Locus 53

Sequence ID pao.411
Location 726,168 – 726,528
Length 360
Max. P 0.927040
window280 window281 window282 window283 window284

overview

Window 0

Location 726,168 – 726,288
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 94.86
Mean single sequence MFE -43.27
Consensus MFE -43.55
Energy contribution -43.92
Covariance contribution 0.38
Combinations/Pair 1.08
Mean z-score -1.78
Structure conservation index 1.01
SVM decision value 1.18
SVM RNA-class probability 0.927040
Prediction RNA

Download alignment: ClustalW | MAF

>pao.411 726168 120 + 6264404
GUAGCUUUGCACUGGACUUUGAGCCUGCUUGUGUAGGAUAGGUGGGAGGCUUUGAAGCGUGGACGCCAGUUCGCGUGGAGCCAUCCUUGAAAUACCACCCUGGCAUGCUUGAGGUUCUAA
.............((((((..(((.((((.(.((.((.((...(((((((((....((((((((....)))))))).))))).)))).....)))))).).)))).)))..))))))... ( -45.80)
>pau.2632 1584543 120 - 6537648
GUAGCUUUGCACUGGACUUUGAGCCUGCUUGUGUAGGAUAGGUGGGAGGCUUUGAAGCGUGGACGCCAGUUCGCGUGGAGCCAUCCUUGAAAUACCACCCUGGCAUGCUUGAGGUUCUAA
.............((((((..(((.((((.(.((.((.((...(((((((((....((((((((....)))))))).))))).)))).....)))))).).)))).)))..))))))... ( -45.80)
>pss.496 968841 120 + 6093698
AUAGCUUUGCACUGGACUUUGAAUUUGCUUGUGUAGGAUAGGUGGGAGGCUUUGAAGCGUGGACGCCAGUCUGCGUGGAGCCAACCUUGAAAUACCACCCUGGCAACUUUGAGGUUCUAA
.............((((((..((.(((((.(((((....((((....(((((....(((..(((....)))..))).))))).)))).....)).)))...))))).))..))))))... ( -40.00)
>pfo.1282 2553640 120 + 6438405
AUAGCUUUGCACUGGACUUUGAAUUUGCUUGUGUAGGAUAGGUGGGAGGCUUUGAAGCGUGGACGCCAGUUCGCGUGGAGCCAUCCUUGAAAUACCACCCUGGCAACUUUGAGGUUCUAA
.............((((((..((.(((((.(.((.((.((...(((((((((....((((((((....)))))))).))))).)))).....)))))).).))))).))..))))))... ( -41.50)
>consensus
AUAGCUUUGCACUGGACUUUGAACCUGCUUGUGUAGGAUAGGUGGGAGGCUUUGAAGCGUGGACGCCAGUUCGCGUGGAGCCAUCCUUGAAAUACCACCCUGGCAACCUUGAGGUUCUAA
.............((((((..((((((((.(.((.((.((...(((((((((....((((((((....)))))))).))))).)))).....)))))).).))))))))..))))))... (-43.55 = -43.92 +   0.38)

alignment

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secondary structure

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dotplot

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Window 1

Location 726,208 – 726,328
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 95.42
Mean single sequence MFE -46.33
Consensus MFE -42.97
Energy contribution -43.10
Covariance contribution 0.13
Combinations/Pair 1.08
Mean z-score -1.39
Structure conservation index 0.93
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>pao.411 726208 120 + 6264404
GGUGGGAGGCUUUGAAGCGUGGACGCCAGUUCGCGUGGAGCCAUCCUUGAAAUACCACCCUGGCAUGCUUGAGGUUCUAACUCUGGUCCGUAAUCCGGAUCGAGGACAGUGUAUGGUGGG
...(((((((((....((((((((....)))))))).))))).)))).......(((((...((((.((((((.......)))(((((((.....))))))))))...))))..))))). ( -47.50)
>pau.2632 1584583 119 - 6537648
GGUGGGAGGCUUUGAAGCGUGGACGCCAGUUCGCGUGGAGCCAUCCUUGAAAUACCACCCUGGCAUGCUUGAGGUUCUAACUCUGGUCCGUGAUCCGGAUCGAGGACAGUGUAU-GUGGG
((((((((((((....((((((((....)))))))).))))).))))......))).(((..((((((.....(((((...(((((........)))))...)))))...))))-))))) ( -46.20)
>pss.496 968881 120 + 6093698
GGUGGGAGGCUUUGAAGCGUGGACGCCAGUCUGCGUGGAGCCAACCUUGAAAUACCACCCUGGCAACUUUGAGGUUCUAACUCAGGUCCGUUAUCCGGAUCGAGGACAGUGUAUGGUGGG
...((..(((((....(((..(((....)))..))).)))))..))........(((((...(((.(((((((.......))))((((((.....))))))))).....)))..))))). ( -45.30)
>pfo.1282 2553680 120 + 6438405
GGUGGGAGGCUUUGAAGCGUGGACGCCAGUUCGCGUGGAGCCAUCCUUGAAAUACCACCCUGGCAACUUUGAGGUUCUAACUCAGGUCCGUUAUCCGGAUCGAGGACAGUGUAUGGUGGG
...(((((((((....((((((((....)))))))).))))).)))).......(((((...(((.(((((((.......))))((((((.....))))))))).....)))..))))). ( -46.30)
>consensus
GGUGGGAGGCUUUGAAGCGUGGACGCCAGUUCGCGUGGAGCCAUCCUUGAAAUACCACCCUGGCAACCUUGAGGUUCUAACUCAGGUCCGUUAUCCGGAUCGAGGACAGUGUAUGGUGGG
...((..(((((....((((((((....)))))))).)))))..))........(((((...(((.(((((((.......))).((((((.....))))))))))....)))..))))). (-42.97 = -43.10 +   0.13)

alignment

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secondary structure

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dotplot

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Window 2

Location 726,328 – 726,448
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 94.72
Mean single sequence MFE -42.07
Consensus MFE -37.78
Energy contribution -38.65
Covariance contribution 0.87
Combinations/Pair 1.06
Mean z-score -1.96
Structure conservation index 0.90
SVM decision value 0.97
SVM RNA-class probability 0.891573
Prediction RNA

Download alignment: ClustalW | MAF

>pao.411 726328 120 + 6264404
CAGUUUGACUGGGGCGGUCUCCUCCUAAAGAGUAACGGAGGAGUACGAAGGUGCGCUCAGACCGGUCGGAAAUCGGUCGCAGAGUAUAAAGGCAAAAGCGCGCUUGACUGCGAGACAGAC
..(((((.((...((((((((((((...........))))))......(((((((((..(((((((.....)))))))((...........))...))))))))))))))).)).))))) ( -44.70)
>pau.2632 1584702 114 - 6537648
CAG-UUGANUGGGGCG---UCUCUCUAA--AGUAACGGAGGAGUACGAAGGUGCGCUCAGACCGGUCGGAAAUCGGUCGCAGAGUAUAAAGGCAAAAGCGCGCUUGACUGCGAGACAGAC
...-...........(---(((((((..--......)))(.(((....(((((((((..(((((((.....)))))))((...........))...))))))))).))).)))))).... ( -35.40)
>pss.496 969001 120 + 6093698
UAGUUUGACUGGGGCGGUCUCCUCCUAAAGAGUAACGGAGGAGUACGAAGGUGCGCUCAGACCGGUCGGAAAUCGGUCGUAGAGUAUAAAGGCAAAAGCGCGCUUGACUGCGAGACAGAC
..(((((.((...((((((((((((...........))))))......(((((((((..(((((((.....))))))).....((......))...))))))))))))))).)).))))) ( -44.10)
>pfo.1282 2553800 120 + 6438405
UAGUUUGACUGGGGCGGUCUCCUCCUAAAGAGUAACGGAGGAGUACGAAGGUGCGCUCAGACCGGUCGGAAAUCGGUCGUAGAGUAUAAAGGCAAAAGCGCGCUUGACUGCGAGACAGAC
..(((((.((...((((((((((((...........))))))......(((((((((..(((((((.....))))))).....((......))...))))))))))))))).)).))))) ( -44.10)
>consensus
CAGUUUGACUGGGGCGGUCUCCUCCUAAAGAGUAACGGAGGAGUACGAAGGUGCGCUCAGACCGGUCGGAAAUCGGUCGCAGAGUAUAAAGGCAAAAGCGCGCUUGACUGCGAGACAGAC
........(((..((((((((((((...........))))))......(((((((((..(((((((.....))))))).....((......))...)))))))))))))))....))).. (-37.78 = -38.65 +   0.87)

alignment

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secondary structure

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dotplot

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Window 3

Location 726,368 – 726,488
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 99.44
Mean single sequence MFE -41.50
Consensus MFE -41.20
Energy contribution -41.20
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.94
Structure conservation index 0.99
SVM decision value 0.34
SVM RNA-class probability 0.693960
Prediction RNA

Download alignment: ClustalW | MAF

>pao.411 726368 120 + 6264404
GAGUACGAAGGUGCGCUCAGACCGGUCGGAAAUCGGUCGCAGAGUAUAAAGGCAAAAGCGCGCUUGACUGCGAGACAGACACGUCGAGCAGGUACGAAAGUAGGUCUUAGUGAUCCGGUG
..((((..(((((((((..(((((((.....)))))))((...........))...)))))))))..((((..(((......)))..)))))))).......((((.....))))..... ( -41.80)
>pau.2632 1584736 120 - 6537648
GAGUACGAAGGUGCGCUCAGACCGGUCGGAAAUCGGUCGCAGAGUAUAAAGGCAAAAGCGCGCUUGACUGCGAGACAGACACGUCGAGCAGGUACGAAAGUAGGUCUUAGUGAUCCGGUG
..((((..(((((((((..(((((((.....)))))))((...........))...)))))))))..((((..(((......)))..)))))))).......((((.....))))..... ( -41.80)
>pss.496 969041 120 + 6093698
GAGUACGAAGGUGCGCUCAGACCGGUCGGAAAUCGGUCGUAGAGUAUAAAGGCAAAAGCGCGCUUGACUGCGAGACAGACACGUCGAGCAGGUACGAAAGUAGGUCUUAGUGAUCCGGUG
..((((..(((((((((..(((((((.....))))))).....((......))...)))))))))..((((..(((......)))..)))))))).......((((.....))))..... ( -41.20)
>pfo.1282 2553840 120 + 6438405
GAGUACGAAGGUGCGCUCAGACCGGUCGGAAAUCGGUCGUAGAGUAUAAAGGCAAAAGCGCGCUUGACUGCGAGACAGACACGUCGAGCAGGUACGAAAGUAGGUCUUAGUGAUCCGGUG
..((((..(((((((((..(((((((.....))))))).....((......))...)))))))))..((((..(((......)))..)))))))).......((((.....))))..... ( -41.20)
>consensus
GAGUACGAAGGUGCGCUCAGACCGGUCGGAAAUCGGUCGCAGAGUAUAAAGGCAAAAGCGCGCUUGACUGCGAGACAGACACGUCGAGCAGGUACGAAAGUAGGUCUUAGUGAUCCGGUG
..((((..(((((((((..(((((((.....))))))).....((......))...)))))))))..((((..(((......)))..)))))))).......((((.....))))..... (-41.20 = -41.20 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 4

Location 726,408 – 726,528
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 100.00
Mean single sequence MFE -37.00
Consensus MFE -37.00
Energy contribution -37.00
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.86
Structure conservation index 1.00
SVM decision value 0.07
SVM RNA-class probability 0.566320
Prediction RNA

Download alignment: ClustalW | MAF

>pao.411 726408 120 + 6264404
AGAGUAUAAAGGCAAAAGCGCGCUUGACUGCGAGACAGACACGUCGAGCAGGUACGAAAGUAGGUCUUAGUGAUCCGGUGGUUCUGUAUGGAAGGGCCAUCGCUCAACGGAUAAAAGGUA
.((((...(((((........((((((((((......).)).)))))))...(((....))).)))))........(((((((((.......)))))))))))))............... ( -37.00)
>pau.2632 1584776 120 - 6537648
AGAGUAUAAAGGCAAAAGCGCGCUUGACUGCGAGACAGACACGUCGAGCAGGUACGAAAGUAGGUCUUAGUGAUCCGGUGGUUCUGUAUGGAAGGGCCAUCGCUCAACGGAUAAAAGGUA
.((((...(((((........((((((((((......).)).)))))))...(((....))).)))))........(((((((((.......)))))))))))))............... ( -37.00)
>pss.496 969081 120 + 6093698
AGAGUAUAAAGGCAAAAGCGCGCUUGACUGCGAGACAGACACGUCGAGCAGGUACGAAAGUAGGUCUUAGUGAUCCGGUGGUUCUGUAUGGAAGGGCCAUCGCUCAACGGAUAAAAGGUA
.((((...(((((........((((((((((......).)).)))))))...(((....))).)))))........(((((((((.......)))))))))))))............... ( -37.00)
>pfo.1282 2553880 120 + 6438405
AGAGUAUAAAGGCAAAAGCGCGCUUGACUGCGAGACAGACACGUCGAGCAGGUACGAAAGUAGGUCUUAGUGAUCCGGUGGUUCUGUAUGGAAGGGCCAUCGCUCAACGGAUAAAAGGUA
.((((...(((((........((((((((((......).)).)))))))...(((....))).)))))........(((((((((.......)))))))))))))............... ( -37.00)
>consensus
AGAGUAUAAAGGCAAAAGCGCGCUUGACUGCGAGACAGACACGUCGAGCAGGUACGAAAGUAGGUCUUAGUGAUCCGGUGGUUCUGUAUGGAAGGGCCAUCGCUCAACGGAUAAAAGGUA
.((((...(((((........((((((((((......).)).)))))))...(((....))).)))))........(((((((((.......)))))))))))))............... (-37.00 = -37.00 +   0.00)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 21:08:23 2007