Locus 1355

Sequence ID 3R_DroMel_CAF1
Location 3,997,111 – 3,997,224
Length 113
Max. P 0.833488
window2224

overview

Window 4

Location 3,997,111 – 3,997,224
Length 113
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 93.13
Mean single sequence MFE -29.88
Consensus MFE -26.38
Energy contribution -26.62
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.77
Structure conservation index 0.88
SVM decision value 0.72
SVM RNA-class probability 0.833488
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3997111 113 + 27905053
CGGCGGCGCUGUUACACCUGCUCCAAAAUUGGAAAUUGUUUAAGCAUGCAGCGGUGGCAGCAACAACUAAGCAGCAACCAACAACCAA-------CAACGGGCCAUAAACUAUAACGGAU
....(((((((((((..((((((((....))))...(((....))).))))..)))))))).......................((..-------....)))))................ ( -30.40)
>DroSec_CAF1 2816 106 + 1
CGGCGGCGCUGUUACACCUGCUCCAAAAUUGGAAAUUGUUUAAGCAUGCAGCGUUGGCAGCAACAACUAAGCAGCAACC-------AA-------CAACGGGCCAUAAACUAUAACGGAU
....(((((((((....((((((((....))))...(((....))).)))).((((.......))))..))))))..((-------..-------....)))))................ ( -26.50)
>DroSim_CAF1 2857 113 + 1
CGGCGGCGCUGUUACACCUGCUCCAAAAUUGGAAAUUGUUUAAGCAUGCAGCGGUGGCAGCAACAACUAAGCAGCAACCAACAACCAA-------CAACGGGCCAUAAACUAUAACGGAU
....(((((((((((..((((((((....))))...(((....))).))))..)))))))).......................((..-------....)))))................ ( -30.40)
>DroYak_CAF1 2390 120 + 1
CGGCGGCGCUGUUACACCUGCUCCAAAAUUGGAAAUUGUUUAAGCAUGCAGCGGUGGCAGCAACAACUAAACAGCAACCAACAACCAACAACCGACAACGGGCCAUAAACUAUAACGGAU
....(((((((((((..((((((((....))))...(((....))).))))..))))))))..............................(((....))))))................ ( -32.20)
>consensus
CGGCGGCGCUGUUACACCUGCUCCAAAAUUGGAAAUUGUUUAAGCAUGCAGCGGUGGCAGCAACAACUAAGCAGCAACCAACAACCAA_______CAACGGGCCAUAAACUAUAACGGAU
....(((((((((((..((((((((....))))...(((....))).))))..))))))))................((....................)))))................ (-26.38 = -26.62 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:07:45 2006