Locus 147

Sequence ID Banth.0
Location 3,133,268 – 3,133,343
Length 75
Max. P 0.997183
window965 window966 window967 window968

overview

Window 5

Location 3,133,268 – 3,133,343
Length 75
Sequences 6
Columns 75
Reading direction forward
Mean pairwise identity 68.13
Mean single sequence MFE -18.40
Consensus MFE -10.88
Energy contribution -10.05
Covariance contribution -0.83
Combinations/Pair 1.50
Mean z-score -3.14
Structure conservation index 0.59
SVM decision value 2.81
SVM RNA-class probability 0.997183
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 3133268 75 + 5227293
AAAAAGAGCCCCUCAUCCUUAAAAAAGGACGAGAGACUCCCGCGGUACCACCUUAAUUAGCUAUCAUGAAUAGCU
.....(((.(.(((.(((((....))))).))).).)))....((.....))......((((((.....)))))) ( -17.20)
>Bcere.0 3157045 74 + 5224283
AAAAAGAGUCCCUCAUCCUUAAAAAAGGACGAGAGACUCCCGCGGUACCACCUUAAUUAGCUAUC-UUUAUAGCU
.....(((((.(((.(((((....))))).))).)))))....((.....))......((((((.-...)))))) ( -22.00)
>Bhalo.0 2322309 72 + 4202352
AAAAAAGCUCCCCCAUCCUUAGAAAAGGACGGGAGAG-CCCGCGGUACCACCUUCAUU-GGU-CAAUAAAUAACC
......((((.(((.(((((....))))).))).)))-).....(.((((.......)-)))-)........... ( -19.90)
>Bclau.0 3999426 72 - 4303871
AAAAAGGGCUACCCAUCCU-AAAAAAGGACGGAUAAC-CCCGCGGUGCCACCUUCAUUCGCU-CCACAAAAAAGC
.....(((.((.((.((((-.....)))).)).)).)-)).(.((.((...........)).-)).)........ ( -15.30)
>Blich.0 1756018 71 - 4222334
AAAAAAACCUUUCCGUCUU-CGCAAAGGACGAAAAGGUUUCGCGGUACCACCUUCAUUAGCA--UAUAC-AUGCU
....((((((((.((((((-.....)))))).))))))))...((.....))......((((--(....-))))) ( -18.50)
>Bsubt.0 1742314 70 - 4214630
CAAAAAACCUUUUCAUCA--CGUAAAGGACGAAAAGGUU-CGCGGUACCACCCUCAUUAGCA--CAAAUUGUGCU
.....(((((((((.((.--(.....))).)))))))))-.(.((......)).)...((((--(.....))))) ( -17.50)
>consensus
AAAAAAACCCCCCCAUCCU_AAAAAAGGACGAAAAACUCCCGCGGUACCACCUUCAUUAGCU__CAUAAAUAGCU
.....(((((.(((.((((......)))).))).)))))....((.....))....................... (-10.88 = -10.05 +  -0.83)

alignment

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secondary structure

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dotplot

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Window 6

Location 3,133,268 – 3,133,343
Length 75
Sequences 6
Columns 75
Reading direction reverse
Mean pairwise identity 68.13
Mean single sequence MFE -30.60
Consensus MFE -25.33
Energy contribution -22.78
Covariance contribution -2.55
Combinations/Pair 1.74
Mean z-score -5.12
Structure conservation index 0.83
SVM decision value 1.07
SVM RNA-class probability 0.910216
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 3133268 75 + 5227293
AGCUAUUCAUGAUAGCUAAUUAAGGUGGUACCGCGGGAGUCUCUCGUCCUUUUUUAAGGAUGAGGGGCUCUUUUU
(((((((...))))))).......(((....)))(((((((((((((((((....)))))))))))))))))... ( -34.00)
>Bcere.0 3157045 74 + 5224283
AGCUAUAAA-GAUAGCUAAUUAAGGUGGUACCGCGGGAGUCUCUCGUCCUUUUUUAAGGAUGAGGGACUCUUUUU
((((((...-.)))))).......(((....)))(((((((((((((((((....)))))))))))))))))... ( -34.50)
>Bhalo.0 2322309 72 + 4202352
GGUUAUUUAUUG-ACC-AAUGAAGGUGGUACCGCGGG-CUCUCCCGUCCUUUUCUAAGGAUGGGGGAGCUUUUUU
(((((.....))-)))-.......(((....)))(((-(((((((((((((....)))))))))))))))).... ( -35.20)
>Bclau.0 3999426 72 - 4303871
GCUUUUUUGUGG-AGCGAAUGAAGGUGGCACCGCGGG-GUUAUCCGUCCUUUUUU-AGGAUGGGUAGCCCUUUUU
........((((-.((.(.......).)).))))(((-((((((((((((.....-))))))))))))))).... ( -32.30)
>Blich.0 1756018 71 - 4222334
AGCAU-GUAUA--UGCUAAUGAAGGUGGUACCGCGAAACCUUUUCGUCCUUUGCG-AAGACGGAAAGGUUUUUUU
(((((-....)--)))).......(((....)))((((((((((((((.......-..))))))))))))))... ( -23.20)
>Bsubt.0 1742314 70 - 4214630
AGCACAAUUUG--UGCUAAUGAGGGUGGUACCGCG-AACCUUUUCGUCCUUUACG--UGAUGAAAAGGUUUUUUG
(((((.....)--)))).......(((....)))(-(((((((((((((.....)--.))))))))))))).... ( -24.40)
>consensus
AGCUAUUUAUG__AGCUAAUGAAGGUGGUACCGCGGGACUCUCUCGUCCUUUUCU_AGGAUGAGGAGCUCUUUUU
........................(((....)))((((((((((((((((......))))))))))))))))... (-25.33 = -22.78 +  -2.55)

alignment

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secondary structure

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dotplot

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Window 7

Location 3,133,268 – 3,133,343
Length 75
Sequences 6
Columns 75
Reading direction forward
Mean pairwise identity 68.13
Mean single sequence MFE -18.40
Consensus MFE -10.88
Energy contribution -10.05
Covariance contribution -0.83
Combinations/Pair 1.50
Mean z-score -3.14
Structure conservation index 0.59
SVM decision value 2.81
SVM RNA-class probability 0.997183
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 3133268 75 + 5227293/0-75
AAAAAGAGCCCCUCAUCCUUAAAAAAGGACGAGAGACUCCCGCGGUACCACCUUAAUUAGCUAUCAUGAAUAGCU
.....(((.(.(((.(((((....))))).))).).)))....((.....))......((((((.....)))))) ( -17.20)
>Bcere.0 3157045 74 + 5224283/0-75
AAAAAGAGUCCCUCAUCCUUAAAAAAGGACGAGAGACUCCCGCGGUACCACCUUAAUUAGCUAUC-UUUAUAGCU
.....(((((.(((.(((((....))))).))).)))))....((.....))......((((((.-...)))))) ( -22.00)
>Bhalo.0 2322309 72 + 4202352/0-75
AAAAAAGCUCCCCCAUCCUUAGAAAAGGACGGGAGAG-CCCGCGGUACCACCUUCAUU-GGU-CAAUAAAUAACC
......((((.(((.(((((....))))).))).)))-).....(.((((.......)-)))-)........... ( -19.90)
>Bclau.0 3999426 72 - 4303871/0-75
AAAAAGGGCUACCCAUCCU-AAAAAAGGACGGAUAAC-CCCGCGGUGCCACCUUCAUUCGCU-CCACAAAAAAGC
.....(((.((.((.((((-.....)))).)).)).)-)).(.((.((...........)).-)).)........ ( -15.30)
>Blich.0 1756018 71 - 4222334/0-75
AAAAAAACCUUUCCGUCUU-CGCAAAGGACGAAAAGGUUUCGCGGUACCACCUUCAUUAGCA--UAUAC-AUGCU
....((((((((.((((((-.....)))))).))))))))...((.....))......((((--(....-))))) ( -18.50)
>Bsubt.0 1742314 70 - 4214630/0-75
CAAAAAACCUUUUCAUCA--CGUAAAGGACGAAAAGGUU-CGCGGUACCACCCUCAUUAGCA--CAAAUUGUGCU
.....(((((((((.((.--(.....))).)))))))))-.(.((......)).)...((((--(.....))))) ( -17.50)
>consensus
AAAAAAACCCCCCCAUCCU_AAAAAAGGACGAAAAACUCCCGCGGUACCACCUUCAUUAGCU__CAUAAAUAGCU
.....(((((.(((.((((......)))).))).)))))....((.....))....................... (-10.88 = -10.05 +  -0.83)

alignment

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secondary structure

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dotplot

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Window 8

Location 3,133,268 – 3,133,343
Length 75
Sequences 6
Columns 75
Reading direction reverse
Mean pairwise identity 68.13
Mean single sequence MFE -30.60
Consensus MFE -25.33
Energy contribution -22.78
Covariance contribution -2.55
Combinations/Pair 1.74
Mean z-score -5.12
Structure conservation index 0.83
SVM decision value 1.07
SVM RNA-class probability 0.910216
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 3133268 75 + 5227293/0-75
AGCUAUUCAUGAUAGCUAAUUAAGGUGGUACCGCGGGAGUCUCUCGUCCUUUUUUAAGGAUGAGGGGCUCUUUUU
(((((((...))))))).......(((....)))(((((((((((((((((....)))))))))))))))))... ( -34.00)
>Bcere.0 3157045 74 + 5224283/0-75
AGCUAUAAA-GAUAGCUAAUUAAGGUGGUACCGCGGGAGUCUCUCGUCCUUUUUUAAGGAUGAGGGACUCUUUUU
((((((...-.)))))).......(((....)))(((((((((((((((((....)))))))))))))))))... ( -34.50)
>Bhalo.0 2322309 72 + 4202352/0-75
GGUUAUUUAUUG-ACC-AAUGAAGGUGGUACCGCGGG-CUCUCCCGUCCUUUUCUAAGGAUGGGGGAGCUUUUUU
(((((.....))-)))-.......(((....)))(((-(((((((((((((....)))))))))))))))).... ( -35.20)
>Bclau.0 3999426 72 - 4303871/0-75
GCUUUUUUGUGG-AGCGAAUGAAGGUGGCACCGCGGG-GUUAUCCGUCCUUUUUU-AGGAUGGGUAGCCCUUUUU
........((((-.((.(.......).)).))))(((-((((((((((((.....-))))))))))))))).... ( -32.30)
>Blich.0 1756018 71 - 4222334/0-75
AGCAU-GUAUA--UGCUAAUGAAGGUGGUACCGCGAAACCUUUUCGUCCUUUGCG-AAGACGGAAAGGUUUUUUU
(((((-....)--)))).......(((....)))((((((((((((((.......-..))))))))))))))... ( -23.20)
>Bsubt.0 1742314 70 - 4214630/0-75
AGCACAAUUUG--UGCUAAUGAGGGUGGUACCGCG-AACCUUUUCGUCCUUUACG--UGAUGAAAAGGUUUUUUG
(((((.....)--)))).......(((....)))(-(((((((((((((.....)--.))))))))))))).... ( -24.40)
>consensus
AGCUAUUUAUG__AGCUAAUGAAGGUGGUACCGCGGGACUCUCUCGUCCUUUUCU_AGGAUGAGGAGCUCUUUUU
........................(((....)))((((((((((((((((......))))))))))))))))... (-25.33 = -22.78 +  -2.55)

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 17:28:10 2006