Locus 1916

Sequence ID X_DroMel_CAF1
Location 5,290,524 – 5,290,641
Length 117
Max. P 0.838625
window3116

overview

Window 6

Location 5,290,524 – 5,290,641
Length 117
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 79.27
Mean single sequence MFE -32.26
Consensus MFE -20.74
Energy contribution -20.58
Covariance contribution -0.16
Combinations/Pair 1.10
Mean z-score -1.93
Structure conservation index 0.64
SVM decision value 0.74
SVM RNA-class probability 0.838625
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5290524 117 - 22224390
AAGUUCAAUGACU--UGUCGUCUGUGCAUGAAACUCGCCACCGGGAUCCUUUUGUCGGAUGAGACACAAAAUGGGAAAUGGACUUCCUUGUCAUAUUUCCGAUU-UGCGACAACAAGCAA
........((.((--(((.((((((((......((((....))))((((.......))))..).))))((((.((((((((((......))).))))))).)))-)..))).))))))). ( -32.80)
>DroSec_CAF1 27840 103 - 1
AAGUUCAAUGACUCUCGUCGUCGGUACGUG--------------GAUCCC-UUGUCGGAUGAGACA-AAAAUGGGAAAUGGACUUCCUUGUCAUAUUUCCGAUU-UGCGACUACAAGCAA
..(((..(((((....))))).(((.((..--------------((((..-(((((......))))-).....((((((((((......))).)))))))))))-..)))))...))).. ( -30.00)
>DroSim_CAF1 18666 103 - 1
AAGUUCAAUGACUCUCGUCGUCUGUACGUG--------------GAUCCC-UUGUCGGAUGAGACA-AAAAUGGGAAAUGGACUUCCUUGUCAUAUUUCCGAUU-UGCGACUACAAGCAA
.........(((....)))(..((((((..--------------((((..-(((((......))))-).....((((((((((......))).)))))))))))-..))..))))..).. ( -30.80)
>DroEre_CAF1 29049 111 - 1
AAGUUCGAUGACU--UGUCGUCUGUGCAAGAAAUUCAUCUCCGGGAUCCU-UUGUCGGAAUAGACA-A--GAGGGAAAUGGAUUUCCUUGUCAUAUUUCCGAUU-GGCGAACUGUAGC--
.((((((....((--((((.((((.(((((..((((.......))))..)-))))))))...))))-)--)..((((((((((......))).)))))))....-..)))))).....-- ( -33.00)
>DroYak_CAF1 28872 112 - 1
AAGUUCGAUGACU--UGUCGUCUGCACAUGAAACUCGUCUUCGGCAUCCU-UUGUCGGAUUAGACA-A--AGGGGAAAUGGACUUCCUUGUCAUAUUUCCGAUUUUGCGACUACAAGC--
...........((--(((.(((.(((..........(.(....))..(((-(((((......))))-)--)))((((((((((......))).))))))).....)))))).))))).-- ( -34.70)
>consensus
AAGUUCAAUGACU__UGUCGUCUGUACAUGAAA_UC__C__CGGGAUCCU_UUGUCGGAUGAGACA_AAAAUGGGAAAUGGACUUCCUUGUCAUAUUUCCGAUU_UGCGACUACAAGCAA
..((.(((((((....))))).)).)).................((((....((((......)))).......((((((((((......))).)))))))))))..((........)).. (-20.74 = -20.58 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:48 2006