Locus 37

Sequence ID sy_ha.0
Location 1,278,188 – 1,278,243
Length 55
Max. P 0.987902
window186 window187

overview

Window 6

Location 1,278,188 – 1,278,243
Length 55
Sequences 3
Columns 55
Reading direction reverse
Mean pairwise identity 79.88
Mean single sequence MFE -16.23
Consensus MFE -8.93
Energy contribution -9.27
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -4.04
Structure conservation index 0.55
SVM decision value 2.10
SVM RNA-class probability 0.987902
Prediction RNA

Download alignment: ClustalW | MAF

>sy_ha.0 1278188 55 + 2685015
AAAUAAAAAACUCGCCCCCUAAAAAAAGGGACGAGUUCGUCGUGGUACCACCCUA
........((((((..((((......)))).))))))....(((....))).... ( -14.70)
>sy_au.0 1047577 54 - 2809422
AAACAAAAAAUCCCGCCCCU-AUACAAGGGACGAGAUCGUCGUGGUACCACCCUA
............((((.(((-.....)))((((....)))))))).......... ( -11.70)
>sy_sa.0 1128936 54 + 2516575
ACACAAAAAGACCUCAUCCC-AAAAAAGGGACGAGGUCUUCGUGGUACCACCCUA
((.((..((((((((.((((-......)))).))))))))..))))......... ( -22.30)
>consensus
AAACAAAAAAACCCCCCCCU_AAAAAAGGGACGAGAUCGUCGUGGUACCACCCUA
..........................(((((((....))))(((....)))))). ( -8.93 =  -9.27 +   0.33) 
# Strand winner: forward (0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 1,278,188 – 1,278,243
Length 55
Sequences 3
Columns 55
Reading direction reverse
Mean pairwise identity 79.88
Mean single sequence MFE -16.23
Consensus MFE -8.93
Energy contribution -9.27
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -4.04
Structure conservation index 0.55
SVM decision value 2.10
SVM RNA-class probability 0.987902
Prediction RNA

Download alignment: ClustalW | MAF

>sy_ha.0 1278188 55 + 2685015/0-55
AAAUAAAAAACUCGCCCCCUAAAAAAAGGGACGAGUUCGUCGUGGUACCACCCUA
........((((((..((((......)))).))))))....(((....))).... ( -14.70)
>sy_au.0 1047577 54 - 2809422/0-55
AAACAAAAAAUCCCGCCCCU-AUACAAGGGACGAGAUCGUCGUGGUACCACCCUA
............((((.(((-.....)))((((....)))))))).......... ( -11.70)
>sy_sa.0 1128936 54 + 2516575/0-55
ACACAAAAAGACCUCAUCCC-AAAAAAGGGACGAGGUCUUCGUGGUACCACCCUA
((.((..((((((((.((((-......)))).))))))))..))))......... ( -22.30)
>consensus
AAACAAAAAAACCCCCCCCU_AAAAAAGGGACGAGAUCGUCGUGGUACCACCCUA
..........................(((((((....))))(((....)))))). ( -8.93 =  -9.27 +   0.33) 
# Strand winner: forward (0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 18:53:11 2006