Locus 22

Sequence ID sy_ha.0
Location 884,998 – 885,082
Length 84
Max. P 0.978495
window110 window111 window112 window113

overview

Window 0

Location 884,998 – 885,082
Length 84
Sequences 3
Columns 84
Reading direction forward
Mean pairwise identity 96.83
Mean single sequence MFE -28.47
Consensus MFE -28.07
Energy contribution -28.07
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.78
Structure conservation index 0.99
SVM decision value 0.69
SVM RNA-class probability 0.823289
Prediction RNA

Download alignment: ClustalW | MAF

>sy_ha.0 884998 84 + 2685015
UUGGAGAAUUAGCUCAGCUGGGAGAGCAUCUGCCUUACAAGCAGAGGGUCGGCGGUUCGAACCCGUCAUUCUCCACCAUUUGUA
.((((((((..((((........)))).(((((.......)))))(((((((....))).))))...))))))))......... ( -28.60)
>sy_au.0 581089 84 - 2809422
UUGGAGAAUUAGCUCAGCUGGGAGAGCAUCUGCCUUACAAGCAGAGGGUCGGCGGUUCGAACCCGUCAUUCUCCACCAUUUUGA
.((((((((..((((........)))).(((((.......)))))(((((((....))).))))...))))))))......... ( -28.60)
>sy_sa.0 748838 84 + 2516575
UAGGAGAAUUAGCUCAGCUGGGAGAGCAUCUGCCUUACAAGCAGAGGGUCGGCGGUUCGAACCCGUCAUUCUCCACCAUUCUUA
..(((((((..((((........)))).(((((.......)))))(((((((....))).))))...))))))).......... ( -28.20)
>consensus
UUGGAGAAUUAGCUCAGCUGGGAGAGCAUCUGCCUUACAAGCAGAGGGUCGGCGGUUCGAACCCGUCAUUCUCCACCAUUUUUA
..(((((((..((((........)))).(((((.......)))))(((((((....))).))))...))))))).......... (-28.07 = -28.07 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 1

Location 884,998 – 885,082
Length 84
Sequences 3
Columns 84
Reading direction reverse
Mean pairwise identity 96.83
Mean single sequence MFE -30.03
Consensus MFE -29.43
Energy contribution -29.43
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.58
Structure conservation index 0.98
SVM decision value 1.82
SVM RNA-class probability 0.978495
Prediction RNA

Download alignment: ClustalW | MAF

>sy_ha.0 884998 84 + 2685015
UACAAAUGGUGGAGAAUGACGGGUUCGAACCGCCGACCCUCUGCUUGUAAGGCAGAUGCUCUCCCAGCUGAGCUAAUUCUCCAA
.........((((((((...((((.((......))))))((((((.....)))))).((((........))))..)))))))). ( -30.50)
>sy_au.0 581089 84 - 2809422
UCAAAAUGGUGGAGAAUGACGGGUUCGAACCGCCGACCCUCUGCUUGUAAGGCAGAUGCUCUCCCAGCUGAGCUAAUUCUCCAA
.........((((((((...((((.((......))))))((((((.....)))))).((((........))))..)))))))). ( -30.50)
>sy_sa.0 748838 84 + 2516575
UAAGAAUGGUGGAGAAUGACGGGUUCGAACCGCCGACCCUCUGCUUGUAAGGCAGAUGCUCUCCCAGCUGAGCUAAUUCUCCUA
..........(((((((...((((.((......))))))((((((.....)))))).((((........))))..))))))).. ( -29.10)
>consensus
UAAAAAUGGUGGAGAAUGACGGGUUCGAACCGCCGACCCUCUGCUUGUAAGGCAGAUGCUCUCCCAGCUGAGCUAAUUCUCCAA
..........(((((((...((((.((......))))))((((((.....)))))).((((........))))..))))))).. (-29.43 = -29.43 +   0.00) 
# Strand winner: forward (0.53)

alignment

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secondary structure

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dotplot

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Window 2

Location 884,998 – 885,082
Length 84
Sequences 3
Columns 84
Reading direction forward
Mean pairwise identity 96.83
Mean single sequence MFE -28.47
Consensus MFE -28.07
Energy contribution -28.07
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.78
Structure conservation index 0.99
SVM decision value 0.69
SVM RNA-class probability 0.823289
Prediction RNA

Download alignment: ClustalW | MAF

>sy_ha.0 884998 84 + 2685015/0-84
UUGGAGAAUUAGCUCAGCUGGGAGAGCAUCUGCCUUACAAGCAGAGGGUCGGCGGUUCGAACCCGUCAUUCUCCACCAUUUGUA
.((((((((..((((........)))).(((((.......)))))(((((((....))).))))...))))))))......... ( -28.60)
>sy_au.0 581089 84 - 2809422/0-84
UUGGAGAAUUAGCUCAGCUGGGAGAGCAUCUGCCUUACAAGCAGAGGGUCGGCGGUUCGAACCCGUCAUUCUCCACCAUUUUGA
.((((((((..((((........)))).(((((.......)))))(((((((....))).))))...))))))))......... ( -28.60)
>sy_sa.0 748838 84 + 2516575/0-84
UAGGAGAAUUAGCUCAGCUGGGAGAGCAUCUGCCUUACAAGCAGAGGGUCGGCGGUUCGAACCCGUCAUUCUCCACCAUUCUUA
..(((((((..((((........)))).(((((.......)))))(((((((....))).))))...))))))).......... ( -28.20)
>consensus
UUGGAGAAUUAGCUCAGCUGGGAGAGCAUCUGCCUUACAAGCAGAGGGUCGGCGGUUCGAACCCGUCAUUCUCCACCAUUUUUA
..(((((((..((((........)))).(((((.......)))))(((((((....))).))))...))))))).......... (-28.07 = -28.07 +  -0.00)

alignment

Postscript

secondary structure

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dotplot

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Window 3

Location 884,998 – 885,082
Length 84
Sequences 3
Columns 84
Reading direction reverse
Mean pairwise identity 96.83
Mean single sequence MFE -30.03
Consensus MFE -29.43
Energy contribution -29.43
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.58
Structure conservation index 0.98
SVM decision value 1.82
SVM RNA-class probability 0.978495
Prediction RNA

Download alignment: ClustalW | MAF

>sy_ha.0 884998 84 + 2685015/0-84
UACAAAUGGUGGAGAAUGACGGGUUCGAACCGCCGACCCUCUGCUUGUAAGGCAGAUGCUCUCCCAGCUGAGCUAAUUCUCCAA
.........((((((((...((((.((......))))))((((((.....)))))).((((........))))..)))))))). ( -30.50)
>sy_au.0 581089 84 - 2809422/0-84
UCAAAAUGGUGGAGAAUGACGGGUUCGAACCGCCGACCCUCUGCUUGUAAGGCAGAUGCUCUCCCAGCUGAGCUAAUUCUCCAA
.........((((((((...((((.((......))))))((((((.....)))))).((((........))))..)))))))). ( -30.50)
>sy_sa.0 748838 84 + 2516575/0-84
UAAGAAUGGUGGAGAAUGACGGGUUCGAACCGCCGACCCUCUGCUUGUAAGGCAGAUGCUCUCCCAGCUGAGCUAAUUCUCCUA
..........(((((((...((((.((......))))))((((((.....)))))).((((........))))..))))))).. ( -29.10)
>consensus
UAAAAAUGGUGGAGAAUGACGGGUUCGAACCGCCGACCCUCUGCUUGUAAGGCAGAUGCUCUCCCAGCUGAGCUAAUUCUCCAA
..........(((((((...((((.((......))))))((((((.....)))))).((((........))))..))))))).. (-29.43 = -29.43 +   0.00) 
# Strand winner: forward (0.53)

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 18:52:04 2006