Locus 4927

Sequence ID 3R_DroMel_CAF1
Location 12,950,907 – 12,950,997
Length 90
Max. P 0.591397
window8063

overview

Window 3

Location 12,950,907 – 12,950,997
Length 90
Sequences 6
Columns 91
Reading direction reverse
Mean pairwise identity 81.10
Mean single sequence MFE -15.91
Consensus MFE -10.23
Energy contribution -10.04
Covariance contribution -0.19
Combinations/Pair 1.25
Mean z-score -1.59
Structure conservation index 0.64
SVM decision value 0.12
SVM RNA-class probability 0.591397
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12950907 90 - 27905053
GAAAUUUCGCAACUUGUGCAAAGUCGAGGAAAAAAUU-AUGUUAAAUCCAGUGAAAAUGCCAAAGUAUGUGAAAUAAUUUUCCCAAUUAAG
...((((((((((((..(((...(((.(((.......-........)))..)))...)))..)))).))))))))................ ( -15.76)
>DroPse_CAF1 46453 90 - 1
GAAAUUUCGCAAUUUCUACCAAGUCAAUGGA-AAAUUGGUCGAAAAACAAGUGAAAAUGUUAAAGUAUGUGAAAGAAUGUCUCCAAUAAAG
((..(((((((.((((.(((((.((....))-...))))).))))((((........))))......))))))).....)).......... ( -15.80)
>DroEre_CAF1 40922 89 - 1
GAAAUUUCGCAACUUGUGCAGAGUCGAGGGA-AAAUU-AUGUUAAAUCCAGUGAAAAUGCCAAAGUAUGUAAAAUAAUGUUCCCAAUAAAG
...((((..((((((..(((...(((..(((-.....-........)))..)))...)))..)))).))..))))................ ( -14.82)
>DroYak_CAF1 39212 89 - 1
GAAAUUUCGCAACUUGUGCAGAGUCAAGGGA-AAAUU-AUGUUAAGUCCAGUGAAAAUGCCAAAGUAUGUGAAAUAAGGUUUCCAAUUAAG
...((((((((((((..(((...(((..(((-...((-(...))).)))..)))...)))..)))).))))))))................ ( -20.90)
>DroAna_CAF1 41483 82 - 1
GAAAUUUCGCAACUAGUGCACAAUCAAAGGG-GAA--------AAAAUAAGUGAAAAUGCCUAAGUAUGUGAAAUAAUGUCUCCAAUAAAG
...(((((((((((((.(((...(((...(.-...--------....)...)))...))))).))).))))))))................ ( -13.00)
>DroPer_CAF1 49165 90 - 1
GAAAUUUCGCAAUUUCUACCAAGUCAAUGGA-AAAUUGGUGAAAAAACAAGUGAAAAUGUUAAAGUAUGUGAAAGAAUGUCUCCAAUAAAG
((..(((((((.((((.(((((.((....))-...))))))))).((((........))))......))))))).....)).......... ( -15.20)
>consensus
GAAAUUUCGCAACUUGUGCAAAGUCAAGGGA_AAAUU_AUGUUAAAACAAGUGAAAAUGCCAAAGUAUGUGAAAUAAUGUCUCCAAUAAAG
...((((((((((((..(((...(((.((..................))..)))...)))..)))).))))))))................ (-10.23 = -10.04 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:42:13 2006