Locus 113

Sequence ID Blich.0
Location 3,496,180 – 3,496,300
Length 120
Max. P 0.999973
window805 window806 window807 window808 window809

overview

Window 5

Location 3,496,180 – 3,496,297
Length 117
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 69.67
Mean single sequence MFE -31.75
Consensus MFE -18.73
Energy contribution -20.60
Covariance contribution 1.87
Combinations/Pair 1.12
Mean z-score -4.47
Structure conservation index 0.59
SVM decision value 5.08
SVM RNA-class probability 0.999973
Prediction RNA

Download alignment: ClustalW | MAF

>Blich.0 3496180 117 + 4222334/0-120
AAAAUAAAAAA---GCUCACCGUCUCCCUCUUCAAUUUGAAGAUAAAGAGACGAUGAGCUUUGAAGCUUACCGCGGUACCACUCUUUUUGAUCCUAUACCAAGAAUCCAGCUUUGCGAAG
........(((---(((((.((((((..(((((.....)))))....)))))).))))))))(((((((((....)))......((((((.........))))))...))))))...... ( -32.70)
>Bsubt.0 3490312 111 + 4214630/0-120
AAAACAAAAAA---GCCCGCCGUCUCCUACCUAAUCUAAUAGAUAAAGAGACGACGAGCCUUCG-GCUGACCGCGGUACCACUCUUGUUGAUUCUUCAUGAAGAAUCCUGCUUUU-----
.......((((---((((((((((((.((.(((......))).))..))))))...((((...)-)))....)))).............(((((((....)))))))..))))))----- ( -28.90)
>Bcere.0 3070925 104 - 5224283/0-120
AAAAUAAAAAAAUGGCUUAGCGUCUCU-------------AUAUAAAGAGACGCUAAGCCAUUU-GCUUAACGCGGUACCACUCUUAUUGAUUC--UAUUAUGAAUCCACCUUAGUAGUA
.........((((((((((((((((((-------------......))))))))))))))))))-((.....))..(((.(((......(((((--......)))))......))).))) ( -38.00)
>Banth.0 3158000 105 - 5227293/0-120
AAAAUAAAAAA-UGGCUCAGCAUCUCUUU-----------AUAUAAAGAGACGCUAAGCCAUUU-GCUUAACGCGGUACCACCCUUAUUGAUUC--CAUUAUGAAUCCACCUUAGUAGUA
..(((((.(((-(((((.(((.(((((((-----------....))))))).))).))))))))-((.....))((.....)).)))))(((((--......)))))............. ( -27.40)
>consensus
AAAAUAAAAAA___GCUCACCGUCUCCUU___________AGAUAAAGAGACGAUAAGCCAUUU_GCUUAACGCGGUACCACUCUUAUUGAUUC__CAUUAAGAAUCCACCUUAGUAGUA
..(((((......(((((((((((((.....................))))))))))))).....((.....))..........)))))((((((......))))))............. (-18.73 = -20.60 +   1.87)

alignment

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secondary structure

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Window 6

Location 3,496,180 – 3,496,297
Length 117
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 69.67
Mean single sequence MFE -45.20
Consensus MFE -32.84
Energy contribution -31.16
Covariance contribution -1.69
Combinations/Pair 1.37
Mean z-score -6.51
Structure conservation index 0.73
SVM decision value 2.20
SVM RNA-class probability 0.990091
Prediction RNA

Download alignment: ClustalW | MAF

>Blich.0 3496180 117 + 4222334/0-120
CUUCGCAAAGCUGGAUUCUUGGUAUAGGAUCAAAAAGAGUGGUACCGCGGUAAGCUUCAAAGCUCAUCGUCUCUUUAUCUUCAAAUUGAAGAGGGAGACGGUGAGC---UUUUUUAUUUU
.......(((((.((((((......)))))).......(((....)))....))))).((((((((((((((((...(((((.....))))).)))))))))))))---)))........ ( -44.20)
>Bsubt.0 3490312 111 + 4214630/0-120
-----AAAAGCAGGAUUCUUCAUGAAGAAUCAACAAGAGUGGUACCGCGGUCAGC-CGAAGGCUCGUCGUCUCUUUAUCUAUUAGAUUAGGUAGGAGACGGCGGGC---UUUUUUGUUUU
-----.((((((((((((((....))))))).......(((....)))((....)-)((((((((((((((((((.(((((......)))))))))))))))))))---))))))))))) ( -46.50)
>Bcere.0 3070925 104 - 5224283/0-120
UACUACUAAGGUGGAUUCAUAAUA--GAAUCAAUAAGAGUGGUACCGCGUUAAGC-AAAUGGCUUAGCGUCUCUUUAUAU-------------AGAGACGCUAAGCCAUUUUUUUAUUUU
(((((((...((.(((((......--))))).))...)))))))..((.....))-((((((((((((((((((......-------------))))))))))))))))))......... ( -45.30)
>Banth.0 3158000 105 - 5227293/0-120
UACUACUAAGGUGGAUUCAUAAUG--GAAUCAAUAAGGGUGGUACCGCGUUAAGC-AAAUGGCUUAGCGUCUCUUUAUAU-----------AAAGAGAUGCUGAGCCA-UUUUUUAUUUU
(((((((...((.(((((......--))))).))...)))))))..((.....))-((((((((((((((((((((....-----------)))))))))))))))))-)))........ ( -44.80)
>consensus
UACUACAAAGCUGGAUUCAUAAUA__GAAUCAAUAAGAGUGGUACCGCGGUAAGC_AAAAGGCUCAGCGUCUCUUUAUAU___________AAAGAGACGCUGAGC___UUUUUUAUUUU
.............(((((........)))))((((((((((....)))............(((((((((((((((.................)))))))))))))))....))))))).. (-32.84 = -31.16 +  -1.69)

alignment

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secondary structure

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dotplot

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Window 7

Location 3,496,180 – 3,496,300
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 69.97
Mean single sequence MFE -31.18
Consensus MFE -18.21
Energy contribution -17.90
Covariance contribution -0.31
Combinations/Pair 1.16
Mean z-score -1.82
Structure conservation index 0.58
SVM decision value 1.38
SVM RNA-class probability 0.948239
Prediction RNA

Download alignment: ClustalW | MAF

>Blich.0 3496180 120 + 4222334/40-160
CGAUUAACCUUCGUUAACAGGUUUGCACAGCAUGGCUGUGCUUCGCAAAGCUGGAUUCUUGGUAUAGGAUCAAAAAGAGUGGUACCGCGGUAAGCUUCAAAGCUCAUCGUCUCUUUAUCU
...(((((....)))))(((.(((((..(((((....)))))..))))).)))((((((......))))))..((((((.(....)(((((.((((....)))).))))))))))).... ( -34.70)
>Bsubt.0 3490312 96 + 4214630/40-160
CGGCUAACCUUCGUU-ACAGGUC----------------------AAAAGCAGGAUUCUUCAUGAAGAAUCAACAAGAGUGGUACCGCGGUCAGC-CGAAGGCUCGUCGUCUCUUUAUCU
(((((.(((......-.......----------------------........(((((((....))))))).......(((....)))))).)))-)).((((.....))))........ ( -25.00)
>Bcere.0 3070925 114 - 5224283/40-160
CGGUUAACCUUCGAUAUUAGGUUUGUA---AUCAAACGAUUACUACUAAGGUGGAUUCAUAAUA--GAAUCAAUAAGAGUGGUACCGCGUUAAGC-AAAUGGCUUAGCGUCUCUUUAUAU
.(((..((((((....((((....(((---(((....))))))..))))....(((((......--))))).....))).))))))(((((((((-.....))))))))).......... ( -31.30)
>Banth.0 3158000 114 - 5227293/40-160
CGGUUAACCUUCGAUAUUAGGUUUGUA---AUCGAACGAUUACUACUAAGGUGGAUUCAUAAUG--GAAUCAAUAAGGGUGGUACCGCGUUAAGC-AAAUGGCUUAGCGUCUCUUUAUAU
.(((..(((((((...((((....(((---(((....))))))..))))..))(((((......--)))))....)))))...)))(((((((((-.....))))))))).......... ( -33.70)
>consensus
CGGUUAACCUUCGAUAACAGGUUUGUA___AUCGAACGAUUACUACAAAGCUGGAUUCAUAAUA__GAAUCAAUAAGAGUGGUACCGCGGUAAGC_AAAAGGCUCAGCGUCUCUUUAUAU
.....(((((........)))))..............................(((((........)))))...(((((.(....)(((((((((......))))))))))))))..... (-18.21 = -17.90 +  -0.31)

alignment

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secondary structure

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dotplot

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Window 8

Location 3,496,180 – 3,496,282
Length 102
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 66.05
Mean single sequence MFE -20.17
Consensus MFE -21.14
Energy contribution -16.07
Covariance contribution -5.06
Combinations/Pair 1.66
Mean z-score -0.71
Structure conservation index 1.05
SVM decision value 3.86
SVM RNA-class probability 0.999667
Prediction RNA

Download alignment: ClustalW | MAF

>Blich.0 3496180 102 + 4222334/200-320
UCCACUCCCGGGCGAGUUCAAAGGUUCAUUGGUCUGCGUCUCACCUACCCGCAGCUCUCUUUGCCAAUGCCGAUCUUUUACUGCUCCCGUUCAUUGUGUUUU------------------
..(((...((((.((((..(((((((((((((((((((...........)))))........)))))))..))))))).))).).))))......)))....------------------ ( -26.70)
>Bsubt.0 3490312 120 + 4214630/200-320
ACCACUCCCGGGCGAGUUCAAAGAAGAAUCAGGCUGCGUCGCACCACCCCGCAGCUCUCUGUUCUGAUCACUUUCUUUUACUGCUCCCAAUCUAUGUGUUUUAGUUUUCUGAAAAACUCA
.........(((.((((..(((((((.(((((((((((..(.....)..))))))........)))))...))))))).))).).))).......((.((((((....)))))).))... ( -27.40)
>Bcere.0 3070925 114 - 5224283/200-320
ACUGCUCCUAGGCGAGUUCAGGAUGUCAUUUGACUAUGUCACACCAACCCAUAGCUCUCUGUACAAAU-AUACGACCUUACUACUCCUAUUCAACACAUUUUAAUAUUUAGAAUA-----
...(((....)))((((....((.(((....(((((((...........))))).))...(((.....-.)))))).))...))))...........((((((.....)))))).----- ( -12.80)
>Banth.0 3158000 114 - 5227293/200-320
ACUGCUCCUAGGCGAGUUCAGGAUGUCAUUUGACUAUGUCACACCAACCCAUAGCUCUCUGUACAAAU-ACAUGACCUUACUACUCCUAUUCAACGCAUUUUAAUAUUUAGAAUA-----
..(((...((((.((((..(((.........(((((((...........))))).))((((((....)-))).))))).))).).))))......))).................----- ( -13.80)
>consensus
ACCACUCCCAGGCGAGUUCAAAAUGUCAUUUGACUACGUCACACCAACCCACAGCUCUCUGUACAAAU_ACAUGACCUUACUACUCCCAUUCAACGCAUUUUAAUAUUUAGAAUA_____
..(((...((((.((((..(((((((.(((((((((((...........)))))........))))))...))))))).))).).))))......)))...................... (-21.14 = -16.07 +  -5.06)

alignment

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secondary structure

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dotplot

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Window 9

Location 3,496,180 – 3,496,282
Length 102
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 66.05
Mean single sequence MFE -24.95
Consensus MFE -24.51
Energy contribution -21.33
Covariance contribution -3.19
Combinations/Pair 1.57
Mean z-score 0.06
Structure conservation index 0.98
SVM decision value 2.88
SVM RNA-class probability 0.997527
Prediction RNA

Download alignment: ClustalW | MAF

>Blich.0 3496180 102 + 4222334/200-320
------------------AAAACACAAUGAACGGGAGCAGUAAAAGAUCGGCAUUGGCAAAGAGAGCUGCGGGUAGGUGAGACGCAGACCAAUGAACCUUUGAACUCGCCCGGGAGUGGA
------------------....(((......((((.(.(((.((((.....((((((.........(((((...........))))).))))))...))))..)))).))))...))).. ( -25.40)
>Bsubt.0 3490312 120 + 4214630/200-320
UGAGUUUUUCAGAAAACUAAAACACAUAGAUUGGGAGCAGUAAAAGAAAGUGAUCAGAACAGAGAGCUGCGGGGUGGUGCGACGCAGCCUGAUUCUUCUUUGAACUCGCCCGGGAGUGGU
..((((((....))))))....(((.....(((((.(.(((.((((((.(.((((((........((((((..(.....)..)))))))))))))))))))..)))).)))))..))).. ( -32.70)
>Bcere.0 3070925 114 - 5224283/200-320
-----UAUUCUAAAUAUUAAAAUGUGUUGAAUAGGAGUAGUAAGGUCGUAU-AUUUGUACAGAGAGCUAUGGGUUGGUGUGACAUAGUCAAAUGACAUCCUGAACUCGCCUAGGAGCAGU
-----...................((((...((((.(.(((.(((..((.(-(((((........((((((...........))))))))))))))..)))..)))).))))..)))).. ( -21.10)
>Banth.0 3158000 114 - 5227293/200-320
-----UAUUCUAAAUAUUAAAAUGCGUUGAAUAGGAGUAGUAAGGUCAUGU-AUUUGUACAGAGAGCUAUGGGUUGGUGUGACAUAGUCAAAUGACAUCCUGAACUCGCCUAGGAGCAGU
-----.................(((......((((.(.(((.(((..((((-(((((........((((((...........))))))))))).)))))))..)))).))))...))).. ( -20.60)
>consensus
_____UAUUCUAAAUAUUAAAACACAUUGAAUAGGAGCAGUAAAAGAAUGU_AUUUGUACAGAGAGCUACGGGUUGGUGUGACACAGUCAAAUGACACCCUGAACUCGCCCAGGAGCAGU
......................(((......((((.(.(((.((((..(((((((((........((((((...........)))))))))))))))))))..)))).))))...))).. (-24.51 = -21.33 +  -3.19)

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 17:26:10 2006