Locus 33

Sequence ID sy_sa.0
Location 1,046,773 – 1,046,859
Length 86
Max. P 0.999685
window173 window174 window175 window176

overview

Window 3

Location 1,046,773 – 1,046,859
Length 86
Sequences 3
Columns 86
Reading direction forward
Mean pairwise identity 78.68
Mean single sequence MFE -22.30
Consensus MFE -17.44
Energy contribution -18.67
Covariance contribution 1.22
Combinations/Pair 1.05
Mean z-score -3.36
Structure conservation index 0.78
SVM decision value 3.72
SVM RNA-class probability 0.999559
Prediction RNA

Download alignment: ClustalW | MAF

>sy_sa.0 1046773 86 + 2516575
UAAAAAAUUUGCUAUAGAAAAUGAUUAUAUAUGGCUCUCGAAAAAUGUUUUUCAGGAGCCAUUUUCUAAUUGAAAGUGAGGUGAAC
.......((..((...................(((((..(((((....)))))..)))))((((((.....))))))..))..)). ( -20.00)
>sy_ha.0 1194877 86 + 2685015
CCAACAAAUGAUUAUAAUAAAUUAGAAUAUAUGGCUCUUGAAAACUAUAUUUCUCGAGCCAUUUUCUAAUUGAAAGUGAGGUGAAC
....((.....((((....((((((((...(((((((..((((......))))..))))))).))))))))....))))..))... ( -21.80)
>sy_au.0 962051 86 - 2809422
GUACCAGUAUGGUGUUAUAAAUUAGAAUAUAUGGCUCUUGAAAAACCUAUUUCUAGAGCCAUUUUCUAAUUGAAAGUGAGGUGGAC
.((((.(((......))).((((((((...((((((((.((((......)))).)))))))).))))))))........))))... ( -25.10)
>consensus
CAAACAAUUUGCUAUAAUAAAUUAGAAUAUAUGGCUCUUGAAAAAUAUAUUUCUAGAGCCAUUUUCUAAUUGAAAGUGAGGUGAAC
...................((((((((...((((((((.((((......)))).)))))))).))))))))............... (-17.44 = -18.67 +   1.22)

alignment

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secondary structure

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dotplot

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Window 4

Location 1,046,773 – 1,046,859
Length 86
Sequences 3
Columns 86
Reading direction reverse
Mean pairwise identity 78.68
Mean single sequence MFE -19.60
Consensus MFE -15.13
Energy contribution -16.13
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -3.70
Structure conservation index 0.77
SVM decision value 3.89
SVM RNA-class probability 0.999685
Prediction RNA

Download alignment: ClustalW | MAF

>sy_sa.0 1046773 86 + 2516575
GUUCACCUCACUUUCAAUUAGAAAAUGGCUCCUGAAAAACAUUUUUCGAGAGCCAUAUAUAAUCAUUUUCUAUAGCAAAUUUUUUA
..................(((((((((((((.((((((....)))))).)))))))..........)))))).............. ( -16.50)
>sy_ha.0 1194877 86 + 2685015
GUUCACCUCACUUUCAAUUAGAAAAUGGCUCGAGAAAUAUAGUUUUCAAGAGCCAUAUAUUCUAAUUUAUUAUAAUCAUUUGUUGG
...............((((((((.(((((((..((((......))))..)))))))...))))))))................... ( -19.40)
>sy_au.0 962051 86 - 2809422
GUCCACCUCACUUUCAAUUAGAAAAUGGCUCUAGAAAUAGGUUUUUCAAGAGCCAUAUAUUCUAAUUUAUAACACCAUACUGGUAC
...............((((((((.((((((((.((((......)))).))))))))...))))))))......(((.....))).. ( -22.90)
>consensus
GUUCACCUCACUUUCAAUUAGAAAAUGGCUCCAGAAAUACAUUUUUCAAGAGCCAUAUAUUCUAAUUUAUUAUAACAAAUUGUUAA
...............((((((((.(((((((..((((......))))..)))))))...))))))))................... (-15.13 = -16.13 +   1.00) 
# Strand winner: forward (0.99)

alignment

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secondary structure

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dotplot

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Window 5

Location 1,046,773 – 1,046,859
Length 86
Sequences 3
Columns 86
Reading direction forward
Mean pairwise identity 78.68
Mean single sequence MFE -22.30
Consensus MFE -17.44
Energy contribution -18.67
Covariance contribution 1.22
Combinations/Pair 1.05
Mean z-score -3.36
Structure conservation index 0.78
SVM decision value 3.72
SVM RNA-class probability 0.999559
Prediction RNA

Download alignment: ClustalW | MAF

>sy_sa.0 1046773 86 + 2516575/0-86
UAAAAAAUUUGCUAUAGAAAAUGAUUAUAUAUGGCUCUCGAAAAAUGUUUUUCAGGAGCCAUUUUCUAAUUGAAAGUGAGGUGAAC
.......((..((...................(((((..(((((....)))))..)))))((((((.....))))))..))..)). ( -20.00)
>sy_ha.0 1194877 86 + 2685015/0-86
CCAACAAAUGAUUAUAAUAAAUUAGAAUAUAUGGCUCUUGAAAACUAUAUUUCUCGAGCCAUUUUCUAAUUGAAAGUGAGGUGAAC
....((.....((((....((((((((...(((((((..((((......))))..))))))).))))))))....))))..))... ( -21.80)
>sy_au.0 962051 86 - 2809422/0-86
GUACCAGUAUGGUGUUAUAAAUUAGAAUAUAUGGCUCUUGAAAAACCUAUUUCUAGAGCCAUUUUCUAAUUGAAAGUGAGGUGGAC
.((((.(((......))).((((((((...((((((((.((((......)))).)))))))).))))))))........))))... ( -25.10)
>consensus
CAAACAAUUUGCUAUAAUAAAUUAGAAUAUAUGGCUCUUGAAAAAUAUAUUUCUAGAGCCAUUUUCUAAUUGAAAGUGAGGUGAAC
...................((((((((...((((((((.((((......)))).)))))))).))))))))............... (-17.44 = -18.67 +   1.22)

alignment

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secondary structure

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dotplot

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Window 6

Location 1,046,773 – 1,046,859
Length 86
Sequences 3
Columns 86
Reading direction reverse
Mean pairwise identity 78.68
Mean single sequence MFE -19.60
Consensus MFE -15.13
Energy contribution -16.13
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -3.70
Structure conservation index 0.77
SVM decision value 3.89
SVM RNA-class probability 0.999685
Prediction RNA

Download alignment: ClustalW | MAF

>sy_sa.0 1046773 86 + 2516575/0-86
GUUCACCUCACUUUCAAUUAGAAAAUGGCUCCUGAAAAACAUUUUUCGAGAGCCAUAUAUAAUCAUUUUCUAUAGCAAAUUUUUUA
..................(((((((((((((.((((((....)))))).)))))))..........)))))).............. ( -16.50)
>sy_ha.0 1194877 86 + 2685015/0-86
GUUCACCUCACUUUCAAUUAGAAAAUGGCUCGAGAAAUAUAGUUUUCAAGAGCCAUAUAUUCUAAUUUAUUAUAAUCAUUUGUUGG
...............((((((((.(((((((..((((......))))..)))))))...))))))))................... ( -19.40)
>sy_au.0 962051 86 - 2809422/0-86
GUCCACCUCACUUUCAAUUAGAAAAUGGCUCUAGAAAUAGGUUUUUCAAGAGCCAUAUAUUCUAAUUUAUAACACCAUACUGGUAC
...............((((((((.((((((((.((((......)))).))))))))...))))))))......(((.....))).. ( -22.90)
>consensus
GUUCACCUCACUUUCAAUUAGAAAAUGGCUCCAGAAAUACAUUUUUCAAGAGCCAUAUAUUCUAAUUUAUUAUAACAAAUUGUUAA
...............((((((((.(((((((..((((......))))..)))))))...))))))))................... (-15.13 = -16.13 +   1.00) 
# Strand winner: forward (0.99)

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 Thu Apr 6 18:53:02 2006