Locus 27

Sequence ID Bsubt.0
Location 2,607,929 – 2,608,022
Length 93
Max. P 0.999982
window151 window152 window153 window154

overview

Window 1

Location 2,607,929 – 2,608,022
Length 93
Sequences 4
Columns 96
Reading direction forward
Mean pairwise identity 67.61
Mean single sequence MFE -33.73
Consensus MFE -21.77
Energy contribution -23.90
Covariance contribution 2.13
Combinations/Pair 1.18
Mean z-score -4.29
Structure conservation index 0.65
SVM decision value 5.28
SVM RNA-class probability 0.999982
Prediction RNA

Download alignment: ClustalW | MAF

>Bsubt.0 2607929 93 + 4214630
AAAAAACUCCCGUCUCUAUGCUUGCC-AGCCGCAAACAUAGGGACGAGAGUUCUCCCGCGGUUCCACCCUAGUUGCU-GAGAACAAA-AUCCCAGC
....(((((.((((((((((.((((.-....)))).)))))))))).))))).......((.....))......(((-(.((.....-.)).)))) ( -30.30)
>Blich.0 2615034 95 + 4222334
AAAAAACUCCCGUCCCUAUGCUUGUUUACCCACAAACAUAGGGACGAGAGUUCUCCCGCGGUUCCACCCUAAUUGCU-GAGAGGAAAUGUCUCAGC
....(((((.((((((((((.((((......)))).)))))))))).))))).......((.....))......(((-((((.......))))))) ( -35.70)
>Bhalo.0 2748379 91 - 4202352
AAAAAACUCCCGCCUCUAUGC----CGAACGGACGGCAUAGGGACGAGAGUUAACCCGCGGUUCCACCCUAUUUGCC-UAUGAUGACACCAUAGGC
....(((((.((.((((((((----((......)))))))))).)).))))).......((.....))......(((-((((.......))))))) ( -34.40)
>Bcere.0 552434 88 - 5224283
AAAAAACGCUCAUCCCAAGGC--------UUUAUUGCCUAGGGACGAGCGUUUGCCCGCGGUUCCACCCUAGUUGAUACACAAAAGGUGCAUCCAC
...((((((((.((((.((((--------......)))).)))).))))))))......((...((((....(((.....)))..))))...)).. ( -34.50)
>consensus
AAAAAACUCCCGUCCCUAUGC____C_A_CCGAAAACAUAGGGACGAGAGUUCUCCCGCGGUUCCACCCUAGUUGCU_GAGAAAAAAUGCAUCAGC
....(((((.(((((((((((((((......))))))))))))))).))))).......((.....))............................ (-21.77 = -23.90 +   2.13)

alignment

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secondary structure

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dotplot

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Window 2

Location 2,607,929 – 2,608,022
Length 93
Sequences 4
Columns 96
Reading direction reverse
Mean pairwise identity 67.61
Mean single sequence MFE -47.20
Consensus MFE -36.92
Energy contribution -37.68
Covariance contribution 0.75
Combinations/Pair 1.43
Mean z-score -6.37
Structure conservation index 0.78
SVM decision value 2.16
SVM RNA-class probability 0.989353
Prediction RNA

Download alignment: ClustalW | MAF

>Bsubt.0 2607929 93 + 4214630
GCUGGGAU-UUUGUUCUC-AGCAACUAGGGUGGAACCGCGGGAGAACUCUCGUCCCUAUGUUUGCGGCU-GGCAAGCAUAGAGACGGGAGUUUUUU
(((((((.-.....))))-))).......(((....))).((((((((((((((.((((((((((....-.)))))))))).)))))))))))))) ( -47.50)
>Blich.0 2615034 95 + 4222334
GCUGAGACAUUUCCUCUC-AGCAAUUAGGGUGGAACCGCGGGAGAACUCUCGUCCCUAUGUUUGUGGGUAAACAAGCAUAGGGACGGGAGUUUUUU
(((((((.......))))-))).......(((....))).(((((((((((((((((((((((((......))))))))))))))))))))))))) ( -52.70)
>Bhalo.0 2748379 91 - 4202352
GCCUAUGGUGUCAUCAUA-GGCAAAUAGGGUGGAACCGCGGGUUAACUCUCGUCCCUAUGCCGUCCGUUCG----GCAUAGAGGCGGGAGUUUUUU
(((((((((...))))))-))).......(((....))).....((((((((((.((((((((......))----)))))).)))))))))).... ( -43.50)
>Bcere.0 552434 88 - 5224283
GUGGAUGCACCUUUUGUGUAUCAACUAGGGUGGAACCGCGGGCAAACGCUCGUCCCUAGGCAAUAAA--------GCCUUGGGAUGAGCGUUUUUU
((((.(.((((((..((......)).)))))).).))))....(((((((((((((.((((......--------)))).)))))))))))))... ( -45.10)
>consensus
GCUGAGACAUUUAUUCUC_AGCAACUAGGGUGGAACCGCGGGAGAACUCUCGUCCCUAUGCUUGCGG_U_G____GCAUAGAGACGGGAGUUUUUU
(((((((.......)))).))).......(((....))).(((((((((((((((((((((((((......))))))))))))))))))))))))) (-36.92 = -37.68 +   0.75)

alignment

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secondary structure

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dotplot

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Window 3

Location 2,607,929 – 2,608,022
Length 93
Sequences 4
Columns 96
Reading direction forward
Mean pairwise identity 67.61
Mean single sequence MFE -33.73
Consensus MFE -21.77
Energy contribution -23.90
Covariance contribution 2.13
Combinations/Pair 1.18
Mean z-score -4.29
Structure conservation index 0.65
SVM decision value 5.28
SVM RNA-class probability 0.999982
Prediction RNA

Download alignment: ClustalW | MAF

>Bsubt.0 2607929 93 + 4214630/0-96
AAAAAACUCCCGUCUCUAUGCUUGCC-AGCCGCAAACAUAGGGACGAGAGUUCUCCCGCGGUUCCACCCUAGUUGCU-GAGAACAAA-AUCCCAGC
....(((((.((((((((((.((((.-....)))).)))))))))).))))).......((.....))......(((-(.((.....-.)).)))) ( -30.30)
>Blich.0 2615034 95 + 4222334/0-96
AAAAAACUCCCGUCCCUAUGCUUGUUUACCCACAAACAUAGGGACGAGAGUUCUCCCGCGGUUCCACCCUAAUUGCU-GAGAGGAAAUGUCUCAGC
....(((((.((((((((((.((((......)))).)))))))))).))))).......((.....))......(((-((((.......))))))) ( -35.70)
>Bhalo.0 2748379 91 - 4202352/0-96
AAAAAACUCCCGCCUCUAUGC----CGAACGGACGGCAUAGGGACGAGAGUUAACCCGCGGUUCCACCCUAUUUGCC-UAUGAUGACACCAUAGGC
....(((((.((.((((((((----((......)))))))))).)).))))).......((.....))......(((-((((.......))))))) ( -34.40)
>Bcere.0 552434 88 - 5224283/0-96
AAAAAACGCUCAUCCCAAGGC--------UUUAUUGCCUAGGGACGAGCGUUUGCCCGCGGUUCCACCCUAGUUGAUACACAAAAGGUGCAUCCAC
...((((((((.((((.((((--------......)))).)))).))))))))......((...((((....(((.....)))..))))...)).. ( -34.50)
>consensus
AAAAAACUCCCGUCCCUAUGC____C_A_CCGAAAACAUAGGGACGAGAGUUCUCCCGCGGUUCCACCCUAGUUGCU_GAGAAAAAAUGCAUCAGC
....(((((.(((((((((((((((......))))))))))))))).))))).......((.....))............................ (-21.77 = -23.90 +   2.13)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 4

Location 2,607,929 – 2,608,022
Length 93
Sequences 4
Columns 96
Reading direction reverse
Mean pairwise identity 67.61
Mean single sequence MFE -47.20
Consensus MFE -36.92
Energy contribution -37.68
Covariance contribution 0.75
Combinations/Pair 1.43
Mean z-score -6.37
Structure conservation index 0.78
SVM decision value 2.16
SVM RNA-class probability 0.989353
Prediction RNA

Download alignment: ClustalW | MAF

>Bsubt.0 2607929 93 + 4214630/0-96
GCUGGGAU-UUUGUUCUC-AGCAACUAGGGUGGAACCGCGGGAGAACUCUCGUCCCUAUGUUUGCGGCU-GGCAAGCAUAGAGACGGGAGUUUUUU
(((((((.-.....))))-))).......(((....))).((((((((((((((.((((((((((....-.)))))))))).)))))))))))))) ( -47.50)
>Blich.0 2615034 95 + 4222334/0-96
GCUGAGACAUUUCCUCUC-AGCAAUUAGGGUGGAACCGCGGGAGAACUCUCGUCCCUAUGUUUGUGGGUAAACAAGCAUAGGGACGGGAGUUUUUU
(((((((.......))))-))).......(((....))).(((((((((((((((((((((((((......))))))))))))))))))))))))) ( -52.70)
>Bhalo.0 2748379 91 - 4202352/0-96
GCCUAUGGUGUCAUCAUA-GGCAAAUAGGGUGGAACCGCGGGUUAACUCUCGUCCCUAUGCCGUCCGUUCG----GCAUAGAGGCGGGAGUUUUUU
(((((((((...))))))-))).......(((....))).....((((((((((.((((((((......))----)))))).)))))))))).... ( -43.50)
>Bcere.0 552434 88 - 5224283/0-96
GUGGAUGCACCUUUUGUGUAUCAACUAGGGUGGAACCGCGGGCAAACGCUCGUCCCUAGGCAAUAAA--------GCCUUGGGAUGAGCGUUUUUU
((((.(.((((((..((......)).)))))).).))))....(((((((((((((.((((......--------)))).)))))))))))))... ( -45.10)
>consensus
GCUGAGACAUUUAUUCUC_AGCAACUAGGGUGGAACCGCGGGAGAACUCUCGUCCCUAUGCUUGCGG_U_G____GCAUAGAGACGGGAGUUUUUU
(((((((.......)))).))).......(((....))).(((((((((((((((((((((((((......))))))))))))))))))))))))) (-36.92 = -37.68 +   0.75)

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 17:17:31 2006