Locus 1908

Sequence ID 3R_DroMel_CAF1
Location 5,433,336 – 5,433,440
Length 104
Max. P 0.732049
window3139

overview

Window 9

Location 5,433,336 – 5,433,440
Length 104
Sequences 4
Columns 112
Reading direction forward
Mean pairwise identity 80.60
Mean single sequence MFE -27.04
Consensus MFE -11.55
Energy contribution -13.12
Covariance contribution 1.56
Combinations/Pair 1.05
Mean z-score -3.33
Structure conservation index 0.43
SVM decision value 0.43
SVM RNA-class probability 0.732049
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5433336 104 + 27905053
GCAAGUUUUGAUUUCGA------CUCGACUCGCAACGCCUCGCGUUUUGAUUUGAUUC--GAUUUCGAUUUGUGUGUCUGGACGAGAGUGUUUAUUUUCAUUUUCAAUAAAU
(((((((..((..((((------.((((.(((.(((((...))))).))).)))).))--))..)))))))))..........(((((((........)))))))....... ( -28.00)
>DroSec_CAF1 19961 90 + 1
GCAAGUUUUGAUUUCGA------AUCGACUCGACUCGCCUCGCGUUUUGAUUUGAUUC--GAUUUCG--------------ACGAGAGUGUUUAUUUUCAUUUUCAAUAAAU
.......((((..((((------(((((.((((..(((...)))..)))).)))))))--))..)))--------------).(((((((........)))))))....... ( -28.00)
>DroSim_CAF1 14992 90 + 1
GCAAGUUUUGAUUUCGA------AUCGACUCGACUCGCCUCGCGUUUUGAUUUGAUUC--GAUUUCG--------------ACGAGAGUGUUUAUUUUCAUUUUCAAUAAAU
.......((((..((((------(((((.((((..(((...)))..)))).)))))))--))..)))--------------).(((((((........)))))))....... ( -28.00)
>DroEre_CAF1 20581 105 + 1
GCAAGUUUUGAUUUUGAUUUCAACUCAAAUCGACUCGCCUCGCGUUUUGAU-------UUGAUUUCGAUUUGUGUGUCUGGACGAGAGUGUUUAUUUUCAUUUUCAAUAAAU
....(((..(((.......((((.(((((((((..(((...)))..)))))-------)))).)).)).......)))..)))(((((((........)))))))....... ( -24.14)
>consensus
GCAAGUUUUGAUUUCGA______AUCGACUCGACUCGCCUCGCGUUUUGAUUUGAUUC__GAUUUCG______________ACGAGAGUGUUUAUUUUCAUUUUCAAUAAAU
..............(((......(((((.((((..(((...)))..)))).)))))........)))................(((((((........)))))))....... (-11.55 = -13.12 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:35 2006