Locus 6233

Sequence ID 3R_DroMel_CAF1
Location 16,289,221 – 16,289,341
Length 120
Max. P 0.831333
window10167

overview

Window 7

Location 16,289,221 – 16,289,341
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 97.77
Mean single sequence MFE -38.41
Consensus MFE -32.74
Energy contribution -33.41
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -2.80
Structure conservation index 0.85
SVM decision value 0.72
SVM RNA-class probability 0.831333
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16289221 120 + 27905053
GCCCCAAAACAGCUCGCUGGCACGCAAAUGAAAAUGACCAAUGUGCUUAAUUUCUUAGCAUACUUUUCUGCGCUGCAAGGCGCAAGAAAUCAAGAACAGCCAGCCCCGUGCCAGUUGUUG
.........((((..(((((((((....((...........((((((.........))))))..((((((((((....))))).)))))...........))....))))))))).)))) ( -36.40)
>DroSec_CAF1 9852 118 + 1
GCCCCAAAACAGCUCGCUGGCACGCAAAUGAAAAUGACCAAUGUGCUUAAUUUCUUAGCAUACUUUUCUGCGCUGCAAGGCGCAAGAAAUCAAGCACAGCCAGGCCC--GCCAGUUGUUG
.......(((((((.((.(((..((..((....))......(((((((.((((((.............((((((....)))))))))))).)))))))))...))).--)).))))))). ( -39.41)
>DroSim_CAF1 1978 118 + 1
GCCCCAAAACAGCUCGCUGGCACGCAAAUGAAAAUGACCAAUGUGCUUAAUUUCUUAGCAUACUUUUCUGCGCUGCAAGGCGCAAGAAAUCAAGCACAGCCAGGCCC--GCCAGUUGUUG
.......(((((((.((.(((..((..((....))......(((((((.((((((.............((((((....)))))))))))).)))))))))...))).--)).))))))). ( -39.41)
>consensus
GCCCCAAAACAGCUCGCUGGCACGCAAAUGAAAAUGACCAAUGUGCUUAAUUUCUUAGCAUACUUUUCUGCGCUGCAAGGCGCAAGAAAUCAAGCACAGCCAGGCCC__GCCAGUUGUUG
.......(((((((.((.(((..((...((........)).(((((((.((((((.............((((((....)))))))))))).)))))))))...)))...)).))))))). (-32.74 = -33.41 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:16:16 2006