Locus 106

Sequence ID sy_sa.0
Location 1,003,836 – 1,003,912
Length 76
Max. P 0.965698
window620 window621

overview

Window 0

Location 1,003,836 – 1,003,912
Length 76
Sequences 6
Columns 76
Reading direction forward
Mean pairwise identity 92.11
Mean single sequence MFE -25.95
Consensus MFE -23.95
Energy contribution -22.20
Covariance contribution -1.75
Combinations/Pair 1.20
Mean z-score -1.65
Structure conservation index 0.92
SVM decision value 1.58
SVM RNA-class probability 0.965698
Prediction RNA

Download alignment: ClustalW | MAF

>sy_sa.0 1003836 76 + 2516575
GGUUCAGUAGCUCAGUUGGUAGAGCAAUGGAUUGAAGCUCCAUGUGUCGGCAGUUCGACUCUGUCCUGAACCAUUC
(((((((..((((........)))).(((((.......))))).....(((((.......)))))))))))).... ( -25.00)
>sy_ha.0 1140713 76 + 2685015
GGUUCAGUAGCUCAGUUGGUAGAGCAAUGGAUUGAAGCUCCAUGUGUCGGCAGUUCGACUCUGUCCUGAACCAUUC
(((((((..((((........)))).(((((.......))))).....(((((.......)))))))))))).... ( -25.00)
>sy_au.0 868852 76 - 2809422
GGUUCAGUAGCUCAGUUGGUAGAGCAAUGGAUUGAAGCUCCAUGUGUCGGCAGUUCGACUCUGUCCUGAACCAUUC
(((((((..((((........)))).(((((.......))))).....(((((.......)))))))))))).... ( -25.00)
>sp_pn.0 347467 76 - 2038615
GGCUCGGUAGCUCAGUUGGUAGAGCAAUGGAUUGAAGCUCCAUGUGUCGGCGGUUCGAUUCCGUCUCGCGCCAUUU
(((..((.(((((((((.((......)).))))).))))))..(((..(((((.......))))).)))))).... ( -26.90)
>sp_mu.0 23226 76 + 2030921
GGCUCGGUAGCUCAGUUGGUAGAGCAAUGGAUUGAAGCUCCAUGUGUCGGCGGUUCGAUUCCGUCUCGCGCCAUUU
(((..((.(((((((((.((......)).))))).))))))..(((..(((((.......))))).)))))).... ( -26.90)
>sp_ag.0 28294 76 + 2160267
GGCUCGGUAGCUCAGUUGGUAGAGCAAUGGAUUGAAGCUCCAUGUGUCGGCGGUUCGAUUCCGUCUCGCGCCAUUU
(((..((.(((((((((.((......)).))))).))))))..(((..(((((.......))))).)))))).... ( -26.90)
>consensus
GGCUCAGUAGCUCAGUUGGUAGAGCAAUGGAUUGAAGCUCCAUGUGUCGGCAGUUCGACUCCGUCCCGAACCAUUC
(((.(((..((((........)))).(((((.......))))).....(((((.......)))))))).))).... (-23.95 = -22.20 +  -1.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 1,003,836 – 1,003,912
Length 76
Sequences 6
Columns 76
Reading direction forward
Mean pairwise identity 92.11
Mean single sequence MFE -25.95
Consensus MFE -23.95
Energy contribution -22.20
Covariance contribution -1.75
Combinations/Pair 1.20
Mean z-score -1.65
Structure conservation index 0.92
SVM decision value 1.58
SVM RNA-class probability 0.965698
Prediction RNA

Download alignment: ClustalW | MAF

>sy_sa.0 1003836 76 + 2516575/0-76
GGUUCAGUAGCUCAGUUGGUAGAGCAAUGGAUUGAAGCUCCAUGUGUCGGCAGUUCGACUCUGUCCUGAACCAUUC
(((((((..((((........)))).(((((.......))))).....(((((.......)))))))))))).... ( -25.00)
>sy_ha.0 1140713 76 + 2685015/0-76
GGUUCAGUAGCUCAGUUGGUAGAGCAAUGGAUUGAAGCUCCAUGUGUCGGCAGUUCGACUCUGUCCUGAACCAUUC
(((((((..((((........)))).(((((.......))))).....(((((.......)))))))))))).... ( -25.00)
>sy_au.0 868852 76 - 2809422/0-76
GGUUCAGUAGCUCAGUUGGUAGAGCAAUGGAUUGAAGCUCCAUGUGUCGGCAGUUCGACUCUGUCCUGAACCAUUC
(((((((..((((........)))).(((((.......))))).....(((((.......)))))))))))).... ( -25.00)
>sp_pn.0 347467 76 - 2038615/0-76
GGCUCGGUAGCUCAGUUGGUAGAGCAAUGGAUUGAAGCUCCAUGUGUCGGCGGUUCGAUUCCGUCUCGCGCCAUUU
(((..((.(((((((((.((......)).))))).))))))..(((..(((((.......))))).)))))).... ( -26.90)
>sp_mu.0 23226 76 + 2030921/0-76
GGCUCGGUAGCUCAGUUGGUAGAGCAAUGGAUUGAAGCUCCAUGUGUCGGCGGUUCGAUUCCGUCUCGCGCCAUUU
(((..((.(((((((((.((......)).))))).))))))..(((..(((((.......))))).)))))).... ( -26.90)
>sp_ag.0 28294 76 + 2160267/0-76
GGCUCGGUAGCUCAGUUGGUAGAGCAAUGGAUUGAAGCUCCAUGUGUCGGCGGUUCGAUUCCGUCUCGCGCCAUUU
(((..((.(((((((((.((......)).))))).))))))..(((..(((((.......))))).)))))).... ( -26.90)
>consensus
GGCUCAGUAGCUCAGUUGGUAGAGCAAUGGAUUGAAGCUCCAUGUGUCGGCAGUUCGACUCCGUCCCGAACCAUUC
(((.(((..((((........)))).(((((.......))))).....(((((.......)))))))).))).... (-23.95 = -22.20 +  -1.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 18:59:11 2006