Locus 38

Sequence ID sy_sapro.rRNA
Location 747,677 – 747,997
Length 320
Max. P 0.999388
window91 window92 window93 window94 window95 window96 window97 window98

overview

Window 1

Location 747,677 – 747,797
Length 120
Sequences 2
Columns 120
Reading direction forward
Mean pairwise identity 94.17
Mean single sequence MFE -47.60
Consensus MFE -45.85
Energy contribution -46.85
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -2.91
Structure conservation index 0.96
SVM decision value 2.96
SVM RNA-class probability 0.997931
Prediction RNA

Download alignment: ClustalW | MAF

>sy_sapro.rRNA 747677 120 + 2516583
GAAAUUCGGCACAGCUUGUACAGGAUAGGUAGGAGCCUGAGAUACGUGAGCGCUAGCUUACGUGGAGGCGUUGGUGGGAUACUACCCUCGCUGUGUUGGAUUUCUAACCCGCACCAUUUA
(((((((((((((((((.(((.......))).))((((....(((((((((....))))))))).))))(..(((((....)))))..))))))))))))))))................ ( -49.70)
>sy_haemo.rRNA 883847 120 + 2685023
GAAAUUCGGCACAGCUUGUACAGGAUAGGUAGGAGCCUUUGAAACGUGAGCGCUAGCUUACGUGGAGGCGCUGGUGGGAUACUACCCUAGCUGUGUUGGCUUUCUAACCCGCACCACUUA
((((..((((((((((.(.............((.(((((....((((((((....)))))))).))))).))(((((....)))))).))))))))))..))))................ ( -45.50)
>consensus
GAAAUUCGGCACAGCUUGUACAGGAUAGGUAGGAGCCUGAGAAACGUGAGCGCUAGCUUACGUGGAGGCGCUGGUGGGAUACUACCCUAGCUGUGUUGGAUUUCUAACCCGCACCACUUA
(((((((((((((((((.(((.......))).))((((....(((((((((....))))))))).))))...(((((....)))))...)))))))))))))))................ (-45.85 = -46.85 +   1.00)

alignment

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secondary structure

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dotplot

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Window 2

Location 747,717 – 747,837
Length 120
Sequences 2
Columns 120
Reading direction forward
Mean pairwise identity 93.33
Mean single sequence MFE -46.95
Consensus MFE -44.90
Energy contribution -43.90
Covariance contribution -1.00
Combinations/Pair 1.08
Mean z-score -1.78
Structure conservation index 0.96
SVM decision value 0.91
SVM RNA-class probability 0.879567
Prediction RNA

Download alignment: ClustalW | MAF

>sy_sapro.rRNA 747717 120 + 2516583
GAUACGUGAGCGCUAGCUUACGUGGAGGCGUUGGUGGGAUACUACCCUCGCUGUGUUGGAUUUCUAACCCGCACCAUUUAUCAUGGUGGGAGACAGUGUCAGAUGGGCAGUUUGACUGGG
..(((((((((....)))))))))..((((..(((((....)))))..))))..(((((....)))))((.((((((.....))))))(....)...(((((((.....))))))).)). ( -46.20)
>sy_haemo.rRNA 883887 120 + 2685023
GAAACGUGAGCGCUAGCUUACGUGGAGGCGCUGGUGGGAUACUACCCUAGCUGUGUUGGCUUUCUAACCCGCACCACUUAUCGUGGUGGGAGACAGUGUCAGGCGGGCAGUUUGACUGGG
...((((((((....))))))))(((((((((((.((.......))))))).......))))))...(((.((((((.....))))))(....)...(((((((.....))))))).))) ( -47.71)
>consensus
GAAACGUGAGCGCUAGCUUACGUGGAGGCGCUGGUGGGAUACUACCCUAGCUGUGUUGGAUUUCUAACCCGCACCACUUAUCAUGGUGGGAGACAGUGUCAGACGGGCAGUUUGACUGGG
...((((((((....)))))))).........(((((....)))))...((((((((((....)))))((.((((((.....))))))))..)))))(((((((.....))))))).... (-44.90 = -43.90 +  -1.00)

alignment

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secondary structure

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dotplot

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Window 3

Location 747,717 – 747,837
Length 120
Sequences 2
Columns 120
Reading direction reverse
Mean pairwise identity 93.33
Mean single sequence MFE -34.10
Consensus MFE -33.00
Energy contribution -32.50
Covariance contribution -0.50
Combinations/Pair 1.03
Mean z-score -1.53
Structure conservation index 0.97
SVM decision value 0.52
SVM RNA-class probability 0.766133
Prediction RNA

Download alignment: ClustalW | MAF

>sy_sapro.rRNA 747717 120 - 2516583
CCCAGUCAAACUGCCCAUCUGACACUGUCUCCCACCAUGAUAAAUGGUGCGGGUUAGAAAUCCAACACAGCGAGGGUAGUAUCCCACCAACGCCUCCACGUAAGCUAGCGCUCACGUAUC
.........(((((((.((((((.(((.....((((((.....)))))))))))))))..(((......).))))))))).................((((.(((....))).))))... ( -32.90)
>sy_haemo.rRNA 883887 120 - 2685023
CCCAGUCAAACUGCCCGCCUGACACUGUCUCCCACCACGAUAAGUGGUGCGGGUUAGAAAGCCAACACAGCUAGGGUAGUAUCCCACCAGCGCCUCCACGUAAGCUAGCGCUCACGUUUC
.........(((((((..(((((.(((.....((((((.....))))))))))))))..(((.......))).)))))))........(((((.....(....)...)))))........ ( -35.30)
>consensus
CCCAGUCAAACUGCCCACCUGACACUGUCUCCCACCACGAUAAAUGGUGCGGGUUAGAAAGCCAACACAGCGAGGGUAGUAUCCCACCAACGCCUCCACGUAAGCUAGCGCUCACGUAUC
.........(((((((..(((.........((((((((.....)))))).))(((.(....).))).)))...))))))).................((((.(((....))).))))... (-33.00 = -32.50 +  -0.50) 
# Strand winner: forward (1.00)

alignment

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secondary structure

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dotplot

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Window 4

Location 747,757 – 747,877
Length 120
Sequences 2
Columns 120
Reading direction forward
Mean pairwise identity 93.33
Mean single sequence MFE -46.35
Consensus MFE -46.85
Energy contribution -45.85
Covariance contribution -1.00
Combinations/Pair 1.08
Mean z-score -1.76
Structure conservation index 1.01
SVM decision value 1.62
SVM RNA-class probability 0.968270
Prediction RNA

Download alignment: ClustalW | MAF

>sy_sapro.rRNA 747757 120 + 2516583
ACUACCCUCGCUGUGUUGGAUUUCUAACCCGCACCAUUUAUCAUGGUGGGAGACAGUGUCAGAUGGGCAGUUUGACUGGGGCGGUCGCCUCCUAAAGAGUAACGGAGGCGCUCAAAGGUU
((..((((.((((((((((....)))))((.((((((.....))))))))..)))))(((((((.....))))))).))))..))(((((((...........))))))).......... ( -44.30)
>sy_haemo.rRNA 883927 120 + 2685023
ACUACCCUAGCUGUGUUGGCUUUCUAACCCGCACCACUUAUCGUGGUGGGAGACAGUGUCAGGCGGGCAGUUUGACUGGGGCGGUCGCCUCCUAAAAGGUAACGGAGGCGCUCAAAGGUU
((..(((((((((((((((....)))))((.((((((.....))))))))..)))))(((((((.....))))))))))))..))(((((((...........))))))).......... ( -48.40)
>consensus
ACUACCCUAGCUGUGUUGGAUUUCUAACCCGCACCACUUAUCAUGGUGGGAGACAGUGUCAGACGGGCAGUUUGACUGGGGCGGUCGCCUCCUAAAAAGUAACGGAGGCGCUCAAAGGUU
((..((((.((((((((((....)))))((.((((((.....))))))))..)))))(((((((.....))))))).))))..))(((((((...........))))))).......... (-46.85 = -45.85 +  -1.00)

alignment

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secondary structure

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dotplot

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Window 5

Location 747,757 – 747,877
Length 120
Sequences 2
Columns 120
Reading direction reverse
Mean pairwise identity 93.33
Mean single sequence MFE -41.10
Consensus MFE -40.10
Energy contribution -39.60
Covariance contribution -0.50
Combinations/Pair 1.03
Mean z-score -2.01
Structure conservation index 0.98
SVM decision value 1.68
SVM RNA-class probability 0.971625
Prediction RNA

Download alignment: ClustalW | MAF

>sy_sapro.rRNA 747757 120 - 2516583
AACCUUUGAGCGCCUCCGUUACUCUUUAGGAGGCGACCGCCCCAGUCAAACUGCCCAUCUGACACUGUCUCCCACCAUGAUAAAUGGUGCGGGUUAGAAAUCCAACACAGCGAGGGUAGU
.......(..(((((((...........)))))))..)...........(((((((.((((((.(((.....((((((.....)))))))))))))))..(((......).))))))))) ( -39.70)
>sy_haemo.rRNA 883927 120 - 2685023
AACCUUUGAGCGCCUCCGUUACCUUUUAGGAGGCGACCGCCCCAGUCAAACUGCCCGCCUGACACUGUCUCCCACCACGAUAAGUGGUGCGGGUUAGAAAGCCAACACAGCUAGGGUAGU
.......(..(((((((...........)))))))..)...........(((((((..(((((.(((.....((((((.....))))))))))))))..(((.......))).))))))) ( -42.50)
>consensus
AACCUUUGAGCGCCUCCGUUACCCUUUAGGAGGCGACCGCCCCAGUCAAACUGCCCACCUGACACUGUCUCCCACCACGAUAAAUGGUGCGGGUUAGAAAGCCAACACAGCGAGGGUAGU
.......(..(((((((...........)))))))..)...........(((((((..(((.........((((((((.....)))))).))(((.(....).))).)))...))))))) (-40.10 = -39.60 +  -0.50) 
# Strand winner: forward (0.99)

alignment

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secondary structure

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dotplot

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Window 6

Location 747,837 – 747,957
Length 120
Sequences 2
Columns 120
Reading direction forward
Mean pairwise identity 95.83
Mean single sequence MFE -44.10
Consensus MFE -44.35
Energy contribution -43.85
Covariance contribution -0.50
Combinations/Pair 1.03
Mean z-score -3.31
Structure conservation index 1.01
SVM decision value 3.56
SVM RNA-class probability 0.999388
Prediction RNA

Download alignment: ClustalW | MAF

>sy_sapro.rRNA 747837 120 + 2516583
GCGGUCGCCUCCUAAAGAGUAACGGAGGCGCUCAAAGGUUUCCUCAGAAUGGUUGGAAAUCAUUCAUAGAGUGUAAAGGCAUAAGGAAGCUUGACUGCGAGACUUACAAGUCGAGCAGGG
..(..(((((((...........)))))))..)..(((((((((..(((((((.....))))))).....((((....)))).)))))))))..((((..((((....))))..)))).. ( -43.50)
>sy_haemo.rRNA 884007 120 + 2685023
GCGGUCGCCUCCUAAAAGGUAACGGAGGCGCUCAAAGGUUCCCUCAGAAUGGUUGGAAAUCAUUCAUAGAGUGUAAAGGCAUAAGGGAGCUUGACUGCGAGACCUACAAGUCGAGCAGGG
..(..(((((((...........)))))))..)..(((((((((..(((((((.....))))))).....((((....)))).)))))))))..((((..(((......)))..)))).. ( -44.70)
>consensus
GCGGUCGCCUCCUAAAAAGUAACGGAGGCGCUCAAAGGUUCCCUCAGAAUGGUUGGAAAUCAUUCAUAGAGUGUAAAGGCAUAAGGAAGCUUGACUGCGAGACCUACAAGUCGAGCAGGG
..(..(((((((...........)))))))..)..(((((((((..(((((((.....))))))).....((((....)))).)))))))))..((((..(((......)))..)))).. (-44.35 = -43.85 +  -0.50)

alignment

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secondary structure

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dotplot

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Window 7

Location 747,837 – 747,957
Length 120
Sequences 2
Columns 120
Reading direction reverse
Mean pairwise identity 95.83
Mean single sequence MFE -34.12
Consensus MFE -34.30
Energy contribution -33.55
Covariance contribution -0.75
Combinations/Pair 1.06
Mean z-score -2.15
Structure conservation index 1.01
SVM decision value 2.08
SVM RNA-class probability 0.987573
Prediction RNA

Download alignment: ClustalW | MAF

>sy_sapro.rRNA 747837 120 - 2516583
CCCUGCUCGACUUGUAAGUCUCGCAGUCAAGCUUCCUUAUGCCUUUACACUCUAUGAAUGAUUUCCAACCAUUCUGAGGAAACCUUUGAGCGCCUCCGUUACUCUUUAGGAGGCGACCGC
..((((..((((....))))..))))(((((.(((((((((......))......(((((.........))))))))))))...))))).(((((((...........)))))))..... ( -32.20)
>sy_haemo.rRNA 884007 120 - 2685023
CCCUGCUCGACUUGUAGGUCUCGCAGUCAAGCUCCCUUAUGCCUUUACACUCUAUGAAUGAUUUCCAACCAUUCUGAGGGAACCUUUGAGCGCCUCCGUUACCUUUUAGGAGGCGACCGC
.(((((.......)))))....((.(((..((((.......((((((........(((((.........))))))))))).......))))((((((...........))))))))).)) ( -36.04)
>consensus
CCCUGCUCGACUUGUAAGUCUCGCAGUCAAGCUCCCUUAUGCCUUUACACUCUAUGAAUGAUUUCCAACCAUUCUGAGGAAACCUUUGAGCGCCUCCGUUACCCUUUAGGAGGCGACCGC
..((((..((((....))))..))))(((((.(((((((((......))......(((((.........))))))))))))...))))).(((((((...........)))))))..... (-34.30 = -33.55 +  -0.75) 
# Strand winner: forward (1.00)

alignment

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secondary structure

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dotplot

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Window 8

Location 747,877 – 747,997
Length 120
Sequences 2
Columns 120
Reading direction forward
Mean pairwise identity 97.50
Mean single sequence MFE -36.70
Consensus MFE -36.85
Energy contribution -36.35
Covariance contribution -0.50
Combinations/Pair 1.03
Mean z-score -1.55
Structure conservation index 1.00
SVM decision value 0.73
SVM RNA-class probability 0.834651
Prediction RNA

Download alignment: ClustalW | MAF

>sy_sapro.rRNA 747877 120 + 2516583
UCCUCAGAAUGGUUGGAAAUCAUUCAUAGAGUGUAAAGGCAUAAGGAAGCUUGACUGCGAGACUUACAAGUCGAGCAGGGUCGAAAGACGGACUUAGUGAUCCGGUGGUUCCGCAUGGAA
(((.(.((((.(..(((......((((.((((.(..((((........))))..((((..((((....))))..)))).(((....)))).)))).)))))))..).)))).)...))). ( -36.20)
>sy_haemo.rRNA 884047 120 + 2685023
CCCUCAGAAUGGUUGGAAAUCAUUCAUAGAGUGUAAAGGCAUAAGGGAGCUUGACUGCGAGACCUACAAGUCGAGCAGGGUCGAAAGACGGACUUAGUGAUCCGGUGGUUCCGCAUGGAA
((((..(((((((.....))))))).....((((....)))).)))).((((((((............))))))))...(((....)))...........(((((((....))).)))). ( -37.20)
>consensus
CCCUCAGAAUGGUUGGAAAUCAUUCAUAGAGUGUAAAGGCAUAAGGAAGCUUGACUGCGAGACCUACAAGUCGAGCAGGGUCGAAAGACGGACUUAGUGAUCCGGUGGUUCCGCAUGGAA
((((..(((((((.....))))))).....((((....)))).)))).((((((((............))))))))...(((....)))...........(((((((....))).)))). (-36.85 = -36.35 +  -0.50)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Fri Apr 7 15:51:48 2006