Locus 60

Sequence ID Blich.0
Location 342,367 – 342,419
Length 52
Max. P 0.999308
window385 window386 window387 window388

overview

Window 5

Location 342,367 – 342,419
Length 52
Sequences 3
Columns 52
Reading direction forward
Mean pairwise identity 85.26
Mean single sequence MFE -14.00
Consensus MFE -12.90
Energy contribution -12.23
Covariance contribution -0.66
Combinations/Pair 1.25
Mean z-score -4.24
Structure conservation index 0.92
SVM decision value 2.15
SVM RNA-class probability 0.989103
Prediction RNA
WARNING Sequence 2: Base composition out of range.

Download alignment: ClustalW | MAF

>Blich.0 342367 52 + 4222334
UUGAAAAAGUAUGUGAAGUAUUGCACAAUAUGAAUGUGAAGAAUUUCACAAA
...........((((((((....((((.......))))....)))))))).. ( -11.20)
>Bclau.0 1301392 52 - 4303871
UUGAAAAUUUUUGUGAAAUAAUGCACAAUAUAAAUGUGAAUAAUUUCACAAA
.........((((((((((.((.((((.......)))).)).)))))))))) ( -12.30)
>Bsubt.0 329233 52 + 4214630
UUGCAAAAGUUUGUGAAGUGUUGCACAAUAUAAAUGUGAAAUACUUCACAAA
.........(((((((((((((.((((.......)))).))))))))))))) ( -18.50)
>consensus
UUGAAAAAGUUUGUGAAGUAUUGCACAAUAUAAAUGUGAAAAAUUUCACAAA
.........((((((((((.((.((((.......)))).)).)))))))))) (-12.90 = -12.23 +  -0.66)

alignment

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secondary structure

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dotplot

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Window 6

Location 342,367 – 342,419
Length 52
Sequences 3
Columns 52
Reading direction reverse
Mean pairwise identity 85.26
Mean single sequence MFE -12.43
Consensus MFE -11.97
Energy contribution -12.53
Covariance contribution 0.56
Combinations/Pair 1.12
Mean z-score -4.25
Structure conservation index 0.96
SVM decision value 2.30
SVM RNA-class probability 0.991952
Prediction RNA
WARNING Sequence 2: Base composition out of range.

Download alignment: ClustalW | MAF

>Blich.0 342367 52 + 4222334
UUUGUGAAAUUCUUCACAUUCAUAUUGUGCAAUACUUCACAUACUUUUUCAA
..((((((......((((.......))))......))))))........... (  -8.20)
>Bclau.0 1301392 52 - 4303871
UUUGUGAAAUUAUUCACAUUUAUAUUGUGCAUUAUUUCACAAAAAUUUUCAA
((((((((((.((.((((.......)))).)).))))))))))......... ( -13.60)
>Bsubt.0 329233 52 + 4214630
UUUGUGAAGUAUUUCACAUUUAUAUUGUGCAACACUUCACAAACUUUUGCAA
((((((((((.((.((((.......)))).)).))))))))))......... ( -15.50)
>consensus
UUUGUGAAAUUAUUCACAUUUAUAUUGUGCAAUACUUCACAAACUUUUUCAA
((((((((((.((.((((.......)))).)).))))))))))......... (-11.97 = -12.53 +   0.56)

alignment

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secondary structure

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dotplot

Postscript

Window 7

Location 342,367 – 342,419
Length 52
Sequences 2
Columns 52
Reading direction forward
Mean pairwise identity 86.54
Mean single sequence MFE -14.85
Consensus MFE -15.05
Energy contribution -15.05
Covariance contribution -0.00
Combinations/Pair 1.13
Mean z-score -4.87
Structure conservation index 1.01
SVM decision value 3.22
SVM RNA-class probability 0.998772
Prediction RNA

Download alignment: ClustalW | MAF

>Blich.0 342367 52 + 4222334/0-52
UUGAAAAAGUAUGUGAAGUAUUGCACAAUAUGAAUGUGAAGAAUUUCACAAA
...........((((((((....((((.......))))....)))))))).. ( -11.20)
>Bsubt.0 329233 52 + 4214630/0-52
UUGCAAAAGUUUGUGAAGUGUUGCACAAUAUAAAUGUGAAAUACUUCACAAA
.........(((((((((((((.((((.......)))).))))))))))))) ( -18.50)
>consensus
UUGAAAAAGUAUGUGAAGUAUUGCACAAUAUAAAUGUGAAAAACUUCACAAA
...........(((((((((((.((((.......)))).))))))))))).. (-15.05 = -15.05 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 8

Location 342,367 – 342,419
Length 52
Sequences 2
Columns 52
Reading direction reverse
Mean pairwise identity 86.54
Mean single sequence MFE -11.85
Consensus MFE -10.70
Energy contribution -11.20
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -4.56
Structure conservation index 0.90
SVM decision value 3.50
SVM RNA-class probability 0.999308
Prediction RNA

Download alignment: ClustalW | MAF

>Blich.0 342367 52 + 4222334/0-52
UUUGUGAAAUUCUUCACAUUCAUAUUGUGCAAUACUUCACAUACUUUUUCAA
..((((((......((((.......))))......))))))........... (  -8.20)
>Bsubt.0 329233 52 + 4214630/0-52
UUUGUGAAGUAUUUCACAUUUAUAUUGUGCAACACUUCACAAACUUUUGCAA
((((((((((.((.((((.......)))).)).))))))))))......... ( -15.50)
>consensus
UUUGUGAAAUACUUCACAUUCAUAUUGUGCAACACUUCACAAACUUUUGCAA
..((((((((....((((.......))))....))))))))........... (-10.70 = -11.20 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 17:20:43 2006