Locus 97

Sequence ID pao_1
Location 5,541,830 – 5,541,918
Length 88
Max. P 0.999520
window365 window366

overview

Window 5

Location 5,541,830 – 5,541,918
Length 88
Sequences 4
Columns 88
Reading direction forward
Mean pairwise identity 86.36
Mean single sequence MFE -40.20
Consensus MFE -42.22
Energy contribution -38.60
Covariance contribution -3.62
Combinations/Pair 1.41
Mean z-score -3.31
Structure conservation index 1.05
SVM decision value 3.68
SVM RNA-class probability 0.999520
Prediction RNA

Download alignment: ClustalW | MAF

>pao_1 5541830 88 + 1
UGCCCAGGUGGCGGAAUUGGUAGACGCACUAGGUUCAGGUCCUAGCGGUGGCAACACCGUGGAAGUUCGAGUCUUCUCCUGGGCACCA
((((((((.((.(((.((((....(((.(((((.......))))).((((....))))))).....)))).))).))))))))))... ( -39.00)
>pf5_1 1 88 + 1
UGCCCAGAUGGUGAAAUUGGUAGACACGCCAGCUUCAGGUGCUGGUGGCCGCAAGGCCGUGGAAGUUCGAGUCUUCUUCUGGGCACCA
((((((((.((.((..((((....(((((((((.......))))))((((....))))))).....)))).)).)).))))))))... ( -42.60)
>pfs_1 1 88 + 1
UGCCCAGGUGGUGAAAUUGGUAGACACGCCAGCUUCAGGUGCUGGUGAUCGCAAGGUCGUGGAAGUUCGAGUCUUCUCCUGGGCACCA
((((((((.((.((..((((....(((((((((.......))))))((((....))))))).....)))).)).)).))))))))... ( -40.20)
>ppk_1 1 88 + 1
UGCCCAGGUGGCGGAAUUGGUAGACGCGCUGGUUUCAGGUAUCAGUGACCGCAAGGUCGUGGAAGUUCGAGUCUUCUCCUGGGCACCA
((((((((.((.(((.((((....(((((((((.......))))))((((....))))))).....)))).))).))))))))))... ( -39.00)
>consensus
UGCCCAGGUGGCGAAAUUGGUAGACACGCCAGCUUCAGGUGCUAGUGACCGCAAGGCCGUGGAAGUUCGAGUCUUCUCCUGGGCACCA
((((((((.((.((..((((....(((((((((.......))))))((((....))))))).....)))).)).)).))))))))... (-42.22 = -38.60 +  -3.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 5,541,830 – 5,541,918
Length 88
Sequences 4
Columns 88
Reading direction reverse
Mean pairwise identity 86.36
Mean single sequence MFE -30.93
Consensus MFE -29.88
Energy contribution -27.19
Covariance contribution -2.69
Combinations/Pair 1.39
Mean z-score -2.20
Structure conservation index 0.97
SVM decision value 2.12
SVM RNA-class probability 0.988431
Prediction RNA

Download alignment: ClustalW | MAF

>pao_1 5541830 88 - 1
UGGUGCCCAGGAGAAGACUCGAACUUCCACGGUGUUGCCACCGCUAGGACCUGAACCUAGUGCGUCUACCAAUUCCGCCACCUGGGCA
...((((((((.((((.......))))..(((.((((..(((((((((.......))))))).))....)))).)))...)))))))) ( -33.70)
>pf5_1 1 88 - 1
UGGUGCCCAGAAGAAGACUCGAACUUCCACGGCCUUGCGGCCACCAGCACCUGAAGCUGGCGUGUCUACCAAUUUCACCAUCUGGGCA
...((((((((.((((.......))))(((((((....)))).(((((.......))))).)))................)))))))) ( -33.80)
>pfs_1 1 88 - 1
UGGUGCCCAGGAGAAGACUCGAACUUCCACGACCUUGCGAUCACCAGCACCUGAAGCUGGCGUGUCUACCAAUUUCACCACCUGGGCA
...((((((((.((((.......))))...((..(((.((((.(((((.......))))).).)))...)))..))....)))))))) ( -28.80)
>ppk_1 1 88 - 1
UGGUGCCCAGGAGAAGACUCGAACUUCCACGACCUUGCGGUCACUGAUACCUGAAACCAGCGCGUCUACCAAUUCCGCCACCUGGGCA
...((((((((.((((.......)))).........((((.....((..((((....))).)..))........))))..)))))))) ( -27.42)
>consensus
UGGUGCCCAGGAGAAGACUCGAACUUCCACGACCUUGCGACCACCAGCACCUGAAGCUAGCGCGUCUACCAAUUCCACCACCUGGGCA
...((((((((...((((.((.........((((....)))).(((((.......))))))).)))).............)))))))) (-29.88 = -27.19 +  -2.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 11:53:34 2007