Locus 85

Sequence ID Bcere.0
Location 4 – 123
Length 119
Max. P 0.999691
window500 window501 window502 window503 window504 window505

overview

Window 0

Location 4 – 121
Length 117
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 71.19
Mean single sequence MFE -24.03
Consensus MFE -14.24
Energy contribution -16.05
Covariance contribution 1.81
Combinations/Pair 1.24
Mean z-score -2.32
Structure conservation index 0.59
SVM decision value 2.77
SVM RNA-class probability 0.996901
Prediction RNA

Download alignment: ClustalW | MAF

>Bcere.0 4 117 + 5224283/0-120
UUUUUCUUGUUUUUUA-UAUCCACAAACUCUUUUCGUA-CUUUUACACAGUAUAUCGUGUUGUGGACAAG-UUUAUUCCACAAGGUAUUGAUUUUGUGGAUAACUUUCUUAAUUUCAUUG
................-((((((((((.((.....(((-((((.((((........)))).(((((....-.....)))))))))))).)).)))))))))).................. ( -25.10)
>Banth.0 4 117 + 5227293/0-120
UUUUUCUUGUUUUUUA-UAUCCACAAACUCUUUUCGUA-CUUUUACACAGUAUAUCGUGUUGUGGACAAU-UUUAUUCCACAAGGUAUUGAUUUUGUGGAUAACUUUCUUAAUUUCAUUG
................-((((((((((.((.....(((-((((.((((........)))).(((((....-.....)))))))))))).)).)))))))))).................. ( -25.10)
>Blich.0 100 119 + 4222334/0-120
UUCUCCUCGUUUUUUC-UAUCCACAAUCAUUAUCGACAACAUUUUCACAAAACUAACCGUUGUGGACAAUAUUUCUUCAACAGUUUGUAUAGUAUGUGGAUAAGUUCCUCGCAACCAUUG
................-((((((((.........((........)).....((.(((.((((.(((.......))).)))).))).))......)))))))).................. ( -17.10)
>Bsubt.0 3 120 + 4214630/0-120
UUUUCGGCUUUUUUUAGUAUCCACAGAGGUUAUCGACAACAUUUUCACAUUACCAACCCCUGUGGACAAGGUUUUUUCAACAGGUUGUCCGCUUUGUGGAUAAGAUUGUGACAACCAUUG
......(((......))).(((((((.((((.......................)))).)))))))...((((...(((.(((.((((((((...))))))))..)))))).)))).... ( -28.80)
>consensus
UUUUCCUCGUUUUUUA_UAUCCACAAACUCUAUCCACA_CAUUUACACAGUACAAACCGUUGUGGACAAG_UUUAUUCAACAAGGUAUUGAUUUUGUGGAUAACUUUCUUAAAACCAUUG
.................(((((((((((((.....(((((...................(((((((..........)))))))))))).))))))))))))).................. (-14.24 = -16.05 +   1.81)

alignment

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secondary structure

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dotplot

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Window 1

Location 4 – 121
Length 117
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 71.19
Mean single sequence MFE -27.10
Consensus MFE -12.80
Energy contribution -16.43
Covariance contribution 3.62
Combinations/Pair 1.12
Mean z-score -3.14
Structure conservation index 0.47
SVM decision value 3.11
SVM RNA-class probability 0.998463
Prediction RNA

Download alignment: ClustalW | MAF

>Bcere.0 4 117 + 5224283/0-120
CAAUGAAAUUAAGAAAGUUAUCCACAAAAUCAAUACCUUGUGGAAUAAA-CUUGUCCACAACACGAUAUACUGUGUAAAAG-UACGAAAAGAGUUUGUGGAUA-UAAAAAACAAGAAAAA
..................((((((((((.((.......((((((.....-....))))))(((((......))))).....-........)).))))))))))-................ ( -24.60)
>Banth.0 4 117 + 5227293/0-120
CAAUGAAAUUAAGAAAGUUAUCCACAAAAUCAAUACCUUGUGGAAUAAA-AUUGUCCACAACACGAUAUACUGUGUAAAAG-UACGAAAAGAGUUUGUGGAUA-UAAAAAACAAGAAAAA
..................((((((((((.((.......((((((.....-....))))))(((((......))))).....-........)).))))))))))-................ ( -24.60)
>Blich.0 100 119 + 4222334/0-120
CAAUGGUUGCGAGGAACUUAUCCACAUACUAUACAAACUGUUGAAGAAAUAUUGUCCACAACGGUUAGUUUUGUGAAAAUGUUGUCGAUAAUGAUUGUGGAUA-GAAAAAACGAGGAGAA
.................(((((((((...........((.....))...(((((((.((((((.(((......)))...)))))).)))))))..))))))))-)............... ( -22.00)
>Bsubt.0 3 120 + 4214630/0-120
CAAUGGUUGUCACAAUCUUAUCCACAAAGCGGACAACCUGUUGAAAAAACCUUGUCCACAGGGGUUGGUAAUGUGAAAAUGUUGUCGAUAACCUCUGUGGAUACUAAAAAAAGCCGAAAA
(((((((((((.....(((.......)))..))))))).)))).........(((((((((((((((..(((((....)))))..)...))))))))))))))................. ( -37.20)
>consensus
CAAUGAAAGUAAGAAACUUAUCCACAAAAUCAACAACCUGUGGAAUAAA_AUUGUCCACAACACGAUAUACUGUGAAAAAG_UACCAAAAAAGUUUGUGGAUA_UAAAAAACAAGAAAAA
..................(((((((((((((......(((((((..........)))))))((((......))))...............)))))))))))))................. (-12.80 = -16.43 +   3.62)

alignment

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secondary structure

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dotplot

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Window 2

Location 4 – 123
Length 119
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 70.51
Mean single sequence MFE -23.21
Consensus MFE -10.24
Energy contribution -10.43
Covariance contribution 0.19
Combinations/Pair 1.20
Mean z-score -2.50
Structure conservation index 0.44
SVM decision value 1.36
SVM RNA-class probability 0.946507
Prediction RNA

Download alignment: ClustalW | MAF

>Bcere.0 4 119 + 5224283/80-200
CAAGGUAUUGAUUUUGUGGAUAACUUUCUUAAUUUCAUUGCUAUAGCUACUUUUUUUUGAUAUUAUAGUUGUGUUUUCACUUUGAAUAAGUU-UUCCACAUCUUUAUCUUAUCCACAAUU
.((((((..((...((((((.(((((..((((...(((.(((((((.(((........).))))))))).)))........))))..)))))-.))))))))..)))))).......... ( -23.90)
>Banth.0 4 119 + 5227293/80-200
CAAGGUAUUGAUUUUGUGGAUAACUUUCUUAAUUUCAUUGCUAUAGCUACUUUUUUUUGAUAUUAUAGUUGUGUUUUCACUUUGAAUAAGUU-UUCCACAUCUUUAUCUUAUCCACAAUU
.((((((..((...((((((.(((((..((((...(((.(((((((.(((........).))))))))).)))........))))..)))))-.))))))))..)))))).......... ( -23.90)
>Blich.0 100 120 + 4222334/80-200
CAGUUUGUAUAGUAUGUGGAUAAGUUCCUCGCAACCAUUGCAACCACUCGCUUAUUCUGAUAUUAUAUUUGUGUUUUAACUCUUGAUAACAAAUUGGCUGCCAAUCCAUUAUCCACAAAC
...........((.(((((((((.......(((.(((..((........))...............((((((...(((.....)))..))))))))).))).......))))))))).)) ( -21.74)
>Bsubt.0 3 120 + 4214630/80-200
CAGGUUGUCCGCUUUGUGGAUAAGAUUGUGACAACCAUUGCAAGCUCUCGUUUAUUUUGGUAUUAUAUUUGUGUUUUAACUCUUGAUUACUAAUCCUACCUUUCCUCUUUAUCCACAAAG
..((....)).((((((((((((((((((((((((((..(.((((....)))).)..)))).........((......))...)).)))).)))).............)))))))))))) ( -23.31)
>consensus
CAAGGUAUUGAUUUUGUGGAUAACUUUCUUAAAACCAUUGCAAUAGCUACUUUAUUUUGAUAUUAUAGUUGUGUUUUAACUCUGAAUAACUA_UUCCACAUCUUUACCUUAUCCACAAAU
...........((((((((((((...................................(((((.......)))))(((.....)))......................)))))))))))) (-10.24 = -10.43 +   0.19)

alignment

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secondary structure

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dotplot

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Window 3

Location 4 – 123
Length 119
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 70.51
Mean single sequence MFE -25.28
Consensus MFE -11.82
Energy contribution -13.08
Covariance contribution 1.25
Combinations/Pair 1.12
Mean z-score -2.96
Structure conservation index 0.47
SVM decision value 2.79
SVM RNA-class probability 0.997078
Prediction RNA

Download alignment: ClustalW | MAF

>Bcere.0 4 119 + 5224283/80-200
AAUUGUGGAUAAGAUAAAGAUGUGGAA-AACUUAUUCAAAGUGAAAACACAACUAUAAUAUCAAAAAAAAGUAGCUAUAGCAAUGAAAUUAAGAAAGUUAUCCACAAAAUCAAUACCUUG
..((((((((((((((.((.((((...-.((((.....)))).....)))).))....))))...........((....))................))))))))))............. ( -22.30)
>Banth.0 4 119 + 5227293/80-200
AAUUGUGGAUAAGAUAAAGAUGUGGAA-AACUUAUUCAAAGUGAAAACACAACUAUAAUAUCAAAAAAAAGUAGCUAUAGCAAUGAAAUUAAGAAAGUUAUCCACAAAAUCAAUACCUUG
..((((((((((((((.((.((((...-.((((.....)))).....)))).))....))))...........((....))................))))))))))............. ( -22.30)
>Blich.0 100 120 + 4222334/80-200
GUUUGUGGAUAAUGGAUUGGCAGCCAAUUUGUUAUCAAGAGUUAAAACACAAAUAUAAUAUCAGAAUAAGCGAGUGGUUGCAAUGGUUGCGAGGAACUUAUCCACAUACUAUACAAACUG
((.(((((((((.(..((.(((((((..((((.((((...(((.........................)))...)))).))))))))))).))...)))))))))).))........... ( -31.01)
>Bsubt.0 3 120 + 4214630/80-200
CUUUGUGGAUAAAGAGGAAAGGUAGGAUUAGUAAUCAAGAGUUAAAACACAAAUAUAAUACCAAAAUAAACGAGAGCUUGCAAUGGUUGUCACAAUCUUAUCCACAAAGCGGACAACCUG
((((((((((((.((.....((((.(((.....)))....((....))..........)))).........((.((((......)))).))....)))))))))))))).((....)).. ( -25.50)
>consensus
AAUUGUGGAUAAGAUAAAGAUGUGGAA_AACUUAUCAAAAGUGAAAACACAAAUAUAAUAUCAAAAAAAACGAGCGAUAGCAAUGAAAGUAAGAAACUUAUCCACAAAAUCAACAACCUG
((((((((((((............................((....)).........................((....))................))))))))))))........... (-11.82 = -13.08 +   1.25)

alignment

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secondary structure

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dotplot

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Window 4

Location 4 – 122
Length 118
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 66.57
Mean single sequence MFE -32.15
Consensus MFE -15.68
Energy contribution -19.80
Covariance contribution 4.12
Combinations/Pair 1.29
Mean z-score -3.51
Structure conservation index 0.49
SVM decision value 3.90
SVM RNA-class probability 0.999691
Prediction RNA

Download alignment: ClustalW | MAF

>Bcere.0 4 118 + 5224283/160-280
UUUGAAUAAGUU-UUCCACAUCUUUAUCUUAUCCACAAUUUGUGUAUAACAUGUGGACAGUUUUAAUCACAUGUGGGUAAAUGAUUAUCCACAU-UCGCUUUUUUUGUCGAAAACCCUAU
.........(((-(((.(((...........((((((...(((.....))))))))).............((((((((((....))))))))))-..........))).))))))..... ( -26.00)
>Banth.0 4 117 + 5227293/160-280
UUUGAAUAAGUU-UUCCACAUCUUUAUCUUAUCCACAAUUUGUGUAUAACAUGUGGACAGUUUUAAUCACAUGUGGGUAAAUGAUUAUCCACAU-UUGCUUUUUU-GUCGAAAACCCUAU
.........(((-(((.(((...........((((((...(((.....)))))))))..........((.((((((((((....))))))))))-.))......)-)).))))))..... ( -27.00)
>Blich.0 100 120 + 4222334/160-280
UCUUGAUAACAAAUUGGCUGCCAAUCCAUUAUCCACAAACUGUGGAUAAGUUGUGGAGAGUUUUUUCACAGGGUGUGCAGUAUUUUGUCCACAUCUUGUGAAAAAUGUCGAAAAGACGUU
((((.(((((..(((((...)))))...((((((((.....))))))))))))).))))...((((((((((((((((((....)))..)))))))))))))))(((((.....))))). ( -44.30)
>Bsubt.0 3 120 + 4214630/160-280
UCUUGAUUACUAAUCCUACCUUUCCUCUUUAUCCACAAAGUGUGGAUAAGUUGUGGAUUGAUUUCACACAGCUUGUGUAGAAGGUUGUCCACAAGUUGUGAAAUUUGUCGAAAAGCUAUU
..(((((....(((..(((........(((((((((.....)))))))))((((((((...((((((((.....)))).))))...))))))))...)))..))).)))))......... ( -31.30)
>consensus
UCUGAAUAACUA_UUCCACAUCUUUACCUUAUCCACAAAUUGUGGAUAACAUGUGGACAGUUUUAACAAAAUGUGGGUAAAAGAUUAUCCACAU_UUGCGAAAUUUGUCGAAAACCCUAU
............................((((((((.....))))))))......((((((((((.(((.((((((((((....)))))))))).))).))))))))))........... (-15.68 = -19.80 +   4.12)

alignment

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secondary structure

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dotplot

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Window 5

Location 4 – 122
Length 118
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 66.57
Mean single sequence MFE -30.78
Consensus MFE -13.32
Energy contribution -14.32
Covariance contribution 1.00
Combinations/Pair 1.23
Mean z-score -3.70
Structure conservation index 0.43
SVM decision value 3.07
SVM RNA-class probability 0.998344
Prediction RNA

Download alignment: ClustalW | MAF

>Bcere.0 4 118 + 5224283/160-280
AUAGGGUUUUCGACAAAAAAAGCGA-AUGUGGAUAAUCAUUUACCCACAUGUGAUUAAAACUGUCCACAUGUUAUACACAAAUUGUGGAUAAGAUAAAGAUGUGGAA-AACUUAUUCAAA
...((((((((.(((.......((.-((((((.(((....))).)))))).))........(((((((((((.....)))...)))))))).........))).)))-)))))....... ( -29.60)
>Banth.0 4 117 + 5227293/160-280
AUAGGGUUUUCGAC-AAAAAAGCAA-AUGUGGAUAAUCAUUUACCCACAUGUGAUUAAAACUGUCCACAUGUUAUACACAAAUUGUGGAUAAGAUAAAGAUGUGGAA-AACUUAUUCAAA
...((((((((.((-(......((.-((((((.(((....))).)))))).))........(((((((((((.....)))...)))))))).........))).)))-)))))....... ( -30.30)
>Blich.0 100 120 + 4222334/160-280
AACGUCUUUUCGACAUUUUUCACAAGAUGUGGACAAAAUACUGCACACCCUGUGAAAAAACUCUCCACAACUUAUCCACAGUUUGUGGAUAAUGGAUUGGCAGCCAAUUUGUUAUCAAGA
...(((.....))).(((((((((.(.((((.(........).)))).).)))))))))......(((((((.......)).)))))(((((..((((((...))))))..))))).... ( -31.70)
>Bsubt.0 3 120 + 4214630/160-280
AAUAGCUUUUCGACAAAUUUCACAACUUGUGGACAACCUUCUACACAAGCUGUGUGAAAUCAAUCCACAACUUAUCCACACUUUGUGGAUAAAGAGGAAAGGUAGGAUUAGUAAUCAAGA
....(((((((((...((((((((.((((((............))))))...))))))))...))......((((((((.....))))))))....)))))))................. ( -31.50)
>consensus
AAAGGCUUUUCGACAAAAAAAACAA_AUGUGGACAAUCAUCUACACACACGGGAUUAAAACUGUCCACAACUUAUACACAAAUUGUGGAUAAGAUAAAGAUGUGGAA_AACUUAUCAAAA
..........................((((((((((((((..........)))))......))))))))).((((((((.....))))))))............................ (-13.32 = -14.32 +   1.00)

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 17:22:11 2006