Locus 187

Sequence ID 4_DroMel_CAF1
Location 1,118,212 – 1,118,310
Length 98
Max. P 0.928011
window304 window305

overview

Window 4

Location 1,118,212 – 1,118,310
Length 98
Sequences 3
Columns 98
Reading direction forward
Mean pairwise identity 95.24
Mean single sequence MFE -28.70
Consensus MFE -25.48
Energy contribution -25.37
Covariance contribution -0.11
Combinations/Pair 1.03
Mean z-score -4.78
Structure conservation index 0.89
SVM decision value 1.19
SVM RNA-class probability 0.928011
Prediction RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 1118212 98 + 1281640
GGAGUUUAGUGUUUUUUUGGCUUUUCAACAUAAUACAAUUAAUUUAUAGAGAGUAUUAUAAAUUAAUUGUUAUAUGUUGAAAGCCCAAAUUAUGCCAG
........((((..(((.((((((.(((((((..(((((((((((((((......)))))))))))))))..))))))))))))).)))..))))... ( -31.50)
>DroSec_CAF1 30150 98 + 1
GGAGUUUAGUGCUUCUUUUGCUUUUCAACAUAAUACAAUUCAUUUAUAGAGAGUAUUAUAAAUUAAUUGUAAUAUGUUGAAAGCUCAAAUUGUGCCAG
(((((.....)))))....(((((.(((((((.(((((((.((((((((......)))))))).))))))).)))))))))))).............. ( -27.30)
>DroSim_CAF1 17748 98 + 1
GGAGUUUAGUGCUUCUUUUGCUUUUCAACAUAAUACAAUUCAUUUAUAGAGAGUAUUAUAAAUUAAUUGUAAUAUGUUGAAAGCUCAAAUUGUGCCAG
(((((.....)))))....(((((.(((((((.(((((((.((((((((......)))))))).))))))).)))))))))))).............. ( -27.30)
>consensus
GGAGUUUAGUGCUUCUUUUGCUUUUCAACAUAAUACAAUUCAUUUAUAGAGAGUAUUAUAAAUUAAUUGUAAUAUGUUGAAAGCUCAAAUUGUGCCAG
........(..(.......(((((.(((((((.(((((((.((((((((......)))))))).))))))).)))))))))))).......)..)... (-25.48 = -25.37 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 1,118,212 – 1,118,310
Length 98
Sequences 3
Columns 98
Reading direction reverse
Mean pairwise identity 95.24
Mean single sequence MFE -26.60
Consensus MFE -23.30
Energy contribution -23.63
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -6.22
Structure conservation index 0.88
SVM decision value 0.62
SVM RNA-class probability 0.802340
Prediction RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 1118212 98 - 1281640
CUGGCAUAAUUUGGGCUUUCAACAUAUAACAAUUAAUUUAUAAUACUCUCUAUAAAUUAAUUGUAUUAUGUUGAAAAGCCAAAAAAACACUAAACUCC
.............(((((((((((((..((((((((((((((........))))))))))))))..))))))).)))))).................. ( -28.80)
>DroSec_CAF1 30150 98 - 1
CUGGCACAAUUUGAGCUUUCAACAUAUUACAAUUAAUUUAUAAUACUCUCUAUAAAUGAAUUGUAUUAUGUUGAAAAGCAAAAGAAGCACUAAACUCC
...((....(((..((((((((((((.(((((((.(((((((........))))))).))))))).))))))).))))).)))...)).......... ( -25.50)
>DroSim_CAF1 17748 98 - 1
CUGGCACAAUUUGAGCUUUCAACAUAUUACAAUUAAUUUAUAAUACUCUCUAUAAAUGAAUUGUAUUAUGUUGAAAAGCAAAAGAAGCACUAAACUCC
...((....(((..((((((((((((.(((((((.(((((((........))))))).))))))).))))))).))))).)))...)).......... ( -25.50)
>consensus
CUGGCACAAUUUGAGCUUUCAACAUAUUACAAUUAAUUUAUAAUACUCUCUAUAAAUGAAUUGUAUUAUGUUGAAAAGCAAAAGAAGCACUAAACUCC
..............((((((((((((.(((((((.(((((((........))))))).))))))).))))))).)))))................... (-23.30 = -23.63 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:38:44 2006