Locus 43

Sequence ID sy_sapro.rRNA
Location 2,350,617 – 2,350,777
Length 160
Max. P 0.975393
window121 window122

overview

Window 1

Location 2,350,617 – 2,350,737
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 100.00
Mean single sequence MFE -54.40
Consensus MFE -54.40
Energy contribution -54.40
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.58
Structure conservation index 1.00
SVM decision value 1.75
SVM RNA-class probability 0.975393
Prediction RNA

Download alignment: ClustalW | MAF

>sy_sapro.rRNA 2350617 120 - 2516583
UUUGGCACCUCGAUGUCGGCUCAUCGCAUCCUGGGGCUGUAGUCGGUCCCAAGGGUUGGGCUGUUCGCCCAUUAAAGCGGUACGCGAGCUGGGUUCAGAACGUCGUGAGACAGUUCGGUC
......(((..((..((((((((((((((((((((((((....))))))).)))))(((((.....))))).....)))))....)))))))..)).(((((((....))).))))))). ( -54.40)
>sy_haemo.rRNA 2539506 120 + 2685023
UUUGGCACCUCGAUGUCGGCUCAUCGCAUCCUGGGGCUGUAGUCGGUCCCAAGGGUUGGGCUGUUCGCCCAUUAAAGCGGUACGCGAGCUGGGUUCAGAACGUCGUGAGACAGUUCGGUC
......(((..((..((((((((((((((((((((((((....))))))).)))))(((((.....))))).....)))))....)))))))..)).(((((((....))).))))))). ( -54.40)
>sy_aureus.rRNA 2275724 120 + 2809430
UUUGGCACCUCGAUGUCGGCUCAUCGCAUCCUGGGGCUGUAGUCGGUCCCAAGGGUUGGGCUGUUCGCCCAUUAAAGCGGUACGCGAGCUGGGUUCAGAACGUCGUGAGACAGUUCGGUC
......(((..((..((((((((((((((((((((((((....))))))).)))))(((((.....))))).....)))))....)))))))..)).(((((((....))).))))))). ( -54.40)
>consensus
UUUGGCACCUCGAUGUCGGCUCAUCGCAUCCUGGGGCUGUAGUCGGUCCCAAGGGUUGGGCUGUUCGCCCAUUAAAGCGGUACGCGAGCUGGGUUCAGAACGUCGUGAGACAGUUCGGUC
......(((..((..((((((((((((((((((((((((....))))))).)))))(((((.....))))).....)))))....)))))))..)).(((((((....))).))))))). (-54.40 = -54.40 +  -0.00) 
# Strand winner: reverse (1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 2,350,657 – 2,350,777
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 100.00
Mean single sequence MFE -50.30
Consensus MFE -50.30
Energy contribution -50.30
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.83
Structure conservation index 1.00
SVM decision value 0.77
SVM RNA-class probability 0.847189
Prediction RNA

Download alignment: ClustalW | MAF

>sy_sapro.rRNA 2350657 120 - 2516583
ACAGGCUUAUCUCCCCCAAGAGUUCACAUCGACGGGGAGGUUUGGCACCUCGAUGUCGGCUCAUCGCAUCCUGGGGCUGUAGUCGGUCCCAAGGGUUGGGCUGUUCGCCCAUUAAAGCGG
....(((.((((((((...((.......))...))))))))..))).((..((((......))))((((((((((((((....))))))).)))))(((((.....))))).....)))) ( -50.30)
>sy_haemo.rRNA 2539546 120 + 2685023
ACAGGCUUAUCUCCCCCAAGAGUUCACAUCGACGGGGAGGUUUGGCACCUCGAUGUCGGCUCAUCGCAUCCUGGGGCUGUAGUCGGUCCCAAGGGUUGGGCUGUUCGCCCAUUAAAGCGG
....(((.((((((((...((.......))...))))))))..))).((..((((......))))((((((((((((((....))))))).)))))(((((.....))))).....)))) ( -50.30)
>sy_aureus.rRNA 2275764 120 + 2809430
ACAGGCUUAUCUCCCCCAAGAGUUCACAUCGACGGGGAGGUUUGGCACCUCGAUGUCGGCUCAUCGCAUCCUGGGGCUGUAGUCGGUCCCAAGGGUUGGGCUGUUCGCCCAUUAAAGCGG
....(((.((((((((...((.......))...))))))))..))).((..((((......))))((((((((((((((....))))))).)))))(((((.....))))).....)))) ( -50.30)
>consensus
ACAGGCUUAUCUCCCCCAAGAGUUCACAUCGACGGGGAGGUUUGGCACCUCGAUGUCGGCUCAUCGCAUCCUGGGGCUGUAGUCGGUCCCAAGGGUUGGGCUGUUCGCCCAUUAAAGCGG
....(((.((((((((...((.......))...))))))))..))).((..((((......))))((((((((((((((....))))))).)))))(((((.....))))).....)))) (-50.30 = -50.30 +   0.00) 
# Strand winner: reverse (0.98)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Fri Apr 7 15:52:09 2006