Locus 68

Sequence ID sy_ha.0
Location 2,055,014 – 2,055,133
Length 119
Max. P 0.996330
window355 window356

overview

Window 5

Location 2,055,014 – 2,055,133
Length 119
Sequences 2
Columns 120
Reading direction forward
Mean pairwise identity 78.33
Mean single sequence MFE -27.45
Consensus MFE -17.90
Energy contribution -21.65
Covariance contribution 3.75
Combinations/Pair 1.03
Mean z-score -3.29
Structure conservation index 0.65
SVM decision value 2.68
SVM RNA-class probability 0.996330
Prediction RNA

Download alignment: ClustalW | MAF

>sy_ha.0 2055014 119 + 2685015/3-123
UGUUUCUUCUUAUUUAACAAGUUCUGAAAAAUCACUACUCAUAUGAGUUUUCGGCGUUUUUCAGAACAAUAUGAUUCAUGUAUAAUAUAUUGCAUAAAUAUUUUUUAA-GGAGGAUAACA
...(((((((((........((((((((((((..(.((((....))))....)..))))))))))))......(((.(((((........))))).)))......)))-))))))..... ( -28.60)
>sy_au.0 1851730 119 - 2809422/3-123
UGUUUCUUCUUAUUUAAAUACUUCUGAAAAUAAAGCACAACAAGGAGUGUGUA-CGUUUUUCAGAACUAUAUCAUUCAUGUAUAAUGAAUAACAUAAAUAUUUUUUAAAGGAGGACAACA
.((((((((((......(((.(((((((((....(((((........))))).-...))))))))).)))...((((((.....))))))..................))))))).))). ( -26.30)
>consensus
UGUUUCUUCUUAUUUAAAAACUUCUGAAAAAAAACCACAAAAAGGAGUGUGCA_CGUUUUUCAGAACAAUAUCAUUCAUGUAUAAUAAAUAACAUAAAUAUUUUUUAA_GGAGGACAACA
.(((((((((...((((...((((((((((((..((((((....)))))).....))))))))))))......(((.(((((........))))).))).....)))).)))))).))). (-17.90 = -21.65 +   3.75)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 6

Location 2,055,014 – 2,055,133
Length 119
Sequences 2
Columns 120
Reading direction reverse
Mean pairwise identity 78.33
Mean single sequence MFE -24.60
Consensus MFE -12.75
Energy contribution -17.00
Covariance contribution 4.25
Combinations/Pair 1.03
Mean z-score -2.76
Structure conservation index 0.52
SVM decision value 0.32
SVM RNA-class probability 0.689287
Prediction RNA

Download alignment: ClustalW | MAF

>sy_ha.0 2055014 119 + 2685015/3-123
UGUUAUCCUCC-UUAAAAAAUAUUUAUGCAAUAUAUUAUACAUGAAUCAUAUUGUUCUGAAAAACGCCGAAAACUCAUAUGAGUAGUGAUUUUUCAGAACUUGUUAAAUAAGAAGAAACA
.......((.(-(((......(((((((............)))))))......((((((((((((((.....((((....)))).))).)))))))))))........)))).))..... ( -21.80)
>sy_au.0 1851730 119 - 2809422/3-123
UGUUGUCCUCCUUUAAAAAAUAUUUAUGUUAUUCAUUAUACAUGAAUGAUAUAGUUCUGAAAAACG-UACACACUCCUUGUUGUGCUUUAUUUUCAGAAGUAUUUAAAUAAGAAGAAACA
.(((...((.(((....(((((((((((((((((((.....)))))))))))))(((((((((..(-((((.((.....)))))))....)))))))))))))))....))).)).))). ( -27.40)
>consensus
UGUUAUCCUCC_UUAAAAAAUAUUUAUGCAAUACAUUAUACAUGAAUCAUAUAGUUCUGAAAAACG_CAAAAACUCAUAGGAGUACUGAAUUUUCAGAACUAGUUAAAUAAGAAGAAACA
.(((.((.((..............((((((((((((.....))))))))))))(((((((((((.......(((((....)))))....)))))))))))...........)).))))). (-12.75 = -17.00 +   4.25) 
# Strand winner: forward (0.97)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 18:55:33 2006