Locus 25

Sequence ID sy_au.0
Location 1,939,972 – 1,940,046
Length 74
Max. P 0.861246
window122 window123

overview

Window 2

Location 1,939,972 – 1,940,046
Length 74
Sequences 5
Columns 74
Reading direction reverse
Mean pairwise identity 78.92
Mean single sequence MFE -27.38
Consensus MFE -25.78
Energy contribution -23.46
Covariance contribution -2.32
Combinations/Pair 1.52
Mean z-score -1.37
Structure conservation index 0.94
SVM decision value 0.83
SVM RNA-class probability 0.861246
Prediction RNA

Download alignment: ClustalW | MAF

>sy_au.0 1939972 74 + 2809422
UGGCCGAAGGAGCACGCCUGGAAAGUGUGUAGGCGUCACAAGCGUCUCAAGGGUUCGAAUCCCUUACCUUCCGU
..((.(((((.((((((.(....)))))))((((((.....)))))).(((((.......))))).))))).)) ( -25.20)
>sy_sa.0 1512159 74 - 2516575
UGGCCGAAGGAGCACGCCUGGAAAGUGUGUAGGCGCCACAAGCGUCUCGAGGGUUCGAAUCCCUCACUCUCCGC
........((((.((((((....)).))))((((((.....)))))).(((((.......)))))...)))).. ( -26.50)
>sy_ha.0 1543709 74 - 2685015
UGGCCGAAGGAGCACGCCUGGAAAGUGUGUAAGCGCCACAAGCGCUUCAAGGGUUCGAAUCCCUUGUUCUCCAU
........((((.((((((....)).))))((((((.....))))))((((((.......))))))..)))).. ( -26.10)
>sp_ag.0 1774820 74 - 2160267
UGGCUGAGUGCGCACGCUUGGAAAGCGUGUAGUCCCUAAUGGGGGCUCGGGGGUUCGAAUCCCCUCCUCUCCUU
.((..(((...(((((((.....)))))))((((((.....)))))).((((((....))))))..))).)).. ( -31.00)
>sp_mu.0 1640665 73 - 2030921
UGGCUGAGUGCGCACGCUUGGAAAGCGUGUAGUCCUUAAC-GGGGCUCGGGGGUUCGAAUCCCCUCCUCUCCUU
.((..(((...(((((((.....)))))))((((((....-)))))).((((((....))))))..))).)).. ( -28.10)
>consensus
UGGCCGAAGGAGCACGCCUGGAAAGUGUGUAGGCGCCACAAGCGGCUCGAGGGUUCGAAUCCCUUACUCUCCGU
.....(((((.((((((.(....)))))))((((((.....)))))).(((((.......))))).)))))... (-25.78 = -23.46 +  -2.32) 
# Strand winner: reverse (0.98)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 1,939,972 – 1,940,046
Length 74
Sequences 5
Columns 74
Reading direction reverse
Mean pairwise identity 78.92
Mean single sequence MFE -27.38
Consensus MFE -25.78
Energy contribution -23.46
Covariance contribution -2.32
Combinations/Pair 1.52
Mean z-score -1.37
Structure conservation index 0.94
SVM decision value 0.83
SVM RNA-class probability 0.861246
Prediction RNA

Download alignment: ClustalW | MAF

>sy_au.0 1939972 74 + 2809422/0-74
UGGCCGAAGGAGCACGCCUGGAAAGUGUGUAGGCGUCACAAGCGUCUCAAGGGUUCGAAUCCCUUACCUUCCGU
..((.(((((.((((((.(....)))))))((((((.....)))))).(((((.......))))).))))).)) ( -25.20)
>sy_sa.0 1512159 74 - 2516575/0-74
UGGCCGAAGGAGCACGCCUGGAAAGUGUGUAGGCGCCACAAGCGUCUCGAGGGUUCGAAUCCCUCACUCUCCGC
........((((.((((((....)).))))((((((.....)))))).(((((.......)))))...)))).. ( -26.50)
>sy_ha.0 1543709 74 - 2685015/0-74
UGGCCGAAGGAGCACGCCUGGAAAGUGUGUAAGCGCCACAAGCGCUUCAAGGGUUCGAAUCCCUUGUUCUCCAU
........((((.((((((....)).))))((((((.....))))))((((((.......))))))..)))).. ( -26.10)
>sp_ag.0 1774820 74 - 2160267/0-74
UGGCUGAGUGCGCACGCUUGGAAAGCGUGUAGUCCCUAAUGGGGGCUCGGGGGUUCGAAUCCCCUCCUCUCCUU
.((..(((...(((((((.....)))))))((((((.....)))))).((((((....))))))..))).)).. ( -31.00)
>sp_mu.0 1640665 73 - 2030921/0-74
UGGCUGAGUGCGCACGCUUGGAAAGCGUGUAGUCCUUAAC-GGGGCUCGGGGGUUCGAAUCCCCUCCUCUCCUU
.((..(((...(((((((.....)))))))((((((....-)))))).((((((....))))))..))).)).. ( -28.10)
>consensus
UGGCCGAAGGAGCACGCCUGGAAAGUGUGUAGGCGCCACAAGCGGCUCGAGGGUUCGAAUCCCUUACUCUCCGU
.....(((((.((((((.(....)))))))((((((.....)))))).(((((.......))))).)))))... (-25.78 = -23.46 +  -2.32) 
# Strand winner: reverse (0.98)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 18:52:14 2006