Locus 1948

Sequence ID 3R_DroMel_CAF1
Location 5,500,253 – 5,500,363
Length 110
Max. P 0.928858
window3202

overview

Window 2

Location 5,500,253 – 5,500,363
Length 110
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 98.55
Mean single sequence MFE -19.39
Consensus MFE -19.39
Energy contribution -19.39
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.45
Structure conservation index 1.00
SVM decision value 1.19
SVM RNA-class probability 0.928858
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5500253 110 + 27905053
GCACCUGCAAAAUGUCGCCCUGGUCCUCCUCCUCAUCAUCAUCAUCACUACUGCCCCCUUCGGCUCGCAUGGCCAGAACAUGCUCCACCAACUUUUUCUUUUGCACGAAC
...(.(((((((........((((............................(((......)))..(((((.......)))))...))))........))))))).)... ( -19.39)
>DroSec_CAF1 30887 110 + 1
GCACCUGCAAAAUGUCGCCCUGGUCCUCCUCCUCAUCAUCAUCAUCACUACUGCCCCCUUCGGCUCGCAUGGCCAGAACAUGCUCCACCAACUUUUUCUUUUGCACGAAC
...(.(((((((........((((............................(((......)))..(((((.......)))))...))))........))))))).)... ( -19.39)
>DroSim_CAF1 33124 110 + 1
GCACCUGCAAAAUGUCGCCCUGGUCCUCCUCCUCAUCAUCAUCAUCACUACUGCCCCCUUCGGCUCGCAUGGCCAGAACAUGCUCCACCAACUUUUUCUUUUGCACGAAC
...(.(((((((........((((............................(((......)))..(((((.......)))))...))))........))))))).)... ( -19.39)
>DroEre_CAF1 31170 110 + 1
GCACCUGCAAAAUGUCGCCCUGGUCCUCCUCCUCCUCUUCAUCAUCACUACUGCCCCCUUCGGCUCGCAUGGCCAGAACAUGCUCCACCAACUUCUUCUUUUGCACGAAC
...(.(((((((........((((............................(((......)))..(((((.......)))))...))))........))))))).)... ( -19.39)
>DroYak_CAF1 29596 110 + 1
GCACCUGCAAAAUGUCGCCCUGGUCCUCCUCCUCCUCAUCAUCAUCACUACUGCCCCCUUCGGCUCGCAUGGCCAGAACAUGCUCCACCAACUUCUUCUUUUGCACGAAC
...(.(((((((........((((............................(((......)))..(((((.......)))))...))))........))))))).)... ( -19.39)
>consensus
GCACCUGCAAAAUGUCGCCCUGGUCCUCCUCCUCAUCAUCAUCAUCACUACUGCCCCCUUCGGCUCGCAUGGCCAGAACAUGCUCCACCAACUUUUUCUUUUGCACGAAC
...(.(((((((........((((............................(((......)))..(((((.......)))))...))))........))))))).)... (-19.39 = -19.39 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:37 2006