Locus 8477

Sequence ID 3R_DroMel_CAF1
Location 22,618,470 – 22,618,565
Length 95
Max. P 0.895600
window13636

overview

Window 6

Location 22,618,470 – 22,618,565
Length 95
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 71.33
Mean single sequence MFE -14.04
Consensus MFE -3.55
Energy contribution -3.67
Covariance contribution 0.12
Combinations/Pair 1.29
Mean z-score -1.97
Structure conservation index 0.25
SVM decision value 0.99
SVM RNA-class probability 0.895600
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22618470 95 + 27905053
AUAAAUACCACACCAAAACUAUA---------CCGGAC------UGUGCCUCCAAACUGACGAGGCGGAGGGCAAAAAUGCAUUUAAAAAUUAACAACCCAUCAUAAAAC
.......................---------..((.(------(.((((((.........)))))).)).(((....))).................)).......... ( -15.40)
>DroSec_CAF1 66783 74 + 1
AUAAAUACC--------ACCAUA----------------------------CCAAACUGACGAGAUGGAGGGCAAAAAUGCAUUUAAAAAUUAACAACCCAUCAUAAAAC
.(((((.((--------.((((.----------------------------.(........)..)))).))(((....))))))))........................ (  -8.90)
>DroSim_CAF1 68597 75 + 1
AUAAAUACCU-------ACCAUA----------------------------CCAAACUGACGAGAUGGAGGGCAAAAAUGCAUUUAAAAAUUAACAACCCAUCAUAAAAC
.(((((.(((-------.((((.----------------------------.(........)..)))))))(((....))))))))........................ ( -10.00)
>DroEre_CAF1 74899 94 + 1
AUAAAUACCAUGCCAG-ACCAUA---------GAGGAC------UGUGCCUCCAAGCUGACGAGAUGGAGGGCAAAAAUGCAUUUAAAAAUUAACAACCCAUCAUAAAAC
.........(((((((-.((...---------..)).)------))((((((((..((....)).)))).)))).....))))........................... ( -16.40)
>DroAna_CAF1 68613 99 + 1
AUAAAUACCU--------CCUUUCGAUGGAUGAAGGACGAAAAAAAUGGCACAAGGCAGGAG---UGAUGGGUGAAAAUGCAUUUAAAAAUUAACAACCCAUCAUAAAAC
.......(((--------(((((........))))))...........((.....)).)).(---((((((((.......................)))))))))..... ( -19.50)
>consensus
AUAAAUACCA_______ACCAUA___________GGAC________UG_C_CCAAACUGACGAGAUGGAGGGCAAAAAUGCAUUUAAAAAUUAACAACCCAUCAUAAAAC
................................................................((((.(((.........................))).))))..... ( -3.55 =  -3.67 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:12:15 2006