Locus 638

Sequence ID 3R_DroMel_CAF1
Location 2,359,609 – 2,359,704
Length 95
Max. P 0.532351
window1012

overview

Window 2

Location 2,359,609 – 2,359,704
Length 95
Sequences 4
Columns 108
Reading direction reverse
Mean pairwise identity 80.85
Mean single sequence MFE -15.33
Consensus MFE -9.50
Energy contribution -10.75
Covariance contribution 1.25
Combinations/Pair 1.14
Mean z-score -1.73
Structure conservation index 0.62
SVM decision value -0.00
SVM RNA-class probability 0.532351
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2359609 95 - 27905053
-UUC------------CAUUUUCCAUUUCAUUUUCCGAGUGUUAAUUUACAUCUUUUGUAAUUACCAGCCUUUGUUAUCCGAUUUUGCCAGGGUACCACAGAAAUACA
-...------------......................(((((...(((((.....)))))........((.((.(((((..........))))).)).)).))))). ( -11.60)
>DroSec_CAF1 63275 95 - 1
-UUC------------AUUUAUCCAUUUUAUUUUCCUAGUGUUUAUUUACAUUUUUUGUAAUUACCAGCCUUUGUUAUCCGAUUUUGCCAGGGUACCAAAGAAAUACA
-...------------......................((((((..(((((.....)))))........(((((.(((((..........))))).))))))))))). ( -16.10)
>DroSim_CAF1 64672 96 - 1
UUUC------------AUUUAUCCAUUUCAUUUUCCUACUGUUUAUUUACAUCUUUUGUAAUUACCAGGCUUUGUUAUCCGAUUUUGCCAGGGUAGCAAAGCAAUACA
....------------......................(((..((.(((((.....))))).)).)))((((((((((((..........))))))))))))...... ( -22.50)
>DroYak_CAF1 59809 108 - 1
UAUCAUUUCUUUAUACUCUUAUCCAUUUAAUUCUUUUAAUGUUAAUUUACAUCUUUUGUGAUUACCAGCCUUUGUUAUCAAAUUUCGCCAGGGAACCGAAGGAAUACA
.............................((((((((..((.(((((.(((.....)))))))).)).((((.((...........)).))))....))))))))... ( -11.10)
>consensus
_UUC____________AUUUAUCCAUUUCAUUUUCCUAGUGUUAAUUUACAUCUUUUGUAAUUACCAGCCUUUGUUAUCCGAUUUUGCCAGGGUACCAAAGAAAUACA
......................................(((((...(((((.....))))).......((((((.(((((..........))))).))))))))))). ( -9.50 = -10.75 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:48:04 2006