Locus 5598

Sequence ID 3R_DroMel_CAF1
Location 14,782,101 – 14,782,200
Length 99
Max. P 0.511839
window9123

overview

Window 3

Location 14,782,101 – 14,782,200
Length 99
Sequences 5
Columns 99
Reading direction forward
Mean pairwise identity 87.37
Mean single sequence MFE -17.78
Consensus MFE -12.88
Energy contribution -13.08
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.58
Structure conservation index 0.72
SVM decision value -0.04
SVM RNA-class probability 0.511839
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14782101 99 + 27905053
GCCCCUGCGGCCUACAUGUGUAAGCUAAAAAUAAGCUGAUAACUUAUUACUUAUUGACUUAUGACUUAUUACAACAUAAUUCGCCUGCUGGCAAUAUUG
(((...(((((....((((((((.......(((((..(((((........)))))..)))))......)))).)))).....))).)).)))....... ( -21.42)
>DroSec_CAF1 40514 82 + 1
GCCCCUGCGGCUUACAUGUGUAAGCUAAAAAUAAACUGAUAAAU-----------------UGACUUAUUACAACAUAAUUCGCCUGCUGGCAAAAUUG
(((...(((((((((....)))))))..........((((((..-----------------....))))))...............)).)))....... ( -16.40)
>DroSim_CAF1 42507 82 + 1
GCCCCUGCGGCUUACAUGUGUAAGCUAAAAAUAAACUGAUAAAU-----------------UGACUUAUUACAACAUAAUUCGCCUGCUGGCAAAAUUG
(((...(((((((((....)))))))..........((((((..-----------------....))))))...............)).)))....... ( -16.40)
>DroEre_CAF1 40900 81 + 1
GCCCCUGCGGCUUACAUGUGUAAGCUAAAAAUAAACUGAUAAAU-----------------UGACUUAUUACAACAUAAUUUGCCUGCUGGCAA-ACUG
((....))(((((((....)))))))..........((((((..-----------------....))))))........((((((....)))))-)... ( -17.10)
>DroYak_CAF1 50027 81 + 1
GACCCUGCGGCUUACAUGUGUAAGCUAAAAAUAAACUGAUAAAU-----------------UGACUUAUUACAACAAAAUUUGCCUGCUGGCAA-GCUG
......(((((((((....)))))))..........((((((..-----------------....)))))).........(((((....)))))-)).. ( -17.60)
>consensus
GCCCCUGCGGCUUACAUGUGUAAGCUAAAAAUAAACUGAUAAAU_________________UGACUUAUUACAACAUAAUUCGCCUGCUGGCAA_AUUG
........(((((((....)))))))........................................................(((....)))....... (-12.88 = -13.08 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:01 2006