Locus 36

Sequence ID sy_au.0
Location 1,940,640 – 1,940,718
Length 78
Max. P 0.999937
window182 window183 window184 window185

overview

Window 2

Location 1,940,640 – 1,940,718
Length 78
Sequences 6
Columns 78
Reading direction forward
Mean pairwise identity 94.19
Mean single sequence MFE -30.22
Consensus MFE -26.27
Energy contribution -26.27
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.27
Structure conservation index 0.87
SVM decision value 1.74
SVM RNA-class probability 0.975165
Prediction RNA

Download alignment: ClustalW | MAF

>sy_au.0 1940640 78 + 2809422
AUUGCGGGAGGCGGAUUUGAACCACCGACCUUCGGGUUAUGAGCCCGACGAGCUACCGAACUGCUCCAUCCCGCGCUA
...(((((((((((..........))).)).((((((.....)))))).((((.........))))..)))))).... ( -30.40)
>sy_ha.0 1544366 78 - 2685015
AUUGCGGGAGGCGGAUUUGAACCACCGACCUUCGGGUUAUGAGCCCGACGAGCUACCGAACUGCUCCAUCCCGCGCUA
...(((((((((((..........))).)).((((((.....)))))).((((.........))))..)))))).... ( -30.40)
>sy_sa.0 1512800 78 - 2516575
GUUGCGGGAGGCGGAUUUGAACCACCGACCUUCGGGUUAUGAGCCCGACGAGCUACCGAACUGCUCCAUCCCGCGAUA
((((((((((((((..........))).)).((((((.....)))))).((((.........))))..))))))))). ( -33.00)
>sp_ag.0 2131973 78 - 2160267
AUUGCGGGAGCAGGAUUUGAACCUACGACCUUCGGGUUAUGAGCCCGACGAGCUACCUAGCUGCUCCAUCCCGCGAUA
(((((((((...(((..............(.((((((.....)))))).)((((....))))..))).))))))))). ( -30.10)
>sp_mu.0 2007702 78 - 2030921
AUUGCGGGAGCAGGAUUUGAACCUACGACCUUCGGGUUAUGAGCCCGACGAGCUACCUAACUGCUCCAUCCCGCGAUA
((((((((((.(((.......))).).....((((((.....)))))).((((.........))))..))))))))). ( -29.50)
>sp_pn.0 1691149 78 + 2038615
AUUGCGGGAGCAGGAUUUGAACCUACGACCUUCGGGUUAUGAGCCCGACGAGCUACCGAGCUGCUCCAUCCCGCGUUA
...((((((...(((..............(.((((((.....)))))).)((((....))))..))).)))))).... ( -27.90)
>consensus
AUUGCGGGAGCAGGAUUUGAACCAACGACCUUCGGGUUAUGAGCCCGACGAGCUACCGAACUGCUCCAUCCCGCGAUA
..(((((((......................((((((.....)))))).((((.........))))..)))))))... (-26.27 = -26.27 +   0.00)

alignment

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secondary structure

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dotplot

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Window 3

Location 1,940,640 – 1,940,718
Length 78
Sequences 6
Columns 78
Reading direction reverse
Mean pairwise identity 94.19
Mean single sequence MFE -30.80
Consensus MFE -31.60
Energy contribution -30.60
Covariance contribution -1.00
Combinations/Pair 1.10
Mean z-score -2.01
Structure conservation index 1.03
SVM decision value 4.68
SVM RNA-class probability 0.999937
Prediction RNA

Download alignment: ClustalW | MAF

>sy_au.0 1940640 78 + 2809422
UAGCGCGGGAUGGAGCAGUUCGGUAGCUCGUCGGGCUCAUAACCCGAAGGUCGGUGGUUCAAAUCCGCCUCCCGCAAU
....((((((..((((.........)))).(((((.......))))).....(((((.......)))))))))))... ( -31.40)
>sy_ha.0 1544366 78 - 2685015
UAGCGCGGGAUGGAGCAGUUCGGUAGCUCGUCGGGCUCAUAACCCGAAGGUCGGUGGUUCAAAUCCGCCUCCCGCAAU
....((((((..((((.........)))).(((((.......))))).....(((((.......)))))))))))... ( -31.40)
>sy_sa.0 1512800 78 - 2516575
UAUCGCGGGAUGGAGCAGUUCGGUAGCUCGUCGGGCUCAUAACCCGAAGGUCGGUGGUUCAAAUCCGCCUCCCGCAAC
....((((((..((((.........)))).(((((.......))))).....(((((.......)))))))))))... ( -31.40)
>sp_ag.0 2131973 78 - 2160267
UAUCGCGGGAUGGAGCAGCUAGGUAGCUCGUCGGGCUCAUAACCCGAAGGUCGUAGGUUCAAAUCCUGCUCCCGCAAU
....((((((..((((.((...)).)))).(((((.......))))).....(((((.......)))))))))))... ( -30.40)
>sp_mu.0 2007702 78 - 2030921
UAUCGCGGGAUGGAGCAGUUAGGUAGCUCGUCGGGCUCAUAACCCGAAGGUCGUAGGUUCAAAUCCUGCUCCCGCAAU
....((((((..((((.........)))).(((((.......))))).....(((((.......)))))))))))... ( -29.80)
>sp_pn.0 1691149 78 + 2038615
UAACGCGGGAUGGAGCAGCUCGGUAGCUCGUCGGGCUCAUAACCCGAAGGUCGUAGGUUCAAAUCCUGCUCCCGCAAU
....((((((..((((.((...)).)))).(((((.......))))).....(((((.......)))))))))))... ( -30.40)
>consensus
UAUCGCGGGAUGGAGCAGUUCGGUAGCUCGUCGGGCUCAUAACCCGAAGGUCGGAGGUUCAAAUCCGCCUCCCGCAAU
....((((((..((((.........)))).(((((.......))))).....(((((.......)))))))))))... (-31.60 = -30.60 +  -1.00) 
# Strand winner: reverse (0.98)

alignment

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secondary structure

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dotplot

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Window 4

Location 1,940,640 – 1,940,718
Length 78
Sequences 6
Columns 78
Reading direction forward
Mean pairwise identity 94.19
Mean single sequence MFE -30.22
Consensus MFE -26.27
Energy contribution -26.27
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.27
Structure conservation index 0.87
SVM decision value 1.74
SVM RNA-class probability 0.975165
Prediction RNA

Download alignment: ClustalW | MAF

>sy_au.0 1940640 78 + 2809422/0-78
AUUGCGGGAGGCGGAUUUGAACCACCGACCUUCGGGUUAUGAGCCCGACGAGCUACCGAACUGCUCCAUCCCGCGCUA
...(((((((((((..........))).)).((((((.....)))))).((((.........))))..)))))).... ( -30.40)
>sy_ha.0 1544366 78 - 2685015/0-78
AUUGCGGGAGGCGGAUUUGAACCACCGACCUUCGGGUUAUGAGCCCGACGAGCUACCGAACUGCUCCAUCCCGCGCUA
...(((((((((((..........))).)).((((((.....)))))).((((.........))))..)))))).... ( -30.40)
>sy_sa.0 1512800 78 - 2516575/0-78
GUUGCGGGAGGCGGAUUUGAACCACCGACCUUCGGGUUAUGAGCCCGACGAGCUACCGAACUGCUCCAUCCCGCGAUA
((((((((((((((..........))).)).((((((.....)))))).((((.........))))..))))))))). ( -33.00)
>sp_ag.0 2131973 78 - 2160267/0-78
AUUGCGGGAGCAGGAUUUGAACCUACGACCUUCGGGUUAUGAGCCCGACGAGCUACCUAGCUGCUCCAUCCCGCGAUA
(((((((((...(((..............(.((((((.....)))))).)((((....))))..))).))))))))). ( -30.10)
>sp_mu.0 2007702 78 - 2030921/0-78
AUUGCGGGAGCAGGAUUUGAACCUACGACCUUCGGGUUAUGAGCCCGACGAGCUACCUAACUGCUCCAUCCCGCGAUA
((((((((((.(((.......))).).....((((((.....)))))).((((.........))))..))))))))). ( -29.50)
>sp_pn.0 1691149 78 + 2038615/0-78
AUUGCGGGAGCAGGAUUUGAACCUACGACCUUCGGGUUAUGAGCCCGACGAGCUACCGAGCUGCUCCAUCCCGCGUUA
...((((((...(((..............(.((((((.....)))))).)((((....))))..))).)))))).... ( -27.90)
>consensus
AUUGCGGGAGCAGGAUUUGAACCAACGACCUUCGGGUUAUGAGCCCGACGAGCUACCGAACUGCUCCAUCCCGCGAUA
..(((((((......................((((((.....)))))).((((.........))))..)))))))... (-26.27 = -26.27 +   0.00)

alignment

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secondary structure

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dotplot

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Window 5

Location 1,940,640 – 1,940,718
Length 78
Sequences 6
Columns 78
Reading direction reverse
Mean pairwise identity 94.19
Mean single sequence MFE -30.80
Consensus MFE -31.60
Energy contribution -30.60
Covariance contribution -1.00
Combinations/Pair 1.10
Mean z-score -2.01
Structure conservation index 1.03
SVM decision value 4.68
SVM RNA-class probability 0.999937
Prediction RNA

Download alignment: ClustalW | MAF

>sy_au.0 1940640 78 + 2809422/0-78
UAGCGCGGGAUGGAGCAGUUCGGUAGCUCGUCGGGCUCAUAACCCGAAGGUCGGUGGUUCAAAUCCGCCUCCCGCAAU
....((((((..((((.........)))).(((((.......))))).....(((((.......)))))))))))... ( -31.40)
>sy_ha.0 1544366 78 - 2685015/0-78
UAGCGCGGGAUGGAGCAGUUCGGUAGCUCGUCGGGCUCAUAACCCGAAGGUCGGUGGUUCAAAUCCGCCUCCCGCAAU
....((((((..((((.........)))).(((((.......))))).....(((((.......)))))))))))... ( -31.40)
>sy_sa.0 1512800 78 - 2516575/0-78
UAUCGCGGGAUGGAGCAGUUCGGUAGCUCGUCGGGCUCAUAACCCGAAGGUCGGUGGUUCAAAUCCGCCUCCCGCAAC
....((((((..((((.........)))).(((((.......))))).....(((((.......)))))))))))... ( -31.40)
>sp_ag.0 2131973 78 - 2160267/0-78
UAUCGCGGGAUGGAGCAGCUAGGUAGCUCGUCGGGCUCAUAACCCGAAGGUCGUAGGUUCAAAUCCUGCUCCCGCAAU
....((((((..((((.((...)).)))).(((((.......))))).....(((((.......)))))))))))... ( -30.40)
>sp_mu.0 2007702 78 - 2030921/0-78
UAUCGCGGGAUGGAGCAGUUAGGUAGCUCGUCGGGCUCAUAACCCGAAGGUCGUAGGUUCAAAUCCUGCUCCCGCAAU
....((((((..((((.........)))).(((((.......))))).....(((((.......)))))))))))... ( -29.80)
>sp_pn.0 1691149 78 + 2038615/0-78
UAACGCGGGAUGGAGCAGCUCGGUAGCUCGUCGGGCUCAUAACCCGAAGGUCGUAGGUUCAAAUCCUGCUCCCGCAAU
....((((((..((((.((...)).)))).(((((.......))))).....(((((.......)))))))))))... ( -30.40)
>consensus
UAUCGCGGGAUGGAGCAGUUCGGUAGCUCGUCGGGCUCAUAACCCGAAGGUCGGAGGUUCAAAUCCGCCUCCCGCAAU
....((((((..((((.........)))).(((((.......))))).....(((((.......)))))))))))... (-31.60 = -30.60 +  -1.00) 
# Strand winner: reverse (0.98)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 18:53:09 2006