Locus 10

Sequence ID sp_pn.0
Location 187,790 – 187,876
Length 86
Max. P 0.991274
window76 window77 window78 window79

overview

Window 6

Location 187,790 – 187,876
Length 86
Sequences 3
Columns 86
Reading direction forward
Mean pairwise identity 98.45
Mean single sequence MFE -44.23
Consensus MFE -44.23
Energy contribution -44.23
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -3.06
Structure conservation index 1.00
SVM decision value 2.26
SVM RNA-class probability 0.991274
Prediction RNA

Download alignment: ClustalW | MAF

>sp_pn.0 187790 86 - 2038615
GCCGGCGUGGCGGAAUUGGCAGACGCGCUGGACUCAAAAUCCAGUGUCCGCAAGGACGUGCCGGUUCGACCCCGGCCGCCGGUAUA
(((((((.(.(((((((((((.....((((((.......))))))((((....)))).)))))))).....))).))))))))... ( -45.50)
>sp_mu.0 191862 86 + 2030921
GCCGGCGUGGCGGAAUUGGCAGACGCGCUGGACUCAAAAUCCAGUGUCCGCAAGGACGUGCCGGUUCGACCCCGGCCGCCGGUAUA
(((((((.(.(((((((((((.....((((((.......))))))((((....)))).)))))))).....))).))))))))... ( -45.50)
>sp_ag.0 256240 86 + 2160267
GCCGGCGUGGCGGAAUUGGCAGACGCGCUGGACUCAAAAUCCAGUGUCCUCACGGACGUGCCGGUUCGACCCCGGCCGCCGGUAUA
(((((((.(.(((((((((((.....((((((.......))))))((((....)))).)))))))).....))).))))))))... ( -41.70)
>consensus
GCCGGCGUGGCGGAAUUGGCAGACGCGCUGGACUCAAAAUCCAGUGUCCGCAAGGACGUGCCGGUUCGACCCCGGCCGCCGGUAUA
(((((((.(.(((((((((((.....((((((.......))))))((((....)))).)))))))).....))).))))))))... (-44.23 = -44.23 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 7

Location 187,790 – 187,876
Length 86
Sequences 3
Columns 86
Reading direction reverse
Mean pairwise identity 98.45
Mean single sequence MFE -40.13
Consensus MFE -39.07
Energy contribution -39.07
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.12
Structure conservation index 0.97
SVM decision value 1.06
SVM RNA-class probability 0.909408
Prediction RNA

Download alignment: ClustalW | MAF

>sp_pn.0 187790 86 - 2038615
UAUACCGGCGGCCGGGGUCGAACCGGCACGUCCUUGCGGACACUGGAUUUUGAGUCCAGCGCGUCUGCCAAUUCCGCCACGCCGGC
....(((((((((((.......)))))........((((((.((((((.....))))))...))))))...........)))))). ( -39.40)
>sp_mu.0 191862 86 + 2030921
UAUACCGGCGGCCGGGGUCGAACCGGCACGUCCUUGCGGACACUGGAUUUUGAGUCCAGCGCGUCUGCCAAUUCCGCCACGCCGGC
....(((((((((((.......)))))........((((((.((((((.....))))))...))))))...........)))))). ( -39.40)
>sp_ag.0 256240 86 + 2160267
UAUACCGGCGGCCGGGGUCGAACCGGCACGUCCGUGAGGACACUGGAUUUUGAGUCCAGCGCGUCUGCCAAUUCCGCCACGCCGGC
....(((((((.(((((.....))((((.((((....)))).((((((.....))))))......))))....))).).)))))). ( -41.60)
>consensus
UAUACCGGCGGCCGGGGUCGAACCGGCACGUCCUUGCGGACACUGGAUUUUGAGUCCAGCGCGUCUGCCAAUUCCGCCACGCCGGC
....(((((((.(((((.....))((((.((((....)))).((((((.....))))))......))))....))).).)))))). (-39.07 = -39.07 +   0.00) 
# Strand winner: forward (0.68)

alignment

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secondary structure

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dotplot

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Window 8

Location 187,790 – 187,876
Length 86
Sequences 3
Columns 86
Reading direction forward
Mean pairwise identity 98.45
Mean single sequence MFE -44.23
Consensus MFE -44.23
Energy contribution -44.23
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -3.06
Structure conservation index 1.00
SVM decision value 2.26
SVM RNA-class probability 0.991274
Prediction RNA

Download alignment: ClustalW | MAF

>sp_pn.0 187790 86 - 2038615/0-86
GCCGGCGUGGCGGAAUUGGCAGACGCGCUGGACUCAAAAUCCAGUGUCCGCAAGGACGUGCCGGUUCGACCCCGGCCGCCGGUAUA
(((((((.(.(((((((((((.....((((((.......))))))((((....)))).)))))))).....))).))))))))... ( -45.50)
>sp_mu.0 191862 86 + 2030921/0-86
GCCGGCGUGGCGGAAUUGGCAGACGCGCUGGACUCAAAAUCCAGUGUCCGCAAGGACGUGCCGGUUCGACCCCGGCCGCCGGUAUA
(((((((.(.(((((((((((.....((((((.......))))))((((....)))).)))))))).....))).))))))))... ( -45.50)
>sp_ag.0 256240 86 + 2160267/0-86
GCCGGCGUGGCGGAAUUGGCAGACGCGCUGGACUCAAAAUCCAGUGUCCUCACGGACGUGCCGGUUCGACCCCGGCCGCCGGUAUA
(((((((.(.(((((((((((.....((((((.......))))))((((....)))).)))))))).....))).))))))))... ( -41.70)
>consensus
GCCGGCGUGGCGGAAUUGGCAGACGCGCUGGACUCAAAAUCCAGUGUCCGCAAGGACGUGCCGGUUCGACCCCGGCCGCCGGUAUA
(((((((.(.(((((((((((.....((((((.......))))))((((....)))).)))))))).....))).))))))))... (-44.23 = -44.23 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 187,790 – 187,876
Length 86
Sequences 3
Columns 86
Reading direction reverse
Mean pairwise identity 98.45
Mean single sequence MFE -40.13
Consensus MFE -39.07
Energy contribution -39.07
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.12
Structure conservation index 0.97
SVM decision value 1.06
SVM RNA-class probability 0.909408
Prediction RNA

Download alignment: ClustalW | MAF

>sp_pn.0 187790 86 - 2038615/0-86
UAUACCGGCGGCCGGGGUCGAACCGGCACGUCCUUGCGGACACUGGAUUUUGAGUCCAGCGCGUCUGCCAAUUCCGCCACGCCGGC
....(((((((((((.......)))))........((((((.((((((.....))))))...))))))...........)))))). ( -39.40)
>sp_mu.0 191862 86 + 2030921/0-86
UAUACCGGCGGCCGGGGUCGAACCGGCACGUCCUUGCGGACACUGGAUUUUGAGUCCAGCGCGUCUGCCAAUUCCGCCACGCCGGC
....(((((((((((.......)))))........((((((.((((((.....))))))...))))))...........)))))). ( -39.40)
>sp_ag.0 256240 86 + 2160267/0-86
UAUACCGGCGGCCGGGGUCGAACCGGCACGUCCGUGAGGACACUGGAUUUUGAGUCCAGCGCGUCUGCCAAUUCCGCCACGCCGGC
....(((((((.(((((.....))((((.((((....)))).((((((.....))))))......))))....))).).)))))). ( -41.60)
>consensus
UAUACCGGCGGCCGGGGUCGAACCGGCACGUCCUUGCGGACACUGGAUUUUGAGUCCAGCGCGUCUGCCAAUUCCGCCACGCCGGC
....(((((((.(((((.....))((((.((((....)))).((((((.....))))))......))))....))).).)))))). (-39.07 = -39.07 +   0.00) 
# Strand winner: forward (0.68)

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 18:51:30 2006