAAG-----AAUGUAUGUAUUA
.(((((((((((((........)))))))))))))((((((.....))))))((((((..(((((.....)))))..)))))).((...((((((.....))-----))))...)).... ( -28.70)
>Banth.0 2295039 120 - 5227293/240-360
CAUAAUUCAAUGAUUUUAUAUCAUCAUUGAAUUAUGGAGAUUGUCGGUUUCACUUCAACUAACUUCAAUAAAGUUUUUUGAAGAGCUCCCAUUUUAUAGAGGAUAAUAAUGUAUGUAUUA
((((((((((((((........))))))))))))))...((((((.......((((((..(((((.....)))))..))))))..(((..........)))))))))............. ( -29.40)
>Bsubt.0 204931 118 + 4214630/240-360
AAAAUUUCAAUGAUUAUGUUAGAUCAUUGAAUCCUGAAAAUUGUCGGCUUCACUUCAACUAACUUCAGCGAAGUUUUUUGAAGAGCUACCUUAUUAUUGGUCUU--UACUUUAUGCUAUG
.....((((((((((......))))))))))..............((((...((((((..((((((...))))))..))))))))))(((........)))...--.............. ( -25.40)
>consensus
CAUAAUUCAAUGAUUUUAUAUCAUCAUUGAAUUAUGGAGAUUGUCGGUUUCACUUCAACUAACUUCAAUAAAGUUUUUUGAAGAGCUCCCAUUUUAUAGAAG_U__UAAUGUAUGUAUUA
((((((((((((((........)))))))))))))).(((.((..((((...((((((..(((((.....)))))..))))))))))..)).)))......................... (-22.51 = -24.07 +   1.56)

alignment

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secondary structure

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dotplot

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Window 1

Location 2,236,464 – 2,236,579
Length 115
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 79.89
Mean single sequence MFE -33.60
Consensus MFE -31.00
Energy contribution -30.57
Covariance contribution -0.44
Combinations/Pair 1.13
Mean z-score -5.43
Structure conservation index 0.92
SVM decision value 1.83
SVM RNA-class probability 0.979130
Prediction RNA

Download alignment: ClustalW | MAF

>Bcere.0 2236464 115 - 5224283/242-362
AUACAUACAUU-----CUUUUAUAAAAUGGGAGCUCUUCAAAAAACUUUAUUGAAGUUAGUUGAAGGGAAACCGACAAUCUCCAUAAUUCAAUGAUGAUAUAAAAUCAUUGAAUUAUGGA
...........-----...........(((...((((((((..((((((...))))))..))))))))...)))......((((((((((((((((........)))))))))))))))) ( -37.80)
>Banth.0 2295039 120 - 5227293/242-362
AUACAUACAUUAUUAUCCUCUAUAAAAUGGGAGCUCUUCAAAAAACUUUAUUGAAGUUAGUUGAAGUGAAACCGACAAUCUCCAUAAUUCAAUGAUGAUAUAAAAUCAUUGAAUUAUGGA
...........................(((...(.((((((..((((((...))))))..)))))).)...)))......((((((((((((((((........)))))))))))))))) ( -34.50)
>Bsubt.0 204931 118 + 4214630/242-362
UAGCAUAAAGUA--AAGACCAAUAAUAAGGUAGCUCUUCAAAAAACUUCGCUGAAGUUAGUUGAAGUGAAGCCGACAAUUUUCAGGAUUCAAUGAUCUAACAUAAUCAUUGAAAUUUUGA
............--..............(((..(.((((((..((((((...))))))..)))))).)..)))........(((((((((((((((........))))))).)))))))) ( -28.50)
>consensus
AUACAUACAUUA__A_CAUCUAUAAAAUGGGAGCUCUUCAAAAAACUUUAUUGAAGUUAGUUGAAGUGAAACCGACAAUCUCCAUAAUUCAAUGAUGAUAUAAAAUCAUUGAAUUAUGGA
............................((...(.((((((..((((((...))))))..)))))).)...)).......((((((((((((((((........)))))))))))))))) (-31.00 = -30.57 +  -0.44)

alignment

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secondary structure

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dotplot

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Window 2

Location 2,236,464 – 2,236,579
Length 115
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 79.89
Mean single sequence MFE -30.80
Consensus MFE -25.39
Energy contribution -26.83
Covariance contribution 1.45
Combinations/Pair 1.03
Mean z-score -4.26
Structure conservation index 0.82
SVM decision value 3.23
SVM RNA-class probability 0.998793
Prediction RNA

Download alignment: ClustalW | MAF

>Bcere.0 2236464 115 - 5224283/242-362
UCCAUAAUUCAAUGAUUUUAUAUCAUCAUUGAAUUAUGGAGAUUGUCGGUUUCCCUUCAACUAACUUCAAUAAAGUUUUUUGAAGAGCUCCCAUUUUAUAAAAG-----AAUGUAUGUAU
((((((((((((((((........)))))))))))))))).......((...(.((((((..(((((.....)))))..)))))).)..))((((((.....))-----))))....... ( -31.80)
>Banth.0 2295039 120 - 5227293/242-362
UCCAUAAUUCAAUGAUUUUAUAUCAUCAUUGAAUUAUGGAGAUUGUCGGUUUCACUUCAACUAACUUCAAUAAAGUUUUUUGAAGAGCUCCCAUUUUAUAGAGGAUAAUAAUGUAUGUAU
((((((((((((((((........)))))))))))))))).((((((.......((((((..(((((.....)))))..))))))..(((..........)))))))))........... ( -34.10)
>Bsubt.0 204931 118 + 4214630/242-362
UCAAAAUUUCAAUGAUUAUGUUAGAUCAUUGAAUCCUGAAAAUUGUCGGCUUCACUUCAACUAACUUCAGCGAAGUUUUUUGAAGAGCUACCUUAUUAUUGGUCUU--UACUUUAUGCUA
(((....((((((((((......))))))))))...)))........((((...((((((..((((((...))))))..))))))))))(((........)))...--............ ( -26.50)
>consensus
UCCAUAAUUCAAUGAUUUUAUAUCAUCAUUGAAUUAUGGAGAUUGUCGGUUUCACUUCAACUAACUUCAAUAAAGUUUUUUGAAGAGCUCCCAUUUUAUAGAAG_U__UAAUGUAUGUAU
((((((((((((((((........))))))))))))))))....(..((((...((((((..(((((.....)))))..))))))))))..)............................ (-25.39 = -26.83 +   1.45)

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 17:21:08 2006