Locus 108

Sequence ID sy_au.0
Location 574,420 – 574,496
Length 76
Max. P 0.990095
window624 window625 window626 window627

overview

Window 4

Location 574,420 – 574,496
Length 76
Sequences 6
Columns 76
Reading direction forward
Mean pairwise identity 79.82
Mean single sequence MFE -30.45
Consensus MFE -32.86
Energy contribution -28.58
Covariance contribution -4.28
Combinations/Pair 1.46
Mean z-score -2.30
Structure conservation index 1.08
SVM decision value 2.20
SVM RNA-class probability 0.990095
Prediction RNA

Download alignment: ClustalW | MAF

>sy_au.0 574420 76 + 2809422
GGGCCUAUAGCUCAGCUGGUUAGAGCGCACGCCUGAUAAGCGUGAGGUCGGUGGUUCGAGUCCACUUAGGCCCACC
(((((((...(((((((.(((((.((....))))))).))).))))...(((((.......))))))))))))... ( -34.60)
>sy_sa.0 206744 76 - 2516575
GGGCCUAUAGCUCAGCUGGUUAGAGCGCACGCCUGAUAAGCGUGAGGUCGGUGGUUCGAGUCCACUUAGGCCCACC
(((((((...(((((((.(((((.((....))))))).))).))))...(((((.......))))))))))))... ( -34.60)
>sy_ha.0 186319 76 - 2685015
GGGCCUGUAGCUCAGCUGGUUAGAGCGCACGCCUGAUAAGCGUGAGGUCGGUGGUUCGAGUCCACUCAGGCCCACC
(((((((...(((((((.(((((.((....))))))).))).))))...(((((.......))))))))))))... ( -35.80)
>sp_mu.0 2026632 76 + 2030921
GGUCUCAUAGCUCAGCUGGAUAGAGCAUUCGCCUUCUAAGCGAACGGUCGCAGGUUCGAAUCCUGCUGGGAUCAAA
(((((((((((...))))....((.(.(((((.......))))).).))(((((.......))))))))))))... ( -25.70)
>sp_pn.0 2915 76 - 2038615
GGUCUCAUAGCUCAGCUGGAUAGAGCAUUCGCCUUCUAAGCGAACGGUCGCAGGUUCGAAUCCUGCUGGGAUCAAU
(((((((((((...))))....((.(.(((((.......))))).).))(((((.......))))))))))))... ( -25.70)
>sp_ag.0 2157242 76 + 2160267
GGUUCCAUAGCUCAGCUGGAUAGAGCAUUCGCCUUCUAAGCGAACGGUCGCAGGUUCGAAUCCUGCUGGAAUCAGA
(((((((((((...))))....((.(.(((((.......))))).).))(((((.......))))))))))))... ( -26.30)
>consensus
GGGCCCAUAGCUCAGCUGGAUAGAGCACACGCCUGAUAAGCGAAAGGUCGCAGGUUCGAAUCCACCUAGGACCACC
(((((((((((...))))....((.(.(((((.......))))).).))(((((.......))))))))))))... (-32.86 = -28.58 +  -4.28)

alignment

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secondary structure

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dotplot

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Window 5

Location 574,420 – 574,496
Length 76
Sequences 6
Columns 76
Reading direction reverse
Mean pairwise identity 79.82
Mean single sequence MFE -25.90
Consensus MFE -23.17
Energy contribution -19.95
Covariance contribution -3.22
Combinations/Pair 1.42
Mean z-score -1.54
Structure conservation index 0.89
SVM decision value 0.78
SVM RNA-class probability 0.850105
Prediction RNA

Download alignment: ClustalW | MAF

>sy_au.0 574420 76 + 2809422
GGUGGGCCUAAGUGGACUCGAACCACCGACCUCACGCUUAUCAGGCGUGCGCUCUAACCAGCUGAGCUAUAGGCCC
...(((((((.((((.......))))......((((((.....)))))).((((.........))))..))))))) ( -28.80)
>sy_sa.0 206744 76 - 2516575
GGUGGGCCUAAGUGGACUCGAACCACCGACCUCACGCUUAUCAGGCGUGCGCUCUAACCAGCUGAGCUAUAGGCCC
...(((((((.((((.......))))......((((((.....)))))).((((.........))))..))))))) ( -28.80)
>sy_ha.0 186319 76 - 2685015
GGUGGGCCUGAGUGGACUCGAACCACCGACCUCACGCUUAUCAGGCGUGCGCUCUAACCAGCUGAGCUACAGGCCC
...(((((((.((((.......))))......((((((.....)))))).((((.........))))..))))))) ( -30.60)
>sp_mu.0 2026632 76 + 2030921
UUUGAUCCCAGCAGGAUUCGAACCUGCGACCGUUCGCUUAGAAGGCGAAUGCUCUAUCCAGCUGAGCUAUGAGACC
.....((.(((((((.......)))))....(((((((.....)))))))((((.........))))..)).)).. ( -20.90)
>sp_pn.0 2915 76 - 2038615
AUUGAUCCCAGCAGGAUUCGAACCUGCGACCGUUCGCUUAGAAGGCGAAUGCUCUAUCCAGCUGAGCUAUGAGACC
.....((.(((((((.......)))))....(((((((.....)))))))((((.........))))..)).)).. ( -20.90)
>sp_ag.0 2157242 76 + 2160267
UCUGAUUCCAGCAGGAUUCGAACCUGCGACCGUUCGCUUAGAAGGCGAAUGCUCUAUCCAGCUGAGCUAUGGAACC
.....((((((((((.......)))))....(((((((.....)))))))((((.........))))..))))).. ( -25.40)
>consensus
GGUGAGCCCAACAGGACUCGAACCACCGACCGCACGCUUAGAAGGCGAACGCUCUAACCAGCUGAGCUAUAGGACC
.....(((((.((((.......))))......((((((.....)))))).((((.........))))..))))).. (-23.17 = -19.95 +  -3.22) 
# Strand winner: forward (1.00)

alignment

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secondary structure

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dotplot

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Window 6

Location 574,420 – 574,496
Length 76
Sequences 6
Columns 76
Reading direction forward
Mean pairwise identity 79.82
Mean single sequence MFE -30.45
Consensus MFE -32.86
Energy contribution -28.58
Covariance contribution -4.28
Combinations/Pair 1.46
Mean z-score -2.30
Structure conservation index 1.08
SVM decision value 2.20
SVM RNA-class probability 0.990095
Prediction RNA

Download alignment: ClustalW | MAF

>sy_au.0 574420 76 + 2809422/0-76
GGGCCUAUAGCUCAGCUGGUUAGAGCGCACGCCUGAUAAGCGUGAGGUCGGUGGUUCGAGUCCACUUAGGCCCACC
(((((((...(((((((.(((((.((....))))))).))).))))...(((((.......))))))))))))... ( -34.60)
>sy_sa.0 206744 76 - 2516575/0-76
GGGCCUAUAGCUCAGCUGGUUAGAGCGCACGCCUGAUAAGCGUGAGGUCGGUGGUUCGAGUCCACUUAGGCCCACC
(((((((...(((((((.(((((.((....))))))).))).))))...(((((.......))))))))))))... ( -34.60)
>sy_ha.0 186319 76 - 2685015/0-76
GGGCCUGUAGCUCAGCUGGUUAGAGCGCACGCCUGAUAAGCGUGAGGUCGGUGGUUCGAGUCCACUCAGGCCCACC
(((((((...(((((((.(((((.((....))))))).))).))))...(((((.......))))))))))))... ( -35.80)
>sp_mu.0 2026632 76 + 2030921/0-76
GGUCUCAUAGCUCAGCUGGAUAGAGCAUUCGCCUUCUAAGCGAACGGUCGCAGGUUCGAAUCCUGCUGGGAUCAAA
(((((((((((...))))....((.(.(((((.......))))).).))(((((.......))))))))))))... ( -25.70)
>sp_pn.0 2915 76 - 2038615/0-76
GGUCUCAUAGCUCAGCUGGAUAGAGCAUUCGCCUUCUAAGCGAACGGUCGCAGGUUCGAAUCCUGCUGGGAUCAAU
(((((((((((...))))....((.(.(((((.......))))).).))(((((.......))))))))))))... ( -25.70)
>sp_ag.0 2157242 76 + 2160267/0-76
GGUUCCAUAGCUCAGCUGGAUAGAGCAUUCGCCUUCUAAGCGAACGGUCGCAGGUUCGAAUCCUGCUGGAAUCAGA
(((((((((((...))))....((.(.(((((.......))))).).))(((((.......))))))))))))... ( -26.30)
>consensus
GGGCCCAUAGCUCAGCUGGAUAGAGCACACGCCUGAUAAGCGAAAGGUCGCAGGUUCGAAUCCACCUAGGACCACC
(((((((((((...))))....((.(.(((((.......))))).).))(((((.......))))))))))))... (-32.86 = -28.58 +  -4.28)

alignment

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secondary structure

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dotplot

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Window 7

Location 574,420 – 574,496
Length 76
Sequences 6
Columns 76
Reading direction reverse
Mean pairwise identity 79.82
Mean single sequence MFE -25.90
Consensus MFE -23.17
Energy contribution -19.95
Covariance contribution -3.22
Combinations/Pair 1.42
Mean z-score -1.54
Structure conservation index 0.89
SVM decision value 0.78
SVM RNA-class probability 0.850105
Prediction RNA

Download alignment: ClustalW | MAF

>sy_au.0 574420 76 + 2809422/0-76
GGUGGGCCUAAGUGGACUCGAACCACCGACCUCACGCUUAUCAGGCGUGCGCUCUAACCAGCUGAGCUAUAGGCCC
...(((((((.((((.......))))......((((((.....)))))).((((.........))))..))))))) ( -28.80)
>sy_sa.0 206744 76 - 2516575/0-76
GGUGGGCCUAAGUGGACUCGAACCACCGACCUCACGCUUAUCAGGCGUGCGCUCUAACCAGCUGAGCUAUAGGCCC
...(((((((.((((.......))))......((((((.....)))))).((((.........))))..))))))) ( -28.80)
>sy_ha.0 186319 76 - 2685015/0-76
GGUGGGCCUGAGUGGACUCGAACCACCGACCUCACGCUUAUCAGGCGUGCGCUCUAACCAGCUGAGCUACAGGCCC
...(((((((.((((.......))))......((((((.....)))))).((((.........))))..))))))) ( -30.60)
>sp_mu.0 2026632 76 + 2030921/0-76
UUUGAUCCCAGCAGGAUUCGAACCUGCGACCGUUCGCUUAGAAGGCGAAUGCUCUAUCCAGCUGAGCUAUGAGACC
.....((.(((((((.......)))))....(((((((.....)))))))((((.........))))..)).)).. ( -20.90)
>sp_pn.0 2915 76 - 2038615/0-76
AUUGAUCCCAGCAGGAUUCGAACCUGCGACCGUUCGCUUAGAAGGCGAAUGCUCUAUCCAGCUGAGCUAUGAGACC
.....((.(((((((.......)))))....(((((((.....)))))))((((.........))))..)).)).. ( -20.90)
>sp_ag.0 2157242 76 + 2160267/0-76
UCUGAUUCCAGCAGGAUUCGAACCUGCGACCGUUCGCUUAGAAGGCGAAUGCUCUAUCCAGCUGAGCUAUGGAACC
.....((((((((((.......)))))....(((((((.....)))))))((((.........))))..))))).. ( -25.40)
>consensus
GGUGAGCCCAACAGGACUCGAACCACCGACCGCACGCUUAGAAGGCGAACGCUCUAACCAGCUGAGCUAUAGGACC
.....(((((.((((.......))))......((((((.....)))))).((((.........))))..))))).. (-23.17 = -19.95 +  -3.22) 
# Strand winner: forward (1.00)

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 18:59:15 2006