Locus 45

Sequence ID sy_sa.0
Location 1,235,598 – 1,235,714
Length 116
Max. P 0.999863
window209 window210

overview

Window 9

Location 1,235,598 – 1,235,714
Length 116
Sequences 2
Columns 117
Reading direction forward
Mean pairwise identity 53.85
Mean single sequence MFE -24.65
Consensus MFE -14.30
Energy contribution -15.30
Covariance contribution 1.00
Combinations/Pair 1.17
Mean z-score -3.51
Structure conservation index 0.58
SVM decision value 4.02
SVM RNA-class probability 0.999760
Prediction RNA

Download alignment: ClustalW | MAF

>sy_sa.0 1235598 116 + 2516575/0-120
CUCCUUUUUUACAUAAAAACGCCCCAAGACACAGAAUAAGCCAAAAAGUUUAAUCUAU-AUCUUGGGACGAGUUAAUCUUUUUAAUCACAUAUGUAAUAUAUGUGUUUAUUUACUAG
...................((.(((((((.(.(((.(((((......))))).))).)-.))))))).))............(((.((((((((...)))))))).)))........ ( -24.20)
>sy_au.0 1155993 108 - 2809422/0-120
CUCUCCUCAUACAUGAAAACGCCCCAUGGAAAAUAACAGCAUAGUAAAUAUGCUUUACUUCCAUGGGACGAGUUAAUAUUUUAAAUUGUAUA---------UAAUACAAAAUAAGUU
........(((((......((.(((((((((..(((.((((((.....))))))))).))))))))).))..((((....))))..))))).---------................ ( -25.10)
>consensus
CUCCCCUCAUACAUAAAAACGCCCCAAGAAAAAGAACAACACAAAAAAUAUAAUCUAC_ACCAUGGGACGAGUUAAUAUUUUAAAUCACAUA_________UAAGACAAAAUAAGAG
...................((.((((((((..(((.(((((......))))).)))...)))))))).))............................................... (-14.30 = -15.30 +   1.00)

alignment

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secondary structure

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dotplot

Postscript

Window 0

Location 1,235,598 – 1,235,714
Length 116
Sequences 2
Columns 117
Reading direction reverse
Mean pairwise identity 53.85
Mean single sequence MFE -34.70
Consensus MFE -25.30
Energy contribution -24.05
Covariance contribution -1.25
Combinations/Pair 1.34
Mean z-score -5.07
Structure conservation index 0.73
SVM decision value 4.30
SVM RNA-class probability 0.999863
Prediction RNA

Download alignment: ClustalW | MAF

>sy_sa.0 1235598 116 + 2516575/0-120
CUAGUAAAUAAACACAUAUAUUACAUAUGUGAUUAAAAAGAUUAACUCGUCCCAAGAU-AUAGAUUAAACUUUUUGGCUUAUUCUGUGUCUUGGGGCGUUUUUAUGUAAAAAAGGAG
...((((((((.(((((((.....))))))).)))............(((((((((((-(((((.(((.((....)).))).))))))))))))))))..)))))............ ( -34.70)
>sy_au.0 1155993 108 - 2809422/0-120
AACUUAUUUUGUAUUA---------UAUACAAUUUAAAAUAUUAACUCGUCCCAUGGAAGUAAAGCAUAUUUACUAUGCUGUUAUUUUCCAUGGGGCGUUUUCAUGUAUGAGGAGAG
...(((..((((((..---------.))))))..)))........(((((((((((((((...((((((.....)))))).....)))))))))))).((((((....))))))))) ( -34.70)
>consensus
AAAGUAAAUAAAAACA_________UAUACAAUUAAAAAGAUUAACUCGUCCCAAGAA_AUAAAGCAAACUUACUAGCCUAUUAUGUGCCAUGGGGCGUUUUCAUGUAAAAAAAGAG
.............................................(((((((((((((.(((((((((.((....)).))))))))))))))))))).(((((......)))))))) (-25.30 = -24.05 +  -1.25) 
# Strand winner: reverse (0.98)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 18:53:29 2006