Locus 40

Sequence ID sy_ha.0
Location 1,323,762 – 1,323,852
Length 90
Max. P 0.999966
window194 window195

overview

Window 4

Location 1,323,762 – 1,323,852
Length 90
Sequences 2
Columns 90
Reading direction forward
Mean pairwise identity 65.56
Mean single sequence MFE -29.95
Consensus MFE -28.85
Energy contribution -27.85
Covariance contribution -1.00
Combinations/Pair 1.39
Mean z-score -5.23
Structure conservation index 0.96
SVM decision value 3.10
SVM RNA-class probability 0.998440
Prediction RNA

Download alignment: ClustalW | MAF

>sy_ha.0 1323762 90 + 2685015/235-355
AGUUUUACUAACGAAUUUAAUUACAAUUAGGGUGGCAACACGGCGAUUCGUCCCUUGUAUAGUAGAAAUGCUAUAUAAGGGACUUUUUUU
.(((.....)))(((((((((....))))..(((....)))...)))))(((((((((((((((....)))))))))))))))....... ( -31.90)
>sy_sa.0 1175739 82 + 2516575/235-355
AUUAC----AAC--UUAUAAC--CAAUUAGGGUGGCAACACGGAAAUUCGUCCCUUGUAUGACUUAUUAGUCAUGCAAGGGUUUUUUUAU
.....----..(--(((....--....))))(((....))).((((.....(((((((((((((....)))))))))))))...)))).. ( -28.00)
>consensus
AGUAC____AAC__AUAUAAC__CAAUUAGGGUGGCAACACGGAAAUUCGUCCCUUGUAUAACAGAAAAGCCAUACAAGGGACUUUUUAU
...............................(((....)))........(((((((((((((((....)))))))))))))))....... (-28.85 = -27.85 +  -1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 1,323,762 – 1,323,852
Length 90
Sequences 2
Columns 90
Reading direction reverse
Mean pairwise identity 65.56
Mean single sequence MFE -19.45
Consensus MFE -16.10
Energy contribution -17.10
Covariance contribution 1.00
Combinations/Pair 1.17
Mean z-score -2.64
Structure conservation index 0.83
SVM decision value 4.98
SVM RNA-class probability 0.999966
Prediction RNA

Download alignment: ClustalW | MAF

>sy_ha.0 1323762 90 + 2685015/235-355
AAAAAAAGUCCCUUAUAUAGCAUUUCUACUAUACAAGGGACGAAUCGCCGUGUUGCCACCCUAAUUGUAAUUAAAUUCGUUAGUAAAACU
.......(((((((.(((((........))))).)))))))((((......(((((..........)))))...))))............ ( -17.60)
>sy_sa.0 1175739 82 + 2516575/235-355
AUAAAAAAACCCUUGCAUGACUAAUAAGUCAUACAAGGGACGAAUUUCCGUGUUGCCACCCUAAUUG--GUUAUAA--GUU----GUAAU
.........((((((.((((((....)))))).))))))((((.......(((.((((.......))--)).))).--.))----))... ( -21.30)
>consensus
AAAAAAAAACCCUUACAUAACAAAUAAACCAUACAAGGGACGAAUCGCCGUGUUGCCACCCUAAUUG__AUUAAAA__GUU____AAAAU
.......(((((((((((((((....)))))))))))))))........(((....)))............................... (-16.10 = -17.10 +   1.00) 
# Strand winner: forward (0.99)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 18:53:17 2006