Locus 49

Sequence ID sy_ha.0
Location 1,671,430 – 1,671,531
Length 101
Max. P 0.868447
window219 window220

overview

Window 9

Location 1,671,430 – 1,671,531
Length 101
Sequences 3
Columns 105
Reading direction reverse
Mean pairwise identity 78.46
Mean single sequence MFE -22.83
Consensus MFE -14.64
Energy contribution -14.87
Covariance contribution 0.23
Combinations/Pair 1.27
Mean z-score -1.97
Structure conservation index 0.64
SVM decision value 0.86
SVM RNA-class probability 0.868447
Prediction RNA

Download alignment: ClustalW | MAF

>sy_ha.0 1671430 101 + 2685015
UAUAGUCCAUUAGUAUGAAUUUAAAUAAUUGCCACUGUUGUCAUAGUAAGACGGUGGUUAUUUUUGUUAUGAUUUAUUAUGAAUUAAUUCCAC----AGGAGGCA
....((((((....(((((((..(((((..(((((((((..........))))))))).....)))))..))))))).))).......(((..----.)))))). ( -19.80)
>sy_au.0 1484854 101 - 2809422
UAUCGUCCAUUAGUAUGAAUUUAAUAUAGUACCACUGUUUACAUAGUAAAUCGGUGGUUCUUUUUGUUAUCAUUUAAUAUGAAAUAUAUCCAU----AGGAGGCA
...(.(((((..(((((....(((((.((.((((((((((((...))))).))))))).))...)))))((((.....))))..)))))..))----.))).).. ( -21.00)
>sy_sa.0 1528563 105 + 2516575
UAUCGUCCAUUAGUAUGAAUUUAAAAAAGUACCACUCUGUACAUAGUAAUAGGGUGGUUUAUUUUGGUAUGAUGAACAAUGAAUUAUUAUAACCACUAGGAGGCA
....(((..(((((..........((((..((((((((((........))))))))))...))))((((((((((........))))))).))))))))..))). ( -27.70)
>consensus
UAUCGUCCAUUAGUAUGAAUUUAAAAAAGUACCACUGUUUACAUAGUAAAACGGUGGUUAUUUUUGUUAUGAUUUAAUAUGAAUUAUUUCCAC____AGGAGGCA
....((((((....)))......((((((.((((((((((........)))))))))).))))))....................................))). (-14.64 = -14.87 +   0.23) 
# Strand winner: reverse (1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 1,671,430 – 1,671,531
Length 101
Sequences 3
Columns 105
Reading direction reverse
Mean pairwise identity 78.46
Mean single sequence MFE -22.83
Consensus MFE -14.64
Energy contribution -14.87
Covariance contribution 0.23
Combinations/Pair 1.27
Mean z-score -1.97
Structure conservation index 0.64
SVM decision value 0.86
SVM RNA-class probability 0.868447
Prediction RNA

Download alignment: ClustalW | MAF

>sy_ha.0 1671430 101 + 2685015/0-105
UAUAGUCCAUUAGUAUGAAUUUAAAUAAUUGCCACUGUUGUCAUAGUAAGACGGUGGUUAUUUUUGUUAUGAUUUAUUAUGAAUUAAUUCCAC----AGGAGGCA
....((((((....(((((((..(((((..(((((((((..........))))))))).....)))))..))))))).))).......(((..----.)))))). ( -19.80)
>sy_au.0 1484854 101 - 2809422/0-105
UAUCGUCCAUUAGUAUGAAUUUAAUAUAGUACCACUGUUUACAUAGUAAAUCGGUGGUUCUUUUUGUUAUCAUUUAAUAUGAAAUAUAUCCAU----AGGAGGCA
...(.(((((..(((((....(((((.((.((((((((((((...))))).))))))).))...)))))((((.....))))..)))))..))----.))).).. ( -21.00)
>sy_sa.0 1528563 105 + 2516575/0-105
UAUCGUCCAUUAGUAUGAAUUUAAAAAAGUACCACUCUGUACAUAGUAAUAGGGUGGUUUAUUUUGGUAUGAUGAACAAUGAAUUAUUAUAACCACUAGGAGGCA
....(((..(((((..........((((..((((((((((........))))))))))...))))((((((((((........))))))).))))))))..))). ( -27.70)
>consensus
UAUCGUCCAUUAGUAUGAAUUUAAAAAAGUACCACUGUUUACAUAGUAAAACGGUGGUUAUUUUUGUUAUGAUUUAAUAUGAAUUAUUUCCAC____AGGAGGCA
....((((((....)))......((((((.((((((((((........)))))))))).))))))....................................))). (-14.64 = -14.87 +   0.23) 
# Strand winner: reverse (1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 18:53:38 2006